Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 187 of 210
Found at i:55211985 original size:20 final size:19
Alignment explanation
Indices: 55211969--55212028 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
55211959 CCATTTTTTC
55211969 AAAATTTTTCGTGTTTTCAA
1 AAAATTTTT-GTGTTTTCAA
55211989 AAAATTTTTGTG-TTTC-A
1 AAAATTTTTGTGTTTTCAA
* * *
55212006 AAAATATTCGTGTTTTTAA
1 AAAATTTTTGTGTTTTCAA
55212025 AAAA
1 AAAA
55212029 AATTTCCTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 11 0.31
18 7 0.20
19 8 0.23
20 9 0.26
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (19 bp):
AAAATTTTTGTGTTTTCAA
Found at i:55211991 original size:19 final size:19
Alignment explanation
Indices: 55211964--55212027 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
55211954 AAATTCCATT
55211964 TTTTC-AAAATTTTTCGTG
1 TTTTCAAAAATTTTTCGTG
55211982 TTTTCAAAAAATTTTT-GTG
1 TTTTC-AAAAATTTTTCGTG
*
55212001 -TTTCAAAAA-TATTCGTG
1 TTTTCAAAAATTTTTCGTG
*
55212018 TTTTTAAAAA
1 TTTTCAAAAA
55212028 AAATTTCCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 8 0.20
18 17 0.43
19 3 0.08
20 9 0.22
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (19 bp):
TTTTCAAAAATTTTTCGTG
Found at i:55212264 original size:18 final size:17
Alignment explanation
Indices: 55212190--55212263 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
55212180 NNNNNNNNNN
* *
55212190 TAAAAATTTTCGCGTTT
1 TAAAAATTCTCGTGTTT
*
55212207 CT-AAAATTTTCGTG-TT
1 -TAAAAATTCTCGTGTTT
*
55212223 TACAAATTCTCGTGTTT
1 TAAAAATTCTCGTGTTT
55212240 TCAAAAATTCTCGTGTTT
1 T-AAAAATTCTCGTGTTT
55212258 TAAAAA
1 TAAAAA
55212264 AAACTTTCGT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
15 1 0.02
16 12 0.24
17 19 0.39
18 17 0.35
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.45
Consensus pattern (17 bp):
TAAAAATTCTCGTGTTT
Found at i:55214010 original size:21 final size:21
Alignment explanation
Indices: 55213984--55214079 Score: 75
Period size: 21 Copynumber: 4.4 Consensus size: 21
55213974 CAACAACTTA
* *
55213984 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* **
55214005 AAGCAGATGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
* *
55214026 AAGTAGAGGCCGCAGTGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
** *
55214047 AAGCAGCGAGAGAAGCAGCGATAG
1 AAGCA--GAG-GCCGCAGCGAGAG
55214071 AAGCAGAGG
1 AAGCAGAGG
55214080 TTCAAAAGAA
Statistics
Matches: 58, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 38 0.66
22 3 0.05
23 3 0.05
24 14 0.24
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:55214057 original size:12 final size:12
Alignment explanation
Indices: 55214037--55214076 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
55214027 AGTAGAGGCC
*
55214037 GCAGTGAGAGAA
1 GCAGCGAGAGAA
55214049 GCAGCGAGAGAA
1 GCAGCGAGAGAA
*
55214061 GCAGCGATAGAA
1 GCAGCGAGAGAA
55214073 GCAG
1 GCAG
55214077 AGGTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.40, T:0.05
Consensus pattern (12 bp):
GCAGCGAGAGAA
Found at i:55214561 original size:42 final size:42
Alignment explanation
Indices: 55214513--55214717 Score: 213
Period size: 42 Copynumber: 4.9 Consensus size: 42
55214503 TTTGTGAAAT
* *
55214513 AAGCGCCGCTAAAGAACACTA-CTATTAGCGGCGTTTTTGAAC
1 AAGCGCCGCTAAAGAACACGATCT-TTAGCGGCGTTTTTGCAC
* * ** * *
55214555 AAGCGCCGCTATAGAGCATTA-CTTTTAGCGGCATTTTCCTCCA-
1 AAGCGCCGCTAAAGAACACGATC-TTTAGCGGCGTTTT--TGCAC
55214598 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCG-TTTTGTC-C
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTG-CAC
* *
55214639 TAAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTCAT
1 -AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTGCAC
* *
55214682 AAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTT
1 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTT
55214718 ATTTCCTTAG
Statistics
Matches: 138, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 102 0.74
43 31 0.22
44 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTGCAC
Found at i:55214602 original size:85 final size:84
Alignment explanation
Indices: 55214511--55214717 Score: 242
Period size: 85 Copynumber: 2.5 Consensus size: 84
55214501 CATTTGTGAA
* * * *
55214511 ATAAGCGCCGCTAAAGAACACTA-CTATTAGCGGCGTTTTTGAAC-AAGCGCCGCTATAGAGCAT
1 ATAAGCGCCGCTAAAGAACACGATCT-TTAGCGGCG-TTTTGAACTAAGCGCCGCTAAAGAACAC
*
55214574 TA-CTTTTAGCGGCATTTTCCTCC
64 GATC-TTTAGCGGCATTTT--TCC
**
55214597 A-AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTGTCCTAAGCGCCGCTAAAGAACACGA
1 ATAAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTGAACTAAGCGCCGCTAAAGAACACGA
* *
55214661 TCTTTAGCGGCGTTTTTTC
66 TCTTTAGCGGCATTTTTCC
* *
55214680 ATAAGCGCCGCTAAAGAACATGATCTTTAACGGCGTTT
1 ATAAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTT
55214718 ATTTCCTTAG
Statistics
Matches: 106, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
83 3 0.03
84 40 0.38
85 59 0.56
86 4 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (84 bp):
ATAAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTGAACTAAGCGCCGCTAAAGAACACGA
TCTTTAGCGGCATTTTTCC
Found at i:55219954 original size:20 final size:19
Alignment explanation
Indices: 55219917--55219961 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
55219907 TTAGTTCTTT
55219917 ATTTTTTTAATTTAATTTAA
1 ATTTTTTTAATTTAATTT-A
** *
55219937 ATTTTTTTCGTTTTATTTA
1 ATTTTTTTAATTTAATTTA
55219956 ATTTTT
1 ATTTTT
55219962 CATATAAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTTAATTTAATTTA
Found at i:55230788 original size:14 final size:14
Alignment explanation
