Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 37 of 45
Found at i:6497955 original size:19 final size:19
Alignment explanation
Indices: 6497909--6497957 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
6497899 AAATTGATAA
*
6497909 ATTTAAT-TATTTTTTTAT
1 ATTTAATATATTTTATTAT
*
6497927 TTTTCAAATATATTTTATTAT
1 ATTT--AATATATTTTATTAT
6497948 ATTTAATATA
1 ATTTAATATA
6497958 CAACGTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 3 0.12
19 6 0.24
20 3 0.12
21 13 0.52
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTAATATATTTTATTAT
Found at i:6498223 original size:2 final size:2
Alignment explanation
Indices: 6498216--6498247 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6498206 TTATCCACAA
6498216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6498248 CATTGTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6499173 original size:85 final size:85
Alignment explanation
Indices: 6499069--6499241 Score: 301
Period size: 85 Copynumber: 2.0 Consensus size: 85
6499059 GTTGTCTGCA
* * *
6499069 TCAGATTTAGATTTGGCAGCACCTAAGTATTACTTATGTAACATTGGTAATTGATTTTGCTTTTC
1 TCAGATTAAGATTTGGCAGCACCTAAATATTACATATGTAACATTGGTAATTGATTTTGCTTTTC
*
6499134 GATGTCTAAATGACAATTAT
66 AATGTCTAAATGACAATTAT
6499154 TCAGATTAAGATTTGGCAGCACCTAAATATTACATATGTAACATTGGTAATTGATTTTGCTTTTC
1 TCAGATTAAGATTTGGCAGCACCTAAATATTACATATGTAACATTGGTAATTGATTTTGCTTTTC
*
6499219 AATGTTTAAATGACAATTAT
66 AATGTCTAAATGACAATTAT
6499239 TCA
1 TCA
6499242 ACATACTACA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (85 bp):
TCAGATTAAGATTTGGCAGCACCTAAATATTACATATGTAACATTGGTAATTGATTTTGCTTTTC
AATGTCTAAATGACAATTAT
Found at i:6499722 original size:18 final size:18
Alignment explanation
Indices: 6499699--6499735 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6499689 CACTCATTAT
6499699 TACGACAAGACAGGCATA
1 TACGACAAGACAGGCATA
6499717 TACGACAAGACAGGCATA
1 TACGACAAGACAGGCATA
6499735 T
1 T
6499736 GGGGAGAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.14
Consensus pattern (18 bp):
TACGACAAGACAGGCATA
Found at i:6506681 original size:22 final size:21
Alignment explanation
Indices: 6506633--6506690 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
6506623 AAAATTATTT
*
6506633 ATATTTAAATTTAATTATAAA
1 ATATATAAATTTAATTATAAA
6506654 ATATATAAATATTAA-TATAAA
1 ATATATAAAT-TTAATTATAAA
*
6506675 ATA-ATATATTT-ATTAT
1 ATATATAAATTTAATTAT
6506691 TTTATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 5 0.15
21 18 0.55
22 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATATAAATTTAATTATAAA
Found at i:6508446 original size:72 final size:72
Alignment explanation
Indices: 6508329--6508473 Score: 254
Period size: 72 Copynumber: 2.0 Consensus size: 72
6508319 AATCGCAAGT
* * * *
6508329 TTTATTTTCACAATTGATCATTGATGCAAAGATATATTCATTATTCTGAAATAAATTTGTTATGG
1 TTTATTCTCACAACTGATCATCGATGCAAAGATATATTCATTATTCTAAAATAAATTTGTTATGG
6508394 GTGTTGG
66 GTGTTGG
6508401 TTTATTCTCACAACTGATCATCGATGCAAAGATATATTCATTATTCTAAAATAAATTTGTTATGG
1 TTTATTCTCACAACTGATCATCGATGCAAAGATATATTCATTATTCTAAAATAAATTTGTTATGG
6508466 GTGTTGG
66 GTGTTGG
6508473 T
1 T
6508474 ACAGTCTAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (72 bp):
TTTATTCTCACAACTGATCATCGATGCAAAGATATATTCATTATTCTAAAATAAATTTGTTATGG
GTGTTGG
Found at i:6511586 original size:17 final size:18
Alignment explanation
Indices: 6511549--6511587 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
6511539 TAGTTTTGAT
6511549 TTTATATGATTAGACATAA
1 TTTATATGATTAGA-ATAA
*
6511568 TTTATATGGTTAG-ATAA
1 TTTATATGATTAGAATAA
6511585 TTT
1 TTT
6511588 TATTTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTATATGATTAGAATAA
Found at i:6516078 original size:18 final size:19
Alignment explanation
Indices: 6516050--6516093 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
6516040 TCCTTTTTTT
6516050 TTTCTTTTTTTCCATTTGC
1 TTTCTTTTTTTCCATTTGC
*
6516069 TTTCTTTTTTTCCCTTTGC
1 TTTCTTTTTTTCCATTTGC
6516088 -TTCTTT
1 TTTCTTT
6516094 CTTTATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.02, C:0.23, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTCTTTTTTTCCATTTGC
Found at i:6518062 original size:20 final size:20
Alignment explanation
Indices: 6518015--6518063 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
6518005 ATATGATTCC
6518015 AAAAGCTCTCAAAAAAAGAA
1 AAAAGCTCTCAAAAAAAGAA
* *
6518035 GAAA--TCTCACAAAAAGAA
1 AAAAGCTCTCAAAAAAAGAA
6518053 AAAAGCTCTCA
1 AAAAGCTCTCA
6518064 TTATGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 16 0.67
20 8 0.33
ACGTcount: A:0.59, C:0.18, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAGCTCTCAAAAAAAGAA
Found at i:6518731 original size:15 final size:16
Alignment explanation
Indices: 6518713--6518743 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6518703 GACTTTTTTT
6518713 TTTTTA-TATTTTAAA
1 TTTTTATTATTTTAAA
6518728 TTTTTATTATTTTAAA
1 TTTTTATTATTTTAAA
6518744 CCTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTTATTATTTTAAA
Found at i:6520277 original size:3 final size:3
Alignment explanation
Indices: 6520269--6520293 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6520259 CCTAACACGC
6520269 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
6520294 AACCTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:6528954 original size:23 final size:24
Alignment explanation
Indices: 6528924--6528974 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
6528914 GAATGATTAT
*
6528924 TAATTTTTTTTTA-TTTTTAAATA
1 TAATTTTTTTTTATTTTTTAAAAA
6528947 TAA-TTTTTTTTATTTTTTAAAAA
1 TAATTTTTTTTTATTTTTTAAAAA
6528970 TAATT
1 TAATT
6528975 ATAAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 9 0.36
23 15 0.60
24 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TAATTTTTTTTTATTTTTTAAAAA
Found at i:6529612 original size:2 final size:2
Alignment explanation
Indices: 6529605--6529660 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
6529595 ATATTCAATA
* * *
6529605 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT GT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6529647 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
6529661 GTATGTACAG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6531812 original size:2 final size:2
Alignment explanation
Indices: 6531805--6531853 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
6531795 GGAAGAAGGG
6531805 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6531847 GA GA GA G
1 GA GA GA G
6531854 CGGTGAAGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6533664 original size:13 final size:13
Alignment explanation
Indices: 6533646--6533671 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6533636 ACATTTGGTC
6533646 ATGTATCGATACA
1 ATGTATCGATACA
6533659 ATGTATCGATACA
1 ATGTATCGATACA
6533672 TCTTGTATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6533668 original size:33 final size:32
Alignment explanation
Indices: 6533626--6533691 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 32
6533616 TTACAAGCCC
*
6533626 ATGTATCGATACAT-TTGGTCATGTATCGATACA
1 ATGTATCGATACATCTT-GT-ATGTATCGACACA
6533659 ATGTATCGATACATCTTGTATGTATCGACACA
1 ATGTATCGATACATCTTGTATGTATCGACACA
6533691 A
1 A
6533692 ACAGTTAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
32 13 0.42
33 16 0.52
34 2 0.06
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACATCTTGTATGTATCGACACA
Found at i:6533831 original size:13 final size:13
Alignment explanation
Indices: 6533813--6533839 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6533803 AGATTTGGTC
6533813 ATGTATCGATACA
1 ATGTATCGATACA
6533826 ATGTATCGATACA
1 ATGTATCGATACA
6533839 A
1 A
6533840 ACAGTTAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6533926 original size:13 final size:13
Alignment explanation
Indices: 6533908--6533932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6533898 TACAGTGGTC
6533908 ATGTATCGATACA
1 ATGTATCGATACA
6533921 ATGTATCGATAC
1 ATGTATCGATAC
6533933 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6534745 original size:18 final size:19
Alignment explanation
Indices: 6534712--6534747 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6534702 AAAGTAAATT
6534712 TAATATTTAAAAATTTATA
1 TAATATTTAAAAATTTATA
*
6534731 TAATATTT-CAAATTTAT
1 TAATATTTAAAAATTTAT
6534748 CACTCATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATTTAAAAATTTATA
Found at i:6535837 original size:18 final size:18
Alignment explanation
Indices: 6535802--6535851 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
6535792 TAAGATTTAA
* *
6535802 AAAAAT-TAAAATATAAT
1 AAAAATATAATATAAAAT
6535819 AAAAATATAATATAAAAT
1 AAAAATATAATATAAAAT
*
6535837 AATAATATAATATAA
1 AAAAATATAATATAA
6535852 TATAGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 6 0.21
18 23 0.79
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAATATAATATAAAAT
Found at i:6535851 original size:13 final size:12
Alignment explanation
Indices: 6535810--6535853 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
6535800 AAAAAAATTA
6535810 AAATATAATAA-
1 AAATATAATAAT
6535821 AAATATAAT-AT
1 AAATATAATAAT
6535832 AAA-ATAATAAT
1 AAATATAATAAT
6535843 ATAATATAATA
1 A-AATATAATA
6535854 TAGTTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.21
11 15 0.52
12 2 0.07
13 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATAATAAT
Found at i:6536166 original size:28 final size:29
Alignment explanation
Indices: 6536117--6536180 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
6536107 AAAAAATAAT
* * *
6536117 TAAAATATAATAAATATTTTATGTAAA-A
1 TAAAATAAAATAAATATATTATATAAATA
6536145 TAAAATAAAATATAAT-TATTATATAAATA
1 TAAAATAAAATA-AATATATTATATAAATA
6536174 TATAAAT
1 TA-AAAT
6536181 TATTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 20 0.67
29 6 0.20
30 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAAATAAAATAAATATATTATATAAATA
Found at i:6536174 original size:17 final size:16
Alignment explanation
Indices: 6536152--6536232 Score: 59
Period size: 15 Copynumber: 5.4 Consensus size: 16
6536142 AAATAAAATA
6536152 AAATATAATTATTATAT
1 AAATAT-ATTATTATAT
*
6536169 AAATATATAAATTAT-T
1 AAATATAT-TATTATAT
6536185 AAA-AT-TTATT-TA-
1 AAATATATTATTATAT
*
6536197 ATATATATTATTA-AT
1 AAATATATTATTATAT
* *
6536212 AAATAAAAT-TTATAT
1 AAATATATTATTATAT
6536227 AAATAT
1 AAATAT
6536233 TATAAAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
14 10 0.20
15 15 0.30
16 6 0.12
17 11 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATATTATTATAT
Found at i:6536235 original size:11 final size:11
