Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 53 of 222
Found at i:15880657 original size:40 final size:40
Alignment explanation
Indices: 15880510--15880732 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
15880500 TCGAATGATG
* * * * *
15880510 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * * *
15880550 TCCGGACTAAGAT-CC-AAGGCATTTGTGTGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15880589 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15880628 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15880668 TCCGGGTTAAGTCCCGAAGGCATTTCTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15880709 -CCGGGTTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTT
15880733 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 50 0.32
40 103 0.65
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15887261 original size:56 final size:56
Alignment explanation
Indices: 15887196--15887315 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
15887186 ACAAGGGATG
15887196 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
15887252 ATGGGCAAAACATGTCATGAAATATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
15887308 ATGGGCAA
1 ATGGGCAA
15887316 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:15888671 original size:40 final size:40
Alignment explanation
Indices: 15888433--15888657 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
15888423 TCGAATGATG
* * * *
15888433 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
15888473 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15888513 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
15888552 TCCGGGTTAAGTCCCGAAGACATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
15888592 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
15888633 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15888658 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 33 0.20
40 117 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:15891746 original size:20 final size:20
Alignment explanation
Indices: 15891717--15891756 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15891707 TTCACCTCGT
* *
15891717 GCATCGCATCATATGCATTA
1 GCATCACATCATATACATTA
15891737 GCATCACATCATATACATTA
1 GCATCACATCATATACATTA
15891757 AAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATACATTA
Found at i:15893783 original size:36 final size:37
Alignment explanation
Indices: 15893735--15893812 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
15893725 TTATTACAAA
* * *
15893735 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
15893772 GTCTT-CCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
15893808 GTCTT
1 GTCTT
15893813 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:15894026 original size:47 final size:47
Alignment explanation
Indices: 15893931--15894429 Score: 667
Period size: 47 Copynumber: 10.4 Consensus size: 47
15893921 CCTTTCGGGA
* * * * * * * * *
15893931 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15893978 CTTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* *
15894025 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
15894072 CTTATCACACATATACACTTTCACATTCATCGCGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
15894119 CTTATCACACATATACACTTTCACATTCATCGCGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15894166 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15894213 CTTATCACACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15894264 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
*
15894315 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
15894364 CTTATTACATACATACACTTCCACATTCATCACATCGG-TCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCT-ATTAGGC
15894411 CTTATCACATATATACACT
1 CTTATCACATATATACACT
15894430 CTCTTGGCTG
Statistics
Matches: 421, Mismatches: 24, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
47 273 0.65
49 60 0.14
51 88 0.21
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:15894374 original size:43 final size:45
Alignment explanation
Indices: 15894275--15894415 Score: 201
Period size: 49 Copynumber: 3.0 Consensus size: 45
15894265 TTATCACATA
*
15894275 TATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 TATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTAT
*
15894320 CACATATACATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 ----TATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTAT
*
15894369 TACATACATACACTTCCACATTCATCACATCGGTCATTAGGCCTTAT
1 T--ATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTAT
15894416 CACATATATA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
45 1 0.01
47 42 0.48
49 45 0.51
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (45 bp):
TATACATACACTTCCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:15901342 original size:57 final size:57
Alignment explanation
Indices: 15901233--15901402 Score: 175
Period size: 57 Copynumber: 3.0 Consensus size: 57
15901223 TAAGTACTTG
* * * * * * * *
15901233 CCACAAATGCTTTCCTTT-CAGAGTCTCGCCATAAAGAC-GTCCTTTAAGAGGTTCA
1 CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
* * *
15901288 CCATAAAGGCTTA-CTCTTCCAGAGTTTTTCCACAAAGGTTATCCTTTAACAGGTTCA
1 CCACAAAGGCTTACCT-TTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
* * * *
15901345 CCACAAAGGCTTGCCTTTCTAGAGTTTTGCCACAAAGGCTATCCTTTCACAAGTTCA
1 CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
15901402 C
1 C
15901403 TGTAAACAGA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
54 2 0.02
55 12 0.13
56 14 0.15
57 63 0.68
58 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (57 bp):
CCACAAAGGCTTACCTTTCCAGAGTTTTGCCACAAAGGCTATCCTTTAACAGGTTCA
Found at i:15901399 original size:29 final size:28
Alignment explanation
Indices: 15901310--15901395 Score: 84
Period size: 29 Copynumber: 3.0 Consensus size: 28
15901300 ACTCTTCCAG
* * *
15901310 AGTTTTTCCACAAAGGTTATCCTTTAAC
1 AGTTTTACCACAAAGGCTATCCTTTCAC
* * *
15901338 AGGTTCACCACAAAGGCT-TGCCTTTCTAG
1 AGTTTTACCACAAAGGCTAT-CCTTTC-AC
*
15901367 AGTTTTGCCACAAAGGCTATCCTTTCAC
1 AGTTTTACCACAAAGGCTATCCTTTCAC
15901395 A
1 A
15901396 AGTTCACTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
27 1 0.02
28 21 0.47
29 22 0.49
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (28 bp):
AGTTTTACCACAAAGGCTATCCTTTCAC
Found at i:15903273 original size:57 final size:57
Alignment explanation
Indices: 15903160--15903292 Score: 158
Period size: 57 Copynumber: 2.3 Consensus size: 57
15903150 GTTACATTCA
* * ** * *
15903160 CCAAAAAGGCTTACCTTTCTAAAGTTTTGCCACAAAGGTTGTCCTTAAGTAGGTTCG
1 CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
* * * * *
15903217 CCACAAGGGCTTACCTTTCCAGAGTTTTGTCACAAAGGCTACCCTTTAGCAAGTTCG
1 CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
*
15903274 CTAAAAAGGCTTACCTTTC
1 CCAAAAAGGCTTACCTTTC
15903293 TTGGTGATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (57 bp):
CCAAAAAGGCTTACCTTTCCAAAGTTTTGCCACAAAGGCTACCCTTAAGCAAGTTCG
Found at i:15909365 original size:27 final size:26
Alignment explanation
Indices: 15909309--15909383 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 26
15909299 TTCTCATCCT
* * *
15909309 AATTTT-ACTCTAGTTAAATTTTGAC
1 AATTTTAACCCTAGTAAAATTTTAAC
* *
15909334 GATTTTACTCCCT-GATAAAATTTTAAC
1 AATTTTA-ACCCTAG-TAAAATTTTAAC
15909361 AATTTTAACCCTAGTAAAATTTT
1 AATTTTAACCCTAGTAAAATTTT
15909384 GAGAAAATTC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
25 5 0.13
26 14 0.36
27 20 0.51
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.44
Consensus pattern (26 bp):
AATTTTAACCCTAGTAAAATTTTAAC
Found at i:15912975 original size:126 final size:127
Alignment explanation
Indices: 15912729--15912975 Score: 406
Period size: 126 Copynumber: 2.0 Consensus size: 127
15912719 TGCTCATTTC
*
15912729 TGGTTATACTAAGTACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
1 TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
* * *
15912794 GACCCCGTAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
66 AACCACGCAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
* *
15912856 TGGTTATACTAAGGACATGTTTAGGTTTGTCTACTAATGTAAGTTGTCTTTCCATAC-ACGATCT
1 TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
* * *
15912920 AACCACGCAATACCACTTAGTATTAGTTAAACATTTAGACAACCAATAAGGAACAT
66 AACCACGCAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACAT
15912976 GTTCCTCCAT
Statistics
Matches: 111, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
126 57 0.51
127 54 0.49
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (127 bp):
TGGTTATACTAAGGACAGGTTTAGGTTTGTCTACTAATGCAAGTTGTCTTTCCATACTACGATCT
AACCACGCAATACCACTTAGTACTAGTTAAACATTTAGACAACAAATAAGCAACATTTTCTT
Found at i:15916590 original size:25 final size:25
Alignment explanation
Indices: 15916562--15916627 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
15916552 CATGTACATG
* *
15916562 TATGCTCATACGAGCTATGAATCAA
1 TATGCTCACACGAGCTATAAATCAA
**
15916587 TATGCTCACACGAGCTATAAATCGG
1 TATGCTCACACGAGCTATAAATCAA
15916612 TATGCTCACACGAGCT
1 TATGCTCACACGAGCT
15916628 GTAAGTTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (25 bp):
TATGCTCACACGAGCTATAAATCAA
Found at i:15922198 original size:43 final size:43
Alignment explanation
Indices: 15922137--15922225 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
15922127 GTACACAAGT
* ** *
15922137 TCTAGGGGTTTTTCGGCTCTTGTTCCTTTTTGATTAAAAGGTC
1 TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
*
15922180 TCTAGGGGTTTTTTGGCTCTCGTTCCTTTAGGATTAAAAGATC
1 TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
15922223 TCT
1 TCT
15922226 TAGTCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (43 bp):
TCTAGGGGTTTTTCGGCTCTCGTTCCTTTAGGATTAAAAGATC
Found at i:15924694 original size:23 final size:23
Alignment explanation
Indices: 15924651--15924695 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15924641 AATCACAATT
* *
15924651 ATATCATAAAAGATTATTAATAG
1 ATATCATAAAAGATGAGTAATAG
15924674 ATAT-ATAAAGAGATGAGTAATA
1 ATATCATAAA-AGATGAGTAATA
15924696 AAATAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.02, G:0.13, T:0.31
Consensus pattern (23 bp):
ATATCATAAAAGATGAGTAATAG
Found at i:15932289 original size:15 final size:13
Alignment explanation
Indices: 15932258--15932283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15932248 CTACAGGGGA
15932258 CACATGGTCGTGT
1 CACATGGTCGTGT
15932271 CACATGGTCGTGT
1 CACATGGTCGTGT
15932284 GTCACACATG
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:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
CACATGGTCGTGT
Found at i:15934974 original size:15 final size:16
Alignment explanation
Indices: 15934946--15934975 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15934936 CAACCATGCT
15934946 TTAACACAATATCAAA
1 TTAACACAATATCAAA
15934962 TTAACAC-ATATCAA
1 TTAACACAATATCAA
15934976 TAAGGCGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (16 bp):
TTAACACAATATCAAA
Found at i:15951551 original size:124 final size:124
Alignment explanation
Indices: 15951327--15951569 Score: 407
Period size: 124 Copynumber: 2.0 Consensus size: 124
15951317 AAGTACTTTG
* *
15951327 ATTCTCTGAGCAGAATACAAATAGTCATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCGTA
1 ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCATA
*
15951392 AGGATGTTTAGGTCACATAGGACTTTTCGGTTTGTAATGTTCTAAGGCTTAGGAATTTA
66 AGGATGTTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGAATTTA
**
15951451 ATTCTCTGATTAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGT-CTATTCATGCAT
