Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold211
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: 2157208
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 20444 characters in sequence are not A, C, G, or T
File 7 of 15
Found at i:870786 original size:26 final size:26
Alignment explanation
Indices: 870738--870795 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
870728 GGGGAAAATT
*
870738 TTAAT-ATTTATAAATTTTAATTAAA
1 TTAATAATTTATAAATTTAAATTAAA
870763 TTAATAATTGTAT-AATTTAAATTAAA
1 TTAATAATT-TATAAATTTAAATTAAA
870789 TT-ATAAT
1 TTAATAAT
870796 AAATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 10 0.33
26 17 0.57
27 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TTAATAATTTATAAATTTAAATTAAA
Found at i:871553 original size:19 final size:20
Alignment explanation
Indices: 871506--871546 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
871496 AAAATAAAAT
*
871506 ATAA-AAAAATAACATAAAC
1 ATAATAAAAATAACACAAAC
871525 ATAATAAAAAT-ACACAAAC
1 ATAATAAAAATAACACAAAC
871544 ATA
1 ATA
871547 TCAAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.17
Consensus pattern (20 bp):
ATAATAAAAATAACACAAAC
Found at i:871659 original size:21 final size:19
Alignment explanation
Indices: 871626--871681 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
871616 ATACGTAAAA
871626 TTTTTTATTTTTTTCTCCC
1 TTTTTTATTTTTTTCTCCC
*
871645 TTTTTTACTTCTTTTTCT-CT
1 TTTTTTA-TT-TTTTTCTCCC
*
871665 TTATTTTCTTTTTTTCT
1 TT-TTTTATTTTTTTCT
871682 ATATTTTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 14 0.44
20 7 0.22
21 11 0.34
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTTTCTCCC
Found at i:871692 original size:18 final size:17
Alignment explanation
Indices: 871653--871688 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
871643 CCTTTTTTAC
*
871653 TTCTTTTTCTCTTTATT
1 TTCTTTTTCTCTATATT
*
871670 TTCTTTTTTTCTATATT
1 TTCTTTTTCTCTATATT
871687 TT
1 TT
871689 TCTTGACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTTTTTCTCTATATT
Found at i:872175 original size:18 final size:18
Alignment explanation
Indices: 872152--872193 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
872142 ATTTTAAAAA
*
872152 TATTTAATGTGGTATTTG
1 TATTTAATGTGGTACTTG
*
872170 TATTT-ATGTGTTACTTG
1 TATTTAATGTGGTACTTG
*
872187 TGTTTAA
1 TATTTAA
872194 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.21, C:0.02, G:0.19, T:0.57
Consensus pattern (18 bp):
TATTTAATGTGGTACTTG
Found at i:873027 original size:11 final size:11
Alignment explanation
Indices: 873007--873054 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
872997 AATTATATAC
*
873007 ATAAATATAAT
1 ATAAAAATAAT
873018 ATAAAAATAAT
1 ATAAAAATAAT
873029 -T-AAAATAAAT
1 ATAAAAAT-AAT
873039 ATAAAATATAAT
1 ATAAAA-ATAAT
873051 ATAA
1 ATAA
873055 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
9 5 0.16
10 4 0.12
11 11 0.34
12 10 0.31
13 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:873027 original size:17 final size:17
Alignment explanation
Indices: 873007--873070 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 17
872997 AATTATATAC
873007 ATAAATATAATATAAAA
1 ATAAATATAATATAAAA
* *
873024 ATAATTAAAATAAATATAAA
1 ATAAATATAAT--ATA-AAA
873044 ATATAATATAATATAAAAA
1 ATA-AATATAATAT-AAAA
873063 ATAAATAT
1 ATAAATAT
873071 GATAGAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
19 11 0.29
20 7 0.18
21 6 0.16
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATATAATATAAAA
Found at i:873035 original size:9 final size:10
Alignment explanation
Indices: 873007--873065 Score: 54
Period size: 9 Copynumber: 6.1 Consensus size: 10
872997 AATTATATAC
873007 ATAAATATAAT
1 ATAAA-ATAAT
873018 ATAAAAATAAT
1 AT-AAAATAAT
873029 -TAAAATAA-
1 ATAAAATAAT
*
873037 ATATAA-AAT
1 ATAAAATAAT
*
873046 ATAATATAAT
1 ATAAAATAAT
873056 ATAAAA-AAT
1 ATAAAATAAT
873065 A
1 A
873066 AATATGATAG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 2 0.05
9 19 0.47
10 9 0.22
11 7 0.17
12 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAAAATAAT
Found at i:873112 original size:3 final size:3
Alignment explanation
Indices: 873104--873135 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
873094 GTATATATTG
873104 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
873136 TATATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:873144 original size:3 final size:3
Alignment explanation
Indices: 873134--873174 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
873124 AATAATAATA
*
873134 ATT A-T ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
873175 TGTTATCATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:873151 original size:9 final size:9
Alignment explanation
Indices: 873128--873173 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
873118 AATAATAATA
*
873128 ATAATAATT
1 ATAATTATT
873137 AT-ATTATT
1 ATAATTATT
873145 ATAATTATT
1 ATAATTATT
*
873154 ATTATTATT
1 ATAATTATT
*
873163 ATTATTATT
1 ATAATTATT
873172 AT
1 AT
873174 TTGTTATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
8 7 0.21
9 27 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATAATTATT
Found at i:875482 original size:29 final size:29
Alignment explanation
Indices: 875449--875504 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
875439 TTTCTTCTGT
875449 GGAGTTGCAAGCATAAAAAGAATAAGTGC
1 GGAGTTGCAAGCATAAAAAGAATAAGTGC
*
875478 GGAGTTGCAGGCATAAAAAGAATAAGT
1 GGAGTTGCAAGCATAAAAAGAATAAGT
875505 ATACCAACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.29, T:0.18
Consensus pattern (29 bp):
GGAGTTGCAAGCATAAAAAGAATAAGTGC
Found at i:879315 original size:18 final size:16
Alignment explanation
Indices: 879285--879332 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
879275 TATGAATATT
*
879285 TCAAAATTTAATATAA
1 TCAAATTTTAATATAA
879301 TACAAATTATTAATAT-A
1 T-CAAATT-TTAATATAA
879318 TCAAATTTT-ATATAA
1 TCAAATTTTAATATAA
879333 ACATAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 3 0.11
16 7 0.25
17 7 0.25
18 7 0.25
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TCAAATTTTAATATAA
Found at i:879322 original size:16 final size:15
Alignment explanation
Indices: 879279--879331 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
879269 ACAACATATG
* *
879279 AATATTTCAAAATTT
1 AATATATCAAATTTT
879294 AATATAATACAAATTATT
1 AATAT-AT-CAAATT-TT
879312 AATATATCAAATTTT
1 AATATATCAAATTTT
879327 -ATATA
1 AATATA
879332 AACATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 7 0.21
17 7 0.21
18 7 0.21
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATCAAATTTT
Found at i:883458 original size:154 final size:152
Alignment explanation
Indices: 883202--883726 Score: 492
Period size: 154 Copynumber: 3.4 Consensus size: 152
883192 CACATCGATG
* * * *
883202 GTATACCCTAGGGGTATTTTGATAATTTTTTCTAGAATCGAATCTTAGGTAGTCACTTGGTCGTT
1 GTATA-CCTAAGGGCATTTTGATAATTTTTTCTAGAATCGAATCTTAGGTAGTCACTGGGTCGAT
*
883267 TTTATGCCAAAGTCTACATTTAGGATAGGTTTAACCTTTTATAATCTTTTTGTGTCCTTTAAGGT
65 TTTATGCCAAAGTCTACATTTAGGATAGGTTTGACCTTTTATAATCTTTTT-TGTCCTTTAAGGT
883332 TACTAGGACACTTTCACGTTGA-AA
129 TACTAGGACACTTTCACG-TGAGAA
* *
883356 GTA-ACCTTAAGGGCATTTTAATAATTTTTTCTAGAA-CGAAATCCTAGGTAGTCA-TCGGGTCG
1 GTATACC-TAAGGGCATTTTGATAATTTTTTCTAGAATCG-AATCTTAGGTAGTCACT-GGGTCG
* * * *
883418 ATTTCATGCCAAATGTCTACATTTAGGATAGGTTCGACCTTTTATGATCCTTTCTTGTCCTTTAA
63 ATTTTATGCCAAA-GTCTACATTTAGGATAGGTTTGACCTTTTATAAT-CTTTTTTGTCCTTTAA
* * * * * *
883483 GGTTATTGGGATACTTTTATGTGAGAG
126 GGTTACTAGGACACTTTCACGTGAGAA
* * * * *
883510 GTATATCTAGGGGTAATTTGGTAATTTTTT-TAGAATCGAATCTTAGGTAGTCACTGAGGTC-AC
1 GTATACCTAAGGGCATTTTGATAATTTTTTCTAGAATCGAATCTTAGGTAGTCACTG-GGTCGA-
* * * *
883573 TTTTATGCCAAAGATCTACATTTAGGATAGGTTTGTCATTTTCTTTATCTTTTTTATGTCCTTTA
64 TTTTATGCCAAAG-TCTACATTTAGGATAGGTTTGACCTTTT-ATAATC-TTTTT-TGTCCTTTA
* * * * * *
883638 AGGTTAC-CGAGATATTTTTACATTGA-AG
125 AGGTTACTAG-GACACTTTCAC-GTGAGAA
* * ** * *
883666 GTATA-CTTAGAGGCATTTTGGTAATTTTACCTATAATCGAATCTTAGGTAGTCAATGGGTC
1 GTATACCTAAG-GGCATTTTGATAATTTTTTCTAGAATCGAATCTTAGGTAGTCACTGGGTC
883727 ACTTTAACAA
Statistics
Matches: 308, Mismatches: 44, Indels: 36
0.79 0.11 0.09
Matches are distributed among these distances:
152 5 0.02
153 82 0.27
154 126 0.41
155 18 0.06
156 50 0.16
157 27 0.09
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (152 bp):
GTATACCTAAGGGCATTTTGATAATTTTTTCTAGAATCGAATCTTAGGTAGTCACTGGGTCGATT
TTATGCCAAAGTCTACATTTAGGATAGGTTTGACCTTTTATAATCTTTTTTGTCCTTTAAGGTTA
CTAGGACACTTTCACGTGAGAA
Found at i:886420 original size:13 final size:13
Alignment explanation
Indices: 886404--886428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
886394 TTGTTTTATC
886404 TTTTATTTATTTA
1 TTTTATTTATTTA
886417 TTTTATTTATTT
1 TTTTATTTATTT
886429 TTAGTTGAAT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:890617 original size:70 final size:70
Alignment explanation
Indices: 890531--890670 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
890521 GTTATATTGA
890531 TTTTAAAGGTTGCAAGTTTAAGAGGATTTAAGCGCATAATTTGATCACTTAAACTAAGTAGATAT
1 TTTTAAAGGTTGCAAGTTTAAGAGGATTTAAGCGCATAATTTGATCACTTAAACTAAGTAGATAT
890596 GTAAG
66 GTAAG
890601 TTTTAAAGGTTGCAAGTTTAAGAGGATTTAAGCGCATAATTTGATCACTTAAACTAAGTAGATAT
1 TTTTAAAGGTTGCAAGTTTAAGAGGATTTAAGCGCATAATTTGATCACTTAAACTAAGTAGATAT
890666 GTAAG
66 GTAAG
890671 GGTTCGGGCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (70 bp):
TTTTAAAGGTTGCAAGTTTAAGAGGATTTAAGCGCATAATTTGATCACTTAAACTAAGTAGATAT
GTAAG
Found at i:895258 original size:16 final size:16
Alignment explanation
Indices: 895237--895292 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
895227 TAAATTTTTT
*
895237 AAAAATATTTAATTTA
1 AAAAATATTTAATATA
*
895253 AAAAATAATATAATATA
1 AAAAAT-ATTTAATATA
* *
895270 AAAATTATTT-GTATA
1 AAAAATATTTAATATA
895285 AAGAAATA
1 AA-AAATA
895293 ATGTAATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 6 0.19
16 13 0.41
17 13 0.41
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (16 bp):
AAAAATATTTAATATA
Found at i:895483 original size:13 final size:12
Alignment explanation
Indices: 895458--895504 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
895448 CGTCTTTGAC
895458 TAAATAT-TATA
1 TAAATATATATA
*
895469 TAATTATATAGTA
1 TAAATATATA-TA
895482 TAAATATATATA
1 TAAATATATATA
*
895494 TATATATATAT
1 TAAATATATAT
895505 TTTTTTTCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 6 0.19
12 14 0.45
13 11 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
TAAATATATATA
Found at i:897067 original size:32 final size:31
Alignment explanation
Indices: 897031--897107 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 31
897021 ATGTTTTAAA
*
897031 AGAAA-TTTTTATAATGGACTCAGGTTATTTTC
1 AGAAAGTTTTT-T-ATGGACTCAGGTTATTTGC
*
897063 AGAAAAGTTTTTTTTGGACTCAGGTTATTTGC
1 AG-AAAGTTTTTTATGGACTCAGGTTATTTGC
897095 AGAAAAGTTTTTT
1 AG-AAAGTTTTTT
897108 TTCTTCTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 32 0.78
33 4 0.10
34 5 0.12
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (31 bp):
AGAAAGTTTTTTATGGACTCAGGTTATTTGC
Found at i:897108 original size:32 final size:32
Alignment explanation
Indices: 897045--897109 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
897035 ATTTTTATAA
*
897045 TGGACTCAGGTTATTTTCAGAAAAGTTTTTTT
1 TGGACTCAGGTTATTTGCAGAAAAGTTTTTTT
897077 TGGACTCAGGTTATTTGCAGAAAAGTTTTTTT
1 TGGACTCAGGTTATTTGCAGAAAAGTTTTTTT
897109 T
1 T
897110 CTTCTTAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.20, T:0.46
Consensus pattern (32 bp):
TGGACTCAGGTTATTTGCAGAAAAGTTTTTTT
Found at i:899026 original size:15 final size:16
Alignment explanation
Indices: 899006--899036 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
898996 GAGATTTTTA
899006 TTTATA-ATTAAATTT
1 TTTATATATTAAATTT
899021 TTTATATATTAAATTT
1 TTTATATATTAAATTT
899037 AATGGACGAC
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATATATTAAATTT
Found at i:899288 original size:2 final size:2
Alignment explanation
Indices: 899281--899311 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
899271 ACACTAAATA
*
899281 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
899312 AAGGTGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:899358 original size:15 final size:15
Alignment explanation
Indices: 899338--899379 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
899328 AAATCTCTTG
899338 AATTAATTTATTTTT
1 AATTAATTTATTTTT
899353 AATTAAACTTTATTTTT
1 AATT-AA-TTTATTTTT
899370 -ATTATATTTA
1 AATTA-ATTTA
899380 AATAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.38
16 6 0.25
17 9 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
AATTAATTTATTTTT
Found at i:912723 original size:79 final size:78
Alignment explanation
Indices: 912588--912847 Score: 306
Period size: 79 Copynumber: 3.3 Consensus size: 78
912578 CTTCACATGC
* * * * *
912588 AACGCCTTGTGATGCCAAGTCACCCTCACTTTGGTCGCCATTGTGGCGTGCAATTGACCCCACAT
1 AACGCCCTGTGACGCCAAGTCACCCTCACTCTGGTC-CCATCGTGGCGTGCTATTGACCCCACAT
912653 GATGCCAAGTCATT
65 GATGCCAAGTCATT
*
912667 AACGCCCTGTGACGCCAAGTCACCCTCACTCTGGTCACCATCGTGGTGTGCTATTGACCCCACAT
1 AACGCCCTGTGACGCCAAGTCACCCTCACTCTGGTC-CCATCGTGGCGTGCTATTGACCCCACAT
912732 GATGCCAAGTCATT
65 GATGCCAAGTCATT
** * * * * * **
912746 AACGCCCTGTGATTCTAAGTCACCTTCACTCTGGTCGCACCGTGGCATG-TAGTTGACCCTGCAT
1 AACGCCCTGTGACGCCAAGTCACCCTCACTCTGGTCCCATCGTGGCGTGCTA-TTGACCCCACAT
* * *
912810 GAGGCCAAGTTATC
65 GATGCCAAGTCATT
*
912824 AGCGCCCTTGTGACGCCAAGTCAC
1 AACGCCC-TGTGACGCCAAGTCAC
912848 TGCTACGCTT
Statistics
Matches: 155, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
77 2 0.01
78 36 0.23
79 117 0.75
ACGTcount: A:0.21, C:0.32, G:0.22, T:0.25
Consensus pattern (78 bp):
AACGCCCTGTGACGCCAAGTCACCCTCACTCTGGTCCCATCGTGGCGTGCTATTGACCCCACATG
ATGCCAAGTCATT
Found at i:918921 original size:20 final size:20
Alignment explanation
Indices: 918878--918918 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
918868 TTTTTACCTG
**
918878 TATTATTTTTAATTATAATT
1 TATTATTTTTAAAAATAATT
918898 TATTATTTTTTAAAAATAATT
1 TATTA-TTTTTAAAAATAATT
918919 ATTGGTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTTTTAAAAATAATT
Found at i:920472 original size:20 final size:21
Alignment explanation
Indices: 920435--920478 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
920425 TAATTTTAAA
*
920435 TTATAAAATAAATAAAAATAT
1 TTATAAAATAAATAAAAAAAT
*
920456 TTATAAAA-AATTAAAAAAAT
1 TTATAAAATAAATAAAAAAAT
920476 TTA
1 TTA
920479 GTAATATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTATAAAATAAATAAAAAAAT
Found at i:920632 original size:19 final size:18