Alignment explanation
Indices: 6536217--6536265 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
6536207 TTAATAAATA
6536217 AAAT-TTATAT
1 AAATATTATAT
6536227 AAATATTATA-
1 AAATATTATAT
6536237 AAA-A-TATAT
1 AAATATTATAT
*
6536246 AAATATAATAT
1 AAATATTATAT
6536257 AAATGATTA
1 AAAT-ATTA
6536266 AATTTATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
8 4 0.12
9 4 0.12
10 8 0.25
11 13 0.41
12 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
AAATATTATAT
Found at i:6536298 original size:17 final size:19
Alignment explanation
Indices: 6536154--6536301 Score: 64
Period size: 19 Copynumber: 7.6 Consensus size: 19
6536144 ATAAAATAAA
*
6536154 ATATAATTATTATATAAATAT
1 ATATAATTATTA-A-AATTAT
6536175 ATA-AATTATTAAAATTTATTT
1 ATATAATTATTAAAA-TTA--T
6536196 AATATATATTATTAATAA--AT
1 -ATATA-ATTATTAA-AATTAT
6536216 A-A-AATTTATATAAATATTAT
1 ATATAA-TTAT-TAAA-ATTAT
* *
6536236 A-A-AAATATATAAATATAAT
1 ATATAATTAT-TAAA-ATTAT
* *
6536255 ATA-AATGATTAAATTTAT
1 ATATAATTATTAAAATTAT
6536273 ATATAATTATTAAAATTAT
1 ATATAATTATTAAAATTAT
6536292 -T-TAATTATTA
1 ATATAATTATTA
6536302 TTTTAAAAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 32
0.72 0.06 0.22
Matches are distributed among these distances:
16 1 0.01
17 15 0.14
18 14 0.13
19 35 0.34
20 20 0.19
21 4 0.04
22 4 0.04
23 1 0.01
24 8 0.08
25 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (19 bp):
ATATAATTATTAAAATTAT
Found at i:6538254 original size:127 final size:127
Alignment explanation
Indices: 6538009--6538390 Score: 629
Period size: 127 Copynumber: 3.0 Consensus size: 127
6537999 TTATCAATTC
* *
6538009 TCATAGAAATGATCATGTTTCACACTTACATAGATGATCTCTTATCAAAAGTATCCTGCCAATAC
1 TCATAGAAATGATCATGTTTCACACTAACATAGGTGATCTCTTATCAAAAGTATCCTG-CAATAC
* * *
6538074 CCTATTTGATTTAATCAAGTTATAAGAATCATTAAAAGCATAGCTTAAGCTAACACTTTTGCA
65 CCTACTTGATTTAATCAAGCTATAAGAATCATTAAAAGCATAGCTTAACCTAACACTTTTGCA
* *
6538137 TCATAGAAATGATCATGTTTCACACTAACATAGGTGATCTCTTATCAAAAGTGTCTTGCAATACC
1 TCATAGAAATGATCATGTTTCACACTAACATAGGTGATCTCTTATCAAAAGTATCCTGCAATACC
*
6538202 TTACTTGATTTAATCAAGCTATAAGAATCATTAAAAGCATAGCTTAACCTAACACTTTTGCA
66 CTACTTGATTTAATCAAGCTATAAGAATCATTAAAAGCATAGCTTAACCTAACACTTTTGCA
* * * *
6538264 TCATAAAAATGATCATGTTTCACACTCATATAGGTGATATCTTATCAAAAGTATCCTGCAATACC
1 TCATAGAAATGATCATGTTTCACACTAACATAGGTGATCTCTTATCAAAAGTATCCTGCAATACC
* *
6538329 CTACTTGATTTAATCAAGCTATAAGAATAATTAAAAGCATAGCTTAACCTAATACTTTTGCA
66 CTACTTGATTTAATCAAGCTATAAGAATCATTAAAAGCATAGCTTAACCTAACACTTTTGCA
6538391 GGCAATACTG
Statistics
Matches: 237, Mismatches: 17, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
127 183 0.77
128 54 0.23
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (127 bp):
TCATAGAAATGATCATGTTTCACACTAACATAGGTGATCTCTTATCAAAAGTATCCTGCAATACC
CTACTTGATTTAATCAAGCTATAAGAATCATTAAAAGCATAGCTTAACCTAACACTTTTGCA
Found at i:6543550 original size:79 final size:79
Alignment explanation
Indices: 6543329--6543555 Score: 251
Period size: 79 Copynumber: 2.9 Consensus size: 79
6543319 GGATAACAAT
* * * *
6543329 GGGGCTGGAGTATCCTCGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCGGGGTTAGAGTAT
1 GGGGATGGAGTATCCTCGATTGTGA-AAAATCGATGTTTTAAAAATAAAATCGGGGTTAGAGTAT
***
6543393 CCTATCGAAAATAAC
65 CCCCGCGAAAATAAC
* * * * * **
6543408 AGGGATAGAGTATCCTTGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTAGAGTATC
1 GGGGATGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAAAAATAAAATCGGGGTTAGAGTATC
6543473 CCCGCGAAAATAAC
66 CCCGCGAAAATAAC
* * * * *
6543487 GGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAATTGGGATT-GAAGTAT
1 GGGGATGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAAAAATAAAATCGGGGTTAG-AGTAT
6543551 CCCCG
65 CCCCG
6543556 ATTGTGAGAA
Statistics
Matches: 120, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 1 0.01
79 118 0.98
80 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
GGGGATGGAGTATCCTCGATTGTGAAAAATCGATGTTTTAAAAATAAAATCGGGGTTAGAGTATC
CCCGCGAAAATAAC
Found at i:6543562 original size:130 final size:130
Alignment explanation
Indices: 6543416--6543686 Score: 355
Period size: 130 Copynumber: 2.1 Consensus size: 130
6543406 ACAGGGATAG
** * * * * *
6543416 AGTATCCTTGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTAGAGTATCCCCGCGAA
1 AGTATCCCCGATTGTGAAAAATCAAAGCTTTAGAAATAAAGCCGGGCTTAGAGTATCCCCGCGAA
* *
6543481 AATAACGGGG-TTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAATTGGGATTG
66 AATAA-GGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCGGGATTG
6543545 A
130 A
* * * * *
6543546 AGTATCCCCGATTGTGAGAAATCAAAGTTTTAGAAATAAAGCCGGGCTTGGAGTATCCTCTCGAA
1 AGTATCCCCGATTGTGAAAAATCAAAGCTTTAGAAATAAAGCCGGGCTTAGAGTATCCCCGCGAA
* * * *
6543611 AATAAGGGGATTGGAGTATCCCCGTTTATGAAAAATTGATGTTTTGAAAATAAAATCGGGGTTGG
66 AATAAGGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCGGGATTGA
*
6543676 AGTATTCCCGA
1 AGTATCCCCGA
6543687 GATGAAAAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
129 4 0.03
130 117 0.97
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (130 bp):
AGTATCCCCGATTGTGAAAAATCAAAGCTTTAGAAATAAAGCCGGGCTTAGAGTATCCCCGCGAA
AATAAGGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAATCGGGATTGA
Found at i:6543601 original size:51 final size:51
Alignment explanation
Indices: 6543486--6543603 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
6543476 GCGAAAATAA
* ** * *
6543486 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAAT
1 CGGGATTGGAGTATCCCCGATTGTGAAAAATCAAAGTTTTAAAAATAAAAC
* * * * *
6543537 TGGGATTGAAGTATCCCCGATTGTGAGAAATCAAAGTTTTAGAAATAAAGC
1 CGGGATTGGAGTATCCCCGATTGTGAAAAATCAAAGTTTTAAAAATAAAAC
*
6543588 CGGGCTTGGAGTATCC
1 CGGGATTGGAGTATCC
6543604 TCTCGAAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGATTGGAGTATCCCCGATTGTGAAAAATCAAAGTTTTAAAAATAAAAC
Found at i:6544006 original size:10 final size:10
Alignment explanation
Indices: 6543988--6544019 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6543978 TCACCTCAGA
6543988 AAAAATCTTG
1 AAAAATCTTG
*
6543998 AAAAGTCTTG
1 AAAAATCTTG
6544008 AAAAATCTTG
1 AAAAATCTTG
6544018 AA
1 AA
6544020 CTTGGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (10 bp):
AAAAATCTTG
Found at i:6546045 original size:20 final size:20
Alignment explanation
Indices: 6546020--6546074 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
6546010 ATATCGATAT
**
6546020 AATGTATCGATACAATGGAC
1 AATGTATCGATACAATAAAC
6546040 AATGTATCGATACAATAAAC
1 AATGTATCGATACAATAAAC
6546060 AATGTATCGATACAA
1 AATGTATCGATACAA
6546075 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAATAAAC
Found at i:6546782 original size:61 final size:61
Alignment explanation
Indices: 6546702--6547729 Score: 1216
Period size: 61 Copynumber: 16.8 Consensus size: 61
6546692 AAATAGGTCT
* * * * *
6546702 TGCTCCTTGGGGACTAGAAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * * **
6546763 TGTTCTTTGAGGGCTAGAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
6546824 TACTCTTTGAGGACTAGAATGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
6546885 TGCTCTTTGAGGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
6546947 TGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* *
6547008 TGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCT
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
6547069 TGCTCCTTCAGGACTTA-AAAGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGAC-TAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * ** *
6547130 TGTTCCTTGAGGACT-GAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGTATTC
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
** * *
6547191 TATTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCATTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
6547252 TGCTCTTTGAGGACTAG-AAGATGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAG-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
6547313 TACTCTTT-AGGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTGAAA-GACGAAGGTGTCC
1 TGCTCTTTGA-GGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCC
* * * * * *
6547375 TACTCTTTGAGGACT-GAAGGTACCACCAGCTTGTGTTGGCTTTAAAAGAAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
6547435 TACTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCT
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
6547496 TGCTCCTCGAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGACGTCC
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCC
* * *
6547558 TGCTCTTTAAGGACTAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * ** **
6547619 TGCTCTTTAAGGATTAGAAAAGTGCCACCAACTCGTATGGGCTTCGAAAGGCGAAGGCGTCC
1 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
6547681 TACTCTTTGAGGACTA-AAGGTACCACCAGCTTGTGTGGGCTTTGAAAGG
1 TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
6547730 CATCTTGCTC
Statistics
Matches: 848, Mismatches: 101, Indels: 37
0.86 0.10 0.04
Matches are distributed among these distances:
60 82 0.10
61 559 0.66
62 202 0.24
63 5 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (61 bp):
TGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:6547335 original size:306 final size:303
Alignment explanation
Indices: 6546702--6547729 Score: 1339
Period size: 306 Copynumber: 3.4 Consensus size: 303
6546692 AAATAGGTCT
* * * * * **
6546702 TGCTCCTTGGGGACTAG-AAGGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGCGTCTTGT
1 TGCTCTTTAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTAC
* * ** *
6546766 TCTTTGAGGGCTAGAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCGAAGGCGTCCTACTCTT
66 TCTTTGAGGACTA-AAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCT
* * * * * *
6546831 TGAGGACT-AGAATGTGCCATCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGA
130 TGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG-TTTCT-TTCCTTGA
* *
6546895 GGACTGAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCCTTGAGGA
192 GGACTG-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGA
* *
6546960 CT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
256 CTAGAAGA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * *
6547008 TGCTCCTT-GAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCTTG
1 TGCTCTTTAG-GGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTA
* * * * * **
6547071 CTCCTTCAGGACTTAAAAGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGCGTCCTGTTCC
65 CTCTTTGAGGAC-TAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCC
*
6547136 TTGAGGACTGAAAAGTGCCACCAATTTGTGTGGGCTTTAAAAGGAAAAGGTATTCTATTCCTTGA
129 TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGT-TTCT-TTCCTTGA
