Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 30
Found at i:3203458 original size:18 final size:20
Alignment explanation
Indices: 3203435--3203484 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
3203425 CTTCCTCTTG
*
3203435 GTATCGATAC-CCA-CATCA
1 GTATCGATACTACAGCATCA
3203453 GTATCGATACTACATGCATCA
1 GTATCGATACTACA-GCATCA
3203474 GTATCGATACT
1 GTATCGATACT
3203485 GTTCATCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 10 0.36
19 2 0.07
21 16 0.57
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (20 bp):
GTATCGATACTACAGCATCA
Found at i:3211842 original size:21 final size:22
Alignment explanation
Indices: 3211805--3211849 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3211795 TAAGGATTTT
*
3211805 TATTTTTATATT-TTTAAAATA
1 TATTTTTATATTATTAAAAATA
3211826 TATTCTTTA-ATTATTAAAAATA
1 TATT-TTTATATTATTAAAAATA
3211848 TA
1 TA
3211850 AAAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTTTTATATTATTAAAAATA
Found at i:3211900 original size:42 final size:42
Alignment explanation
Indices: 3211822--3211956 Score: 204
Period size: 42 Copynumber: 3.3 Consensus size: 42
3211812 ATATTTTTAA
* * *
3211822 AATATATT-CTTTAATTATTAAAAATATAAAAA-TATTATAT
1 AATATATTATTTTAATAATTTAAAATATAAAAATTATTATAT
3211862 AATATATTATTTTAATAATTTAAAATATAAAAATTATTATAT
1 AATATATTATTTTAATAATTTAAAATATAAAAATTATTATAT
*
3211904 AATATATTATTTTAATAATTTAAAATATAATAAATAATTATA-
1 AATATATTATTTTAATAATTTAAAATATAA-AAATTATTATAT
3211946 AATATATTATT
1 AATATATTATT
3211957 ATAAAATATA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
40 8 0.09
41 21 0.24
42 49 0.56
43 10 0.11
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.47
Consensus pattern (42 bp):
AATATATTATTTTAATAATTTAAAATATAAAAATTATTATAT
Found at i:3211932 original size:28 final size:28
Alignment explanation
Indices: 3211889--3211988 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
3211879 ATTTAAAATA
*
3211889 TAAAA-ATTATTATATAATATATTATTT
1 TAAAATATTAATATATAATATATTATTT
* * * *
3211916 TAATAAT-TTAAAATATAATAAATAATTA
1 TAA-AATATTAATATATAATATATTATTT
* *
3211944 TAAATATATTATTATAAAATATATTATTT
1 TAAA-ATATTAATATATAATATATTATTT
3211973 TAAAATATTAATATAT
1 TAAAATATTAATATAT
3211989 TCGGGATCGG
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
27 4 0.07
28 33 0.59
29 19 0.34
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAAATATTAATATATAATATATTATTT
Found at i:3211941 original size:19 final size:20
Alignment explanation
Indices: 3211875--3211951 Score: 63
Period size: 19 Copynumber: 3.9 Consensus size: 20
3211865 ATATTATTTT
3211875 AATAATTTA-AAATATAA-A
1 AATAATTTATAAATATAATA
* * *
3211893 AATTATTATATAATATATTATTTT
1 AATAATT-TATAA-ATA-TA-ATA
3211917 AATAATTTA-AAATATAATA
1 AATAATTTATAAATATAATA
3211936 AATAA-TTATAAATATA
1 AATAATTTATAAATATA
3211952 TTATTATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
18 9 0.20
19 15 0.33
20 4 0.09
21 6 0.13
22 4 0.09
23 2 0.04
24 6 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATAATTTATAAATATAATA
Found at i:3211946 original size:10 final size:11
Alignment explanation
Indices: 3211846--3211955 Score: 58
Period size: 12 Copynumber: 10.3 Consensus size: 11
3211836 TTATTAAAAA
*
3211846 TATAAAAATAT
1 TATAAATATAT
3211857 TATATAATATAT
1 TATA-AATATAT
*
3211869 TATTTTAATA-AT
1 TA--TAAATATAT
3211881 T-TAAA-ATA-
1 TATAAATATAT
*
3211889 TAAAAAT-TAT
1 TATAAATATAT
3211899 TATATAATATAT
1 TATA-AATATAT
*
3211911 TATTTTAATA-AT
1 TA--TAAATATAT
3211923 T-TAAA-ATAT
1 TATAAATATAT
*
3211932 AATAAATA-AT
1 TATAAATATAT
3211942 TATAAATATAT
1 TATAAATATAT
3211953 TAT
1 TAT
3211956 TATAAAATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 30
0.66 0.08 0.26
Matches are distributed among these distances:
8 3 0.04
9 14 0.19
10 16 0.21
11 13 0.17
12 19 0.25
13 8 0.11
14 2 0.03
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
TATAAATATAT
Found at i:3219965 original size:3 final size:3
Alignment explanation
Indices: 3219957--3220022 Score: 98
Period size: 3 Copynumber: 22.3 Consensus size: 3
3219947 ATATTAATTA
* *
3219957 ATT ATT ATT ATT ATT A-T ATT ATA ATA ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
3220004 ATC ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
3220023 AATATATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:3232645 original size:15 final size:16
Alignment explanation
Indices: 3232625--3232688 Score: 70
Period size: 15 Copynumber: 4.4 Consensus size: 16
3232615 ATTATGCTTG
3232625 AAGAAAAGA-AAGAAA
1 AAGAAAAGAGAAGAAA
3232640 AAGAAAA-AGAAG--A
1 AAGAAAAGAGAAGAAA
3232653 AA-AAAA-AGAAGAAA
1 AAGAAAAGAGAAGAAA
*
3232667 AAAAAAAGAGAA-AAA
1 AAGAAAAGAGAAGAAA
3232682 AAGAAAA
1 AAGAAAA
3232689 AGGAGGGTCA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
12 9 0.21
13 3 0.07
14 4 0.09
15 23 0.53
16 4 0.09
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGAAAAGAGAAGAAA
Found at i:3232649 original size:16 final size:16
Alignment explanation
Indices: 3232628--3232690 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
3232618 ATGCTTGAAG
3232628 AAAAGAAAGAAAAAGA
1 AAAAGAAAGAAAAAGA
3232644 AAAAG-AAGAAAAA-A
1 AAAAGAAAGAAAAAGA
*
3232658 AAGAAGAAAAAAAAAAGA
1 AA-AAG-AAAGAAAAAGA
3232676 GAAAA-AAAGAAAAAG
1 -AAAAGAAAGAAAAAG
3232691 GAGGGTCAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.08
15 11 0.28
16 14 0.35
17 7 0.17
18 3 0.08
19 2 0.05
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAAAGA
Found at i:3232650 original size:12 final size:12
Alignment explanation
Indices: 3232624--3232686 Score: 85
Period size: 12 Copynumber: 5.2 Consensus size: 12
3232614 TATTATGCTT
*
3232624 GAAGAAAAGAAA
1 GAAGAAAAAAAA
3232636 GAA-AAAGAAAAA
1 GAAGAAA-AAAAA
3232648 GAAGAAAAAAAA
1 GAAGAAAAAAAA
3232660 GAAGAAAAAAAA
1 GAAGAAAAAAAA
3232672 -AAGAGAAAAAAA
1 GAAGA-AAAAAAA
3232684 GAA
1 GAA
3232687 AAAGGAGGGT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
11 7 0.15
12 34 0.74
13 5 0.11
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAAAA
Found at i:3232668 original size:28 final size:25
Alignment explanation
Indices: 3232628--3232683 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 25
3232618 ATGCTTGAAG
3232628 AAAAGAAAGAAAAAGAAAAAGAAGAAAA
1 AAAAG-AAGAAAAA-AAAAAG-AGAAAA
3232656 AAAAGAAGAAAAAAAAAAGAGAAAA
1 AAAAGAAGAAAAAAAAAAGAGAAAA
3232681 AAA
1 AAA
3232684 GAAAAAGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 9 0.32
26 6 0.21
27 8 0.29
28 5 0.18
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (25 bp):
AAAAGAAGAAAAAAAAAAGAGAAAA
Found at i:3234000 original size:83 final size:83
Alignment explanation
Indices: 3233824--3234646 Score: 1527
Period size: 83 Copynumber: 10.0 Consensus size: 83
3233814 GAAAGAGACT
3233824 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-G---GAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3233885 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3233903 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3233968 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3233986 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234051 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3234069 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234134 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3234152 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234217 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3234235 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234300 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3234318 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234382 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
* * *
3234400 CAATATCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTAGTTGGACAGAACCAATCATTGAA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
*
3234465 TTTAGAAGATGAATTAGC
66 TTTAGAAGATGAATTTGC
*
3234483 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-CAATCATTGAG
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
3234547 TTTAGAAGATGAATTTGC
66 TTTAGAAGATGAATTTGC
3234565 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAG-ACCAATCATTGA
1 CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGA
*
3234628 ATTTGGAAGATGAATTTGC
65 ATTTAGAAGATGAATTTGC
3234647 TCATAGTAAA
Statistics
Matches: 726, Mismatches: 11, Indels: 11
0.97 0.01 0.01
Matches are distributed among these distances:
79 45 0.06
80 1 0.00
81 1 0.00
82 179 0.25
83 500 0.69
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (83 bp):
CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAA
TTTAGAAGATGAATTTGC
Found at i:3235662 original size:113 final size:110
Alignment explanation
Indices: 3235447--3235888 Score: 575
Period size: 113 Copynumber: 3.9 Consensus size: 110
3235437 CTCAAATCTA
**
3235447 TCATTTGATGGATTGACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 TCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* * * *
3235512 AAGAAATTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAAT
66 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAAT
* *
3235557 TCATTTGATGGATCAACATTACCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 TCATTTGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
* **
3235621 GAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAAT
62 GAAGAAG-AAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAAT
* * *
3235670 CCATCATTAGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 ---TCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* *
3235735 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACATGAAT
63 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAAT
* *
3235783 TCATCAATTGATGGATCAACATTTTCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
1 TCAT---TTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
* * *
3235847 AAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGC
63 AAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
3235889 ATAATTCTAT
Statistics
Matches: 289, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
109 1 0.00
110 45 0.16
112 74 0.26
113 125 0.43
114 3 0.01
116 40 0.14
117 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (110 bp):
TCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAAT
Found at i:3235952 original size:124 final size:122
Alignment explanation
Indices: 3235805--3236192 Score: 504
Period size: 124 Copynumber: 3.3 Consensus size: 122
3235795 GGATCAACAT
3235805 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
3235870 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
* *
3235927 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAG
** * * ** * *
3235991 AAGAGCTTGTTCAACCTTTTACATGAATTC-AT--C--AA-TTGATGGATCAACAT-----
63 AAGAATTTGTTCAACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAACATCAGCC
3236041 TTTCAGAGAAGTTCATAATGAG-A-AA---ATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
1 TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
*
3236101 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
66 AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
3236158 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTC-AGAG-AAGTTCATAATGAGAAGAACTCATC
3236193 AAAAGCTTAT
Statistics
Matches: 222, Mismatches: 21, Indels: 44
0.77 0.07 0.15
Matches are distributed among these distances:
106 5 0.02
107 49 0.22
108 2 0.01
109 1 0.00
110 2 0.01
111 3 0.01
112 24 0.11
113 4 0.02
114 4 0.02
117 4 0.02
118 4 0.02
119 25 0.11
120 3 0.01
121 2 0.01
122 5 0.02
123 6 0.03
124 74 0.33
125 5 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (122 bp):
TTTCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAG
AATTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
Found at i:3235968 original size:236 final size:236
Alignment explanation
Indices: 3235465--3236192 Score: 1025
Period size: 236 Copynumber: 3.1 Consensus size: 236
3235455 TGGATTGACA
*
3235465 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* * *** **
3235530 AGAATTTGTTCAACTTTTTGTTTGAATTCAT---TTGATGGATCAACATTACCAG-GTAGAGTTC
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAG-A-AGTTC
* * **
3235591 ATAATGAGAAGAACTCGTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAGCTTGTTCA
129 ATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAG-AAGTTCATAATAAGAAGAATTTGTTCA
* ** * * *
3235655 ACCTTTTGC-TCAA----ATC-C---ATCA-TTAGA-T-GGATCAGCT
190 ACTTTTTGCAT-AATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
3235691 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
3235756 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
66 AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
3235821 AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
131 AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
*
3235886 TGCATAATTCTATCACAGAAGGAGATAGATTAACATCAGCC
196 TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
3235927 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAG
*
3235991 AAGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
65 AAGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCA
3236056 TAATGAG-A-AA---ATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
130 TAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTT
3236116 TTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
195 TTGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
*
3236158 TTTCTAGAGAAAGTTCATAATGAGAAGAACTCATC
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATC
3236193 AAAAGCTTAT
Statistics
Matches: 462, Mismatches: 22, Indels: 31
0.90 0.04 0.06
Matches are distributed among these distances:
225 50 0.11
226 94 0.20
228 18 0.04
229 23 0.05
230 2 0.00
231 126 0.27
233 2 0.00
234 6 0.01
235 4 0.01
236 137 0.30
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (236 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAACATTTTCAGAGAAGTTCAT
AATGAGAAGAACTCATCTGAAGAAGAAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTT
TGCATAATTCTATCACAGAAGGAGATAGATTAGCATCAGCC
Found at i:3236452 original size:3 final size:3
Alignment explanation
Indices: 3236444--3236504 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
3236434 ATATTAATTA
* *
3236444 ATT ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3236492 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
3236505 AATATATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3236512 original size:12 final size:11
Alignment explanation
Indices: 3236434--3236513 Score: 57
Period size: 9 Copynumber: 7.5 Consensus size: 11
3236424 TTTTTTACCC
3236434 ATATTAATTAAT
1 ATATT-ATTAAT
3236446 -TATTATT-AT
1 ATATTATTAAT
3236455 -TATTA-TAAT
1 ATATTATTAAT
3236464 -TATTATT-AT
1 ATATTATTAAT
*
3236473 -TATTATTATT
1 ATATTATTAAT
*
3236483 ATCATTATTATT
1 AT-ATTATTAAT
3236495 ATTATTATTAAAT
1 A-TATTATT-AAT
3236508 ATATTA
1 ATATTA
3236514 AATACATATA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
8 1 0.02
9 23 0.39
10 5 0.08
11 5 0.08
12 21 0.36
13 4 0.07
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:3236947 original size:15 final size:14
Alignment explanation
Indices: 3236922--3236963 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
3236912 CCCGAACCTG
3236922 AAAAAAA-AAGAAA
1 AAAAAAAGAAGAAA
*
3236935 AAGAAAAAGAAGACAG
1 AA-AAAAAGAAGA-AA
3236951 AAAAAAAGAAGAA
1 AAAAAAAGAAGAA
3236964 CACAGAGCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 6 0.24
15 14 0.56
16 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAGAAA
Found at i:3236962 original size:18 final size:19
Alignment explanation
Indices: 3236930--3236969 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
3236920 TGAAAAAAAA
*
3236930 AGAAAAAGAAAAAGAAGAC
1 AGAAAAAGAAAAAGAACAC
*
3236949 AGAAAAA-AAGAAGAACAC
1 AGAAAAAGAAAAAGAACAC
3236967 AGA
1 AGA
3236970 GCCGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.72, C:0.07, G:0.20, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAAAGAACAC
Found at i:3240326 original size:17 final size:17
Alignment explanation
Indices: 3240281--3240327 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
3240271 CTATATTTAC
*
3240281 TCTTTTTCCTATACTAA
1 TCTTTTTCCTGTACTAA
* *
3240298 TC-CTTTCACTGTACTAG
1 TCTTTTTC-CTGTACTAA
3240315 TCTTTTTCCTGTA
1 TCTTTTTCCTGTA
3240328 TCATTCCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.17
17 16 0.67
18 4 0.17
ACGTcount: A:0.17, C:0.26, G:0.06, T:0.51
Consensus pattern (17 bp):
TCTTTTTCCTGTACTAA
Found at i:3240386 original size:17 final size:16
Alignment explanation
Indices: 3240362--3240427 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 16
3240352 TTTTTCTATG
3240362 ATAA-TTCTTTTACTGT
1 ATAATTTCTTTTACT-T
3240378 ATAATTTCTTTTA-TT
1 ATAATTTCTTTTACTT
*
3240393 ATACTATTTCTCTTACTAT
1 ATA--ATTTCTTTTACT-T
**
3240412 ATTGTTTCTTTTACTT
1 ATAATTTCTTTTACTT
3240428 TTGCTTTATG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.10
16 6 0.15
17 27 0.66
18 1 0.02
19 3 0.07
ACGTcount: A:0.23, C:0.14, G:0.03, T:0.61
Consensus pattern (16 bp):
ATAATTTCTTTTACTT
Found at i:3241042 original size:62 final size:62
Alignment explanation
Indices: 3240973--3241094 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
3240963 TGAAAATACC
3240973 ATTAATATATATTCAATATTAATTTCCTTTACCATAATTCAATTTTTCTTTCAAATCCCTGT
1 ATTAATATATATTCAATATTAATTTCCTTTACCATAATTCAATTTTTCTTTCAAATCCCTGT
*
3241035 ATTAATATATATTCAATATTAATTTCTTTTACCATAATTCAATTTTTCTTTCAAATCCCT
1 ATTAATATATATTCAATATTAATTTCCTTTACCATAATTCAATTTTTCTTTCAAATCCCT
3241095 CCTGATAAGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.01, T:0.49
Consensus pattern (62 bp):
ATTAATATATATTCAATATTAATTTCCTTTACCATAATTCAATTTTTCTTTCAAATCCCTGT
Found at i:3241477 original size:64 final size:63
Alignment explanation
Indices: 3241395--3241516 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
3241385 TTTTTATATT
3241395 TTATATTTGTTTTAGGTATTTTAATTTAAATAGATTTT-AGTATTTTAATTAGGATTTAGAATA
1 TTATATTTGTTTTAGGTATTTTAATTTAAATAG-TTTTAAGTATTTTAATTAGGATTTAGAATA
* * *
3241458 TTATATTATTTTTTAGGTATTTTAGTTTAAATAGTTTTAAGTGTTTTAATTAGGATTTA
1 TTATATT-TGTTTTAGGTATTTTAATTTAAATAGTTTTAAGTATTTTAATTAGGATTTA
3241517 TGACGTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
63 11 0.20
64 43 0.80
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (63 bp):
TTATATTTGTTTTAGGTATTTTAATTTAAATAGTTTTAAGTATTTTAATTAGGATTTAGAATA
Found at i:3242152 original size:19 final size:18
Alignment explanation
Indices: 3242101--3242149 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
3242091 AATCTCTTTA
3242101 ATTTGTTTATTTAATTATT
1 ATTT-TTTATTTAATTATT
* *
3242120 TTTCTTTTATTTAATTCTT
1 ATT-TTTTATTTAATTATT
3242139 ATTTTTTATTT
1 ATTTTTTATTT
3242150 TAAAAATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTTATTTAATTATT
Found at i:3245189 original size:11 final size:11
Alignment explanation
Indices: 3245173--3245198 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3245163 ATTTTTGTTT
3245173 TTTTCATTTTA
1 TTTTCATTTTA
3245184 TTTTCATTTTA
1 TTTTCATTTTA
3245195 TTTT
1 TTTT
3245199 GTTTTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCATTTTA
Found at i:3247178 original size:19 final size:19
Alignment explanation
Indices: 3247137--3247180 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
3247127 GTATTTTAAT
* * *
3247137 TTAAATAGGTTTTAGTATT
1 TTAAATAGGATTTAGAATA
*
3247156 TTAATTAGGATTTAGAATA
1 TTAAATAGGATTTAGAATA
3247175 TTAAAT
1 TTAAAT
3247181 TTATTTTTGA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.48
Consensus pattern (19 bp):
TTAAATAGGATTTAGAATA
Found at i:3248847 original size:20 final size:20
Alignment explanation
Indices: 3248824--3248929 Score: 106
Period size: 20 Copynumber: 5.2 Consensus size: 20
3248814 ACAGGTTCCA
3248824 AAATCGCAACGCGAATA-GAT
1 AAATCGCAACGCGAATATG-T
* * * **
3248844 AAATCGCAACACGATTTTCC
1 AAATCGCAACGCGAATATGT
3248864 AAATTCGCAACGCGAATATGT
1 AAA-TCGCAACGCGAATATGT
**
3248885 AAATCGCAACGATAATATGT
1 AAATCGCAACGCGAATATGT
* *
3248905 AAATCGCAATGCGAATATGA
1 AAATCGCAACGCGAATATGT
3248925 AAATC
1 AAATC
3248930 CTGTTGCGAA
Statistics
Matches: 68, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
20 53 0.78
21 15 0.22
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGAATATGT
Found at i:3248956 original size:20 final size:20
Alignment explanation
Indices: 3248875--3248958 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
3248865 AATTCGCAAC
* **
3248875 GCGAATATGTAAATCGCAAC
1 GCGAATATGAAAATCGCATT
** * *
3248895 GATAATATGTAAATCGCAAT
1 GCGAATATGAAAATCGCATT
*
3248915 GCGAATATGAAAATC-CTGTT
1 GCGAATATGAAAATCGC-ATT
*
3248935 GCGAATTTGAAAATCGCATT
1 GCGAATATGAAAATCGCATT
3248955 GCGA
1 GCGA
3248959 TAGTACTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
19 1 0.02
20 50 0.96
21 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (20 bp):
GCGAATATGAAAATCGCATT
Found at i:3249034 original size:57 final size:57
Alignment explanation
Indices: 3248971--3249105 Score: 243
Period size: 57 Copynumber: 2.4 Consensus size: 57
3248961 GTACTATTTA
3248971 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
*
3249028 CATTGCGATAGTATTGTTTACCTATATCGGTGATTAGCGTTGCGAATTTGAAAATCG
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
* *
3249085 CGTTGCGATAGTACTGTTTAC
1 CATTGCGATAGTATTGTTTAC
3249106 ATTACGATAG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 75 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (57 bp):
CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCG
Found at i:3249088 original size:77 final size:77
Alignment explanation
Indices: 3249028--3249317 Score: 526
Period size: 77 Copynumber: 3.8 Consensus size: 77
3249018 TTGAAAATCG
* *
3249028 CATTGCGATAGTATTGTTTACCTATATCGGTGATTAGCGTTGCGAATTTGAAAATCGCGTTGCGA
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
3249093 TAGTACTGTTTA
66 TAGTACTGTTTA
*
3249105 CATTACGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
3249170 TAGTACTGTTTA
66 TAGTACTGTTTA
* *
3249182 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGTATTGTGA
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
3249247 TAGTACTGTTTA
66 TAGTACTGTTTA
*
3249259 CATTGCGATAGTATTGTTTACTTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCA
1 CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCA
3249318 ACGCTAATTA
Statistics
Matches: 205, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 205 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (77 bp):
CATTGCGATAGTATTGTTTACCTATATCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGA
TAGTACTGTTTA
Found at i:3249172 original size:134 final size:134
Alignment explanation
Indices: 3248932--3249182 Score: 466
Period size: 134 Copynumber: 1.9 Consensus size: 134
3248922 TGAAAATCCT
*
3248932 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTATTTACATTGCGATAGTATTGTTTACCTATA
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTATTTACATTACGATAGTATTGTTTACCTATA
*
3248997 TCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTATTGTTTACCTATATCGGTGAT
66 TCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTGAT
3249062 TAGC
131 TAGC
* *
3249066 GTTGCGAATTTGAAAATCGCGTTGCGATAGTACTGTTTACATTACGATAGTATTGTTTACCTATA
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTATTTACATTACGATAGTATTGTTTACCTATA
3249131 TCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTAC
66 TCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTAC
3249183 ATTGCGATAG
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 113 1.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (134 bp):
GTTGCGAATTTGAAAATCGCATTGCGATAGTACTATTTACATTACGATAGTATTGTTTACCTATA
TCGGTAATTAGCGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTACCTATATCGGTGAT
TAGC
Found at i:3249185 original size:20 final size:20
Alignment explanation
Indices: 3249162--3249202 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
3249152 TTGAAAATCG
3249162 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
*
3249182 CATTGCGATAGTATTGTTTA
1 CATTGCGATAGTACTGTTTA
3249202 C
1 C
3249203 CTATATCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:3249268 original size:20 final size:20
Alignment explanation
Indices: 3249240--3249279 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3249230 TGAAAATCGT
*
3249240 ATTGTGATAGTACTGTTTAC
1 ATTGCGATAGTACTGTTTAC
*
3249260 ATTGCGATAGTATTGTTTAC
1 ATTGCGATAGTACTGTTTAC
3249280 TTATATCGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (20 bp):
ATTGCGATAGTACTGTTTAC
Found at i:3249387 original size:57 final size:57
Alignment explanation
Indices: 3249316--3249432 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
3249306 TTGAAAATCG
*
3249316 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAATTTCA
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCA
3249373 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCA
1 CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCA
3249430 CAA
1 CAA
3249433 TGCGATTTTC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (57 bp):
CAACGCTAATTACCGATATAGGTAAACAGTACTATCGCAATGCGATTTTCAAATTCA
Found at i:3249469 original size:20 final size:20
Alignment explanation
Indices: 3249407--3249470 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
3249397 AACAGTACTA
3249407 TCGCAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
*
3249427 TCACAATGCGATTTTCAAAT
1 TCGCAATGCGATTTTCAAAT
* *
3249447 TCGCAACGCGATTTTCATAT
1 TCGCAATGCGATTTTCAAAT
3249467 TCGC
1 TCGC
3249471 GTTAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.34
Consensus pattern (20 bp):
TCGCAATGCGATTTTCAAAT
Found at i:3249510 original size:19 final size:19
Alignment explanation
Indices: 3249474--3249513 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3249464 TATTCGCGTT
**
3249474 AAAATAAATTCGCGTTGCG
1 AAAATAAACGCGCGTTGCG
*
3249493 AAAATAAACGCGCTTTGCG
1 AAAATAAACGCGCGTTGCG
3249512 AA
1 AA