Alignment explanation
Indices: 920590--920638 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
920580 TTTTAATTAT
920590 TATTTTAATAATAAATATA
1 TATTTTAAT-ATAAATATA
*
920609 T-TTTTTATATAAATATAA
1 TATTTTAATATAAATAT-A
920627 TATTTTAATATA
1 TATTTTAATATA
920639 TATTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TATTTTAATATAAATATA
Found at i:920994 original size:23 final size:24
Alignment explanation
Indices: 920954--921001 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
920944 TTTATTTTTA
920954 AAAATATTTAATAATATTAA-AAT
1 AAAATATTTAATAATATTAATAAT
*
920977 AAAATAATTTAAT-TTATTAATAAT
1 AAAAT-ATTTAATAATATTAATAAT
921001 A
1 A
921002 TTATCAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAAATATTTAATAATATTAATAAT
Found at i:924787 original size:15 final size:15
Alignment explanation
Indices: 924769--924806 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
924759 TATTTTAAAA
924769 TAATATAATTATATT
1 TAATATAATTATATT
*
924784 TAATATATGTTATATT
1 TAATATA-ATTATATT
924800 T-ATATAA
1 TAATATAA
924807 ATTTTATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TAATATAATTATATT
Found at i:924847 original size:16 final size:16
Alignment explanation
Indices: 924828--924879 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
924818 TTAATAATTT
*
924828 AATTTTTATTATATAA
1 AATTTATATTATATAA
* *
924844 AATTTAAAATATAT-A
1 AATTTATATTATATAA
*
924859 TATTTATATTATATAA
1 AATTTATATTATATAA
*
924875 TATTT
1 AATTT
924880 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTATATTATATAA
Found at i:924847 original size:21 final size:22
Alignment explanation
Indices: 924806--924850 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
924796 TATTTATATA
*
924806 AATTTTATGTTATTAATAATTT
1 AATTTTATATTATTAATAATTT
924828 AATTTT-TATTATATAA-AATTT
1 AATTTTATATTAT-TAATAATTT
924849 AA
1 AA
924851 AATATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTTTATATTATTAATAATTT
Found at i:924902 original size:24 final size:27
Alignment explanation
Indices: 924737--924923 Score: 84
Period size: 26 Copynumber: 6.8 Consensus size: 27
924727 GAGAAAATTT
* * *
924737 TTATATTTATATTATAT-TTATATATT
1 TTATAATTATATTTTATATTATATATA
* * * *
924763 TTAAAATAATATAATTATATTTAATATATG
1 TTATAATTATAT-TTTATA-TT-ATATATA
* ** * *
924793 TTATATTTATA-TAAATTTTATGT-TA
1 TTATAATTATATTTTATATTATATATA
*
924818 TTAATAATT-TAATTTT-TATTATATAAAA
1 TT-ATAATTAT-ATTTTATATTATAT-ATA
*
924846 TTTAAAATATATATATTTATATTATATAATA
1 -TTATAAT-TATAT-TTTATATTATAT-ATA
*
924877 TTTTAATT-T-TTTTATATTATAT-TA
1 TTATAATTATATTTTATATTATATATA
924901 TTATAATTATATTTTAATATTAT
1 TTATAATTATATTTT-ATATTAT
924924 CGAGCAAATC
Statistics
Matches: 118, Mismatches: 26, Indels: 33
0.67 0.15 0.19
Matches are distributed among these distances:
24 9 0.08
25 5 0.04
26 40 0.34
27 14 0.12
28 8 0.07
29 8 0.07
30 23 0.19
31 11 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (27 bp):
TTATAATTATATTTTATATTATATATA
Found at i:924911 original size:14 final size:13
Alignment explanation
Indices: 924857--924923 Score: 51
Period size: 13 Copynumber: 5.6 Consensus size: 13
924847 TTAAAATATA
924857 TATATT-TA-TAT
1 TATATTATATTAT
*
924868 TATATAATATT-T
1 TATATTATATTAT
924880 TA-ATT-T-TT-T
1 TATATTATATTAT
924889 TATATTATATTAT
1 TATATTATATTAT
924902 TATAATTATATT-T
1 TAT-ATTATATTAT
924915 TAATATTAT
1 T-ATATTAT
924924 CGAGCAAATC
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
9 5 0.11
10 4 0.09
11 8 0.17
12 7 0.15
13 12 0.26
14 10 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:925602 original size:69 final size:69
Alignment explanation
Indices: 925519--925659 Score: 176
Period size: 69 Copynumber: 2.0 Consensus size: 69
925509 ACTTATTTAA
* * * * *
925519 ATATTTTACCTTTTAATATATCG-AAGAATGCTTAAATCACAAAACTATTATTTTTTTAATTTAT
1 ATATTTTACCTTTTAACATAT-GAAAGAATACTTAAATCACAAAACTATTAATTTTTCAATATAT
925583 CAATC
65 CAATC
** * * *
925588 ATATTTTATTTTTTAACATATGAAAGATTACTTAAATCATAAAACTATTAATTTTTCCATATATC
1 ATATTTTACCTTTTAACATATGAAAGAATACTTAAATCACAAAACTATTAATTTTTCAATATATC
925653 AATC
66 AATC
925657 ATA
1 ATA
925660 ATATCAAAGT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
68 1 0.02
69 60 0.98
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.45
Consensus pattern (69 bp):
ATATTTTACCTTTTAACATATGAAAGAATACTTAAATCACAAAACTATTAATTTTTCAATATATC
AATC
Found at i:925848 original size:113 final size:114
Alignment explanation
Indices: 925639--925854 Score: 310
Period size: 113 Copynumber: 1.9 Consensus size: 114
925629 AAACTATTAA
* * *
925639 TTTTTCCATATATCAATCATAATATCAAAGTTTGGCAATTTTAACAAGTTGAATATTACATATTA
1 TTTTTCCATATATCAATCATAATATCAAAGTTTGACAATTTTAACAAATTGAATATTACACATTA
* *
925704 GATTAACTTAGATGCATATTTGATGAGTAAAAAATTTTATAACCTTTAT
66 GATTAACTTAGATGCATATTTGATCACTAAAAAATTTTATAACCTTTAT
* * * * *
925753 TTTTTTCATGTATCAATCATATTATC-AAGTTTGATAATTTTAACAAATTTAATATTACACATTA
1 TTTTTCCATATATCAATCATAATATCAAAGTTTGACAATTTTAACAAATTGAATATTACACATTA
*
925817 GATTAACTTAGATGCATAATTTTA-CACTAAAAAATTTT
66 GATTAACTTAGATGCAT-ATTTGATCACTAAAAAATTTT
925855 GTTTAATCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
113 62 0.69
114 28 0.31
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.43
Consensus pattern (114 bp):
TTTTTCCATATATCAATCATAATATCAAAGTTTGACAATTTTAACAAATTGAATATTACACATTA
GATTAACTTAGATGCATATTTGATCACTAAAAAATTTTATAACCTTTAT
Found at i:926402 original size:16 final size:16
Alignment explanation
Indices: 926350--926428 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 16
926340 AGTTTAATGG
926350 TATTTAAATATTATATT
1 TATTTAAAT-TTATATT
*
926367 AATATT--ATTTATATT
1 TAT-TTAAATTTATATT
926382 TATTTAAATTTA-ATT
1 TATTTAAATTTATATT
* *
926397 TGATTTAAA-ATATATA
1 T-ATTTAAATTTATATT
926413 T-TTTAAATTT-TATT
1 TATTTAAATTTATATT
926427 TA
1 TA
926429 AATTTATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 16
0.69 0.08 0.23
Matches are distributed among these distances:
14 12 0.24
15 16 0.33
16 17 0.35
17 2 0.04
18 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (16 bp):
TATTTAAATTTATATT
Found at i:926459 original size:41 final size:41
Alignment explanation
Indices: 926380--926460 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
926370 ATTATTTATA
* *
926380 TTTATTTAAATTTAATTTGATTTAAAATATATATTTTAAAT
1 TTTATTTAAATTTAATTTGATTTAAAATATAAAGTTTAAAT
926421 TTTATTTAAATTT-ATCTT-ATTTATAAATGA-AAAGTTTAAA
1 TTTATTTAAATTTAAT-TTGATTTA-AAAT-ATAAAGTTTAAA
926461 CTTGTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
40 7 0.20
41 27 0.77
42 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (41 bp):
TTTATTTAAATTTAATTTGATTTAAAATATAAAGTTTAAAT
Found at i:926501 original size:14 final size:13
Alignment explanation
Indices: 926482--926527 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
926472 CAATTCATAT
926482 TTTATTTTTTATAA
1 TTTATTTTTTA-AA
926496 TTTATTTTTTAAA
1 TTTATTTTTTAAA
*
926509 TATATATTTTTAAAA
1 T-T-TATTTTTTAAA
926524 TTTA
1 TTTA
926528 ATCATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
14 13 0.45
15 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTATTTTTTAAA
Found at i:928434 original size:33 final size:34
Alignment explanation
Indices: 928370--928437 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 34
928360 TTTGGCCCAT
928370 AAAAAAAATCAAAAGATTTAATTTTAAAAAACAAA
1 AAAAAAAATCAAAAGATTTAA-TTTAAAAAACAAA
*
928405 AAAAAAAATC-AAAGATTTGA-TTAAGAAAACAAA
1 AAAAAAAATCAAAAGATTTAATTTAA-AAAACAAA
928438 GCAGAGCTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 4 0.13
33 8 0.26
34 9 0.29
35 10 0.32
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.21
Consensus pattern (34 bp):
AAAAAAAATCAAAAGATTTAATTTAAAAAACAAA
Found at i:930494 original size:2 final size:2
Alignment explanation
Indices: 930483--930518 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
930473 TTCTCTTTTT
*
930483 TC TC TT TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
930519 TTTTGCTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:930503 original size:17 final size:17
Alignment explanation
Indices: 930483--930515 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
930473 TTCTCTTTTT
*
930483 TCTCTTTCTCTCTCTCC
1 TCTCTCTCTCTCTCTCC
930500 TCTCTCTCTCTCTCTC
1 TCTCTCTCTCTCTCTC
930516 TCTTTTTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (17 bp):
TCTCTCTCTCTCTCTCC
Found at i:933073 original size:20 final size:20
Alignment explanation
Indices: 933041--933115 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
933031 TTTTACCTAG
*
933041 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
933061 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
933081 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
933101 ATGTATCGATACATT
1 ATGTATCGATACATT
933116 ATGCCTTTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:933108 original size:40 final size:39
Alignment explanation
Indices: 933041--933118 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
933031 TTTTACCTAG
* * *
933041 ATGTATTGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
933081 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
933119 CCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:937399 original size:19 final size:19
Alignment explanation
Indices: 937360--937401 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
937350 GAGGAAGGGC
*
937360 CATTTTTTTTATTGATGTT
1 CATTTTTTTTATTGATATT
* *
937379 CATTTTTTTTCTTGCTATT
1 CATTTTTTTTATTGATATT
937398 CATT
1 CATT
937402 CCCATTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.14, C:0.12, G:0.07, T:0.67
Consensus pattern (19 bp):
CATTTTTTTTATTGATATT
Found at i:946994 original size:28 final size:28
Alignment explanation
Indices: 946951--947004 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
946941 TTTACACCCC
946951 AAAAAACAGAACAAAATA-AAAAAAACA
1 AAAAAACAGAACAAAATAGAAAAAAACA
946978 AAAAAACCAAGAA-AAAATAGAAAAAAA
1 AAAAAA-C-AGAACAAAATAGAAAAAAA
947005 AGAAAAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 6 0.25
28 7 0.29
29 11 0.46
ACGTcount: A:0.81, C:0.09, G:0.06, T:0.04
Consensus pattern (28 bp):
AAAAAACAGAACAAAATAGAAAAAAACA
Found at i:947007 original size:18 final size:19
Alignment explanation
Indices: 946951--947010 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
946941 TTTACACCCC
*
946951 AAAAAACAGAACAAAATAA-
1 AAAAAACAGAA-AAAACAAG
946970 AAAAAACA-AAAAAACCAAG
1 AAAAAACAGAAAAAA-CAAG
*
946989 AAAAAATAGAAAAAA-AAG
1 AAAAAACAGAAAAAACAAG
947007 AAAA
1 AAAA
947011 GGGTCTAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
17 4 0.11
18 11 0.31
19 15 0.42
20 6 0.17
ACGTcount: A:0.82, C:0.08, G:0.07, T:0.03
Consensus pattern (19 bp):
AAAAAACAGAAAAAACAAG
Found at i:948517 original size:30 final size:27
Alignment explanation
Indices: 948221--951217 Score: 2965
Period size: 28 Copynumber: 104.4 Consensus size: 27
948211 AATGTTCATC
* *
948221 CCTTTGAAAGCCCACGAGTCAGTGGCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA
948248 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-C-TTTCAAAGCCCACAAGTCAGTGGCA
* *
948277 CCCTTTC-AAGCCCACGAGTCAATGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
948304 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
**
948331 CCTTTTCAAAGCCCATGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
948359 CCCTTTC-AAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
948386 CCCTTTC-AAGCCCACGAGTCAATGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
948413 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
948440 CCTTTTCAAAGCCCACAATTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
948468 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
948496 TCCTTTCAAAGCCCACACAAGTCAGTGGCA
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
948526 CTTCTTTCAAAGCCCACATAAGTCGGTGGCAA
1 C--CTTTCAAAGCCCAC--AAGTCAGTGGC-A
*
948558 CTCCTTTCAAAGCCCACAAGTTAGTGGCA
1 --CCTTTCAAAGCCCACAAGTCAGTGGCA
*
948587 TTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 --CCTTTCAAAGCCCACAAGTCAGTGGCA
*
948616 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
948643 CCTTTTGAAAGCCCACGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
948671 CTCTTTCAATGTCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
948699 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
948729 CCCTTTTAAAGCCCACGCAAATCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
948759 CCCTTTTAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
948789 CCTTTTCAAA-CCCACGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
* * ** *
948816 CATTTTTCAAAACCCATGAGTCAGTAGCA
1 C--CTTTCAAAGCCCACAAGTCAGTGGCA
948845 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
948873 TCCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
948903 CCCTTTTAAAGCCCATGCAAGTCAATGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
948933 CCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
948961 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-C-TTTCAAAGCCCACAAGTCAGTGGCA
948990 CCCTTTC-AAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
949017 CCCTTTC-AAGCCCACAAGTCAATGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
949044 CCTTTTC-AAG--CACAGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACA-AGTCAGTGGCA
* *
949070 CCTTTTCAAAACCCACGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
949098 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
949126 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
949154 CCCTTTCGAAGTCCACAAGTTAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
949182 CCCTTTCGAAGCCCACAATTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
949210 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
949238 TCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
949268 CTCCTTTCAAAGCCCACACAAGTCGGTGGCAA
1 --CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
*
949300 CTCCTTTCAAAGCCCATAAGTCAGTGGCA
1 --CCTTTCAAAGCCCACAAGTCAGTGGCA
*
949329 CTCTTTTCAAAGCCCACAAGTCTGTGGCA
1 C-C-TTTCAAAGCCCACAAGTCAGTGGCA
*
949358 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
949385 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
949412 CTTTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
949440 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
949468 TCCTTTCAAAGCCCACTCGAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949498 CCCTTTTAAAGCCCATGCAAATCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949528 CCCTTTTAGAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949558 CATTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
* *