Indices: 55230771--55230804 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55230761 GGGTCGGGAA
*
55230771 TTTTTAAAGCAAAAT
1 TTTTTAAAG-AAAAC
55230786 TTTTTAAAGAAAAC
1 TTTTTAAAGAAAAC
55230800 TTTTT
1 TTTTT
55230805 GATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
TTTTTAAAGAAAAC
Found at i:55230791 original size:15 final size:15
Alignment explanation
Indices: 55230771--55230804 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
55230761 GGGTCGGGAA
55230771 TTTTTAAAGCAAAA-T
1 TTTTTAAAG-AAAACT
55230786 TTTTTAAAGAAAACT
1 TTTTTAAAGAAAACT
55230801 TTTT
1 TTTT
55230805 GATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (15 bp):
TTTTTAAAGAAAACT
Found at i:55238464 original size:39 final size:40
Alignment explanation
Indices: 55238421--55238498 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
55238411 TTGGGATTTT
* *
55238421 TTTAGGGTT-GAAACTGATTCGAGAATTGATTAAGAAGGG
1 TTTAGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGGG
* *
55238460 TTTAGGGTTAGAAACTGATTCAATAATCGATTAATAAGG
1 TTTAGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGG
55238499 TAAAGGGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (40 bp):
TTTAGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGGG
Found at i:55238511 original size:40 final size:40
Alignment explanation
Indices: 55238424--55238507 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
55238414 GGATTTTTTT
* * **
55238424 AGGGTT-GAAACTGATTCGAGAATTGATTAAGAAGGGTTT
1 AGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGGGTAA
* *
55238463 AGGGTTAGAAACTGATTCAATAATCGATTAATAA-GGTAA
1 AGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGGGTAA
55238502 AGGGTT
1 AGGGTT
55238508 TAGAGTATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 15 0.39
40 23 0.61
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (40 bp):
AGGGTTAGAAACTGATTCAAGAATCGATTAAGAAGGGTAA
Found at i:55238733 original size:6 final size:6
Alignment explanation
Indices: 55238724--55238796 Score: 74
Period size: 6 Copynumber: 12.2 Consensus size: 6
55238714 TTCAATTTCA
* * * **
55238724 ATTTTG ATTTTG ATTCTA ATTTTG ATTTTG ATTTTG ATTTCG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * *
55238772 ATTTCG ATTTCG ATTTCG ATTTTG A
1 ATTTTG ATTTTG ATTTTG ATTTTG A
55238797 AACACTCACT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.58
Consensus pattern (6 bp):
ATTTTG
Found at i:55238733 original size:12 final size:12
Alignment explanation
Indices: 55238724--55238877 Score: 80
Period size: 12 Copynumber: 12.8 Consensus size: 12
55238714 TTCAATTTCA
*
55238724 ATTTTGATTTTG
1 ATTTCGATTTTG
*
55238736 A-TTCTAATTTTG
1 ATTTC-GATTTTG
*
55238748 ATTTTGATTTTG
1 ATTTCGATTTTG
**
55238760 ATTTCGATTTCA
1 ATTTCGATTTTG
*
55238772 ATTTCGATTTCG
1 ATTTCGATTTTG
55238784 ATTTCGATTTTG
1 ATTTCGATTTTG
** **
55238796 A-AAC-ACTCACTG
1 ATTTCGA-T-TTTG
*
55238808 ATTTTGATTTTG
1 ATTTCGATTTTG
55238820 ATTTCGATTTTG
1 ATTTCGATTTTG
* * **
55238832 ATCTCAATTTAA
1 ATTTCGATTTTG
* *
55238844 ATTTTGATTTAG
1 ATTTCGATTTTG
** *
55238856 ATTTTAATTTGG
1 ATTTCGATTTTG
55238868 ATTTCGATTT
1 ATTTCGATTT
55238878 GGTTATTAAA
Statistics
Matches: 105, Mismatches: 31, Indels: 12
0.71 0.21 0.08
Matches are distributed among these distances:
10 1 0.01
11 4 0.04
12 96 0.91
13 3 0.03
14 1 0.01
ACGTcount: A:0.23, C:0.09, G:0.13, T:0.55
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:55238763 original size:18 final size:18
Alignment explanation
Indices: 55238742--55238877 Score: 87
Period size: 18 Copynumber: 7.6 Consensus size: 18
55238732 TTTGATTCTA
* *
55238742 ATTTTGATTTTGATTTTG
1 ATTTCGATTTCGATTTTG
* *
55238760 ATTTCGATTTCAATTTCG
1 ATTTCGATTTCGATTTTG
55238778 ATTTCGATTTCGATTTTG
1 ATTTCGATTTCGATTTTG
** **
55238796 A-AAC-ACTCACTGATTTTG
1 ATTTCGA-TTTC-GATTTTG
*
55238814 ATTTTGATTTCGATTTTG
1 ATTTCGATTTCGATTTTG
* * **
55238832 ATCTCAATTTAAATTTTG
1 ATTTCGATTTCGATTTTG
* ** *
55238850 ATTTAGATTTTAATTTGG
1 ATTTCGATTTCGATTTTG
55238868 ATTTCGATTT
1 ATTTCGATTT
55238878 GGTTATTAAA
Statistics
Matches: 88, Mismatches: 26, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 81 0.92
19 2 0.02
20 1 0.01
ACGTcount: A:0.24, C:0.10, G:0.13, T:0.54
Consensus pattern (18 bp):
ATTTCGATTTCGATTTTG
Found at i:55238817 original size:6 final size:6
Alignment explanation
Indices: 55238806--55238877 Score: 54
Period size: 6 Copynumber: 12.0 Consensus size: 6
55238796 AAACACTCAC
* * ** **
55238806 TGATTT TGATTT TGATTT CGATTT TGATCT CAATTT AAATTT TGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* * * *
55238854 AGATTT TAATTT GGATTT CGATTT
1 TGATTT TGATTT TGATTT TGATTT
55238878 GGTTATTAAA
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.57
Consensus pattern (6 bp):
TGATTT
Found at i:55239340 original size:15 final size:15
Alignment explanation
Indices: 55239320--55239349 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
55239310 AGAAGAAATA
55239320 TGTCTGGCAGTGATG
1 TGTCTGGCAGTGATG
*
55239335 TGTCTGGTAGTGATG
1 TGTCTGGCAGTGATG
55239350 CATTTGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.40, T:0.37
Consensus pattern (15 bp):
TGTCTGGCAGTGATG
Found at i:55241009 original size:2 final size:2
Alignment explanation
Indices: 55241002--55241060 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
55240992 ATTGTTGTTT
55241002 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55241044 TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG T
55241061 CGTTGTTGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:55242236 original size:23 final size:24
Alignment explanation
Indices: 55242205--55242250 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