1 ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCT-TTCATGCAT
* *
15951515 AAGGATGTTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTTTGAGGCTTAGGA
65 AAGGATGTTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGA
15951570 CAGGTATGGA
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
123 2 0.02
124 109 0.98
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (124 bp):
ATTCTCTGAGCAGAATACAAATAGTAATTTATGCGTATGTTTAGTATGATGTCCTTTCATGCATA
AGGATGTTTAGGTCACATAGGACTTTTCGGCTTGTAATGTTCTAAGGCTTAGGAATTTA
Found at i:15957639 original size:13 final size:13
Alignment explanation
Indices: 15957621--15957648 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15957611 ATAAAATTGG
15957621 AAAGATGATAAAT
1 AAAGATGATAAAT
15957634 AAAGATGATAAAT
1 AAAGATGATAAAT
15957647 AA
1 AA
15957649 TCAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:15958891 original size:24 final size:23
Alignment explanation
Indices: 15958779--15958891 Score: 118
Period size: 24 Copynumber: 4.7 Consensus size: 23
15958769 TTCTCGATTA
** *
15958779 ATGGCTCTTCGGAGCTACCCATT
1 ATGGCTCTTATGAGCTTCCCATT
**
15958802 ATTGGCTCGCATGAGCTTCCCATTT
1 A-TGGCTCTTATGAGCTTCCCA-TT
*
15958827 ATGGCTCTTATGAGCTACCCATT
1 ATGGCTCTTATGAGCTTCCCATT
**
15958850 ATTGGCTCGCATGAGCTTCCCATTT
1 A-TGGCTCTTATGAGCTTCCCA-TT
15958875 ATGGCTCTTATGAGCTT
1 ATGGCTCTTATGAGCTT
15958892 TCTATTATAA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.05
24 63 0.86
25 6 0.08
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (23 bp):
ATGGCTCTTATGAGCTTCCCATT
Found at i:15958899 original size:48 final size:48
Alignment explanation
Indices: 15958779--15958890 Score: 206
Period size: 48 Copynumber: 2.3 Consensus size: 48
15958769 TTCTCGATTA
**
15958779 ATGGCTCTTCGGAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
1 ATGGCTCTTATGAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
15958827 ATGGCTCTTATGAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
1 ATGGCTCTTATGAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
15958875 ATGGCTCTTATGAGCT
1 ATGGCTCTTATGAGCT
15958891 TTCTATTATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.35
Consensus pattern (48 bp):
ATGGCTCTTATGAGCTACCCATTATTGGCTCGCATGAGCTTCCCATTT
Found at i:15961187 original size:23 final size:22
Alignment explanation
Indices: 15961144--15961187 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
15961134 TTCTAAGTCG
15961144 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
15961167 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
15961188 TTAGTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:15961296 original size:45 final size:45
Alignment explanation
Indices: 15961232--15961325 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
15961222 AACATATACT
* *
15961232 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
15961277 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
15961322 CGGT
1 CGGT
15961326 TCACATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:15974536 original size:16 final size:17
Alignment explanation
Indices: 15974515--15974548 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15974505 TACACTATTT
*
15974515 AAAATA-ATATTTTTTA
1 AAAATATATATATTTTA
15974531 AAAATATATATATTTTA
1 AAAATATATATATTTTA
15974548 A
1 A
15974549 TTTTATCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATATATATATTTTA
Found at i:15980423 original size:22 final size:20
Alignment explanation
Indices: 15980409--15980447 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15980399 AAATAAATTT
*
15980409 ATAATTATA-TTTAAATAAA
1 ATAATAATAGTTTAAATAAA
15980428 ATAATAATAGTTTAAATAAA
1 ATAATAATAGTTTAAATAAA
15980448 GCAATTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAATAATAGTTTAAATAAA
Found at i:15980899 original size:35 final size:33
Alignment explanation
Indices: 15980837--15980905 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
15980827 GAGAGTAAAA
* *
15980837 TATTTTTCGTAAAATGATTTCTGGAAAATATTT
1 TATTTTTCGTAAAATAATTACTGGAAAATATTT
15980870 TATTTTTCTGTAAAATAATCTACTGGAAAATATTT
1 TATTTTTC-GTAAAATAAT-TACTGGAAAATATTT
15980905 T
1 T
15980906 TTGGTGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 8 0.25
34 9 0.28
35 15 0.47
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (33 bp):
TATTTTTCGTAAAATAATTACTGGAAAATATTT
Found at i:15993645 original size:40 final size:40
Alignment explanation
Indices: 15993462--15993631 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
15993452 TCCTCGTTCA
* * * * *
15993462 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
15993501 AATGCCTTCGGGACGTAACCCGGGTTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
15993541 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
15993581 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
15993621 AAGGCCTTCGG
1 AATGCCTTCGG
15993632 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16001553 original size:40 final size:40
Alignment explanation
Indices: 16001370--16001539 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
16001360 TCCTCGTTCA
* * * * *
16001370 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
16001409 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
16001449 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16001489 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16001529 AAGGCCTTCGG
1 AATGCCTTCGG
16001540 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16001576 original size:80 final size:79
Alignment explanation
Indices: 16001368--16001592 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 79
16001358 GCTCCTCGTT
* * * * * * *
16001368 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACGTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGG
16001432 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * * *
16001447 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGG
** *
16001512 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * ** * *
16001527 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCG
16001591 GA
64 GA
16001593 CCGCATTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 37 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:16003366 original size:12 final size:12
Alignment explanation
Indices: 16003329--16003379 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
16003319 ATTAGAATCT
16003329 TTACTTGCTT-C
1 TTACTTGCTTAC
* *
16003340 TTTACTTACTCAC
1 -TTACTTGCTTAC
*
16003353 TTACTTGTTTAC
1 TTACTTGCTTAC
16003365 TTACTTGCTTAC
1 TTACTTGCTTAC
16003377 TTA
1 TTA
16003380 AATAACTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 31 0.97
13 1 0.03
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.53
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:16003695 original size:50 final size:50
Alignment explanation
Indices: 16003628--16003870 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
16003618 TTTTCTGTAC
* * * * ** *
16003628 TGCCAATGCCATATCCCAGATATGATCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* **
16003678 TGCCCACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
16003728 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
16003778 TGCCAATGCCATGTCCCAGACATGGTCCTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
16003834 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
16003871 TCTCATTCCC
Statistics
Matches: 167, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 127 0.76
53 5 0.03
56 35 0.21
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16012960 original size:31 final size:32
Alignment explanation
Indices: 16012909--16012968 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
16012899 TACCAAAATG
16012909 TGTATTTAATTGAGCTCTTTGAA-TCATTATT
1 TGTATTTAATTGAGCTCTTTGAATTCATTATT
16012940 TGTATTTAATT-ATGAC-CTTTGAATTCATT
1 TGTATTTAATTGA-G-CTCTTTGAATTCATT
16012969 TTTTTGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 1 0.04
31 19 0.73
32 6 0.23
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.52
Consensus pattern (32 bp):
TGTATTTAATTGAGCTCTTTGAATTCATTATT
Found at i:16014680 original size:36 final size:37
Alignment explanation
Indices: 16014635--16014717 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
16014625 TAATAAATAT
16014635 CAAACAATTCCTCTTGAT-ATTGGCATTGATGAAGAA
1 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
16014671 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
1 CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
16014708 CAAACAATTC
1 CAAACAATTC
16014718 ATTCTTTGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 18 0.39
37 28 0.61
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (37 bp):
CAAACAATTCCTCTTGATAATTGGCATTGATGAAGAA
Found at i:16016045 original size:8 final size:8
Alignment explanation
Indices: 16016000--16016053 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
16015990 ATTTTTTTAG
16016000 AAAAATAT
1 AAAAATAT
16016008 AAAAGATAT
1 AAAA-ATAT
**
16016017 AAATTTAT
1 AAAAATAT
*
16016025 TAAAATAT
1 AAAAATAT
*
16016033 TAAAATAT
1 AAAAATAT
*
16016041 AAAAAAAT
1 AAAAATAT
16016049 AAAAA
1 AAAAA
16016054 AGCTAAAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 31 0.82
9 7 0.18
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (8 bp):
AAAAATAT
Found at i:16026198 original size:17 final size:17
Alignment explanation
Indices: 16026176--16026211 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
16026166 ATCCTAACCA
16026176 CCCACTAAC-CATCAAAT
1 CCCACTAACTCA-CAAAT
16026193 CCCACTAACTCACAAAT
1 CCCACTAACTCACAAAT
16026210 CC
1 CC
16026212 TTCAGACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (17 bp):
CCCACTAACTCACAAAT
Found at i:16033064 original size:20 final size:19
Alignment explanation
Indices: 16033041--16033141 Score: 114
Period size: 20 Copynumber: 5.1 Consensus size: 19
16033031 GAAGTATAGA
16033041 CAGAGGCACAATTA-TGCAAT
1 CAGAGGCACAA--AGTGCAAT
*
16033061 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCA-CAAAGTGCAAT
* *
16033081 CAGAGGCACAATTGTGTAAT
1 CAGAGGCACAA-AGTGCAAT
16033101 CAGAGGCACCAAAGTGCAAT
1 CAGAGGCA-CAAAGTGCAAT
16033121 CAGAGGCACCAAAGTGCAAT
1 CAGAGGCA-CAAAGTGCAAT
16033141 C
1 C
16033142 TCGTGCAAGC
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
19 4 0.06
20 61 0.86
21 6 0.08
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.14
Consensus pattern (19 bp):
CAGAGGCACAAAGTGCAAT
Found at i:16033084 original size:40 final size:40
Alignment explanation
Indices: 16033021--16033129 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
16033011 AGATGCGTAA
* ** *
16033021 CAGAGGCACCGAAGTATAGACAGAGGCACAATTATGCAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACAATTATGCAAT
* *
16033061 CAGAGGCACCAAAGTGCAAACAGAGGCACAATTGTGTAAT
1 CAGAGGCACCAAAGTGCAAACAGAGGCACAATTATGCAAT
*
16033101 CAGAGGCACCAAAGTGCAATCAGAGGCAC
1 CAGAGGCACCAAAGTGCAAACAGAGGCAC
16033130 CAAAGTGCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (40 bp):
CAGAGGCACCAAAGTGCAAACAGAGGCACAATTATGCAAT
Found at i:16035010 original size:44 final size:44
Alignment explanation
Indices: 16034930--16035014 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
16034920 AAAAAAATTG
* ** * *
16034930 AAAAGTTGCAAAATAAGGGTCACACGGCCGTGTGCCTCACATGT
1 AAAAGTTGCAAAACAAGGGTCACACAACCATCTGCCTCACATGT
* *
16034974 AAAATTTGCAAAACAGGGGTCACACAACCATCTGCCTCACA
1 AAAAGTTGCAAAACAAGGGTCACACAACCATCTGCCTCACA
16035015 CGGCTGAGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (44 bp):
AAAAGTTGCAAAACAAGGGTCACACAACCATCTGCCTCACATGT
Found at i:16043985 original size:27 final size:27
Alignment explanation