949586 CCTTTTTCAAAACCCACGAGTCAGTGGCA
1 CC--TTTCAAAGCCCACAAGTCAGTGGCA
949615 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
949643 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
949673 TCCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949703 CTTTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
949731 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
949759 TCCTTTCAAAGCCCACTCGAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949789 CCCTTTTAAAGCCCATGCAAATCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949819 CCCTTTTAGAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
949849 CATTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
* *
949877 CCTTTTTCAAAACCCACGAGTCAGTGGCA
1 CC--TTTCAAAGCCCACAAGTCAGTGGCA
949906 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
949934 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
949964 TCCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
**
949994 CCTTTTCAAAGCCCATGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
950022 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950050 TCCTTTCAAAGCCCACGCAAGTTAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * *
950080 CCCTTTTAAAGCACACGCATGTTAGTGGCA
1 -CCTTTCAAAGC-C-CACAAGTCAGTGGCA
* *
950110 CCCTTTTAAAGCCCACGCAAGCCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
950140 CATTTTC-AAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
950167 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950195 TCCTTTCAAATCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *
950225 CCCTTTCGAAGTCCACAAGTTAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
950253 CTCTTTCGAAGCCCACAATTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
950281 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950309 TCCTTTCAAAGCCCACACAAGTTAGTGGCA
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
950339 CTCCTTTCAAAGCCCACACAAGTCGGTGGCAA
1 --CCTTTCAAAG-CC-CACAAGTCAGTGGC-A
*
950371 CTCCTTTCAAAGCCCATAAGTCAGTGGCA
1 --CCTTTCAAAGCCCACAAGTCAGTGGCA
*
950400 CTCTTTTCAAAGCCCACAAGTCTGTGGCA
1 C-C-TTTCAAAGCCCACAAGTCAGTGGCA
*
950429 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
*
950456 CCCTTTC-AAGCCCACGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
950483 CTTTTTCAAAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
950511 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950539 TCCTTTCAAAGCCCACTCGAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
950569 CCCTTTTAAAGCCCACGCAAATCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
950599 CCCTTTTAGAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *
950629 CATTTTCAAAGACCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
* * *
950657 CCTTTTTCAAAACCCACGAGTCAGTCGCA
1 CC--TTTCAAAGCCCACAAGTCAGTGGCA
950686 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
950714 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
950744 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
*
950774 CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
950802 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950830 TCCTTTCAAAGCCCACGCAAGTTAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * *
950860 CCCTTTTAAAGCACACGCATGTTAGTGGCA
1 -CCTTTCAAAGC-C-CACAAGTCAGTGGCA
* *
950890 CCCTTTTAAAGCCCACGCAAGCCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
950920 CATTTTC-AAGCCCACGAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
950947 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
*
950975 TCCTTTCAAATCCCACGCAAGTCAGTGGCA
1 -CCTTTCAAAGCCCA--CAAGTCAGTGGCA
* *
951005 CCCTTTTAAAGCCCGCGCAAGTCAGTGGCA
1 -CCTTTCAAAG-CC-CACAAGTCAGTGGCA
*
951035 CTCTTTTCAAAGCCCATGCAAGTTAGTGGCA
1 C-C-TTTCAAAGCCCA--CAAGTCAGTGGCA
**
951066 CTCCTTTCAAAGCCCATGAGTCAGTGGCA
1 --CCTTTCAAAGCCCACAAGTCAGTGGCA
**
951095 CCCTTTCAAAGCCCATGAGTCAGTGGCA
1 -CCTTTCAAAGCCCACAAGTCAGTGGCA
951123 CCTTTTC-AAGCCCACAAGTCAGTGGCA
1 CC-TTTCAAAGCCCACAAGTCAGTGGCA
*
951150 CTTTTC-AAGCCCACAAGTCAGTGGCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
951176 CTTTTTTAAAGCCCACAAGTCAGTAGCA
1 C-CTTTCAAAGCCCACAAGTCAGTGGCA
951204 CTCTTTTCAAAGCC
1 C-C-TTTCAAAGCC
951218 TAGAAGCCAG
Statistics
Matches: 2617, Mismatches: 221, Indels: 262
0.84 0.07 0.08
Matches are distributed among these distances:
25 4 0.00
26 52 0.02
27 371 0.14
28 953 0.36
29 301 0.12
30 777 0.30
31 112 0.04
32 45 0.02
33 1 0.00
34 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (27 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:949742 original size:291 final size:284
Alignment explanation
Indices: 948221--951217 Score: 3261
Period size: 291 Copynumber: 10.4 Consensus size: 284
948211 AATGTTCATC
* * *
948221 CCTTTGAAAGCCCACG--AGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 CCTTTCAAAGCCCACGCAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
* * *
948284 -AAGCCCACGAGTCAATGGCACCCTTTC-AAGCCCACGAGTCAGTGGCA-CCTTTTCAAAGCCCA
65 AAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCA
* *
948346 TGAGTCAGTGGCACCC-TTTCAAGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACG--AGTCA
129 CGAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGCAAGTCA
* * *
948407 ATGGCACCCTTTC-AAGCCCACGAGTCAGTGGCACC-TTTTCAAAGCCCACAATTCAGTGGCACT
194 GTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCACC
948470 CTTTCAAAGCCCACAAGTCAGTGGCA
259 CTTTCAAAGCCCACAAGTCAGTGGCA
* * *
948496 TCCTTTCAAAGCCCACACAAGTCAGTGGCACTTCTTTCAAAGCCCACATAAGTCGGTGGCAACTC
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCA-TCCTTTCAAAGCCCAC--AAGTCAGTGGC-AC-C
* * * * *
948561 CTTTCAAAGCCCACAAGTTAGTGGCATTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AA
60 TTTTCAAAGCCCACGAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* * * *
948625 GCCCACGAGTCAGTGGCA-CCTTTTGAAAGCCCACGAGTCAGTGGCACTCTTTCAATGTCCA--C
124 GCCCACGAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGC
* * *
948687 AAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTT-AAAGCCCACGCAAAT
188 AAGTCAGTGGCACCCTTTCAAAGCCCACG--AGTCAGTGGCACCTTTTTCAAAGCCCA--CAAGT
*
948751 CAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTGGCA
249 CAGTGGCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * ** * *
948789 CCTTTTCAAA-CCCACG--AGTCAGTGGCA-CATTTTTCAAAACCCATGAGTCAGTAGCACCCTT
1 CC-TTTCAAAGCCCACGCAAGTCAGTGGCATC--CTTTCAAAGCCCACAAGTCAGTGGCACCTTT
* * *
948850 TCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCATGCAAGTCAGTGGCACCCTTTTAAAG
63 TCAAAGCCCACGAGTCAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCATCCTTTCAAAG
* * *
948914 CCCATGCAAGTCAATGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA-
125 CCCA--CGAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCAC
* *
948977 -CAAGTCAGTGGCACCCTTTC-AAGCCCACAAGTCAGTGGCACC-CTTTC-AAGCCCACAAGTCA
186 GCAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCA
* *
949038 ATGGCACCTTTTC-AAG--CACAGAGTCAGTGGCA
251 GTGGCACCCTTTCAAAGCCCACA-AGTCAGTGGCA
* *
949070 CCTTTTCAAAACCCACG--AGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
1 CC-TTTCAAAGCCCACGCAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCTTTT
* * * * * * *
949132 CAAAGCCCACAAGTCAGTGGCACCCTTTCGAAGTCCACAAGTTAGTGGCACCCTTTCGAAGCCCA
64 CAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA
* * * * * * *
949197 CAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTTA
129 CGAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGCAAGTCA
* * * * *
949262 GTGGCACTCCTTTCAAAGCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCATAAGTCAGTGG
194 GTGGCAC-CCTTTCAAAG-CC-CACGAGTCAGTGGCACCT-TTTTCAAAGCCCACAAGTCAGTGG
* *
949327 CACTCTTTTCAAAGCCCACAAGTCTGTGGCA
255 CAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
949358 CCCTTTC-AAGCCCACG--AGTCAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGCACTTTTTC
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
949419 AAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
65 AAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCA-
* * *
949484 TCGAGTCAGTGGCACCCTTTTAAAGCCCATGCAAATCAGTGGCACCCTTTTAGAGCCCACGCAAG
129 -CGAGTCAGTGGCACCCTTTTAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACGCAAG
** * *
949549 TCAGTGGCACATTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAACCCACGAGTCAGTGGC
191 TCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGC
949614 ACCCTTTCAAAGCCCACAAGTCAGTGGCA
256 ACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
949643 TCCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCATGCAAGTCAGTGGCACTTTT
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTT
949708 TCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
63 TCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
* * *
949773 ACTCGAGTCAGTGGCACCCTTTTAAAGCCCATGCAAATCAGTGGCACCCTTTTAGAGCCCACGCA
128 A--CGAGTCAGTGGCACCCTTTTAAAGCCCA--CAAGTCAGTGGCACCCTTTCAAAGCCCACGCA
** * *
949838 AGTCAGTGGCACATTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAACCCACGAGTCAGTG
189 AGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTG
949903 GCACCCTTTCAAAGCCCACAAGTCAGTGGCA
254 GCACCCTTTCAAAGCCCACAAGTCAGTGGCA
949934 TCCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCATGCAAGTCAGTGGCACCTTT
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTT
*
949999 TCAAAGCCCATGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
63 TCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCC
* * * * *
950064 ACGCAAGTTAGTGGCACCCTTTTAAAGCACACGCATGTTAGTGGCACCCTTTTAAAGCCCACGCA
128 ACG--AGTCAGTGGCACCCTTTTAAAGC-C-CACAAGTCAGTGGCACCCTTTCAAAGCCCACGCA
* ** *
950129 AGCCAGTGGCACATTTTC-AAGCCCACGAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTG
189 AGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTG
* *
950192 GCATCCTTTCAAATCCCACGCAAGTCAGTGGCA
254 GCACCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * * *
950225 CCCTTTCGAAGTCCA--CAAGTTAGTGGCA-CTCTTTCGAAGCCCACAATTCAGTGGCA-CTCTT
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACCT-TT
* *
950286 TCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACACAAGTTAGTGGCACTCCTTTCAAA
63 TCAAAGCCCACGAGTCAGTGGCACT-CTTTCAAAG-CC-CACAAGTCAGTGGCA-TCCTTTCAAA
* * * * *
950350 GCCCACACAAGTCGGTGGCAACTCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCC
124 G-CC-CACGAGTCAGTGGC-AC-CCTTTTAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCC
* * *
950415 A--CAAGTCTGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGCACC-CTTTC-AAGCCCACGAGT
184 ACGCAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGT
** *
950475 CAGTGGCACTTTTTCAAAGCCCACGAGTCAGTGGCA
249 CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
950511 CTCTTTCAAAGCCCA--CAAGTCAGTGGCATCCTTTCAAAGCCCACTCGAGTCAGTGGCACCCTT
1 C-CTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCA-CCTT
* * * * *
950574 TT-AAAGCCCACGCAAATCAGTGGCACCCTTTTAGAGCCCACGCAAGTCAGTGGCA-CATTTTCA
62 TTCAAAGCCCACG--AGTCAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGGCATC-CTTTCA
* * * * *
950637 AAGACCACGAGTCAGTGGCACCTTTTTCAAAACCCACGAGTCAGTCGCACCCTTTCAAAGCCCA-
122 AAGCCCACGAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCAC
*
950701 -CAAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTCAGTGGCATCC--TTTCAAAGCCCACGCA
186 GCAAGTCAGTGGCACCCTTTCAAAGCCCACG--AGTCAGTGGCA-CCTTTTTCAAAGCCCA--CA
* *
950763 AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCA
246 AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
*
950802 CTCTTTCAAAGCCCA--CAAGTCAGTGGCATCCTTTCAAAGCCCACGCAAGTTAGTGGCACCCTT
1 C-CTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCA-CCTT
* * * * * *
950865 TT-AAAGCACACGCATGTTAGTGGCACCCTTTTAAAGCCCACGCAAGCCAGTGGCA-CATTTTC-
62 TTCAAAGCCCACG-A-GTCAGTGGCACTCTTTCAAAGCCCA--CAAGTCAGTGGCATC-CTTTCA
* * * *
950927 AAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAATCCCACG
122 AAGCCCACGAGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACG
* *
950992 CAAGTCAGTGGCACCCTTTTAAAGCCCGCGCAAGTCAGTGGCA-CTCTTTTCAAAGCCCATGCAA
187 CAAGTCAGTGGCACCCTTTCAAAGCCCACG--AGTCAGTGGCACCT-TTTTCAAAGCCCA--CAA
* **
951056 GTTAGTGGCACTCCTTTCAAAGCCCATGAGTCAGTGGCA
247 GTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
951095 CCCTTTCAAAGCCCATG--AGTCAGTGGCA-CCTTTTC-AAGCCCACAAGTCAGTGGCA-CTTTT
1 -CCTTTCAAAGCCCACGCAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACCTTTT
* * * * *
951155 C-AAGCCCACAAGTCAGTGGCACTTTTTTAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCC
64 CAAAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCC
951218 TAGAAGCCAG
Statistics
Matches: 2397, Mismatches: 208, Indels: 222
0.85 0.07 0.08
Matches are distributed among these distances:
276 27 0.01
277 32 0.01
278 43 0.02
279 31 0.01
280 15 0.01
281 86 0.04
282 41 0.02
283 20 0.01
284 45 0.02
285 168 0.07
286 276 0.12
287 140 0.06
288 170 0.07
289 215 0.09
290 229 0.10
291 728 0.30
292 56 0.02
293 74 0.03
294 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (284 bp):
CCTTTCAAAGCCCACGCAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCA
AAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACG
AGTCAGTGGCACCCTTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGCAAGTCAGT
GGCACCCTTTCAAAGCCCACGAGTCAGTGGCACCTTTTTCAAAGCCCACAAGTCAGTGGCACCCT
TTCAAAGCCCACAAGTCAGTGGCA
Found at i:951424 original size:44 final size:46
Alignment explanation
Indices: 951374--951480 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 46
951364 CTAGCATTCA
*
951374 ATCAGCATATTGG-CACTTTT-ATTAGCCCAATATCGCTGGCCTTG
1 ATCAGCACATTGGCCACTTTTCATTAGCCCAATATCGCTGGCCTTG
* *
951418 ATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCTGGCCTTG
1 ATCAGCACATTGG-CCACTTTT-CATTAGCCCAATATCGCTGGCCTTG
**
951466 AATTGGCACATTGGC
1 -ATCAGCACATTGGC
951481 ACTCCTCTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.23
46 7 0.13
48 23 0.43
49 11 0.21
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.32
Consensus pattern (46 bp):
ATCAGCACATTGGCCACTTTTCATTAGCCCAATATCGCTGGCCTTG
Found at i:951884 original size:20 final size:20
Alignment explanation
Indices: 951856--951930 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
951846 TTTTACCCAG
951856 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
951876 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
951896 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
951916 ATGTATCGATACATT
1 ATGTATCGATACATT
951931 ATGCCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:951923 original size:40 final size:39
Alignment explanation
Indices: 951856--951933 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
951846 TTTTACCCAG
* *
