Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 12 of 163
Found at i:3961838 original size:1 final size:1
Alignment explanation
Indices: 3961834--3961870 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
3961824 AGAAAAAGAA
3961834 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
3961871 GCTGAACTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3963414 original size:15 final size:15
Alignment explanation
Indices: 3963394--3963426 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
3963384 AGATGAACAC
*
3963394 AAATTTAACGTGGAA
1 AAATTTAACATGGAA
3963409 AAATTTAACATGGAA
1 AAATTTAACATGGAA
3963424 AAA
1 AAA
3963427 CCCCTCCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (15 bp):
AAATTTAACATGGAA
Found at i:3967752 original size:15 final size:15
Alignment explanation
Indices: 3967731--3967774 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
3967721 ATATACATAG
3967731 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
* *
3967746 GTTTTTATTT-TTAT
1 ATTTTTATTTATTTT
*
3967760 AATTTTATTTATTTT
1 ATTTTTATTTATTTT
3967775 CATTATTGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTATTTT
Found at i:3967789 original size:18 final size:18
Alignment explanation
Indices: 3967744--3967790 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
3967734 TTTATTTATT
* *
3967744 TTGTTTTTATTTTTATAA
1 TTGTTATTATTTTCATAA
*
3967762 TT-TTATTTATTTTCATTA
1 TTGTTA-TTATTTTCATAA
3967780 TTGTTATTATT
1 TTGTTATTATT
3967791 GTCTTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 19 0.79
19 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (18 bp):
TTGTTATTATTTTCATAA
Found at i:3970838 original size:20 final size:20
Alignment explanation
Indices: 3970801--3970845 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
3970791 AAAATTTAGA
*
3970801 AATTTTATAAGCGATTTAAT
1 AATTTTATAAGCAATTTAAT
*
3970821 AATTTTATAAG-AACTTTAGT
1 AATTTTATAAGCAA-TTTAAT
3970841 AATTT
1 AATTT
3970846 ACAACATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (20 bp):
AATTTTATAAGCAATTTAAT
Found at i:3971662 original size:19 final size:19
Alignment explanation
Indices: 3971638--3971675 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
3971628 GTTATTTATA
3971638 ATTTAA-AATTTAAAAAAAT
1 ATTTAAGAA-TTAAAAAAAT
3971657 ATTTAAGAATTAAAAAAAT
1 ATTTAAGAATTAAAAAAAT
3971676 TAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.89
20 2 0.11
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTTAAGAATTAAAAAAAT
Found at i:3979149 original size:15 final size:17
Alignment explanation
Indices: 3979116--3979156 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
3979106 ATTTATATTT
3979116 ATTTAAA-AAACACCAA
1 ATTTAAATAAACACCAA
3979132 ATTTAAATAAA-A-CAA
1 ATTTAAATAAACACCAA
3979147 A-TTAAATAAA
1 ATTTAAATAAA
3979157 TATTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 8 0.33
17 3 0.12
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTTAAATAAACACCAA
Found at i:3981284 original size:15 final size:17
Alignment explanation
Indices: 3981251--3981291 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 17
3981241 ATTTATATTT
3981251 ATTTAAA-AAACACCAA
1 ATTTAAATAAACACCAA
3981267 ATTTAAATAAA-A-CAA
1 ATTTAAATAAACACCAA
3981282 A-TTAAATAAA
1 ATTTAAATAAA
3981292 TATTTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 9 0.38
15 4 0.17
16 8 0.33
17 3 0.12
ACGTcount: A:0.66, C:0.10, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTTAAATAAACACCAA
Found at i:3983729 original size:16 final size:16
Alignment explanation
Indices: 3983695--3983729 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
3983685 AAAATCAAAG
*
3983695 AAATGGAAAGAAAGAA
1 AAATGGAAAGAAAAAA
*
3983711 AAATGGAATGAAAAAA
1 AAATGGAAAGAAAAAA
3983727 AAA
1 AAA
3983730 ATATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (16 bp):
AAATGGAAAGAAAAAA
Found at i:3984095 original size:95 final size:96
Alignment explanation
Indices: 3983984--3984175 Score: 377
Period size: 95 Copynumber: 2.0 Consensus size: 96
3983974 ATTACCCAAT
3983984 TTTTTTATGCTTAAACTCAAATTTGTCCCAACCTAATGGTGAGAAACTACTATTAATATATTATA
1 TTTTTTATGCTTAAACTCAAATTTGTCCCAACCTAATGGTGAGAAACTACTATTAATATATTATA
3984049 AAATATTAAAAAAATATATTT-TATATTTTA
66 AAATATTAAAAAAATATATTTATATATTTTA
3984079 TTTTTTATGCTTAAACTCAAATTTGTCCCAACCTAATGGTGAGAAACTACTATTAATATATTATA
1 TTTTTTATGCTTAAACTCAAATTTGTCCCAACCTAATGGTGAGAAACTACTATTAATATATTATA
3984144 AAATATTAAAAAAATATATTTATATATTTTA
66 AAATATTAAAAAAATATATTTATATATTTTA
3984175 T
1 T
3984176 AACTGAATTT
Statistics
Matches: 96, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
95 86 0.90
96 10 0.10
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.42
Consensus pattern (96 bp):
TTTTTTATGCTTAAACTCAAATTTGTCCCAACCTAATGGTGAGAAACTACTATTAATATATTATA
AAATATTAAAAAAATATATTTATATATTTTA
Found at i:3985916 original size:201 final size:204
Alignment explanation
Indices: 3985563--3985973 Score: 702
Period size: 201 Copynumber: 2.0 Consensus size: 204
3985553 CTGAATAGGT
*
3985563 GTTACGCGTTAACCAGACACCAACTCAATTGGATATAAAAATATTCTTATTTTATAAAATAAATT
1 GTTACGCGTTAACCAGACACCAACTCAATTGGA-AT---AATATCCTTATTTTATAAAATAAATT
*
3985628 GTATTACTTGAGATTTTTTTTTTCATTTTATATCTCTTTAAATAGAAAAATAAAGTATGTAGACT
62 GTATTACTTGAGA-TTTTTTTTTCATTTTATATCTCTTTAAATAGAAAAATAAAGCATGTAGACT
*
3985693 CAAAAGCCCAATAAAAATAAACGATGATATAAGGGCTAAACCCACCCTAGCTCTCTGCAGCGGAC
126 CAAAAGCCCAATAAAAATAAACGATGATATAAGGGCTAAACCCACCCTAGCTCTCAGCAGCGGAC
3985758 GCTAACAAGGGAGG
191 GCTAACAAGGGAGG
3985772 GTTACGCGTTAACCAGACACCAACTCAATTGG-AT-ATATCCTTATTTTATAAAATAAATTGTAT
1 GTTACGCGTTAACCAGACACCAACTCAATTGGAATAATATCCTTATTTTATAAAATAAATTGTAT
*
3985835 TACTTGAGA-TTTTTTTTCATTTTATATCTCTTTATATAGAAAAATAAAGCATGTAGACTCAAAA
66 TACTTGAGATTTTTTTTTCATTTTATATCTCTTTAAATAGAAAAATAAAGCATGTAGACTCAAAA
* *
3985899 GCCCAATAAAAATAAACGATTATATGAGGGCTAAACCCACCCTAGCTCTCAGCAGCGGACGCTAA
131 GCCCAATAAAAATAAACGATGATATAAGGGCTAAACCCACCCTAGCTCTCAGCAGCGGACGCTAA
3985964 CAAGGGAGG
196 CAAGGGAGG
3985973 G
1 G
3985974 AGGAGAGTGA
Statistics
Matches: 196, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
201 125 0.64
203 37 0.19
207 2 0.01
209 32 0.16
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (204 bp):
GTTACGCGTTAACCAGACACCAACTCAATTGGAATAATATCCTTATTTTATAAAATAAATTGTAT
TACTTGAGATTTTTTTTTCATTTTATATCTCTTTAAATAGAAAAATAAAGCATGTAGACTCAAAA
GCCCAATAAAAATAAACGATGATATAAGGGCTAAACCCACCCTAGCTCTCAGCAGCGGACGCTAA
CAAGGGAGG
Found at i:3989239 original size:14 final size:14
Alignment explanation
Indices: 3989220--3989247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3989210 TCTTATTTGC
3989220 TCACATTAAAATGG
1 TCACATTAAAATGG
3989234 TCACATTAAAATGG
1 TCACATTAAAATGG
3989248 ATAAAGGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
TCACATTAAAATGG
Found at i:3994249 original size:3 final size:3
Alignment explanation
Indices: 3994241--3994272 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
3994231 TTCTTTTTCT
3994241 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
3994273 TTAAAATAAT
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:4000139 original size:119 final size:119
Alignment explanation
Indices: 3999989--4000401 Score: 826
Period size: 119 Copynumber: 3.5 Consensus size: 119
3999979 CGACCGAAAA
3999989 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
1 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
4000054 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
66 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
4000108 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
1 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
4000173 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
66 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
4000227 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
1 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
4000292 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
66 GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
4000346 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGT
1 AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGT
4000402 TTTACCCGAA
Statistics
Matches: 294, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
119 294 1.00
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (119 bp):
AATTCGGTTAACCGACCGAATTTGGGTAATCGGTCGGTTAACCGAATTTTTTCGGTCGGGGGTCG
GTTAATTATTTTTTGATTTTTCGGTTAACGGTTAAAGATTTTGAAAGGTCGGTT
Found at i:4001153 original size:41 final size:41
Alignment explanation
Indices: 4001050--4001153 Score: 136
Period size: 41 Copynumber: 2.5 Consensus size: 41
4001040 TAAGAACGCA
* * *
4001050 CCGCTAATGCTCAGGGCTGTAGCGACGTTTTTTAAAAAGCG
1 CCGCTAATGCTCAGGGCTTTAGCGACGATTTTGAAAAAGCG
* * * *
4001091 TCGCTAATGCTCAAGGCTTTAGCGGCGATTTTGATAAAGCG
1 CCGCTAATGCTCAGGGCTTTAGCGACGATTTTGAAAAAGCG
*
4001132 CCGCTAATGCTCAGGGATTTAG
1 CCGCTAATGCTCAGGGCTTTAG
4001154 AATAATTTAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
CCGCTAATGCTCAGGGCTTTAGCGACGATTTTGAAAAAGCG
Found at i:4004052 original size:22 final size:24
Alignment explanation
Indices: 4004027--4004080 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
4004017 CTTACTTTTT
*
4004027 TTATTATTTTGTT-GCT-TTTTGC
1 TTATTATTTTGTTCACTATTTTGC
*
4004049 TTATTATTTTTTTCACTATTTTGC
1 TTATTATTTTGTTCACTATTTTGC
4004073 -TATTATTT
1 TTATTATTT
4004081 CACAATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
23 10 0.36
24 6 0.21
ACGTcount: A:0.15, C:0.09, G:0.07, T:0.69
Consensus pattern (24 bp):
TTATTATTTTGTTCACTATTTTGC
Found at i:4009516 original size:8 final size:8
Alignment explanation
Indices: 4009503--4009557 Score: 56
Period size: 8 Copynumber: 6.6 Consensus size: 8
4009493 AATTTATCAA
*
4009503 ACATATGT
1 ACATATAT
4009511 ACATATAT
1 ACATATAT
*
4009519 ACATACAT
1 ACATATAT
*
4009527 ACATACAT
1 ACATATAT
*
4009535 ACATACAT
1 ACATATAT
4009543 ACATACATAT
1 ACAT--ATAT
4009553 ACATA
1 ACATA
4009558 CATATAGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 35 0.83
10 7 0.17
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (8 bp):
ACATATAT
Found at i:4009526 original size:4 final size:4
Alignment explanation
Indices: 4009510--4009561 Score: 81
Period size: 4 Copynumber: 13.5 Consensus size: 4
4009500 CAAACATATG
*
4009510 TACA TATA TACA TACA TACA TACA TACA TACA TACA TACA T--A TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
4009556 TACA TA
1 TACA TA
4009562 TAGAGAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
4 42 0.95
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:4012128 original size:16 final size:17
Alignment explanation