55242195 TTCTAACATA
*
55242205 TGAGCATTGA-AAAAACAAATGTG
1 TGAGAATTGAGAAAAACAAATGTG
*
55242228 TGAGAATTGAGAAATACAAATGT
1 TGAGAATTGAGAAAAACAAATGT
55242251 TTTTTTCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.48, C:0.07, G:0.22, T:0.24
Consensus pattern (24 bp):
TGAGAATTGAGAAAAACAAATGTG
Found at i:55242475 original size:14 final size:13
Alignment explanation
Indices: 55242447--55242516 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 13
55242437 AGCAATGTAT
*
55242447 AACAACATA-AGC
1 AACAATATACAGC
55242459 AACAATATACCAGC
1 AACAATATA-CAGC
* *
55242473 AACCATATATA-C
1 AACAATATACAGC
*
55242485 --CAACATA-AGC
1 AACAATATACAGC
55242495 AACAATATACCAGC
1 AACAATATA-CAGC
55242509 AACAATAT
1 AACAATAT
55242517 TACAAAACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 1 0.02
10 6 0.13
12 15 0.33
13 1 0.02
14 22 0.49
ACGTcount: A:0.53, C:0.26, G:0.06, T:0.16
Consensus pattern (13 bp):
AACAATATACAGC
Found at i:55242489 original size:36 final size:36
Alignment explanation
Indices: 55242428--55242530 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
55242418 GATAGCCATG
* * *
55242428 TATACCAGCAGCAATGTATAACAACATAAGCAACAA
1 TATACCAGCAACAATATATACCAACATAAGCAACAA
*
55242464 TATACCAGCAACCATATATACCAACATAAGCAACAA
1 TATACCAGCAACAATATATACCAACATAAGCAACAA
*
55242500 TATACCAGCAACAATAT-TACAAAACATAAGC
1 TATACCAGCAACAATATATAC-CAACATAAGC
55242531 CGATTTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 3 0.05
36 57 0.95
ACGTcount: A:0.50, C:0.24, G:0.08, T:0.17
Consensus pattern (36 bp):
TATACCAGCAACAATATATACCAACATAAGCAACAA
Found at i:55242504 original size:20 final size:20
Alignment explanation
Indices: 55242444--55242506 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
55242434 AGCAGCAATG
*
55242444 TATAACAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
*
55242464 TATACCAGC--AA-C--CATA
1 TATACCAACATAAGCAACA-A
55242480 TATACCAACATAAGCAACAA
1 TATACCAACATAAGCAACAA
55242500 TATACCA
1 TATACCA
55242507 GCAACAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
15 2 0.06
16 9 0.26
17 1 0.03
18 4 0.12
19 1 0.03
20 15 0.44
21 2 0.06
ACGTcount: A:0.52, C:0.25, G:0.05, T:0.17
Consensus pattern (20 bp):
TATACCAACATAAGCAACAA
Found at i:55242911 original size:26 final size:27
Alignment explanation
Indices: 55242868--55242928 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
55242858 GGCATATCTA
*
55242868 TTTTTCCTCTTCTCCTTCCTCTTCTTT-
1 TTTTTCTTCTTCTCCTTCCTCTT-TTTC
* *
55242895 TTTTTCTTC-TCTTCTTCTTCTTTTTC
1 TTTTTCTTCTTCTCCTTCCTCTTTTTC
55242921 TTTTTCTT
1 TTTTTCTT
55242929 TTTTTTAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 3 0.10
26 19 0.63
27 8 0.27
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTTCTTCTTCTCCTTCCTCTTTTTC
Found at i:55243520 original size:15 final size:16
Alignment explanation
Indices: 55243500--55243545 Score: 67
Period size: 15 Copynumber: 2.9 Consensus size: 16
55243490 CTATTATATG
55243500 ATTTATATTTTAAAA-
1 ATTTATATTTTAAAAT
*
55243515 ATTTATTTTTTAAAAT
1 ATTTATATTTTAAAAT
55243531 ATTTATATTATTAAA
1 ATTTATATT-TTAAA
55243546 TATAATGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 14 0.52
16 8 0.30
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATATTTTAAAAT
Found at i:55243546 original size:16 final size:16
Alignment explanation
Indices: 55243476--55243548 Score: 62
Period size: 16 Copynumber: 4.5 Consensus size: 16
55243466 ATGTTTAGAT
55243476 TTAAATATTTGA-ATCTA
1 TTAAATATTT-ATAT-TA
*
55243493 TTATATGATTTATATT-
1 TTAAAT-ATTTATATTA
* *
55243509 TTAAAAATTTAT-TTT
1 TTAAATATTTATATTA
55243524 TTAAAATATTTATATTA
1 TT-AAATATTTATATTA
55243541 TTAAATAT
1 TTAAATAT
55243549 AATGTTGCTT
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 2 0.04
15 8 0.17
16 19 0.41
17 11 0.24
18 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (16 bp):
TTAAATATTTATATTA
Found at i:55246132 original size:31 final size:31
Alignment explanation
Indices: 55246065--55246133 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
55246055 CTTAATAGCC
* * *
55246065 CAGTAACTTAAATAAAAATATTTGAATAGTT
1 CAGTGACTTAAATAAAAATATTTAAATAATT
*
55246096 CAGTGACTTAAATGAAAAT-TTTCAAATAATT
1 CAGTGACTTAAATAAAAATATTT-AAATAATT
*
55246127 TAGTGAC
1 CAGTGAC
55246134 CAATAAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.35
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAATATTTAAATAATT
Found at i:55247540 original size:17 final size:17
Alignment explanation
Indices: 55247518--55247552 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
55247508 TTTAAGTCTT
55247518 AAAACACTACATAATTA
1 AAAACACTACATAATTA
*
55247535 AAAACACTATATAATTA
1 AAAACACTACATAATTA
55247552 A
1 A
55247553 GTTTGGTTAA
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:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAACACTACATAATTA
Found at i:55247859 original size:23 final size:25
Alignment explanation
Indices: 55247817--55247865 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
55247807 AAAATTTAAA
* *
55247817 ATATTTATAAAAATTCT-AAAATTT
1 ATATTTATAAAAAATATAAAAATTT
55247841 ATATTT-TAAAAAATATAAAAATTT
1 ATATTTATAAAAAATATAAAAATTT
55247865 A
1 A
55247866 AAAATTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATATTTATAAAAAATATAAAAATTT
Found at i:55247884 original size:40 final size:40
Alignment explanation
Indices: 55247824--55247916 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
55247814 AAAATATTTA
* * * *
55247824 TAAAAATTCTAAAATTTATATTTTAAAAAA-TATAAAAATT
1 TAAAAATTCTAAAATATATATATAAAAAAAGT-TAAAAAGT
55247864 TAAAAATTCTAAAGA-ATATATATAAAAAAAGTTAAAAAGT