*
6547201 GGACTGAAAAGTGCCACCAACTTGTGTGGGCATTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC
192 GGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGAC
*
6547266 TAGAAGATGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCC
257 TAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * *
6547313 TACTCTTTAGGGACTAGAAAAGTACCACCAACTTGTGTGGGCTTTGAAA-GACGAAGGTGTCCTA
1 TGCTCTTTAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCGTCCTA
* * * *
6547377 CTCTTTGAGGACTGAAGGTACCACCAGCTTGTGTTGGCTTTAAAAGAAAAAGGCGTCCTACTCCT
65 CTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCT
* *
6547442 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCCTCGAG
130 TGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTTTCTT--TCCTTGAG
* * *
6547507 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGACGTCCTGCTCTTTAAGGAC
193 GACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCGTCCTGCTCTTTGAGGAC
* *
6547572 TAGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
257 TAGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * * ** **
6547619 TGCTCTTTAAGGATTAGAAAAGTGCCACCAACTCGTATGGGCTTCGAAAGGCGAAGGCGTCCTAC
1 TGCTCTTTAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTAC
* *
6547684 TCTTTGAGGACTAAAGGTACCACCAGCTTGTGTGGGCTTTGAAAGG
66 TCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGG
6547730 CATCTTGCTC
Statistics
Matches: 640, Mismatches: 69, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
303 1 0.00
304 3 0.00
305 249 0.39
306 383 0.60
307 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (303 bp):
TGCTCTTTAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTAC
TCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCTT
GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTTTCTTTCCTTGAGGAC
TGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGA
AGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
Found at i:6547863 original size:100 final size:93
Alignment explanation
Indices: 6547675--6547865 Score: 231
Period size: 100 Copynumber: 2.0 Consensus size: 93
6547665 AAAGGCGAAG
* *
6547675 GCGTCCTACTCTTTGAGGACTAAAGGTACCACCAGCTTGTGTGGGCTTTGAAAGGCATCTTGCTC
1 GCGTCCTACTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTC
6547740 TTTGAGGACTAAAGAGTGAAAGGAGAGA
66 TTTGAGGACTAAAGAGTGAAAGGAGAGA
* ** * *
6547768 GCGTCCTGCTCTTTGAGGACTGGGAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCCTACTCTTTGAGGACT-AAAGGTACCACCAACTTGTGTGGGCTTT-----GA-AAGGCAT
*
6547833 CCTGCTCTTTGAGGATTGAAAG-GTGAAAGGAGA
59 CCTGCTCTTTGAGGACT-AAAGAGTGAAAGGAGA
6547866 AAGTTTAGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
93 20 0.24
94 24 0.29
99 2 0.02
100 32 0.39
101 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (93 bp):
GCGTCCTACTCTTTGAGGACTAAAGGTACCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTC
TTTGAGGACTAAAGAGTGAAAGGAGAGA
Found at i:6548813 original size:12 final size:11
Alignment explanation
Indices: 6548784--6548835 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
6548774 CTTAAGCATG
*
6548784 TTTTTTTTTCT
1 TTTTTTTTTGT
*
6548795 CTCTTTTTTTGT
1 -TTTTTTTTTGT
6548807 TGTTTTTTTTGT
1 T-TTTTTTTTGT
*
6548819 TTTGTTTTTGT
1 TTTTTTTTTGT
6548830 TTTTTT
1 TTTTTT
6548836 AAAAAAGAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 15 0.44
12 19 0.56
ACGTcount: A:0.00, C:0.06, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTGT
Found at i:6548821 original size:17 final size:17
Alignment explanation
Indices: 6548801--6548833 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6548791 TTCTCTCTTT
6548801 TTTTGTTGTTT-TTTTTG
1 TTTTGTT-TTTGTTTTTG
6548818 TTTTGTTTTTGTTTTT
1 TTTTGTTTTTGTTTTT
6548834 TTAAAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTTGTTTTTGTTTTTG
Found at i:6559253 original size:79 final size:79
Alignment explanation
Indices: 6559121--6559266 Score: 181
Period size: 79 Copynumber: 1.8 Consensus size: 79
6559111 ATAAAATCGA
* ** * *
6559121 GGTTGGAGTATCCCCGATTGTAGAAAATCGATGCTTTAGAAATAAGGCTGGGGTTGGGGTATTCC
1 GGTTGGAGTATCCCCGATTGTAGAAAATAGATGCTTTAGAAATAAGAATGGGGTTGGAGTATCCC
6559186 CGTGAAAATAACGG
66 CGTGAAAATAACGG
* *
6559200 GGTTGGAGTATCTCCGATTGT-GAAAAATTAG-TGTTTTAGAAATAA-AATAGGGGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTGTAG-AAAA-TAGATGCTTTAGAAATAAGAAT-GGGGTTGGAGTAT
6559262 CCCCG
63 CCCCG
6559267 ATTGTGAGAA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
78 2 0.04
79 53 0.93
80 2 0.04
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTGTAGAAAATAGATGCTTTAGAAATAAGAATGGGGTTGGAGTATCCC
CGTGAAAATAACGG
Found at i:6559268 original size:51 final size:51
Alignment explanation
Indices: 6559198--6559315 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
6559188 TGAAAATAAC
* * * * *
6559198 GGGGTTGGAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATA
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
* * *
6559249 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
6559300 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
6559316 TTCGAAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACA
Found at i:6559304 original size:130 final size:128
Alignment explanation
Indices: 6559067--6559397 Score: 393
Period size: 130 Copynumber: 2.5 Consensus size: 128
6559057 GGGATAACAT
* * * *
6559067 CGGGGCTGGAGTATCTCTGATTAT-AGAAAATCGGTGTTTTGAAAATAAAATCGAGGTTGGAGTA
1 CGGGGTTGGAGTATCTCCGATTATGA-AAAAT-TGTGTTTTG-AAATAAAATAGAGGTTGGAGTA
* * * * *
6559131 TCCCCGATTGTAGAAAATCGATGCTTTAGAAATAAGGCTGGGGTTGGGGTATTCCCGT-GAAAAT
63 TCCCCGATTGTAGAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTA-TCCCGTCGAAAAT
6559195 AA
127 AA
* *
6559197 CGGGGTTGGAGTATCTCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATAGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCTCCGATTATGAAAAATT-GTGTTTT-GAAATAAAATAGAGGTTGGAGTAT
* *
6559262 CCCCGATTGT-GAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCTTCGAAAATA
64 CCCCGATTGTAGA-AAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCGTCGAAAATA
6559326 A
128 A
* *
6559327 -GGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGAAA-AAAAAACCGAGGTTGGAGT
1 CGGGG-TTGGAGTATCTCCGATTATGAAAAATTG-TGTTTTGAAATAAAATA--GAGGTTGGAGT
6559390 ATCCCCGA
62 ATCCCCGA
6559398 GATGAAAAAT
Statistics
Matches: 175, Mismatches: 17, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
128 5 0.03
129 16 0.09
130 152 0.87
131 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.28
Consensus pattern (128 bp):
CGGGGTTGGAGTATCTCCGATTATGAAAAATTGTGTTTTGAAATAAAATAGAGGTTGGAGTATCC
CCGATTGTAGAAAATCAATACTTTAGAAATAAAGCCGGGGTTGGAGTATCCCGTCGAAAATAA
Found at i:6559385 original size:79 final size:77
Alignment explanation
Indices: 6559243--6559394 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 77
6559233 TTTTAGAAAT
* * * * *
6559243 AAAATAGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGG
1 AAAATAGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAAAAAAACCGAGGTTGG
6559308 AGTATCCCTTCG
66 AGTATCCCTTCG
** *
6559320 AAAATAAGGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAAAAAAACCGAGGT
1 AAAAT-AGGGG-TTGGAGTATCCCCGATTATGAAAAATCAATATTTTAG-AAAAAAAACCGAGGT
6559384 TGGAGTATCCC
63 TGGAGTATCCC
6559395 CGAGATGAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 5 0.08
78 6 0.09
79 53 0.83
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (77 bp):
AAAATAGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAAAAAAACCGAGGTTGG
AGTATCCCTTCG
Found at i:6561418 original size:21 final size:21
Alignment explanation
Indices: 6561394--6561470 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
6561384 AAAATTTCCA
6561394 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
6561415 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
6561436 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
6561457 AATGTATCGATACA
1 AATGTATCGATACA
6561471 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:6561530 original size:19 final size:19
Alignment explanation
Indices: 6561506--6561573 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
6561496 AATTCAACAA
6561506 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
6561525 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
6561540 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
6561557 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
6561574 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:6561545 original size:13 final size:13
Alignment explanation
Indices: 6561527--6561551 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6561517 ACATAAGTTT
6561527 TGTATCGATACAA
1 TGTATCGATACAA
6561540 TGTATCGATACA
1 TGTATCGATACA
6561552 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6561549 original size:32 final size:32
Alignment explanation
Indices: 6561508--6561570 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6561498 TTCAACAATT
*
6561508 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
6561540 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
6561571 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:6561617 original size:20 final size:20
Alignment explanation
Indices: 6561592--6561647 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
6561582 TGCCAAGGAA
*
6561592 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTATCT
**
6561612 ATGTATCGATACATGGATCT
1 ATGTATCGATACATTTATCT
*
6561632 TTGTATCGATACATTT
1 ATGTATCGATACATTT
6561648 GGAAATTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTATCT
Found at i:6564318 original size:52 final size:51
Alignment explanation
Indices: 6563991--6564323 Score: 199
Period size: 51 Copynumber: 6.4 Consensus size: 51
6563981 AATTCTCCAC
* * * * *
6563991 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTC-AT
* * *
6564042 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC--AAAATACCAATTT-TTCAT
* * * **** ****
6564096 AATCGGGGACACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTCAT
1 AATCGGGGATACTCCAACCCCGATTTTAT-TTCCAAAATA--CCAA-TTTTTCAT
* * ***
6564149 -TTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCAT
1 AAT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCAT
* * ** * * *
6564202 AATCGGGGATACTCTAACCCCGGTTTT-TTTTTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTC-AT
* * *
6564253 AATCGGGGATACTCCAACACCAATTTTATTTCCAAAAATACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAATACCAATTTTTCAT
*
6564305 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
6564324 TCGTTATTTC
Statistics
Matches: 208, Mismatches: 57, Indels: 33
0.70 0.19 0.11