Indices: 4012099--4012131 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4012089 TCTGGTCTAA
4012099 TTAAAAAATTATTAAAAG
1 TTAAAAAA-TATTAAAAG
4012117 TTAAAAAA-ATTAAAA
1 TTAAAAAATATTAAAA
4012132 ATCCCGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
TTAAAAAATATTAAAAG
Found at i:4013720 original size:99 final size:100
Alignment explanation
Indices: 4013549--4013751 Score: 327
Period size: 99 Copynumber: 2.0 Consensus size: 100
4013539 TGAATTATCA
* * *
4013549 TTGTATAAAAGCCTTGTTTTATATAAGCTTTGTTGAGTAATACAAGCTATAGCATTCTCTTACAC
1 TTGTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGCTATAGCATTCTCTTACAC
* *
4013614 TCACTTTCCTTGCATGTTAACT-CTTGTATTTGGT
66 TCACTTTCCTTGCATATTAACTCCTTGTATTTGAT
*
4013648 TTGTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGCTATAGCATTGTCTTACAC
1 TTGTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGCTATAGCATTCTCTTACAC
* *
4013713 TCACTTTCTTTGCATATTAGCTCCTTGTATTTGAT
66 TCACTTTCCTTGCATATTAACTCCTTGTATTTGAT
4013748 TTGT
1 TTGT
4013752 TTGAGTGCCT
Statistics
Matches: 95, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 80 0.84
100 15 0.16
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.43
Consensus pattern (100 bp):
TTGTATAAAAGCCTTGTTGTACATAAGCCTTGTTGAGTAATACAAGCTATAGCATTCTCTTACAC
TCACTTTCCTTGCATATTAACTCCTTGTATTTGAT
Found at i:4016017 original size:58 final size:59
Alignment explanation
Indices: 4015885--4016017 Score: 153
Period size: 58 Copynumber: 2.3 Consensus size: 59
4015875 TTTTTAAGAA
* * * * * **
4015885 CTAACTTAGACAAAAAAAAGTTCAAGCCCTAATGTGAGAATAATTTTTAGGTTCAGGGT
1 CTAACTTAGACAAAAAAAAGTTCAAGCCCTAATATGAGAACAATTATTAAGTCCAGGAC
* * *
4015944 CTAATTTAGATAAAAAAAAGTTCAAGCCAC-AATAT-AGAACGATTATTAAGTCCAGGAC
1 CTAACTTAGACAAAAAAAAGTTCAAGCC-CTAATATGAGAACAATTATTAAGTCCAGGAC
4016002 CTAACTTAGACAAAAA
1 CTAACTTAGACAAAAA
4016018 GAAATTTCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
58 30 0.49
59 30 0.49
60 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (59 bp):
CTAACTTAGACAAAAAAAAGTTCAAGCCCTAATATGAGAACAATTATTAAGTCCAGGAC
Found at i:4025642 original size:21 final size:21
Alignment explanation
Indices: 4025618--4025659 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4025608 AAGGACTTGG
4025618 GGAGAAAAAGGAAGAAGAAGA
1 GGAGAAAAAGGAAGAAGAAGA
* * *
4025639 GGAGCAAGAGGAGGAAGAAGA
1 GGAGAAAAAGGAAGAAGAAGA
4025660 TGATGATGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.43, T:0.00
Consensus pattern (21 bp):
GGAGAAAAAGGAAGAAGAAGA
Found at i:4025659 original size:12 final size:12
Alignment explanation
Indices: 4025626--4025707 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
4025616 GGGGAGAAAA
*
4025626 AGGAAGAAGAAG
1 AGGAAGAAGAGG
4025638 AGG-AGCAAGAGG
1 AGGAAG-AAGAGG
*
4025650 AGGAAGAAGATG
1 AGGAAGAAGAGG
* * *
4025662 ATGATGATGAGG
1 AGGAAGAAGAGG
* * *
4025674 ATGATGAAGAAG
1 AGGAAGAAGAGG
*
4025686 AAGAAGAAGAGG
1 AGGAAGAAGAGG
*
4025698 AAGAAGAAGA
1 AGGAAGAAGA
4025708 AGGAAAAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
11 2 0.04
12 53 0.93
13 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.40, T:0.07
Consensus pattern (12 bp):
AGGAAGAAGAGG
Found at i:4025685 original size:3 final size:3
Alignment explanation
Indices: 4025679--4025723 Score: 65
Period size: 3 Copynumber: 15.0 Consensus size: 3
4025669 TGAGGATGAT
*
4025679 GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA GGAA -AA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA
4025724 AATGGGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4028305 original size:21 final size:20
Alignment explanation
Indices: 4028281--4028348 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
4028271 TTATAACTAC
4028281 CATTAGTGTGCCTTAATTGGA
1 CATTAGTGTG-CTTAATTGGA
* *
4028302 CATTTAGCGTGGTTATAATT--A
1 CA-TTAGTGT-GCT-TAATTGGA
4028323 CCATTAGTGTTGCTTAATTGGA
1 -CATTAGTG-TGCTTAATTGGA
4028345 CATT
1 CATT
4028349 TAACGTTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
20 5 0.14
21 14 0.39
22 11 0.31
23 6 0.17
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (20 bp):
CATTAGTGTGCTTAATTGGA
Found at i:4028308 original size:22 final size:21
Alignment explanation
Indices: 4028283--4028350 Score: 52
Period size: 22 Copynumber: 3.1 Consensus size: 21
4028273 ATAACTACCA
4028283 TTAGTGTGCCTTAATTGGACAT
1 TTAGTGTG-CTTAATTGGACAT
* *
4028305 TTAGCGTGGTTATAATT--ACCA-
1 TTAGTGT-GCT-TAATTGGA-CAT
4028326 TTAGTGTTGCTTAATTGGACAT
1 TTAGTG-TGCTTAATTGGACAT
4028348 TTA
1 TTA
4028351 ACGTTGTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
20 5 0.14
21 10 0.29
22 14 0.40
23 6 0.17
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (21 bp):
TTAGTGTGCTTAATTGGACAT
Found at i:4028332 original size:43 final size:43
Alignment explanation
Indices: 4028271--4028369 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
4028261 TAGCTCTCTC
*
4028271 TTATAACTACCATTAGTG-TGCCTTAATTGGACATTTAGCGTGG
1 TTATAACTACCATTAGTGTTG-CTTAATTGGACATTTAACGTGG
* *
4028314 TTATAATTACCATTAGTGTTGCTTAATTGGACATTTAACGTTG
1 TTATAACTACCATTAGTGTTGCTTAATTGGACATTTAACGTGG
4028357 TTATAACTACCAT
1 TTATAACTACCAT
4028370 CAAACTTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 49 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (43 bp):
TTATAACTACCATTAGTGTTGCTTAATTGGACATTTAACGTGG
Found at i:4031048 original size:20 final size:20
Alignment explanation
Indices: 4031023--4031064 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
4031013 ACGTTGTTGC
4031023 TTTAGCAAAAGCTAATGAGG
1 TTTAGCAAAAGCTAATGAGG
*
4031043 TTTAGCAAAAGTTAATGAGG
1 TTTAGCAAAAGCTAATGAGG
4031063 TT
1 TT
4031065 GAAGAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (20 bp):
TTTAGCAAAAGCTAATGAGG
Found at i:4042321 original size:2 final size:2
Alignment explanation
Indices: 4042314--4042338 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4042304 GTGCATACTT
4042314 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4042339 TCATATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4043004 original size:16 final size:16
Alignment explanation
Indices: 4042967--4043006 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
4042957 TTGATAAAAT
* *
4042967 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
4042983 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
4042999 TAAAATTA
1 TAAAATTA
4043007 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:4043067 original size:66 final size:71
Alignment explanation
Indices: 4043002--4043144 Score: 188
Period size: 75 Copynumber: 2.0 Consensus size: 71
4042992 TTGTTAGTAA
4043002 AATTATCAAATTATTAATTG-TTAATTG-T-A-T-TAATTGTTGTAACAAAATCTAACAGTTGAT
1 AATTATCAAATTATTAATTGATTAATTGTTAATTATAATTGTTGTAACAAAATCTAACAGTTGAT
4043062 TAGTAA
66 TAGTAA
* * *
4043068 AATTATCAAATTATTAATTGTATTAATTGTTATAATTGATAATTGTTGTAACAAAATTTAATATT
1 AATTATCAAATTATTAATTG-ATTAATTG-T-TAATT-ATAATTGTTGTAACAAAATCTAACAGT
4043133 TGATTAGTAA
62 TGATTAGTAA
4043143 AA
1 AA
4043145 CAAACCTGAT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
66 20 0.31
68 7 0.11
71 1 0.02
72 1 0.02
73 1 0.02
75 35 0.54
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (71 bp):
AATTATCAAATTATTAATTGATTAATTGTTAATTATAATTGTTGTAACAAAATCTAACAGTTGAT
TAGTAA
Found at i:4043937 original size:14 final size:14
Alignment explanation
Indices: 4043918--4043952 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4043908 TTGTTAGACT
4043918 GAAAATGAATTCCA
1 GAAAATGAATTCCA
* *
4043932 GAAAATGATTTCTA
1 GAAAATGAATTCCA
4043946 GAAAATG
1 GAAAATG
4043953 GCTTACTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (14 bp):
GAAAATGAATTCCA
Found at i:4062689 original size:25 final size:25
Alignment explanation
Indices: 4062658--4062705 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
4062648 TACATTAAAT
4062658 ATATACCATTAAT-TTTCACAAAAAA
1 ATATACCATTAATATTTCA-AAAAAA
4062683 ATATACCATTAATATTTCAAAAA
1 ATATACCATTAATATTTCAAAAA
4062706 TACATACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (25 bp):
ATATACCATTAATATTTCAAAAAAA
Found at i:4062715 original size:23 final size:24
Alignment explanation
Indices: 4062654--4062712 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
4062644 TTAGTACATT
4062654 AAATATATACCATTAATTTTCACAA
1 AAATATATACCATTAATTTT-ACAA
*
4062679 AAAAATATACCATTAATATTT-CAA
1 AAATATATACCATTAAT-TTTACAA
*
4062703 AAATACATAC
1 AAATATATAC
4062713 ATTTCTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.37
25 16 0.53
26 3 0.10
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (24 bp):
AAATATATACCATTAATTTTACAA
Found at i:4064781 original size:4 final size:4
Alignment explanation
Indices: 4064772--4064941 Score: 340
Period size: 4 Copynumber: 42.5 Consensus size: 4
4064762 TTCAACAGTT
4064772 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4064820 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4064868 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
4064916 ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC AT
4064942 CCAAAACACT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 166 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:4069109 original size:13 final size:13
Alignment explanation
Indices: 4069093--4069121 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4069083 TGACAACTTA
4069093 GATTTCCAACTAG
1 GATTTCCAACTAG
4069106 GATTTCCAACTAG
1 GATTTCCAACTAG
4069119 GAT
1 GAT
4069122 GAGAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (13 bp):
GATTTCCAACTAG
Found at i:4069228 original size:18 final size:18
Alignment explanation
Indices: 4069205--4069247 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4069195 GTTCAACATG
4069205 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4069223 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
4069241 TAATTAA
1 TAATTAA
4069248 AAACCTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4091682 original size:9 final size:9
Alignment explanation
Indices: 4091668--4091714 Score: 76
Period size: 9 Copynumber: 5.2 Consensus size: 9
4091658 ATGCAGAGGG
4091668 TGATACAGA
1 TGATACAGA
4091677 TGATACAGA
1 TGATACAGA
*
4091686 TGCTACAGA
1 TGATACAGA
*
4091695 TGCTACAGA
1 TGATACAGA
4091704 TGATACAGA
1 TGATACAGA
4091713 TG
1 TG
4091715 CTACTGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (9 bp):
TGATACAGA
Found at i:4091692 original size:18 final size:18
Alignment explanation
Indices: 4091668--4091718 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
4091658 ATGCAGAGGG
*
4091668 TGATACAGATGATACAGA
1 TGATACAGATGCTACAGA
*
4091686 TGCTACAGATGCTACAGA
1 TGATACAGATGCTACAGA
4091704 TGATACAGATGCTAC
1 TGATACAGATGCTAC