1 TAAAAATTCTAAA-ATATATATATAAAAAAAGTTAAAAAGT
*
55247904 T-AAAATTTTAAAA
1 TAAAAATTCTAAAA
55247917 ATTTTCTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
38 1 0.02
39 10 0.22
40 33 0.72
41 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (40 bp):
TAAAAATTCTAAAATATATATATAAAAAAAGTTAAAAAGT
Found at i:55250181 original size:126 final size:125
Alignment explanation
Indices: 55249928--55250494 Score: 726
Period size: 126 Copynumber: 4.5 Consensus size: 125
55249918 GATAAAATCA
* * * * * ** * *
55249928 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTTTATGCGCTTTTTCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
55249993 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * * *
55250053 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGTCACGCTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * * *
55250118 TGGTCCTGTAAGAAATAATTTCAAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGTTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
55250179 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
55250244 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCCGAACAAATAGTATAAAACAACG-TTGC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTT-C
* ** *
55250305 AAACAACATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
55250369 TTGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTAAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
55250429 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
55250494 A
66 A
55250495 ACATGTTTGG
Statistics
Matches: 379, Mismatches: 57, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
123 2 0.01
124 60 0.16
125 102 0.27
126 213 0.56
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:55250387 original size:251 final size:250
Alignment explanation
Indices: 55249928--55250494 Score: 780
Period size: 251 Copynumber: 2.3 Consensus size: 250
55249918 GATAAAATCA
* * * ** * *
55249928 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTTTATGCGCTTTTTCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
55249993 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGCA
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCCGAACAAATAGTATAAAAAACGCTTCAAACA
** * *
55250058 GGATGCTTTGTGAGAAGAATTTGTGAAATTGCGCCCTCGTGGTCACGCTTTTACTACAGTTGGTC
131 ACATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTACTACAGTTGGTC
* * * * * *
55250123 CTGTAAGAAATAATTTCAAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGTTTC
196 CTGGAAGAAATAATTTCAACTTGACGTTTCTAAGCAAATAGTAT-AAAAACGCTTC
*
55250179 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
55250244 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCCGAACAAATAGTATAAAACAACG-TTGCAAA
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCCGAACAAATAGTATAAAA-AACGCTT-CAAA
* *
55250308 CAACATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTG
129 CAACATGCT-TTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTACTACAGTTG
* *
55250372 GTCCTGGAA-AAATAATTTCGACTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTC
193 GTCCTGGAAGAAATAATTTCAACTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTC
* * * *
55250429 TAGCAGGATGTTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
55250494 A
66 A
55250495 ACATGTTTGG
Statistics
Matches: 280, Mismatches: 33, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
250 71 0.25
251 137 0.49
252 70 0.25
253 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGATTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCCGAACAAATAGTATAAAAAACGCTTCAAACA
ACATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACACGCTTTTACTACAGTTGGTC
CTGGAAGAAATAATTTCAACTTGACGTTTCTAAGCAAATAGTATAAAAACGCTTC
Found at i:55253726 original size:21 final size:21
Alignment explanation
Indices: 55253665--55254850 Score: 792
Period size: 21 Copynumber: 55.0 Consensus size: 21
55253655 TCAAATTATA
55253665 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55253687 TTT-AGATTAACGGTCTAGGGTT
1 TTTAAG-TTAA-GGTTTAGGGTT
*
55253709 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
** *
55253730 TTTGGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
55253751 TTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* *
55253773 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
55253794 TTTAAGTTAAAAGTTTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
* * *
55253816 TTTAGGTTAATAGTCTAGGG-T
1 TTTAAGTTAA-GGTTTAGGGTT
*
55253837 TTTAGAGTGAAGGTTTAGGG-T
1 TTTA-AGTTAAGGTTTAGGGTT
* *
55253858 TTTAAGTTAGGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
55253879 TTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
* * **
55253901 TTTAATTTAAGGGTTAAAGTT
1 TTTAAGTTAAGGTTTAGGGTT
55253922 TTTAAGTTAAGAGTTTAGGG-T
1 TTTAAGTTAAG-GTTTAGGGTT
*
55253943 CTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* **
55253965 TTAAAGTTAAAATTTAGGG-T
1 TTTAAGTTAAGGTTTAGGGTT
* * *
55253985 TTTAGGTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254006 TTTAGGGTTTAGAGTTTAAAGTTTAAGGTT
1 TTTA-AG-TTA-AG------GTTTAGGGTT
* * *
55254036 TTTAA-TTAAGGGTTAAGATT
1 TTTAAGTTAAGGTTTAGGGTT
***
55254056 TTTAAGTTAAGGGTTTAAATTTT
1 TTTAAGTTAA-GGTTT-AGGGTT
* ** *
55254079 TTTAGGCCAATGATTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254101 TTAAAGTTAAGGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
55254122 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254143 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
55254165 TTTAATTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254186 ATTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254208 TTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