Matches are distributed among these distances:
50 14 0.07
51 77 0.37
52 25 0.12
53 38 0.18
54 25 0.12
55 20 0.10
56 5 0.02
57 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCAT
Found at i:6564342 original size:28 final size:28
Alignment explanation
Indices: 6564306--6564387 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
6564296 ATTTTTCACA
* *
6564306 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
6564334 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
6564362 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
6564388 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:6564397 original size:210 final size:212
Alignment explanation
Indices: 6563991--6564412 Score: 584
Period size: 210 Copynumber: 2.0 Consensus size: 212
6563981 AATTCTCCAC
* * *
6563991 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* * *
6564056 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 CAACACCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * *
6564121 ATCATCGGGGATACTCCAACCCCGTCATTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAA
131 ATCATCGGGGATACTCCAACCCCGTCACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
* *
6564186 AATATT-GATTTTTCAT
196 AACATTAAATTTTTCAT
* * * *
6564202 AATCGGGGATACTCTAACCCCGGTTTT-TTTTTAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * *
6564266 CCAACACCAATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
65 CCAACACCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
* * *
6564329 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCG-TTATTATCTC
130 A-ATCATCGGGGATACTCCAACCCCGTCACTTCCGAGGGAACACTCCAACCCCGACT-TTATCTC
6564393 CAAAACATTAAATTTTTCAT
193 CAAAACATTAAATTTTTCAT
6564413 CGGGAAATAT
Statistics
Matches: 185, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
209 28 0.15
210 91 0.49
211 66 0.36
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (212 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACACCAATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTCACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AACATTAAATTTTTCAT
Found at i:6576801 original size:6 final size:6
Alignment explanation
Indices: 6576786--6576848 Score: 71
Period size: 6 Copynumber: 10.7 Consensus size: 6
6576776 ACCTTCTCTT
6576786 CAAAAA -AAAAA CAAAAA CAAAAAAA CAAAAA CAAAAA -AAAAA C-AAAA
1 CAAAAA CAAAAA CAAAAA C--AAAAA CAAAAA CAAAAA CAAAAA CAAAAA
6576833 CAAAAA -ACAAAA CAAA
1 CAAAAA CA-AAAA CAAA
6576849 GAAAAAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
5 16 0.32
6 27 0.54
7 1 0.02
8 6 0.12
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:6576808 original size:17 final size:17
Alignment explanation
Indices: 6576786--6576848 Score: 89
Period size: 14 Copynumber: 3.9 Consensus size: 17
6576776 ACCTTCTCTT
6576786 CAAAAAAAAAACAAAAA
1 CAAAAAAAAAACAAAAA
6576803 C---AAAAAAACAAAAA
1 CAAAAAAAAAACAAAAA
6576817 CAAAAAAAAAAC-AAAA
1 CAAAAAAAAAACAAAAA
6576833 CAAAAAACAAAACAAA
1 CAAAAAA-AAAACAAA
6576849 GAAAAAGAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
14 14 0.34
16 11 0.27
17 14 0.34
18 2 0.05
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAACAAAAA
Found at i:6576824 original size:31 final size:28
Alignment explanation
Indices: 6576786--6576854 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
6576776 ACCTTCTCTT
6576786 CAAAAAAAAAACAAAAACAAAAAAACAAAAA
1 CAAAAAAAAAAC-AAAAC-AAAAAAC-AAAA
6576817 CAAAAAAAAAACAAAACAAAAAACAAAA
1 CAAAAAAAAAACAAAACAAAAAACAAAA
*
6576845 CAAAGAAAAA
1 CAAAAAAAAA
6576855 GAGAGAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
28 13 0.35
29 7 0.19
30 5 0.14
31 12 0.32
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (28 bp):
CAAAAAAAAAACAAAACAAAAAACAAAA
Found at i:6576854 original size:17 final size:16
Alignment explanation
Indices: 6576786--6576848 Score: 85
Period size: 17 Copynumber: 3.9 Consensus size: 16
6576776 ACCTTCTCTT
6576786 CAAAAAAAAAAC-AAA
1 CAAAAAAAAAACAAAA
*
6576801 -AACAAAAAAACAAAAA
1 CAAAAAAAAAAC-AAAA
6576817 CAAAAAAAAAACAAAA
1 CAAAAAAAAAACAAAA
6576833 CAAAAAACAAAACAAA
1 CAAAAAA-AAAACAAA
6576849 GAAAAAGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 10 0.24
16 14 0.33
17 18 0.43
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAACAAAA
Found at i:6576869 original size:1 final size:1
Alignment explanation
Indices: 6576787--6576854 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
6576777 CCTTCTCTTC
* * * * * * * * *
6576787 AAAAAAAAAACAAAAACAAAAAAACAAAAACAAAAAAAAAACAAAACAAAAAACAAAACAAAGAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6576852 AAA
1 AAA
6576855 GAGAGAAAAG
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.87, C:0.12, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:6577980 original size:59 final size:59
Alignment explanation
Indices: 6577838--6578536 Score: 662
Period size: 55 Copynumber: 12.3 Consensus size: 59
6577828 TCCGCTTTTT
* * **
6577838 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCACACATGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
* *
6577900 AGTCCTCAAAGAGCGGGACGCCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
6577959 AGTCCTCAAAGAACGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
6578018 AGTCCTCAAAAAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
6578077 AGTCCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGCCCACCCGAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
6578136 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
6578197 AGTCCCCAAAGAGCAGGACACC---TC--TCAAAGCCCACACAAGTTGGTGGCACCTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* ** **
6578252 AGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
* ** * **
6578307 AGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTAGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * *
6578362 AGTCTTCAAAGAGTAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG------C
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * **
6578410 A-TCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACATAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * * *
6578464 AGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
6578519 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
6578537 TACGCTTTAT
Statistics
Matches: 571, Mismatches: 43, Indels: 53
0.86 0.06 0.08
Matches are distributed among these distances:
45 2 0.00
47 38 0.07
48 2 0.00
53 1 0.00
54 8 0.01
55 217 0.38
56 6 0.01
57 2 0.00
58 2 0.00
59 198 0.35
60 47 0.08
61 24 0.04
62 24 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:6578051 original size:118 final size:118
Alignment explanation
Indices: 6577838--6578536 Score: 662
Period size: 118 Copynumber: 6.2 Consensus size: 118
6577828 TCCGCTTTTT
* * **
6577838 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCACACATGTTGGTGGCATTTTCCAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* *
6577903 CCTCAAAGAGCGGGACGCCTTTTCTATTAAAGCCCACACAAGTTGGTGGCACCTTC
63 CCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
6577959 AGTCCTCAAAGAACGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* *
6578024 CAAAAAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
66 CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
6578077 AGTCCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGCCCACCCGAGTTGGTGGCACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* * *
6578142 CAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT
66 CAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
6578197 AGTCCCCAAAGAGCAGGACACC---TC--TCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCC
* ** **
6578257 CCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTC
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC
* ** * ** *
6578307 AGTCCCCAAAGAGCAGGAC-CC----CTTTCGAAGCCCACACAAGTTAGTGGCATTTTCCAGTCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCC
* *
6578367 TCAAAGAGTAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG------C
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * **
6578410 A-TCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCC
* * * *
6578469 TCAAAGAGCAGGACACC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
6578519 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
6578537 TACGCTTTAT
Statistics
Matches: 506, Mismatches: 51, Indels: 53
0.83 0.08 0.09
Matches are distributed among these distances:
102 87 0.17
103 4 0.01
104 1 0.00
108 1 0.00
109 5 0.01
110 118 0.23
111 6 0.01
114 1 0.00
115 25 0.05
116 19 0.04
117 1 0.00
118 140 0.28
119 49 0.10
120 26 0.05
121 23 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (118 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:6578218 original size:26 final size:26
Alignment explanation
Indices: 6578189--6578276 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
6578179 AAGTTGGTGG
6578189 CACCTTTTAGTCCCCAAAGAGCAGGA
1 CACCTTTTAGTCCCCAAAGAGCAGGA
** * **
6578215 CACCTCTCAAAG-CCCACACAAGTTGGTGG-
1 CACCT-T-TTAGTCCC-CA-AAG-AGCAGGA
6578244 CACCTTTTAGTCCCCAAAGAGCAGGA
1 CACCTTTTAGTCCCCAAAGAGCAGGA
*
6578270 CCCCTTT
1 CACCTTT
6578277 CGAAGCCCAC
Statistics
Matches: 44, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
25 3 0.07
26 14 0.32
27 8 0.18
28 8 0.18
29 8 0.18
30 3 0.07
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.20
Consensus pattern (26 bp):
CACCTTTTAGTCCCCAAAGAGCAGGA
Found at i:6578248 original size:29 final size:28
Alignment explanation
Indices: 6578165--6578249 Score: 70
Period size: 28 Copynumber: 3.1 Consensus size: 28
6578155 GCTTTTTCTT
6578165 TTCAAAGCCCACACAAGTTGGTGGCACC
1 TTCAAAGCCCACACAAGTTGGTGGCACC
** * **
6578193 TT-TTAGTCCC-CA-AAG-AGCAGGACACC
1 TTCAAAG-CCCACACAAGTTGGTGG-CACC
6578219 TCTCAAAGCCCACACAAGTTGGTGGCACC
1 T-TCAAAGCCCACACAAGTTGGTGGCACC
6578248 TT
1 TT
6578250 TTAGTCCCCA
Statistics
Matches: 40, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
25 3 0.08
26 8 0.20
27 8 0.20
28 10 0.25
29 8 0.20
30 3 0.08
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (28 bp):
TTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:6578259 original size:29 final size:29
Alignment explanation
Indices: 6578172--6578259 Score: 67
Period size: 29 Copynumber: 3.1 Consensus size: 29
6578162 CTTTTCAAAG
6578172 CCCACACAAGTTGGTGGCACCTTTTAGTC
1 CCCACACAAGTTGGTGGCACCTTTTAGTC
** * * * ***
6578201 CCCA-A-AGAG-CAG-GACACCTCTCAAAG
1 CCCACACA-AGTTGGTGGCACCTTTTAGTC
6578227 CCCACACAAGTTGGTGGCACCTTTTAGTC
1 CCCACACAAGTTGGTGGCACCTTTTAGTC
6578256 CCCA
1 CCCA
6578260 AAGAGCAGGA
Statistics