3249514 TTTAACTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (19 bp):
AAAATAAACGCGCGTTGCG
Found at i:3249588 original size:20 final size:19
Alignment explanation
Indices: 3249507--3249677 Score: 125
Period size: 20 Copynumber: 8.6 Consensus size: 19
3249497 TAAACGCGCT
* *
3249507 TTGCGAATTTAACTTTCGCG
1 TTGCGAATTTGAC-TTCGTG
*
3249527 TTACGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTC-GTG
*
3249547 TTGCG-ATTT-ACAGATTCATG
1 TTGCGAATTTGAC---TTCGTG
3249567 TTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGACTTC-GTG
*
3249587 TTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACT-TCGTG
* * *
3249607 TTACGAATTTGACTTTAGTA
1 TTGCGAATTTGAC-TTCGTG
*
3249627 TTGCGAATTTGACTCTTGTG
1 TTGCGAATTTGACT-TCGTG
3249647 TTGC-AATTT-ACAAATTCGTG
1 TTGCGAATTTGAC---TTCGTG
3249667 TTGCGAATTTG
1 TTGCGAATTTG
3249678 GAAAATTGCA
Statistics
Matches: 121, Mismatches: 15, Indels: 28
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.03
19 16 0.13
20 83 0.69
21 16 0.13
22 2 0.02
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (19 bp):
TTGCGAATTTGACTTCGTG
Found at i:3249614 original size:40 final size:40
Alignment explanation
Indices: 3249507--3249640 Score: 155
Period size: 40 Copynumber: 3.4 Consensus size: 40
3249497 TAAACGCGCT
* * *
3249507 TTGCGAATTTAACTTTCGCGTTACGAATTTGACTTCTGTG
1 TTGCGAATTTGACTATCGCGTTACGAATTTGACTTCAGTG
* ** *
3249547 TTGCG-ATTT-ACAGATTCATGTTGCGAATTTGACTTCAGTG
1 TTGCGAATTTGAC-TA-TCGCGTTACGAATTTGACTTCAGTG
* *
3249587 TTGCGAATTTGACTATCGCGTTACGAATTTGACTTTAGTA
1 TTGCGAATTTGACTATCGCGTTACGAATTTGACTTCAGTG
3249627 TTGCGAATTTGACT
1 TTGCGAATTTGACT
3249641 CTTGTGTTGC
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.03
39 4 0.05
40 65 0.83
41 5 0.06
42 2 0.03
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (40 bp):
TTGCGAATTTGACTATCGCGTTACGAATTTGACTTCAGTG
Found at i:3249693 original size:21 final size:21
Alignment explanation
Indices: 3249669--3249714 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
3249659 AATTCGTGTT
*
3249669 GCGAATTTGGAAAATTGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
3249690 GCGAATTTGGAAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
3249711 GCGA
1 GCGA
3249715 TTTACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:3250582 original size:20 final size:20
Alignment explanation
Indices: 3250557--3250605 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
3250547 TTCCTAACAA
3250557 CATTTCCATGTAATTTAAAT
1 CATTTCCATGTAATTTAAAT
3250577 CATTTCCATGTAATTTAAAT
1 CATTTCCATGTAATTTAAAT
3250597 CATTTCCAT
1 CATTTCCAT
3250606 AACAAAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (20 bp):
CATTTCCATGTAATTTAAAT
Found at i:3254742 original size:2 final size:2
Alignment explanation
Indices: 3254737--3254775 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3254727 TTTTTTGTCT
3254737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3254776 AAACTCATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3260564 original size:51 final size:51
Alignment explanation
Indices: 3260504--3260606 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
3260494 TGCGATAGTG
3260504 ACACTTACCTCTCGATGCAGTGCTTACACAATTCCATTCACCTCTTGATGC
1 ACACTTACCTCTCGATGCAGTGCTTACACAATTCCATTCACCTCTTGATGC
3260555 ACACTTACCTCTCGATGCAGTGCTTACACAATTCCATTCACCTCTTGATGC
1 ACACTTACCTCTCGATGCAGTGCTTACACAATTCCATTCACCTCTTGATGC
3260606 A
1 A
3260607 ATGAGCTGGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.24, C:0.33, G:0.12, T:0.31
Consensus pattern (51 bp):
ACACTTACCTCTCGATGCAGTGCTTACACAATTCCATTCACCTCTTGATGC
Found at i:3263728 original size:13 final size:13
Alignment explanation
Indices: 3263710--3263735 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3263700 CAGTAGATAC
3263710 TCATGTGATGTTA
1 TCATGTGATGTTA
3263723 TCATGTGATGTTA
1 TCATGTGATGTTA
3263736 ATTTTGAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TCATGTGATGTTA
Found at i:3274327 original size:161 final size:161
Alignment explanation
Indices: 3274100--3274421 Score: 644
Period size: 161 Copynumber: 2.0 Consensus size: 161
3274090 CGGCGTTGGG
3274100 CTTCCTCATTCGGAACCTGCTCACGACGACCACGACCACGACCTCCAGCCATTGAAACTGGTGAA
1 CTTCCTCATTCGGAACCTGCTCACGACGACCACGACCACGACCTCCAGCCATTGAAACTGGTGAA
3274165 ATTTCCCAAGAAGATGTTGAAGCTCTGACACCAACTGACGCCAGACAGAATAGTGATTATCCTGT
66 ATTTCCCAAGAAGATGTTGAAGCTCTGACACCAACTGACGCCAGACAGAATAGTGATTATCCTGT
3274230 AGGCTAGCTCCGACAGATGATTCACAAGAGA
131 AGGCTAGCTCCGACAGATGATTCACAAGAGA
3274261 CTTCCTCATTCGGAACCTGCTCACGACGACCACGACCACGACCTCCAGCCATTGAAACTGGTGAA
1 CTTCCTCATTCGGAACCTGCTCACGACGACCACGACCACGACCTCCAGCCATTGAAACTGGTGAA
3274326 ATTTCCCAAGAAGATGTTGAAGCTCTGACACCAACTGACGCCAGACAGAATAGTGATTATCCTGT
66 ATTTCCCAAGAAGATGTTGAAGCTCTGACACCAACTGACGCCAGACAGAATAGTGATTATCCTGT
3274391 AGGCTAGCTCCGACAGATGATTCACAAGAGA
131 AGGCTAGCTCCGACAGATGATTCACAAGAGA
3274422 AAATTCGCCC
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 161 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (161 bp):
CTTCCTCATTCGGAACCTGCTCACGACGACCACGACCACGACCTCCAGCCATTGAAACTGGTGAA
ATTTCCCAAGAAGATGTTGAAGCTCTGACACCAACTGACGCCAGACAGAATAGTGATTATCCTGT
AGGCTAGCTCCGACAGATGATTCACAAGAGA
Found at i:3286542 original size:15 final size:18
Alignment explanation
Indices: 3286507--3286543 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
3286497 TAGCATATTC
3286507 AACTATATGTTAGTATCA
1 AACTATATGTTAGTATCA
3286525 AACTA-ATG-TAGT-TCA
1 AACTATATGTTAGTATCA
3286540 AACT
1 AACT
3286544 TAAATATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 3 0.16
18 5 0.26
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (18 bp):
AACTATATGTTAGTATCA
Found at i:3293890 original size:124 final size:126
Alignment explanation
Indices: 3293726--3293965 Score: 466
Period size: 124 Copynumber: 1.9 Consensus size: 126
3293716 TAACTCGAGC
3293726 TCCAAAATAGGGCCATCAAAATAGGTGTTGTACTTGAAAAATTATCGATCTTAAATT-C-CTTCT
1 TCCAAAATAGGGCCATCAAAATAGGTGTTGTACTTGAAAAATTATCGATCTTAAATTCCACTTCT
3293789 CAATCAGGAGGTAATCTGGGTAACTCGTTAAGGAAAACATATAGGAATTCTGTCTGAGCTA
66 CAATCAGGAGGTAATCTGGGTAACTCGTTAAGGAAAACATATAGGAATTCTGTCTGAGCTA
3293850 TCCAAAATAGGGCCATCAAAATAGGTGTTGTACTTGAAAAATTATCGATCTTAAATTCCACTTCT
1 TCCAAAATAGGGCCATCAAAATAGGTGTTGTACTTGAAAAATTATCGATCTTAAATTCCACTTCT
3293915 CAATCAGGAGGTAATCTGGGTAACTCGTTAAGGAAAACATATAGGAATTCT
66 CAATCAGGAGGTAATCTGGGTAACTCGTTAAGGAAAACATATAGGAATTCT
3293966 CGAAATGTTA
Statistics
Matches: 114, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
124 57 0.50
125 1 0.01
126 56 0.49
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (126 bp):
TCCAAAATAGGGCCATCAAAATAGGTGTTGTACTTGAAAAATTATCGATCTTAAATTCCACTTCT
CAATCAGGAGGTAATCTGGGTAACTCGTTAAGGAAAACATATAGGAATTCTGTCTGAGCTA
Found at i:3297398 original size:22 final size:22
Alignment explanation
Indices: 3297373--3297430 Score: 116
Period size: 22 Copynumber: 2.6 Consensus size: 22
3297363 ATTCATTCTA
3297373 AAATTCATAATAGCTTTCCATT
1 AAATTCATAATAGCTTTCCATT
3297395 AAATTCATAATAGCTTTCCATT
1 AAATTCATAATAGCTTTCCATT
3297417 AAATTCATAATAGC
1 AAATTCATAATAGC
3297431 CCTTCACTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (22 bp):
AAATTCATAATAGCTTTCCATT
Found at i:3305497 original size:17 final size:17
Alignment explanation
Indices: 3305475--3305509 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
3305465 TTTTCATAAT
3305475 CGGATCGGTTAGAGAAC
1 CGGATCGGTTAGAGAAC
*
3305492 CGGATCGGTTAGCGAAC
1 CGGATCGGTTAGAGAAC
3305509 C
1 C
3305510 AGTCATGCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.34, T:0.17
Consensus pattern (17 bp):
CGGATCGGTTAGAGAAC
Found at i:3306114 original size:16 final size:16
Alignment explanation
Indices: 3306089--3306119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3306079 CTTCTAAATT
*
3306089 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
3306105 TTTTTCGAGTTCAAG
1 TTTTTCGAGTTCAAG
3306120 TTTCAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:3308153 original size:20 final size:20
Alignment explanation
Indices: 3308130--3308212 Score: 62
Period size: 20 Copynumber: 3.9 Consensus size: 20
3308120 TAAAAAAGAA
3308130 AAATAATAAACAAAAAAATG
1 AAATAATAAACAAAAAAATG
3308150 AAATAA-AAACCAAATAAAAT-
1 AAATAATAAA-CAAA-AAAATG
*
3308170 AAATGAATAAAAATTAAAAAATG
1 AAAT-AATAAACA--AAAAAATG
*
3308193 TTAAATATTGAAACAAAAAA
1 --AAATAAT-AAACAAAAAA
3308213 TGGAAAATGT
Statistics
Matches: 50, Mismatches: 3, Indels: 17
0.71 0.04 0.24
Matches are distributed among these distances:
19 3 0.06
20 14 0.28
21 8 0.16
22 8 0.16
23 7 0.14
24 2 0.04
25 8 0.16
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.19
Consensus pattern (20 bp):
AAATAATAAACAAAAAAATG
Found at i:3309971 original size:84 final size:84
Alignment explanation
Indices: 3309720--3310280 Score: 526
Period size: 84 Copynumber: 6.8 Consensus size: 84
3309710 ACCCCTAAGT
* * * * ** * *
3309720 TGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGC
1 TGAGCGTAGTCGAACTCGAAGGTCTT-TGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGC
**
3309785 AAATGATGT-TTCTTGGAA-C
65 AAATGATGTGCCCTT-GAAGC
* * * * *
3309804 TGAGCGTAGTCGAACTCGAAGGTC--T-TTGGCAGATAGCCTTTCTCGACTTATGCTATGCTGCA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGCA
*
3309866 AATGATGGTGCCTTTG-AGC
66 AATGAT-GTGCCCTTGAAGC
* * * * * *
3309885 TGAGCGCAGTCAAACTCGAAGGTCTTTGTTGGTAGAAAACCCTTCTAGCCTTGAGTTATGCTGCA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGCA
*
3309950 AATGATGTGCCCTCGAAGC
66 AATGATGTGCCCTTGAAGC
* * * * *
3309969 TGAGTGTAATCGAACTCG-AGAGTC--T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
1 TGAGCGTAGTCGAACTCGAAG-GTCTTTGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGC
* *
3310030 AAATGACGTG-CCTTGGAGC
65 AAATGATGTGCCCTTGAAGC
* * * *
3310049 TGAGAGTAGTCAAACTCGAAGGTCTTTGTTGGCA-AATAACCCTTCTCTACTTAAGTTATACTGC
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAA-AACCCTTCTCGACTTAAGTTATGCTGC
*
3310113 AAATGATGTGCCCTCGAAGC
65 AAATGATGTGCCCTTGAAGC
* * * * * * * *
3310133 TGAGTGTAATCGAACTTGAAGG--TATG-TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACA
1 TGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGCA
* *
3310195 AATGATGTG-GCTTGGAGC
66 AATGATGTGCCCTTGAAGC
*
3310213 TGAGCGTAGTCGAACTCGAAGGTCTTTGTTTGG-AAAATAACCCTTCTCGACTTAAGTTATGCTG
1 TGAGCGTAGTCGAACTCGAAGGTCTTTG-TTGGCAGAA-AACCCTTCTCGACTTAAGTTATGCTG
3310277 CAAA
64 CAAA
3310281 CAGAAAAAAT
Statistics
Matches: 386, Mismatches: 71, Indels: 40
0.78 0.14 0.08
Matches are distributed among these distances:
80 90 0.23
81 103 0.27
82 12 0.03
83 50 0.13
84 131 0.34
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
TGAGCGTAGTCGAACTCGAAGGTCTTTGTTGGCAGAAAACCCTTCTCGACTTAAGTTATGCTGCA
AATGATGTGCCCTTGAAGC
Found at i:3310071 original size:164 final size:163
Alignment explanation
Indices: 3309732--3310280 Score: 726
Period size: 164 Copynumber: 3.3 Consensus size: 163
3309722 AGTGTAATCG
* * ** * * **
3309732 AACTCGAAGGTCTTCGGTTGGCAGATAGTCCTTCTCGACTTAAGCTATACTGCAAATGATGTTTC
1 AACTCGAAGGTCTT-TGTTGG-AAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
* * * * * *
3309797 TTGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCTTTCTCGACTTATGCTATG
64 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATG
* * *
3309861 CTGCAAATGATGGTGCCTTTGAGCTGAGCGCAGTCA
129 CTGCAAATGA-CGTGCCTTGGAGCTGAGCGTAGTCA
* * *
3309897 AACTCGAAGGTCTTTGTTGGTAGAA-AACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGTTGG-A-AATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
3309961 CTCGAAGCTGAGTGTAATCGAACTCG-AGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
64 CTCGAAGCTGAGTGTAATCGAACTCGAAG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
*
3310025 GCTGCAAATGACGTGCCTTGGAGCTGAGAGTAGTCA
128 GCTGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCA
* *
3310061 AACTCGAAGGTCTTTGTTGGCAAATAACCCTTCTCTACTTAAGTTATACTGCAAATGATGTGCCC
1 AACTCGAAGGTCTTTGTTGG-AAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCC
* * *
3310126 TCGAAGCTGAGTGTAATCGAACTTGAAGGTATGTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
65 TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGC
* * * *
3310191 TACAAATGATGTGGCTTGGAGCTGAGCGTAGTCG
130 TGCAAATGACGTGCCTTGGAGCTGAGCGTAGTCA
3310225 AACTCGAAGGTCTTTGTTTGGAAAATAACCCTTCTCGACTTAAGTTATGCTGCAAA
1 AACTCGAAGGTCTTTG-TTGG-AAATAACCCTTCTCGACTTAAGTTATGCTGCAAA
3310281 CAGAAAAAAT
Statistics
Matches: 339, Mismatches: 39, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
163 2 0.01
164 223 0.66
165 114 0.34
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (163 bp):
AACTCGAAGGTCTTTGTTGGAAATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCT
GCAAATGACGTGCCTTGGAGCTGAGCGTAGTCA
Found at i:3326292 original size:28 final size:29
Alignment explanation
Indices: 3326252--3326315 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
3326242 CTATGTTATG
* * *
3326252 TATTTCAAGTTAACTACTGACTTTTATTT
1 TATTGCAAGTTAACCACTAACTTTTATTT
*
3326281 TATTGCAA-TTAACCACTAATTTTTATTT