55254230 TTAAAGTTAAAGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * * *
55254251 TTTAGGTTAGGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254272 TTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* ** **
55254294 TTTAATTTAAGGGCTATCGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
55254315 CTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
55254337 TTAAAGTTAAGGTTTAAGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* * *
55254358 TTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254379 TTTATGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254401 TTTAATTTAA-GTGTTAGGGTT
1 TTTAAGTTAAGGT-TTAGGGTT
*
55254422 CTTAAGTTAAAGGTTTAGGGTT
1 TTTAAGTT-AAGGTTTAGGGTT
*
55254444 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
55254466 TTAAAATTAAGGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
55254487 TTT-A--T---G-TTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254501 TTTAATTTAAGGGTTTATGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
55254523 TTTAATTTAAGGGTTATGGTT
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254544 CTTAAGTTAAGGGTTTAGAGTTTAGGGT
1 TTTAAGTTAA-GGTTT--AG----GGTT
* *
55254572 TTTAGGTTAAGGGTCTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254594 TTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254616 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* * *
55254638 TTTAATTTAAGGGTTAGTGTT
1 TTTAAGTTAAGGTTTAGGGTT
*
55254659 TTTGA-TTGAAGAGTTTAGGGTGT
1 TTTAAGTT-AAG-GTTTAGGGT-T
*
55254682 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTT
* *
55254704 TTAAAATTAAGAG-TTAGGG-T
1 TTTAAGTTAAG-GTTTAGGGTT
* *
55254724 TTTAGGTTAATAGG-TTAGAGTT
1 TTTAAGTT-A-AGGTTTAGGGTT
* * *
55254746 TTAAAGTTTAGGGTTAGGG-T
1 TTTAAGTTAAGGTTTAGGGTT
* *
55254766 TTTAGGTTTAGGGTTTAGGGTT
1 TTTAAG-TTAAGGTTTAGGGTT
* *
55254788 TTAAAGTTAAGAG-TTAGTGTT
1 TTTAAGTTAAG-GTTTAGGGTT
* * *
55254809 TTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAA-GGTTTAGGGTT
*
55254831 TTTAAGTTAAGGGTTAGGGT
1 TTTAAGTTAAGGTTTAGGGT
55254851 GATGGTTTTT
Statistics
Matches: 917, Mismatches: 184, Indels: 127
0.75 0.15 0.10
Matches are distributed among these distances:
14 11 0.01
15 2 0.00
17 1 0.00
18 1 0.00
20 58 0.06
21 394 0.43
22 373 0.41
23 37 0.04
24 6 0.01
26 4 0.00
27 3 0.00
28 16 0.02
30 11 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGTTTAGGGTT
Found at i:55253726 original size:43 final size:42
Alignment explanation
Indices: 55253665--55254850 Score: 756
Period size: 43 Copynumber: 27.5 Consensus size: 42
55253655 TCAAATTATA
*
55253665 TTTAAGTTAAGGGTTTAGGGTTTTTAGATTAACGGTCTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGATTAAGGGT-TAGGGTT
* * *
55253709 TTAAAGTTAAGGTTTAGGGTTTTTGGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
*
55253751 TTTAGGTTAAGAGTTTAGGGTTTTTA-ATTTAAGGGTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* * **
55253794 TTTAAGTTAAAAGTTTAGGGTTTTTAGGTTAATAGTCTAGGG-T
1 TTTAAGTT-AAGGTTTAGGGTTTTTAGATTAAGGGT-TAGGGTT
* * *
55253837 TTTAGAGTGAAGGTTTAGGGTTTTAAG-TTAGGGGTTAGGGTT
1 TTTA-AGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
* **
55253879 TTTAGGTTAAAGGTTTAGGGTTTTTA-ATTTAAGGGTTAAAGTT
1 TTTAAGTT-AAGGTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* *
55253922 TTTAAGTTAAGAGTTTAGGGTCTTAAG-TTAAGGGTTTAGGGTT
1 TTTAAGTTAAG-GTTTAGGGTTTTTAGATTAAGGG-TTAGGGTT
* ** * *
55253965 TTAAAGTTAAAATTTAGGG-TTTTAGGTTAAGGGTTAGAGTTTTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAG-G--GTT
* * * *
55254009 AGGGTTTAGAGTTTAAAGTTTAAGGTTTTTA-ATTAAGGGTTAAGATT
1 ----TTTA-AG-TTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
*** *** **
55254056 TTTAAGTTAAGGGTTTAAATTTTTTTAGGCCAATGATTTAGGGTT
1 TTTAAGTTAA-GGTTT-AGGGTTTTTAGATTAA-GGGTTAGGGTT
* * *
55254101 TTAAAGTTAAGGTTTAGGGTTTTCAGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
* * *
55254143 TTTAGGTTAAGGGTTTATGGTTTTTA-ATTTAAGGGTTAGTGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* * *
55254186 ATTAAGTTAAGGGTTTAAGGTTTTTAAATTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGATTAAGGG-TTAGGGTT
* * * * *
55254230 TTAAAGTTAAAGTTTAGGGTTTTTAGGTTAGGGGTTAGAGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
* * * **
55254272 TTTAGGTTAAGGGTTTATGGTTTTTA-ATTTAAGGGCTATCGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* * * *
55254315 CTTAAGTTAAGGGTTTAGGG-TTTTAAAGTTAAGGTTTAAGGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* * * *
55254358 TTCAGGTTAAGGGTTAGGGTTTTTATG-TTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTA-GATTAAGGG-TTAGGGTT
* * *
55254401 TTTAATTTAA-GTGTTAGGGTTCTTA-AGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGT-TTAGGGTTTTTAGA-TT-AAGGGTTAGGGTT
* * * *
55254444 TTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
*
55254487 TTT-A--T---G-TTAGGGTTTTTA-ATTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGA-TTAAGGG-TTAGGGTT
* * * * *
55254523 TTTAATTTAAGGGTTATGGTTCTTA-AGTTAAGGGTTTAGAGTTTAGGGT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGA-TTAAGGG-TT--AG----GGTT
* * *
55254572 TTTAGGTTAAGGGTCTAGGG-TTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGA-TTAAGGG-TTAGGGTT
* *
55254616 TTTAATTTAAGGGTTTAGGGTTTTTA-ATTTAAGGGTTAGTGTT
1 TTTAAGTTAA-GGTTTAGGGTTTTTAGA-TTAAGGGTTAGGGTT
* *
55254659 TTTGA-TTGAAGAGTTTAGGGTGTTTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTT-AAG-GTTTAGGGT-TTTTAGATTAAGGG-TTAGGGTT
* * * * *
55254704 TTAAAATTAAGAG-TTAGGG-TTTTAGGTTAATAGGTTAGAGTT
1 TTTAAGTTAAG-GTTTAGGGTTTTTAGATTAA-GGGTTAGGGTT