4091719 TGAAAAGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (18 bp):
TGATACAGATGCTACAGA
Found at i:4102161 original size:12 final size:12
Alignment explanation
Indices: 4102144--4102168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4102134 ATAATAACAT
4102144 AATTATATAATA
1 AATTATATAATA
4102156 AATTATATAATA
1 AATTATATAATA
4102168 A
1 A
4102169 CCTTACAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATTATATAATA
Found at i:4110390 original size:153 final size:153
Alignment explanation
Indices: 4110084--4110376 Score: 376
Period size: 153 Copynumber: 1.9 Consensus size: 153
4110074 TATCAAAGAG
* * * *
4110084 TGCTTCACCAAGAGTGCACACGTTGCAATTTGACAAGTCAAGAACATGAAGTTTTGAGAGTCGAG
1 TGCTTCACCAAAAGTGCACACATTGCAATTTGACAAGTCAAGAACATGAAGCTTGGAGAGTCGAG
* *
4110149 TAAAAGATGCAAGTATGCTGATTAAATTGTTACCACTAAAATCAAGATAACTCAAAGAGGATAGA
66 TAAAAGATGCAAGTATGCTGATGAAATTGTTACCACTAAAATCAAGATAACTCAAAAAGGATAGA
*
4110214 CCAGAAATATCATAATGAATATC
131 CCAAAAATATCATAATGAATATC
* * **
4110237 TGCTTCACCAAAAGTGCACATATTGCAATTTGACAA-TATAAG-ATTTGCAAGCTTGGAGAGTCG
1 TGCTTCACCAAAAGTGCACACATTGCAATTTGACAAGT-CAAGAACATG-AAGCTTGGAGAGTCG
* ** * * * *
4110300 AGTAAGAGATGCTGGTATGCTGATGAAATTGTTACCACTAACATTAAG-TTATTCCAAAAAGGAT
64 AGTAAAAGATGCAAGTATGCTGATGAAATTGTTACCACTAAAATCAAGATAACT-CAAAAAGGAT
4110364 AGACCAAAAATAT
128 AGACCAAAAATAT
4110377 ATGGTGGAAT
Statistics
Matches: 119, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
152 7 0.06
153 112 0.94
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.26
Consensus pattern (153 bp):
TGCTTCACCAAAAGTGCACACATTGCAATTTGACAAGTCAAGAACATGAAGCTTGGAGAGTCGAG
TAAAAGATGCAAGTATGCTGATGAAATTGTTACCACTAAAATCAAGATAACTCAAAAAGGATAGA
CCAAAAATATCATAATGAATATC
Found at i:4117850 original size:114 final size:117
Alignment explanation
Indices: 4117650--4118178 Score: 586
Period size: 114 Copynumber: 4.6 Consensus size: 117
4117640 CGTTACCTTC
* * * * *
4117650 AAGCGCCGCAAA-ATCTCTTAACCAAAACACAGCGTTTTGGTCTTGATGTATACCAAAATTAGTG
1 AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTG
* * * *
4117714 GCGATTATTG-GAATACGCCACTAAAGCA-AGTATTAGC-G-GTGCTCGGTTAA
66 GCGTTTA-TGACAAAACGCCACTAAAGCACAGTATTAGCGGCGTGCT-GGTGAA
* * *
4117764 AAGCGCCGCAAACA-ATCTTAACGAAAACGCATCGTTTTGATCTTGATGTATATTAGAATTAGTG
1 AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTG
4117828 GCGTTTATGACAAAACGCCACTAAAGCA-AGTATTAGCGGC--GCTCGGTGAA
66 GCGTTTATGACAAAACGCCACTAAAGCACAGTATTAGCGGCGTGCT-GGTGAA
* * * *
4117878 AAGCGCCGCAAACA-ATCTTAACGAAAACGCATCGTTTTAATCTTGATGTATATTAGAATTAGTG
1 AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTG
* * * * **
4117942 GCGTTTATGACAAAACGCCGCTAAAGCATAGTCTTAGCGGCGTG-TAGTGGG
66 GCGTTTATGACAAAACGCCACTAAAGCACAGTATTAGCGGCGTGCTGGTGAA
*
4117993 AAGCGCCGCAAA-ATACCTTAACCAAAACGCAGCGTTTT-AGTCTTGATGTATACTAGAATTAGT
1 AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGA-TCTTGATGTATACTAGAATTAGT
** * * *
4118056 GGCGTCGACGACAAAACGCCACTAAAGTACAGTATTAGCGGCGTGCT-TTGAA
65 GGCGTTTATGACAAAACGCCACTAAAGCACAGTATTAGCGGCGTGCTGGTGAA
* * * * * * *
4118108 AAGCGCCGC-AACATATCTTAACCAATACGCGGAG-TTCGGTCTTGAGGTACACTAGAATTAGTG
1 AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTG
*
4118171 GCGCTTAT
66 GCGTTTAT
4118179 TGTAAAGCAC
Statistics
Matches: 359, Mismatches: 44, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
113 2 0.01
114 216 0.60
115 138 0.38
116 2 0.01
117 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (117 bp):
AAGCGCCGCAAACATATCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTG
GCGTTTATGACAAAACGCCACTAAAGCACAGTATTAGCGGCGTGCTGGTGAA
Found at i:4118166 original size:229 final size:229
Alignment explanation
Indices: 4117764--4118178 Score: 552
Period size: 229 Copynumber: 1.8 Consensus size: 229
4117754 GCTCGGTTAA
* * * *
4117764 AAGCGCCGCAAACAATCTTAACGAAAACGCATCGTTTTGATCTTGATGTATATTAGAATTAGTGG
1 AAGCGCCGCAAACAACCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTGG
** *
4117829 CGTTTATGACAAAACGCCACTAAAGCAAGTATTAGCGGCGCTCGGTGAAAAGCGCCGCAAACAAT
66 CGTCGACGACAAAACGCCACTAAAGCAAGTATTAGCGGCGCTCGGTGAAAAGCGCCGCAAACAAT
* ** * * * * *
4117894 CTTAACGAAAACGCATCGTTTTAATCTTGATGTATATTAGAATTAGTGGCGTTTATGACAAAACG
131 CTTAACCAAAACGCAGAGTTTCAATCTTGAGGTACACTAGAATTAGTGGCGCTTATGACAAAACG
4117959 CCGCTAAAGCATAGTCTTAGCGGCGTGTAGTGGG
196 CCGCTAAAGCATAGTCTTAGCGGCGTGTAGTGGG
4117993 AAGCGCCGCAAA-ATACCTTAACCAAAACGCAGCGTTTT-AGTCTTGATGTATACTAGAATTAGT
1 AAGCGCCGCAAACA-ACCTTAACCAAAACGCAGCGTTTTGA-TCTTGATGTATACTAGAATTAGT
* **
4118056 GGCGTCGACGACAAAACGCCACTAAAGTACAGTATTAGCGGCG-TGCTTTGAAAAGCGCCGC-AA
64 GGCGTCGACGACAAAACGCCACTAAAGCA-AGTATTAGCGGCGCT-CGGTGAAAAGCGCCGCAAA
* * **
4118119 CATATCTTAACCAATACGCGGAG-TTCGGTCTTGAGGTACACTAGAATTAGTGGCGCTTAT
127 CA-ATCTTAACCAAAACGCAGAGTTTCAATCTTGAGGTACACTAGAATTAGTGGCGCTTAT
4118179 TGTAAAGCAC
Statistics
Matches: 159, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
228 2 0.01
229 115 0.72
230 42 0.26
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (229 bp):
AAGCGCCGCAAACAACCTTAACCAAAACGCAGCGTTTTGATCTTGATGTATACTAGAATTAGTGG
CGTCGACGACAAAACGCCACTAAAGCAAGTATTAGCGGCGCTCGGTGAAAAGCGCCGCAAACAAT
CTTAACCAAAACGCAGAGTTTCAATCTTGAGGTACACTAGAATTAGTGGCGCTTATGACAAAACG
CCGCTAAAGCATAGTCTTAGCGGCGTGTAGTGGG
Found at i:4118252 original size:76 final size:75
Alignment explanation
Indices: 4118107--4118253 Score: 181
Period size: 76 Copynumber: 1.9 Consensus size: 75
4118097 CGTGCTTTGA
* * *
4118107 AAAGCGCCGCAACATATCTTAACCAATACGCGGAGTTCGGTCTTGAGGTACACTAGAATTAGTGG
1 AAAGCACCGCAACATATCTTAACCAAAACGCGGAGTTCAGTCTTGAGGTACACTAGAATTAGTGG
4118172 CGCTTATTGT
66 CGCTTATTGT
* * * * *
4118182 AAAGCACCGCAA-AGTATCTTAACCAAAACGCAGCGTGTT-AGTCTTTATGTATACTAGCATTAG
1 AAAGCACCGCAACA-TATCTTAACCAAAACGC-G-GAGTTCAGTCTTGAGGTACACTAGAATTAG
4118245 TGGCGCTTA
63 TGGCGCTTA
4118254 AGGGAAATGC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
74 1 0.02
75 27 0.44
76 29 0.48
77 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (75 bp):
AAAGCACCGCAACATATCTTAACCAAAACGCGGAGTTCAGTCTTGAGGTACACTAGAATTAGTGG
CGCTTATTGT
Found at i:4118354 original size:189 final size:189
Alignment explanation
Indices: 4117993--4118366 Score: 486
Period size: 189 Copynumber: 2.0 Consensus size: 189
4117983 GTGTAGTGGG
* *
4117993 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTTAGTCTTGATGTATACTAGAATTAGTGG
1 AAGCACCGCAAAATACCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATACTAGAATTAGTGG
* * *
4118058 CGTCGACGACAAAACGCCACTAAAGTACAGTATTAGCGGCGTGCTTTGAAAAGCGCCGCAACATA
66 CGTCGAAGACAAAACGCCACTAAAGCACAGTATTAGCGGCAT-CTTTGAAAAGCGCCGCAACATA
* * *
4118123 TCTTAACCAATACGCGGAGTTCGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATTGTA
130 TCTTAACCAAAACACAGAGTTCGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATTGTA
* * * *
4118183 AAGCACCGCAAAGTATCTTAACCAAAACGCAGCGTGTTAGTCTTTATGTATACTAGCATTAGTGG
1 AAGCACCGCAAAATACCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATACTAGAATTAGTGG
* ** * * *
4118248 CG-CTTAAG-GGAAATGCCGCTAAAGCATAGTATTAGCGGCAT-TTGGTGAAAAGCGCCGCAA-A
66 CGTC-GAAGACAAAACGCCACTAAAGCACAGTATTAGCGGCATCTT--TGAAAAGCGCCGCAACA
* * *
4118309 GTATCTTAACCAAAACACAGAGTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTA
128 -TATCTTAACCAAAACACAGAGTTCGGTCTTGAGGTACACTAGAATTAGTGGCGCTTA
4118367 CGCGAAAATG
Statistics
Matches: 159, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
187 2 0.01
188 1 0.01
189 93 0.58
190 63 0.40
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (189 bp):
AAGCACCGCAAAATACCTTAACCAAAACGCAGCGTGTTAGTCTTGATGTATACTAGAATTAGTGG
CGTCGAAGACAAAACGCCACTAAAGCACAGTATTAGCGGCATCTTTGAAAAGCGCCGCAACATAT
CTTAACCAAAACACAGAGTTCGGTCTTGAGGTACACTAGAATTAGTGGCGCTTATTGTA
Found at i:4118844 original size:14 final size:14
Alignment explanation
Indices: 4118822--4118853 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4118812 TTATAAATGT
*
4118822 TTTATGATTTAGGG
1 TTTAAGATTTAGGG
4118836 TTTAAGATTTAGGG
1 TTTAAGATTTAGGG
4118850 TTTA
1 TTTA
4118854 TATATGTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAAGATTTAGGG
Found at i:4118853 original size:39 final size:39
Alignment explanation
Indices: 4118795--4118880 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
4118785 TAAGGGTTGA
* * * *
4118795 GGTTTAAGGTTTATAGTTTATAAATGTTTTATGATTTAG
1 GGTTTAAGATTTAGAGTTTATAAATGTTCTATGATTCAG
* *
4118834 GGTTTAAGATTTAGGGTTTATATATGTTCTATGATTCAG
1 GGTTTAAGATTTAGAGTTTATAAATGTTCTATGATTCAG
4118873 GGTTTAAG
1 GGTTTAAG
4118881 GAATATGGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.02, G:0.23, T:0.48
Consensus pattern (39 bp):
GGTTTAAGATTTAGAGTTTATAAATGTTCTATGATTCAG
Found at i:4119160 original size:7 final size:7
Alignment explanation
Indices: 4119148--4119209 Score: 79
Period size: 7 Copynumber: 8.7 Consensus size: 7
4119138 ATATCAATTT
4119148 AGGGTTA
1 AGGGTTA
*
4119155 AGGGTTT
1 AGGGTTA
*
4119162 AGGATTA
1 AGGGTTA
4119169 AGGGTTA
1 AGGGTTA
4119176 AGGGTTA
1 AGGGTTA
*
4119183 AGGGTTT
1 AGGGTTA
4119190 AGGGTTTA
1 AGGG-TTA
*
4119198 AGGGTTT
1 AGGGTTA
4119205 AGGGT
1 AGGGT
4119210 AAAAAGTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
7 41 0.87
8 6 0.13
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (7 bp):
AGGGTTA
Found at i:4119164 original size:14 final size:14
Alignment explanation
Indices: 4119145--4119209 Score: 103
Period size: 14 Copynumber: 4.6 Consensus size: 14
4119135 TCTATATCAA
4119145 TTTAGGGTTAAGGG
1 TTTAGGGTTAAGGG
*
4119159 TTTAGGATTAAGGG
1 TTTAGGGTTAAGGG
*
4119173 TTAAGGGTTAAGGG
1 TTTAGGGTTAAGGG
4119187 TTTAGGGTTTAAGGG
1 TTTAGGG-TTAAGGG
4119202 TTTAGGGT
1 TTTAGGGT
4119210 AAAAAGTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
14 32 0.70
15 14 0.30
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:4119218 original size:29 final size:28
Alignment explanation
Indices: 4119158--4119224 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
4119148 AGGGTTAAGG
* * **
4119158 GTTTAGGATTAAGGGTTAAGGGTTAAGG
1 GTTTAGGTTTAAGGGTTAAGGGTAAAAA
*
4119186 GTTTAGGGTTTAAGGGTTTAGGGTAAAAA
1 GTTTA-GGTTTAAGGGTTAAGGGTAAAAA
4119215 GTTTACGGTT
1 GTTTA-GGTT
4119225 GATGGTTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.27, C:0.01, G:0.36, T:0.36
Consensus pattern (28 bp):
GTTTAGGTTTAAGGGTTAAGGGTAAAAA
Found at i:4122252 original size:25 final size:25
Alignment explanation
Indices: 4122224--4122318 Score: 156
Period size: 25 Copynumber: 3.8 Consensus size: 25
4122214 ACTTTAGCGC
4122224 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
4122249 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
4122274 GCTCTCTGACTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