Matches: 38, Mismatches: 16, Indels: 10
0.59 0.25 0.16
Matches are distributed among these distances:
26 12 0.32
27 5 0.13
28 5 0.13
29 16 0.42
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.20
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTTAGTC
Found at i:6580233 original size:51 final size:50
Alignment explanation
Indices: 6580173--6580342 Score: 178
Period size: 52 Copynumber: 3.3 Consensus size: 50
6580163 TCATTTCCGA
* * *
6580173 GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAATAATAATTTTTCATAATC
* * * * * *
6580224 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACAACAATTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAATAATAATTTTTC-ATAATC
* * *
6580276 GGGGATACTCCAACACCGATTTTATTTCCAAAAATACTAAATTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTATTTCC-AAAATAATAATTTTTCATAATC
*
6580328 GAGGATACTCCAACC
1 GGGGATACTCCAACC
6580343 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
51 35 0.36
52 50 0.52
53 11 0.11
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAATAATAATTTTTCATAATC
Found at i:6580363 original size:28 final size:28
Alignment explanation
Indices: 6580332--6580406 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
6580322 ACAATCGAGG
* *
6580332 ATACTCCAACCTCGTTATTTCAT-CGGGA
1 ATACTCCAACCCCGTTATTTC-TGAGGGA
*
6580360 ATACTCCAACCCCGTTACTTCTGAGGGA
1 ATACTCCAACCCCGTTATTTCTGAGGGA
*
6580388 ACACTCCAACCCCGTTATT
1 ATACTCCAACCCCGTTATT
6580407 ATCTCCAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.28
Consensus pattern (28 bp):
ATACTCCAACCCCGTTATTTCTGAGGGA
Found at i:6581778 original size:13 final size:13
Alignment explanation
Indices: 6581760--6581789 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6581750 GTAAACCCTG
*
6581760 AATGTATCGATGC
1 AATGTATCGATAC
6581773 AATGTATCGATAC
1 AATGTATCGATAC
6581786 AATG
1 AATG
6581790 AACAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:6583989 original size:26 final size:26
Alignment explanation
Indices: 6583931--6583983 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
6583921 TTTATAAAGA
*
6583931 TAGGATTGATAAAGTTTAACTTTATT
1 TAGGATTGATAAAGTTGAACTTTATT
6583957 TAGGATTGATAAAGTTGAACTTTATT
1 TAGGATTGATAAAGTTGAACTTTATT
6583983 T
1 T
6583984 GAGATTCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (26 bp):
TAGGATTGATAAAGTTGAACTTTATT
Found at i:6585183 original size:252 final size:255
Alignment explanation
Indices: 6584692--6585196 Score: 648
Period size: 252 Copynumber: 2.0 Consensus size: 255
6584682 TAACCAAATC
* *
6584692 ATTTTATACCTACAAGGTGTTCGGGTTAAAATAGACAATGAAGATTAAGCTATCATTCTTTTATG
1 ATTTTATACCTACAAGGTGTTCGGGTTAAAATAGACAATGAAGATCAAGCTATCACTCTTTTATG
* * *
6584757 TTTCTTGCCGAGCTTATATGAGAATTTTGTTAATACTATGCTATATGGTAGAGATAGTATTCCTA
66 TTCCTTACCGAGCTTATATGAGAATTTTGTTAATACTATACTATATGGT--A-ATA-TATT-CTA
* ** * *
6584822 TTAGTGATGTGAAGGATGCTACGCAGTTTAAAGAATTGAAGAGACAAGTCTTTGGTTCTAATAAA
126 GTAACGATGTGAAGGATGCTACGCAATTTAAAGAATTAAAGAGACAAGTCTTTGGTTCTAATAAA
* * *
6584887 GATGATGTAGAAGTAGATCTAGTTGTTAGCAGAGGTAGGAACAAGGAAAGGGATGGTGCTGAATT
191 GATGATGTAGAAGTAGATCTAATTGCTAGCAGAGGTAGGAACAAGGAAAGAGATGGTGCTGAATT
* *
6584952 ATTTTATACCTACAAGGTGTT-GAGGTTAAAATAGATAATGAGGATCAAGCTATCACTC-TTTAT
1 ATTTTATACCTACAAGGTGTTCG-GGTTAAAATAGACAATGAAGATCAAGCTATCACTCTTTTAT
* * *
6585015 GTTCCTTACC-AGGTTCATATGAGAATTTTGTTGATACTATACTATATGGT-AT-T-TT-TGGTA
65 GTTCCTTACCGAGCTT-ATATGAGAATTTTGTTAATACTATACTATATGGTAATATATTCTAGTA
* * *
6585075 ACGATGTGAAGGATGCTATGCAATTTAATTTGAATTAAAGAGACAAGTCTTTGGTTCTAATGAAG
129 ACGATGTGAAGGATGCTACGCAATTTAA--AGAATTAAAGAGACAAGTCTTTGGTTCTAATAAAG
* * *
6585140 ATGGTGTAGAAGTA-AGTCTAATTGCTAGTAGAGGTAGGAACAAGGAATGAGATGGTG
192 ATGATGTAGAAGTAGA-TCTAATTGCTAGCAGAGGTAGGAACAAGGAAAGAGATGGTG
6585197 GCAACAGAGG
Statistics
Matches: 216, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
250 27 0.12
251 1 0.00
252 83 0.38
253 1 0.00
255 2 0.01
258 4 0.02
259 46 0.21
260 52 0.24
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.34
Consensus pattern (255 bp):
ATTTTATACCTACAAGGTGTTCGGGTTAAAATAGACAATGAAGATCAAGCTATCACTCTTTTATG
TTCCTTACCGAGCTTATATGAGAATTTTGTTAATACTATACTATATGGTAATATATTCTAGTAAC
GATGTGAAGGATGCTACGCAATTTAAAGAATTAAAGAGACAAGTCTTTGGTTCTAATAAAGATGA
TGTAGAAGTAGATCTAATTGCTAGCAGAGGTAGGAACAAGGAAAGAGATGGTGCTGAATT
Found at i:6586134 original size:2 final size:2
Alignment explanation
Indices: 6586127--6586158 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6586117 TTGCTAAGGG
6586127 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6586159 AACGTGACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6586518 original size:21 final size:21
Alignment explanation
Indices: 6586472--6586518 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6586462 TTATTTTTTT
*
6586472 AAAAAAATATCTTTTTTTAAG
1 AAAAAAATATATTTTTTTAAG
*
6586493 TAAAAAATATATTTTTTATAA-
1 AAAAAAATATATTTTTT-TAAG
6586514 AAAAA
1 AAAAA
6586519 TTCCCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAAAAATATATTTTTTTAAG
Found at i:6588041 original size:19 final size:18
Alignment explanation
Indices: 6588017--6588061 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
6588007 AAATTAGATT
*
6588017 AAATTTAAATTATTTATTA
1 AAATTTAAATTAATT-TTA
*
6588036 AAATTTAATTTAATTTTA
1 AAATTTAAATTAATTTTA
*
6588054 AAAATTAA
1 AAATTTAA
6588062 TAATTTACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATTTAAATTAATTTTA
Found at i:6588045 original size:18 final size:18
Alignment explanation
Indices: 6588017--6588068 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
6588007 AAATTAGATT
6588017 AAATTTAAATTATTTATTA
1 AAATTT-AATTATTTATTA
*
6588036 AAATTTAATTTAATT-TTA
1 AAATTTAA-TTATTTATTA
* *
6588054 AAAATTAATAATTTA
1 AAATTTAATTATTTA
6588069 CATTCAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTTAATTATTTATTA
Found at i:6590818 original size:18 final size:19
Alignment explanation
Indices: 6590782--6590819 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
6590772 TTTTTCACGC
*
6590782 TGCTTGCTCATTTTTCTGT
1 TGCTTGCTCATTTTGCTGT
*
6590801 TGCTTGCT-GTTTTGCTGT
1 TGCTTGCTCATTTTGCTGT
6590819 T
1 T
6590820 TGTTGTGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.03, C:0.18, G:0.21, T:0.58
Consensus pattern (19 bp):
TGCTTGCTCATTTTGCTGT
Found at i:6591243 original size:98 final size:98
Alignment explanation
Indices: 6591100--6591290 Score: 310
Period size: 98 Copynumber: 1.9 Consensus size: 98
6591090 TTTTTTTTGC
* **
6591100 TGTTACAGCTGCCCATCCTCTCCTTCATCATTTTCTCCACGTTACTTTAGCTATGGTTGCTTCAC
1 TGTTACAGCTGCCCATCCTCTCCTTCATCATTTGCTCCACGTTACTTTAGCTATGGCCGCTTCAC
* *
6591165 GTTGCCCTCATTCTTCTTTGTTGTGATGTTGTT
66 ATTGCCCCCATTCTTCTTTGTTGTGATGTTGTT
* * *
6591198 TGTTGCAGCTGCCCATGCTCTTCTTCATCATTTGCTCCACGTTACTTTAGCTATGGCCGCTTCAC
1 TGTTACAGCTGCCCATCCTCTCCTTCATCATTTGCTCCACGTTACTTTAGCTATGGCCGCTTCAC
6591263 ATTGCCCCCATTCTTCTTTGTTGTGATG
66 ATTGCCCCCATTCTTCTTTGTTGTGATG
6591291 CTATCTGTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 85 1.00
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (98 bp):
TGTTACAGCTGCCCATCCTCTCCTTCATCATTTGCTCCACGTTACTTTAGCTATGGCCGCTTCAC
ATTGCCCCCATTCTTCTTTGTTGTGATGTTGTT
Found at i:6591759 original size:19 final size:18
Alignment explanation
Indices: 6591730--6591778 Score: 80
Period size: 19 Copynumber: 2.7 Consensus size: 18
6591720 CTTGCACATG
6591730 AATGCATGAAATGAAAGC
1 AATGCATGAAATGAAAGC
*
6591748 AATGCAATGAAATGAATGC
1 AATGC-ATGAAATGAAAGC
6591767 AATGCATGAAAT
1 AATGCATGAAAT
6591779 CGAAGTATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 12 0.41
19 17 0.59
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.20
Consensus pattern (18 bp):
AATGCATGAAATGAAAGC
Found at i:6591910 original size:14 final size:15
Alignment explanation
Indices: 6591890--6591924 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
6591880 TTTTTTTAAA
6591890 AATTTTAATTTTTTT
1 AATTTTAATTTTTTT
6591905 -ATTTTAATTTTTTT
1 AATTTTAATTTTTTT
6591919 AATTTT
1 AATTTT
6591925 TTGTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
AATTTTAATTTTTTT
Found at i:6591942 original size:22 final size:23
Alignment explanation
Indices: 6591894--6591942 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
6591884 TTTAAAAATT
*
6591894 TTAATTTTTTTATTTTAATTTTT
1 TTAATTTTTTTATTTTAATTTTA
*
6591917 TTAA-TTTTTTGTTTT-ATTATTA
1 TTAATTTTTTTATTTTAATT-TTA
6591939 TTAA
1 TTAA
6591943 AAAAAGAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TTAATTTTTTTATTTTAATTTTA
Found at i:6593101 original size:62 final size:63
Alignment explanation
Indices: 6592750--6593155 Score: 255
Period size: 62 Copynumber: 6.6 Consensus size: 63
6592740 AGATAAGAAG
* * * * * * * * *
6592750 AGTGCCAATGTGCTAATTCAAGGCTAGCGACATTAGA-TTTAAAAATGAGAAGAACA--ATAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAA-ATGATAAA
* ** * * * *
6592811 AGTGCCAATATGTCGATTCAAGGCCAATGATATTCGACCTG-AATATGCAAAGAAATGATAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAAATGATAAA
* * * * * ** *
6592873 GGTGCCGATATGTTGATTCATGACCAGCGATATCGGACTTG-AAGATGAGGAG-AATGGT--A
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAAATGATAAA
* * * * * *
6592932 AGTGCCATTATGCTAATTCAAGGCTAGCGATATTAGACTT-AAAGATGCAAAGAAATGATAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAAATGATAAA
* * * * * * * * *
6592994 AGTGTCGATATGCTAATTCACGGCCAGCGATATTGGGCTTAAAAGATGAAAAG-AACGGTAAA
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAAATGATAAA
* * * * **
6593056 GGTGCCAATATGTTGATACAAGGCCAACGATATTGGGCTTGAAAGA--AAGAAGATTTGAT--A
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAA-AAGAAATGATAAA
* * * *
6593116 AGTGCCAATGTGTTGATTCAAGGCCAACAACATTGGACTT
1 AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTT
6593156 AGAAGAGTTG
Statistics
Matches: 263, Mismatches: 72, Indels: 21
0.74 0.20 0.06
Matches are distributed among these distances:
59 39 0.15
60 43 0.16
61 46 0.17
62 124 0.47
63 11 0.04
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (63 bp):
AGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAAGATGAAAAGAAATGATAAA
Found at i:6593106 original size:121 final size:123
Alignment explanation
Indices: 6592750--6593098 Score: 344
Period size: 121 Copynumber: 2.8 Consensus size: 123
6592740 AGATAAGAAG
* * * * * * **
6592750 AGTGCCAATGTGCTAATTCAAGGCTAGCGACATTAGATTTAAAA-ATGAGAAGAACAATAAAAGT
1 AGTGCCGATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAAGATGAGAAGAACGGT-AAAGT
* * * * *
6592814 GCCAATATGTCGATTCAAGGCCAATGATATTCGACCTGAATATGCAAAGAAATGATAAA
65 GCCAATATGTTGATTCAAGGCCAACGATATTAGACTTGAAGATGCAAAGAAATGATAAA