Indices: 16043944--16043995 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16043934 ATCATTAGGA
*
16043944 GGTAACTCACTAGAAGAGGAAGATTCG
1 GGTAACTCACCAGAAGAGGAAGATTCG
16043971 GGTAACTCACCAGAAGAGGAAGATT
1 GGTAACTCACCAGAAGAGGAAGATT
16043996 ATTTGCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.17
Consensus pattern (27 bp):
GGTAACTCACCAGAAGAGGAAGATTCG
Found at i:16044146 original size:20 final size:18
Alignment explanation
Indices: 16044101--16044164 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
16044091 TTTTGAATAG
* *
16044101 TAGTCTCCCCTTGAGCAA
1 TAGTTTCCCCTTGAACAA
16044119 TAGTTTCCCCTTGAACAA
1 TAGTTTCCCCTTGAACAA
*
16044137 TGATGTTT--CCTGGAACAA
1 T-A-GTTTCCCCTTGAACAA
*
16044155 TAGTCTCCCC
1 TAGTTTCCCC
16044165 CTAAATAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.08
17 1 0.03
18 29 0.76
19 1 0.03
20 4 0.11
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (18 bp):
TAGTTTCCCCTTGAACAA
Found at i:16061417 original size:28 final size:28
Alignment explanation
Indices: 16061352--16061530 Score: 270
Period size: 28 Copynumber: 6.4 Consensus size: 28
16061342 GAGATTGGCG
* * * *
16061352 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
16061381 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16061409 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16061437 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
16061465 CTAAGTGTGCAAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
16061493 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
16061520 CTGAGTGTGCG
1 CTAAGTGTGCG
16061531 GACTTAATAT
Statistics
Matches: 139, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
27 23 0.17
28 101 0.73
29 15 0.11
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:16065843 original size:20 final size:19
Alignment explanation
Indices: 16065816--16065857 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
16065806 ATTTCCAAAT
16065816 TTTCTTACTTT-CATATGCA
1 TTTCTTACTTTCCAT-TGCA
16065835 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
16065855 TTT
1 TTT
16065858 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 14 0.67
21 3 0.14
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:16091181 original size:28 final size:27
Alignment explanation
Indices: 16091141--16091195 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
16091131 TGCTACTTTG
*
16091141 TTTTAAACCCTTAACAACTTC-TAAACC
1 TTTTAAAACCTTAA-AACTTCTTAAACC
*
16091168 TTTTCAAAACCTTAAAATTTCTTAAACC
1 TTTT-AAAACCTTAAAACTTCTTAAACC
16091196 CTAAAAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.36
Consensus pattern (27 bp):
TTTTAAAACCTTAAAACTTCTTAAACC
Found at i:16095522 original size:29 final size:29
Alignment explanation
Indices: 16095401--16095756 Score: 142
Period size: 29 Copynumber: 12.4 Consensus size: 29
16095391 CATATAAATG
*
16095401 AGCCTTTGTGGCTATCTCTA--A-AAGGA
1 AGCCTTTGTGGCAATCTCTATTATAAGGA
* * * *
16095427 AGCTTTTGTGGCAATCTATTTTATAATGA
1 AGCCTTTGTGGCAATCTCTATTATAAGGA
* ** *
16095456 AGGCTTTGTGGTGATCTCTGTTATAA-GA
1 AGCCTTTGTGGCAATCTCTATTATAAGGA
*
16095484 ACGCCATTGTGGCAATCTCTATTATAAGGA
1 A-GCCTTTGTGGCAATCTCTATTATAAGGA
** *** *
16095514 TTCCTTTGTGGTGGTCT-TTTCTATAAGGA
1 AGCCTTTGTGGCAATCTCTAT-TATAAGGA
* * * * *
16095543 AGCCTATGTGACAAGCT-TGGTTATAAGGC
1 AGCCTTTGTGGCAATCTCT-ATTATAAGGA
* * * *
16095572 AGTCTTTGTGGCAATCTTTGTGA-AATGGA
1 AGCCTTTGTGGCAATCTCTATTATAA-GGA
* ** *
16095601 AGCCTTTGGGGTGATCTCTATTA-AATTGA
1 AGCCTTTGTGGCAATCTCTATTATAA-GGA
* ** * *
16095630 AGACTTTGTGGTGATCTTTGTTA-AATGGA
1 AGCCTTTGTGGCAATCTCTATTATAA-GGA
** *
16095659 AGCCTTTGTAACGATCTCTATTA-AATGGA
1 AGCCTTTGTGGCAATCTCTATTATAA-GGA
* ** *
16095688 AGCCTTTATGGTGATCTCTGTTA-AATGGA
1 AGCCTTTGTGGCAATCTCTATTATAA-GGA
** *
16095717 AGCCTTTGTGTAAATCACTATTA-AAGGA
1 AGCCTTTGTGGCAATCTCTATTATAAGGA
* *
16095745 TGCCTTCGTGGC
1 AGCCTTTGTGGC
16095757 GAGACTACGA
Statistics
Matches: 248, Mismatches: 73, Indels: 16
0.74 0.22 0.05
Matches are distributed among these distances:
26 16 0.06
28 19 0.08
29 209 0.84
30 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.37
Consensus pattern (29 bp):
AGCCTTTGTGGCAATCTCTATTATAAGGA
Found at i:16095725 original size:58 final size:58
Alignment explanation
Indices: 16095585--16095725 Score: 201
Period size: 58 Copynumber: 2.4 Consensus size: 58
16095575 CTTTGTGGCA
* **** * *
16095585 ATCTTTGTGAAATGGAAGCCTTTGGGGTGATCTCTATTAAATTGAAGACTTTGTGGTG
1 ATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGACTTTATGGTG
*
16095643 ATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGCCTTTATGGTG
1 ATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGACTTTATGGTG
*
16095701 ATCTCTGTTAAATGGAAGCCTTTGT
1 ATCTTTGTTAAATGGAAGCCTTTGT
16095726 GTAAATCACT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 74 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (58 bp):
ATCTTTGTTAAATGGAAGCCTTTGTAACGATCTCTATTAAATGGAAGACTTTATGGTG
Found at i:16095738 original size:58 final size:58
Alignment explanation
Indices: 16095585--16095750 Score: 196
Period size: 58 Copynumber: 2.9 Consensus size: 58
16095575 CTTTGTGGCA
* * * * * *
16095585 ATCTTTGTGAAATGGAAGCCTTTGGGGT-GATCTCTATTAAATTGAAGACTTTGTGGTG
1 ATCTTTGTTAAATGGAAGCCTTT-GTGTAAATCTCTATTAAATGGAAGCCTTTATGGTG
16095643 ATCTTTGTTAAATGGAAGCC-TT-TGTAACGATCTCTATTAAATGGAAGCCTTTATGGTG
1 ATCTTTGTTAAATGGAAGCCTTTGTGTAA--ATCTCTATTAAATGGAAGCCTTTATGGTG
* * *
16095701 ATCTCTGTTAAATGGAAGCCTTTGTGTAAATCACTATTAAA-GGATGCCTT
1 ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCTCTATTAAATGGAAGCCTT
16095751 CGTGGCGAGA
Statistics
Matches: 94, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
55 2 0.02
57 10 0.11
58 75 0.80
59 2 0.02
60 5 0.05
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (58 bp):
ATCTTTGTTAAATGGAAGCCTTTGTGTAAATCTCTATTAAATGGAAGCCTTTATGGTG
Found at i:16100173 original size:22 final size:22
Alignment explanation
Indices: 16100148--16100190 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
16100138 GGTTAGTTCC
* *
16100148 GGTGTTATTCAGGCTTAGTGCT
1 GGTGGTATTCAAGCTTAGTGCT
16100170 GGTGGTATTCAAGCTTAGTGC
1 GGTGGTATTCAAGCTTAGTGC
16100191 CTAGCAGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (22 bp):
GGTGGTATTCAAGCTTAGTGCT
Found at i:16100271 original size:38 final size:38
Alignment explanation
Indices: 16100158--16100280 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
16100148 GGTGTTATTC
** * * *
16100158 AGGCTTAGTGCTGGTGGTATTCAAGCTTAGTGCCTAGC
1 AGGCTTAGTGCCAGTGATATTCAGGCTTAGTGCCTAGT
* *
16100196 AGCCTTGGTGCCAGTGATATTCAGGCTTAGTGCCTAGT
1 AGGCTTAGTGCCAGTGATATTCAGGCTTAGTGCCTAGT
**
16100234 AGGCTTAGTGCC-GATTTTATTCAGGCTTAGTGCCTAGT
1 AGGCTTAGTGCCAG-TGATATTCAGGCTTAGTGCCTAGT
*
16100272 AGGATTAGT
1 AGGCTTAGT
16100281 ATTGGTGTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
37 1 0.01
38 71 0.99
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (38 bp):
AGGCTTAGTGCCAGTGATATTCAGGCTTAGTGCCTAGT
Found at i:16100300 original size:38 final size:38
Alignment explanation
Indices: 16100220--16100304 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
16100210 TGATATTCAG
* * * * *
16100220 GCTTAGTGCCTAGTAGGCTTAGTGCCGATTTTATTCAG
1 GCTTAGTGCCTAGTAGGATTAGTACCGATGTTATCCAA
** *
16100258 GCTTAGTGCCTAGTAGGATTAGTATTGGTGTTATCCAA
1 GCTTAGTGCCTAGTAGGATTAGTACCGATGTTATCCAA
16100296 GCTTAGTGC
1 GCTTAGTGC
16100305 TTAGCAGGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (38 bp):
GCTTAGTGCCTAGTAGGATTAGTACCGATGTTATCCAA
Found at i:16106600 original size:49 final size:49
Alignment explanation
Indices: 16106434--16106666 Score: 254
Period size: 49 Copynumber: 4.6 Consensus size: 49
16106424 CAATCTCGTA
* * * *
16106434 TAAGACCATGTCTGGGACATGGCATTGACATTGATATGTGA-G-CCATTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCA-TG
* * *
16106482 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAAATTATGAAAGGTCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGC---ACTG--A-GATGAGAGGTCCATG
*
16106537 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGTCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCATG
* * **
16106586 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGT-CCATG
* *
16106636 TAAGACCATGTCTGGGACATCGCATGGGCAC
1 TAAGACCATGTCTGGGACATGGCATTGGCAC
16106667 CAATATGAGA
Statistics
Matches: 163, Mismatches: 13, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
48 28 0.17
49 56 0.34
50 32 0.20
51 4 0.02
52 3 0.02
53 1 0.01
54 5 0.03
55 31 0.19
56 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCCATG
Found at i:16106691 original size:50 final size:50
Alignment explanation
Indices: 16106434--16106699 Score: 227
Period size: 50 Copynumber: 5.3 Consensus size: 50
16106424 CAATCTCGTA
* * ** * *
16106434 TAAGACCATGTCTGGGACATGGCATTGACATTGATATGTGA-G--CCATTG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA-TG
* ** * *
16106482 TAAGACCATGTCTGGGACATGGCATTGGCATTATTGAAATTATGAAAGGT-CCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGC---ACCG--A-GATGAGAGGTCCCATG
*
16106537 TAAGACCATGTCTGGGACATGGCGTTGGCACTGAGATGAGAGGT-CCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
**
16106586 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* * * * * **
16106636 TAAGACCATGTCTGGGACATCGCATGGGCACCAATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
* *
16106686 CAAGACCATATCTG
1 TAAGACCATGTCTG
16106700 AAATATGGCA
Statistics
Matches: 188, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
48 28 0.15
49 56 0.30
50 57 0.30
51 4 0.02
52 3 0.02
53 1 0.01
54 5 0.03
55 31 0.16
56 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATG
Found at i:16123533 original size:49 final size:49
Alignment explanation
Indices: 16123344--16123535 Score: 170
Period size: 49 Copynumber: 3.9 Consensus size: 49
16123334 CTAAACACCA
* * * * * * *
16123344 TTTGTGGACAAGCCACCACTAATTTGTAGATAATCTGCCA-TTGATAATAC
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTT-A-AACAT
* * ** * * **
16123394 TTTGTGGACAAGCCACCACAGATATGCAGATGTATTACCACAGAAACAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTTAAACAT
* * * *
16123443 TTTATGGACAAGCCACCACTGACATGCAAATATACTGCCACTTAAAGAT
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTTAAACAT
* *
16123492 TTTGTGGACAAGCCACCACTGATTTGCAAATAAACTTCCACTTA
1 TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTTA
16123536 CTTCCTCCTT
Statistics
Matches: 113, Mismatches: 28, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
49 81 0.72
50 32 0.28
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (49 bp):
TTTGTGGACAAGCCACCACTGATATGCAAATAAACTGCCACTTAAACAT
Found at i:16125603 original size:27 final size:26
Alignment explanation
Indices: 16125530--16125605 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
16125520 ATCTAGACCA
** *
16125530 AAATACACCCATAGGGTAAAATGGCTG
1 AAATAC-CCCATAGGGTAAAATAACCG
* * *
16125557 AAAAACCCCAATTGGATAAAATAACCG
1 AAATACCCC-ATAGGGTAAAATAACCG
16125584 AAATACCCGCATAGGGTAAAAT
1 AAATACCC-CATAGGGTAAAAT
16125606 GACTGTTATA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (26 bp):
AAATACCCCATAGGGTAAAATAACCG
Found at i:16140561 original size:67 final size:67
Alignment explanation
Indices: 16140490--16140702 Score: 171
Period size: 67 Copynumber: 3.1 Consensus size: 67
16140480 TCAAAATTAC
* *
16140490 TTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTA
1 TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
16140555 AA
66 AA
* * * ** * * * * * * * *
16140557 TTAATAT-ATTAATTATATTATTTCCAAAATAAAATTAATTTTCATGTC-TTTTATATTTTGAAC
1 TTAATATAATTATTTATATTA-AT---AAATTAGGTAAAATAT-AT-ACAATTAATATTTTGTAT
16140620 GAAATT-AA