4122299 GCTCTCTGA-TATTTAGCACG
1 GCTCTCTGATTA-TTAGCACG
4122319 GTTTAGCACA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
24 2 0.03
25 65 0.97
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:4123846 original size:9 final size:9
Alignment explanation
Indices: 4123832--4123965 Score: 80
Period size: 9 Copynumber: 14.4 Consensus size: 9
4123822 TTCAAATTAA
4123832 ATAACTTAC
1 ATAACTTAC
*
4123841 ATAACTTAA
1 ATAACTTAC
4123850 ATAACTTAC
1 ATAACTTAC
4123859 ATAA--TAC
1 ATAACTTAC
4123866 ATAACCTT-C
1 ATAA-CTTAC
*
4123875 CTAACTTAC
1 ATAACTTAC
* *
4123884 ATTATTTAC
1 ATAACTTAC
4123893 ATAA--TAC
1 ATAACTTAC
4123900 ATAACTTAGTAC
1 ATAAC-T--TAC
4123912 ATAACTTAC
1 ATAACTTAC
* *
4123921 ATAATTTTTTCTAA
1 ATAA----CT-TAC
4123935 ATAACTTAC
1 ATAACTTAC
* *
4123944 ATAAATTAA
1 ATAACTTAC
4123953 ATAACTTAC
1 ATAACTTAC
4123962 ATAA
1 ATAA
4123966 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
7 14 0.15
8 3 0.03
9 61 0.64
10 2 0.02
11 1 0.01
12 8 0.08
13 1 0.01
14 6 0.06
ACGTcount: A:0.46, C:0.17, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:4124480 original size:2 final size:2
Alignment explanation
Indices: 4124473--4124518 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
4124463 NNNCACACGC
4124473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4124515 AT AT
1 AT AT
4124519 GCATTTGGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4125654 original size:19 final size:19
Alignment explanation
Indices: 4125610--4125656 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
4125600 TTTTATAGTT
*
4125610 TAAAAAATTAATTATAAAA
1 TAAATAATTAATTATAAAA
*
4125629 AAGAATAATTATATTA-AAAA
1 TA-AATAATTA-ATTATAAAA
4125649 TAAATAAT
1 TAAATAAT
4125657 ATAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAATAATTAATTATAAAA
Found at i:4126097 original size:251 final size:251
Alignment explanation
Indices: 4125654--4126155 Score: 986
Period size: 251 Copynumber: 2.0 Consensus size: 251
4125644 AAAAATAAAT
*
4125654 AATATAAAATATTAATTATGAATATCATTGTATTTTTAGAAAAAAAACTATTAATGGTTTTAATA
1 AATATAAAATATTAATTATGAATATAATTGTATTTTTAGAAAAAAAACTATTAATGGTTTTAATA
4125719 AAATAAATTTTAAAATACATATTAGAATTAAATAAATTTTTTTTTGAAGTTTAGGTTTCTTATCT
66 AAATAAATTTTAAAATACATATTAGAATTAAATAAATTTTTTTTTGAAGTTTAGGTTTCTTATCT
4125784 TATAGTGAGAGAGACCATGTGTTCTAAATGAAATAAAAGTGGAGAAATTTTGAAAATTTTCGTAT
131 TATAGTGAGAGAGACCATGTGTTCTAAATGAAATAAAAGTGGAGAAATTTTGAAAATTTTCGTAT
4125849 TTCCTACCATGAAAATTTTAGGTAAACTATATCATTAGTCACTAAATTATGGGTAA
196 TTCCTACCATGAAAATTTTAGGTAAACTATATCATTAGTCACTAAATTATGGGTAA
*
4125905 AATATAAAATATTAATTATGAATATAATTGTATTTTTAGAAAAAAAACTATTAATGTTTTTAATA
1 AATATAAAATATTAATTATGAATATAATTGTATTTTTAGAAAAAAAACTATTAATGGTTTTAATA
4125970 AAATAAATTTTAAAATACATATTAGAATTAAATAAATTTTTTTTTGAAGTTTAGGTTTCTTATCT
66 AAATAAATTTTAAAATACATATTAGAATTAAATAAATTTTTTTTTGAAGTTTAGGTTTCTTATCT
4126035 TATAGTGAGAGAGACCATGTGTTCTAAATGAAATAAAAGTGGAGAAATTTTGAAAATTTTCGTAT
131 TATAGTGAGAGAGACCATGTGTTCTAAATGAAATAAAAGTGGAGAAATTTTGAAAATTTTCGTAT
4126100 TTCCTACCATGAAAATTTTAGGTAAACTATATCATTAGTCACTAAATTATGGGTAA
196 TTCCTACCATGAAAATTTTAGGTAAACTATATCATTAGTCACTAAATTATGGGTAA
4126156 GTTTTCTTTT
Statistics
Matches: 249, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
251 249 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (251 bp):
AATATAAAATATTAATTATGAATATAATTGTATTTTTAGAAAAAAAACTATTAATGGTTTTAATA
AAATAAATTTTAAAATACATATTAGAATTAAATAAATTTTTTTTTGAAGTTTAGGTTTCTTATCT
TATAGTGAGAGAGACCATGTGTTCTAAATGAAATAAAAGTGGAGAAATTTTGAAAATTTTCGTAT
TTCCTACCATGAAAATTTTAGGTAAACTATATCATTAGTCACTAAATTATGGGTAA
Found at i:4127406 original size:84 final size:85
Alignment explanation
Indices: 4127302--4127463 Score: 256
Period size: 85 Copynumber: 1.9 Consensus size: 85
4127292 AATGGACGAC
*
4127302 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTAT-GGG-AAAGCGCCGCTAAAAGTCCTAATCT
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTT-TCGGGAAAAGCGCCGCTAAAAGTCATAATCT
4127365 ATAGCGGCGTTTATTGGAAAG
65 ATAGCGGCGTTTATTGGAAAG
* * * *
4127386 CGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAGGTCATGATCTA
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAAGTCATAATCTA
4127451 TAGCGGCGTTTAT
66 TAGCGGCGTTTAT
4127464 ACAAACGCCG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 1 0.01
84 34 0.48
85 36 0.51
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (85 bp):
CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAAAAGTCATAATCTA
TAGCGGCGTTTATTGGAAAG
Found at i:4127448 original size:43 final size:42
Alignment explanation
Indices: 4127302--4127463 Score: 245
Period size: 42 Copynumber: 3.8 Consensus size: 42
4127292 AATGGACGAC
4127302 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
* *
4127344 CGCCGCTAAAAGTCCTAATCTATAGCGGCGTTTATTGGAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
* *
4127386 CGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT-TCGGGAAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTAT-GGG-AAAG
* *
4127429 CGCCGCTAAAGGTCATGATCTATAGCGGCGTTTAT
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTAT
4127464 ACAAACGCCG
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 72 0.65
43 36 0.33
44 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (42 bp):
CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
Found at i:4128353 original size:43 final size:42
Alignment explanation
Indices: 4128207--4128365 Score: 239
Period size: 42 Copynumber: 3.8 Consensus size: 42
4128197 AATGGACGAC
4128207 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
* *
4128249 CGCCGCTAAAAGTCCTAATCTATAGCGGCGTTTATTGGAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
* *
4128291 CGCCGCTAAAGGTCTTGATCTATAGCGGCGTTT-TCGGGAAAAG
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTAT-GGG-AAAG
* *
4128334 CGCCGCTAAAGGTCATGATCTATAGCGGCGTT
1 CGCCGCTAAAAGTCCTGATCTATAGCGGCGTT
4128366 GACAACAGCG
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
41 1 0.01
42 72 0.67
43 35 0.32
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (42 bp):
CGCCGCTAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAG
Found at i:4128890 original size:875 final size:883
Alignment explanation
Indices: 4126658--4129083 Score: 4456
Period size: 905 Copynumber: 2.7 Consensus size: 883
4126648 TGCAGGGTGG
4126658 AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
1 AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
4126723 AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
66 AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
*
4126788 CATTTCAGTTTAAAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
131 CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
* *
4126853 TGTAGTTGTAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAGAAACCCATAAAAAT
196 TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
4126918 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
261 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
4126983 ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
326 ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
4127048 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
391 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
*
4127113 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAAAATTTA
456 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
* *
4127178 CACCTATTAAAATTAATCAATTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTAAGCA
521 CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
4127243 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCGCCGC
586 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCGCCGC
4127308 TAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAGCGCCGCTAAAAGTCCTAATCTATAGCGGC
651 TAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAGCGCCGCTAAAAGTCCTAATCTATAGCGGC
4127373 GTTTATTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAA
716 GTTTATTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAA
4127438 AGGTCATGATCTATAGCGGCGTTTATACAAACGCCGCAAACGTTTGCAGCGTTGACAACAGCGGT
781 AGGTCATG---TAT----GC--TTAT---AA---CG---AC---TG-AGCGTTGACAACAGCGGT
*
4127503 GTTTTTTGCGGCGCTTTCAAAAATGCCTCAAATACTTTTAGCATAAAAAAACGCCGCTAA
824 GTTTTTTGCGGCGCTTTCAAAAATGCCGCAAATACTTTTAGCATAAAAAAACGCCGCTAA
4127563 AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
1 AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
4127628 AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
66 AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
4127693 CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
131 CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
4127758 TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
196 TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
4127823 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
261 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
4127888 ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
326 ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
4127953 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
391 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
4128018 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
456 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
4128083 CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
521 CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
4128148 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCGCCGC
586 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCGCCGC
4128213 TAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAGCGCCGCTAAAAGTCCTAATCTATAGCGGC
651 TAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAGCGCCGCTAAAAGTCCTAATCTATAGCGGC
4128278 GTTTATTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAA
716 GTTTATTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAA
4128343 AGGTCATG-AT-C-TAT-A-G-C-G-GCGTTGACAACAGCGGTGTTTTTTGCGGCGCTTTCAAAA
781 AGGTCATGTATGCTTATAACGACTGAGCGTTGACAACAGCGGTGTTTTTTGCGGCGCTTTCAAAA
*
4128400 ACT-CCGCAAATACTTTTAGCATAAAAAAATGCCGCTAA
846 A-TGCCGCAAATACTTTTAGCATAAAAAAACGCCGCTAA
*
4128438 AAACCTGTTACAGTTCAAATTCCTATATTTCCTGCTGAACCTAGTAATAATTCTAGAAAAACTAG
1 AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
*
4128503 AACGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
66 AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
4128568 CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
131 CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
4128633 TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
196 TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