951856 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* *
951896 ATGTATCGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
951934 CCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:955911 original size:28 final size:28
Alignment explanation
Indices: 955667--956731 Score: 947
Period size: 28 Copynumber: 37.5 Consensus size: 28
955657 GAATGTTCAT
* *
955667 CCCTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
955695 CTCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
955724 CCCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
* * *
955753 CTCTTTTCAAAACCCATAAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
*
955782 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
* *
955811 CCC--TTCAAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* * * *
955837 -TCTTTTCAAGCCCACGAGTCAATGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
955864 CCC-TTTCAAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
** * *
955891 TTCTTTTATAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
955919 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
*
955947 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
** * *
955975 CCCTTTCGAAGTCCACAAGTTAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
** * *
956003 CCCTTTCGACGCCCACAATTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956031 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956059 TCCTTTGAAAGCCCACACAAGTCAGTGGCA
1 CCCTTTTAAAG-CC-CACAAGTCAGTGGCA
* *
956089 CTCCTTTCAAAGCCCACACAAGTCGGTGGCAA
1 C-CCTTTTAAAG-CC-CACAAGTCAGTGGC-A
* *
956121 CTCCGTTGAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956150 CCC-TTTCAAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
**
956177 CCCTTTCT--AGCCCAGGAGTCAGTGGCA
1 CCCTTT-TAAAGCCCACAAGTCAGTGGCA
*
956204 -CCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
* *
956232 CTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* * *
956260 TCCTTTCAAAGCCCACGCAAGTTAGTGGCA
1 CCCTTTTAAAGCCCA--CAAGTCAGTGGCA
* *
956290 CCCTTTTAAAGCTCACGCAAGTCAGTGCCA
1 CCCTTTTAAAGC-C-CACAAGTCAGTGGCA
* * *
956320 -CATTTTCAAGCCCACGAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* * *
956347 CTCTTTCAAAGCCTACAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956375 TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTTAAAGCCCA--CAAGTCAGTGGCA
* * *
956405 TCCTTTTAAAGCCTACGCAAGTCAGTAGCA
1 CCCTTTTAAAGCC--CACAAGTCAGTGGCA
* *
956435 CTCTTTTCAAAGCCCACACAAGTCAGCGGCA
1 CCCTTTT-AAAG-CC-CACAAGTCAGTGGCA
* **
956466 CTCCTTTCAAAGCCCATGAGTCAGTGGCA
1 C-CCTTTTAAAGCCCACAAGTCAGTGGCA
* * ** *
956495 CCCTTTCAAGGCCCATGAGTTAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* * *
956523 -CCTTTTCAATCCCACAAGTTAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956550 --CTTTTCAAGCCCATAAGTCAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956576 -CTTTTTCAAAGCGCACAAGTCAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
* * *
956604 -CTTTTTTAAGCCCACAAGTCAGTGACA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
* *
956631 -CTTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTT-AAAGCCCACAAGTCAGTGGCA
* * ** *
956659 TCCTTTCAAAGCCCATGAGTTAGTGGCA
1 CCCTTTTAAAGCCCACAAGTCAGTGGCA
956687 -CCTTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTT-AAAGCCCA--CAAGTCAGTGGCA
956717 CCCTTTTAAAGCCCA
1 CCCTTTTAAAGCCCA
956732 TGCATTATTT
Statistics
Matches: 885, Mismatches: 117, Indels: 68
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.00
26 47 0.05
27 156 0.18
28 343 0.39
29 138 0.16
30 123 0.14
31 57 0.06
32 19 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (28 bp):
CCCTTTTAAAGCCCACAAGTCAGTGGCA
Found at i:955960 original size:56 final size:56
Alignment explanation
Indices: 955667--956731 Score: 1073
Period size: 56 Copynumber: 18.8 Consensus size: 56
955657 GAATGTTCAT
* *
955667 CCCTTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
955724 CCCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAACCCATAAGTCAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA
* * *
955782 CTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTC-AAGCCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
955837 TCTTTTC-AAGCCCACGAGTCAATGGCACCCTTTC-AAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
** * * *
955891 TTCTTTTATAGCCCACGAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
955947 CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCGAAGTCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
956003 CCCTTTCGACGCCCACAATTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
956059 TCCTTTGAAAGCCCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTTCAAAG-CC-CACAAGTCAGTGGCACT-CTTTCAAAG-CC-CACAAGTCAGTGGC-A
* * * *
956121 CTCCGTTGAAAGCCCACAAGTCAGTGGCACCCTTTC-AAGCCCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
956177 CCCTTTC-TAGCCCAGGAGTCAGTGGCAC-CTTTTCAAAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
956232 CTCTTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * *
956290 CCCTTTTAAAGCTCACGCAAGTCAGTGCCACAT-TTTC-AAGCCCACGAGTCAGTGGCA
1 CCCTTTCAAAGC-C-CACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTGGCA
* *
956347 CTCTTTCAAAGCCTACAAGTCAGTGGCA-TCCTTTCAAAGCCCACGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * * *
956405 TCCTTTTAAAGCCTACGCAAGTCAGTAGCACTCTTTTCAAAGCCCACACAAGTCAGCGGCA
1 CCCTTTCAAAGCC--CACAAGTCAGTGGCACTC-TTTCAAAG-CC-CACAAGTCAGTGGCA
** * * ** *
956466 CTCCTTTCAAAGCCCATGAGTCAGTGGCACCCTTTCAAGGCCCATGAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
956523 CCTTTTC-AATCCCACAAGTTAGTGGCACT-TTTC-AAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
** * ** *
956576 CTTTTTCAAAGCGCACAAGTCAGTGGCACT-TTTTTAAGCCCACAAGTCAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
** * ** *
956631 CTTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCATGAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAAGCCCACAAGTCAGTGGCA
* * *
956687 CCTTTTCAAAGCCCACGCAAGTCAGTGGCACCCTTTTAAAGCCCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCACTCTTTCAAAGCCCA
956732 TGCATTATTT
Statistics
Matches: 849, Mismatches: 117, Indels: 83
0.81 0.11 0.08
Matches are distributed among these distances:
53 44 0.05
54 83 0.10
55 148 0.17
56 202 0.24
57 52 0.06
58 164 0.19
59 28 0.03
60 50 0.06
61 50 0.06
62 17 0.02
63 11 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (56 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:960109 original size:14 final size:14
Alignment explanation
Indices: 960090--960119 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
960080 TCGATACACC
960090 CAGATGTATCGATA
1 CAGATGTATCGATA
960104 CAGATGTATCGATA
1 CAGATGTATCGATA
960118 CA
1 CA
960120 TGCTGCTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (14 bp):
CAGATGTATCGATA
Found at i:960145 original size:13 final size:13
Alignment explanation
Indices: 960127--960153 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
960117 ACATGCTGCT
960127 TTGTATCGATACA
1 TTGTATCGATACA
960140 TTGTATCGATACA
1 TTGTATCGATACA
960153 T
1 T
960154 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:960150 original size:33 final size:32
Alignment explanation
Indices: 960094--960172 Score: 113
Period size: 32 Copynumber: 2.4 Consensus size: 32
960084 TACACCCAGA
* *
960094 TGTATCGATACAGATGTATCGATACATGCTGCTT
1 TGTATCGATACA-TTGTATCGATACATG-TGCAT
*
960128 TGTATCGATACATTGTATCGATACATGTTCAT
1 TGTATCGATACATTGTATCGATACATGTGCAT
960160 TGTATCGATACAT
1 TGTATCGATACAT
960173 GGCCAAATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
32 16 0.38
33 14 0.33
34 12 0.29
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACATGTGCAT
Found at i:960184 original size:21 final size:19
Alignment explanation
Indices: 960138--960194 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
960128 TGTATCGATA
**
960138 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGGC
960157 CATTGTATCGATACATGGC
1 CATTGTATCGATACATGGC
960176 CAAATTGTATCGATACATG
1 C--ATTGTATCGATACATG
960195 AAACTGACAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 18 0.53
21 16 0.47
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACATGGC
Found at i:960260 original size:13 final size:13
Alignment explanation
Indices: 960239--960269 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
960229 CGATACATGG
*
960239 TACAATGTATCGA
1 TACATTGTATCGA
960252 TACATTGTATCGA
1 TACATTGTATCGA
960265 TACAT
1 TACAT
960270 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:960265 original size:33 final size:32
Alignment explanation
Indices: 960223--960289 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
960213 CTATCACTAT
960223 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
960256 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
960289 T
1 T
960290 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:966385 original size:20 final size:20
Alignment explanation
Indices: 966360--966413 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
966350 ATTTTCCAGA
966360 ATGTATCGATACATTGAGAC
1 ATGTATCGATACATTGAGAC
966380 ATGTATCGATACATTGAGAC
1 ATGTATCGATACATTGAGAC
966400 ATGTATCGATACAT
1 ATGTATCGATACAT
966414 CTGGAAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAGAC
Found at i:966465 original size:13 final size:13
Alignment explanation
Indices: 966447--966487 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
966437 ACAACATTCC
966447 TTGTATCGATACA
1 TTGTATCGATACA
*
966460 TTGTATCGATAAA
1 TTGTATCGATACA
966473 TTGTATCGATACA
1 TTGTATCGATACA
966486 TT
1 TT
966488 AGGTACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:968455 original size:412 final size:412
Alignment explanation
Indices: 967687--968512 Score: 1454
Period size: 412 Copynumber: 2.0 Consensus size: 412
967677 AAGGCATTTC
*
967687 AGCGATCCTTCACGGTATGATTCTCAGCTACTTTTTCGAGGTTAATGGAGTGGATATGTCATGTG
1 AGCGATCCTTCACGGTATGATTCTCAGCTACTTTTTCGAGGTTAATGGAGTGGATATGTCATGCG
*
967752 ACGCCGGGATTCTCGTATCCCGACCACGCATCATCGGTTCAAAAACCATGGCCAAGATTGGCTAT
66 ACGCCGGGATTCCCGTATCCCGACCACGCATCATCGGTTCAAAAACCATGGCCAAGATTGGCTAT
*
967817 GAAGTACGAAACTGAACCTTAGTGCCTCGACAACGAGATGATCATGCTCCACATGATGTCGAGCA
131 GAAGTACGAAACCGAACCTTAGTGCCTCGACAACGAGATGATCATGCTCCACATGATGTCGAGCA
* *
967882 CGAGGAACCACTTCAAATGGATGAAGACGTACCTCATCCTCCTCTCTCCGAAGCTCCCGCGTCGA
196 CGAGGAACCACTTCAAATGGATGAAGACGTACCTCATCCTCCTCCCTCCAAAGCTCCCGCGTCGA
*
967947 CACCATTCGTCCACGAGTTGATAGGCTCACTCTCACAACAAATCGCTTCACTCTCACAATGAATG
261 CACCATTCGTCCACGAGTTGATAGGCTCACTCTCACAACAAATCGCTTCACTCTCACAACGAATG
* * *
968012 GATGAGCATTTTGGATCACTCAACTGACGGATAAACTCGATGGATGCACGACTTTCTAAACTTGA
326 GATGAGCATTTTGGATCACTCAACCGACGGATAAACTCGATGGACGCACGACTTTCTAAACTTAA
968077 GCACCATTCCTCAACTAACTCT
391 GCACCATTCCTCAACTAACTCT
* *
968099 AGCGATCCTTCACTGTATGATTCTTAGCTACTTTTTCGAGGTTAATGGAGTGGATATGTCATGCG
1 AGCGATCCTTCACGGTATGATTCTCAGCTACTTTTTCGAGGTTAATGGAGTGGATATGTCATGCG
* * *
968164 ATGTCGGGATTCCCGTATCCCGACCACGCATCATCGGTTCGAAAACCATGGCCAAGATTGGCTAT
66 ACGCCGGGATTCCCGTATCCCGACCACGCATCATCGGTTCAAAAACCATGGCCAAGATTGGCTAT
* *
968229 GAAGTACGAAACCGAACCTTAGTGCCTCGACAACGAGATGATCATGCTCCAGATGATGTGGAGCA
131 GAAGTACGAAACCGAACCTTAGTGCCTCGACAACGAGATGATCATGCTCCACATGATGTCGAGCA
*
968294 CGAGGAACCACTTCAAATGGATGAAGACGTACCTCATCCTCCTCCCTCTAAAGCTCCCGCGTCGA
196 CGAGGAACCACTTCAAATGGATGAAGACGTACCTCATCCTCCTCCCTCCAAAGCTCCCGCGTCGA
* *
968359 CACCATTCGTCCACGAGTTGATAGGCTCACTCTCACAACAAATTGCTTCATTCTCACAACGAATG
261 CACCATTCGTCCACGAGTTGATAGGCTCACTCTCACAACAAATCGCTTCACTCTCACAACGAATG
* *
968424 GATGAGCATTTTGGATCACTCAACCGACGGATAGACTCGATGGACGCACGACTTTCTAGACTTAA
326 GATGAGCATTTTGGATCACTCAACCGACGGATAAACTCGATGGACGCACGACTTTCTAAACTTAA
*
968489 GCACCATTCCTCAACTATCTCT
391 GCACCATTCCTCAACTAACTCT
968511 AG
1 AG
968513 TGATGCCGAG
Statistics
Matches: 392, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
412 392 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (412 bp):
AGCGATCCTTCACGGTATGATTCTCAGCTACTTTTTCGAGGTTAATGGAGTGGATATGTCATGCG
ACGCCGGGATTCCCGTATCCCGACCACGCATCATCGGTTCAAAAACCATGGCCAAGATTGGCTAT
GAAGTACGAAACCGAACCTTAGTGCCTCGACAACGAGATGATCATGCTCCACATGATGTCGAGCA
CGAGGAACCACTTCAAATGGATGAAGACGTACCTCATCCTCCTCCCTCCAAAGCTCCCGCGTCGA
CACCATTCGTCCACGAGTTGATAGGCTCACTCTCACAACAAATCGCTTCACTCTCACAACGAATG
GATGAGCATTTTGGATCACTCAACCGACGGATAAACTCGATGGACGCACGACTTTCTAAACTTAA
GCACCATTCCTCAACTAACTCT
Found at i:968777 original size:18 final size:19
Alignment explanation
Indices: 968741--968779 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
968731 ATTTTTTTTT
* *
968741 TATAAAATGAGGGAGAAGA
1 TATAAAAAGAGGGAAAAGA
968760 TATAAAAAG-GGGAAAAGA
1 TATAAAAAGAGGGAAAAGA
968778 TA
1 TA
968780 ATCTTTTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (19 bp):
TATAAAAAGAGGGAAAAGA
Found at i:969371 original size:21 final size:21
Alignment explanation
Indices: 969345--969407 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
969335 AAAAGGTCAA
969345 AACCCTTGAATGTATCGATAC
1 AACCCTTGAATGTATCGATAC
969366 AACCCTTGAATGTATCGATAC
1 AACCCTTGAATGTATCGATAC
*
969387 ACACCC-AG-ATGTATCGATAC
1 A-ACCCTTGAATGTATCGATAC
969407 A
1 A
969408 TGCTGCTTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 13 0.32
21 23 0.57
22 4 0.10
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (21 bp):
AACCCTTGAATGTATCGATAC
Found at i:969456 original size:32 final size:33
Alignment explanation
Indices: 969399--969460 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
969389 ACCCAGATGT
*
969399 ATCGATACATGCTGCTTTGTATCGATACATTGA
1 ATCGATACATGCTGCATTGTATCGATACATTGA
*
969432 ATCGATACATG-TTCATTGTATCGATACAT
1 ATCGATACATGCTGCATTGTATCGATACAT
969461 AGCCAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (33 bp):
ATCGATACATGCTGCATTGTATCGATACATTGA
Found at i:969503 original size:21 final size:21
Alignment explanation
Indices: 969446--969503 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
969436 ATACATGTTC
*
969446 ATTGTATCGATACATAGCCAA
1 ATTGTATCGATACATGGCCAA
969467 ATTGTATCGATACATGGCCAA
1 ATTGTATCGATACATGGCCAA
969488 ATTGTATCGATACATG
1 ATTGTATCGATACATG
969504 AAACTGACAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (21 bp):
ATTGTATCGATACATGGCCAA
Found at i:969569 original size:13 final size:13
Alignment explanation
Indices: 969548--969578 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
969538 CGATACATGG
*
969548 TACAATGTATCGA
1 TACATTGTATCGA
969561 TACATTGTATCGA
1 TACATTGTATCGA
969574 TACAT
1 TACAT
969579 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:969574 original size:33 final size:32
Alignment explanation