1 TATTGCAAGTTAACCACTAACTTTTATTT
3326309 TATTGCA
1 TATTGCA
3326316 CTCTAATCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 24 0.77
29 7 0.23
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.50
Consensus pattern (29 bp):
TATTGCAAGTTAACCACTAACTTTTATTT
Found at i:3326522 original size:130 final size:129
Alignment explanation
Indices: 3326290--3326573 Score: 446
Period size: 130 Copynumber: 2.2 Consensus size: 129
3326280 TTATTGCAAT
*
3326290 TAACCACTAATTTTTATTTTATTGCACTCTAATCAAGTATTTTATTTATTTATTGTTTCTAATAT
1 TAACCACTAATTTTTATTTTATTGCACTCTAACCAAGTATTTTATTTATTTATTGTTTCTAATAT
* *
3326355 TCGATTCAACCTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTATGG-TCTGGACTCTGC
66 TCAATTCAACCTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTATGGTTC-AGACTCTGC
*
3326419 TAACCACTAATTTTTATTTTATTGCACTCTAACCATTGT-TATTTATTTATTTATTGTTTCTAAT
1 TAACCACTAATTTTTATTTTATTGCACTCTAACCA-AGTAT-TTTATTTATTTATTGTTTCTAAT
* *
3326483 ATTCAATTCGACCTTGTGGTGACTCGATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
64 ATTCAATTCAACCTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTG
3326548 C
129 C
*
3326549 TAACTACTAATTTTTTTATTTTATT
1 TAACCACTAA--TTTTTATTTTATT
3326574 TATTTTATTA
Statistics
Matches: 143, Mismatches: 7, Indels: 7
0.91 0.04 0.04
Matches are distributed among these distances:
129 35 0.24
130 93 0.65
131 2 0.01
132 13 0.09
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (129 bp):
TAACCACTAATTTTTATTTTATTGCACTCTAACCAAGTATTTTATTTATTTATTGTTTCTAATAT
TCAATTCAACCTTGTGGTGACCCGATCCGGGGTATGATCCACATTATTATGGTTCAGACTCTGC
Found at i:3326688 original size:16 final size:16
Alignment explanation
Indices: 3326663--3326699 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
3326653 CTACTATCCA
*
3326663 CTAACCGCTAACTTTT
1 CTAACCGCTAACATTT
*
3326679 CTAACTGCTAACATTT
1 CTAACCGCTAACATTT
3326695 CTAAC
1 CTAAC
3326700 ATTTAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.35
Consensus pattern (16 bp):
CTAACCGCTAACATTT
Found at i:3326726 original size:16 final size:16
Alignment explanation
Indices: 3326670--3326726 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
3326660 CCACTAACCG
* *
3326670 CTAACTTTTCTAACTG
1 CTAACCTTTCTAACTA
*
3326686 CTAACATTTCTAAC-A
1 CTAACCTTTCTAACTA
* *
3326701 TTTAATCTTTCTAACTA
1 -CTAACCTTTCTAACTA
3326718 CTAACCTTT
1 CTAACCTTT
3326727 TATTTATTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.02, T:0.44
Consensus pattern (16 bp):
CTAACCTTTCTAACTA
Found at i:3326909 original size:15 final size:16
Alignment explanation
Indices: 3326875--3326909 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3326865 ATTCATGTTA
*
3326875 TTTAATTTTATGCACT
1 TTTAAATTTATGCACT
3326891 TTTAAATTTATGC-CT
1 TTTAAATTTATGCACT
3326906 TTTA
1 TTTA
3326910 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:3330868 original size:22 final size:21
Alignment explanation
Indices: 3330821--3330889 Score: 75
Period size: 24 Copynumber: 3.1 Consensus size: 21
3330811 TCAAAGCAAT
* *
3330821 GAGAACAAAACAAAGAAAAAA
1 GAGAAAAAAACAAAGAGAAAA
3330842 GAGAGTTAAAAAACAAAGAGAAAA
1 GAGA---AAAAAACAAAGAGAAAA
*
3330866 GAGAAAAAAAGCAAAAAGAAAA
1 GAGAAAAAAA-CAAAGAGAAAA
3330888 GA
1 GA
3330890 AAACAAATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 10 0.24
22 12 0.29
24 19 0.46
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.03
Consensus pattern (21 bp):
GAGAAAAAAACAAAGAGAAAA
Found at i:3333731 original size:102 final size:102
Alignment explanation
Indices: 3333542--3333731 Score: 267
Period size: 102 Copynumber: 1.9 Consensus size: 102
3333532 GTTTTTATTG
* *
3333542 AAACAAAAGTGATCTCACTTGAGATAGTTTTCCTAAAAACAAATTTAGTCTCGCTTGAGAAAATT
1 AAACAAAAGTGATCTCACTTAAGATAGTTTTCCTAAAAACAAATTTAGTCTCGCTTGAGAAAAGT
*
3333607 TTCCCTCGAAACATAAATTTTGAAATTGTTTCACTTA
66 TTCCCTCGAAACATAAACTTTGAAATTGTTTCACTTA
* * **
3333644 AAACAAAATTGATCTTACTTAAGATAGTTTTCCTAAAAACAAAATTT-GTCTCGCTTGAG-GCAG
1 AAACAAAAGTGATCTCACTTAAGATAGTTTTCCTAAAAAC-AAATTTAGTCTCGCTTGAGAAAAG
* *
3333707 TTTCTCTTGAAACATAAACCTTTGA
65 TTTCCCTCGAAACATAAA-CTTTGA
3333732 TATTTTTTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
101 17 0.22
102 54 0.70
103 6 0.08
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (102 bp):
AAACAAAAGTGATCTCACTTAAGATAGTTTTCCTAAAAACAAATTTAGTCTCGCTTGAGAAAAGT
TTCCCTCGAAACATAAACTTTGAAATTGTTTCACTTA
Found at i:3333942 original size:30 final size:30
Alignment explanation
Indices: 3333908--3334018 Score: 98
Period size: 30 Copynumber: 3.5 Consensus size: 30
3333898 CTTGAGACAA
3333908 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTGAAACATAAACCTTTGAGATTG
* * * *
3333938 TTTCTCTAGAAACA-AATTTTTATCTCGCTTGAAATAG
1 TTTCTCTTGAAACATAA-----A-C-C-TTTGAGATTG
3333975 TTTCTCTTGAAACATAAACCTTTGAGATTG
1 TTTCTCTTGAAACATAAACCTTTGAGATTG
*
3334005 TTTCTCTCGAAACA
1 TTTCTCTTGAAACA
3334019 AATTTTTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
29 2 0.03
30 33 0.52
31 1 0.02
32 1 0.02
33 1 0.02
34 1 0.02
35 1 0.02
36 1 0.02
37 20 0.32
38 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.40
Consensus pattern (30 bp):
TTTCTCTTGAAACATAAACCTTTGAGATTG
Found at i:3333987 original size:37 final size:37
Alignment explanation
Indices: 3333937--3334055 Score: 101
Period size: 37 Copynumber: 3.4 Consensus size: 37
3333927 CTTTGAGATT
*
3333937 GTTTCTCTAGAAACAAATTTTTATCTCGCTTGAAATA
1 GTTTCTCTTGAAACAAATTTTTATCTCGCTTGAAATA
* * *
3333974 GTTTCTCTTGAAACATAA-----A-C-C-TTTGAGATT
1 GTTTCTCTTGAAACA-AATTTTTATCTCGCTTGAAATA
* * * *
3334004 GTTTCTCTCGAAACAAATTTTTGTCTCGCTTGACACA
1 GTTTCTCTTGAAACAAATTTTTATCTCGCTTGAAATA
3334041 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
3334056 TAAATCTTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
29 2 0.03
30 20 0.32
31 1 0.02
32 1 0.02
33 1 0.02
35 1 0.02
36 1 0.02
37 33 0.53
38 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (37 bp):
GTTTCTCTTGAAACAAATTTTTATCTCGCTTGAAATA
Found at i:3334028 original size:200 final size:201
Alignment explanation
Indices: 3333679--3334159 Score: 707
Period size: 200 Copynumber: 2.4 Consensus size: 201
3333669 AGTTTTCCTA
* * * * *
3333679 AAAACAAA-ATTTGTCTCGCTTGAGGCAGTTTCTCTTGAAACATAAACCTTTGATATTTTTTTCT
1 AAAACAAAGTTTTGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGA-TTGTTTCT
* **
3333743 CTTGAAACAAAGTTTTATCTCGTTTGGGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
65 CTTGAAACAAAGTTTTATCTCGCTTGAAATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTT
* * * * *
3333808 CTCTCAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTTTCTTGAAATATAAACCTTTGAGATTGT
130 CTCTCAAAACAAAGTTTTGTCTCGCTTGACACAGTTTCTCTTGAAACATAAACCTTTGAGATTGT
3333873 TTCTC-T
195 TTCTCTT
*
3333879 AAAACAAAGTTTTGTCTCACTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTC
1 AAAACAAAGTTTTGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTC
* *
3333944 TAGAAACAAATTTTTATCTCGCTTGAAATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTC
66 TTGAAACAAAGTTTTATCTCGCTTGAAATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTC
* * * *
3334009 TCTCGAAACAAATTTTTGTCTCGCTTGACACAGTTTCTCTTGAAACATAAATCTTTGAGATTTTT
131 TCTCAAAACAAAGTTTTGTCTCGCTTGACACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTT
3334074 TCTCTT
196 TCTCTT
* * * *
3334080 GAAACAAAGTTTTGTCT-AGCTTTAGACAGTTTCTTTTGAAACATAAACCATTGAGATTGTTTCT
1 AAAACAAAGTTTTGTCTCA-CTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCT
3334144 CTTGAAACAAAGTTTT
65 CTTGAAACAAAGTTTT
3334160 GCCTCGGTTA
Statistics
Matches: 251, Mismatches: 27, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
200 137 0.55
201 114 0.45
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (201 bp):
AAAACAAAGTTTTGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTC
TTGAAACAAAGTTTTATCTCGCTTGAAATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTC
TCTCAAAACAAAGTTTTGTCTCGCTTGACACAGTTTCTCTTGAAACATAAACCTTTGAGATTGTT
TCTCTT
Found at i:3334178 original size:67 final size:67
Alignment explanation
Indices: 3333680--3334178 Score: 660
Period size: 67 Copynumber: 7.5 Consensus size: 67
3333670 GTTTTCCTAA
* ** * *
3333680 AAACAAA-ATTTGTCTCGCTTGAGGCAGTTTCTCTTGAAACATAAACCTTTGATATTTTTTTCTC
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGA-TTGTTTCTC
3333744 TTG
65 TTG
* * *
3333747 AAACAAAGTTTTATCTCGTTTGGGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
**
3333812 CA
66 TG
* * *
3333814 AAACAAAGTTTTGTCTCTCTTGAGATAGTTTTTCTTGAAATATAAACCTTTGAGATTGTTTCTC-
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
3333878 TA
66 TG
* * *
3333880 AAACAAAGTTTTGTCTCACTTGAGACAATTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
3333945 AG
66 TG
* * *
3333947 AAACAAATTTTTATCTCGCTTGAAATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
*
3334012 CG
66 TG
* * * * *
3334014 AAACAAATTTTTGTCTCGCTTGACACAGTTTCTCTTGAAACATAAATCTTTGAGATTTTTTCTCT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
3334079 TG
66 TG
* * * * *
3334081 AAACAAAGTTTTGTCTAGCTTTAGACAGTTTCTTTTGAAACATAAACCATTGAGATTGTTTCTCT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
3334146 TG
66 TG
* * *
3334148 AAACAAAGTTTTGCCTCGGTTAAGATAGTTT
1 AAACAAAGTTTTGTCTCGCTTGAGATAGTTT
3334179 TCCATGGAAA
Statistics
Matches: 380, Mismatches: 50, Indels: 4
0.88 0.12 0.01
Matches are distributed among these distances:
66 60 0.16
67 280 0.74
68 40 0.11
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (67 bp):
AAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTTGAAACATAAACCTTTGAGATTGTTTCTCT
TG
Found at i:3334676 original size:139 final size:139
Alignment explanation
Indices: 3334383--3335298 Score: 857
Period size: 139 Copynumber: 6.6 Consensus size: 139
3334373 CAACCATGAT
* * * * * *
3334383 CAGATCTCCTCAACACGAAGGAGCAGTGT-ATCCTAAGATAAT-TGAACTTCCTCA--GCGTGAA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAG-ACTTCCTCATCACGT-AG
* *
3334444 GAACCTGTGTTGTCTCCAAATTATCCCT-AAGA---CTAGA-AGTCCTCGTCACGAAGGAATAAT
64 GAA-CTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACA-TCCTCATCACGAAGGAACAAT
* * *
3334504 ATTGTCCACCGAT
127 GTCGTCCACCGAC
* * * * * * * *
3334517 TAGATCTCTTCAACGTGAAGGAGCAGTGTCATCCTTAGACAATTAGACATCCTCTTCATGTAGGA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
* * * * * * * *
3334582 ACTGTGTTATCTCCAAATTATCCCTAAAGGCAGCTAGACATCCTCATAACGTATGAACAAAGTTG
66 ACTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGAAGGAACAATGTCG
*
3334647 TCCACTGAC
131 TCCACCGAC
* * * *
3334656 CAGATCTCCTCAACGCGAAGGAGTAGTGTTATCCTCAGACAATCAGACGTCCTCATCACGTAGCA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
* * *
3334721 ACCGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCATCATCAC-ATAGGAACATTGTC
66 ACTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGA-AGGAACAATGTC
*
3334785 GTCCACTGAC
130 GTCCACCGAC
* * * * * * **
3334795 CAGATCTCCTCAACGCAAAGGAGAAATATCATCGTCAGACAATCAGGCGCCCTCATCACGTAGGA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
** * * * * *
3334860 ACTGTGTTACCTCCAAATTATCCCTAAAAATGGCTAGATATCCTCATCAAGAAGGAATAATGTCG
66 ACTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGAAGGAACAATGTCG
**
3334925 TCCAATGAC
131 TCCACCGAC
* * * * * ** *
3334934 CAGATCTCCTCAACGCGAAGGAGAAGTGTCATCCTTAGACAATAAAACTTCCTTATCACCAAAGA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
* * * * * *
3334999 ACTGTGTTGTCTCTAAATTATTCCTAAAGGCGGCTAGACGTCCTCACCAC-AAGGAACAATGTCA
66 ACTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGAAGGAACAATGTCG
*
3335063 TCCACCAAC
131 TCCACCGAC
** * * * * * *
3335072 CAGATAACCTCAACGCAAATGAGTAGTGTCATCCTCAGACAATCAAACTTCCTCATCAGGAAGGA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
* * ** * *
3335137 A-TCGTGTTGTTTCCAAATTATCCCTAAATATTGCTAGACGTCCTCATCACGAAGGAACAATGTT
66 ACT-GTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGAAGGAACAATGTC
3335201 GTCCACCGAC
130 GTCCACCGAC
* * * * * * *
3335211 CAGATATCCTCAACGCGAAGGTGCAGTGTCATCCTCAAACAACCATACTTCCTCAACACGAAGGA
1 CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
* * **
3335276 ACCGCGTTGTCTTTAAATTATCC
66 ACTGTGTTGTCTCCAAATTATCC
3335299 ATATTGACCA
Statistics
Matches: 636, Mismatches: 132, Indels: 23
0.80 0.17 0.03
Matches are distributed among these distances:
134 25 0.04
135 41 0.06
136 8 0.01
137 3 0.00
138 112 0.18
139 445 0.70
140 2 0.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (139 bp):
CAGATCTCCTCAACGCGAAGGAGCAGTGTCATCCTCAGACAATCAGACTTCCTCATCACGTAGGA
ACTGTGTTGTCTCCAAATTATCCCTAAAGACGGCTAGACATCCTCATCACGAAGGAACAATGTCG
TCCACCGAC
Found at i:3335184 original size:277 final size:278
Alignment explanation
Indices: 3334534--3335298 Score: 827
Period size: 277 Copynumber: 2.8 Consensus size: 278
3334524 CTTCAACGTG
* * * * *
3334534 AAGGAGCAGTGTCATCCTTAGACAATTAGACATCCTCTTCATGTAGGAACTGTGTTATCTCCAAA
1 AAGGAGAAGTGTCATCCTCAGACAATCAGACATCCTCATCACGTAGGAACTGTGTTATCTCCAAA
*** * * *
3334599 TTATCCCTAAAGGCAGCTAGACATCCTCAT-AACGTATGAACAAAGTTGTCCACTGACCAGATCT