4128698 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
261 AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
*
4128763 ACAATGTTAGATTTGTGACTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
326 ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
*
4128828 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTTGGCTATCAGT
391 GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
4128893 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
456 AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
4128958 CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
521 CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
* *
4129023 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATCGACTACCG
586 GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCG
4129084 TTCGCAAAAA
Statistics
Matches: 1506, Mismatches: 14, Indels: 32
0.97 0.01 0.02
Matches are distributed among these distances:
875 713 0.47
876 1 0.00
877 1 0.00
881 1 0.00
885 1 0.00
889 1 0.00
893 3 0.00
896 1 0.00
901 2 0.00
905 782 0.52
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (883 bp):
AAACCTGTTACAGTTCAAATTCCTATATTTCCTACTGAACCTAGTAATAATTCTAGAAAAACTAG
AATGGAAGAAATTCAAACTTCAACAATTGATAAAAAGTCAAAACTTGGAATAATTATAAAAGTTA
CATTTCAGTTTAGAAAATATAAAAAATATTCTCTAAATGCCTTGATAGATACTGGAGCTACAATA
TGTAGTTGCAGAGAAAATGCGATTCCTGTAGAAAAATGCGAATTAATGAAAAAACCCATAAAAAT
AATGGGAATAGAAGGTAGTAAAACTATTATAAAATATAAAGCTAAAAATATATCAATCTATATAA
ACAATGTTAGATTTGTGATTCCTAAAATAGTATGTTTTCCTAACATGAAAGGAGATATATTATTA
GGTAATAATTTTATTTGTAAGTACTTACCTTTTACTATTGATAAACATTCTATTGGGCTATCAGT
AAAAGAAGATTTTGTGGAAATTCCACTTGAAGAAAATAATAAAATTGTGTGTAATAAAATATTTA
CACCTATTAAAATTAATCAGTTAATATTTGTAATTTATTACTAATATTTGCTGATTTTTTGAGCA
GGCCTTTTAATGGATAGAGGTAAAAAGCCTCTACAAGAAACTGTAGGTGAATGGACGACCGCCGC
TAAAAGTCCTGATCTATAGCGGCGTTTATGGGAAAGCGCCGCTAAAAGTCCTAATCTATAGCGGC
GTTTATTGGAAAGCGCCGCTAAAGGTCTTGATCTATAGCGGCGTTTTCGGGAAAAGCGCCGCTAA
AGGTCATGTATGCTTATAACGACTGAGCGTTGACAACAGCGGTGTTTTTTGCGGCGCTTTCAAAA
ATGCCGCAAATACTTTTAGCATAAAAAAACGCCGCTAA
Found at i:4132715 original size:15 final size:15
Alignment explanation
Indices: 4132695--4132725 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4132685 TGAATGTTGG
4132695 TTATATCATAGCCTA
1 TTATATCATAGCCTA
4132710 TTATATCATAGCCTA
1 TTATATCATAGCCTA
4132725 T
1 T
4132726 ATTACACCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TTATATCATAGCCTA
Found at i:4134933 original size:62 final size:63
Alignment explanation
Indices: 4134835--4134961 Score: 247
Period size: 62 Copynumber: 2.0 Consensus size: 63
4134825 TTATTTATAT
4134835 TTGTAACTAATTAATTTAAATTCGTTTAGATTAGTGTGTATATATATATTAAAATGTTTTAAA
1 TTGTAACTAATTAATTTAAATTCGTTTAGATTAGTGTGTATATATATATTAAAATGTTTTAAA
4134898 TTGTAACTAA-TAATTTAAATTCGTTTAGATTAGTGTGTATATATATATTAAAATGTTTTAAA
1 TTGTAACTAATTAATTTAAATTCGTTTAGATTAGTGTGTATATATATATTAAAATGTTTTAAA
4134960 TT
1 TT
4134962 AAATTAATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
62 54 0.84
63 10 0.16
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.48
Consensus pattern (63 bp):
TTGTAACTAATTAATTTAAATTCGTTTAGATTAGTGTGTATATATATATTAAAATGTTTTAAA
Found at i:4140429 original size:15 final size:15
Alignment explanation
Indices: 4140383--4140426 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 15
4140373 TTAGGATCTA
4140383 AAAAACAATTTAATTTTT
1 AAAAACAATTTAA---TT
4140401 AAAAACAATTTAATT
1 AAAAACAATTTAATT
4140416 AAAATACAATT
1 AAAA-ACAATT
4140427 AATCCATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.24
16 6 0.24
18 13 0.52
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAACAATTTAATT
Found at i:4144506 original size:30 final size:30
Alignment explanation
Indices: 4144461--4144558 Score: 112
Period size: 30 Copynumber: 3.3 Consensus size: 30
4144451 AAAAGTTTTT
* **
4144461 TTTATATTTTAACCCCTGTACTTTT-CAAAA
1 TTTACATTTTAACCCC-AAACTTTTCCAAAA
*
4144491 TTTACATTTTGACCCCAAACTTTTCCAAAA
1 TTTACATTTTAACCCCAAACTTTTCCAAAA
*
4144521 TTTACATTTTAACCCCAAAAC-TTTCTAAAA
1 TTTACATTTTAACCCC-AAACTTTTCCAAAA
4144551 -TTACATTT
1 TTTACATTT
4144559 CGACCTTTAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
29 14 0.23
30 42 0.70
31 4 0.07
ACGTcount: A:0.34, C:0.22, G:0.02, T:0.42
Consensus pattern (30 bp):
TTTACATTTTAACCCCAAACTTTTCCAAAA
Found at i:4145215 original size:24 final size:24
Alignment explanation
Indices: 4145183--4145232 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
4145173 CCGAAGAAGA
4145183 AAGAAAAAAGAAAGAAAAAAAAGG
1 AAGAAAAAAGAAAGAAAAAAAAGG
*
4145207 AAGAAAAAAGAAAGAAAAAGAAGG
1 AAGAAAAAAGAAAGAAAAAAAAGG
4145231 AA
1 AA
4145233 AAAGGGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (24 bp):
AAGAAAAAAGAAAGAAAAAAAAGG
Found at i:4145216 original size:20 final size:20
Alignment explanation
Indices: 4145176--4145262 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 20
4145166 GGGTGACCCG
*
4145176 AAGAAGAAAGAAAAAAGAAAGA
1 AAGAA-AAAGAAGAAA-AAAGA
4145198 AA-AAAAAGGAAGAAAAAAGA
1 AAGAAAAA-GAAGAAAAAAGA
*
4145218 AAGAAAAAGAAGGAAAAAGGGA
1 AAGAAAAAGAA-GAAAAA-AGA
* *
4145240 AATAAAATAGAAAAAAAAAGA
1 AAGAAAA-AGAAGAAAAAAGA
4145261 AA
1 AA
4145263 AATATACCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
20 13 0.24
21 23 0.42
22 15 0.27
23 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAAAGA
Found at i:4145261 original size:10 final size:10
Alignment explanation
Indices: 4145182--4145264 Score: 76
Period size: 10 Copynumber: 7.9 Consensus size: 10
4145172 CCCGAAGAAG
4145182 AAAGAAAAAA
1 AAAGAAAAAA
4145192 GAAAGAAAAAA
1 -AAAGAAAAAA
* *
4145203 AAGGAAGAAA
1 AAAGAAAAAA
*
4145213 AAAGAAAGAA
1 AAAGAAAAAA
4145223 AAAGAAGGAAAA
1 AAAGAA--AAAA
**
4145235 AGGGAAATAAA
1 AAAGAAA-AAA
*
4145246 ATAGAAAAAA
1 AAAGAAAAAA
4145256 AAAGAAAAA
1 AAAGAAAAA
4145265 TATACCATCA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
10 33 0.57
11 18 0.31
12 7 0.12
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:4145264 original size:11 final size:11
Alignment explanation
Indices: 4145179--4145262 Score: 82
Period size: 11 Copynumber: 7.5 Consensus size: 11
4145169 TGACCCGAAG
4145179 AAGAAAGAAAA
1 AAGAAAGAAAA
4145190 AAGAAAGAAAAAA
1 AAGAAAG--AAAA
*
4145203 AAGGAAGAAAA
1 AAGAAAGAAAA
4145214 AAGAAAG-AAA
1 AAGAAAGAAAA
*
4145224 AAGAAGGAAAA
1 AAGAAAGAAAA
* *
4145235 AGGGAAATAAAA
1 A-AGAAAGAAAA
*
4145247 TAGAAA-AAAA
1 AAGAAAGAAAA
4145257 AAGAAA
1 AAGAAA
4145263 AATATACCAT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
10 18 0.30
11 25 0.42
12 7 0.12
13 10 0.17
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:4145372 original size:16 final size:18
Alignment explanation
Indices: 4145350--4145388 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4145340 AACAGCAGCC
4145350 CAGCAG-CCC-AAAAAAA
1 CAGCAGCCCCTAAAAAAA
*
4145366 GAGCAGCCCCTAAAAAAA
1 CAGCAGCCCCTAAAAAAA
4145384 CAGCA
1 CAGCA
4145389 AACAGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 5 0.26
17 3 0.16
18 11 0.58
ACGTcount: A:0.51, C:0.31, G:0.15, T:0.03
Consensus pattern (18 bp):
CAGCAGCCCCTAAAAAAA
Found at i:4145523 original size:32 final size:30
Alignment explanation
Indices: 4145487--4145545 Score: 73
Period size: 32 Copynumber: 1.9 Consensus size: 30
4145477 CAGCAGACCA
*
4145487 GCCCAGAAGGCCCACAGCGCCAGGCCCAGTTT
1 GCCCAGAAGGCCAACAG-GCC-GGCCCAGTTT
* *
4145519 GCCCAGCAGTCCAACAGGCCGGCCCAG
1 GCCCAGAAGGCCAACAGGCCGGCCCAG
4145546 CAGCAGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.29
31 3 0.12
32 14 0.58
ACGTcount: A:0.22, C:0.42, G:0.29, T:0.07
Consensus pattern (30 bp):
GCCCAGAAGGCCAACAGGCCGGCCCAGTTT
Found at i:4145571 original size:14 final size:14
Alignment explanation
Indices: 4145562--4145597 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4145552 AAAAAAAAGG
4145562 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
4145576 AAGAAAAAAGAAAAA
1 AAGAAAAAA-AGAAA
4145591 AAGAAAA
1 AAGAAAA
4145598 GGGTTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:4145575 original size:8 final size:8
Alignment explanation
Indices: 4145562--4145597 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
4145552 AAAAAAAAGG
4145562 AAGAAAAA
1 AAGAAAAA
4145570 AAG--AAA
1 AAGAAAAA
4145576 AAG-AAAA
1 AAGAAAAA
4145583 AAGAAAAA
1 AAGAAAAA
4145591 AAGAAAA
1 AAGAAAA
4145598 GGGTTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.23
7 6 0.23
8 14 0.54
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:4145598 original size:13 final size:13
Alignment explanation
Indices: 4145566--4145590 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4145556 AAAAGGAAGA
4145566 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
4145579 AAAAAAGAAAAA
1 AAAAAAGAAAAA
4145591 AAGAAAAGGG
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:4145950 original size:19 final size:19
Alignment explanation
Indices: 4145909--4145952 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
4145899 GAAAATATTC
**
4145909 TAAAATTCTCATGTTTTTT
1 TAAAATTCTCATGTTTTAA
*
4145928 TAAAATTCTCGTGTTTTAA
1 TAAAATTCTCATGTTTTAA
4145947 TAAAAT
1 TAAAAT
4145953 CACGATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (19 bp):
TAAAATTCTCATGTTTTAA
Found at i:4146086 original size:17 final size:17
Alignment explanation
Indices: 4146066--4146110 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4146056 AAAAAATTGT
*
4146066 GTTTCAAAAATTTTCAC
1 GTTTCAAAAATTTCCAC
* * *
4146083 GTTTAAAAAAATTCCAT
1 GTTTCAAAAATTTCCAC
4146100 GTTTCAAAAAT
1 GTTTCAAAAAT
4146111 CCCCGTGTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (17 bp):
GTTTCAAAAATTTCCAC
Found at i:4146205 original size:35 final size:34
Alignment explanation
Indices: 4146056--4146409 Score: 168
Period size: 35 Copynumber: 10.2 Consensus size: 34
4146046 CACTTCTTAA
* * ** **
4146056 AAAAAATT-GTGTTTCAAAAATTTTCACGTTTAA
1 AAAAATTTCGTGTTTCAAAAATCTTCGTGTTTTC
* * **
4146089 AAAAATTCCATGTTTCAAAAATCCCCGTG-TTT-
1 AAAAATTTCGTGTTTCAAAAATCTTCGTGTTTTC
* * ** *
4146121 AAAAATTTCTGTATTTAAAAAAAATTCGTATTTTC
1 AAAAATTTC-GTGTTTCAAAAATCTTCGTGTTTTC
4146156 AAAAATTTTCGTGTTTCAAAAATCTTCGTGTTTTC
1 AAAAA-TTTCGTGTTTCAAAAATCTTCGTGTTTTC
* *
4146191 AAAAATTTCGGTGTTTCAAAAATCTGT-GTTTTTTT
1 AAAAATTTC-GTGTTTCAAAAATCT-TCGTGTTTTC
** * * * *
4146226 TTAAATTTCTGTGTTTCATAAATTTTTGTTTTTTC
1 AAAAATTTC-GTGTTTCAAAAATCTTCGTGTTTTC
* ** *
4146261 ACAAATTTCCGTGTTTTCAATGA-CTCTAGTG-TTTC
1 AAAAATTT-CGTG-TTTCAAAAATCT-TCGTGTTTTC
* * * ** * *
4146296 ACAAATTGTCATGTTCTTTAAAAAAATTTGTGTTTTG
1 AAAAATT-TCGTG-T-TTCAAAAATCTTCGTGTTTTC
*
4146333 AAAAATTATCGTGTTTCAAAAAT-TGCTGTGTTTT-
1 AAAAATT-TCGTGTTTCAAAAATCTTC-GTGTTTTC