* * * * *
55254746 TTAAAGTTTAGGGTTAGGG-TTTTAGGTTTAGGGTTTAGGGTT
1 TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGG-TTAGGGTT
* * * *
55254788 TTAAAGTTAAGAG-TTAGTGTTTTTAGGTTAAGGGGTTAGGGGT
1 TTTAAGTTAAG-GTTTAGGGTTTTTAGATTAA-GGGTTAGGGTT
*
55254831 TTTAAGTTAAGGGTTAGGGT
1 TTTAAGTTAAGGTTTAGGGT
55254851 GATGGTTTTT
Statistics
Matches: 914, Mismatches: 152, Indels: 153
0.75 0.12 0.13
Matches are distributed among these distances:
34 1 0.00
35 16 0.02
36 11 0.01
37 1 0.00
39 1 0.00
40 1 0.00
41 22 0.02
42 196 0.21
43 446 0.49
44 108 0.12
45 40 0.04
46 2 0.00
47 2 0.00
48 5 0.01
49 18 0.02
50 39 0.04
51 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.29, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGTTTAGGGTTTTTAGATTAAGGGTTAGGGTT
Found at i:55254010 original size:50 final size:50
Alignment explanation
Indices: 55253956--55254059 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
55253946 AAGTTAAGGG
*
55253956 TTTAGGGTTTTAAAG-TTAAAATTT-AGGGTTTTAGGTTAAGGGTT-AGAGTT
1 TTTAGGG-TTTAAAGTTTAAAATTTAAGGGTTTTA-ATTAAGGGTTAAGA-TT
* * *
55254006 TTTAGGGTTTAGAGTTTAAAGTTTAAGGTTTTTAATTAAGGGTTAAGATT
1 TTTAGGGTTTAAAGTTTAAAATTTAAGGGTTTTAATTAAGGGTTAAGATT
55254056 TTTA
1 TTTA
55254060 AGTTAAGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
49 6 0.13
50 30 0.64
51 11 0.23
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (50 bp):
TTTAGGGTTTAAAGTTTAAAATTTAAGGGTTTTAATTAAGGGTTAAGATT
Found at i:55254049 original size:35 final size:34
Alignment explanation
Indices: 55254009--55254076 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
55253999 TAGAGTTTTT
* * *
55254009 AGGGTTTAGAGTTTAAAGTTTAAGGTTTTTAATTA
1 AGGGTTAAGAGTTTAAAG-TTAAGGGTTTAAATTA
* *
55254044 AGGGTTAAGATTTTTAAGTTAAGGGTTTAAATT
1 AGGGTTAAGAGTTTAAAGTTAAGGGTTTAAATT
55254077 TTTTTAGGCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 13 0.46
35 15 0.54
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (34 bp):
AGGGTTAAGAGTTTAAAGTTAAGGGTTTAAATTA
Found at i:55254497 original size:57 final size:57
Alignment explanation
Indices: 55254436--55254559 Score: 158
Period size: 57 Copynumber: 2.2 Consensus size: 57
55254426 AGTTAAAGGT
* * *
55254436 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGTTTAGGGTTTTTATG
1 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAG
* * * * * *
55254493 TTAGGGTTTTTAATTTAAGGGTTTATGGTTTTTAATTTAAGGGTTATGGTTCTTAAG
1 TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAG
55254550 TTAAGGGTTT
1 TT-AGGGTTT
55254560 AGAGTTTAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
57 50 0.88
58 7 0.12
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (57 bp):
TTAGGGTTTTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAG
Found at i:55254504 original size:36 final size:35
Alignment explanation
Indices: 55254459--55254526 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
55254449 GTTAAGGGTC
55254459 TAGGGTTTTAAAATTAA-GGTTTAGGGTTTTTATGT
1 TAGGGTTTT-AAATTAAGGGTTTAGGGTTTTTATGT
* *
55254494 TAGGGTTTTTAATTTAAGGGTTTATGGTTTTTA
1 TAGGG-TTTTAAATTAAGGGTTTAGGGTTTTTA
55254527 ATTTAAGGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (35 bp):
TAGGGTTTTAAATTAAGGGTTTAGGGTTTTTATGT
Found at i:55254565 original size:14 final size:14
Alignment explanation
Indices: 55254548--55254585 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
55254538 ATGGTTCTTA
55254548 AGTTAAGGGTTTAG
1 AGTTAAGGGTTTAG
*
55254562 AGTTTAGGGTTTTAG
1 AGTTAAGGG-TTTAG
55254577 -GTTAAGGGT
1 AGTTAAGGGT
55254586 CTAGGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 15 0.71
15 5 0.24
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (14 bp):
AGTTAAGGGTTTAG
Found at i:55254571 original size:57 final size:55
Alignment explanation
Indices: 55254444--55254573 Score: 127
Period size: 57 Copynumber: 2.3 Consensus size: 55
55254434 GTTTAGGGTT
* * * * *
55254444 TTTAAGTTAAGGGTCTAGGGTTTTAAAATTAAGGTTTAGGGTTTTTATGTTAGGG
1 TTTAAGTTTAGGGTTTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAGTTAGGG
* * * *
55254499 TTTTTAA-TTTAAGGGTTTATGGTTTTTAATTTAAGGGTTATGGTTCTTAAGTTAAGGG
1 --TTTAAGTTT-AGGGTTTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAGTT-AGGG
55254557 TTTAGAGTTTAGGGTTT
1 TTTA-AGTTTAGGGTTT
55254574 TAGGTTAAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
56 6 0.10
57 47 0.78
58 7 0.12
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.48
Consensus pattern (55 bp):
TTTAAGTTTAGGGTTTAGGGTTTTAAAATTAAGGGTTAGGGTTCTTAAGTTAGGG
Found at i:55254573 original size:50 final size:50
Alignment explanation
Indices: 55254513--55254616 Score: 131
Period size: 50 Copynumber: 2.1 Consensus size: 50
55254503 TAATTTAAGG
* * *
55254513 GTTTATGGTTTTTAATTTAAGGGT-TATGGTTCTT-AAGTTAAGGGTTTAGA
1 GTTTA-GGGTTTTAAGTTAAGGGTCTAGGGTT-TTAAAGTTAAGGGTTTAGA
* *
55254563 GTTTAGGGTTTTAGGTTAAGGGTCTAGGGTTTTAAAGTTAAGGGTTTAGG
1 GTTTAGGGTTTTAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGGTTTAGA
55254613 GTTT
1 GTTT
55254617 TTAATTTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 17 0.36
50 30 0.64
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (50 bp):
GTTTAGGGTTTTAAGTTAAGGGTCTAGGGTTTTAAAGTTAAGGGTTTAGA
Found at i:55254584 original size:28 final size:29
Alignment explanation
Indices: 55254540--55254594 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
55254530 TAAGGGTTAT
*
55254540 GGTTCTTAAGTTAAGGGTTTAGAGTTTAG
1 GGTTCTTAAGTTAAGGGTCTAGAGTTTAG
* *
55254569 GGTT-TTAGGTTAAGGGTCTAGGGTTT
1 GGTTCTTAAGTTAAGGGTCTAGAGTTT
55254595 TAAAGTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.20, C:0.04, G:0.35, T:0.42