66 TTATCCCTAAAAATAGCTAGACATCCTCATCAA-GAAGGAACAATGTTGTCCACTGACCAGATCT
* * * * **
3334663 CCTCAACGCGAAGGAGTAGTGTTATCCTCAGACAATCAGACGTCCTCATCACGTAGCAACCGTGT
130 CCTCAACGCGAAGGAGAAGTGTCATCCTCAGACAATAAAACGTCCTCATCACAAAGCAACCGTGT
* * * **
3334728 TGTCTCCAAATTATCCCTAAAGACGGCTAGACATCATCATCACATAGGAACATTGTCGTCCACTG
195 TGTCTCCAAATTATCCCTAAAGACGGCTAGACATCATCACCACATAGGAACAATGTCATCCACCA
**
3334793 ACCAGATCTCCTCAACGCA
260 ACCAGATAACCTCAACGCA
* * * * ** *
3334812 AAGGAGAAATATCATCGTCAGACAATCAGGCGCCCTCATCACGTAGGAACTGTGTTACCTCCAAA
1 AAGGAGAAGTGTCATCCTCAGACAATCAGACATCCTCATCACGTAGGAACTGTGTTATCTCCAAA
* * * * *
3334877 TTATCCCTAAAAATGGCTAGATATCCTCATCAAGAAGGAATAATGTCGTCCAATGACCAGATCTC
66 TTATCCCTAAAAATAGCTAGACATCCTCATCAAGAAGGAACAATGTTGTCCACTGACCAGATCTC
* * * *
3334942 CTCAACGCGAAGGAGAAGTGTCATCCTTAGACAATAAAACTTCCTTATCACCAAAG-AACTGTGT
131 CTCAACGCGAAGGAGAAGTGTCATCCTCAGACAATAAAACGTCCTCATCA-CAAAGCAACCGTGT
* * * * *
3335006 TGTCTCTAAATTATTCCTAAAGGCGGCTAGACGTCCTCACCACA-AGGAACAATGTCATCCACCA
195 TGTCTCCAAATTATCCCTAAAGACGGCTAGACATCATCACCACATAGGAACAATGTCATCCACCA
3335070 ACCAGATAACCTCAACGCA
260 ACCAGATAACCTCAACGCA
* * * * * * * *
3335089 AATGAGTAGTGTCATCCTCAGACAATCAAACTTCCTCATCAGGAAGGAA-TCGTGTTGTTTCCAA
1 AAGGAGAAGTGTCATCCTCAGACAATCAGACATCCTCATCACGTAGGAACT-GTGTTATCTCCAA
* * * * * *
3335153 ATTATCCCTAAATATTGCTAGACGTCCTCATCACGAAGGAACAATGTTGTCCACCGACCAGATAT
65 ATTATCCCTAAAAATAGCTAGACATCCTCATCAAGAAGGAACAATGTTGTCCACTGACCAGATCT
* * * ** * * * * * *
3335218 CCTCAACGCGAAGGTGCAGTGTCATCCTCAAACAACCATACTTCCTCAACACGAAGGAACCGCGT
130 CCTCAACGCGAAGGAGAAGTGTCATCCTCAGACAATAAAACGTCCTCATCACAAAGCAACCGTGT
**
3335283 TGTCTTTAAATTATCC
195 TGTCTCCAAATTATCC
3335299 ATATTGACCA
Statistics
Matches: 400, Mismatches: 83, Indels: 9
0.81 0.17 0.02
Matches are distributed among these distances:
276 5 0.01
277 198 0.50
278 192 0.48
279 5 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (278 bp):
AAGGAGAAGTGTCATCCTCAGACAATCAGACATCCTCATCACGTAGGAACTGTGTTATCTCCAAA
TTATCCCTAAAAATAGCTAGACATCCTCATCAAGAAGGAACAATGTTGTCCACTGACCAGATCTC
CTCAACGCGAAGGAGAAGTGTCATCCTCAGACAATAAAACGTCCTCATCACAAAGCAACCGTGTT
GTCTCCAAATTATCCCTAAAGACGGCTAGACATCATCACCACATAGGAACAATGTCATCCACCAA
CCAGATAACCTCAACGCA
Found at i:3342572 original size:2 final size:2
Alignment explanation
Indices: 3342565--3342607 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
3342555 TCAATCTACA
* *
3342565 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AA 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
3342607 A
1 A
3342608 ATTTACGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3342824 original size:85 final size:85
Alignment explanation
Indices: 3342663--3342876 Score: 227
Period size: 85 Copynumber: 2.5 Consensus size: 85
3342653 AATGACGTGT
** * * * *
3342663 GCTTCAATGACATGCAATGTAAGTCATACATGCGTGTCAGAAATTTATGACACATAAATATGAGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGAAAAACAAATATGAGT
*
3342728 CAAGCAGATTTATGACGGGG
66 CAAGCAGATTTATGACAGGG
* * * *
3342748 GCTTCAATGATGCTCAATGTAAGTCATACATGCGTGTCATAAATTTATGAAAAACAAATGTGTGT
1 GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGAAAAACAAATATGAGT
* * *
3342813 C-ATCTTA-ATTTATGATAGTG
66 CAAGC--AGATTTATGACAGGG
* * *
3342833 GCTTCAATGACGCGCAATG-AGCGTCATAAATGCGCGTCATAAAT
1 GCTTCAATGACGCGCAATGTA-AGTCATACATGCGTGTCATAAAT
3342877 GTGCGTCATA
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
84 3 0.03
85 103 0.96
86 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (85 bp):
GCTTCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGAAAAACAAATATGAGT
CAAGCAGATTTATGACAGGG
Found at i:3342869 original size:13 final size:13
Alignment explanation
Indices: 3342848--3342938 Score: 128
Period size: 13 Copynumber: 7.0 Consensus size: 13
3342838 AATGACGCGC
*
3342848 AATGAGCGTCATA
1 AATGCGCGTCATA
3342861 AATGCGCGTCATA
1 AATGCGCGTCATA
*
3342874 AATGTGCGTCATA
1 AATGCGCGTCATA
*
3342887 AATGTGCGTCATA
1 AATGCGCGTCATA
*
3342900 AATGCGTGTCATA
1 AATGCGCGTCATA
*
3342913 AATGCGTGTCATA
1 AATGCGCGTCATA
*
3342926 AATGCGTGTCATA
1 AATGCGCGTCATA
3342939 GATTCATGAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 74 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:3343829 original size:130 final size:129
Alignment explanation
Indices: 3343601--3343981 Score: 444
Period size: 130 Copynumber: 3.1 Consensus size: 129
3343591 TAATGCGTAT
3343601 TAACCACTAACTTTTATTTTATTGCACTCTAACCAT-TGTTA--T-TTT-TTTTTGTTTCTAATA
1 TAACCACTAACTTTTATTTTATTGCACTCTAACCATAT-TTATTTATTTATTTTTGTTTCTAATA
* * *
3343661 TTCAATTCGACCTTATGGTGACCCGATCCGGGGTATGATCCACATTATTATGGTTCAGG-CTCTG
65 TTCGATTCGACCTTGTGGTGACCCGATCCGAGGTATGATCCACATTATTATGGTTC-GGACTCTG
3343725 C
129 C
*
3343726 TAACCACTAGCTTTTATTTTATTGCACTCTAACCATATTTATTTATTTATTTATTGTTTCTAATA
1 TAACCACTAACTTTTATTTTATTGCACTCTAACCATATTTATTTATTTATTT-TTGTTTCTAATA
* * *
3343791 TTCGATTCAACCTTGTGGTGACCCGATCCGAGGTATGATCCGCATTATTATGGTTCGGACTCTAC
65 TTCGATTCGACCTTGTGGTGACCCGATCCGAGGTATGATCCACATTATTATGGTTCGGACTCTGC
* * * * *
3343856 TACCCACTAAC-TTT-TTTTATT----T-T-----TATTTTTTTA-TTA-ATTTGTTTTTATTAT
1 TAACCACTAACTTTTATTTTATTGCACTCTAACCATATTTATTTATTTATTTTTGTTTCTAATAT
* *
3343907 TCGATTCGACCTTGTGGTGACCCAATCCGAAGTATGATCCACATTATTATGG-TCTGGACTCTGC
66 TCGATTCGACCTTGTGGTGACCCGATCCGAGGTATGATCCACATTATTATGGTTC-GGACTCTGC
*
3343971 TAAACACTAAC
1 TAACCACTAAC
3343982 CGCTAACTTT
Statistics
Matches: 228, Mismatches: 20, Indels: 26
0.83 0.07 0.09
Matches are distributed among these distances:
114 2 0.01
115 76 0.33
116 1 0.00
117 3 0.01
118 9 0.04
123 1 0.00
124 1 0.00
125 38 0.17
126 1 0.00
127 1 0.00
128 10 0.04
129 8 0.04
130 77 0.34
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (129 bp):
TAACCACTAACTTTTATTTTATTGCACTCTAACCATATTTATTTATTTATTTTTGTTTCTAATAT
TCGATTCGACCTTGTGGTGACCCGATCCGAGGTATGATCCACATTATTATGGTTCGGACTCTGC
Found at i:3343979 original size:115 final size:114
Alignment explanation
Indices: 3343763--3343981 Score: 314
Period size: 115 Copynumber: 1.9 Consensus size: 114
3343753 TCTAACCATA
* * *
3343763 TTTATTTATTTATTTATTGTTTCTAATATTCGATTCAACCTTGTGGTGACCCGATCCGAGGTATG
1 TTTATTTATTTATTAATTGTTTCTAATATTCGATTCAACCTTGTGGTGACCCAATCCGAAGTATG
* **
3343828 ATCCGCATTATTATGGTTCGGACTCTACTACCCACTAACTTTTTTTATT
66 ATCCACATTATTATGGTTCGGACTCTACTAAACACTAACTTTTTTTATT
* * * *
3343877 TTTATTTTTTTATTAATTTGTTTTTATTATTCGATTCGACCTTGTGGTGACCCAATCCGAAGTAT
1 TTTATTTATTTATTAA-TTGTTTCTAATATTCGATTCAACCTTGTGGTGACCCAATCCGAAGTAT
*
3343942 GATCCACATTATTATGG-TCTGGACTCTGCTAAACACTAAC
65 GATCCACATTATTATGGTTC-GGACTCTACTAAACACTAAC
3343982 CGCTAACTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
114 16 0.17
115 76 0.83
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (114 bp):
TTTATTTATTTATTAATTGTTTCTAATATTCGATTCAACCTTGTGGTGACCCAATCCGAAGTATG
ATCCACATTATTATGGTTCGGACTCTACTAAACACTAACTTTTTTTATT
Found at i:3344020 original size:16 final size:17
Alignment explanation
Indices: 3343977--3344020 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
3343967 CTGCTAAACA
3343977 CTAACCGCTAA-CTTTT
1 CTAACCGCTAATCTTTT
* *
3343993 CTAACAGTTAATC-TTT
1 CTAACCGCTAATCTTTT
3344009 CTAACCGCTAAT
1 CTAACCGCTAAT
3344021 TACTAACTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (17 bp):
CTAACCGCTAATCTTTT
Found at i:3345479 original size:3 final size:3
Alignment explanation
Indices: 3345471--3345505 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
3345461 TCTACAAAAA
3345471 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3345506 ACTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:3351233 original size:2 final size:2
Alignment explanation
Indices: 3351226--3351251 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3351216 GTTTAAAAAG
3351226 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
3351252 GGAAAGACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3353978 original size:14 final size:14
Alignment explanation
Indices: 3353922--3353978 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
3353912 TTATAAAATA
*
3353922 TAAAAAAAT-ATTT
1 TAAATAAATAATTT
3353935 T-AAT-AATAAATTT
1 TAAATAAAT-AATTT
*
3353948 TAAATAAATAATAT
1 TAAATAAATAATTT
*
3353962 TAAATAAATTATTT
1 TAAATAAATAATTT
3353976 TAA
1 TAA
3353979 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 3 0.08
12 2 0.06
13 6 0.17
14 22 0.61
15 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATAAATAATTT
Found at i:3357513 original size:57 final size:57
Alignment explanation
Indices: 3357433--3357719 Score: 365
Period size: 57 Copynumber: 5.2 Consensus size: 57
3357423 ATGGCACTGA
* *
3357433 GTGTGAAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * * *
3357490 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * *
3357547 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGTACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * * *
3357604 GTGTGCAAAAAGTCAATAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* *
3357661 GTGTGCCAAAAA-CTAAGAAATTC------A-TGTATGAATTTCCGTATGGGCACTAT
1 GTGTG-CAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
*
3357711 GAGTGCAAA
1 GTGTGCAAA
3357720 CTAAGAAATT
Statistics
Matches: 204, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
49 4 0.02
50 29 0.14
51 1 0.00
57 164 0.80
58 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
Found at i:3357625 original size:114 final size:114
Alignment explanation
Indices: 3357433--3357685 Score: 420
Period size: 114 Copynumber: 2.2 Consensus size: 114
3357423 ATGGCACTGA
* *
3357433 GTGTGAAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
*
3357498 AAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
66 AAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
*
3357547 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGTACTTTGTGTGCAA
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
*
3357612 AAAG-TCAATAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
66 AAAGAT-AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
*
3357661 GTGTGCCAAAAA-CTAAGAAATTCAT
1 GTGTG-CAAAAAGTTAAGAAATTCAT
3357686 GTATGAATTT
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
113 1 0.01
114 124 0.95
115 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (114 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
AAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
Found at i:3359523 original size:3 final size:3
Alignment explanation
Indices: 3359515--3359586 Score: 76
Period size: 3 Copynumber: 24.0 Consensus size: 3
3359505 ATTTATTTAT
* * * *
3359515 TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TAA TCA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
3359560 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
3359587 AAAAATAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 4 0.07
3 48 0.83
4 6 0.10
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:3360821 original size:40 final size:40
Alignment explanation
Indices: 3360744--3360822 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
3360734 AGTTTTATAA
* *
3360744 TTTTATATTTTAATTATTCAAATTTTAGTTTTGATTATTT
1 TTTTATATTTTAATTATTCAAATTATAGTTTTAATTATTT
*
3360784 TTTTATATTTTATATT-TT-AATATTATATTTTTAATTATT
1 TTTTATATTTTA-ATTATTCAA-ATTATAGTTTTAATTATT
3360823 ATTTGCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.06
40 29 0.85
41 3 0.09
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (40 bp):
TTTTATATTTTAATTATTCAAATTATAGTTTTAATTATTT
Found at i:3360822 original size:15 final size:15
Alignment explanation
Indices: 3360777--3360824 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
3360767 TTTAGTTTTG
*
3360777 ATTATTTTTTTATATT
1 ATTATATTTTTA-ATT
3360793 -TTATA-TTTTAA-T
1 ATTATATTTTTAATT
3360805 ATTATATTTTTAATT
1 ATTATATTTTTAATT
3360820 ATTAT
1 ATTAT
3360825 TTGCAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 6 0.21
14 11 0.39
15 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATATTTTTAATT
Found at i:3360825 original size:13 final size:13
Alignment explanation
Indices: 3360772--3360851 Score: 51
Period size: 14 Copynumber: 6.1 Consensus size: 13
3360762 CAAATTTTAG
*
3360772 TTTTGATTATT-T
1 TTTTAATTATTAT
3360784 TTTTATATT-TTAT
1 TTTTA-ATTATTAT
3360797 ATTTTAA-TATTATAT
1 -TTTTAATTA-T-TAT
3360812 TTTTAATTATTAT
1 TTTTAATTATTAT
**
3360825 TTGCAA-TATTAT
1 TTTTAATTATTAT
*
3360837 TTTATTATTATTAT
1 TTT-TAATTATTAT
3360851 T
1 T
3360852 ACTTTTTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
12 15 0.28
13 13 0.25
14 20 0.38
15 5 0.09
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTATTAT
Found at i:3360837 original size:3 final size:3
Alignment explanation
Indices: 3360831--3360876 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
3360821 TTATTTGCAA
* *
3360831 TAT TAT T-T TAT TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
3360876 T
1 T
3360877 TATATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:3360878 original size:19 final size:19
Alignment explanation