Indices: 969532--969598 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
969522 CTATCATTAT
969532 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
969565 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
969598 T
1 T
969599 AGCTTATAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:972398 original size:32 final size:30
Alignment explanation
Indices: 972361--972433 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
972351 TAAAGACGTT
*
972361 ACTTTGATAACATATTTATACACTTTTGGTTA
1 ACTTTGATAA-ATA-TTATACACTTTTAGTTA
*
972393 ACTTTGATTCTAAATATTATATACTTTTAGTTA
1 ACTTTGA---TAAATATTATACACTTTTAGTTA
972426 ACTTTGAT
1 ACTTTGAT
972434 CAAAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 1 0.03
32 7 0.19
33 22 0.61
34 3 0.08
35 3 0.08
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (30 bp):
ACTTTGATAAATATTATACACTTTTAGTTA
Found at i:973389 original size:11 final size:11
Alignment explanation
Indices: 973361--973392 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
973351 TAAAGAAAAA
973361 ATAAAAAA-AT
1 ATAAAAAATAT
973371 A-AAAAAATAT
1 ATAAAAAATAT
973381 ATAAAAAATAT
1 ATAAAAAATAT
973392 A
1 A
973393 CTTTATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 6 0.30
10 4 0.20
11 10 0.50
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:974495 original size:21 final size:22
Alignment explanation
Indices: 974454--974496 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
974444 AGTGATGAGA
974454 TTAAATATTATAATAATAATAT
1 TTAAATATTATAATAATAATAT
974476 TTAAA-ATTAATAATAA-AATAT
1 TTAAATATT-ATAATAATAATAT
974497 GTATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAATATTATAATAATAATAT
Found at i:975182 original size:48 final size:48
Alignment explanation
Indices: 975112--975203 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 48
975102 GTTTTTATTT
*
975112 ATATTTAAATTTAGGGTCTATGTTTTATGGATTGGTAATATATATATC
1 ATATTTAAATTTAGGGTCTATGTTTTATAGATTGGTAATATATATATC
* *
975160 ATATTTAAATTTAGGGTTTATGTTTTATAGATTTGTAATATATA
1 ATATTTAAATTTAGGGTCTATGTTTTATAGATTGGTAATATATA
975204 AATTTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.33, C:0.02, G:0.15, T:0.50
Consensus pattern (48 bp):
ATATTTAAATTTAGGGTCTATGTTTTATAGATTGGTAATATATATATC
Found at i:979052 original size:155 final size:152
Alignment explanation
Indices: 978729--979364 Score: 496
Period size: 155 Copynumber: 4.1 Consensus size: 152
978719 TAAGTTTAAG
* ** * * *
978729 AAAAATTATGAGAATATCTCTAGGAGATACCATCGACATAAAAGTACTCGATACCTCTAAAAGAC
1 AAAAATTATGAAAATGCCCCTAGG-GATA-CTTCGACATAAAAGTAC-CGATACCTCTAAAGGAC
* * * * * *
978794 TTAAAAA-GATTATAAATGGGATGAACCTATGCTAGATACTCACCTTCGGCATAAAAGCAGACCC
63 TTAAAAAGGATTTTAAATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCC
* * * *
978858 GGTGACAACCTAGGACTCAATTTTA
128 AGTGACAACCTAGGACTTAGTTCTA
* * * * * * *
978883 TAAAACTATCAAAATGCCCCTAAGGGATATCTTCGACATAAAAATGCCAGATACCTATAAAGGGC
1 AAAAATTATGAAAATGCCCCT-AGGGATA-CTTCGACATAAAAGTACC-GATACCTCTAAAGGAC
* * *
978948 TTAAAAAGGATTTTAAATGGGATGAACCTATCTTAAATACCCACCTTTGACATAAAAG-AGAACC
63 TTAAAAAGGATTTTAAATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAG-ACC
*
979012 CAGTGACAACCTAAGACTTAGTTCTA
127 CAGTGACAACCTAGGACTTAGTTCTA
* * * * * * * *
979038 AAAAATTATGAAAATG-CCTTTGTGGAATACCCTCAACGTAAAAGTATCTGACAACCT-TAGTA-
1 AAAAATTATGAAAATGCCCCTAG-GG-ATA-CTTCGACATAAAAGTA-CCGA-TACCTCTA-AAG
* * ** * * *
979100 GACACT-AAAATGATAAGT-AATAAGATGAACCTATCCTAAATACCCATCTTCGACATAAAAAC-
60 GAC-TTAAAAAGGAT-TTTAAATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCA
** ** * *
979162 GAACCTGGTGATGACTTACGACTTAGTTCTA
123 G-ACCCAGTGACAACCTAGGACTTAGTTCTA
* * * * *
979193 AAAAATTAGGAAAATGCCCCTAGGAGAGACTTCGACGTAAAAGTACCCGATACCCCTAAAGGGCT
1 AAAAATTATGAAAATGCCCCTAGG-GATACTTCGACATAAAAGTA-CCGATACCTCTAAAGGACT
* * * *
979258 TAAAAAGGATTTTAAAAAGGATGAACCCATCCTATATACCCAGCTTCGACATAAAAGCAGACCCA
64 TAAAAAGGATTTTAAATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCA
* * * *
979323 GTGACGACTTTGGAGTTAGTTCTA
129 GTGACAACCTAGGACTTAGTTCTA
*
979347 AAAAATTACGAAAATGCC
1 AAAAATTATGAAAATGCC
979365 TTATGGGTAT
Statistics
Matches: 377, Mismatches: 86, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
153 8 0.02
154 165 0.44
155 191 0.51
156 13 0.03
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (152 bp):
AAAAATTATGAAAATGCCCCTAGGGATACTTCGACATAAAAGTACCGATACCTCTAAAGGACTTA
AAAAGGATTTTAAATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAGACCCAGT
GACAACCTAGGACTTAGTTCTA
Found at i:980835 original size:11 final size:10
Alignment explanation
Indices: 980819--980873 Score: 67
Period size: 11 Copynumber: 5.4 Consensus size: 10
980809 AATCCTACTA
980819 TTTTTCTATTT
1 TTTTTCT-TTT
980830 TTTTTCTTTT
1 TTTTTCTTTT
*
980840 TCCTTTCTTTT
1 T-TTTTCTTTT
*
980851 TTTCTC-TTT
1 TTTTTCTTTT
980860 TTTTTCTTTT
1 TTTTTCTTTT
980870 TTTT
1 TTTT
980874 CTCCAAGTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 8 0.21
10 14 0.37
11 16 0.42
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:980852 original size:19 final size:19
Alignment explanation
Indices: 980828--980872 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
980818 ATTTTTCTAT
980828 TTTTTTTCT-TTTTCCTTTC
1 TTTTTTTCTCTTTT-CTTTC
*
980847 TTTTTTTCTCTTTTTTTTC
1 TTTTTTTCTCTTTTCTTTC
980866 TTTTTTT
1 TTTTTTT
980873 TCTCCAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTTTCTCTTTTCTTTC
Found at i:981013 original size:22 final size:21
Alignment explanation
Indices: 980988--981040 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
980978 TTATCCACGA
980988 TTTTTTAATTTTTTCTACCTTT
1 TTTTTTAATTTTTT-TACCTTT
**
981010 TTTTTTAATTTTTTTTGCTTT
1 TTTTTTAATTTTTTTACCTTT
*
981031 TTATTTAATT
1 TTTTTTAATT
981041 CAATTTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTTAATTTTTTTACCTTT
Found at i:983455 original size:26 final size:28
Alignment explanation
Indices: 983403--983456 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 28
983393 CATTTACTGA
* * *
983403 TAAATCAACATTTTGAAAATTTTTAAAT
1 TAAATCAACATTTTAAAAATATATAAAT
983431 TAAAT-AA-ATTTTAAAAATATATAAAT
1 TAAATCAACATTTTAAAAATATATAAAT
983457 AATTTTCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
27 2 0.09
28 5 0.22
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAATCAACATTTTAAAAATATATAAAT
Found at i:984619 original size:3 final size:3
Alignment explanation
Indices: 984611--984653 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
984601 TATTTTTAAT
*
984611 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
984654 TCATTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:984669 original size:15 final size:17
Alignment explanation
Indices: 984606--984676 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 17
984596 CCTTTTATTT
984606 TTAATTAATAATAATAA
1 TTAATTAATAATAATAA
984623 -TAA-TAATAATAATAA
1 TTAATTAATAATAATAA
*
984638 -T-ACTAATAATAATAA
1 TTAATTAATAATAATAA
*
984653 TTCATTAATAA-AA-AA
1 TTAATTAATAATAATAA
984668 TTAATTAAT
1 TTAATTAAT
984677 TTTGCACATG
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.02
15 35 0.71
16 6 0.12
17 7 0.14
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAATTAATAATAATAA
Found at i:986301 original size:159 final size:160
Alignment explanation
Indices: 985708--986315 Score: 846
Period size: 160 Copynumber: 3.8 Consensus size: 160
985698 AAAATTAAAC
* * * * * *
985708 AATATTTATTTTTTTTAATCTTTTATATTCCTTTAGGCATTCGTAGGGGTATAAAAGGTTTCAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAA
** * * * *
985773 AACTTTTCGCATTCTTTCGGGCTTCCATGAGGATACAAAATGGTATTTTCAAAAATAAGTAAAAT
66 AACTTTTCATATTCTTTCGGGCTTCCATTAGGATACGAAATGATATTTTCAAAAATAA--ATAAT
* *
985838 TAAATTAAATT-GATATTATCGAGATAAATTCT
129 TAAATTAAATTAG-TATTATTGGGATAAATTCT
* *
985870 AATATTTATTTTTTCTAATCTTTTATATTCCTATGAGCATCCGTAGGGGTATAAAAGATTTCAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAA
* * * * *
985935 AACCTTTCGTATTCTTTGGGGCTTCCATTAGGGTACGAAATGCTATTTTCAAAAATAAATAATTA
66 AACTTTTCATATTCTTTCGGGCTTCCATTAGGATACGAAATGATATTTTCAAAAATAAATAATTA
*
986000 AATTAAATTAGTATTATTAGGATAAATTCT
131 AATTAAATTAGTATTATTGGGATAAATTCT
* *
986030 AATAACTATTTTTTCTAATCTTTTATATTCCTATGGGCATCTGTAGGGGTATAAAAGATTTCAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAA
* * * *
986095 AGCTTTTCATATTTTTTTGGGCTTCCATTAGGGTACGAAATGATATTTTCAAAAATAAATAATTA
66 AACTTTTCATATTCTTTCGGGCTTCCATTAGGATACGAAATGATATTTTCAAAAATAAATAATTA
986160 AATTAAATTAGTATTATTGGGATAAATTCT
131 AATTAAATTAGTATTATTGGGATAAATTCT
* * *
986190 AATATCTATTTTTTCTAAT-TTTTATATTCCTATGGGTATCCGTAGGGATATAAAAGATTTTAAA
1 AATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAA
* *
986254 AACTTTTCATATTATTTCGGGCTTCCATTAGGATATGAAAT-AGTATTTT-AATAAATAAATAA
66 AACTTTTCATATTCTTTCGGGCTTCCATTAGGATACGAAATGA-TATTTTCAA-AAATAAATAA
986316 AATAAAATTG
Statistics
Matches: 405, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
158 3 0.01
159 93 0.23
160 198 0.49
161 1 0.00
162 110 0.27
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (160 bp):
AATATCTATTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAAA
AACTTTTCATATTCTTTCGGGCTTCCATTAGGATACGAAATGATATTTTCAAAAATAAATAATTA
AATTAAATTAGTATTATTGGGATAAATTCT
Found at i:986973 original size:156 final size:154
Alignment explanation
Indices: 986608--986986 Score: 467
Period size: 154 Copynumber: 2.4 Consensus size: 154
986598 AGCATTATCC
* * * * *
986608 TAAGTCTTTTAGAGGTATCAAGTACTTTTACATCGAAGGAATCCCTTAAGGGTATTTTTATAATT
1 TAAGTCCTTTAGAGGTATCAGGTACTTTTACATCGAAGGTATCCCTTAGGGGTATTTTTGTAATT
* * **
986673 TTTCAGAATCGAGTCCTAAGTTGTCACCGGGTTCACTTTTATGCTGAAGGTAGATATTTAGGATA
66 TTTCAGAATCGAGTCCTAAGTTATCACCGGGTTCACTTTCATGCTGAAGGTAGATATTTACAATA
* **
986738 GGTTCATCTTATTTACTATCCTTT
131 GGTTCATCCTATTTAAAATCCTTT
* ** * *
986762 TAAGTCCTTTAGAGGTACCAGGTACTTTTATGTCAAAGGTATCCCTTAGGGGTATTTTGGTAATT
1 TAAGTCCTTTAGAGGTATCAGGTACTTTTACATCGAAGGTATCCCTTAGGGGTATTTTTGTAATT
* ** * *
986827 TTTTAGAATCGAGTCCTAAGTTATCACCGGGGTTTGCTTTCATG-TCGAAGGTGGGTATTTACAA
66 TTTCAGAATCGAGTCCTAAGTTATCACC-GGGTTCACTTTCATGCT-GAAGGTAGATATTTACAA
986891 TAGGTTCATCCCT-TTTAAAATCCTTTT
129 TAGGTTCAT-CCTATTTAAAATCC-TTT
* * *
986918 TAAGTCCTTTAGGGGTATCAGGTACTTTTTA-ATCGAAGGTATTCCTTTGGGGTATTTTTGTAAT
1 TAAGTCCTTTAGAGGTATCAGGTAC-TTTTACATCGAAGGTATCCCTTAGGGGTATTTTTGTAAT
986982 TTTTC
65 TTTTC
986987 TTAAATTTAG
Statistics
Matches: 190, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
154 82 0.43
155 43 0.23
156 60 0.32
157 5 0.03
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (154 bp):
TAAGTCCTTTAGAGGTATCAGGTACTTTTACATCGAAGGTATCCCTTAGGGGTATTTTTGTAATT
TTTCAGAATCGAGTCCTAAGTTATCACCGGGTTCACTTTCATGCTGAAGGTAGATATTTACAATA
GGTTCATCCTATTTAAAATCCTTT
Found at i:989726 original size:79 final size:78
Alignment explanation
Indices: 989613--989869 Score: 291
Period size: 79 Copynumber: 3.3 Consensus size: 78
989603 CCTCTTAGAG
* * * *
989613 ATAACGGGGTTGGAGTATCCCCAATTAT-AGAAAATCGATGTTTTAAAAATAAAACCAAGGTTGG
1 ATAATGGGGTTGGAGTATCCCCAATTGTGA-AAAATC-ATGTTTTAGAAATAAAACCGAGGTTGG
*
989677 AATATCCCCTCGAAA
64 AATATCCCCTCAAAA
* * *
989692 ATAATGGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTGTTTTAGAAATAAAATCGAGGTTGGA
1 ATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATCA-TGTTTTAGAAATAAAACCGAGGTTGGA
* *
989757 TTATCTCCTCAAAA
65 ATATCCCCTCAAAA
* * * ** * * * *
989771 ATAATGGGGTTGAAGTATCCCTAATTGTGAAAAATCTATATTTTAGAAATAAGGCTGCGATTAGA
1 ATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATC-ATGTTTTAGAAATAAAACCGAGGTTGGA
*
989836 GTATCCCCTCAAAA
65 ATATCCCCTCAAAA
989850 ATAATGGGGTTGGAGTATCC
1 ATAATGGGGTTGGAGTATCC
989870 TTGATTATGA
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 147 0.98
80 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (78 bp):
ATAATGGGGTTGGAGTATCCCCAATTGTGAAAAATCATGTTTTAGAAATAAAACCGAGGTTGGAA
TATCCCCTCAAAA
Found at i:989970 original size:78 final size:78
Alignment explanation
Indices: 989537--990118 Score: 290
Period size: 78 Copynumber: 7.4 Consensus size: 78
989527 TAGAGATAAA
* * * * * * *
989537 AACGGGGTTGGAGTATCCCCAATGATGGAAAATTGATGTTTTGG-AAACAGATTAGGGTTGGAGT
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGTTTTGGAAAAAAG-CTAGGGTTGGAGT
* * *
989601 ATCCTCTTAGAGAT
65 ATCCCCTCAGAAAT
* * * * ** * * * *
989615 AACGGGGTTGGAGTATCCCCAATTATAGAAAATCGATGTTTTAAAAATAAAACCAAGGTTGGAAT
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGTTTTGGAAA-AAAGCTAGGGTTGGAGT
989680 ATCCCCTC-GAAAAT
65 ATCCCCTCAG-AAAT
* * * ** * * * * *
989694 AATGGGGTTGGAGTATCCCCGATGGT-GAAAAATCAGTGTTTTAGAAATAAA-ATCGAGGTTGGA
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGA-TGTTTTGGAAA-AAAGCTAG-GGTTGGA
* * *
989757 TTATCTCCTCAAAAAT
63 GTATCCCCTCAGAAAT
* * * * * * * * * *
989773 AATGGGGTTGAAGTATC-CCTAATTGT-GAAAAATCT-ATATTTTAGAAATAAGGCT-GCGATTA
1 AACGAGGTTGGAGTATCTCC-GATTATAG-AAAAT-TGATGTTTTGGAAA-AAAGCTAG-GGTTG
*
989834 GAGTATCCCCTCAAAAAT
61 GAGTATCCCCTCAGAAAT
* * * * * * *
989852 AATGGGGTTGGAGTATC-CTTGATTAT-GAGGAGTCGGTGTTTTGGAAAAAAGCTAGGGTTGGAG
1 AACGAGGTTGGAGTATCTC-CGATTATAGA-AAATTGATGTTTTGGAAAAAAGCTAGGGTTGGAG
* *
989915 TGTCCCCTCAGAAAC
64 TATCCCCTCAGAAAT
* * * * *
989930 AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGTTTTAGAAATAAGGTCGGGATTGGTGT
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGTTTTGGAAAAAAGCTAGGG-TTGGAGT
* *
989995 AT-CCCTAAAAAAT
65 ATCCCCTCAGAAAT
* * * * * * * *
990008 AACGAGGTTGGAATATCTCCGATTGT-GAAAAGTCGGTGTTTTGAAAAAAAACTGGGGTTGAAGT
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAA-TTGATGTTTTGGAAAAAAGCTAGGGTTGGAGT
**
990072 ATCCTTTCAGAAAT
65 ATCCCCTCAGAAAT
* *
990086 AACGGGGTTGGAGTATCCCCGATTATA-AAAATT
1 AACGAGGTTGGAGTATCTCCGATTATAGAAAATT
990119 TTGGTATTTT
Statistics
Matches: 390, Mismatches: 94, Indels: 41
0.74 0.18 0.08
Matches are distributed among these distances:
77 13 0.03
78 195 0.50
79 173 0.44
80 8 0.02
81 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (78 bp):
AACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGTTTTGGAAAAAAGCTAGGGTTGGAGTA
TCCCCTCAGAAAT
Found at i:990082 original size:156 final size:156
Alignment explanation
Indices: 989589--990118 Score: 395
Period size: 158 Copynumber: 3.4 Consensus size: 156
989579 GGAAACAGAT
* * * * * * * *
989589 TAGGGTTGGAGTATCCTCTTAGAGATAACGGGGTTGGAGTATCCCCAATTATAGAAAATCGATGT
1 TAGGGTTGAAGTATCCCCTCAGAAACAACGAGGTTGGAGTATCCCCGATTATA-AAAATTGATGT
* ** *** * * * ** * * * * **
989654 TTTAAAAATAAAACCAAGGTTGGAATATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATGG
65 TTTAGAAATAAGGCTGCGATTAGAGTATCCCCTAAAAAATAACGAGGTTGGAATATCCTCGATTA
* * *
989719 TGAAAAATCAGTGTTTTAGAAATAAAA-
130 TGAAAAGTCGGTGTTTT-GAAAAAAAAC
* * * * * * * * * ** *