** *
4146367 AAAAATTTTCGTGTTTTTTAAAATTTTCGTG-TTTC
1 AAAAA-TTTCGTG-TTTCAAAAATCTTCGTGTTTTC
4146402 AAAAATTT
1 AAAAATTT
4146410 TTGTGTTTTT
Statistics
Matches: 245, Mismatches: 56, Indels: 39
0.72 0.16 0.11
Matches are distributed among these distances:
32 8 0.03
33 20 0.08
34 39 0.16
35 136 0.56
36 28 0.11
37 14 0.06
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (34 bp):
AAAAATTTCGTGTTTCAAAAATCTTCGTGTTTTC
Found at i:4146277 original size:18 final size:18
Alignment explanation
Indices: 4146088--4146447 Score: 117
Period size: 17 Copynumber: 20.4 Consensus size: 18
4146078 TTCACGTTTA
* *
4146088 AAAAAATTCCATG-TTTC
1 AAAAATTTCCGTGTTTTC
**
4146105 AAAAATCCCCGTG-TTT-
1 AAAAATTTCCGTGTTTTC
* * **
4146121 AAAAATTTCTGTATTTAA
1 AAAAATTTCCGTGTTTTC
* *
4146139 AAAAAATT-CGTATTTTC
1 AAAAATTTCCGTGTTTTC
*
4146156 AAAAATTTTCGTG-TTTC
1 AAAAATTTCCGTGTTTTC
4146173 AAAAATCTT-CGTGTTTTC
1 AAAAAT-TTCCGTGTTTTC
*
4146191 AAAAATTTCGGTG-TTTC
1 AAAAATTTCCGTGTTTTC
* ** * *
4146208 AAAAATCTGTGTTTTTTT
1 AAAAATTTCCGTGTTTTC
** *
4146226 TTAAATTTCTGTG-TTTC
1 AAAAATTTCCGTGTTTTC
* ** *
4146243 ATAAATTTTTGTTTTTTC
1 AAAAATTTCCGTGTTTTC
*
4146261 ACAAATTTCCGTGTTTTC
1 AAAAATTTCCGTGTTTTC
** * *
4146279 AATGA-CTCTAGTG-TTTC
1 AAAAATTTC-CGTGTTTTC
* * *
4146296 ACAAATTGT-CATGTTCTTTAA
1 AAAAATT-TCCGTG-T-TTT-C
*
4146317 AAAAATTT--GTGTTTTG
1 AAAAATTTCCGTGTTTTC
4146333 AAAAATTAT-CGTG-TTTC
1 AAAAATT-TCCGTGTTTTC
* *
4146350 AAAAATTGCTGTGTTTT-
1 AAAAATTTCCGTGTTTTC
* *
4146367 AAAAATTTTCGTGTTTTT
1 AAAAATTTCCGTGTTTTC
* *
4146385 TAAAATTTTCGTG-TTTC
1 AAAAATTTCCGTGTTTTC
** *
4146402 AAAAATTTTTGTGTTTTTAA
1 AAAAATTTCCGTG-TTTT-C
*
4146422 AAAAATTTCTCATG-TTTC
1 AAAAATTTC-CGTGTTTTC
4146440 AAAAATTT
1 AAAAATTT
4146448 TCGTTTTTTT
Statistics
Matches: 255, Mismatches: 64, Indels: 47
0.70 0.17 0.13
Matches are distributed among these distances:
16 16 0.06
17 124 0.49
18 86 0.34
19 9 0.04
20 12 0.05
21 8 0.03
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTTC
Found at i:4146387 original size:19 final size:19
Alignment explanation
Indices: 4146363--4146465 Score: 99
Period size: 18 Copynumber: 5.6 Consensus size: 19
4146353 AATTGCTGTG
4146363 TTTTAAAAATTTTCGTGTT
1 TTTTAAAAATTTTCGTGTT
4146382 TTTT-AAAATTTTCGTG--
1 TTTTAAAAATTTTCGTGTT
* *
4146398 TTTCAAAAATTTTTGTGTT
1 TTTTAAAAATTTTCGTGTT
* *
4146417 TTTAAAAAAATTTCTCATG--
1 TTT-TAAAAATTT-TCGTGTT
* *
4146436 TTTCAAAAATTTTCGTTTT
1 TTTTAAAAATTTTCGTGTT
4146455 TTTTAAAAATT
1 TTTTAAAAATT
4146466 GGTGCTGCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
16 3 0.04
17 14 0.21
18 20 0.29
19 20 0.29
20 8 0.12
21 3 0.04
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTAAAAATTTTCGTGTT
Found at i:4146462 original size:18 final size:18
Alignment explanation
Indices: 4146363--4146465 Score: 77
Period size: 19 Copynumber: 5.6 Consensus size: 18
4146353 AATTGCTGTG
4146363 TTTTAAAAATTTTCGTGTT
1 TTTTAAAAATTTTCGT-TT
*
4146382 TTTT-AAAATTTTCG-TG
1 TTTTAAAAATTTTCGTTT
* *
4146398 TTTCAAAAATTTTTGTGTT
1 TTTTAAAAATTTTCGT-TT
* * *
4146417 TTTAAAAAAATTTCTC-ATG
1 TTT-TAAAAATTT-TCGTTT
*
4146436 TTTCAAAAATTTTCGTTTT
1 TTTTAAAAATTTTCG-TTT
4146455 TTTTAAAAATT
1 TTTTAAAAATT
4146466 GGTGCTGCAA
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
16 4 0.06
17 11 0.17
18 18 0.28
19 23 0.35
20 8 0.12
21 1 0.02
ACGTcount: A:0.31, C:0.07, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTTAAAAATTTTCGTTT
Found at i:4159122 original size:15 final size:15
Alignment explanation
Indices: 4159093--4159130 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4159083 GGGTGATTTG
*
4159093 ATAAAAAATACAAAT
1 ATAAAAAATAAAAAT
4159108 -TAAAAAACTAAAAAT
1 ATAAAAAA-TAAAAAT
4159123 ATAAAAAA
1 ATAAAAAA
4159131 AATTAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 6 0.30
16 7 0.35
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (15 bp):
ATAAAAAATAAAAAT
Found at i:4161125 original size:39 final size:39
Alignment explanation
Indices: 4161065--4161147 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
4161055 TTTGTTGGCT
*
4161065 AAACCATTCTGAGATTCCACTTCCGGGCATAATAATATC
1 AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
* * *
4161104 AAACCATTCTGGGATTTCACTTCCAGGCATAGTAATATC
1 AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
4161143 AAACC
1 AAACC
4161148 TTTTCCTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (39 bp):
AAACCATTCTGAGATTCCACTTCCAGGCATAATAATATC
Found at i:4162716 original size:106 final size:109
Alignment explanation
Indices: 4162594--4162804 Score: 248
Period size: 110 Copynumber: 1.9 Consensus size: 109
4162584 AGCCATGAAC
* * * * *
4162594 AAAATAAAAACGAGCTTTAGA-ATATACA-AAAACATTCAATATCTAAAAGCTATGTGGCATTGA
1 AAAACAAAAACGAGCTTAAGAGATAGAAATAAAACATTCAATATCTAAAAGCTATGTGGCATCGA
*
4162657 TAT-TGTTTTTAAGTACCTGTATCCAATACTTTTATCCATGAGG
66 TATCTGTTTTTAAGTACCCGTATCCAATACTTTTATCCATGAGG
* * * *
4162700 AAAACAAAAATGAGCTTAAGAGTATAGAAATTAAAACATTCAATATCTAAGAGCTATGTTGTATC
1 AAAACAAAAACGAGCTTAAGAG-ATAGAAA-TAAAACATTCAATATCTAAAAGCTATGTGGCATC
* * * *
4162765 GATGTCGTTTTTTTATGTACCCGTATCCTATACTTTTATC
64 GATATC-TGTTTTTAAGTACCCGTATCCAATACTTTTATC
4162805 TAATGCATAT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
106 18 0.21
108 5 0.06
110 33 0.39
112 29 0.34
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (109 bp):
AAAACAAAAACGAGCTTAAGAGATAGAAATAAAACATTCAATATCTAAAAGCTATGTGGCATCGA
TATCTGTTTTTAAGTACCCGTATCCAATACTTTTATCCATGAGG
Found at i:4166123 original size:18 final size:18
Alignment explanation
Indices: 4166102--4166160 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
4166092 GTATTTAATT
4166102 AATATTTTAAATTTTAAA
1 AATATTTTAAATTTTAAA
*
4166120 AATATTTTTTAAATTTT--T
1 AATA--TTTTAAATTTTAAA
*
4166138 AATATTTTAATTTTTAAA
1 AATATTTTAAATTTTAAA
4166156 AATAT
1 AATAT
4166161 ATTTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
16 10 0.29
18 13 0.38
20 11 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATTTTAAATTTTAAA
Found at i:4166131 original size:20 final size:20
Alignment explanation
Indices: 4166106--4166166 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
4166096 TTAATTAATA
4166106 TTTTAAATTTTAAAAATATT
1 TTTTAAATTTTAAAAATATT
*
4166126 TTTTAAATTTT--TAATA--
1 TTTTAAATTTTAAAAATATT
*
4166142 TTTTAATTTTTAAAAATATAT
1 TTTTAAATTTTAAAAATAT-T
4166163 TTTT
1 TTTT
4166167 TATTTTTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
16 10 0.30
18 8 0.24
20 11 0.33
21 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTAAATTTTAAAAATATT
Found at i:4166140 original size:36 final size:37
Alignment explanation
Indices: 4166100--4166185 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 37
4166090 TAGTATTTAA
4166100 TTAATATTTTAAATTTTAAAAATAT-TTTTTAAATTT
1 TTAATATTTTAAATTTTAAAAATATATTTTTAAATTT
* * *
4166136 TTAATATTTTAATTTTTAAAAATATATTTTTTATTTT
1 TTAATATTTTAAATTTTAAAAATATATTTTTAAATTT
4166173 TTGAA-ATTTTAAA
1 TT-AATATTTTAAA
4166186 AAATAAATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 24 0.55
37 18 0.41
38 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (37 bp):
TTAATATTTTAAATTTTAAAAATATATTTTTAAATTT
Found at i:4172423 original size:16 final size:16
Alignment explanation
Indices: 4172404--4172442 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4172394 TTTTAATAAA
4172404 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
**
4172420 ATTAAATTTAATTGTT
1 ATTAAAACTAATTGTT
*
4172436 AGTAAAA
1 ATTAAAA
4172443 TTATCAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:4172425 original size:22 final size:22
Alignment explanation
Indices: 4172376--4172430 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
4172366 TTTAATTAAA
* * *
4172376 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGTT
*
4172398 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAACTAATTGTT
*
4172420 ATTAAATTTAA
1 ATTAAAATTAA
4172431 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGTT
Found at i:4183895 original size:25 final size:25
Alignment explanation
Indices: 4183861--4183908 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
4183851 TACATTAAAT
*
4183861 ATATAGCATTAAT-TTTCACAAAAAA
1 ATATACCATTAATATTTCA-AAAAAA
4183886 ATATACCATTAATATTTCAAAAA
1 ATATACCATTAATATTTCAAAAA
4183909 TACATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (25 bp):
ATATACCATTAATATTTCAAAAAAA
Found at i:4183918 original size:23 final size:24
Alignment explanation
Indices: 4183857--4183915 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
4183847 TTAGTACATT
*
4183857 AAATATATAGCATTAATTTTCACAA
1 AAATATATACCATTAATTTT-ACAA
*
4183882 AAAAATATACCATTAATATTT-CAA
1 AAATATATACCATTAAT-TTTACAA
*
4183906 AAATACATAC
1 AAATATATAC
4183916 ATTTCTCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 11 0.38
25 15 0.52
26 3 0.10
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.32
Consensus pattern (24 bp):
AAATATATACCATTAATTTTACAA
Found at i:4188873 original size:28 final size:28
Alignment explanation
Indices: 4188833--4188889 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4188823 TTTTTATGAA
4188833 AATAAGTTAAAATGATGAGTTAATTCTT
1 AATAAGTTAAAATGATGAGTTAATTCTT
4188861 AATAAGTTAAAATGATGAGTTAATTCTT
1 AATAAGTTAAAATGATGAGTTAATTCTT
4188889 A
1 A
4188890 CTTTATTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.39
Consensus pattern (28 bp):
AATAAGTTAAAATGATGAGTTAATTCTT
Found at i:4190292 original size:42 final size:42
Alignment explanation
Indices: 4190246--4190338 Score: 100
Period size: 42 Copynumber: 2.2 Consensus size: 42
4190236 GTTGCTCGAG
* **
4190246 CTCGAA-TTCAAATAAGCTTATTTATCAATTTTTGTACTCAAA
1 CTCGAACTT-AAATAAACTTATTTATCAATTTTCATACTCAAA
* * *
4190288 CTCGAACTTGATTAAACTTGTTTATCAATTTTCATACTCAAGA
1 CTCGAACTTAAATAAACTTATTTATCAATTTTCATACTCAA-A
4190331 -TCGAACTT
1 CTCGAACTT
4190339 GAGCTCGAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
42 40 0.93
43 3 0.07
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (42 bp):
CTCGAACTTAAATAAACTTATTTATCAATTTTCATACTCAAA
Found at i:4207819 original size:36 final size:37
Alignment explanation
Indices: 4207757--4207830 Score: 132
Period size: 36 Copynumber: 2.0 Consensus size: 37
4207747 ACCAAAGTGG
*
4207757 AATTATCTAGATTTCTCTTCATTTTTTCTGCATTCTC
1 AATTATCTAGATTTCTCTTCACTTTTTCTGCATTCTC
4207794 AATTATCTAGA-TTCTCTTCACTTTTTCTGCATTCTC
1 AATTATCTAGATTTCTCTTCACTTTTTCTGCATTCTC
4207830 A
1 A
4207831 TCAGCTAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 25 0.69
37 11 0.31
ACGTcount: A:0.20, C:0.23, G:0.05, T:0.51
Consensus pattern (37 bp):
AATTATCTAGATTTCTCTTCACTTTTTCTGCATTCTC
Found at i:4208086 original size:18 final size:18