Indices: 3360831--3360879 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
3360821 TTATTTGCAA
3360831 TATTATTTTATTATTATTAT
1 TATTA-TTTATTATTATTAT
*
3360851 TACTT-TTTATTATTATTCT
1 TA-TTATTTATTATTATTAT
3360870 TATTATTTAT
1 TATTATTTAT
3360880 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 2 0.08
21 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:3361109 original size:116 final size:115
Alignment explanation
Indices: 3360971--3361192 Score: 286
Period size: 117 Copynumber: 1.9 Consensus size: 115
3360961 TATTTTAATA
* * * * *
3360971 TTTATTTATTTATTTTTCAATAT-TAAGAAATG-GCAGTCTTAAAATAACTGGATGTCCATTTTC
1 TTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCC-TTTTC
*
3361034 TGATATTTTTAAATAAATAAATATCTTATTTTATAAATTATATAGTAATTGTT
65 TGATATTTATAAATAAATAAATATCTTA-TTTATAAA-TATATAGTAATTGTT
* * ** *
3361087 TTTATTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCT
1 TTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCT
* *
3361152 TATATTTATAAATAAATAAATATTTTATTTATAAATATATA
66 GATATTTATAAATAAATAAATATCTTATTTATAAATATATA
3361193 AATTAATATA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
115 6 0.07
116 30 0.33
117 37 0.41
118 18 0.20
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (115 bp):
TTTATTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCT
GATATTTATAAATAAATAAATATCTTATTTATAAATATATAGTAATTGTT
Found at i:3361219 original size:27 final size:30
Alignment explanation
Indices: 3361157--3361220 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
3361147 TTTCTTATAT
*
3361157 TTATAAATAAATAAATATTTTATTTATAAA
1 TTATAAATAAATAAATATTTTATTCATAAA
* *
3361187 TATATAAATTAATATATA-TTT-TTCAT-AA
1 T-TATAAATAAATAAATATTTTATTCATAAA
3361215 TTATAA
1 TTATAA
3361221 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.17
28 3 0.10
29 4 0.13
30 4 0.13
31 14 0.47
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTATAAATAAATAAATATTTTATTCATAAA
Found at i:3361718 original size:18 final size:16
Alignment explanation
Indices: 3361691--3361734 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
3361681 TTTCTTTCAA
*
3361691 ATTTTTTATTACTTATT
1 ATTTTTTATTA-TTAAT
3361708 ATTTTTATATTATTAAT
1 ATTTTT-TATTATTAAT
3361725 ATTTTTTATT
1 ATTTTTTATT
3361735 TATGAAGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATTATTAAT
Found at i:3366819 original size:11 final size:11
Alignment explanation
Indices: 3366805--3366834 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3366795 AAAACAACAA
3366805 AAAGAAAAAAG
1 AAAGAAAAAAG
3366816 AAAGAAAAAAG
1 AAAGAAAAAAG
3366827 AAA-AAAAA
1 AAAGAAAAA
3366835 GGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:3371106 original size:39 final size:40
Alignment explanation
Indices: 3371051--3371129 Score: 151
Period size: 39 Copynumber: 2.0 Consensus size: 40
3371041 TGAGCAGAAG
3371051 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
3371091 CCACAG-AAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
3371130 TGAGCTGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
39 33 0.85
40 6 0.15
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (40 bp):
CCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
Found at i:3371563 original size:22 final size:22
Alignment explanation
Indices: 3371535--3371586 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
3371525 TACACTCTTC
* *
3371535 AAAGATGATAGATTCCCTTTTT
1 AAAGATGACAGATTCCCTTTTA
*
3371557 AAAGATGACAGATTCTCTTTTA
1 AAAGATGACAGATTCCCTTTTA
3371579 AAAGATGA
1 AAAGATGA
3371587 AAGCTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
AAAGATGACAGATTCCCTTTTA
Found at i:3372426 original size:114 final size:114
Alignment explanation
Indices: 3371974--3372646 Score: 1127
Period size: 114 Copynumber: 5.9 Consensus size: 114
3371964 TTTCAAAGAT
* *
3371974 TCAAATCCATCACTTGATGGATCAGCTTTTTCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
*
3372039 AAGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGC
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
3372088 TCAAATCCATCATTTGATGGATCAGTTTTTTTCAGAAAAAAGTTCATAATAAGAAGAACTCATCT
1 TCAAATCCATCATTTGATGGATCAG-CTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
3372153 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
3372203 TCAAATCCATCATTCGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
3372267 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTC
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
3372316 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
3372381 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
3372430 TCAAATCCATCATTTGATGGATCAACTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT-
*
3372494 AAGAAGGAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGC
65 ------GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
3372550 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
*
3372615 AAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
66 AAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
3372647 CTCATCTGAA
Statistics
Matches: 529, Mismatches: 19, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
113 141 0.27
114 168 0.32
115 110 0.21
120 82 0.16
121 28 0.05
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (114 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:3372451 original size:227 final size:227
Alignment explanation
Indices: 3371974--3372646 Score: 1132
Period size: 227 Copynumber: 2.9 Consensus size: 227
3371964 TTTCAAAGAT
* *
3371974 TCAAATCCATCACTTGATGGATCAGCTTTTTCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
* *
3372039 AAGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
65 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
* * *
3372104 ATGGATCAGTTTTTTTCAGAAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
130 ATGGATCAG-CTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
3372169 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
194 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
3372203 TCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
3372268 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTCTCAAATCCATCATTTGA
66 AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
3372333 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
131 TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
3372398 TCATAATGAGAAGAATTTGTTCAACCTTTTGC
196 TCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
3372430 TCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT--
*
3372495 AGAAGGAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCAT
64 -GAA-G-A-AA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCAT
* *
3372560 CATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
124 CATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
3372625 AA-AAAGTTCATAATGAGAAGAA
189 AAGAAA-TTCATAATGAGAAGAA
3372647 CTCATCTGAA
Statistics
Matches: 421, Mismatches: 15, Indels: 11
0.94 0.03 0.02
Matches are distributed among these distances:
227 147 0.35
228 101 0.24
229 31 0.07
230 3 0.01
231 1 0.00
232 1 0.00
233 5 0.01
234 132 0.31
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (227 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:3372638 original size:40 final size:40
Alignment explanation
Indices: 3372585--3372686 Score: 161
Period size: 40 Copynumber: 2.5 Consensus size: 40
3372575 CTTTTCCAGA
3372585 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
* *
3372625 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
*
3372665 AGGAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
3372687 ATTGATCATC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 55 0.95
41 3 0.05
ACGTcount: A:0.53, C:0.08, G:0.22, T:0.18
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
Found at i:3372899 original size:114 final size:114
Alignment explanation
Indices: 3372625--3373483 Score: 1384
Period size: 113 Copynumber: 7.5 Consensus size: 114
3372615 AAGAAAGAAG
* *
3372625 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
* * * ** * * ** *
3372690 GATCATCCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
* *
3372740 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
3372805 GTTCAACCTTTTGCTCAAATCCATCATTTGTTGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
3372854 AAAAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
3372919 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
3372967 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
* * ** * * ** *
3373032 GATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
*
3373082 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
3373147 GTTAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
3373196 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
3373260 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
3373308 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
3373373 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
3373422 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
3373484 CTCATTTGAA
Statistics
Matches: 691, Mismatches: 48, Indels: 11
0.92 0.06 0.01
Matches are distributed among these distances:
112 40 0.06
113 247 0.36
114 204 0.30
115 200 0.29
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (114 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:3373475 original size:40 final size:40
Alignment explanation
Indices: 3373422--3373523 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
3373412 CTTTTCCAGA
3373422 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
* *
3373462 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
3373502 AGAAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
3373524 ATTGATCAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 55 0.93
41 4 0.07
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
Found at i:3373636 original size:381 final size:374
Alignment explanation
Indices: 3373081--3373858 Score: 1276
Period size: 381 Copynumber: 2.1 Consensus size: 374
3373071 CATCCCCAGT
* *
3373081 GAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
1 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAAT
* * **
3373146 TGTTAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATG
66 TGATAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGAAAAAAGTTCATAATG
3373211 AGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
131 AGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTTGCTC
3373276 AAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTGAA
195 AAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAA
*
3373340 GAAGGAAGATGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGAT
260 GAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGAT
*
3373405 GGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAA
325 GGATCAACTTTTCCAG--AAAAGTTCAT-A--AG-AGAACTCATCTGAAGAAAGAA
*
3373461 GAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG-AGAAAATTCATAATGAGAAGAAA
1 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAATTCATAATGAGAAGAAA
* * ** * * *
3373525 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
65 TTGATAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAG-AAAAAAGTTCATAA
3373590 TGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGC
129 TGAGAAGAACTCATCTGAAGAAGGAAG-AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGC
3373654 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
193 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
3373719 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
258 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
*
3373784 ATGGATCAACTTTTCCAGAAAAGTTCATAAGAGAACTCATCTGAAGAAGGAA
323 ATGGATCAACTTTTCCAGAAAAGTTCATAAGAGAACTCATCTGAAGAAAGAA
3373836 GAAGAAA-TTCATAATGAGAAGAA
1 GAA-AAAGTTCATAATGAGAAGAA
3373859 TTTGTTTAAC
Statistics
Matches: 376, Mismatches: 17, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
375 39 0.10
376 5 0.01
378 1 0.00
379 12 0.03
380 140 0.37
381 179 0.48
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (374 bp):
GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAAT
TGATAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGAAAAAAGTTCATAATG
AGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGCTCA
AATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATG
GATCAACTTTTCCAGAAAAGTTCATAAGAGAACTCATCTGAAGAAAGAA
Found at i:3373668 original size:267 final size:266
Alignment explanation
Indices: 3373196--3373750 Score: 936
Period size: 267 Copynumber: 2.1 Consensus size: 266
3373186 CTTTTCCAGA
*
3373196 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTG
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAAATTG
* * **
3373261 TTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGA
66 ATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGAAAAAGTTCATAATGAGA
*
3373326 AGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