989746 TCGAGGTTGGATTATCTCCTCAAAAATAATGGGGTTGAAGTATCCCTAATTGTGAAAAATCT-AT
1 TAG-GGTTGAAGTATCCCCTCAGAAACAACGAGGTTGGAGTATCCCCGATTAT-AAAAAT-TGAT
* * * * * *
989810 ATTTTAGAAATAAGGCTGCGATTAGAGTATCCCCTCAAAAATAATGGGGTTGGAGTATCCTTGAT
63 GTTTTAGAAATAAGGCTGCGATTAGAGTATCCCCTAAAAAATAACGAGGTTGGAATATCCTCGAT
** * *
989875 TATGAGGAGTCGGTGTTTTGGAAAAAAGC
128 TATGAAAAGTCGGTGTTTTGAAAAAAAAC
* * *
989904 TAGGGTTGGAGTGTCCCCTCAGAAACAACGAGGTTGGAGTATCTCCGATTATAGAAAATTGATGT
1 TAGGGTTGAAGTATCCCCTCAGAAACAACGAGGTTGGAGTATCCCCGATTATA-AAAATTGATGT
* * *
989969 TTTAGAAATAAGG-TCGGGATTGGTGTAT-CCCTAAAAAATAACGAGGTTGGAATAT-CTCCGAT
65 TTTAGAAATAAGGCT-GCGATTAGAGTATCCCCTAAAAAATAACGAGGTTGGAATATCCT-CGAT
*
990031 TGTGAAAAGTCGGTGTTTTGAAAAAAAAC
128 TATGAAAAGTCGGTGTTTTGAAAAAAAAC
* ** * *
990060 TGGGGTTGAAGTATCCTTTCAGAAATAACGGGGTTGGAGTATCCCCGATTATAAAAATT
1 TAGGGTTGAAGTATCCCCTCAGAAACAACGAGGTTGGAGTATCCCCGATTATAAAAATT
990119 TTGGTATTTT
Statistics
Matches: 296, Mismatches: 69, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
155 8 0.03
156 98 0.33
157 76 0.26
158 113 0.38
159 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (156 bp):
TAGGGTTGAAGTATCCCCTCAGAAACAACGAGGTTGGAGTATCCCCGATTATAAAAATTGATGTT
TTAGAAATAAGGCTGCGATTAGAGTATCCCCTAAAAAATAACGAGGTTGGAATATCCTCGATTAT
GAAAAGTCGGTGTTTTGAAAAAAAAC
Found at i:991354 original size:93 final size:94
Alignment explanation
Indices: 991166--991358 Score: 250
Period size: 93 Copynumber: 2.0 Consensus size: 94
991156 CTTGTCTTTC
*
991166 CTTTCACGTTGCTTGTTGCATGTTTTGTCTGCCCTTGCATTTTTTTTTAAAAAAACAACCTCTCC
1 CTTTCACGTTGCTTGTTGCATGTTTTGTCTGCCATTGCA-TTTTTTTT-AAAAAACAACCTCTCC
*
991231 ATGGTGTCCACATGCTGCACATTTCTTCTTG
64 ATGCTGTCCACATGCTGCACATTTCTTCTTG
** *
991262 CTTTGCACGTTGCTTGTTGCATGTTTTGTCT-CCTATTGCA-TTTTTTT-AGGATC-ACCTTCTC
1 CTTT-CACGTTGCTTGTTGCATGTTTTGTCTGCC-ATTGCATTTTTTTTAAAAAACAACC-TCTC
**
991323 CATGCTGTCCATGTGCTGCACATTTCTTCTTG
63 CATGCTGTCCACATGCTGCACATTTCTTCTTG
991355 CTTT
1 CTTT
991359 TTGTCTATTT
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
92 3 0.03
93 40 0.46
95 7 0.08
96 6 0.07
97 31 0.36
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.45
Consensus pattern (94 bp):
CTTTCACGTTGCTTGTTGCATGTTTTGTCTGCCATTGCATTTTTTTTAAAAAACAACCTCTCCAT
GCTGTCCACATGCTGCACATTTCTTCTTG
Found at i:991626 original size:19 final size:18
Alignment explanation
Indices: 991597--991646 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
991587 GTTGCATATG
*
991597 AATGCATGAAATGAAAGC
1 AATGAATGAAATGAAAGC
*
991615 AATGTAATGAAATGAATGC
1 AATG-AATGAAATGAAAGC
*
991634 AATGCATGAAATG
1 AATGAATGAAATG
991647 GAAGTATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.48, C:0.08, G:0.22, T:0.22
Consensus pattern (18 bp):
AATGAATGAAATGAAAGC
Found at i:991705 original size:19 final size:18
Alignment explanation
Indices: 991677--991716 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
991667 GCATGAAGGC
991677 ATGAAAGCAATACATTGAA
1 ATGAAAGCAATACA-TGAA
* *
991696 ATGAATGCAATGCATGAA
1 ATGAAAGCAATACATGAA
991714 ATG
1 ATG
991717 TTTCTTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (18 bp):
ATGAAAGCAATACATGAA
Found at i:991810 original size:8 final size:8
Alignment explanation
Indices: 991799--991868 Score: 70
Period size: 8 Copynumber: 8.5 Consensus size: 8
991789 ATTATTTTCA
991799 TTTTTTA-
1 TTTTTTAT
*
991806 TTTTTCAT
1 TTTTTTAT
991814 TTTTTTATT
1 TTTTTTA-T
991823 TTTTTTAT
1 TTTTTTAT
991831 TTTTATTGAT
1 TTTT-TT-AT
*
991841 TTTTTAAT
1 TTTTTTAT
*
991849 TTTTTAAT
1 TTTTTTAT
*
991857 TTTTTAAT
1 TTTTTTAT
991865 TTTT
1 TTTT
991869 GATTTTTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
7 6 0.11
8 33 0.59
9 11 0.20
10 6 0.11
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.80
Consensus pattern (8 bp):
TTTTTTAT
Found at i:991819 original size:15 final size:15
Alignment explanation
Indices: 991793--991875 Score: 66
Period size: 15 Copynumber: 5.7 Consensus size: 15
991783 TTAATTATTA
991793 TTTTCA-TTTTTTAT
1 TTTTCATTTTTTTAT
991807 TTTTCATTTTTTTAT
1 TTTTCATTTTTTTAT
*
991822 TTTT--TTTATTT-T
1 TTTTCATTTTTTTAT
* * *
991834 TATTGATTTTTTAATT
1 TTTTCATTTTTTTA-T
* *
991850 TTTTAATTTTTTAAT
1 TTTTCATTTTTTTAT
*
991865 TTTTGATTTTT
1 TTTTCATTTTT
991876 AATTTTATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
12 4 0.07
13 6 0.11
14 11 0.19
15 23 0.40
16 13 0.23
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTCATTTTTTTAT
Found at i:991875 original size:8 final size:7
Alignment explanation
Indices: 991787--991881 Score: 68
Period size: 8 Copynumber: 13.0 Consensus size: 7
991777 AAAAAATTAA
991787 TTATTATT
1 TTATT-TT
991795 TTCATTTT
1 TT-ATTTT
991803 TTATTTT
1 TTATTTT
*
991810 TCATTTTT
1 TTA-TTTT
991818 TTATTTT
1 TTATTTT
*
991825 TT-TTAT
1 TTATTTT
*
991831 TT-TTAT
1 TTATTTT
*
991837 TGATTTT
1 TTATTTT
991844 TTAATTTT
1 TT-ATTTT
991852 TTAATTTT
1 TT-ATTTT
991860 TTAATTTT
1 TT-ATTTT
*
991868 TGATTTT
1 TTATTTT
*
991875 TAATTTT
1 TTATTTT
991882 ATATAAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
6 10 0.13
7 28 0.37
8 34 0.45
9 3 0.04
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (7 bp):
TTATTTT
Found at i:992631 original size:52 final size:51
Alignment explanation
Indices: 992483--993113 Score: 380
Period size: 52 Copynumber: 12.0 Consensus size: 51
992473 ATGAAGATGA
* * * * *
992483 GAAGAGTGATAAAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 GAAGA-TGA-AAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * ** * * * *
992536 AAAGGTGTCAAGAATG-TCAATGTGCTGATTCACGACCATCGACATTAGACTT
1 GAAGATGAAAAG-ATGCT-AATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
992588 GAAGATGAAAAGAATGCTAATGTGCTGATTCAAGGACAACGACATTGGGCTT
1 GAAGATGAAAAG-ATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * * **
992640 -AGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCAGACTT
1 GA-AGATG-AAAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * * *
992692 AAAGATG--ATGGTACCAATGTGCTGACTCAAGGCCAGCGACATTGGACTT
1 GAAGATGAAAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * *
992741 -AAGGATGAGAAGGATGATTAAGGTGCCGATAGACTAATTCAAGGCCAACGATATTGGACTT
1 GAA-GATGA-AAAGATG-CTAA--T---G-T-G-CTGATTCAAGGCCAGCGACATTGGACTT
* * * * * *
992802 AAAGATGATAAAGGTGCTAATATGCTAATTCAAGGCCAGTGATATTGGACTT
1 GAAGATGA-AAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* ** * * *
992854 GAGAAAAAAAAAGGTGCTAATGTGCTGATTCAAGGCCAACAACATTGGACTT
1 GA-AGATGAAAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * * * *
992906 AAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAAGTGATATTGGACTT
1 GAAGATGA-AAAGATGCTAATGTGCTGATTCAAGGCC-AGCGACATTGGACTT
* * *
992959 G-AGAAAGAAGAAGATGCTAATGTGCTGATTCAAGGCCAGCAACATGGGACTT
1 GAAG-ATGAA-AAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
993011 G-AGA--AAGAAGGTGCTAATGTGCTGATTCAAGGCTAGCAACATTGGACTT
1 GAAGATGAA-AAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
* * * ** *
993060 AAAGATGATAAAGGTGCTAATATAATGATTCAAGGCCAGCGATATTGGACTT
1 GAAGATGA-AAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
993112 GA
1 GA
993114 GAAAGAAAAA
Statistics
Matches: 449, Mismatches: 100, Indels: 59
0.74 0.16 0.10
Matches are distributed among these distances:
48 2 0.00
49 80 0.18
50 3 0.01
51 8 0.02
52 258 0.57
53 53 0.12
54 1 0.00
55 1 0.00
58 2 0.00
59 1 0.00
60 4 0.01
61 34 0.08
62 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (51 bp):
GAAGATGAAAAGATGCTAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:992901 original size:104 final size:105
Alignment explanation
Indices: 992777--993043 Score: 382
Period size: 105 Copynumber: 2.6 Consensus size: 105
992767 CGATAGACTA
* * *
992777 ATTCAAGGCCAACGATATTGGACTTAAAGATGATAAAGGTGCTAATATGCTAATTCAAGGCC-AG
1 ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAAG
*
992841 TGATATTGGACTTGAGAAAAAAAAAGGTGCTAATGTGCTG
66 TGATATTGGACTTGAGAAAAAAAAAGATGCTAATGTGCTG
* *
992881 ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGTTGATTCAAGGCCAAG
1 ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAAG
* *
992946 TGATATTGGACTTGAGAAAGAAGAAGATGCTAATGTGCTG
66 TGATATTGGACTTGAGAAAAAAAAAGATGCTAATGTGCTG
* * * *
992986 ATTCAAGGCCAGCAACATGGGACTT---GA-GAAAGAAGGTGCTAATGTGCTGATTCAAGGC
1 ATTCAAGGCCAACAACATTGGACTTAAAGATGATA-AAGGTGCTAATATGCTGATTCAAGGC
993044 TAGCAACATT
Statistics
Matches: 147, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
101 3 0.02
102 25 0.17
104 57 0.39
105 62 0.42
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.24
Consensus pattern (105 bp):
ATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAAG
TGATATTGGACTTGAGAAAAAAAAAGATGCTAATGTGCTG
Found at i:993068 original size:154 final size:154
Alignment explanation
Indices: 992753--993122 Score: 480
Period size: 154 Copynumber: 2.4 Consensus size: 154
992743 GGATGAGAAG
* * * * *
992753 GATGATTAAGGTGCCGATAGACTAATTCAAGGCCAA-CGATATTGGACTT-A-AAGATGATAAAG
1 GATGATAAAGGTGCCAATATAATGATTCAAGGCCAAGCGATATTGGACTTGAGAA-A-GA-AAAG
* ** * *
992815 GTGCTAATATGCTAATTCAAGGCCAGTGATATTGGACTTGAGAAAAAAAAAGGTGCTAATGTGCT
63 ATGCTAATATGCTAATTCAAGGCCAGCAACATGGGACTTGAG--AAAAAAAGGTGCTAATGTGCT
992880 GATTCAAGGCCAACAACATTGGACTTAAA
126 GATTCAAGGCCAACAACATTGGACTTAAA
** *
992909 GATGATAAAGGTGCCAATATGTTGATTCAAGGCCAAGTGATATTGGACTTGAGAAAGAAGAAGAT
1 GATGATAAAGGTGCCAATATAATGATTCAAGGCCAAGCGATATTGGACTTGAGAAAGAA-AAGAT
* * *
992974 GCTAATGTGCTGATTCAAGGCCAGCAACATGGGACTTGAG-AAAGAAGGTGCTAATGTGCTGATT
65 GCTAATATGCTAATTCAAGGCCAGCAACATGGGACTTGAGAAAAAAAGGTGCTAATGTGCTGATT
* *
993038 CAAGGCTAGCAACATTGGACTTAAA
130 CAAGGCCAACAACATTGGACTTAAA
*
993063 GATGATAAAGGTGCTAATATAATGATTCAAGGCC-AGCGATATTGGACTTGAGAAAGAAAA
1 GATGATAAAGGTGCCAATATAATGATTCAAGGCCAAGCGATATTGGACTTGAGAAAGAAAA
993123 AGGTGCAAAT
Statistics
Matches: 189, Mismatches: 21, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
152 2 0.01
153 23 0.12
154 77 0.41
156 31 0.16
157 52 0.28
158 2 0.01
159 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.24
Consensus pattern (154 bp):
GATGATAAAGGTGCCAATATAATGATTCAAGGCCAAGCGATATTGGACTTGAGAAAGAAAAGATG
CTAATATGCTAATTCAAGGCCAGCAACATGGGACTTGAGAAAAAAAGGTGCTAATGTGCTGATTC
AAGGCCAACAACATTGGACTTAAA
Found at i:993096 original size:258 final size:263
Alignment explanation
Indices: 992602--993128 Score: 640
Period size: 258 Copynumber: 2.0 Consensus size: 263
992592 ATGAAAAGAA
* * ** *
992602 TGCTAATGTGCTGATTCAAGGACAACGACATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTG
1 TGCTAATGTGCTGATTCAAGGACAACAACATTGGACTTAAAGATGATAAAGATGCCAATATGCTG
* * * *
992667 ATTCAAGGCCAGCGATATCAGACTTAAAGATGATGGTACCAATGTGCTGACTCAAGGCCAGCGAC
66 ATTCAAGGCCAGCGATATCAGACTTAAAGAAGAAGATACCAATGTGCTGACTCAAGGCCAGCAAC
* * * * *
992732 ATTGGACTTAAGGATGAGAAGGATGATTAAGGTGCCGATAGACTAATTCAAGGCCAACGATATTG
131 ATGGGACTTAAGGATAAGAAGGATGACTAA-GT--CGATAGACTAATTCAAGGCCAACAACATTG
** *
992797 GACTTAAAGATGATAAAGGTGCTAATATGCTAATTCAAGGCCAGTGATATTGGACTTGAGAAAAA
193 GACTTAAAGATGATAAAGGTGCTAATATAATAATTCAAGGCCAGCGATATTGGACTTGAGAAAAA
992862 AAAAGG
258 AAAAGG
* * *
992868 TGCTAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGATGATAAAGGTGCCAATATGTTG
1 TGCTAATGTGCTGATTCAAGGACAACAACATTGGACTTAAAGATGATAAAGATGCCAATATGCTG
* ** * * *
992933 ATTCAAGGCCAAGTGATATTGGACTTGAGAAAGAAGAAGATGCTAATGTGCTGATTCAAGGCCAG
66 ATTCAAGGCC-AGCGATATCAGACTT---AAAGAAGAAGATACCAATGTGCTGACTCAAGGCCAG
* * * *
992998 CAACATGGGACTTGA-GA-AAGAAGG-TG-CTAA-T-G-T-G-CTGATTCAAGGCTAGCAACATT
127 CAACATGGGACTTAAGGATAAGAAGGATGACTAAGTCGATAGACTAATTCAAGGCCAACAACATT
* *
993054 GGACTTAAAGATGATAAAGGTGCTAATATAATGATTCAAGGCCAGCGATATTGGACTTGAGAAAG
192 GGACTTAAAGATGATAAAGGTGCTAATATAATAATTCAAGGCCAGCGATATTGGACTTGAGAAAA
993119 AAAAAGG
257 AAAAAGG
993126 TGC
1 TGC
993129 AAATATCTTA
Statistics
Matches: 225, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
258 87 0.39
259 1 0.00
260 1 0.00
261 1 0.00
264 1 0.00
266 70 0.31
267 14 0.06
268 6 0.03
269 2 0.01
270 42 0.19
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.24
Consensus pattern (263 bp):
TGCTAATGTGCTGATTCAAGGACAACAACATTGGACTTAAAGATGATAAAGATGCCAATATGCTG
ATTCAAGGCCAGCGATATCAGACTTAAAGAAGAAGATACCAATGTGCTGACTCAAGGCCAGCAAC
ATGGGACTTAAGGATAAGAAGGATGACTAAGTCGATAGACTAATTCAAGGCCAACAACATTGGAC
TTAAAGATGATAAAGGTGCTAATATAATAATTCAAGGCCAGCGATATTGGACTTGAGAAAAAAAA
AGG
Found at i:993175 original size:32 final size:32
Alignment explanation
Indices: 993139--993221 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 32
993129 AAATATCTTA
993139 TGTGGGCTTTAGAAAGGGTCGCCACCAACTTG
1 TGTGGGCTTTAGAAAGGGTCGCCACCAACTTG
* * *
993171 TGTGGGCTTTGAAAAAAGGTTGCCACCAACTTG
1 TGTGGGCTTT-AGAAAGGGTCGCCACCAACTTG
993204 TGTGGGCTTTAGAGAAGG
1 TGTGGGCTTTAGA-AAGG
993222 TTTCTCCACT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
32 12 0.27
33 32 0.73
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.27
Consensus pattern (32 bp):
TGTGGGCTTTAGAAAGGGTCGCCACCAACTTG
Found at i:993441 original size:28 final size:28
Alignment explanation
Indices: 993399--993461 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
993389 TAGCAAGTGT
*
993399 CACTGA-TTGTGGACTTCGAAAAGATGC
1 CACTGACTTATGGACTTCGAAAAGATGC
* * *
993426 CACTGACTTATGGACTTTGAAGAGGTGC
1 CACTGACTTATGGACTTCGAAAAGATGC
*
993454 CACGGACT
1 CACTGACT
993462 AGTGGGCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (28 bp):
CACTGACTTATGGACTTCGAAAAGATGC
Found at i:993506 original size:14 final size:13
Alignment explanation
Indices: 993487--993565 Score: 54
Period size: 14 Copynumber: 5.9 Consensus size: 13
993477 GGGATTCGTG
993487 TTGACAAACATTTC
1 TTGACAAA-ATTTC
*
993501 TTGACAAAGTTTC
1 TTGACAAAATTTC
* **
993514 -TGACACACGTTC
1 TTGACAAAATTTC
* *
993526 TCGACAAAAGTTC
1 TTGACAAAATTTC
993539 TT-AGCAAAAATTTC
1 TTGA-C-AAAATTTC
993553 TTGACAACAATTT
1 TTGACAA-AATTT
993566 TACTGACAAT
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
12 10 0.20
13 17 0.33
14 23 0.45
15 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:994779 original size:21 final size:20
Alignment explanation
Indices: 994753--994804 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
994743 CCCCATTTTC
994753 TTTTTTTGTGTTTTCTTGTTT
1 TTTTTTTGT-TTTTCTTGTTT
*
994774 TTTTTTTGTTTTTGTTGTTT
1 TTTTTTTGTTTTTCTTGTTT
*
994794 TTTTTGTGTTT
1 TTTTTTTGTTT
994805 GTTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (20 bp):
TTTTTTTGTTTTTCTTGTTT
Found at i:994805 original size:18 final size:18
Alignment explanation
Indices: 994753--994813 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
994743 CCCCATTTTC
*
994753 TTTTTTTGTGTTTTCTTGTTT
1 TTTTTTTGTG-TTTGTTG--T
*
994774 TTTTTTTGTTTTTGTTGT
1 TTTTTTTGTGTTTGTTGT