60 G-AATTAAA
* * *
16140628 TTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCA
1 TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
16140693 AA
66 AA
*
16140695 TTCATATA
1 TTAATATA
16140703 TTCATTATAT
Statistics
Matches: 104, Mismatches: 32, Indels: 20
0.67 0.21 0.13
Matches are distributed among these distances:
66 15 0.14
67 31 0.30
68 9 0.09
70 9 0.09
71 24 0.23
72 16 0.15
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.46
Consensus pattern (67 bp):
TTAATATAATTATTTATATTAATAAATTAGGTAAAATATATACAATTAATATTTTGTATGAATTA
AA
Found at i:16140677 original size:138 final size:138
Alignment explanation
Indices: 16140429--16140851 Score: 643
Period size: 138 Copynumber: 3.1 Consensus size: 138
16140419 TACAAAAAGG
* * * *
16140429 AATTATATTCTTTCC-AAATGAAAAATAATTTCAATGTCTTTTATATTTTGATCAAAATTACTTA
1 AATTATATTATTTCCAAAAT-AAAATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTA
* * *
16140493 ATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATTAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
*
16140558 TAATATATT
130 TCATATATT
*
16140567 AATTATATTATTTCCAAAATAAAATTAATTTTC-ATGTCTTTTATATTTTGAACGAAATTAATTA
1 AATTATATTATTTCCAAAATAAAATTAA-TTTCAATGTCTTTTATATTTTGAACAAAATTAATTA
*
16140631 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
16140696 TCATATATT
130 TCATATATT
* * * * *
16140705 CATTATATTTTTTCCAAAAAAAATATTAATTTCAATTTCTTTTATATTTTGACCAAAATTAATTA
1 AATTATATTATTTCCAAAATAAA-ATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTA
* **
16140770 ATATAACAGTTTATATTAATAAATTCATTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 ATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
16140835 TCATATATT
130 TCATATATT
16140844 AATTATAT
1 AATTATAT
16140852 CTATGTTCTC
Statistics
Matches: 260, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
138 142 0.55
139 118 0.45
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (138 bp):
AATTATATTATTTCCAAAATAAAATTAATTTCAATGTCTTTTATATTTTGAACAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:16140696 original size:71 final size:70
Alignment explanation
Indices: 16140483--16140696 Score: 162
Period size: 71 Copynumber: 3.1 Consensus size: 70
16140473 ATTTTGATCA
* *
16140483 AAATTACTTAATATAACTATTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTA
1 AAATTAATTAATATAATTATTTATATTAATAAA-TTGGTAAAATATATACAATTAATATTTTGTA
*
16140548 TGAATT
65 TGAATC
* * * * **
16140554 AAATTAA-T-ATATTAATTATATTAT-TTCCA-AAA----TAAAATTAATTTTCATGTCTTTTAT
1 AAATTAATTAATA-TAATTAT-TTATATT-AATAAATTGGTAAAA-T-ATATACA-AT-TAATAT
*
16140611 ATT-T-TGAA-C
59 TTTGTATGAATC
*
16140620 GAAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGT
1 -AAATTAATTAATATAATTATTTATATTAATAAATT-GGTAAAATATATACAATTAATATTTTGT
16140685 ATGAATC
64 ATGAATC
16140692 AAATT
1 AAATT
16140697 CATATATTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 40
0.64 0.11 0.25
Matches are distributed among these distances:
65 5 0.05
66 1 0.01
67 21 0.20
68 14 0.13
69 18 0.17
70 14 0.13
71 25 0.24
72 2 0.02
73 5 0.05
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (70 bp):
AAATTAATTAATATAATTATTTATATTAATAAATTGGTAAAATATATACAATTAATATTTTGTAT
GAATC
Found at i:16146437 original size:39 final size:39
Alignment explanation
Indices: 16146389--16146682 Score: 261
Period size: 39 Copynumber: 7.5 Consensus size: 39
16146379 TATAATTATA
* * * *
16146389 TCCTGATTGCACGTACGTGCCCTTATTGTACTTCGGTAG
1 TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * **
16146428 TCCTAATTGCATATACGTGCCCCTGCCGTACTTCGGTAC
1 TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
* *
16146467 TCCTGATCGCACATACGTGCCCCTGTTGTACTCCGGTA-
1 TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
** * **
16146505 TCCCTGATCCCACATACGTGCCCCTGTAGTACTTCAATAC
1 T-CCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
*** * **
16146545 TCCTGATCATACATATGTGCCCCTGTCCTACTTCGGTAC
1 TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * * *
16146584 -CCTTAATCT-CACATACGTGCCCTTATTGTACTTTGGTAC
1 TCC-TGAT-TGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
16146623 TCTTGATCGCACATATGTGCCCCTGTTGTACTTCGGTAC
1 TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
* * *
16146662 CCCTGACTGCACTTACGTGCC
1 TCCTGATTGCACATACGTGCC
16146683 TTGTTTACAT
Statistics
Matches: 201, Mismatches: 48, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
38 3 0.01
39 196 0.98
40 2 0.01
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (39 bp):
TCCTGATTGCACATACGTGCCCCTGTTGTACTTCGGTAC
Found at i:16146522 original size:78 final size:78
Alignment explanation
Indices: 16146389--16146665 Score: 288
Period size: 78 Copynumber: 3.6 Consensus size: 78
16146379 TATAATTATA
* * * * ** *
16146389 TCCTGATTGCACGTACGTGCCCTTATTGTACTTCGGTAGT-CCTAATTGCATATACGTGCCCCTG
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTA-TCCCTAATCCCACATACGTGCCCCTG
**
16146453 CCGTACTTCGGTAC
65 TAGTACTTCGGTAC
* *
16146467 TCCTGATCGCACATACGTGCCCCTGTTGTACTCCGGTATCCCTGATCCCACATACGTGCCCCTGT
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTATCCCTAATCCCACATACGTGCCCCTGT
**
16146532 AGTACTTCAATAC
66 AGTACTTCGGTAC
** * ** * * *
16146545 TCCTGATCATACATATGTGCCCCTGTCCTACTTCGGTA-CCCTTAATCTCACATACGTGCCCTTA
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTATCCC-TAATCCCACATACGTGCCCCTG
* *
16146609 TTGTACTTTGGTAC
65 TAGTACTTCGGTAC
* * *
16146623 TCTTGATCGCACATATGTGCCCCTGTTGTACTTCGGTACCCCT
1 TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTATCCCT
16146666 GACTGCACTT
Statistics
Matches: 164, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
77 4 0.02
78 157 0.96
79 3 0.02
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (78 bp):
TCCTGATCGCACATACGTGCCCCTGTTGTACTTCGGTATCCCTAATCCCACATACGTGCCCCTGT
AGTACTTCGGTAC
Found at i:16146597 original size:117 final size:117
Alignment explanation
Indices: 16146444--16146656 Score: 288
Period size: 117 Copynumber: 1.8 Consensus size: 117
16146434 TTGCATATAC
* *
16146444 GTGCCCCTGCCGTACTTCGGTACTCCTGATCGCACATACGTGCCCCTGTTGTACTCCGGTA-TCC
1 GTGCCCCTGCCGTACTTCGGTACTCCTAATCGCACATACGTGCCCCTATTGTACTCCGGTACT-C
16146508 CTGATCCCACATACGTGCCCCTGTAGTACTTCAATACTCCTGATCATACATAT
65 CTGATCCCACATACGTGCCCCTGTAGTACTTCAATACTCCTGATCATACATAT
* * **
16146561 GTGCCCCTGTCC-TACTTCGGTAC-CCTTAATCTCACATACGTGCCCTTATTGTACTTTGGTACT
1 GTGCCCCTG-CCGTACTTCGGTACTCC-TAATCGCACATACGTGCCCCTATTGTACTCCGGTACT
* * * *
16146624 CTTGATCGCACATATGTGCCCCTGTTGTACTTC
64 CCTGATCCCACATACGTGCCCCTGTAGTACTTC
16146657 GGTACCCCTG
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 2 0.02
117 78 0.94
118 3 0.04
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.32
Consensus pattern (117 bp):
GTGCCCCTGCCGTACTTCGGTACTCCTAATCGCACATACGTGCCCCTATTGTACTCCGGTACTCC
TGATCCCACATACGTGCCCCTGTAGTACTTCAATACTCCTGATCATACATAT
Found at i:16164507 original size:16 final size:17
Alignment explanation
Indices: 16164486--16164520 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16164476 TCGGTACTTA
16164486 TTTTG-AAATTTTAAAT
1 TTTTGAAAATTTTAAAT
*
16164502 TTTTGAAAATTTTCAAT
1 TTTTGAAAATTTTAAAT
16164519 TT
1 TT
16164521 GGCCCTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTTGAAAATTTTAAAT
Found at i:16180653 original size:22 final size:22
Alignment explanation
Indices: 16180625--16180683 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
16180615 TGATAAAGGT
**
16180625 GATATCGTGATACCCGGAAGAG
1 GATATCGTGATACCAAGAAGAG
16180647 GATATCGTGATACCAAGAAGAG
1 GATATCGTGATACCAAGAAGAG
*
16180669 GATATCGCGATACCA
1 GATATCGTGATACCA
16180684 CTGAAGGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (22 bp):
GATATCGTGATACCAAGAAGAG
Found at i:16181316 original size:85 final size:86
Alignment explanation
Indices: 16181162--16181330 Score: 216
Period size: 85 Copynumber: 2.0 Consensus size: 86
16181152 AGATAAAAAC
* * * * * * *
16181162 ATTTGTAATTACTGCCACTTGTTGTGAGTGCACAACATGGTTGCAGATTAAATAAATTGTC-GTT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
*
16181226 GGGTTTGTGGACGAGCCACAT
66 GGTTTTGTGGACGAGCCACAT
* *
16181247 ATTTGTAGTTACTATCACTTGTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCACT
1 ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATT-GCAGATTAAACAAACTGCCACT
*
16181311 AGGTTTTGTGGATGAGCCAC
65 AGGTTTTGTGGACGAGCCAC
16181331 CACTTCTTTG
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
84 2 0.03
85 51 0.72
86 18 0.25
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.33
Consensus pattern (86 bp):
ATTTGTAATTACTACCACTTGTTGTGAGTGCACAACATGATTGCAGATTAAACAAACTGCCACTA
GGTTTTGTGGACGAGCCACAT
Found at i:16184665 original size:12 final size:11
Alignment explanation
Indices: 16184648--16184704 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
16184638 AACAAATCCT
16184648 CTCTCATATTTC
1 CTCTCA-ATTTC
16184660 CTCTCAA-TTC
1 CTCTCAATTTC
16184670 CTCTCAATTTC
1 CTCTCAATTTC
*
16184681 CT-TCCAAAATT-
1 CTCT-C-AATTTC
16184692 CTCTCAATTTC
1 CTCTCAATTTC
16184703 CT
1 CT
16184705 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:16184695 original size:22 final size:22
Alignment explanation
Indices: 16184665--16184720 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
16184655 ATTTCCTCTC
16184665 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
16184688 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
16184710 AATTCTCTCAA
1 AATTCTCTCAA
16184721 ATCCATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:16185812 original size:7 final size:7
Alignment explanation
Indices: 16185802--16185826 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16185792 ATTCGATTGA
16185802 TATTTAG
1 TATTTAG
16185809 TATTTAG
1 TATTTAG
16185816 TATTTAG
1 TATTTAG
16185823 TATT
1 TATT
16185827 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:16186501 original size:18 final size:18
Alignment explanation
Indices: 16186475--16186509 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16186465 AGGTGCGTTT
*
16186475 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
16186493 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
16186510 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:16186980 original size:43 final size:45
Alignment explanation
Indices: 16186931--16187111 Score: 152
Period size: 45 Copynumber: 4.0 Consensus size: 45
16186921 AAATTTTGAA
*
16186931 TATTTTGATATTATTTTATG-AAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
16186974 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGATGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA-GT
*** * * * ***
16187020 AATAAAATAAAAGTTTATTTGATGTAATAAAATA-AAAAAAATTTCGAGT
1 --TATTTTGATA--TTATTTGATGTAAAAAAATAGAAATTTATTT-GAGT
* * *
16187069 TATTTTGATTTTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
16187112 TGTAATAAAA
Statistics
Matches: 107, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
43 19 0.18
44 14 0.13
45 27 0.25
46 8 0.07
47 4 0.04
48 5 0.05
49 8 0.07
50 22 0.21
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:16187018 original size:25 final size:25
Alignment explanation
Indices: 16186984--16187121 Score: 144
Period size: 25 Copynumber: 5.7 Consensus size: 25
16186974 TATTTTGATA
16186984 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
16187009 TTATTTGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAGAAGT
**
16187034 TTATTTGATGTAATAAAATA-AAAA
1 TTATTTGATGTAATAAAATAGAAGT
** ** * *
16187058 AAATTTCGA-GT--T-ATTTTG-ATT
1 TTATTT-GATGTAATAAAATAGAAGT
16187079 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
16187104 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
16187122 ACCCTAACCT
Statistics