131 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
3373391 ATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
196 ATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
3373456 AAGAAG
261 AAGAAG
*
3373462 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAATT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG-AAATTCATAATGAGAAGAAATT
* ** * *
3373527 GATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATG
65 GATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCA--GAAAAAGTTCATAATG
3373592 AGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTTGCT
128 AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
3373655 CAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGA
193 CAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGA
*
3373720 AGAAGGAAG
258 AGAAAGAAG
3373729 AAGAAA-TTCATAATGAGAAGAA
1 AA-AAAGTTCATAATGAGAAGAA
3373751 TTTGTTCAAC
Statistics
Matches: 272, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
266 41 0.15
267 157 0.58
268 37 0.14
269 37 0.14
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (266 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAATTCATAATGAGAAGAAATTG
ATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGAAAAAGTTCATAATGAGA
AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
ATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AAGAAG
Found at i:3373801 original size:114 final size:114
Alignment explanation
Indices: 3373462--3373972 Score: 781
Period size: 114 Copynumber: 4.5 Consensus size: 114
3373452 AAGAAAGAAG
* *
3373462 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG-AGAAAATTCATAATGAGAAGAAAT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAATTCATAATGAGAAGAATT
* * ** * * ** *
3373526 TGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
65 TGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
*
3373577 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
3373641 GTTCAACC-TTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
3373689 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
3373754 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
3373802 -AAAAGTTCAT-A--AG-AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
3373862 GTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
3373911 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
3373973 CTCATCTGAA
Statistics
Matches: 368, Mismatches: 18, Indels: 21
0.90 0.04 0.05
Matches are distributed among these distances:
108 93 0.25
109 2 0.01
110 10 0.03
111 2 0.01
112 46 0.12
113 72 0.20
114 106 0.29
115 37 0.10
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (114 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:3373945 original size:222 final size:225
Alignment explanation
Indices: 3373462--3373972 Score: 793
Period size: 227 Copynumber: 2.3 Consensus size: 225
3373452 AAGAAAGAAG
*
3373462 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG-AGAAAATTCATAATGAGAAGAAAT
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAG-AAATTCATAATGAGAAGAAAT
* ** * *
3373526 TGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAAT
65 TGATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAG-GAAAGAGTTCATAA-
3373591 GAGAAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGCTC
128 GAGAAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGCTC
3373656 AAATCCATCATTTGATGGATCAGCTTTTCCAGA
193 AAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
3373689 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATT
* * **
3373754 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCA-GAAA-AGTTCAT-A-AG
66 GATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAGGAAAGAGTTCATAAGAG
*
3373815 -AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCA
131 AAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTTGCTCA
3373879 AATCCATCATTTGATGGATCAGCTTTTCCAGA
194 AATCCATCATTTGATGGATCAGCTTTTCCAGA
*
3373911 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
3373973 CTCATCTGAA
Statistics
Matches: 266, Mismatches: 14, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
220 19 0.07
221 39 0.15
222 96 0.36
223 1 0.00
224 7 0.03
225 4 0.02
227 98 0.37
228 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (225 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATT
GATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAGGAAAGAGTTCATAAGAG
AAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTGCTCAAA
TCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:3373964 original size:40 final size:40
Alignment explanation
Indices: 3373911--3374012 Score: 161
Period size: 40 Copynumber: 2.5 Consensus size: 40
3373901 CTTTTCCAGA
3373911 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
* *
3373951 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
*
3373991 AGTAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
3374013 ATTGATCAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 55 0.95
41 3 0.05
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
Found at i:3373970 original size:489 final size:493
Alignment explanation
Indices: 3372965--3374125 Score: 2152
Period size: 489 Copynumber: 2.4 Consensus size: 493
3372955 CAGCTTTTCC
*
3372965 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
3373030 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
3373095 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
131 TGAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
3373160 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
195 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
3373225 GAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
260 GAAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
* *
3373290 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAAT
325 ATGGATCAACTTTTCCAGAAAAAGTTCATAA-GAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
3373355 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
389 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
*
3373420 GAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
454 GAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
*
3373460 AGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
3373525 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
*
3373590 TGAGAAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACC-TTTGC
131 TGAGAAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTGC
3373654 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
196 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
3373719 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
261 AAGAAGGAAG-AGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
3373784 ATGGATCAACTTTTCCAG-AAAAGTTCAT-A-AG-AGAACTCATCTGAAGAAGGAAGAAGAAATT
325 ATGGATCAACTTTTCCAGAAAAAGTTCATAAGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATT
*
3373845 CATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
390 CATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG
3373910 AAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
455 AAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
*
3373949 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGTAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
3374014 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
* *
3374079 TGAGAAGAACTCATCTGAAGAAAGAAGAAAAAAGTTCATAATGAGAA
131 TGAGAAGAACTCATCTGAAG-AAGGAGAAGAAA-TTCATAATGAGAA
3374126 AAACTCATCT
Statistics
Matches: 652, Mismatches: 11, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
489 279 0.43
490 12 0.02
491 13 0.02
492 1 0.00
493 90 0.14
494 105 0.16
495 152 0.23
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (493 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
TGAGAAGAACTCATCTGAAGAAGGAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTGC
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
TGGATCAACTTTTCCAGAAAAAGTTCATAAGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTC
ATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
Found at i:3374131 original size:41 final size:41
Alignment explanation
Indices: 3374070--3374165 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
3374060 CCAGTGAAAG
*
3374070 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAA
1 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
* **
3374111 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAGGAA
1 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
3374152 A-TTCATAATGAGAA
1 AGTTCATAATGAGAA
3374166 GAAATTGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 13 0.25
41 38 0.75
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (41 bp):
AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
Found at i:3374157 original size:156 final size:155
Alignment explanation
Indices: 3373306--3373637 Score: 499
Period size: 154 Copynumber: 2.2 Consensus size: 155
3373296 CAGCTTTTCC
* *
3373306 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
* * ** * * ** * *
3373371 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
3373435 TGAGAAGAACTCATCTGAAGAAAGA
131 TGAGAAGAACTCATCTGAAGAAAGA
* *
3373460 AGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
3373525 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
*
3373590 TGAGAAGAACTCATCTGAAG-AAGG
131 TGAGAAGAACTCATCTGAAGAAAGA
3373614 AGAAGAAA-TTCATAATGAGAAGAA
1 AGAA-AAAGTTCATAATGAGAAGAA
3373638 TTTGTTCAAC
Statistics
Matches: 161, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
154 126 0.78
155 35 0.22
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (155 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
TGAGAAGAACTCATCTGAAGAAAGA
Found at i:3374158 original size:156 final size:155
Alignment explanation
Indices: 3373815--3374284 Score: 746
Period size: 156 Copynumber: 3.0 Consensus size: 155
3373805 AGTTCATAAG
* * * * * **
3373815 AGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAA
1 AGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTGTTTGA
* * ** * * *
3373880 ATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATAATGAGAAGAACTCATATGAAG
66 ATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
3373944 AAAGAAGAAAAAGTTCATAATGAGA
131 AAAGAAGAAAAAGTTCATAATGAGA
*
3373969 AGAACTCATCTGAAGAAGGAAGAGTAAATTCATAATGAGAAGAAATTGATCAACCTTTTGTTTGA
1 AGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTGTTTGA
3374034 ATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
66 ATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
3374099 AAAGAAGAAAAAAGTTCATAATGAGA
131 AAAGAAG-AAAAAGTTCATAATGAGA
* *
3374125 AAAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTATTTGA
1 AGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTGTTTGA
*
3374190 ATTTATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
66 ATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
*
3374255 -AAGAAGAAGAAGTTCATAATGAGA
131 AAAGAAGAAAAAGTTCATAATGAGA
3374279 AGAACT
1 AGAACT
3374285 TGTTCAACTT
Statistics
Matches: 293, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
154 105 0.36
155 44 0.15
156 144 0.49
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (155 bp):
AGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTGTTTGA
ATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAG
AAAGAAGAAAAAGTTCATAATGAGA
Found at i:3374319 original size:114 final size:112
Alignment explanation
Indices: 3374111--3374410 Score: 395
Period size: 114 Copynumber: 2.6 Consensus size: 112
3374101 AGAAGAAAAA
* * * * *
3374111 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
3374176 AACCTTTTATTTGAATTTATCATTTGATGGATCAGCATCCCCAGTGAAAG
65 AACCTTTTACTCGAATTCATCACTCGATGGATCAACATCCCCA--GAAAG
3374226 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* ** *
3374291 A-CTTTTCACTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
66 ACCTTTT-ACTCGAATTCATCACTCGATGGATCAACATCCCCAGAAAG
*
3374338 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
3374403 GACCTTTT
65 AACCTTTT
3374411 GCATGACTCT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
112 33 0.20
113 40 0.24
114 62 0.38
115 30 0.18
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTACTCGAATTCATCACTCGATGGATCAACATCCCCAGAAAG
Found at i:3374480 original size:17 final size:17
Alignment explanation
Indices: 3374458--3374512 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
3374448 GCATTTCCAA
3374458 AAGAACTTCACAATGAG
1 AAGAACTTCACAATGAG
3374475 AAGAAC-TCATCTGAA-GAAG
1 AAGAACTTCA-C--AATG-AG
*
3374494 AAGAAGTTCACAATGAG
1 AAGAACTTCACAATGAG
3374511 AA
1 AA
3374513 TAGCTTGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
16 3 0.10
17 13 0.42
18 2 0.06
19 10 0.32
20 3 0.10
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (17 bp):
AAGAACTTCACAATGAG
Found at i:3374739 original size:3 final size:3
Alignment explanation
Indices: 3374731--3374805 Score: 55
Period size: 3 Copynumber: 25.0 Consensus size: 3