Alignment explanation
Indices: 4208063--4208099 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
4208053 TAAATTGTTC
4208063 ATATGCTGATTTTATTGA
1 ATATGCTGATTTTATTGA
4208081 ATATGCTGATTTTATTGA
1 ATATGCTGATTTTATTGA
4208099 A
1 A
4208100 AGAATTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (18 bp):
ATATGCTGATTTTATTGA
Found at i:4213892 original size:25 final size:25
Alignment explanation
Indices: 4213835--4213893 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
4213825 TTAGTACATT
*
4213835 AAATATATACCATTAATCTTCACAA
1 AAATATACACCATTAATCTTCACAA
* *
4213860 AAAAATACACCATTAATATTTCA-AA
1 AAATATACACCATTAAT-CTTCACAA
*
4213885 ATATATACA
1 AAATATACA
4213894 TTTCTCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATATACACCATTAATCTTCACAA
Found at i:4217517 original size:9 final size:9
Alignment explanation
Indices: 4217499--4217627 Score: 116
Period size: 9 Copynumber: 15.3 Consensus size: 9
4217489 TCATAATGCT
4217499 TAACTTACA
1 TAACTTACA
*
4217508 TAATTTACA
1 TAACTTACA
*
4217517 TTA--TACA
1 TAACTTACA
*
4217524 CAACTTACA
1 TAACTTACA
4217533 TAACTTACA
1 TAACTTACA
*
4217542 TAAC--CCTA
1 TAACTTAC-A
4217550 TAA--TACA
1 TAACTTACA
*
4217557 CAACTTACA
1 TAACTTACA
4217566 TAACTTACA
1 TAACTTACA
4217575 TAA--TACA
1 TAACTTACA
*
4217582 CAACTTACA
1 TAACTTACA
*
4217591 TAACTTTCA
1 TAACTTACA
4217600 TAA--TACA
1 TAACTTACA
4217607 TAACTTACA
1 TAACTTACA
4217616 TAACTTACA
1 TAACTTACA
4217625 TAA
1 TAA
4217628 TACACAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
7 21 0.22
8 5 0.05
9 71 0.73
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (9 bp):
TAACTTACA
Found at i:4217528 original size:25 final size:25
Alignment explanation
Indices: 4217500--4217639 Score: 147
Period size: 25 Copynumber: 5.3 Consensus size: 25
4217490 CATAATGCTT
*
4217500 AACTTACATAATTTACATTATACAC
1 AACTTACATAATTTACATAATACAC
4217525 AACTTACATAACTTACATAACCCTATAATACAC
1 AACTTACATAA-TT---T-A--C-ATAATACAC
*
4217558 AACTTACATAACTTACATAATACAC
1 AACTTACATAATTTACATAATACAC
*
4217583 AACTTACATAACTTT-CATAATACAT
1 AACTTACATAA-TTTACATAATACAC
*
4217608 AACTTACATAACTTACATAATACAC
1 AACTTACATAATTTACATAATACAC
*
4217633 AATTTAC
1 AACTTAC
4217640 GTTGTAAGGA
Statistics
Matches: 98, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
24 2 0.02
25 66 0.67
26 5 0.05
28 1 0.01
29 2 0.02
30 1 0.01
32 2 0.02
33 19 0.19
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (25 bp):
AACTTACATAATTTACATAATACAC
Found at i:4217615 original size:50 final size:49
Alignment explanation
Indices: 4217529--4217639 Score: 168
Period size: 50 Copynumber: 2.2 Consensus size: 49
4217519 ATACACAACT
*
4217529 TACATAACTTACATAACCCTATAATACACAACTTACATAACTTACATAA
1 TACACAACTTACATAACCCTATAATACACAACTTACATAACTTACATAA
** *
4217578 TACACAACTTACATAACTTTCATAATACATAACTTACATAACTTACATAA
1 TACACAACTTACATAACCCT-ATAATACACAACTTACATAACTTACATAA
*
4217628 TACACAATTTAC
1 TACACAACTTAC
4217640 GTTGTAAGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 17 0.30
50 39 0.70
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (49 bp):
TACACAACTTACATAACCCTATAATACACAACTTACATAACTTACATAA
Found at i:4217631 original size:16 final size:17
Alignment explanation
Indices: 4217499--4217627 Score: 92
Period size: 16 Copynumber: 7.6 Consensus size: 17
4217489 TCATAATGCT
*
4217499 TAACTTACATAATTTACA
1 TAAC-TACATAACTTACA
* *
4217517 TTA-TACACAACTTACA
1 TAACTACATAACTTACA
*
4217533 TAACTTACATAAC--CCTA
1 TAAC-TACATAACTTAC-A
*
4217550 TAA-TACACAACTTACA
1 TAACTACATAACTTACA
4217566 TAACTTACATAA--TACA
1 TAAC-TACATAACTTACA
* *
4217582 CAACTTACATAACTTTCA
1 TAAC-TACATAACTTACA
4217600 TAA-TACATAACTTACA
1 TAACTACATAACTTACA
4217616 TAACTTACATAA
1 TAAC-TACATAA
4217628 TACACAATTT
Statistics
Matches: 87, Mismatches: 13, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
15 7 0.08
16 48 0.55
17 5 0.06
18 27 0.31
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
TAACTACATAACTTACA
Found at i:4217639 original size:16 final size:17
Alignment explanation
Indices: 4217562--4217639 Score: 65
Period size: 16 Copynumber: 4.7 Consensus size: 17
4217552 ATACACAACT
*
4217562 TACATAACTTACATAA-
1 TACACAACTTACATAAC
4217578 TACACAACTTACATAAC
1 TACACAACTTACATAAC
* *
4217595 TTTCATAA--TACATAAC
1 -TACACAACTTACATAAC
*
4217611 TTACATAACTTACATAA-
1 -TACACAACTTACATAAC
*
4217628 TACACAATTTAC
1 TACACAACTTAC
4217640 GTTGTAAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
16 40 0.77
18 12 0.23
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (17 bp):
TACACAACTTACATAAC
Found at i:4219479 original size:40 final size:40
Alignment explanation
Indices: 4219435--4219787 Score: 491
Period size: 40 Copynumber: 8.7 Consensus size: 40
4219425 CCAGTAGTTC
4219435 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
4219475 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
* *
4219515 TATCTTCCTAAGCAGTAGTGGAGCAGA-CAG-AACTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATC-A-AG-TCT
*
4219557 TATCTCCTTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
** *
4219597 TATCTCCCTAAGCAGTAGTGGAGCAGA-CATAACCACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG-TCT
*
4219639 TATCTTCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
*
4219679 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAG-AACTACAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATC-A-AG-TCT
4219721 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
*
4219761 TATCTCCCTAAGCAGTAATGGAGCAGA
1 TATCTCCCTAAGCAGTAGTGGAGCAGA
4219788 CAGAAAAAAA
Statistics
Matches: 280, Mismatches: 17, Indels: 32
0.85 0.05 0.10
Matches are distributed among these distances:
39 7 0.03
40 160 0.57
41 12 0.04
42 94 0.34
43 7 0.03
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (40 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCT
Found at i:4219580 original size:82 final size:82
Alignment explanation
Indices: 4219435--4219792 Score: 607
Period size: 82 Copynumber: 4.4 Consensus size: 82
4219425 CCAGTAGTTC
*
4219435 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GCA-T-CA-AGTCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAACTACAGA-TCTTATCTCCCTAAGCAGTAGTGG
4219496 AGCAGATCGCATCAAGTCT
64 AGCAGATCGCATCAAGTCT
* *
4219515 TATCTTCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCTTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
4219580 CAGATCGCATCAAGTCT
66 CAGATCGCATCAAGTCT
* * *
4219597 TATCTCCCTAAGCAGTAGTGGAGCAGACATAACCACAGATCTTATCTTCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
4219662 CAGATCGCATCAAGTCT
66 CAGATCGCATCAAGTCT
4219679 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
4219744 CAGATCGCATCAAGTCT
66 CAGATCGCATCAAGTCT
*
4219761 TATCTCCCTAAGCAGTAATGGAGCAGACAGAA
1 TATCTCCCTAAGCAGTAGTGGAGCAGACAGAA
4219793 AAAAATCAAT
Statistics
Matches: 262, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
79 1 0.00
80 28 0.11
81 1 0.00
82 231 0.88
83 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (82 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGACAGAACTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGCATCAAGTCT
Found at i:4221745 original size:26 final size:26
Alignment explanation
Indices: 4221698--4221747 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
4221688 TTGCTTTATC
* **
4221698 TTTTATATATATATCTTTTTTTTTTT
1 TTTTATATATATATATCATTTTTTTT
4221724 TTTTATATATATATATCATTTTTT
1 TTTTATATATATATATCATTTTTT
4221748 GTATATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (26 bp):
TTTTATATATATATATCATTTTTTTT
Found at i:4222878 original size:25 final size:25
Alignment explanation
Indices: 4222842--4223112 Score: 271
Period size: 25 Copynumber: 10.4 Consensus size: 25
4222832 TCAACATACG
*
4222842 TAATACACAACTTACATAACTTACA
1 TAATACATAACTTACATAACTTACA
*
4222867 TAATACATAACTTATATAACTTACA
1 TAATACATAACTTACATAACTTACA
*
4222892 TAATACACAACTTACATAACTTACA
1 TAATACATAACTTACATAACTTACA
*
4222917 TAATACATAACTTATATAACTTACA
1 TAATACATAACTTACATAACTTACA
*
4222942 TAATACACAACTTACATAACTTACA
1 TAATACATAACTTACATAACTTACA
* *
4222967 TAATACATACATAGCCTACATAACTTACT
1 TAATACAT--A-A-CTTACATAACTTACA
**
4222996 TAACTTACATAA--TACACCACTTACA
1 TAA--TACATAACTTACATAACTTACA
*
4223021 TAACTTAAATAACTTACATAATACTTAACTTTAA
1 TAA--TACATAACTTACAT-A-ACTT-AC----A
*
4223055 TAATACACAACTTACATAAC--ACA
1 TAATACATAACTTACATAACTTACA
*
4223078 TAATACATAACTTACATAATTTACA
1 TAATACATAACTTACATAACTTACA
4223103 TAATACATAA
1 TAATACATAA
4223113 ATTTATATCA
Statistics
Matches: 208, Mismatches: 21, Indels: 34
0.79 0.08 0.13
Matches are distributed among these distances:
23 19 0.09
25 133 0.64
27 7 0.03
28 2 0.01
29 21 0.10
30 4 0.02
31 6 0.03
32 12 0.06
34 4 0.02
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (25 bp):
TAATACATAACTTACATAACTTACA
Found at i:4222914 original size:50 final size:50
Alignment explanation
Indices: 4222842--4223109 Score: 305
Period size: 50 Copynumber: 5.1 Consensus size: 50
4222832 TCAACATACG
4222842 TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
1 TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
4222892 TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
1 TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
4222942 TAATACACAACTTACATAACTTACATAATACATACATAGCCTACATAACTTACTTAACTTACA
1 TAATACACAACTTACATAACTTACATAATACAT--A-A--CT---T-A--TA--TAACTTACA
* *
4223005 TAATACACCACTTACATAACTTAAATAACTTACATAA--TACT-TAACTTTA-A
1 TAATACACAACTTACATAACTTACATAA--TACATAACTTA-TATAAC-TTACA
* *
4223055 TAATACACAACTTACATAAC--ACATAATACATAACTTACATAATTTACA
1 TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
4223103 TAATACA
1 TAATACA
4223110 TAAATTTATA
Statistics
Matches: 191, Mismatches: 7, Indels: 42
0.80 0.03 0.17
Matches are distributed among these distances:
46 7 0.04
47 3 0.02
48 18 0.09
50 107 0.56
51 3 0.02
52 1 0.01
53 2 0.01
54 1 0.01
55 3 0.02
58 1 0.01
59 1 0.01
61 2 0.01
62 1 0.01
63 36 0.19
65 5 0.03
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (50 bp):
TAATACACAACTTACATAACTTACATAATACATAACTTATATAACTTACA
Found at i:4223000 original size:38 final size:34
Alignment explanation
Indices: 4222845--4223109 Score: 138
Period size: 34 Copynumber: 7.9 Consensus size: 34
4222835 ACATACGTAA
* ** *
4222845 TACACAACTTACATAACTTACATAATACATAACT
1 TACATAACTTACATAACTTACATAATACACCACC
* * ** *
4222879 TATATAACTTACATAA--TACACAACTTACATAACT
1 TACATAACTTACATAACTTACATAA--TACACCACC
* * *
4222913 TACATAA--TACATAACTTATATAACTTACA-TA-A
1 TACATAACTTACATAACTTACATAA--TACACCACC
* *
4222945 TACACAACTTACATAACTTACATAATACATACATAGCC
1 TACATAACTTACATAACTTACATAATAC--AC-CA-CC
* *