Matches: 90, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 1 0.01
23 1 0.01
24 11 0.12
25 66 0.73
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:16187154 original size:29 final size:29
Alignment explanation
Indices: 16187121--16187854 Score: 627
Period size: 29 Copynumber: 26.2 Consensus size: 29
16187111 ATGTAATAAA
16187121 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187150 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187179 AATCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
16187208 AACCCTAACCTAATTTAACTAAAAACCAT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
16187237 AACCCCTAACCTAAATTAACTAAAAACCCT
1 AA-CCCTAACCTAATTTAATTAAAAACCCT
* *
16187267 AACCTCTAACCTAATTTAATGACAAACCCT
1 AACC-CTAACCTAATTTAATTAAAAACCCT
16187297 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187326 AACCCTAACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187355 AACCCCTAACCTAATTTAATTACAAACCCT
1 AA-CCCTAACCTAATTTAATTAAAAACCCT
*
16187385 AACCTTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187414 -A----AA-CT--CTTAACTTAAAAACCCT
1 AACCCTAACCTAATTTAA-TTAAAAACCCT
16187436 AA------CCTAATTTAATTAAAAA-CC-
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187457 --C--TAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
16187482 AATCCTAAGCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
16187511 AAACCCT----T-A---ACTTAAAAACTCT
1 -AACCCTAACCTAATTTAATTAAAAACCCT
**
16187533 AACATTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187562 AA--C---CC-AATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187585 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187614 AAACCCT----T-A---ACTTAAAAACCCT
1 -AACCCTAACCTAATTTAATTAAAAACCCT
** *
16187636 AACATTGACCTAATTTAATT--AAA----
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187659 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
16187688 AAACCCTTAA-CT--TTAAATTAAAAACCCT
1 -AACCC-TAACCTAATTTAATTAAAAACCCT
16187716 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* * **
16187745 AAACCCTTAACTTAAAAATCCTAACCTTAACCTAATTTA-ATT
1 -AACCC-TAACCT---AAT-TTAA--TTAA---AA---ACCCT
*
16187787 AAAAACCCTAACCTAATTTAATTAAAAGCCCT
1 ---AACCCTAACCTAATTTAATTAAAAACCCT
16187819 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
16187848 AAACCCT
1 -AACCCT
16187855 TAACTTAAAA
Statistics
Matches: 586, Mismatches: 48, Indels: 141
0.76 0.06 0.18
Matches are distributed among these distances:
21 12 0.02
22 38 0.06
23 64 0.11
24 10 0.02
25 8 0.01
26 7 0.01
27 10 0.02
28 18 0.03
29 265 0.45
30 108 0.18
31 8 0.01
32 1 0.00
34 5 0.01
35 3 0.01
37 8 0.01
39 3 0.01
40 5 0.01
42 1 0.00
43 6 0.01
44 6 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:16187303 original size:59 final size:58
Alignment explanation
Indices: 16187121--16187854 Score: 628
Period size: 59 Copynumber: 13.6 Consensus size: 58
16187111 ATGTAATAAA
16187121 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * *
16187179 AATCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * * *
16187237 AACCCCTAACCTAAATTAACTAAAAACCCTAACCTCTAACCTAATTTAATGACAAACCCT
1 AA-CCCTAACCTAATTTAATTAAAAACCCTAACC-CTAACCTAATTTAATTAAAAACCCT
*
16187297 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAACACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
16187355 AACCCCTAACCTAATTTAATTACAAACCCTAACCTTAACCTAATTTAATTAAAAACCCT
1 AA-CCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
16187414 -A----AA-CT--CTTAACTTAAAAACCCTAA------CCTAATTTAATT--AAA----
1 AACCCTAACCTAATTTAA-TTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
16187453 AACCCTAACCTAATTTAATTAAAAACCCTAATCCTAAGCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * **
16187511 AAACCCT----T-A---ACTTAAAAACTCTAACATTAACCTAATTTAATTAAAAACCCT
1 -AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
16187562 AA--C---CC-AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* ** *
16187614 AAACCCT----T-A---ACTTAAAAACCCTAACATTGACCTAATTTAATT--AAA----
1 -AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
16187659 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-CT--TTAAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCC-TAACCTAATTTAATTAAAAACCCT
* * *** *
16187716 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAA---AAATCCTAACCTT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCC-TAACCTAATTTAATTAAAAACCCT
** *
16187773 AA-CCTAATTTAA-TT------AAA----AACCCTAACCTAATTTAATTAAAAGCCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
16187819 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT-AACCCT
16187855 TAACTTAAAA
Statistics
Matches: 547, Mismatches: 58, Indels: 141
0.73 0.08 0.19
Matches are distributed among these distances:
40 1 0.00
43 10 0.02
44 13 0.02
45 14 0.03
46 22 0.04
47 12 0.02
48 4 0.01
49 8 0.01
50 6 0.01
51 83 0.15
52 63 0.12
53 12 0.02
54 10 0.02
55 4 0.01
56 8 0.01
57 49 0.09
58 83 0.15
59 122 0.22
60 23 0.04
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (58 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:16187330 original size:118 final size:118
Alignment explanation
Indices: 16187123--16187854 Score: 615
Period size: 103 Copynumber: 6.8 Consensus size: 118
16187113 GTAATAAAAA
*
16187123 CCCTAACCTAATTTAATTAAAAACCCTAACC-CTAACCTAATTTAATTAAAAACCCTAATCCTAA
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
16187187 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
66 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
* * * *
16187240 CCCTAACCTAAATTAACTAAAAACCCTAACCTCTAACCTAATTTAATGACAAACCCTAACCCTAA
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* * *
16187305 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAACACCCTAAC
66 CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
*
16187358 CCCTAACCTAATTTAATTACAAACCCTAACCT-TAACCTAATTTAATTAAAAACCCT-A----AA
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
* *
16187417 -CT--CTTAACTTAAAAACCCT-A----A-CCTAATTTAA-T--TAA--A-AA-
66 CCTAATTTAA-TTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
* *
16187455 CCCTAACCTAATTTAATTAAAAACCCTAATC-CTAAGCTAATTTAATTAAAAACCCTAAACCCT-
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCT-AACCCTA
* * ** *
16187518 ---T-A---ACTTAAAAACTCTAACATTAACCTAATTTAA-T--TAA--A-AA-
65 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
*
16187558 CCCTAACCCAATTTAATTAAAAACCCTAACC-CTAACCTAATTTAATTAAAAACCCTAAACCCT-
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCT-AACCCTA
* ** * *
16187621 ---T-A---ACTTAAAAACCCTAACATTGACCTAATTTAA-T--TAA--A-AA-
65 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
*
16187661 CCCTAACCTAATTTAATTAAAAACCCTAAACC-CTTAA-CT--TTAAATTAAAAACCCTAACCCT
1 CCCTAACCTAATTTAATTAAAAACCCT-AACCTC-TAACCTAATTTAATTAAAAACCCTAACCCT
* *
16187722 AACCTAATTTAATTAAAAACCCTAAACCCT----TAACTT-A--AAAATCC-TAA-
64 AACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAACTAAAAACCATAAC
* *
16187769 CCTTAACCTAATTTAATT--AAA----AACC-CTAACCTAATTTAATTAAAAGCCCTAACCCTAA
1 CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
16187827 CCTAATTTAATTAAAAACCCTAAACCCT
66 CCTAATTTAATTAAAAACCCT-AACCCT
16187855 TAACTTAAAA
Statistics
Matches: 542, Mismatches: 38, Indels: 84
0.82 0.06 0.13
Matches are distributed among these distances:
97 62 0.11
98 4 0.01
99 1 0.00
100 4 0.01
101 14 0.03
102 16 0.03
103 192 0.35
104 17 0.03
105 6 0.01
106 10 0.02
108 19 0.04
109 17 0.03
110 15 0.03
111 2 0.00
112 2 0.00
116 1 0.00
117 51 0.09
118 109 0.20
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.28
Consensus pattern (118 bp):
CCCTAACCTAATTTAATTAAAAACCCTAACCTCTAACCTAATTTAATTAAAAACCCTAACCCTAA
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAACTAAAAACCATAAC
Found at i:16187451 original size:28 final size:23
Alignment explanation
Indices: 16187358--16187874 Score: 313
Period size: 23 Copynumber: 20.4 Consensus size: 23
16187348 ACACCCTAAC
16187358 CCCTAACCTAATTTAATTACAAACCCTAA
1 CCCTAACCTAATTTAATT--AAA----AA
*
16187387 CCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
* *
16187410 CCCTAAACT--CTTAACTTAAAAA
1 CCCTAACCTAATTTAA-TTAAAAA
16187432 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
16187455 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
16187478 CCCTAATCCTAAGCTAATTTAATTAAAAA
1 CCCTAA--C----CTAATTTAATTAAAAA
*
16187507 CCCTAAACC---CTTAACTTAAAAA
1 CCCT-AACCTAATTTAA-TTAAAAA
16187529 CTCTAACATTAACCTAATTTAATTAAAAA
1 C-C---C--TAACCTAATTTAATTAAAAA
*
16187558 CCCTAACCCAATTTAATTAAAAACCCTAA
1 CCCTAACCTAATTTAATT--AAA----AA
16187587 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
*
16187610 CCCTAAACC---CTTAACTTAAAAA
1 CCCT-AACCTAATTTAA-TTAAAAA
16187632 CCCTAACATTGACCTAATTTAATTAAAAA
1 CCCT---A---ACCTAATTTAATTAAAAA
16187661 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
16187684 CCCTAAACCCTTAACTTTAAATTAAAAACCCTAA
1 CCCT-AA-CC-TAA-TTT-AATT--AAA----AA
16187718 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
*
16187741 CCCTAAACCCTTAACTTAA--AAATCCTAA
1 CCCT-AA-CC-TAATTTAATTAAA----AA
*
16187769 CCTTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
16187792 CCCTAACCTAATTTAATTAAAAGCCCTAA
1 CCCTAACCTAATTTAATT-AAA-----AA
16187821 CCCTAACCTAATTTAATTAAAAA
1 CCCTAACCTAATTTAATTAAAAA
*
16187844 CCCTAAACC---CTTAACTTAAAAA
1 CCCT-AACCTAATTTAA-TTAAAAA
16187866 CCCTAACCT
1 CCCTAACCT
16187875 TAACGTAATG
Statistics
Matches: 405, Mismatches: 18, Indels: 137
0.72 0.03 0.24
Matches are distributed among these distances:
21 20 0.05
22 45 0.11
23 119 0.29
24 24 0.06
25 16 0.04
26 14 0.03
27 24 0.06
28 15 0.04
29 99 0.24
30 16 0.04
31 3 0.01
32 2 0.00
33 2 0.00
34 6 0.01
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.29
Consensus pattern (23 bp):
CCCTAACCTAATTTAATTAAAAA
Found at i:16187546 original size:51 final size:49
Alignment explanation
Indices: 16187370--16187721 Score: 350
Period size: 51 Copynumber: 7.0 Consensus size: 49
16187360 CTAACCTAAT
* *
16187370 TTAATTACAAACCCTAACCTTAACCTAATTTAATTAAAAACCCTAAACTC
1 TTAATTAAAAACCCTAA-CTTAACCTAATTTAATTAAAAACCCTAAACCC
*
16187420 TTAACTTAAAAA-CC---C-TAACCTAATTTAATTAAAAACCCT-AACCTAAT
1 TTAA-TTAAAAACCCTAACTTAACCTAATTTAATTAAAAACCCTAAACC---C
* *
16187467 TTAATTAAAAACCCTAATCCTAAGCTAATTTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCTAA-CTTAACCTAATTTAATTAAAAACCCTAAACCC
*
16187517 TTAACTTAAAAACTCTAACATTAACCTAATTTAATTAAAAACCCT-AACCC
1 TTAA-TTAAAAACCCTAAC-TTAACCTAATTTAATTAAAAACCCTAAACCC
*
16187567 AATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 ---TTAATTAAAAACCCTAA-CTTAACCTAATTTAATTAAAAACCCTAAACCC
* *
16187620 TTAACTTAAAAACCCTAACATTGACCTAATTTAATTAAAAACCCT-AACCTAAT
1 TTAA-TTAAAAACCCTAAC-TTAACCTAATTTAATTAAAAACCCTAAACC---C
*
16187673 TTAATTAAAAACCCTAAACCCTTAA-CT--TTAAATTAAAAACCCT-AACCC
1 TTAATTAAAAACCCT-AA--CTTAACCTAATTTAATTAAAAACCCTAAACCC
16187721 T
1 T
16187722 AACCTAATTT
Statistics
Matches: 260, Mismatches: 16, Indels: 54
0.79 0.05 0.16
Matches are distributed among these distances:
44 3 0.01
45 24 0.09
46 8 0.03
47 6 0.02
48 1 0.00
50 25 0.10
51 97 0.37
52 70 0.27
53 22 0.08
54 3 0.01
55 1 0.00
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.29
Consensus pattern (49 bp):
TTAATTAAAAACCCTAACTTAACCTAATTTAATTAAAAACCCTAAACCC
Found at i:16187555 original size:80 final size:77
Alignment explanation
Indices: 16187458--16187824 Score: 313
Period size: 80 Copynumber: 4.8 Consensus size: 77
16187448 TTAAAAACCC
*
16187458 TAACCTAATTTAATTAAAAACCCTAATCCTAAGCTAATTTAATTAAAAACCCTAAACCCTTAACT
1 TAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCT-AACCCTTAACT
16187523 TAAAAACTCTAACAT
64 TAAAAA-TCTAACAT