994792 TTTTTTTGTGTTTGTT-T
1 TTTTTTTGTGTTTGTTGT
994809 TTTTT
1 TTTTT
994814 ACGAAGGACG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 6 0.16
18 16 0.43
20 6 0.16
21 9 0.24
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.84
Consensus pattern (18 bp):
TTTTTTTGTGTTTGTTGT
Found at i:1006805 original size:155 final size:155
Alignment explanation
Indices: 1006485--1006960 Score: 424
Period size: 155 Copynumber: 3.1 Consensus size: 155
1006475 AAATGGGGTA
* * * * * * **
1006485 GAGTATCCCCAATGGTGGAAAATC-GATATTTTGGAAA-CAGATCGGGGTTAGAGTATCCTCTCG
1 GAGTATCCCCGATGGTGAAAAATCAG-TGTTTTGGAAATAAGATCGGGGTTGGAGTATCCCCTAA
* * * * *
1006548 AAATAATGGGGTTGGAGTAT-CACCGATTGCAAAAAATCGATGTTTTAGAAATAAAAC-CGAGTT
65 AAATAATGGGGTTAGAGTATCCA-CGATTGTAAAAAATCGGTGTTTT-GAAA-AAAACTAGGGTT
* * *
1006611 GGAGTATCCCCTCAAAAATAATGGGGTTA
127 GGAGTATCCCCTCAGAAATAACGGGGTTG
*
1006640 GAGTAT-CCCGATGGTGAAAAATCAGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTAAA
1 GAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAGATCGGGGTTGGAGTATCCCCTAAA
* * * * *
1006704 AATAATAGGGTTAGAGTATCCATGATTGTTAAGAGTCGGTGTTTTGAAAAAAACTAGGGTTGGAG
66 AATAATGGGGTTAGAGTATCCACGATTGTAAAAAATCGGTGTTTTGAAAAAAACTAGGGTTGGAG
* * * *
1006769 TATCTCCTTAGAAACAACAGGGTTG
131 TATCCCCTCAGAAATAACGGGGTTG
** * * * * * * * * *
1006794 GAGTATCCCCGATTAT-AGGAAATCAATGTTTTAGAAATATGGTAGAGATTGGAGTATCCCCTCG
1 GAGTATCCCCGATGGTGA-AAAATCAGTGTTTTGGAAATAAGATCGGGGTTGGAGTATCCCCT-A
* * * * * *
1006858 AAAATAACGGGGTTTGAGTATCCCCAATTGTGAAAAATCAGTGTTTTGAAAAAAAAACTAGGGTT
64 AAAATAATGGGGTTAGAGTATCCACGATTGTAAAAAATCGGTGTTTTG--AAAAAAACTAGGGTT
* * *
1006923 AGAATATCCCCTCAGAAGTAACGGGGTTG
127 GGAGTATCCCCTCAGAAATAACGGGGTTG
1006952 GAGTATCCC
1 GAGTATCCC
1006961 TGATTATAAA
Statistics
Matches: 257, Mismatches: 55, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
153 5 0.02
154 62 0.24
155 104 0.40
156 40 0.16
158 46 0.18
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (155 bp):
GAGTATCCCCGATGGTGAAAAATCAGTGTTTTGGAAATAAGATCGGGGTTGGAGTATCCCCTAAA
AATAATGGGGTTAGAGTATCCACGATTGTAAAAAATCGGTGTTTTGAAAAAAACTAGGGTTGGAG
TATCCCCTCAGAAATAACGGGGTTG
Found at i:1006931 original size:79 final size:79
Alignment explanation
Indices: 1006529--1006973 Score: 329
Period size: 77 Copynumber: 5.7 Consensus size: 79
1006519 AAACAGATCG
* * * * * **
1006529 GGGTTAGAGTATCCTCTC-GAAATAATGGGGTTGGAGTATCACCGATTGCAAAAAATC-GATGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTT
* *
1006592 TT-AGAAATAAAAC-C
65 TTGA-AAAAAAAACTA
* * * *
1006606 GAGTTGGAGTATCCCCTCAAAAATAATGGGGTTAGAGTAT-CCCGATGGTGAAAAATCAGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTT
* * *
1006670 TGGAAATAAAA-TCG
66 TGAAAAAAAAACT-A
** * ** * * * *
1006684 GGGTTGGAGTATCCCCT-AAAAATAATAGGGTTAGAGTATCCATGATTGTTAAGAGTCGGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTT
1006748 TG--AAAAAAACTA
66 TGAAAAAAAAACTA
* * * * * * * *
1006760 GGGTTGGAGTATCTCCTTAGAAACAACAGGGTTGGAGTATCCCCGATTAT-AGGAAATCAATGTT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGA-AAAATCAGTGTT
* * ***
1006824 TT-AGAAATATGGTA
65 TTGAAAAAAAAACTA
* * * *
1006838 GAGATTGGAGTATCCCCTCGAAAATAACGGGGTTTGAGTATCCCCAATTGTGAAAAATCAGTGTT
1 G-GGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTT
1006903 TTGAAAAAAAAACTA
65 TTGAAAAAAAAACTA
* * * * * *
1006918 GGGTTAGAATATCCCCTCAGAAGTAACGGGGTTGGAGTATCCCTGATTAT-AAAAAT
1 GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAAT
1006974 TTTGGTATTT
Statistics
Matches: 288, Mismatches: 66, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
76 23 0.08
77 98 0.34
78 68 0.24
79 90 0.31
80 9 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTT
TGAAAAAAAAACTA
Found at i:1008624 original size:7 final size:7
Alignment explanation
Indices: 1008600--1008665 Score: 53
Period size: 7 Copynumber: 9.0 Consensus size: 7
1008590 AAAAAATTAA
1008600 TTATTATT
1 TTATT-TT
*
1008608 TTCATATT
1 TT-ATTTT
1008616 TTATTTT
1 TTATTTT
1008623 TTGATTTT
1 TT-ATTTT
*
1008631 TGATTTT
1 TTATTTT
**
1008638 TTATTGA
1 TTATTTT
1008645 TT-TTTT
1 TTATTTT
1008651 TTATTTT
1 TTATTTT
1008658 TTAATTTT
1 TT-ATTTT
1008666 ATATAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
6 4 0.09
7 23 0.50
8 17 0.37
9 2 0.04
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.76
Consensus pattern (7 bp):
TTATTTT
Found at i:1011355 original size:65 final size:65
Alignment explanation
Indices: 1011279--1011406 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
1011269 ATATCCCCAA
* *
1011279 CGATGACAATTTAAGCAAAAA-AAAGACTTATCTTGACAAGTTTAAAAATGGGGTTGGAGTATCT
1 CGATGACAATTTAAGCAAAAATAAA-AATTATCTTGACAAGTTTAAAAATAGGGTTGGAGTATCT
1011343 C
65 C
*
1011344 CGATGATAATTTAAGCAAAAATAAAAATTATCTTGACAAGTTTAAAAATAGGGTTGGAGTATC
1 CGATGACAATTTAAGCAAAAATAAAAATTATCTTGACAAGTTTAAAAATAGGGTTGGAGTATC
1011407 CCTCAAAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 56 0.95
66 3 0.05
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (65 bp):
CGATGACAATTTAAGCAAAAATAAAAATTATCTTGACAAGTTTAAAAATAGGGTTGGAGTATCTC
Found at i:1033067 original size:78 final size:78
Alignment explanation
Indices: 1032948--1033124 Score: 203
Period size: 78 Copynumber: 2.3 Consensus size: 78
1032938 CATATGCTAG
* * * * * *
1032948 ATGATATTGGTACATCGCAAGGCCAAAGGGGGCACTACCCATACATTCCTAATCATATCCTTCCT
1 ATGATATTGGTGCATCACATGGCCAAAGGGGGCACTACCCATAAATTCCCAATCATATCCCTCCT
* * *
1033013 TCCCAGATACCAT
66 TCCCAAACACCAA
* * *
1033026 ATGATATTGGTGCATCACATGG-CTAAGAGGGGCATTTCCCATAAATTCCCAATCATATCCCTCC
1 ATGATATTGGTGCATCACATGGCCAAAG-GGGGCACTACCCATAAATTCCCAATCATATCCCTCC
*
1033090 TTCCCAAACACTAA
65 TTCCCAAACACCAA
* *
1033104 ATGGTATTGATGCATCACATG
1 ATGATATTGGTGCATCACATG
1033125 TCCATAAAGG
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
77 4 0.05
78 79 0.95
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (78 bp):
ATGATATTGGTGCATCACATGGCCAAAGGGGGCACTACCCATAAATTCCCAATCATATCCCTCCT
TCCCAAACACCAA
Found at i:1033978 original size:42 final size:42
Alignment explanation
Indices: 1033932--1034054 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
1033922 TCAGACCCAA
* *
1033932 GAGACTTATTCATCTTTCATTTACCCATTGGCTTAGACCTGG
1 GAGACTTCTTCATCTTTCATCTACCCATTGGCTTAGACCTGG
* * * * * * *
1033974 GAGACCTCTTCATCCATT-GTCTACCCATCGGTTTAGGCTTGG
1 GAGACTTCTTCAT-CTTTCATCTACCCATTGGCTTAGACCTGG
* * * *
1034016 GAGACTTCTTTATCTTTCATCTACTCGTTGACTTAGACC
1 GAGACTTCTTCATCTTTCATCTACCCATTGGCTTAGACC
1034055 CAAAGACTCT
Statistics
Matches: 59, Mismatches: 20, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
41 3 0.05
42 53 0.90
43 3 0.05
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (42 bp):
GAGACTTCTTCATCTTTCATCTACCCATTGGCTTAGACCTGG
Found at i:1034201 original size:41 final size:40
Alignment explanation
Indices: 1034112--1034213 Score: 98
Period size: 41 Copynumber: 2.5 Consensus size: 40
1034102 CCTTTTTATA
* *
1034112 CATCGTTTGCCCATCAGCTCAATCTTGGGAGACTCCTTCAT
1 CATCGTCTGCCCATCAGCTCAATC-TGAGAGACTCCTTCAT
* * *
1034153 CTTTCGTCTGCCCGTCAGCTCAAGTC-GAGAGACTTCTTCATT
1 C-ATCGTCTGCCCATCAGCTCAA-TCTGAGAGACTCCTTCA-T
**
1034195 CATCGTCTGCTTATCAGCT
1 CATCGTCTGCCCATCAGCT
1034214 TAGACGCAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
41 27 0.55
42 20 0.41
43 2 0.04
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (40 bp):
CATCGTCTGCCCATCAGCTCAATCTGAGAGACTCCTTCAT
Found at i:1034364 original size:126 final size:126
Alignment explanation
Indices: 1034223--1034509 Score: 333
Period size: 126 Copynumber: 2.3 Consensus size: 126
1034213 TTAGACGCAA
* ** *
1034223 GAGACTTTTTCATCTTTCGTCTACTTGTTGGCTTAAACCCAAGAGACTCTATCATCTTTCT-TCT
1 GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAAACCCAAGAGACTCTATCATCTTT-TGTCT
* * * * *
1034287 ACCCATCAGCTTAGACTTGAGAAACCCCTTCATCCATCGTCTACCTATCGGTTCAAGCCTGG
65 ACCCATCAGCTCAGACCTAAGAAACCCCTTCATCCATCGTCTACCCATCGGCTCAAGCCTGG
* * * * * *
1034349 GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAGACTCAGGAGACTCTTTCATCTTTTGTTTG
1 GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAAACCCAAGAGACTCTATCATCTTTTGTCTA
** * * ** * * * *
1034414 CCTGTCGGCTCAGACCTAAGAGACCTTTTCATCCATTGTCTTCCCATCGGCTCAGGCTTGG
66 CCCATCAGCTCAGACCTAAGAAACCCCTTCATCCATCGTCTACCCATCGGCTCAAGCCTGG
1034475 GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTA
1 GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTA
1034510 GACTTGGGAG
Statistics
Matches: 135, Mismatches: 25, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
125 1 0.01
126 134 0.99
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (126 bp):
GAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAAACCCAAGAGACTCTATCATCTTTTGTCTA
CCCATCAGCTCAGACCTAAGAAACCCCTTCATCCATCGTCTACCCATCGGCTCAAGCCTGG
Found at i:1034394 original size:42 final size:42
Alignment explanation
Indices: 1034139--1034832 Score: 283
Period size: 42 Copynumber: 16.5 Consensus size: 42
1034129 CTCAATCTTG
* * * *
1034139 GGAGACTCCTTCATCTTTCGTCTGCCCGTCAGCTCA-AGTC-
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* *** * *
1034179 GAGAGACTTCTTCAT-TCATCGTCTGCTTATCAGCTTAGACGCA
1 G-GAGACTTCTTCATCT-TTCGTCTGCCCGTCGGCTTAGACTCA
* * * ** * * *
1034222 AGAGACTTTTTCATCTTTCGTCTACTTGTTGGCTTAAACCCA
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* * * * * *
1034264 AGAGAC-TCTATCATCTTTCTTCTACCCATCAGCTTAGACT-T
1 GGAGACTTCT-TCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* ** ** * ** * *
1034305 GAGAAACCCCTTCATCCATCGTCTACCTATCGG-TTCAAGCCT-G
1 G-GAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTT--AGACTCA
*
1034348 GGAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAGACTCA
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* * * *
1034390 GGAGAC-TCTTTCATCTTTTGTTTGCCTGTCGGCTCAGAC-CTA
1 GGAGACTTC-TTCATCTTTCGTCTGCCCGTCGGCTTAGACTC-A
* * * * * * **
1034432 AGAGACCTT-TTCATCCATT-GTCTTCCCATCGGCTCAGGCTTG
1 GGAGA-CTTCTTCAT-CTTTCGTCTGCCCGTCGGCTTAGACTCA
* **
1034474 GGAGACTTCTTCATCTTTCGTCTACCCGTCGGCTTAGACTTG
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* ** * * * * * *
1034516 GGAGACCTCTTCATCCATCATTTGCCCATTGGCTCAGTCTCA
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* ** * * * **
1034558 GGAGACCTCTTCATCCATCGTTTGCCCGTCGGCTCAGTCTTG
1 GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* * * * * * *
1034600 GGAGAC-TCTTTCATTTTTCGTTTCCCCGTCAGCTCAGGC-CC
1 GGAGACTTC-TTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
* * *
1034641 GAGAAACTTCTTCATCTTTCGTGC-GCCCGTTGGCTTAGAC-CT
1 G-GAGACTTCTTCATCTTTCGT-CTGCCCGTCGGCTTAGACTCA
* * * *
1034683 GGAGACTTTTTTCATCTTTCGTCTGCCCATCGACTTAGA-TCTG
1 GGAGAC-TTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTC-A
* *
1034726 GGAGAC-TCTTTCATCTTTCGTCTGCCCGTCGGCTCAGAC-CC
1 GGAGACTTC-TTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
** * ** *
1034767 GAGAGACCTT-TTCATCCATCGTCTACTTGTCGGCTTAGGCTCA
1 G-GAGA-CTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
*
1034810 AGAGACTTCTTCATCTTTCGTCT
1 GGAGACTTCTTCATCTTTCGTCT
1034833 ATCCATCGGT
Statistics
Matches: 497, Mismatches: 122, Indels: 68
0.72 0.18 0.10
Matches are distributed among these distances:
40 2 0.00
41 57 0.11
42 412 0.83
43 24 0.05
44 2 0.00
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (42 bp):
GGAGACTTCTTCATCTTTCGTCTGCCCGTCGGCTTAGACTCA
Found at i:1034510 original size:126 final size:126
Alignment explanation
Indices: 1034314--1034629 Score: 361
Period size: 126 Copynumber: 2.5 Consensus size: 126
1034304 TGAGAAACCC
* * * * *
1034314 CTTCATCCATCGTCTACCTATCGGTTCAAGCCTGGGAGACTTCTTCATCTTTCGTCTACCCGTCG
1 CTTCATCCATCGTCTTCCCATCGGCTCAGGCTTGGGAGACTTCTTCATCTTTCGTCTACCCGTCG
** ** **
1034379 GCTTAGACTCAGGAGA-CTCTTTCATCTTTTGTTTGCCTGTCGGCTCAGACCT-AAGAGACCT
66 GCTTAGACTCAGGAGACCTC-TTCATCCATCATTTGCCCATCGGCTCAG-CCTCAAGAGACCT
* *
1034440 TTTCATCCATTGTCTTCCCATCGGCTCAGGCTTGGGAGACTTCTTCATCTTTCGTCTACCCGTCG
1 CTTCATCCATCGTCTTCCCATCGGCTCAGGCTTGGGAGACTTCTTCATCTTTCGTCTACCCGTCG
** * * *
1034505 GCTTAGACTTGGGAGACCTCTTCATCCATCATTTGCCCATTGGCTCAGTCTCAGGAGACCT
66 GCTTAGACTCAGGAGACCTCTTCATCCATCATTTGCCCATCGGCTCAGCCTCAAGAGACCT
* * * * *
1034566 CTTCATCCATCGT-TTGCCCGTCGGCTCAGTCTTGGGAGAC-TCTTTCATTTTTCGTTTCCCCGT
1 CTTCATCCATCGTCTT-CCCATCGGCTCAGGCTTGGGAGACTTC-TTCATCTTTCGTCTACCCGT
1034629 C
64 C
1034630 AGCTCAGGCC
Statistics
Matches: 161, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
125 6 0.04
126 152 0.94
127 3 0.02
ACGTcount: A:0.15, C:0.31, G:0.19, T:0.34
Consensus pattern (126 bp):
CTTCATCCATCGTCTTCCCATCGGCTCAGGCTTGGGAGACTTCTTCATCTTTCGTCTACCCGTCG
GCTTAGACTCAGGAGACCTCTTCATCCATCATTTGCCCATCGGCTCAGCCTCAAGAGACCT
Found at i:1034653 original size:126 final size:125
Alignment explanation
Indices: 1034420--1034786 Score: 346
Period size: 126 Copynumber: 2.9 Consensus size: 125
1034410 TTTGCCTGTC
* * *
1034420 GGCTCAGACCTAAGAGACCTTTTCATCCATTGTCTT-CCCATCGGCTCAGGCTTGGGAGACT-TC
1 GGCTCAGACC-AGGAGACCTTTTCATCCATCGT-TTGCCCATCGGCTCAGTCTTGGGAGACTCT-
* ** * * * **
1034483 TTCATCTTTCGTCTACCCGTCGGCTTAGACTTGGGAGACCTCTTCATCCATCATTTGCCCATT
63 TTCATCTTTCGTCTACCCGTCGGCTCAGACCCGAGAAACTTCTTCATCCATCATGCGCCCATT
* * *
1034546 GGCTCAGTCTCAGGAGACCTCTTCATCCATCGTTTGCCCGTCGGCTCAGTCTTGGGAGACTCTTT
1 GGCTCAGAC-CAGGAGACCTTTTCATCCATCGTTTGCCCATCGGCTCAGTCTTGGGAGACTCTTT
* * * * * ** * *
1034611 CATTTTTCGTTTCCCCGTCAGCTCAGGCCCGAGAAACTTCTTCATCTTTCGTGCGCCCGTT
65 CATCTTTCGTCTACCCGTCGGCTCAGACCCGAGAAACTTCTTCATCCATCATGCGCCCATT
* * * ** * * *
1034672 GGCTTAGACCTGGAGACTTTTTTCATCTTTCGTCTGCCCATCGACTTAGATC-TGGGAGACTCTT
1 GGCTCAGACCAGGAGAC-CTTTTCATCCATCGTTTGCCCATCGGCTCAG-TCTTGGGAGACTCTT
* *
1034736 TCATCTTTCGTCTGCCCGTCGGCTCAGACCCGAGAGACCTT-TTCATCCATC
64 TCATCTTTCGTCTACCCGTCGGCTCAGACCCGAGA-AACTTCTTCATCCATC
1034787 GTCTACTTGT
Statistics
Matches: 193, Mismatches: 42, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
125 9 0.05
126 176 0.91
127 8 0.04
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (125 bp):
GGCTCAGACCAGGAGACCTTTTCATCCATCGTTTGCCCATCGGCTCAGTCTTGGGAGACTCTTTC
ATCTTTCGTCTACCCGTCGGCTCAGACCCGAGAAACTTCTTCATCCATCATGCGCCCATT
Found at i:1034802 original size:126 final size:126
Alignment explanation
Indices: 1034598--1034944 Score: 306
Period size: 126 Copynumber: 2.8 Consensus size: 126
1034588 GGCTCAGTCT
* * * * **
1034598 TGGGAGACTCTTTCATTTTTCGTTTCCCCGTCAGCTCAGGCCCGAGA-AACTTCTTCATCTTTCG
1 TGGGAGACTCTTTCATCTTTCGTTTGCCCGTCAGCTCAGACCCGAGAGACCTT-TTCATCCATCG
* * ** * * *
1034662 TGCGCCCGTTGGCTTAGAC-CTGGAGACTTTTTTCATCTTTCGTCTGCCCATCGACTTAGATC
65 TGCACCCGTCGGCTTAGACTCAAGAGAC-TTCTTCATCTTTCGTCTACCCATCGACTTAGACC
* *
1034724 TGGGAGACTCTTTCATCTTTCGTCTGCCCGTCGGCTCAGACCCGAGAGACCTTTTCATCCATCGT