* * * * * * * * *
6592873 GGTGCCGATATGTTGATTCATGACCAGCGATATCGGACTT-GAAGATGAGGAGAATGGT-AAGTG
1 AGTGCCGATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAAGATGAGAAGAACGGTAAAGTG
* * * * * *
6592936 CCATTATGCTAATTCAAGGCTAGCGATATTAGACTTAAAGATGCAAAGAAATGATAAA
66 CCAATATGTTGATTCAAGGCCAACGATATTAGACTTGAAGATGCAAAGAAATGATAAA
* * * *
6592994 AGTGTCGATATGCTAATTCACGGCCAGCGATATTGGGCTTAAAAGATGAAAAGAACGGTAAAGGT
1 AGTGCCGATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAAGATGAGAAGAACGGTAAA-GT
* * *
6593059 GCCAATATGTTGATACAAGGCCAACGATATTGGGCTTGAA
65 GCCAATATGTTGATTCAAGGCCAACGATATTAGACTTGAA
6593099 AGAAAGAAGA
Statistics
Matches: 173, Mismatches: 49, Indels: 7
0.76 0.21 0.03
Matches are distributed among these distances:
121 84 0.49
122 16 0.09
123 40 0.23
124 33 0.19
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (123 bp):
AGTGCCGATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAAGATGAGAAGAACGGTAAAGTG
CCAATATGTTGATTCAAGGCCAACGATATTAGACTTGAAGATGCAAAGAAATGATAAA
Found at i:6593313 original size:33 final size:30
Alignment explanation
Indices: 6593235--6593378 Score: 92
Period size: 32 Copynumber: 4.5 Consensus size: 30
6593225 GTTGCCACTA
** *
6593235 ACTTGTGTGGGCTTTTGAAGGGTTGTCACTG
1 ACTTGTGT-GGCTTTTGAAGGGTTCCCACCG
6593266 ACTTGTGTGAGCTTTTGAAGGAGATTCCCACCG
1 ACTTGTGTG-GCTTTTGAAGG-G-TTCCCACCG
* * *
6593299 ACTTGTGTAGGC-TTTGAAGAAAGGTTGCCATCA
1 ACTTGTGT-GGCTTTTGAAG---GGTTCCCACCG
* * * *
6593332 ACTTGTGTGGGGTTTGAGAAGGGTTGCCACCA
1 ACTTGTGT-GGCTTT-TGAAGGGTTCCCACCG
6593364 ACTTGTGTGGGCTTT
1 ACTTGTGT-GGCTTT
6593379 GAAAGGAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
30 1 0.01
31 19 0.20
32 32 0.34
33 32 0.34
34 4 0.04
35 5 0.05
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (30 bp):
ACTTGTGTGGCTTTTGAAGGGTTCCCACCG
Found at i:6593380 original size:32 final size:31
Alignment explanation
Indices: 6593154--6593378 Score: 189
Period size: 31 Copynumber: 7.1 Consensus size: 31
6593144 AACATTGGAC
* * *
6593154 TTAGAAGAGTTGCCACCGACTTGTATGGGCT
1 TTAGAAGGGTTGCCACCAACTTGTGTGGGCT
* * * **
6593185 TTAGAAAAGGTTACCAACAGTTTGTGTGGGCT
1 TTAG-AAGGGTTGCCACCAACTTGTGTGGGCT
* * *
6593217 TTAAAAGTGTTGCCACTAACTTGTGTGGGCT
1 TTAGAAGGGTTGCCACCAACTTGTGTGGGCT
* * ** *
6593248 TTTGAAGGGTTGTCACTGACTTGTGTGAGCT
1 TTAGAAGGGTTGCCACCAACTTGTGTGGGCT
* * * *
6593279 TTTGAAGGAGATTCCCACCGACTTGTGTAGGCT
1 TTAGAAGG-G-TTGCCACCAACTTGTGTGGGCT
* * *
6593312 TTGAAGAAAGGTTGCCATCAACTTGTGTGGGGT
1 TT--AGAAGGGTTGCCACCAACTTGTGTGGGCT
6593345 TTGAGAAGGGTTGCCACCAACTTGTGTGGGCT
1 TT-AGAAGGGTTGCCACCAACTTGTGTGGGCT
6593377 TT
1 TT
6593379 GAAAGGAAAA
Statistics
Matches: 151, Mismatches: 38, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
31 57 0.38
32 51 0.34
33 38 0.25
34 1 0.01
35 4 0.03
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (31 bp):
TTAGAAGGGTTGCCACCAACTTGTGTGGGCT
Found at i:6593814 original size:62 final size:62
Alignment explanation
Indices: 6593356--6594548 Score: 1191
Period size: 62 Copynumber: 19.4 Consensus size: 62
6593346 TGAGAAGGGT
* * *
6593356 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA---GTCCTGCTCTTTGGGGACT-AGAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAGG
* * * * * * * * * *
6593415 TGCCACCAACTTATGTGAGCTTTGAAACG-GAAATGTGTCATGCTCTTTGAGGATTTAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
** * * * * *
6593476 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAACATCATGCTTTTTGAGGATTGAAAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAG--AAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * * *
6593540 TGCCACCAACTTATGTGGGCTTT-AAAA-AAAAA-GTGTCTTGCTTTTTAAGGACTGAAAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * * * *
6593599 TGTCACAAACTTGTATAGGCTTT-AAAAG--AAATGCGTCATGCTCTTTGGGGACTAGAAA-G
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGG
* * * * *
6593658 TGCCACCAACTTATGTGGGCTTTGAAAAAG--AAAGGTGTCCTACTCTTTGAGAACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTT-AAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * *
6593719 TGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAAGACTGAAATG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * * * * *
6593780 TGCCACCAACTTTTATGGGCTTTAAAAAGAAAAAGGTGTGCTACTCTTTGAAGACTAAAATG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
** * * * * *
6593842 TGCCACCAACTTGTGTCAGCTTTAAAAAGAAAAATGTGTCCTGCTTTTTAAGGACTGAAACG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * * *
6593904 TGCTACTAACTTGTGTGAGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACGGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* ** * * *
6593966 TGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAA-TTGTCTTGGTCTTTGAGGATTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * * *
6594027 TGCCACCAACCTGTATGGGCTTTAAAAAGGAAAAGGCATCCTACTCTTTGAGGGCTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * **
6594089 TGCCATCAACTTGTGTGGGCTTTAAAAAGAAGAAA-GTGTCCTGCTCTTTGATAACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAA-AAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * *
6594151 TGCCACCAACTTATGTGGGCTTTAAAAAGGAGAAGGCATCTTGCTCTTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * * *
6594213 TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAATGAGTCGTGCTCTTTGAGGACTGAAAAG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * *
6594275 TGCCACCAACTTATGCGGGCTTTAAAAAGAAAAAGGCGTCTTGCTATTTGAGGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * *
6594337 TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTGAAAGA
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * ** * *
6594399 TGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTATTATTTGAGGACTAAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
** * * *
6594460 TATCACTAACTTGTGTGGGCTTTAAAAA-AGAAAAGGCATCCTGCTCTTTGAAGACTGAAAGG
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGA-AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
* * * *
6594522 TGCTATCAACTTATGCGGGCTTTAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAA
6594549 TGTTGCTACT
Statistics
Matches: 944, Mismatches: 169, Indels: 39
0.82 0.15 0.03
Matches are distributed among these distances:
58 6 0.01
59 109 0.12
60 12 0.01
61 242 0.26
62 522 0.55
63 7 0.01
64 46 0.05
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (62 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTGAAAGG
Found at i:6593988 original size:247 final size:246
Alignment explanation
Indices: 6593356--6594548 Score: 1248
Period size: 247 Copynumber: 4.9 Consensus size: 246
6593346 TGAGAAGGGT
* * * *
6593356 TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAA--GTCCTGCTCTTTGGGGACTAGAAGGTGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCCTGCTCTTTGAGGACT-GAAAGTGCC
* * * * * * *
6593419 ACCAACTTATGTGAGCTTTGAAACGG-AAATGTGTCATGCTCTTTGAGGATTTAAAGGTGCCACC
65 ACCAACTTATGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACC
* * * * * *
6593483 AACTTGTGTGGGCTTTAAAAAGAAAAAAAAACATCATGCTTTTTGAGGATTGAAAAGTGCCACCA
130 AACTTGTGTGGGCTTTAAAAAG--GAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCA
* * *
6593548 ACTTATGTGGGCTTT-AAAA-AAAAA-GTGTCTTGCT-TTTTAAGGACTGAAAA-G
193 ACTTATGTGGGCTTTAAAAAGAAAAAGGCGTCTTACTCTTTGAA-GACT-AAAAGG
* * * * * * *
6593599 TGTCACAAACTTGTATAGGCTTT-AAAAG-AAATGCGTCATGCTCTTTGGGGACTAGAAAGTGCC
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCCTGCTCTTTGAGGACT-GAAAGTGCC
* *
6593662 ACCAACTTATGTGGGCTTTGAAAAA-G-AAAGGTGTCCTACTCTTTGAGAACTAAAAGGTGCCAC
65 ACCAACTTATGTGGGCTTT-AAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
* * *
6593725 CAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTGCTCTTTGAAGACTGAAATGTGCCACCAA
129 CAACTTGTGTGGGCTTTAAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
* * * *
6593789 CTTTTATGGGCTTTAAAAAGAAAAAGGTGTGC-TACTCTTTGAAGACTAAAATG
194 CTTATGTGGGCTTTAAAAAGAAAAAGGCGT-CTTACTCTTTGAAGACTAAAAGG
** * * *
6593842 TGCCACCAACTTGTGTCAGCTTTAAAAAGAAAAATGTGTCCTGCTTTTTAAGGACTGAAACGTGC
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAA-GCGTCCTGCTCTTTGAGGACTGAAA-GTGC
* * * * ** *
6593907 TACTAACTTGTGTGAGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACGGAAAGGTGCTAC
64 CACCAACTTATGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
** * * * *
6593972 CAACTTGTGTGGGCTTTAAAAA-GAAAAATTGTCTTGGTCTTTGAGGATTGAAAGGTGCCACCAA
129 CAACTTGTGTGGGCTTTAAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
* * * * * * * * *
6594036 CCTGTATGGGCTTTAAAAAGGAAAAGGCATCCTACTCTTTGAGGGCTGAAAGG
194 CTTATGTGGGCTTTAAAAAGAAAAAGGCGTCTTACTCTTTGAAGACTAAAAGG
* * **
6594089 TGCCATCAACTTGTGTGGGCTTTAAAAAGAAGAAAGTGTCCTGCTCTTTGATAACTGAAAGGTGC
1 TGCCACCAACTTGTGTGGGCTTTAAAAAGAA-AAAGCGTCCTGCTCTTTGAGGACTGAAA-GTGC
* ** * *
6594154 CACCAACTTATGTGGGCTTTAAAAAGGAGAAGGCATCTTGCTCTTTGAGGACTGAAAGGTGCCAC
64 CACCAACTTATGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
* * *
6594219 CAACTTGTGTGGGCTTTAAAAAGGAAAATGAGTCGTGCTCTTTGAGGACTGAAAAGTGCCACCAA
129 CAACTTGTGTGGGCTTTAAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
* * * * *
6594284 CTTATGCGGGCTTTAAAAAGAAAAAGGCGTCTTGCTATTTGAGGACTGAAAGG
194 CTTATGTGGGCTTTAAAAAGAAAAAGGCGTCTTACTCTTTGAAGACTAAAAGG
* * *
6594337 TGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGCATCTTGCTCTTTGAGGACTGAAAGATGC
1 TGCCACCAACTTGTGTGGGCTTTAAAAA-GAAAAAGCGTCCTGCTCTTTGAGGACTGAAAG-TGC
* ** ** * **
6594402 CACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTATTATTTGAGGACTAAAAGGTATCAC
64 CACCAACTTATGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCAC
* * * * * * * *
6594466 TAACTTGTGTGGGCTTTAAAAAAGAAAAGGCATCCTGCTCTTTGAAGACTGAAAGGTGCTATCAA
129 CAACTTGTGTGGGCTTTAAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAA
*
6594531 CTTATGCGGGCTTTAAAA
194 CTTATGTGGGCTTTAAAA
6594549 TGTTGCTACT
Statistics
Matches: 799, Mismatches: 130, Indels: 38
0.83 0.13 0.04
Matches are distributed among these distances:
240 45 0.06
241 7 0.01
242 18 0.02
243 143 0.18
244 14 0.02
245 12 0.02
246 38 0.05
247 363 0.45
248 156 0.20
249 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (246 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAGTGCCA
CCAACTTATGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCA
ACTTGTGTGGGCTTTAAAAAGGAAAAAGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
TATGTGGGCTTTAAAAAGAAAAAGGCGTCTTACTCTTTGAAGACTAAAAGG
Found at i:6600771 original size:19 final size:19
Alignment explanation
Indices: 6600731--6600772 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6600721 GATTTTTCAC
*
6600731 GTTGCTTGTTGGTTTTTCT
1 GTTGCTTGTTGGCTTTTCT