*
16187538 TAACCTAATTTAATTAAAAACCCTAA-C---CC-AATTTAATTAAAAACCCTAACCC-TAACCTA
1 TAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTTAACTTA
*
16187597 ATTTAAT-TAA-A-
66 A--AAATCTAACAT
* * *
16187608 -AACCCTAAACCCTTAACTTAAAAACCCTAACATTGACCTAATTTAATTAAAAACCCTAACCTAA
1 TAA-CCT-AA--TTTAA-TTAAAAACCCTAAC-CTAACCTAATTTAATTAAAAACCCTAACC---
* * *
16187672 TTTAA-TTAAAAACCCTAAACCCT
57 CTTAACTTAAAAA-TCT-AA-CAT
*
16187695 TAA-CT--TTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACT
1 TAACCTAATTTAATTAAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCT-AACCCTTAACT
*
16187757 TAAAAATCCTAACCT
64 TAAAAAT-CTAACAT
*
16187772 TAACCTAATTTAATTAAAAA--C---CCTAACCTAATTTAATTAAAAGCCCTAACCCT
1 TAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCT
16187825 AACCTAATTT
Statistics
Matches: 238, Mismatches: 18, Indels: 69
0.73 0.06 0.21
Matches are distributed among these distances:
69 2 0.01
70 3 0.01
71 3 0.01
72 10 0.04
73 16 0.07
74 58 0.24
75 1 0.00
77 6 0.03
78 10 0.04
79 11 0.05
80 95 0.40
81 10 0.04
83 4 0.02
84 5 0.02
86 2 0.01
88 2 0.01
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.29
Consensus pattern (77 bp):
TAACCTAATTTAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTTAACTTA
AAAATCTAACAT
Found at i:16187741 original size:131 final size:128
Alignment explanation
Indices: 16187117--16187854 Score: 646
Period size: 131 Copynumber: 5.5 Consensus size: 128
16187107 TTTGATGTAA
*
16187117 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAT
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA-C---TTTAATTAAAAACCCTAAC
* * **
16187182 CCTAACCTAATTTAATTAAAAACCCT-AACCCTAACCTAATTTAACTAAAAACCATAACCCCTAA
62 CCTAACCTAATTTAATTAAAAACCCTAAACCCT----TAA-CT---TAAAAACCCTAA-CATTAA
*
16187246 CCTAAATTAACT
118 CCTAATTTAA-T
* * *
16187258 AAAAACCCTAACCTCTAACCTAATTTAATGACAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 -TAAA----AACC-CTAACCTAATTTAATTAAAAACCCTAACCCTAA-C---TTTAATTAAAAAC
* * *
16187323 CCTAACCCTAACCTAATTTAATTAAACACCCTAACCCCTAACCTAATTTAATTACAAACCCTAAC
56 CCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCT----TAACTT-A--A-AAACCCTAAC
*
16187388 CTTAACCTAATTTAAT
113 ATTAACCTAATTTAAT
* *
16187404 TAAAAACCCTAAACT--CTTAACTTAAAAACCCTAA-CCTAA-TTTAATT--AAA----AACCCT
1 TAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACCCTAACTTTAATTAAAAACCCTAACCCT
* * *
16187459 AACCTAATTTAATTAAAAACCCTAATCCTAAGCTAATTTAA-TTAAAAACCCTAAACCCTTAACT
65 AACCTAATTTAATTAAAAACCCTAAACC----C----TTAACTTAAAAACCCT-AA-CATTAACC
* *
16187523 TAA--AAAC
120 TAATTTAAT
** **
16187530 T-CTAACATTAACCTAATTTAATTAAAAACCCTAACCC-AA-TTTAATTAAAAACCCTAACCCTA
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTTAATTAAAAACCCTAACCCTA
*
16187592 ACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACATTGACCTAATTTAAT
66 ACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACATTAACCTAATTTAAT
16187655 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTTAAATTAAAAACCCTAACC
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCC-TAACTTT-AATTAAAAACCCTAACC
* *
16187720 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAATCCTAACCTTAACCTAATTTAA
63 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACATTAACCTAATTTAA
16187785 T
128 T
*
16187786 TAAAAACCCTAACCTAATTTAATTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA
1 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAA-C---TTTAATTAAAAACCCT-AA
16187851 CCCT
61 CCCT
16187855 TAACTTAAAA
Statistics
Matches: 513, Mismatches: 39, Indels: 97
0.79 0.06 0.15
Matches are distributed among these distances:
123 8 0.02
124 6 0.01
125 22 0.04
126 59 0.12
127 46 0.09
128 14 0.03
129 6 0.01
130 11 0.02
131 119 0.23
132 46 0.09
133 16 0.03
135 1 0.00
138 9 0.02
139 11 0.02
140 6 0.01
141 4 0.01
142 3 0.01
144 1 0.00
145 4 0.01
146 5 0.01
147 96 0.19
148 20 0.04
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (128 bp):
TAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACTTTAATTAAAAACCCTAACCCTA
ACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACATTAACCTAATTTAAT
Found at i:16187760 original size:51 final size:51
Alignment explanation
Indices: 16187700--16187883 Score: 264
Period size: 51 Copynumber: 3.6 Consensus size: 51
16187690 ACCCTTAACT
*
16187700 TTAAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
* * *
16187751 TTAACTTAAAAATCCTAACCTTAACCTAATTTAATTAAAAACCCT-AACCTAAT
1 TTAACTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACC---C
*
16187804 TTAA-TTAAAAGCCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
* *
16187854 TTAACTTAAAAACCCTAACCTTAACGTAAT
1 TTAACTTAAAAACCCTAACCCTAACCTAAT
16187884 GTTAGATTTG
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
50 8 0.07
51 64 0.55
52 37 0.32
53 8 0.07
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (51 bp):
TTAACTTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
Found at i:16187770 original size:21 final size:21
Alignment explanation
Indices: 16187730--16187775 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
16187720 CTAACCTAAT
16187730 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCTAAA-CC
*
16187751 TTAACTTAAAAATCCT-AACC
1 TTAACTTAAAAACCCTAAACC
16187771 TTAAC
1 TTAAC
16187776 CTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
TTAACTTAAAAACCCTAAACC
Found at i:16187837 original size:103 final size:108
Alignment explanation
Indices: 16187659--16187883 Score: 379
Period size: 103 Copynumber: 2.1 Consensus size: 108
16187649 TTTAATTAAA
*
16187659 AACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTTAAATTAAAAACCCTAACCCTAA
1 AACCTTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTTAAATTAAAAACCCTAACCCTAA
*
16187724 CCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAATCCT
66 CCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
16187767 AACCTTAACCTAATTTAATTAAAAACCCT-AA-CC-TAA-TTT-AATTAAAAGCCCTAACCCTAA
1 AACCTTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTTAAATTAAAAACCCTAACCCTAA
16187827 CCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
66 CCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
*
16187870 AACCTTAACGTAAT
1 AACCTTAACCTAAT
16187884 GTTAGATTTG
Statistics
Matches: 113, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
103 75 0.66
104 3 0.03
105 3 0.03
106 2 0.02
107 2 0.02
108 28 0.25
ACGTcount: A:0.45, C:0.26, G:0.01, T:0.28
Consensus pattern (108 bp):
AACCTTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTTAAATTAAAAACCCTAACCCTAA
CCTAATTTAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT
Found at i:16187865 original size:22 final size:20
Alignment explanation
Indices: 16187833--16187878 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
16187823 CTAACCTAAT
16187833 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
16187854 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
16187874 TTAAC
1 TTAAC
16187879 GTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:16188015 original size:116 final size:116
Alignment explanation
Indices: 16187880--16188213 Score: 632
Period size: 116 Copynumber: 2.9 Consensus size: 116
16187870 AACCTTAACG
* * *
16187880 TAATGTTAGATTTGGAAAAATGTGTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
16187945 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
*
16187996 TAATGTTAGATTTGGAAAAATGTTTTGAATGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
16188061 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
16188112 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
16188177 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTGACTTAATA
16188214 CAATTTATCA
Statistics
Matches: 213, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 213 1.00
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAATAATTTTATATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:16188230 original size:17 final size:18
Alignment explanation
Indices: 16188189--16188230 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16188179 TTTACTAACC
* *
16188189 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
16188207 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
16188224 ATTAATA
1 ATTAATA
16188231 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:16191540 original size:126 final size:123
Alignment explanation
Indices: 16191242--16191591 Score: 508
Period size: 126 Copynumber: 2.8 Consensus size: 123
16191232 CCCAAACATG
* *
16191242 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAACTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
16191307 TAGAAGCGATTTTATATTATTTCTCAGAAACGTC-AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
* * * * *
16191364 CTACTCTAGCAGAAGCTCG-CTGACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* *
16191428 CTAGAAGCGATTTTATACTATTTGCTCAGAAACTTCAAAAAACTAATTATTTCTT-CTGTGAC
65 CTAGAAGCGATTTTATACTATTT-CTCAGAAACGTCAAAAAA--AATTATTTCTTAC-ATGAC
*
16191490 CTACTGTAGGAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
16191555 AAGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTA-TTTCTCAGAAACGTCAA
16191592 CTCGAAATTA
Statistics
Matches: 201, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
121 1 0.00
122 77 0.38
123 11 0.05
124 5 0.02
125 1 0.00
126 102 0.51
127 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTCTCAGAAACGTCAAAAAAAATTATTTCTTACATGAC
Found at i:16196559 original size:9 final size:9
Alignment explanation
Indices: 16196541--16196586 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
16196531 TATAGTTTGA
16196541 TATTCGAAT
1 TATTCGAAT
*
16196550 TATTCAAAT
1 TATTCGAAT
16196559 TATTCGAAT
1 TATTCGAAT
*
16196568 TATTCGAGT
1 TATTCGAAT
16196577 TATTCGAAT
1 TATTCGAAT
16196586 T
1 T
16196587 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16212596 original size:27 final size:27
Alignment explanation
Indices: 16212537--16212688 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
16212527 TAAATTGTAC
*
16212537 AGCACTAAGTGTGCGAGTTGGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
16212565 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16212592 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
16212619 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
16212647 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
16212674 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16212689 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:16212603 original size:55 final size:55
Alignment explanation
Indices: 16212537--16212688 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
16212527 TAAATTGTAC
16212537 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
16212592 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
16212647 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
16212689 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:16212651 original size:82 final size:82
Alignment explanation
Indices: 16212537--16212688 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
16212527 TAAATTGTAC
* *
16212537 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
16212602 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
16212619 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
16212684 GTGCG
66 GTGCG
16212689 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTGGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:16221615 original size:24 final size:24
Alignment explanation
Indices: 16221583--16221628 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
16221573 ATGACAGTAA
16221583 AACTTAATGTTTGATTCAAATGTC
1 AACTTAATGTTTGATTCAAATGTC
*