1 TGGGAGACTCTTTCATCTTTCGTTTGCCCGTCAGCTCAGACCCGAGAGACCTTTTCATCCATCGT
** * * **
1034789 -CTACTTGTCGGCTTAGGCTCAAGAGACTTCTTCATCTTTCGTCTATCCATCGGTTTAGACC
66 GC-ACCCGTCGGCTTAGACTCAAGAGACTTCTTCATCTTTCGTCTACCCATCGACTTAGACC
* ** * * * * * *
1034850 TGCGAGAC-CTTTTCATCCATCATTTGCCCATCAGCTTAGACCCGAAAGACCTTTTCAACCATCA
1 TGGGAGACTC-TTTCATCTTTCGTTTGCCCGTCAGCTCAGACCCGAGAGACCTTTTCATCCATCG
** * * * *
1034914 TTTACCCGTCAGCTCAGTCCCAAGAGACTTC
65 TGCACCCGTCGGCTTAGACTCAAGAGACTTC
1034945 CTTTATCAAT
Statistics
Matches: 177, Mismatches: 39, Indels: 10
0.78 0.17 0.04
Matches are distributed among these distances:
125 2 0.01
126 165 0.93
127 10 0.06
ACGTcount: A:0.18, C:0.31, G:0.18, T:0.33
Consensus pattern (126 bp):
TGGGAGACTCTTTCATCTTTCGTTTGCCCGTCAGCTCAGACCCGAGAGACCTTTTCATCCATCGT
GCACCCGTCGGCTTAGACTCAAGAGACTTCTTCATCTTTCGTCTACCCATCGACTTAGACC
Found at i:1034888 original size:84 final size:84
Alignment explanation
Indices: 1034344--1034881 Score: 372
Period size: 84 Copynumber: 6.4 Consensus size: 84
1034334 TCGGTTCAAG
** * * * * * *
1034344 CCTGGGAGA-CTTCTTCATCTTTCGTCTACCCGTCGGCTTAGACTCAGGAGAC-TCTTTCATCTT
1 CCTGGGAGACCTT-TTCATCCATCGTTTGCCCATCGGCTCAGGCTCGGGAGACTTC-TTCATCTT
* * * *
1034407 TTGTTTGCCTGTCGGCTCAGA
64 TCGTCTGCCCGTCGGCTTAGA
** * *
1034428 CCTAAGAGACCTTTTCATCCATTGTCTT-CCCATCGGCTCAGGCTTGGGAGACTTCTTCATCTTT
1 CCTGGGAGACCTTTTCATCCATCGT-TTGCCCATCGGCTCAGGCTCGGGAGACTTCTTCATCTTT
*
1034492 CGTCTACCCGTCGGCTTAGA
65 CGTCTGCCCGTCGGCTTAGA
* * * * * * * **
1034512 CTTGGGAGACCTCTTCATCCATCATTTGCCCATTGGCTCAGTCTCAGGAGACCTCTTCATCCATC
1 CCTGGGAGACCTTTTCATCCATCGTTTGCCCATCGGCTCAGGCTCGGGAGACTTCTTCATCTTTC
* * *
1034577 GTTTGCCCGTCGGCTCAGT
66 GTCTGCCCGTCGGCTTAGA
* *** * * * * * *
1034596 CTTGGGAGA-CTCTTTCATTTTTCGTTTCCCCGTCAGCTCAGGCCCGAGAAACTTCTTCATCTTT
1 CCTGGGAGACCT-TTTCATCCATCGTTTGCCCATCGGCTCAGGCTCGGGAGACTTCTTCATCTTT
*
1034660 CGTGC-GCCCGTTGGCTTAGA
65 CGT-CTGCCCGTCGGCTTAGA
* ** * * * *
1034680 CCT-GGAGACTTTTTTCATCTTTCGTCTGCCCATCGACTTA-GATCTGGGAGAC-TCTTTCATCT
1 CCTGGGAGAC-CTTTTCATCCATCGTTTGCCCATCGGCTCAGGCTC-GGGAGACTTC-TTCATCT
*
1034742 TTCGTCTGCCCGTCGGCTCAGA
63 TTCGTCTGCCCGTCGGCTTAGA
* * * * *** * **
1034764 CCCGAGAGACCTTTTCATCCATCGTCTACTTGTCGGCTTAGGCTCAAGAGACTTCTTCATCTTTC
1 CCTGGGAGACCTTTTCATCCATCGTTTGCCCATCGGCTCAGGCTCGGGAGACTTCTTCATCTTTC
** * *
1034829 GTCTATCCATCGGTTTAGA
66 GTCTGCCCGTCGGCTTAGA
* *
1034848 CCTGCGAGACCTTTTCATCCATCATTTGCCCATC
1 CCTGGGAGACCTTTTCATCCATCGTTTGCCCATC
1034882 AGCTTAGACC
Statistics
Matches: 345, Mismatches: 95, Indels: 28
0.74 0.20 0.06
Matches are distributed among these distances:
83 14 0.04
84 314 0.91
85 17 0.05
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.34
Consensus pattern (84 bp):
CCTGGGAGACCTTTTCATCCATCGTTTGCCCATCGGCTCAGGCTCGGGAGACTTCTTCATCTTTC
GTCTGCCCGTCGGCTTAGA
Found at i:1036385 original size:165 final size:162
Alignment explanation
Indices: 1035998--1036626 Score: 637
Period size: 165 Copynumber: 3.8 Consensus size: 162
1035988 AAATTACGAA
* * * * *
1035998 ATTTTCTTCTCCGTTAATTTTTTCAGGAGGCTTTTTCTTAATTTTTAATTTTTAAAATTCATTAA
1 ATTTTCTACTCCGTAAATTTTTT-AGGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
* * * ** **
1036063 ATATTATCATTTATTTCATATTAATTCA-TTTTTAAAAAATCAATTTATTTTAATGAGTTTTTAA
64 ATATTATTATTTATTTCATATTAATTCAGTTTTT-AAAAATTAATTCATTTCCAT-AAATTTTAA
*
1036127 ATTTTTTTCTTG-AA---CTTTTTTTCGAAATATGGT
127 A-TTTTTTCTTGCAATTCCATTTTTTCGAAATATGGT
* *** * * * *
1036160 GTTTTCTACTTTATAAATTTTTTAAGAGGTTTTT-TCTCAGTTTTTAATTTTTAAAATTCATTAA
1 ATTTTCTACTCCGTAAATTTTTTAGGAGATTTTTCT-TGA-TTTTTAATTTTTAAAATTCATCAA
* * ** *
1036224 ACATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTAATTCATTTTCATGAGTTTTTGAA
64 ATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTAATTCATTTCCAT-AAATTTTAAA
*
1036289 TTTTTTCTTGCAATTTCCATTTTTTCAAAATATGGT
128 TTTTTTCTTGCAA-TTCCATTTTTTCGAAATATGGT
1036325 ATTTTCTACTCCGTAAATTTTTTGAGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
1 ATTTTCTACTCCGTAAATTTTTT-AGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAA
* * *
1036390 TATTATTATTTATATCATATTAATT-ATATTTTTAAAAATTCATTCATTTCCATAAATTTTAAAT
65 TATTATTATTTATTTCATATTAATTCA-GTTTTTAAAAATTAATTCATTTCCATAAATTTTAAAT
* * * * * **
1036454 GTTTTCTTTCAAATTCCCTTGTTCTCGAAATACGAA
129 TTTTTCTTGC-AATTCCATT-TTTTCGAAATATGGT
* *
1036490 ATTTTTTACTCTGT-AATTTTTTCAAAGG-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCA
1 ATTTTCTACTCCGTAAATTTTTT---AGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCA
* * * * * * *
1036553 AATATTATTATTTATTTTACATTAATTTAGTTTTCAAAACTTCATTCATTTCCATAAATTTTGAA
63 AATATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTAATTCATTTCCATAAATTTTAAA
1036618 TTTTTTCTT
128 TTTTTTCTT
1036627 AAGAATTTTC
Statistics
Matches: 399, Mismatches: 52, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
159 1 0.00
160 18 0.05
161 82 0.21
162 22 0.06
164 31 0.08
165 229 0.57
166 15 0.04
167 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (162 bp):
ATTTTCTACTCCGTAAATTTTTTAGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCAAAT
ATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTAATTCATTTCCATAAATTTTAAATTT
TTTCTTGCAATTCCATTTTTTCGAAATATGGT
Found at i:1036562 original size:330 final size:326
Alignment explanation
Indices: 1035998--1036626 Score: 768
Period size: 330 Copynumber: 1.9 Consensus size: 326
1035988 AAATTACGAA
* * * *
1035998 ATTTTCTTCTCCGTTAATTTTTTCAGGAGGCTTTTTCTTAATTTTTAATTTTTAAAATTCATTAA
1 ATTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAA
* * * **
1036063 ATATTATCATTTATTTCATATTAATTCATTTTTAAAAAATCAATTTATTTTAATGAGTTTTTAAA
66 ATATTATCATTTATATCATATTAATTCATTTTTAAAAAATCAATTCATTTCAATGAAATTTTAAA
* * * * *** * *
1036128 TTTTTTTCTTGAACTTTTTTTCGAAATATGGTGTTTTCTACTTTATAAATTTTTTAAGAGGTTTT
131 TTTTTCTCTTCAAATTTTTTTCGAAATACGAAATTTTCTACTCTATAAATTTTTTAAGAGGATTT
* * *
1036193 TTCTCAGTTTTTAATTTTTAAAATTCATTAAACATTATTATTTATTTCATATTAATTCAGTTTTT
196 TTCTCAGTTTTTAATTTTTAAAATTCATCAAACATTATTATTTATTTCACATTAATTCAGTTTTC
* **
1036258 AAAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTTGCAATTTCCATTTTTTCAAAATATG
261 AAAAATTAATTCATTTCCAT-AAATTTTGAATTTTTTCTTGCAATTTCCATTTTTTCAAAATATG
1036323 GT
325 GT
* *
1036325 ATTTTCTACTCCGTAAATTTTTTGAGGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATCAA
1 ATTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAA
* * * *
1036389 ATATTATTATTTATATCATATTAATTATATTTTTAAAAATTC-ATTCATTTCCAT-AAATTTTAA
66 ATATTATCATTTATATCATATTAATT-CATTTTTAAAAAATCAATTCATTTCAATGAAATTTTAA
* *
1036452 ATGTTTTCT-TTCAAATTCCCTTGTTCTCGAAATACGAAATTTTTTACTCTGT-AATTTTTTCAA
130 AT-TTTTCTCTTCAAATT---TT-TT-TCGAAATACGAAATTTTCTACTCTATAAATTTTTT-AA
* * *
1036515 -AGGGATTTTTCT-TGATTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTTACATTAA
188 GA-GGATTTTTCTCAG-TTTTTAATTTTTAAAATTCATCAAACATTATTATTTATTTCACATTAA
* * *
1036578 TTTAGTTTTCAAAACTTCATTCATTTCCATAAATTTTGAATTTTTTCTT
251 TTCAGTTTTCAAAAATTAATTCATTTCCATAAATTTTGAATTTTTTCTT
1036627 AAGAATTTTC
Statistics
Matches: 254, Mismatches: 38, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
325 15 0.06
326 71 0.28
327 38 0.15
328 2 0.01
329 29 0.11
330 99 0.39
ACGTcount: A:0.30, C:0.10, G:0.06, T:0.54
Consensus pattern (326 bp):
ATTTTCTACTCCGTAAATTTTTTCAGGAGGATTTTTCTTAATTTTTAATTTTTAAAATTCATCAA
ATATTATCATTTATATCATATTAATTCATTTTTAAAAAATCAATTCATTTCAATGAAATTTTAAA
TTTTTCTCTTCAAATTTTTTTCGAAATACGAAATTTTCTACTCTATAAATTTTTTAAGAGGATTT
TTCTCAGTTTTTAATTTTTAAAATTCATCAAACATTATTATTTATTTCACATTAATTCAGTTTTC
AAAAATTAATTCATTTCCATAAATTTTGAATTTTTTCTTGCAATTTCCATTTTTTCAAAATATGG
T
Found at i:1036706 original size:165 final size:164
Alignment explanation
Indices: 1035997--1036759 Score: 605
Period size: 165 Copynumber: 4.7 Consensus size: 164
1035987 CAAATTACGA
* * * * * * *
1035997 AATTTTCTTCTCCGTTAATTTTTT-CAGGAGGCTTTTTCTTAATTTTTAATTTTTAAAATTCATT
1 AATTTTCTTCTTCGTAAATTTTTTGAAAGA-GATTTTTCTTGATTTTTAATTTTTAAAATTCATC
* * * * ** **
1036061 AAATATTATCATTTATTTCATATTAATTCA-TTTTTAAAAAATCAATTTATTTTAATGAGTTTTT
65 AAATATTATTATTTATTTCATATTAATTTAGTTTTTAAAAATTC-ATTCATTTCCAT-AAATTTT
* * * *
1036125 AAATTTTTTTCTT-GAACTTT--TTTTC-GAA-ATATGG
128 GAA-TTTTTTCTTAGAA-TTTCCTTTTCTCAAGAAATCG
** * ** * *
1036159 TGTTTTCTACTTTATAAATTTTTT--AAGAGGTTTTT-TCTCAGTTTTTAATTTTTAAAATTCAT
1 AATTTTCTTCTTCGTAAATTTTTTGAAAGAGATTTTTCT-TGA-TTTTTAATTTTTAAAATTCAT
* * * * * **
1036221 TAAACATTATTATTTATTTCATATTAATTCAGTTTTTAAAAATTAATTCATTTTCATGAGTTTTT
64 CAAATATTATTATTTATTTCATATTAATTTAGTTTTTAAAAATTCATTCATTTCCAT-AAATTTT
* *
1036286 GAATTTTTTCTT-GCAATTTCCATTTTTTCAA-AATATGG
128 GAATTTTTTCTTAG-AATTTCC-TTTTCTCAAGAA-ATCG
* * * *
1036324 TATTTTCTACTCCGTAAATTTTTTG-AGGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCA
1 AATTTTCTTCTTCGTAAATTTTTTGAAAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCA
* *
1036388 AATATTATTATTTATATCATATTAATTATA-TTTTTAAAAATTCATTCATTTCCATAAATTTTAA
66 AATATTATTATTTATTTCATATTAATT-TAGTTTTTAAAAATTCATTCATTTCCATAAATTTTGA
* *
1036452 ATGTTTTCTTTCA-AATTCCCTTGTTCTC--GAAATACG
130 ATTTTTTC-TT-AGAATTTCCTT-TTCTCAAGAAAT-CG
* *
1036488 AAATTTT-TTAC-TCTGT-AATTTTTTCAAAGGGATTTTTCTTGATTTTTAATTTTTAAAATTCA
1 -AATTTTCTT-CTTC-GTAAATTTTTTGAAAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCA
* * * *
1036550 TCAAATATTATTATTTATTTTACATTAATTTAGTTTTCAAAACTTCATTCATTTCCATAAATTTT
63 TCAAATATTATTATTTATTTCATATTAATTTAGTTTTTAAAAATTCATTCATTTCCATAAATTTT
* *
1036615 GAATTTTTTCTTAAGAATTTTCTTTTCCCAAGAAATCG
128 GAATTTTTTCTT-AGAATTTCCTTTTCTCAAGAAATCG
* * ** * *
1036653 AATTTTCTTCTTCGTAAATTTTTTGAAAAAAATTTTT-TTCGATTTAAAATTTTTATAATTTATC
1 AATTTTCTTCTTCGTAAATTTTTTGAAAGAGATTTTTCTT-GATTTTTAATTTTTAAAATTCATC
* * * ** * * *
1036717 TAATATTATCATTGAACTCAAATTAATTTAATTTTAAAAAATT
65 AAATATTATTATTTATTTCATATTAATTTAGTTTTTAAAAATT
1036760 TAATTTATTT
Statistics
Matches: 496, Mismatches: 75, Indels: 57
0.79 0.12 0.09
Matches are distributed among these distances:
159 1 0.00
160 21 0.04
161 75 0.15
162 28 0.06
163 6 0.01
164 51 0.10
165 296 0.60
166 17 0.03
167 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (164 bp):
AATTTTCTTCTTCGTAAATTTTTTGAAAGAGATTTTTCTTGATTTTTAATTTTTAAAATTCATCA
AATATTATTATTTATTTCATATTAATTTAGTTTTTAAAAATTCATTCATTTCCATAAATTTTGAA
TTTTTTCTTAGAATTTCCTTTTCTCAAGAAATCG
Found at i:1038449 original size:161 final size:161
Alignment explanation
Indices: 1038074--1038835 Score: 1079
Period size: 161 Copynumber: 4.7 Consensus size: 161
1038064 AAAATTAAAC
* * * * *
1038074 AATATTTA-TTTTTTCTAATCTTTTATATTCCTATGGACATGCGTAGGGGTACAAAAGGTTTCAA
1 AATATCTATTTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAA
* * * * * *
1038138 AAACTTTTCATATTCTTTCGGGCTTCCATTAAGATATGAAATAGTATTTTCAAAAATAAGTAAAA
66 AAACCTTTCATATTCTTTCGGGCTTTCATTAGGGTACGAAATAGTATTTTCAAAAATAA--ATAA
* *** * *
1038203 TTAAATTAAATTGATATTATCAAGATATATTTT
129 TTAAATTAAATTGGTATTATTGGGATAAATTCT
* * *
1038236 AATATTTA-TTTTTTCTAATCTTTTATATTCCTATGAGCATCCGTAAGGGTATAAAAGATTTCAA
1 AATATCTATTTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAA
*
1038300 AAACCTTTCATATTCTTTAGGGCTTTCATTAGGGTACGAAAT-GCTATTTTCAAAAATAAATAAT
66 AAACCTTTCATATTCTTTCGGGCTTTCATTAGGGTACGAAATAG-TATTTTCAAAAATAAATAAT
1038364 TAAATTAAATTGGTATTATTGGGATAAATT-T
130 TAAATTAAATTGGTATTATTGGGATAAATTCT
*
1038395 GAATATCTATTTTTTTCTAATCTTTTATATTCCTGTGGGCATCCGTAGGGGTATAAAAGATTTCA
1 -AATATCTATTTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCA
*
1038460 AAAACCTTTCATATTCTTTAGGGCTTTCATTAGGGTACGAAAT-GCTATTTTCAAAAATAAATAA
65 AAAACCTTTCATATTCTTTCGGGCTTTCATTAGGGTACGAAATAG-TATTTTCAAAAATAAATAA
*
1038524 TTAAATTAAATTGGTATTATTGCGATAAATTCT
129 TTAAATTAAATTGGTATTATTGGGATAAATTCT
* ** *
1038557 AATATCTATTTTTTTCTAATCTTTTATATTCCTATAGGCATCCGTAATGATATAAAAGATTTCAA
1 AATATCTATTTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAA
** * *
1038622 AAACCTTTTGTATTCTTTCGAGCTTCCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAATT
66 AAACCTTTCATATTCTTTCGGGCTTTCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAATT
* *
1038687 AAATTAAATAGGTATTACTGGGATAAATTCT
131 AAATTAAATTGGTATTATTGGGATAAATTCT
*
1038718 AATATCTATTTTTTTCTAATCTTTTATATTCCTATAGGG-ATCCGTAGAGGTATAAAAGATTTCA
1 AATATCTATTTTTTTCTAATCTTTTATATTCCTAT-GGGCATCCGTAGGGGTATAAAAGATTTCA
* *
1038782 AAAACCTTTTATATTCTTTCGAGC-TTCTATTAGGGTACGAAATAGTATTTTCAA
65 AAAACCTTTCATATTCTTTCGGGCTTTC-ATTAGGGTACGAAATAGTATTTTCAA
1038836 CAATGCATAA
Statistics
Matches: 551, Mismatches: 42, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
159 1 0.00
160 38 0.07
161 399 0.72
162 113 0.21
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (161 bp):
AATATCTATTTTTTTCTAATCTTTTATATTCCTATGGGCATCCGTAGGGGTATAAAAGATTTCAA
AAACCTTTCATATTCTTTCGGGCTTTCATTAGGGTACGAAATAGTATTTTCAAAAATAAATAATT
AAATTAAATTGGTATTATTGGGATAAATTCT
Found at i:1044381 original size:62 final size:62
Alignment explanation
Indices: 1044298--1044414 Score: 216
Period size: 62 Copynumber: 1.9 Consensus size: 62
1044288 AGTGGATTGG
*
1044298 AGAGACCGGTGCTTATTTAATATTATGACATTGTTTTTAAATACAATAAAAGATTAAGATTA
1 AGAGACCGGTGCTTATTTAATATTATGACATTATTTTTAAATACAATAAAAGATTAAGATTA
*
1044360 AGAGACCGGTGCTTATTTAATATTATGACATTATTTTTAAATACAATTAAAGATT
1 AGAGACCGGTGCTTATTTAATATTATGACATTATTTTTAAATACAATAAAAGATT
1044415 TGTTTAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (62 bp):
AGAGACCGGTGCTTATTTAATATTATGACATTATTTTTAAATACAATAAAAGATTAAGATTA
Found at i:1045202 original size:9 final size:9
Alignment explanation
Indices: 1045172--1045196 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1045162 AATTTTCCAT
1045172 TTTTTATTA
1 TTTTTATTA
1045181 TTTTTATTA
1 TTTTTATTA
1045190 TTTTTAT
1 TTTTTAT
1045197 CTTTTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTATTA
Found at i:1045861 original size:72 final size:72
Alignment explanation
Indices: 1045739--1045967 Score: 386
Period size: 72 Copynumber: 3.2 Consensus size: 72
1045729 GATGAAACGA
*
1045739 TAATTCAAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
1 TAATCCAAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
1045804 CAATAAC
66 CAATAAC
* * *
1045811 TGATCCAAGATAATCTGCACGATATATACAATCAACAACTATTTTTGCATATTTAAAACTACTAT
1 TAATCCAAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
* *
1045876 CAACAAT
66 CAATAAC
*
1045883 TAATCCGAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
1 TAATCCAAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
1045948 CAATAAC
66 CAATAAC
*
1045955 TAATCCGAGATAA
1 TAATCCAAGATAA
1045968 CATGTTCTTT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (72 bp):
TAATCCAAGATAATCTGCACGATAAATACAATCAACAACTATTTCTGCATATTTAAAACTACTAT
CAATAAC
Done.