*
6600750 GTTGCTTGTTTTGCTTTT-T
1 GTTGCTTG-TTGGCTTTTCT
6600769 GTTG
1 GTTG
6600773 TGGTTGCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.00, C:0.10, G:0.26, T:0.64
Consensus pattern (19 bp):
GTTGCTTGTTGGCTTTTCT
Found at i:6601221 original size:98 final size:97
Alignment explanation
Indices: 6601049--6601245 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 97
6601039 TTTTTTGCTA
* * *
6601049 TTGCAGCTGCCTATGCTTTTCTTCATCTTTGCTCCACGTTGCTTTAGCTATGGTTGCTTTACGTT
1 TTGCAGCTGCCCATGCTCTTCTTCATCTTTGCTCCACGTTGCTTTAGCTATGGTTGCTTCACGTT
6601114 GCCCCCATTCTTCTTTGCTGTGATGCTGTCTG
66 GCCCCCATTCTTCTTTGCTGTGATGCTGTCTG
*
6601146 TTGCAGTTGCCCATGCTCTTCTTCATCATTTGCTCCACGTTGCTTTAGCTATGGTTGCTTCACGT
1 TTGCAGCTGCCCATGCTCTTCTTCATC-TTTGCTCCACGTTGCTTTAGCTATGGTTGCTTCACGT
*
6601211 TGCCCTCATTCTTCTTTGCTGTGATGCTGTCTG
65 TGCCCCCATTCTTCTTTGCTGTGATGCTGTCTG
6601244 TT
1 TT
6601246 TTTCTTTGCT
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 24 0.26
98 70 0.74
ACGTcount: A:0.10, C:0.27, G:0.19, T:0.44
Consensus pattern (97 bp):
TTGCAGCTGCCCATGCTCTTCTTCATCTTTGCTCCACGTTGCTTTAGCTATGGTTGCTTCACGTT
GCCCCCATTCTTCTTTGCTGTGATGCTGTCTG
Found at i:6601747 original size:19 final size:18
Alignment explanation
Indices: 6601718--6601766 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
6601708 CTTGTACATG
6601718 AATGCATGAAATGAAAGC
1 AATGCATGAAATGAAAGC
*
6601736 AATGCAATGAAATGAATGC
1 AATGC-ATGAAATGAAAGC
*
6601755 AATGTATGAAAT
1 AATGCATGAAAT
6601767 CGAAGTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.22
Consensus pattern (18 bp):
AATGCATGAAATGAAAGC
Found at i:6602563 original size:32 final size:32
Alignment explanation
Indices: 6602505--6602568 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
6602495 TATATATTAC
*
6602505 ATAATTTTTATTATATGTAAAATTAAATATAT
1 ATAATTTTTATTATATGTAAAATTAAAAATAT
*
6602537 ATAATATTTTA-TAT-TGTAATAGTTAAAAATAT
1 ATAAT-TTTTATTATATGTAA-AATTAAAAATAT
6602569 GTTAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 5 0.18
32 18 0.64
33 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
ATAATTTTTATTATATGTAAAATTAAAAATAT
Found at i:6602614 original size:15 final size:16
Alignment explanation
Indices: 6602588--6602625 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6602578 ATTAATAAAA
6602588 TAAAATATTAATT-TAT
1 TAAAA-ATTAATTATAT
*
6602604 TAAAAATTAATTATTT
1 TAAAAATTAATTATAT
6602620 TAAAAA
1 TAAAAA
6602626 ATAAATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAAATTAATTATAT
Found at i:6606768 original size:27 final size:26
Alignment explanation
Indices: 6606738--6606796 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
6606728 GATATATCTT
*
6606738 AAATTAATATATTTATTAAAAATTTAA
1 AAATTAATA-ATTTAATAAAAATTTAA
* * *
6606765 AAATATAGTAATTTAATATATATTTAA
1 AAAT-TAATAATTTAATAAAAATTTAA
6606792 AAATT
1 AAATT
6606797 TTGTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.04
27 22 0.81
28 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATTAATAATTTAATAAAAATTTAA
Found at i:6610609 original size:20 final size:21
Alignment explanation
Indices: 6610586--6610639 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
6610576 AGATTATAAT
6610586 ATATGAAAAATATTTAAAA-A
1 ATATGAAAAATATTTAAAATA
*
6610606 ATATTG-ATAA-ATTTAAAATA
1 ATA-TGAAAAATATTTAAAATA
*
6610626 ATATATAAAAATAT
1 ATAT-GAAAAATAT
6610640 ATCGAGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 8
0.70 0.08 0.22
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 5 0.19
22 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATGAAAAATATTTAAAATA
Found at i:6611760 original size:29 final size:31
Alignment explanation
Indices: 6611714--6611775 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 31
6611704 TAGAATATCT
6611714 TTAATTTTTAAATAAATTATTAAAA-TATTA
1 TTAATTTTTAAATAAATTATTAAAATTATTA
6611744 TTAA-TTTTAAATAAATTATTAAAATTATTA
1 TTAATTTTTAAATAAATTATTAAAATTATTA
6611774 TT
1 TT
6611776 TTAACTCGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (31 bp):
TTAATTTTTAAATAAATTATTAAAATTATTA
Found at i:6611934 original size:32 final size:32
Alignment explanation
Indices: 6611843--6611952 Score: 123
Period size: 32 Copynumber: 3.4 Consensus size: 32
6611833 AATTAACGAA
* * *
6611843 TTTTACATAAAATCACTAAACTCTTTACTAAT
1 TTTTACATAAATTCACTAAACACTTTAGTAAT
**
6611875 TTCAACATGAAA-TCACTAAACACTTTAGTAAT
1 TTTTACAT-AAATTCACTAAACACTTTAGTAAT
* **
6611907 TTTTACATAAATTCACTAATCACTTTAGCGAT
1 TTTTACATAAATTCACTAAACACTTTAGTAAT
*
6611939 TTTTATATAAATTC
1 TTTTACATAAATTC
6611953 GTTAGTCACC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
31 3 0.05
32 60 0.91
33 3 0.05
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (32 bp):
TTTTACATAAATTCACTAAACACTTTAGTAAT
Found at i:6612286 original size:38 final size:38
Alignment explanation
Indices: 6612202--6612293 Score: 96
Period size: 38 Copynumber: 2.4 Consensus size: 38
6612192 ATTTTTTTAA
* *
6612202 TTTAAACTTTTAATTTAAGTTATAATCGTCTAATAATT
1 TTTAAAATTTTAATTAAAGTTATAATCGTCTAATAATT
* * * * *
6612240 TTTTAAATTTTAATTAAGAGTTGTAATCTTCTTATTA-T
1 TTTAAAATTTTAATTAA-AGTTATAATCGTCTAATAATT
*
6612278 TTTAAAATTTAAATTA
1 TTTAAAATTTTAATTA
6612294 TAATCATCTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 29 0.66
39 15 0.34
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.52
Consensus pattern (38 bp):
TTTAAAATTTTAATTAAAGTTATAATCGTCTAATAATT
Found at i:6612321 original size:54 final size:55
Alignment explanation
Indices: 6612252--6612363 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 55
6612242 TTAAATTTTA
* * *
6612252 ATTAAGAGTTGTAATC-TTCTTATTATTTTAAAATTTA-AATTATAATCATCTAATT
1 ATTAAGAGTTGTAATCGTT-TAATTATTTT-AAATTAAGAATTATAATCATCTAAGT
*
6612307 ATTAAG-GTTGTAATCGTTTAATTATTTTAAATTAAGAATTGTAATCATCTAAGT
1 ATTAAGAGTTGTAATCGTTTAATTATTTTAAATTAAGAATTATAATCATCTAAGT
6612361 ATT
1 ATT
6612364 TTAAAATTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
53 6 0.12
54 37 0.73
55 8 0.16
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (55 bp):
ATTAAGAGTTGTAATCGTTTAATTATTTTAAATTAAGAATTATAATCATCTAAGT
Found at i:6612429 original size:18 final size:18
Alignment explanation
Indices: 6612403--6612447 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
6612393 TATAATCGTC
*
6612403 TAATTATTTTTGAAATTT
1 TAATTATTTTTAAAATTT
*
6612421 TAGTTA-TTTTAAAATTT
1 TAATTATTTTTAAAATTT
6612438 TAATTATTTT
1 TAATTATTTT
6612448 GAATTGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TAATTATTTTTAAAATTT
Found at i:6612457 original size:17 final size:16
Alignment explanation
Indices: 6612403--6612457 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
6612393 TATAATCGTC
6612403 TAATTATTTTTGAAATTT
1 TAATTA-TTTTG-AATTT
* *
6612421 TAGTTATTTTAAAATTT
1 TAATTATTTT-GAATTT
6612438 TAATTATTTTGAATTGT
1 TAATTATTTTGAATT-T
6612455 TAA
1 TAA
6612458 ACCGGTAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 4 0.13
17 22 0.71
18 5 0.16
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (16 bp):
TAATTATTTTGAATTT
Found at i:6612576 original size:39 final size:38
Alignment explanation
Indices: 6612493--6612588 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 38
6612483 CAATAATAAC
* *
6612493 TAAAATTTTAAAATAATTAGACTATTATAATCTTTAAT
1 TAAAATTTTAAAATAATTAGACTATTACAATCTTAAAT
* *
6612531 TTAAATTTAAAAAATAATTAGA-TGATTACAAT-TTAAAT
1 TAAAATTT-TAAAATAATTAGACT-ATTACAATCTTAAAT
6612569 TAAAAATTTTAAAATAATTA
1 T-AAAATTTTAAAATAATTA
6612589 CCCAATTACA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 24 0.49
39 25 0.51
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (38 bp):
TAAAATTTTAAAATAATTAGACTATTACAATCTTAAAT
Found at i:6613667 original size:31 final size:31
Alignment explanation
Indices: 6613621--6613679 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
6613611 TAATACTATT
* *
6613621 TGAAATGCATCTTACTTTCTTGCATATACAA
1 TGAAATGCATCTTACTTCCGTGCATATACAA
* *
6613652 TGAATTGCATTTTACTTCCGTGCATATA
1 TGAAATGCATCTTACTTCCGTGCATATA
6613680 TATAATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (31 bp):
TGAAATGCATCTTACTTCCGTGCATATACAA
Found at i:6615723 original size:13 final size:13
Alignment explanation
Indices: 6615705--6615730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6615695 AATTTTTTGG
6615705 TGTATCGATACAT
1 TGTATCGATACAT
6615718 TGTATCGATACAT
1 TGTATCGATACAT
6615731 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6616653 original size:20 final size:20
Alignment explanation
Indices: 6616628--6616677 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6616618 ACCCTGAAAA
*
6616628 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
6616648 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
6616668 GTATCGATAC
1 GTATCGATAC
6616678 TTGAAAAACA
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:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:6616751 original size:15 final size:15
Alignment explanation
Indices: 6616731--6616759 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6616721 GTAGCTAAAC
6616731 TTGTATCGATACACA
1 TTGTATCGATACACA
6616746 TTGTATCGATACAC
1 TTGTATCGATACAC
6616760 CATAAAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (15 bp):
TTGTATCGATACACA
Found at i:6622968 original size:13 final size:13
Alignment explanation
Indices: 6622950--6622985 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
6622940 GAATTCTTTG
*
6622950 TATCGATACATTA
1 TATCGATACACTA
6622963 TATCGATACACTA
1 TATCGATACACTA
6622976 TATCGATACA
1 TATCGATACA
6622986 GGGGGGATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (13 bp):
TATCGATACACTA
Found at i:6623153 original size:20 final size:20
Alignment explanation
Indices: 6623118--6623158 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
6623108 CAAAATTCTT
6623118 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
6623140 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
6623159 TTCAAAAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:6625446 original size:20 final size:20
Alignment explanation
Indices: 6625421--6625470 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6625411 ACCCTGAAAA
*
6625421 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
6625441 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
6625461 GTATCGATAC
1 GTATCGATAC
6625471 TTGAAAAACA
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:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:6626506 original size:20 final size:19
Alignment explanation
Indices: 6626481--6626570 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 19
6626471 GGCTAATTTC