16221607 AACTTAATGTTTGGTTCAAATG
1 AACTTAATGTTTGATTCAAATG
16221629 GTTGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (24 bp):
AACTTAATGTTTGATTCAAATGTC
Found at i:16226051 original size:25 final size:25
Alignment explanation
Indices: 16226004--16226114 Score: 66
Period size: 25 Copynumber: 4.4 Consensus size: 25
16225994 ACCAAACCTA
*
16226004 GCCTTTGTGGCGAGTTATCTGAAAG
1 GCCTATGTGGCGAGTTATCTGAAAG
* *
16226029 GCCTATGTGGCGTAG-TATTTGAAAA
1 GCCTATGTGGCG-AGTTATCTGAAAG
* * *
16226054 ACCT-TAGTGGCAAAGTTATCTAGGAAG
1 GCCTAT-GTGGC-GAGTTATCT-GAAAG
* * * * *
16226081 CCCT-TGTGGTGAATTCTCTAAAAG
1 GCCTATGTGGCGAGTTATCTGAAAG
16226105 GCCTATGTGG
1 GCCTATGTGG
16226115 TGTATTATTC
Statistics
Matches: 64, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
24 7 0.11
25 40 0.62
26 10 0.16
27 7 0.11
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (25 bp):
GCCTATGTGGCGAGTTATCTGAAAG
Found at i:16226146 original size:76 final size:76
Alignment explanation
Indices: 16226003--16226251 Score: 275
Period size: 76 Copynumber: 3.3 Consensus size: 76
16225993 AACCAAACCT
* * * * * * * *
16226003 AGCCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCGTAGTATTTGAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGCAAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCATAGTAGCAAA
16226068 GTTATCTAGGA
66 GTTATCTAGGA
** * * * * **
16226079 AGCCCTTGTGGTGAATTCTCTAAAAGGCCTATGTGGTGTATTATTCAAAAAACCATATTAGTGAA
1 AGCCCTTGTGGCAAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCATAGTAGCAAA
16226144 GTTATCTAGGA
66 GTTATCTAGGA
* * * *
16226155 AGCCCTTGTGGCAAATTATCTAAAAGGCTTATGTGGCATATTATTCGAAAAACCTTAGTGGCAAA
1 AGCCCTTGTGGCAAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCATAGTAGCAAA
16226220 GTTATCT-GAGA
66 GTTATCTAG-GA
* * *
16226231 AGCTCTTGTGGCGAGTTATCT
1 AGCCCTTGTGGCAAATTATCT
16226252 GGAAAGTCTG
Statistics
Matches: 143, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
75 1 0.01
76 142 0.99
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (76 bp):
AGCCCTTGTGGCAAATTATCTAAAAGGCCTATGTGGCGTATTATTCGAAAAACCATAGTAGCAAA
GTTATCTAGGA
Found at i:16226189 original size:25 final size:25
Alignment explanation
Indices: 16226161--16226226 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
16226151 AGGAAGCCCT
**
16226161 TGTGGCAAATTATCTAAAAGGCTTA
1 TGTGGCAAATTATCTAAAAACCTTA
* *
16226186 TGTGGCATATTATTCGAAAAACCTTA
1 TGTGGCAAATTA-TCTAAAAACCTTA
16226212 -GTGGCAAAGTTATCT
1 TGTGGCAAA-TTATCT
16226227 GAGAAGCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (25 bp):
TGTGGCAAATTATCTAAAAACCTTA
Found at i:16227954 original size:3 final size:3
Alignment explanation
Indices: 16227946--16227979 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
16227936 GAGCCTAACA
16227946 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16227980 GACTCCCTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16231187 original size:21 final size:21
Alignment explanation
Indices: 16231166--16231358 Score: 138
Period size: 21 Copynumber: 9.2 Consensus size: 21
16231156 CTTTCCGTTT
* * *
16231166 AGCTCTTACGAGCTTCTATTT
1 AGCTCTTATGAGCTTCTGTTC
* * * *
16231187 AACTCATATGAGTTTCCGTTC
1 AGCTCTTATGAGCTTCTGTTC
* *
16231208 AGGTCTT-TCGAGCTTCTATTC
1 AGCTCTTAT-GAGCTTCTGTTC
* *
16231229 AACTCTTATGAGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
*
16231250 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* * *
16231271 AACTCATATGAG-TTTTCGTTC
1 AGCTCTTATGAGCTTCT-GTTC
* *
16231292 AGCTCTTACGAGCTTCTATTC
1 AGCTCTTATGAGCTTCTGTTC
* * * * *
16231313 AACCCTTATGGGTTTCTGTTT
1 AGCTCTTATGAGCTTCTGTTC
* *
16231334 AGCTCTCATGAACTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTC
16231355 AGCT
1 AGCT
16231359 TTCGAGCTTT
Statistics
Matches: 125, Mismatches: 43, Indels: 8
0.71 0.24 0.05
Matches are distributed among these distances:
20 4 0.03
21 117 0.94
22 4 0.03
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (21 bp):
AGCTCTTATGAGCTTCTGTTC
Found at i:16231204 original size:42 final size:42
Alignment explanation
Indices: 16231157--16231339 Score: 231
Period size: 42 Copynumber: 4.4 Consensus size: 42
16231147 CGTGTTTTAC
* *
16231157 TTTCCGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* * *
16231199 TTTCCGTTCAGGTCTTTCGAGCTTCTATTCAACTCTTATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* * * *
16231241 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* * * *
16231283 TTTTCGTTCAGCTCTTACGAGCTTCTATTCAACCCTTATGGG
1 TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
* *
16231325 TTTCTGTTTAGCTCT
1 TTTCCGTTCAGCTCT
16231340 CATGAACTTC
Statistics
Matches: 118, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 118 1.00
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTTACGAGCTTCTATTCAACTCATATGAG
Found at i:16231307 original size:84 final size:84
Alignment explanation
Indices: 16231157--16231353 Score: 295
Period size: 84 Copynumber: 2.3 Consensus size: 84
16231147 CGTGTTTTAC
* * * * *
16231157 TTTCCGTTTAGCTCTTACGAGCTTCTATTTAACTCATATGAGTTTCCGTTCAGGTCTTTCGAGCT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCT
*
16231222 TCTATTCAACTCTTATGAG
66 TCTATTCAACCCTTATGAG
* *
16231241 TTTCTGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCTTACGAGCT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCT
*
16231306 TCTATTCAACCCTTATGGG
66 TCTATTCAACCCTTATGAG
* *
16231325 TTTCTGTTTAGCTCTCATGAACTTCTGTT
1 TTTCTGTTTAGCTCTTATGAGCTTCTGTT
16231354 CAGCTTTCGA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 101 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (84 bp):
TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTCCGTTCAGCTCTTACGAGCT
TCTATTCAACCCTTATGAG
Found at i:16232966 original size:13 final size:14
Alignment explanation
Indices: 16232930--16232966 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
16232920 CATCGCCACA
16232930 AAACATAAACCATT
1 AAACATAAACCATT
16232944 AAACATAAACCATT
1 AAACATAAACCATT
16232958 AAA-ATAAAC
1 AAACATAAAC
16232967 ATAAATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (14 bp):
AAACATAAACCATT
Found at i:16234961 original size:20 final size:20
Alignment explanation
Indices: 16234919--16234968 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
16234909 TACATATTAT
* * *
16234919 CACTGTTAATGATTTGACTC
1 CACTGTTCATGATTTAACCC
16234939 CACTGTTCATGATTTAACCC
1 CACTGTTCATGATTTAACCC
*
16234959 CACTATTCAT
1 CACTGTTCAT
16234969 AGGGCTGACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (20 bp):
CACTGTTCATGATTTAACCC
Found at i:16238315 original size:70 final size:68
Alignment explanation
Indices: 16238241--16238705 Score: 393
Period size: 70 Copynumber: 6.7 Consensus size: 68
16238231 TAGCAGCTTG
* * * *
16238241 AGCTCTCGCTAATTGATTTAGAGGTTGCGATATTAAACCTGCAAGCCTTAAGATCACAACTGGGA
1 AGCTCTCGCTAACT-ATTTAGAGGTTGCG-TATTGAACCTGCGAGCCTTAAGATCATAACTGGGA
16238306 GCCTT
64 GCCTT
* * * * * * * * *
16238311 AGCTCTCTCTCCAACTCTTTTTAGGGGCTGCGATATTGAACCTACGAGTCTTAAGGTCACAATTG
1 AGCTCTCGCT--AA--CTATTTAGAGGTTGCG-TATTGAACCTGCGAGCCTTAAGATCATAACTG
16238376 GGAGCCTT
61 GGAGCCTT
** * * * *
16238384 AGCTCTTTCTAAGTATTTAGAGGTTGCGGTATTGAACCTGCGAGCCCTAAGATCATATCTAGGAG
1 AGCTCTCGCTAACTATTTAGAGGTTGC-GTATTGAACCTGCGAGCCTTAAGATCATAACTGGGAG
16238449 CCTT
65 CCTT
* * * * * **
16238453 AGCTCTCGCTAACTATTTTAGA-GTCTGTTGTATTGAACCTGCAAGCCCTACGATCATAGCTTAG
1 AGCTCTCGCTAACTA-TTTAGAGGT-TG-CGTATTGAACCTGCGAGCCTTAAGATCATAACTGGG
*
16238517 AGACTT
63 AGCCTT
* * * * * *
16238523 AGCTCTCACTAACTATTTAGA----G-GTACTGAACTTGTGAGCCCTAAGATCATAACGGGGAGC
1 AGCTCTCGCTAACTATTTAGAGGTTGCGTATTGAACCTGCGAGCCTTAAGATCATAACTGGGAGC
16238583 CTT
66 CTT
* * **
16238586 AACTCTCGCTAACTATTTTAGAGGCTGCGGTATTGAACCTGCGAGCCTTAAGATCATAGTTGGGA
1 AGCTCTCGCTAACTA-TTTAGAGGTTGC-GTATTGAACCTGCGAGCCTTAAGATCATAACTGGGA
16238651 GCCTT
64 GCCTT
* * *
16238656 AGCTCTCGCTAACTATTTTAGAGGTTGTGGTATTGAACCTACGAACCTTA
1 AGCTCTCGCTAACTA-TTTAGAGGTTG-CGTATTGAACCTGCGAGCCTTA
16238706 GCTCTCTTTA
Statistics
Matches: 320, Mismatches: 59, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
63 44 0.14
64 6 0.02
65 1 0.00
68 1 0.00
69 63 0.20
70 145 0.45
71 2 0.01
72 2 0.01
73 55 0.17
74 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (68 bp):
AGCTCTCGCTAACTATTTAGAGGTTGCGTATTGAACCTGCGAGCCTTAAGATCATAACTGGGAGC
CTT
Found at i:16238593 original size:133 final size:134
Alignment explanation
Indices: 16238411--16238680 Score: 373
Period size: 133 Copynumber: 2.0 Consensus size: 134
16238401 TAGAGGTTGC
* * * *
16238411 GGTATTGAACCTGCGAGCCCTAAGATCATATCTAGGAGCCTTAGCTCTCGCTAACTATTTTAGAG
1 GGTACTGAACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAG
* ** *
16238476 TCTGTTGTATTGAACCTGCAAGCCCTACGATCATAGCTT-AGAGACTTAGCTCTCACTAACTA-T
66 GCTGCGGTATTGAACCTGCAAGCCCTAAGATCATAG-TTGAGAGACTTAGCTCTCACTAACTATT
16238539 TTAGA
130 TTAGA
* * *
16238544 GGTACTGAACTTGTGAGCCCTAAGATCATAACGGGGAGCCTTAACTCTCGCTAACTATTTTAGAG
1 GGTACTGAACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAG
* * * * *
16238609 GCTGCGGTATTGAACCTGCGAGCCTTAAGATCATAGTTGGGAGCCTTAGCTCTCGCTAACTATTT
66 GCTGCGGTATTGAACCTGCAAGCCCTAAGATCATAGTTGAGAGACTTAGCTCTCACTAACTATTT
16238674 TAGA
131 TAGA
16238678 GGT
1 GGT
16238681 TGTGGTATTG
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
132 2 0.02
133 108 0.91
134 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (134 bp):
GGTACTGAACCTGCGAGCCCTAAGATCATAACGAGGAGCCTTAACTCTCGCTAACTATTTTAGAG
GCTGCGGTATTGAACCTGCAAGCCCTAAGATCATAGTTGAGAGACTTAGCTCTCACTAACTATTT
TAGA
Found at i:16238796 original size:121 final size:121
Alignment explanation
Indices: 16238608--16238826 Score: 294
Period size: 121 Copynumber: 1.8 Consensus size: 121
16238598 CTATTTTAGA
* * ** * * * *
16238608 GGCTGCGGTATTGAACCTGCGAGCCTTAAGATCATAGTTGGGAGCCTTAGCTCTCGCTAACTATT
1 GGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAACCTTAGCTCCCACTAACTATT
* *
16238673 TTAGAGGTTGTGGTATTGAACCTACGAACCTTAGCTCTCTTTAACTATTTTTTAAG
66 TTAGAGGCTGTGATATTGAACCTACGAACCTTAGCTCTCTTTAACTATTTTTTAAG
* * *
16238729 GGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAACCTTAGCTCCCACTAATTGTT
1 GGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAACCTTAGCTCCCACTAACTATT
* * *
16238794 TTAGAGGCTGTTATATTGAATCTATGAACCTTA
66 TTAGAGGCTGTGATATTGAACCTACGAACCTTA
16238827 AGATCTTAGT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
121 82 1.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (121 bp):
GGCTGCGGTATTAAACCTGCGAGCCTTAAGATCACAACTAGGAACCTTAGCTCCCACTAACTATT
TTAGAGGCTGTGATATTGAACCTACGAACCTTAGCTCTCTTTAACTATTTTTTAAG
Found at i:16238899 original size:70 final size:70
Alignment explanation
Indices: 16238701--16239005 Score: 215
Period size: 70 Copynumber: 4.3 Consensus size: 70
16238691 AACCTACGAA
* * * * *
16238701 CCTTAGCTCTCTTTAACTATTTTTTA-AGGGCT-GCTGTATTAAACCTGCGAGCCTTAAGATCAC
1 CCTTAGCTCTCTCTAACTA--TTTTAGA-GGCTAG-AGTATTGAACCTGTGAGCCTTAAGATCAT
* * *
16238764 AACTAGGAA
62 AGCTGGGAG
* * * * * * * *
16238773 CCTTAGCTCCCACTAATTGTTTTAGAGGCT-GTTA-TATTGAATCTATGAACCTTAAGATCTTAG
1 CCTTAGCTCTCTCTAACTATTTTAGAGGCTAG--AGTATTGAACCTGTGAGCCTTAAGATCATAG
*
16238836 TTGGGAG
64 CTGGGAG
** * * * ** * *
16238843 CCTTAGCTCTCTCTATGTATTTTTGGGGCTACG-GTATTGAACCTGTGAGCCCTAAGAAAACAAC
1 CCTTAGCTCTCTCTAACTATTTTAGAGGCTA-GAGTATTGAACCTGTGAGCCTTAAGATCATAGC
*
16238907 TGGAAG
65 TGGGAG
* * * **
16238913 CCTTAGCTATCACTAACTATTTTAGAGGCTAGAGTATTAAACCTGCAAGCCTTAAGATCATAGCT
1 CCTTAGCTCTCTCTAACTATTTTAGAGGCTAGAGTATTGAACCTGTGAGCCTTAAGATCATAGCT
16238978 GGGAG
66 GGGAG
*
16238983 CCTTAGCTCTCTCTAACTGTTTT
1 CCTTAGCTCTCTCTAACTATTTT
16239006 TTAAGGGAGG
Statistics