Consensus pattern (29 bp):
GGTTCTTAAGTTAAGGGTCTAGAGTTTAG
Found at i:55254685 original size:66 final size:65
Alignment explanation
Indices: 55254563--55254850 Score: 273
Period size: 66 Copynumber: 4.5 Consensus size: 65
55254553 AGGGTTTAGA
** * *
55254563 GTTTAGGG-TTTTAGGTTAAGGGTCTAGGGTTTTAAAGTTAAGGGTTTAGGGTTTTTAATTTAAG
1 GTTTAGGGTTTTTAAATTAAGGGT-TAGGGTTTTAAAGTTAAGAGTTTAGGGTTTTTAAGTTAAG
55254627 G
65 G
* * ** *
55254628 GTTTAGGGTTTTTAATTTAAGGGTTAGTGTTTTTGA-TTGAAGAGTTTAGGGTGTTTTAGGTTAA
1 GTTTAGGGTTTTTAAATTAAGGGTTAGGGTTTTAAAGTT-AAGAGTTTAGGGT-TTTTAAGTTAA
55254692 GG
64 GG
* * * * * * * *
55254694 GTTTAGGGTTTTAAAATTAAGAGTTAGGGTTTT-AGGTTAATAGGTTAGAGTTTTAAAGTTTAGG
1 GTTTAGGGTTTTTAAATTAAGGGTTAGGGTTTTAAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGG
** * * *
55254758 G-TTAGGG-TTTTAGGTTTAGGGTTTAGGGTTTTAAAGTTAAGAG-TTAGTGTTTTTAGGTTAAG
1 GTTTAGGGTTTTTAAATTAAGGG-TTAGGGTTTTAAAGTTAAGAGTTTAGGGTTTTTAAGTTAAG
55254820 G
65 G
* * *
55254821 GGTTAGGGGTTTTAAGTTAAGGGTTAGGGT
1 GTTTAGGGTTTTTAAATTAAGGGTTAGGGT
55254851 GATGGTTTTT
Statistics
Matches: 182, Mismatches: 33, Indels: 17
0.78 0.14 0.07
Matches are distributed among these distances:
62 9 0.05
63 33 0.18
64 34 0.19
65 51 0.28
66 55 0.30
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (65 bp):
GTTTAGGGTTTTTAAATTAAGGGTTAGGGTTTTAAAGTTAAGAGTTTAGGGTTTTTAAGTTAAGG
Found at i:55254771 original size:14 final size:13
Alignment explanation
Indices: 55254751--55254787 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
55254741 GAGTTTTAAA
55254751 GTTTAGGGTTAGG
1 GTTTAGGGTTAGG
*
55254764 GTTTTAGGTTTAGG
1 G-TTTAGGGTTAGG
55254778 GTTTAGGGTT
1 GTTTAGGGTT
55254788 TTAAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.46
Consensus pattern (13 bp):
GTTTAGGGTTAGG
Found at i:55255450 original size:18 final size:18
Alignment explanation
Indices: 55255424--55255466 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
55255414 GACTCGAAAA
* *
55255424 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
55255442 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
55255460 AGGAAAC
1 AGGAAAC
55255467 GTACCTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:55256090 original size:7 final size:7
Alignment explanation
Indices: 55256080--55256129 Score: 91
Period size: 7 Copynumber: 7.1 Consensus size: 7
55256070 TTATATACAT
55256080 AATACTA
1 AATACTA
55256087 AATACTA
1 AATACTA
*
55256094 AATGCTA
1 AATACTA
55256101 AATACTA
1 AATACTA
55256108 AATACTA
1 AATACTA
55256115 AATACTA
1 AATACTA
55256122 AATACTA
1 AATACTA
55256129 A
1 A
55256130 TCGACTAGCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.56, C:0.14, G:0.02, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:55257273 original size:50 final size:51
Alignment explanation
Indices: 55257219--55257315 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
55257209 AATTATTTAA
55257219 AAATAGGGATTTAAGAG-AATTTA-AGAGGAACTTGAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAAT
* * * *
55257269 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
55257316 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 15 0.37
51 25 0.61
52 1 0.02
ACGTcount: A:0.45, C:0.03, G:0.25, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAAAT
Found at i:55257291 original size:11 final size:11
Alignment explanation
Indices: 55257277--55257353 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
55257267 ATAAATATGG
55257277 ATTTGAGAGAA
1 ATTTGAGAGAA
*
55257288 ATTTTGA-AGGA
1 A-TTTGAGAGAA
55257299 ATTTGAGAGCAA
1 ATTTGAGAG-AA
55257311 A-TTGAGAGGAA
1 ATTTGAGA-GAA
55257322 ATTT-AGAAGAA
1 ATTTGAG-AGAA
55257333 A-TTGAGAGGAA
1 ATTTGAGA-GAA
55257344 ATTTGAGAGA
1 ATTTGAGAGA
55257354 CGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 8 0.15
11 30 0.55
12 17 0.31
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:55257302 original size:22 final size:22
Alignment explanation
Indices: 55257277--55257353 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
55257267 ATAAATATGG
55257277 ATTTGAGAGAAATTTTGA-AGG-A
1 ATTTGAGAGAAA--TTGAGAGGAA
55257299 ATTTGAGAGCAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
55257322 ATTT-AGAAGAAATTGAGAGGAA
1 ATTTGAG-AGAAATTGAGAGGAA
55257344 ATTTGAGAGA
1 ATTTGAGAGA
55257354 CGATTAGTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.08
22 34 0.68
23 12 0.24
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:55257316 original size:33 final size:33
Alignment explanation
Indices: 55257277--55257353 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
55257267 ATAAATATGG
* *
55257277 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGCAA
*
55257311 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGCAA
55257344 ATTTGAGAGA
1 ATTTGAGAGA
55257354 CGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.44, C:0.01, G:0.29, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGCAA
Found at i:55258669 original size:14 final size:14
Alignment explanation
Indices: 55258632--55258669 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
55258622 ATAAACGGGT
*
55258632 ATAATAATTAAAAA
1 ATAATAATTTAAAA
55258646 ATAA-ATATTTAAAA
1 ATAATA-ATTTAAAA
55258660 ATAATAATTT
1 ATAATAATTT
55258670 TTTTTTGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 1 0.05
14 19 0.90
15 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATTTAAAA
Found at i:55268859 original size:17 final size:17
Alignment explanation
Indices: 55268837--55268869 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55268827 TTTTTCTGAT
55268837 TTTAAATAAAAA-TATAA