6626481 ATGTATCGATACAATTGTGT
1 ATGTATCGATACAA-TGTGT
**
6626501 ATGTATCGATACAATGAAT
1 ATGTATCGATACAATGTGT
*
6626520 ATGTATCGATACAAAGCATG-
1 ATGTATCGATACAATG--TGT
*
6626540 ATGTATCGATAC-ATCTGGAT
1 ATGTATCGATACAATGT-G-T
6626560 ATGTATCGATA
1 ATGTATCGATA
6626571 TTTTCCAGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 19 0.33
20 37 0.64
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACAATGTGT
Found at i:6626530 original size:39 final size:39
Alignment explanation
Indices: 6626481--6626570 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
6626471 GGCTAATTTC
*
6626481 ATGTATCGATACAATTG-TGTATGTATCGATACA-ATGAAT
1 ATGTATCGATACAA-AGATG-ATGTATCGATACATATGAAT
* *
6626520 ATGTATCGATACAAAGCATGATGTATCGATACATCTGGAT
1 ATGTATCGATACAAAG-ATGATGTATCGATACATATGAAT
6626560 ATGTATCGATA
1 ATGTATCGATA
6626571 TTTTCCAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.02
39 27 0.60
40 17 0.38
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (39 bp):
ATGTATCGATACAAAGATGATGTATCGATACATATGAAT
Found at i:6627181 original size:74 final size:74
Alignment explanation
Indices: 6627056--6627207 Score: 254
Period size: 74 Copynumber: 2.1 Consensus size: 74
6627046 AGAAAAGTTC
**
6627056 AAAT-ATCAAAGTTTCTCCTAATGCAAAATTTTTGTTTTAAAGCTCCCCCTTAAAAGTTTTCTCC
1 AAATAATCAAAGTTTCTCCTAATGCAAAATTTTCATTTTAAAGCTCCCCCTTAAAAGTTTTCTCC
6627120 -CTCTTGATA
66 TC-CTTGATA
*
6627129 AAATAATCAAAGTTTCTCCTAATGCAAAATTTTCATTTTAAAGCTCTCCCTTAAAAGTTTTCTCC
1 AAATAATCAAAGTTTCTCCTAATGCAAAATTTTCATTTTAAAGCTCCCCCTTAAAAGTTTTCTCC
6627194 TCCTTGATA
66 TCCTTGATA
6627203 AAATA
1 AAATA
6627208 TTAAGGTTCT
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
73 4 0.05
74 69 0.93
75 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (74 bp):
AAATAATCAAAGTTTCTCCTAATGCAAAATTTTCATTTTAAAGCTCCCCCTTAAAAGTTTTCTCC
TCCTTGATA
Found at i:6631187 original size:24 final size:24
Alignment explanation
Indices: 6631159--6631231 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 24
6631149 AAGAGAAAGA
6631159 AGAGATAGGAGGGATGATAGAAGG
1 AGAGATAGGAGGGATGATAGAAGG
* *
6631183 AGAGATAGCA--GA-GAT--AA-C
1 AGAGATAGGAGGGATGATAGAAGG
* *
6631201 AGAGATAGGGGGGATGATAGGAGG
1 AGAGATAGGAGGGATGATAGAAGG
6631225 AGAGATA
1 AGAGATA
6631232 ATAGAGATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
18 8 0.22
19 2 0.05
20 2 0.05
21 6 0.16
22 2 0.05
23 1 0.03
24 16 0.43
ACGTcount: A:0.42, C:0.03, G:0.42, T:0.12
Consensus pattern (24 bp):
AGAGATAGGAGGGATGATAGAAGG
Found at i:6631209 original size:42 final size:42
Alignment explanation
Indices: 6631159--6631269 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
6631149 AAGAGAAAGA
* *
6631159 AGAGATAGGAGGGATGATAGAAGGAGAGATAGCAGAGATAAC
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAACAGAGATAAC
* * *
6631201 AGAGATAGGGGGGATGATAGGAGGAGAGATAATAGAGATAAT
1 AGAGATAGGAGGGATGATAGGAGGAGAGATAACAGAGATAAC
* *
6631243 AGAGAGAGGAGGGATGACAGGAGGAGA
1 AGAGATAGGAGGGATGATAGGAGGAGA
6631270 AGAGAAGAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.43, C:0.03, G:0.42, T:0.12
Consensus pattern (42 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATAACAGAGATAAC
Found at i:6641061 original size:13 final size:13
Alignment explanation
Indices: 6641043--6641067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6641033 CAATTATTCA
6641043 TGTATCGATACAT
1 TGTATCGATACAT
6641056 TGTATCGATACA
1 TGTATCGATACA
6641068 ATGTGCCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6641082 original size:33 final size:33
Alignment explanation
Indices: 6641023--6641085 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
6641013 TTTAGGACAA
** *
6641023 TGTATCGATACAATTATTCATGTATCGATACAT
1 TGTATCGATACAATTAGCCATATATCGATACAT
6641056 TGTATCGATACAATGT-GCCATATATCGATA
1 TGTATCGATACAAT-TAGCCATATATCGATA
6641086 TAAACAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 25 0.96
34 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATTAGCCATATATCGATACAT
Found at i:6641162 original size:19 final size:20
Alignment explanation
Indices: 6641117--6641169 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
6641107 CTGCCAGTTT
**
6641117 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
6641137 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
6641156 CATGTATCGATACA
1 CATGTATCGATACA
6641170 TCTGGATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:6643807 original size:71 final size:71
Alignment explanation
Indices: 6643706--6643854 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 71
6643696 ATTGATACAT
** * **
6643706 TAATGTATTTATATAAGGCTTCAGTAGTAGCTCAACTTGATTTTAAAGCCTTATGTTATTGATAC
1 TAATGTATCGATACAAGGCTTCAGTAGTAGCTCAACTTGATTTTAAAGCCTTATGGAATTGATAC
6643771 ATTACC
66 ATTACC
** * *
6643777 TAATGTATCGATACAAGGCTTTGGTAGTAGCTTAACTTGATTTTAAAGCCTTGTGGAATTGATAC
1 TAATGTATCGATACAAGGCTTCAGTAGTAGCTCAACTTGATTTTAAAGCCTTATGGAATTGATAC
*
6643842 ATTGCC
66 ATTACC
6643848 TAATGTA
1 TAATGTA
6643855 AATATATTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (71 bp):
TAATGTATCGATACAAGGCTTCAGTAGTAGCTCAACTTGATTTTAAAGCCTTATGGAATTGATAC
ATTACC
Found at i:6651067 original size:19 final size:18
Alignment explanation
Indices: 6651025--6651068 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6651015 ACCGTTTAAT
*
6651025 AAAATATCTAAAAATATC
1 AAAATTTCTAAAAATATC
**
6651043 TCAATTTCTAAAAATTATC
1 AAAATTTCTAAAAA-TATC
6651062 AAAATTT
1 AAAATTT
6651069 TCATTTATAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATTTCTAAAAATATC
Found at i:6654044 original size:2 final size:2
Alignment explanation
Indices: 6654037--6654062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6654027 GTTACATTTA
6654037 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6654063 GTTAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6654640 original size:2 final size:2
Alignment explanation
Indices: 6654633--6654662 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6654623 CAACACAAAG
6654633 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6654663 GTTGTCTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6664075 original size:13 final size:13
Alignment explanation
Indices: 6664057--6664082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6664047 CAATTTTTTG
6664057 TGTATCGATACAT
1 TGTATCGATACAT
6664070 TGTATCGATACAT
1 TGTATCGATACAT
6664083 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6669201 original size:13 final size:13
Alignment explanation
Indices: 6669183--6669208 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6669173 CAATTTTTTG
6669183 TGTATCGATACAT
1 TGTATCGATACAT
6669196 TGTATCGATACAT
1 TGTATCGATACAT
6669209 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6671683 original size:13 final size:13
Alignment explanation
Indices: 6671665--6671690 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6671655 ATAATCACCC
6671665 TGTATCGATACAA
1 TGTATCGATACAA
6671678 TGTATCGATACAA
1 TGTATCGATACAA
6671691 AGAAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:6673790 original size:15 final size:15
Alignment explanation
Indices: 6673770--6673800 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6673760 ATTTCGTTTG
*
6673770 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
6673785 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
6673800 G
1 G
6673801 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:6675633 original size:21 final size:21
Alignment explanation
Indices: 6675604--6675648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6675594 AAGTTTTCAT
*
6675604 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
6675624 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
6675646 TTT
1 TTT
6675649 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:6677885 original size:13 final size:13
Alignment explanation
Indices: 6677867--6677892 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6677857 CAATTTTTTG
6677867 TGTATCGATACAT
1 TGTATCGATACAT
6677880 TGTATCGATACAT
1 TGTATCGATACAT
6677893 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6682712 original size:258 final size:258
Alignment explanation
Indices: 6682255--6682775 Score: 1042
Period size: 258 Copynumber: 2.0 Consensus size: 258
6682245 GGCTTCAAGT
6682255 GAAGCAAACAATGGATGGGATCTTCATCAATCAAGCAAAATATACAAAGGAGCTACTCAAAAGGT
1 GAAGCAAACAATGGATGGGATCTTCATCAATCAAGCAAAATATACAAAGGAGCTACTCAAAAGGT
6682320 TTCAAATAGATCAAGTTAAACCATGTGAAACACCGATGAGTACTTCAACAAAGCTTGAAAAGGAT
66 TTCAAATAGATCAAGTTAAACCATGTGAAACACCGATGAGTACTTCAACAAAGCTTGAAAAGGAT
6682385 GAATGAGGTAATTTTATCGATACTAAACTCTATAGGTCTATGATAGGTTCACTGTTATATCTTAC
131 GAATGAGGTAATTTTATCGATACTAAACTCTATAGGTCTATGATAGGTTCACTGTTATATCTTAC
6682450 CGCTAGTAGACTGGATATTATGTTTAGTGTTTGCCTTTGTGCCCGTTTTCAATCCGCACCTAG
196 CGCTAGTAGACTGGATATTATGTTTAGTGTTTGCCTTTGTGCCCGTTTTCAATCCGCACCTAG
6682513 GAAGCAAACAATGGATGGGATCTTCATCAATCAAGCAAAATATACAAAGGAGCTACTCAAAAGGT
1 GAAGCAAACAATGGATGGGATCTTCATCAATCAAGCAAAATATACAAAGGAGCTACTCAAAAGGT
6682578 TTCAAATAGATCAAGTTAAACCATGTGAAACACCGATGAGTACTTCAACAAAGCTTGAAAAGGAT
66 TTCAAATAGATCAAGTTAAACCATGTGAAACACCGATGAGTACTTCAACAAAGCTTGAAAAGGAT
6682643 GAATGAGGTAATTTTATCGATACTAAACTCTATAGGTCTATGATAGGTTCACTGTTATATCTTAC
131 GAATGAGGTAATTTTATCGATACTAAACTCTATAGGTCTATGATAGGTTCACTGTTATATCTTAC
6682708 CGCTAGTAGACTGGATATTATGTTTAGTGTTTGCCTTTGTGCCCGTTTTCAATCCGCACCTAG
196 CGCTAGTAGACTGGATATTATGTTTAGTGTTTGCCTTTGTGCCCGTTTTCAATCCGCACCTAG
6682771 GAAGC
1 GAAGC
6682776 CTCATTTACT
Statistics
Matches: 263, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 263 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (258 bp):
GAAGCAAACAATGGATGGGATCTTCATCAATCAAGCAAAATATACAAAGGAGCTACTCAAAAGGT
TTCAAATAGATCAAGTTAAACCATGTGAAACACCGATGAGTACTTCAACAAAGCTTGAAAAGGAT
GAATGAGGTAATTTTATCGATACTAAACTCTATAGGTCTATGATAGGTTCACTGTTATATCTTAC
CGCTAGTAGACTGGATATTATGTTTAGTGTTTGCCTTTGTGCCCGTTTTCAATCCGCACCTAG
Found at i:6683378 original size:20 final size:19
Alignment explanation
Indices: 6683349--6683387 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6683339 AGGTCAAAAC
*
6683349 CCTTAAATGTATTGATACA
1 CCTTAAATGTATCGATACA
6683368 CCTTGAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
6683388 TATTGCACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:6683415 original size:13 final size:13
Alignment explanation
Indices: 6683397--6683421 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6683387 ATATTGCACA
6683397 GTATCGATACATT
1 GTATCGATACATT
6683410 GTATCGATACAT
1 GTATCGATACAT
6683422 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Done.