Matches: 173, Mismatches: 54, Indels: 14
0.72 0.22 0.06
Matches are distributed among these distances:
69 1 0.01
70 156 0.90
71 1 0.01
72 15 0.09
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (70 bp):
CCTTAGCTCTCTCTAACTATTTTAGAGGCTAGAGTATTGAACCTGTGAGCCTTAAGATCATAGCT
GGGAG
Found at i:16239006 original size:140 final size:140
Alignment explanation
Indices: 16238701--16239012 Score: 337
Period size: 140 Copynumber: 2.2 Consensus size: 140
16238691 AACCTACGAA
* * * * **
16238701 CCTTAGCTCTCTTTAACTATTTTTTAAGGGCTGCTGTATTAAACCTGCGAGCCTTAAGATCACAA
1 CCTTAGCTCTCTCTAACTA-TTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGAAAACAA
* * * *
16238766 CTAGGAACCTTAGCTCCCACTAATTGTTTTAGAGGCTGTTATATTGAATCTATGAACCTTAAGAT
65 CTAGGAACCTTAGCTACCACTAACTATTTTAGAGGCTG-TATATTGAAACTATGAACCTTAAGAT
* *
16238831 CTTAGTTGGGAG
129 CATAGCTGGGAG
** * * *
16238843 CCTTAGCTCTCTCTATGTATTTTT-GGGGCTACGGTATTGAACCTGTGAGCCCTAAGAAAACAAC
1 CCTTAGCTCTCTCTAACTATTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGAAAACAAC
* *
16238907 T-GGAAGCCTTAGCTATCACTAACTATTTTAGAGGCTAG-AGTATT-AAAC-CTGCAAGCCTTAA
66 TAGGAA-CCTTAGCTACCACTAACTATTTTAGAGGCT-GTA-TATTGAAACTATG-AA-CCTTAA
16238968 GATCATAGCTGGGAG
126 GATCATAGCTGGGAG
*
16238983 CCTTAGCTCTCTCTAACTGTTTTTTAAGGG
1 CCTTAGCTCTCTCTAACT-ATTTTTAAGGG
16239013 AGGATCATAT
Statistics
Matches: 140, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
138 2 0.01
139 10 0.07
140 98 0.70
141 11 0.08
142 19 0.14
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (140 bp):
CCTTAGCTCTCTCTAACTATTTTTAAGGGCTACGGTATTAAACCTGCGAGCCCTAAGAAAACAAC
TAGGAACCTTAGCTACCACTAACTATTTTAGAGGCTGTATATTGAAACTATGAACCTTAAGATCA
TAGCTGGGAG
Found at i:16248130 original size:24 final size:24
Alignment explanation
Indices: 16248102--16248167 Score: 82
Period size: 24 Copynumber: 2.8 Consensus size: 24
16248092 GAGTTTCTTT
* *
16248102 TATTATTATTTTAAGTTTTA-TATG
1 TATTATTATTTGAA-ATTTACTATG
16248126 TATTATTATTTGAAATTTACTATG
1 TATTATTATTTGAAATTTACTATG
*
16248150 TATTACTATTT-AAATTTA
1 TATTATTATTTGAAATTTA
16248168 ACATAGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (24 bp):
TATTATTATTTGAAATTTACTATG
Found at i:16251817 original size:40 final size:40
Alignment explanation
Indices: 16251762--16251842 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
16251752 TTCATAGGAC
*
16251762 TGACACTCTGAGCAGGCCTCGAGCATGTTGGACATGTGTA
1 TGACACTCTGAGCAGGCCTCGAGCATATTGGACATGTGTA
16251802 TGACACTCTGAGCAGGCCTCGAGCATATTGGACATGTGTA
1 TGACACTCTGAGCAGGCCTCGAGCATATTGGACATGTGTA
16251842 T
1 T
16251843 CGTTTCAAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TGACACTCTGAGCAGGCCTCGAGCATATTGGACATGTGTA
Found at i:16264267 original size:45 final size:45
Alignment explanation
Indices: 16264218--16264335 Score: 200
Period size: 45 Copynumber: 2.6 Consensus size: 45
16264208 CGGCAATGTG
* *
16264218 TAAGACCATAATTGAAAGATATTATGGCTTTAGATCTAATACAAA
1 TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
* *
16264263 TAAGACCTTAGTTGAAAGATATTATGGCTTTAAATCTAATACGAA
1 TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
16264308 TAAGACCATAGTTGAAAGATATTATGGC
1 TAAGACCATAGTTGAAAGATATTATGGC
16264336 ATTACTTCGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGATATTATGGCTTTAAATCTAATACAAA
Found at i:16264361 original size:45 final size:43
Alignment explanation
Indices: 16264177--16264339 Score: 164
Period size: 45 Copynumber: 3.7 Consensus size: 43
16264167 AATTAAAAAT
* * * **
16264177 ACCATAGTTGAAAGATACTATGGCACTAAATCGGCAATGTGTAAG
1 ACCATAGTTGAAAGATATTATGGCATTAAATC--TAATGCATAAG
* * * *
16264222 ACCATAATTGAAAGATATTATGGCTTTAGATCTAATACAAATAAG
1 ACCATAGTTGAAAGATATTATGGCATTAAATCTAATGC--ATAAG
* * *
16264267 ACCTTAGTTGAAAGATATTATGGCTTTAAATCTAATACGAATAAG
1 ACCATAGTTGAAAGATATTATGGCATTAAATCTAAT--GCATAAG
16264312 ACCATAGTTGAAAGATATTATGGCATTA
1 ACCATAGTTGAAAGATATTATGGCATTA
16264340 CTTCGGGAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
43 3 0.03
45 95 0.97
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.30
Consensus pattern (43 bp):
ACCATAGTTGAAAGATATTATGGCATTAAATCTAATGCATAAG
Found at i:16276237 original size:58 final size:58
Alignment explanation
Indices: 16276139--16276255 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
16276129 CAAATCAACC
** *
16276139 TAATCAACCATTTGTTCAGATTTATTATATCATGTCATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTGTTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
16276197 TAATCAACCATTTGTTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
1 TAATCAACCATTTGTTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
16276255 T
1 T
16276256 TATTAACGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (58 bp):
TAATCAACCATTTGTTCAGATTTATTATATCACATAATCAATCAATGAAAATGTGGCA
Found at i:16278172 original size:69 final size:69
Alignment explanation
Indices: 16278061--16278191 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
16278051 ATAGTACCTC
* * * *
16278061 CATTTCTTTGAGCCCCTCGCCGCTTTTCTGGAAACCCTGGAGGAGCTTTAACTTCACTCTCCCGT
1 CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
16278126 CCAT
66 CCAT
* *
16278130 CATTTCTTTCA-CTCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGGTTCAACTTCAGTCTCC
1 CATTTCTTTCAGC-CCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCC
16278192 TGACCACCGG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.17, C:0.35, G:0.18, T:0.31
Consensus pattern (69 bp):
CATTTCTTTCAGCCCCTCGCCGCTTATCTGGAAACCCCGGAGGAGCTTCAACTTCACTCTCCCGT
CCAT
Found at i:16279241 original size:21 final size:19
Alignment explanation
Indices: 16279217--16279259 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
16279207 CTATATATTT
*
16279217 TATAGATGTGTTATAAAGTAA
1 TATAGATGTATT-TAAA-TAA
*
16279238 TATATATGTATTTAAATAA
1 TATAGATGTATTTAAATAA
16279257 TAT
1 TAT
16279260 TAAAATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (19 bp):
TATAGATGTATTTAAATAA
Found at i:16280094 original size:29 final size:30
Alignment explanation
Indices: 16280038--16280094 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
16280028 AGAGGGAAAA
*
16280038 AGAACAAATAAAAAAAGGACAAAAAAATTT
1 AGAACAAATAAAAAAAAGACAAAAAAATTT
*
16280068 AGAA-AAATAAAAAATAAGA-AAATAAAT
1 AGAACAAATAAAAAA-AAGACAAAAAAAT
16280095 AAATGTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.74, C:0.04, G:0.09, T:0.14
Consensus pattern (30 bp):
AGAACAAATAAAAAAAAGACAAAAAAATTT
Found at i:16287041 original size:18 final size:18
Alignment explanation
Indices: 16286991--16287041 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
16286981 CCCAATTAAC
16286991 ATAGATGTAGATA-TAGAA
1 ATAGATGTAGA-AGTAGAA
* * *
16287009 ATAGATGTTGTAGTAGAC
1 ATAGATGTAGAAGTAGAA
*
16287027 GTAGATGTAGAAGTA
1 ATAGATGTAGAAGTA
16287042 AAGGTAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.41, C:0.02, G:0.27, T:0.29
Consensus pattern (18 bp):
ATAGATGTAGAAGTAGAA
Found at i:16288983 original size:20 final size:19
Alignment explanation
Indices: 16288953--16288990 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16288943 TTAATAATTA
*
16288953 TTTTATTTTATTTTGTTTT
1 TTTTATTTTATTTAGTTTT
16288972 TTTTATTTTTATTTAGTTT
1 TTTTA-TTTTATTTAGTTT
16288991 AATTAGGATT
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:0.13, C:0.00, G:0.05, T:0.82
Consensus pattern (19 bp):
TTTTATTTTATTTAGTTTT
Found at i:16291285 original size:7 final size:7
Alignment explanation
Indices: 16291273--16291304 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16291263 ATCACATAGA
16291273 AAAATCC
1 AAAATCC
16291280 AAAATCC
1 AAAATCC
*
16291287 AAAACCC
1 AAAATCC
16291294 AAAATCC
1 AAAATCC
16291301 AAAA
1 AAAA
16291305 GAAAATCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAATCC
Found at i:16292098 original size:6 final size:6
Alignment explanation
Indices: 16292084--16292128 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
16292074 GAGATTTACA
16292084 CATACAT CATAAT CATAAT CATAAT CATAAT CATAAT CATAAT CA
1 CATA-AT CATAAT CATAAT CATAAT CATAAT CATAAT CATAAT CA
16292129 CATCAATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (6 bp):
CATAAT
Found at i:16293373 original size:21 final size:21
Alignment explanation
Indices: 16293343--16293382 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16293333 TTAGTTTAAT
*
16293343 ATTTTCATTATTATTATTACA
1 ATTTTCATTAGTATTATTACA
*
16293364 ATTTTTATTAGTATTATTA
1 ATTTTCATTAGTATTATTA
16293383 TTATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTCATTAGTATTATTACA
Found at i:16296051 original size:16 final size:16
Alignment explanation
Indices: 16296030--16296063 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16296020 AATAGAAAAG
16296030 TGTGAACATTAATACT
1 TGTGAACATTAATACT
16296046 TGTGAACATTAATACT
1 TGTGAACATTAATACT
16296062 TG
1 TG
16296064 AACCTTAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
TGTGAACATTAATACT
Found at i:16306855 original size:18 final size:17
Alignment explanation
Indices: 16306819--16306866 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
16306809 ATTATTTTTC
*
16306819 TTATTTATTTCTTTTTCA
1 TTATTTATTT-TTTCTCA
16306837 TTATTTATTTTTATCTCA
1 TTATTTATTTTT-TCTCA
*
16306855 TCAATTTATTTT
1 T-TATTTATTTT
16306867 ATGGTTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (17 bp):
TTATTTATTTTTTCTCA
Found at i:16311790 original size:17 final size:16
Alignment explanation
Indices: 16311759--16311797 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
16311749 AATTATTAAA
*
16311759 ATTTTT-TTCTGTTTC
1 ATTTTTATTCTATTTC
16311774 ATTCTTTATTCTATTTC
1 ATT-TTTATTCTATTTC
16311791 ATTTTTA
1 ATTTTTA
16311798 GTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 7 0.33
17 11 0.52
ACGTcount: A:0.15, C:0.13, G:0.03, T:0.69
Consensus pattern (16 bp):
ATTTTTATTCTATTTC
Found at i:16317838 original size:27 final size:28
Alignment explanation
Indices: 16317808--16317860 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
16317798 ATTCAGTAAC
*
16317808 AGTAAAG-TGTGGGCCTTAGCCCAATAT
1 AGTAAAGATGTAGGCCTTAGCCCAATAT
*
16317835 AGTAACGATGTAGGCCTTAGCCCAAT
1 AGTAAAGATGTAGGCCTTAGCCCAAT
16317861 TTCAGTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
AGTAAAGATGTAGGCCTTAGCCCAATAT
Found at i:16317968 original size:29 final size:31
Alignment explanation
Indices: 16317932--16317989 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
16317922 AACAGTATGT
16317932 AATATCATTAATCAATGCAG-TA-GCAGTAC
1 AATATCATTAATCAATGCAGATATGCAGTAC
*
16317961 AATATCATTAATCAGTGCAGATATGCAGT
1 AATATCATTAATCAATGCAGATATGCAGT
16317990 TAGAAATCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 19 0.73
30 2 0.08
31 5 0.19
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
AATATCATTAATCAATGCAGATATGCAGTAC
Found at i:16318395 original size:27 final size:27
Alignment explanation
Indices: 16318365--16318547 Score: 100
Period size: 27 Copynumber: 6.7 Consensus size: 27
16318355 ATCTTCTAGC
*
16318365 GGTATAATAGTCATTTTATCCTATGGG
1 GGTATAATAGTCATTTTACCCTATGGG
** * *
16318392 GGTATTTTGGTTATTTTACCCTATGGGG
1 GGTATAATAGTCATTTTACCCTAT-GGG
** * * * **
16318420 GGTATTTTGGTCACTCTACCCTATCAG
1 GGTATAATAGTCATTTTACCCTATGGG
** *
16318447 GGTATTTTGGTCATTTTACCCTATGGG
1 GGTATAATAGTCATTTTACCCTATGGG
* * * *
16318474 GGTAT-TTCGATTATTTTACCCTATGGA
1 GGTATAATAG-TCATTTTACCCTATGGG
* * * *
16318501 GGTAT-TTCGATTATTTTACACTATGGG
1 GGTATAATAG-TCATTTTACCCTATGGG
**
16318528 GGTATTTTAGTCATTTTACC
1 GGTATAATAGTCATTTTACC
16318548 TATTTTGGGG
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 101 0.77
28 27 0.21
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
GGTATAATAGTCATTTTACCCTATGGG
Done.