4222983 TACATAACTTACTTAACTTACATAATACACCACT
1 TACATAACTTACATAACTTACATAATACACCACC
* *** *
4223017 TACATAACTTAAATAACTTACATAATACTTAACTT
1 TACATAACTTACATAACTTACATAATACACCAC-C
* * * *
4223052 TA-ATAA--TACACAACTTACATAACACA-TA-A
1 TACATAACTTACATAACTTACATAATACACCACC
*
4223081 TACATAACTTACATAATTTACATAATACA
1 TACATAACTTACATAACTTACATAATACA
4223110 TAAATTTATA
Statistics
Matches: 186, Mismatches: 29, Indels: 34
0.75 0.12 0.14
Matches are distributed among these distances:
29 2 0.01
30 4 0.02
31 1 0.01
32 55 0.30
33 1 0.01
34 89 0.48
35 4 0.02
36 4 0.02
38 26 0.14
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (34 bp):
TACATAACTTACATAACTTACATAATACACCACC
Found at i:4223106 original size:9 final size:9
Alignment explanation
Indices: 4222845--4223105 Score: 227
Period size: 9 Copynumber: 30.8 Consensus size: 9
4222835 ACATACGTAA
*
4222845 TACACAACT
1 TACATAACT
4222854 TACATAACT
1 TACATAACT
4222863 TACATAA--
1 TACATAACT
4222870 TACATAACT
1 TACATAACT
*
4222879 TATATAACT
1 TACATAACT
4222888 TACATAA--
1 TACATAACT
*
4222895 TACACAACT
1 TACATAACT
4222904 TACATAACT
1 TACATAACT
4222913 TACATAA--
1 TACATAACT
4222920 TACATAACT
1 TACATAACT
*
4222929 TATATAACT
1 TACATAACT
4222938 TACATAA--
1 TACATAACT
*
4222945 TACACAACT
1 TACATAACT
4222954 TACATAACT
1 TACATAACT
*
4222963 TACATAATACA
1 TACAT-A-ACT
* *
4222974 TACATAGCC
1 TACATAACT
4222983 TACATAACT
1 TACATAACT
*
4222992 TACTTAACT
1 TACATAACT
4223001 TACATAA--
1 TACATAACT
**
4223008 TACACCACT
1 TACATAACT
4223017 TACATAACT
1 TACATAACT
*
4223026 TAAATAACT
1 TACATAACT
4223035 TACATAA--
1 TACATAACT
*
4223042 TACTTAACTT
1 TACATAAC-T
4223052 TA-ATAA--
1 TACATAACT
*
4223058 TACACAACT
1 TACATAACT
4223067 TACATAAC-
1 TACATAACT
4223075 -ACATAA--
1 TACATAACT
4223081 TACATAACT
1 TACATAACT
*
4223090 TACATAATT
1 TACATAACT
4223099 TACATAA
1 TACATAA
4223106 TACATAAATT
Statistics
Matches: 204, Mismatches: 27, Indels: 42
0.75 0.10 0.15
Matches are distributed among these distances:
6 2 0.01
7 52 0.25
9 139 0.68
10 4 0.02
11 7 0.03
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.31
Consensus pattern (9 bp):
TACATAACT
Found at i:4225932 original size:17 final size:19
Alignment explanation
Indices: 4225900--4225938 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4225890 AATTATGGTA
*
4225900 TATTTACTTAATAAATTTT
1 TATTTACTTAATAAATATT
4225919 TATTTA-TT-ATAAATATT
1 TATTTACTTAATAAATATT
4225936 TAT
1 TAT
4225939 AATGTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTACTTAATAAATATT
Found at i:4225951 original size:13 final size:14
Alignment explanation
Indices: 4225935--4225963 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4225925 TTATAAATAT
4225935 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
4225948 TTATAATGGTTTAA
1 TTATAATGGTTTAA
4225962 TT
1 TT
4225964 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:4226931 original size:42 final size:43
Alignment explanation
Indices: 4226831--4226944 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 43
4226821 GATTGTCAAA
* *
4226831 CGTCGCTAAAGGCCAAGACTTCTAGCGGCGTTTGTAAAAAAAG
1 CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
* * *
4226874 CGCCGCTAAATGCCAAGACTTATAGCGGCATTTGT-AATAAAG
1 CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
*
4226916 CGTCGCTAAAGGCCAAGAATTATAGCGGC
1 CGTCGCTAAAGGCCAAGACTTATAGCGGC
4226945 TTTTTCACTA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 32 0.51
43 31 0.49
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (43 bp):
CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
Found at i:4226968 original size:42 final size:43
Alignment explanation
Indices: 4226834--4226944 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
4226824 TGTCAAACGT
* * *
4226834 CGCTAAAGGCCAAGACTTCTAGCGGCGTTTGTAAAAAAAGCGC
1 CGCTAAAGGCCAAGACTTATAGCGGCATTTGTAATAAAAGCGC
* *
4226877 CGCTAAATGCCAAGACTTATAGCGGCATTTGTAAT-AAAGCGT
1 CGCTAAAGGCCAAGACTTATAGCGGCATTTGTAATAAAAGCGC
*
4226919 CGCTAAAGGCCAAGAATTATAGCGGC
1 CGCTAAAGGCCAAGACTTATAGCGGC
4226945 TTTTTCACTA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (43 bp):
CGCTAAAGGCCAAGACTTATAGCGGCATTTGTAATAAAAGCGC
Found at i:4240401 original size:17 final size:19
Alignment explanation
Indices: 4240369--4240407 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
4240359 AATTATGGTA
*
4240369 TATTTACTTAATAAATTTT
1 TATTTACTTAATAAATATT
4240388 TATTTA-TT-ATAAATATT
1 TATTTACTTAATAAATATT
4240405 TAT
1 TAT
4240408 AATGTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 2 0.11
19 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTACTTAATAAATATT
Found at i:4240420 original size:13 final size:14
Alignment explanation
Indices: 4240404--4240432 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4240394 TTATAAATAT
4240404 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
4240417 TTATAATGGTTTAA
1 TTATAATGGTTTAA
4240431 TT
1 TT
4240433 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:4240839 original size:21 final size:21
Alignment explanation
Indices: 4240813--4240871 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
4240803 TAAAGCAGAT
*
4240813 GCAGCAGCGAGGGAGGCGGCG
1 GCAGCAGCGAGGGAGGCGACG
*
4240834 GCAGCAGTGAGGGAGGCGACG
1 GCAGCAGCGAGGGAGGCGACG
* *
4240855 GCAACAACGAGGGAGGC
1 GCAGCAGCGAGGGAGGC
4240872 AGAGCAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.51, T:0.02
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCGACG
Found at i:4241394 original size:42 final size:43
Alignment explanation
Indices: 4241292--4241401 Score: 159
Period size: 43 Copynumber: 2.6 Consensus size: 43
4241282 GATTGTCAAA
* *
4241292 CGTCGCTAAAGGCCAAGACTTCTAGCGGCGTTTGTAAAAAAAG
1 CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
* *
4241335 CGCCGCTAAAGGCCAAGACTTATAGCGGCATTTGT-AATAAAG
1 CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
* *
4241377 CGTCGCTAAAGGTCAAGAATTATAG
1 CGTCGCTAAAGGCCAAGACTTATAG
4241402 TGGCTTTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (43 bp):
CGTCGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAAAAAAG
Found at i:4241429 original size:42 final size:43
Alignment explanation
Indices: 4241295--4241429 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 43
4241285 TGTCAAACGT
* * * *
4241295 CGCTAAAGGCCAAGACTTCTAGCGGCGTTTGTAAAAAAAGCGC
1 CGCTAAAGGCCAAGAATTATAGCGGCATTTGTAATAAAAGCGC
* *
4241338 CGCTAAAGGCCAAGACTTATAGCGGCATTTGTAAT-AAAGCGT
1 CGCTAAAGGCCAAGAATTATAGCGGCATTTGTAATAAAAGCGC
* * * *
4241380 CGCTAAAGGTCAAGAATTATAGTGGC-TTTTTCACTAAAAGCGC
1 CGCTAAAGGCCAAGAATTATAGCGGCATTTGT-AATAAAAGCGC
4241423 CG-TAAAG
1 CGCTAAAG
4241430 TTTTCCAGCA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 4 0.05
42 36 0.45
43 40 0.50
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (43 bp):
CGCTAAAGGCCAAGAATTATAGCGGCATTTGTAATAAAAGCGC
Found at i:4250244 original size:36 final size:36
Alignment explanation
Indices: 4250197--4250315 Score: 238
Period size: 36 Copynumber: 3.3 Consensus size: 36
4250187 GTGTCAGGGC
4250197 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
1 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
4250233 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
1 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
4250269 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
1 CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
4250305 CAAAACGACGT
1 CAAAACGACGT
4250316 TGTATAAGTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (36 bp):
CAAAACGACGTCGTTTTGGCACCTGCCCCCTAATGT
Found at i:4257388 original size:23 final size:25
Alignment explanation
Indices: 4257327--4257385 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
4257317 TTAGTACATT
4257327 AAATATATACCATTAATATTCACAA
1 AAATATATACCATTAATATTCACAA
* *
4257352 AAAAATATACCATTAATATT-TCAA
1 AAATATATACCATTAATATTCACAA
*
4257376 AAATACATAC
1 AAATATATAC
4257386 ATTTCTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 11 0.37
25 19 0.63
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATATATACCATTAATATTCACAA
Found at i:4260854 original size:18 final size:18
Alignment explanation
Indices: 4260831--4260873 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4260821 GTTCAACATG
4260831 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
4260849 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
4260867 TAATTAA
1 TAATTAA
4260874 AAACCTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:4267067 original size:153 final size:153
Alignment explanation
Indices: 4266865--4267210 Score: 493
Period size: 153 Copynumber: 2.3 Consensus size: 153
4266855 TGATATAACA
* * * * *
4266865 AAGATAAAGATAACTCAAAGAGGATAGACCAGAAATGTCACTATTAGTATCTGCTTCACCAAGAG
1 AAGATAAAGATGACTCAAAGAGGATAGACCAGAAATATCACGATGAGTATCTGCTTCACCAAAAG
* *
4266930 TGCACATGTTGCAATTTGACAATTCAAGAGA-CTT-AAGCTTTGAGAGTCGAGTAAGAGATGCAG
66 TGCACATGTTGCAATTTGACAAAT-AA-AGATCTTCAAGCTTCGAGAGTCGAGTAAGAGATGCAG
* * *
4266993 GTTTACTGATGAAATTGTTACCATT
129 GTATACTGATGAAATTATTACCACT
*
4267018 AAGATTAAGATGACTCAAAGAGGATAGACCAGAAATATCACGATGAGTATCTGCTTCACCAAAAG
1 AAGATAAAGATGACTCAAAGAGGATAGACCAGAAATATCACGATGAGTATCTGCTTCACCAAAAG
* *
4267083 TGCACATGTTGCAATTTGACAAATAAAGATTTTCAAGCTTCGAGAGTTGAGTAAGAGATGCAGGT
66 TGCACATGTTGCAATTTGACAAATAAAGATCTTCAAGCTTCGAGAGTCGAGTAAGAGATGCAGGT
*
4267148 ATGCTGATGAAATTATTACCACT
131 ATACTGATGAAATTATTACCACT
*
4267171 AAGATCAAGAGAT-A-GCAAAGAGGATAGACCAGAAATATCA
1 AAGAT-AA-AGATGACTCAAAGAGGATAGACCAGAAATATCA
4267211 GGTGGAATAT
Statistics
Matches: 173, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
151 3 0.02
152 4 0.02
153 160 0.92
154 2 0.01
155 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (153 bp):
AAGATAAAGATGACTCAAAGAGGATAGACCAGAAATATCACGATGAGTATCTGCTTCACCAAAAG
TGCACATGTTGCAATTTGACAAATAAAGATCTTCAAGCTTCGAGAGTCGAGTAAGAGATGCAGGT
ATACTGATGAAATTATTACCACT
Found at i:4269004 original size:25 final size:25
Alignment explanation
Indices: 4268975--4269025 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4268965 AGAAAAGAAA
4268975 TAGTATGTAACTTTTGTTGAATGAC
1 TAGTATGTAACTTTTGTTGAATGAC
4269000 TAGTATGTAACTTTTGTTGAATGAC
1 TAGTATGTAACTTTTGTTGAATGAC
4269025 T
1 T
4269026 TCTTATAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
TAGTATGTAACTTTTGTTGAATGAC
Found at i:4276860 original size:13 final size:14
Alignment explanation
Indices: 4276831--4276861 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4276821 TCATTTGCCC
4276831 ATAACCAAAACCCT
1 ATAACCAAAACCCT
4276845 ATAACCAAAA-CCT
1 ATAACCAAAACCCT
4276858 ATAA
1 ATAA
4276862 ACTCATACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
ATAACCAAAACCCT
Done.