3374721 ATTTATTTAT
* * * * * * *
3374731 TTA TTA TTA TTA TTA TAA TAA TTA TAA TAA TTA TAA TCA TTA -CA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
3374779 TTA TTA -TA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA
3374806 AAAAATAATA
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
2 3 0.05
3 51 0.86
4 5 0.08
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:3375796 original size:2 final size:2
Alignment explanation
Indices: 3375789--3375821 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3375779 TCCTTATCCT
*
3375789 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3375822 TTAGGTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:3381621 original size:153 final size:153
Alignment explanation
Indices: 3381377--3381683 Score: 566
Period size: 153 Copynumber: 2.0 Consensus size: 153
3381367 ATGAGTGAAG
3381377 AGGGCATTTTGGTCCTTTAAGGGAATGATTTAAAAGTATTTCTTATTAGGGATTTTATTAGGGTA
1 AGGGCATTTTGGTCCTTTAAGGGAATGATTTAAAAGTATTTCTTATTAGGGATTTTATTAGGGTA
3381442 AAAGAGGAAAGTAAGTCAACAAGCTATCTCTTATTCTTATTCTTTTTTTTTCATGG-TTTGTA-T
66 AAAGAGGAAAGTAAGTCAACAAGCTATCTCTTATTCTTATTCTTTTTTTTTCATGGCTTTGTACT
3381505 CTCCTCTATAGCTCCAAAGGTAA
131 CTCCTCTATAGCTCCAAAGGTAA
3381528 AGGGCA-TTTGGTCCTTTAAGGGGAAATGATTTAAAAGTATTTTCTTATTAGGGATTTTATTAGG
1 AGGGCATTTTGGTCCTTTAA-GGG-AATGATTTAAAAGTA-TTTCTTATTAGGGATTTTATTAGG
3381592 GTAAAAGAGGAAAGTAAGTCAACAAGCTATCTCTTATTCTTATTCTTTTTTTTTCATGGCTTTGT
63 GTAAAAGAGGAAAGTAAGTCAACAAGCTATCTCTTATTCTTATTCTTTTTTTTTCATGGCTTTGT
3381657 ACTCTCCTCTATAGCTCCAAAGGTAA
128 ACTCTCCTCTATAGCTCCAAAGGTAA
3381683 A
1 A
3381684 CTTTAATTAA
Statistics
Matches: 151, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
150 13 0.09
151 9 0.06
152 15 0.10
153 83 0.55
154 6 0.04
155 25 0.17
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (153 bp):
AGGGCATTTTGGTCCTTTAAGGGAATGATTTAAAAGTATTTCTTATTAGGGATTTTATTAGGGTA
AAAGAGGAAAGTAAGTCAACAAGCTATCTCTTATTCTTATTCTTTTTTTTTCATGGCTTTGTACT
CTCCTCTATAGCTCCAAAGGTAA
Found at i:3382213 original size:19 final size:20
Alignment explanation
Indices: 3382191--3382232 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3382181 ATGGTATTGG
*
3382191 TACCGTAATAGA-GTATCGA
1 TACCATAATAGAGGTATCGA
**
3382210 TACCATGGTAGAGGTATCGA
1 TACCATAATAGAGGTATCGA
3382230 TAC
1 TAC
3382233 TATTGAGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TACCATAATAGAGGTATCGA
Found at i:3382643 original size:57 final size:56
Alignment explanation
Indices: 3382563--3383052 Score: 523
Period size: 57 Copynumber: 8.8 Consensus size: 56
3382553 ATGGCACTGA
* *
3382563 GTGTGTAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTTC-GTATGGGCACTTT
* *
3382620 GTGTACAAAAAGTTAAGAAATTCATAATTAA-TTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAA-TAAGTGTATGAA-TTTCGTATGGGCACTTT
* * * *
3382677 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTTCGTATAGGAACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAA-TTTCGTATGGGCACTTT
** * *
3382734 GTGTGCAAAAACCTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAA-TTTCGTATGGGCACTTT
* * *
3382791 GTGTGC-AAAATTTAAGAAATTCATAATTAGTTTATGAATATTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAAT-TTCGTATGGGCACTTT
* *
3382847 GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT-CGTATGGGCACTTT
** * * * *
3382904 GTGCACAAACAA-CTAAGAAATTTATACTAAGTGTATGAATTAT-GTATGGGCACTAT
1 GTGTGCAAA-AAGTTAAGAAATTCATAATAAGTGTATGAATT-TCGTATGGGCACTTT
* * * * * *
3382960 GTGT---ACAAGCTAA-AAATTCATACTAAGTGTGTGAATTTACGTATGGGAACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT-CGTATGGGCACTTT
* * **
3383013 ATGTGCAAACA--TAAGAAATTCATAATAAGTGGGTGAATTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT
3383053 TCATATTGGT
Statistics
Matches: 377, Mismatches: 41, Indels: 32
0.84 0.09 0.07
Matches are distributed among these distances:
51 1 0.00
52 24 0.06
53 20 0.05
54 3 0.01
55 24 0.06
56 69 0.18
57 226 0.60
58 10 0.03
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (56 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTTCGTATGGGCACTTT
Found at i:3382859 original size:170 final size:168
Alignment explanation
Indices: 3382576--3383052 Score: 581
Period size: 170 Copynumber: 2.8 Consensus size: 168
3382566 TGTAAAAAGT
* *
3382576 TAAGAAATTCATAATAAGTTTATGAATTTCA-GTATGGGCACTTTGTGTACAAAAAGTTAAGAAA
1 TAAGAAATTCATACTAAGTGTATGAATTT-ATGTATGGGCACTTTGTGT-C-AAAAGTTAAGAAA
*
3382640 TTCATAATTAATTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAAT
63 TTCATAATTAGTTTATGAA-TTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAAT
* * * **
3382705 TAGTTTATGAATTTTCGTATAGGAACTTTGTGTGCAAA-AACC
127 AAGTGTATGAATTTCCGTATAGGAACTTTGTGCACAAACAA-C
* *
3382747 TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTTTGTGTGCAAAATTTAAGAAATT
1 TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGT-CAAAAGTTAAGAAATT
* *
3382812 CATAATTAGTTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATACTAA
65 CATAATTAGTTTATGAAT-TTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAA
* *
3382877 GTGTATGAATTTCCGTATGGGCACTTTGTGCACAAACAAC
129 GTGTATGAATTTCCGTATAGGAACTTTGTGCACAAACAAC
* * * *
3382917 TAAGAAATTTATACTAAGTGTATGAA-TTATGTATGGGCACTATGTGT-ACAAGCTAA-AAATTC
1 TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGTCAAAAGTTAAGAAATTC
* * * * * * * *
3382979 ATACTAAGTGTGTGAATTTACGTATGGGAACTATATGTGCAAACA--TAAGAAATTCATAATAAG
66 ATAATTAGTTTATGAATTT-CGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAG
**
3383042 TGGGTGAATTT
130 TGTATGAATTT
3383053 TCATATTGGT
Statistics
Matches: 269, Mismatches: 33, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
164 25 0.09
165 2 0.01
166 40 0.15
167 6 0.02
169 20 0.07
170 129 0.48
171 47 0.17
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (168 bp):
TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGTCAAAAGTTAAGAAATTC
ATAATTAGTTTATGAATTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAATAAGT
GTATGAATTTCCGTATAGGAACTTTGTGCACAAACAAC
Found at i:3382865 original size:113 final size:113
Alignment explanation
Indices: 3382570--3383042 Score: 565
Period size: 113 Copynumber: 4.2 Consensus size: 113
3382560 TGAGTGTGTA
*
3382570 AAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTTGTGTACAAAAAGT-T
1 AAAAGTTAAGAAATTCATAATAAGTTTATGAATTTC-GTATGGGCACTTTGTGTGCAAAAAGTCT
* *
3382634 AAGAAATTCATAATTAA-TTTATGAATTTTCGTATGGGCACTTTGTGTGC
65 AAGAAATTCAT-ACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC
* * * *
3382683 AAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTTCGTATAGGAACTTTGTGTGCAAAAA-CC
1 -AAAAGTTAAGAAATTCATAATAAGTTTATGAA-TTTCGTATGGGCACTTTGTGTGCAAAAAGTC
*
3382747 TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTTTGTGTGC
64 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
3382797 AAAATTTAAGAAATTCATAATTAGTTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTC-
1 AAAAGTTAAGAAATTCATAATAAGTTTATGAAT-TTCGTATGGGCACTTTGTGTGCAAAAAGTCT
* **
3382861 AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTTGTGCAC
65 AAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC
** * * * * *
3382910 AAACAACTAAGAAATTTATACTAAGTGTATGAATTAT-GTATGGGCACTATGTGT---ACAAG-C
1 AAA-AGTTAAGAAATTCATAATAAGTTTATGAATT-TCGTATGGGCACTTTGTGTGCAAAAAGTC
* * * * *
3382970 TAA-AAATTCATACTAAGTGTGTGAATTTACGTATGGGAACTATATGTGC
64 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC
3383019 AAACA--TAAGAAATTCATAATAAGT
1 AAA-AGTTAAGAAATTCATAATAAGT
3383043 GGGTGAATTT
Statistics
Matches: 318, Mismatches: 33, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
107 17 0.05
109 45 0.14
110 6 0.02
112 1 0.00
113 125 0.39
114 120 0.38
115 4 0.01
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (113 bp):
AAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCGTATGGGCACTTTGTGTGCAAAAAGTCTA
AGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTGC
Found at i:3385336 original size:28 final size:28
Alignment explanation
Indices: 3385296--3385350 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
3385286 TACATGTATT
*
3385296 CATCTTTTGATTTGT-ATTTGTGTTTTTG
1 CATCTTTTGATTT-TCATTTGTATTTTTG
3385324 CATCTTTAT-ATTTTCATTTGTATTTTT
1 CATCTTT-TGATTTTCATTTGTATTTTT
3385351 AAATTTGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.04
28 22 0.92
29 1 0.04
ACGTcount: A:0.15, C:0.09, G:0.11, T:0.65
Consensus pattern (28 bp):
CATCTTTTGATTTTCATTTGTATTTTTG
Found at i:3387013 original size:169 final size:169
Alignment explanation
Indices: 3386698--3387034 Score: 568
Period size: 168 Copynumber: 2.0 Consensus size: 169
3386688 TCAATTCATT
* * * * * *
3386698 CAGAAAGTTTAAGCCTTATAAAGTGTTCTTGAACCTTTCTAAACCTTTAAATCCATCTAGTAACA
1 CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
* *
3386763 CTTATGCTTGATTCTTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAACTAGGGGAAAGGAGAAG
66 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAACTAGGGGAAAGGAGAAG
3386828 CTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
131 CTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
*
3386867 CAGAAAGTTTAA-ACTTAGGAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
1 CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
3386931 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAGCTAGGGGAAAGGAGAA
66 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAA-CTAGGGGAAAGGAGAA
*
3386996 GCTCACTCTTGGTTGAACCTTGGGTGTTTCCAGTAGCTT
130 GCTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTT
3387035 GGGACATGAA
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
168 91 0.58
169 66 0.42
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.31
Consensus pattern (169 bp):
CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAACTAGGGGAAAGGAGAAG
CTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
Found at i:3388100 original size:16 final size:16
Alignment explanation
Indices: 3388081--3388115 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3388071 CACTTCAGCC
3388081 GCCAACTGGCATAGAT
1 GCCAACTGGCATAGAT
3388097 GCCAACTGGCATAGAT
1 GCCAACTGGCATAGAT
3388113 GCC
1 GCC
3388116 CCAAGAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (16 bp):
GCCAACTGGCATAGAT
Found at i:3391444 original size:97 final size:97
Alignment explanation
Indices: 3391278--3391474 Score: 367
Period size: 97 Copynumber: 2.0 Consensus size: 97
3391268 AAAAGGAAGA
*
3391278 CTGTTTGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
1 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
*
3391343 CAATTCCTAGGATAAACGATCTCTTCAATTAT
66 CAATTCCTAGGATAAACAATCTCTTCAATTAT
3391375 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
1 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
*
3391440 CAATTTCTAGGATAAACAATCTCTTCAATTAT
66 CAATTCCTAGGATAAACAATCTCTTCAATTAT
3391472 CTG
1 CTG
3391475 AGGGGAGGGT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (97 bp):
CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
CAATTCCTAGGATAAACAATCTCTTCAATTAT
Found at i:3397283 original size:14 final size:14
Alignment explanation
Indices: 3397264--3397296 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3397254 ATGGAGAGAG
3397264 AGAAATAAAA-ATAA
1 AGAAATAAAATA-AA
3397278 AGAAATAAAATAAA
1 AGAAATAAAATAAA
3397292 AGAAA
1 AGAAA
3397297 GGAATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AGAAATAAAATAAA
Found at i:3397297 original size:18 final size:18
Alignment explanation
Indices: 3397266--3397310 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3397256 GGAGAGAGAG
*
3397266 AAATAAAAATAAAGAAATA
1 AAAT-AAAAGAAAGAAATA
*
3397285 AAATAAAAGAAAGGAATA
1 AAATAAAAGAAAGAAATA
*
3397303 AAGTAAAA
1 AAATAAAA
3397311 CATAATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAAGAAAGAAATA
Found at i:3397443 original size:13 final size:13
Alignment explanation
Indices: 3397425--3397463 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
3397415 ATCCAGGAAC
*
3397425 AAAATAGAAATAA
1 AAAATAAAAATAA
3397438 AAAATAAAAAT-A
1 AAAATAAAAATAA
*
3397450 AATATAAAAATAA
1 AAAATAAAAATAA
3397463 A
1 A
3397464 TTCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:3397446 original size:6 final size:6
Alignment explanation
Indices: 3397425--3397463 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
3397415 ATCCAGGAAC
* *
3397425 AAAATA GAAATAA AAAATA AAAATA AATATA AAAATA AA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AA
3397464 TTCATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:3416405 original size:27 final size:27
Alignment explanation
Indices: 3416374--3416433 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
3416364 TAAAAGTCAA
3416374 CGGCTCGATGGCTTGGCTCAAGTCGAT
1 CGGCTCGATGGCTTGGCTCAAGTCGAT
3416401 CGGCTCGATGGCTTGGCTCAAGTCGAT
1 CGGCTCGATGGCTTGGCTCAAGTCGAT
3416428 CGGCTC
1 CGGCTC
3416434 AGCTAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.13, C:0.28, G:0.33, T:0.25
Consensus pattern (27 bp):
CGGCTCGATGGCTTGGCTCAAGTCGAT
Done.