1 TTTAAA-AAAAAGTATAA
55268854 TTTAAAAAAAAGTATA
1 TTTAAAAAAAAGTATA
55268870 TATATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TTTAAAAAAAAGTATAA
Found at i:55276568 original size:102 final size:102
Alignment explanation
Indices: 55276376--55276566 Score: 226
Period size: 102 Copynumber: 1.8 Consensus size: 102
55276366 AAGAACATGT
* * * *
55276376 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATCCTATTTCGCGCCAAAATGTTTGATGT
1 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATCCTATTTCGCGCCAAAAGGTTAGATAT
* *
55276441 GTTCTTAAGAAAAAAATATAATAAATTAGGAGTTTGC
66 GTCCTAAAGAAAAAAATATAATAAATTAGGAGTTTGC
* * *
55276478 TGGGCTGAGTAACCGGGGTGGGGTGCTT-GGCTGTTAT-CTATCTTCGCGTCAAAAGGTTCAGTA
1 TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATCCTAT-TTCGCGCCAAAAGGTT-AG-A
55276541 TAT-TCCTAAAGCATAAAAAAATATAA
63 TATGTCCTAAAG---AAAAAAATATAA
55276567 ATAATAAATA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
100 4 0.05
101 21 0.28
102 34 0.46
103 3 0.04
105 12 0.16
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
TGGGCTGAGTAACCGGGGTAGGGTGCTTGGGCTGTCATCCTATTTCGCGCCAAAAGGTTAGATAT
GTCCTAAAGAAAAAAATATAATAAATTAGGAGTTTGC
Found at i:55280148 original size:13 final size:13
Alignment explanation
Indices: 55280130--55280155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55280120 AGTGCCGAGT
55280130 GCATAAATGAGAC
1 GCATAAATGAGAC
55280143 GCATAAATGAGAC
1 GCATAAATGAGAC
55280156 TTTAATTGTT
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:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
GCATAAATGAGAC
Found at i:55287310 original size:25 final size:24
Alignment explanation
Indices: 55287262--55287317 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 24
55287252 AAAGGTTTTC
*
55287262 TTTTTTCTTTTTCGATTGGGTTCT
1 TTTTTTCTTTTTCGATTGGCTTCT
*
55287286 TTTTTTCTTTTTCGATTGCTCTTCT
1 TTTTTTCTTTTTCGATTG-GCTTCT
55287311 TTCTTTT
1 TT-TTTT
55287318 TTCTGTTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 18 0.64
25 6 0.21
26 4 0.14
ACGTcount: A:0.04, C:0.16, G:0.11, T:0.70
Consensus pattern (24 bp):
TTTTTTCTTTTTCGATTGGCTTCT
Found at i:55288485 original size:2 final size:2
Alignment explanation
Indices: 55288480--55288512 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
55288470 TACCTCATTT
55288480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55288513 GTATGTATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55293741 original size:3 final size:3
Alignment explanation
Indices: 55293735--55293766 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
55293725 TGATTGTTGT
*
55293735 TGC TGC TGC TGT TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
55293767 TTGTTGCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.28, G:0.34, T:0.38
Consensus pattern (3 bp):
TGC
Found at i:55293749 original size:12 final size:12
Alignment explanation
Indices: 55293732--55293774 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
55293722 AGCTGATTGT
55293732 TGTTGCTGCTGC
1 TGTTGCTGCTGC
55293744 TGTTGCTGCTGC
1 TGTTGCTGCTGC
* *
55293756 TGCTGCTGCTGT
1 TGTTGCTGCTGC
55293768 TGTTGCT
1 TGTTGCT
55293775 TGGAAGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.23, G:0.33, T:0.44
Consensus pattern (12 bp):
TGTTGCTGCTGC
Found at i:55305257 original size:31 final size:29
Alignment explanation
Indices: 55305213--55305315 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
55305203 TATAAACTCC
*
55305213 ATATAT-AATGTAACTTCCATGCAAATTAAA
1 ATATATAAATGTAACTTCAATG-AAATT-AA
* *
55305243 ATATATAAATGTAACTTAAATGGAATTAA
1 ATATATAAATGTAACTTCAATGAAATTAA
* *
55305272 ATCTATAAAATGTAACTTCTATTG-AATT-A
1 ATATAT-AAATGTAACTTC-AATGAAATTAA
*
55305301 ATAGATAAAATGTAA
1 ATATAT-AAATGTAA
55305316 AATTTCCAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
29 21 0.34
30 25 0.40
31 16 0.26
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.35
Consensus pattern (29 bp):
ATATATAAATGTAACTTCAATGAAATTAA
Found at i:55308083 original size:23 final size:23
Alignment explanation
Indices: 55308057--55308109 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
55308047 TCCAAATAAT
*
55308057 ATTAAAAACGACAGCAAAACAAC
1 ATTAAAAACGACAACAAAACAAC
* *
55308080 ATTAAAAACGATAACAAAACAAT
1 ATTAAAAACGACAACAAAACAAC
55308103 A-TAAAAA
1 ATTAAAAA
55308110 TACACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 6 0.22
23 21 0.78
ACGTcount: A:0.66, C:0.15, G:0.06, T:0.13
Consensus pattern (23 bp):
ATTAAAAACGACAACAAAACAAC
Found at i:55311390 original size:15 final size:16
Alignment explanation
Indices: 55311367--55311399 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55311357 CAATTCAATT
*
55311367 TATTTAAAA-TAAAAA
1 TATTAAAAATTAAAAA
55311382 TATTAAAAATTAAAAA
1 TATTAAAAATTAAAAA
55311398 TA
1 TA
55311400 CTATTGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TATTAAAAATTAAAAA
Found at i:55311805 original size:19 final size:19
Alignment explanation
Indices: 55311781--55311824 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
55311771 TTGTAAATTT
55311781 TATATTT-ATAATTTTTATA
1 TATATTTCA-AATTTTTATA
* *
55311800 TATATTTCAATTTTTTTTA
1 TATATTTCAAATTTTTATA
55311819 TATATT
1 TATATT
55311825 AATTTCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 21 0.95
20 1 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TATATTTCAAATTTTTATA
Found at i:55311818 original size:21 final size:23
Alignment explanation
Indices: 55311792--55311837 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
55311782 ATATTTATAA
55311792 TTTTTATATA-T-ATTTCAATTT
1 TTTTTATATATTAATTTCAATTT
*
55311813 TTTTTATATATTAATTTCGATTT
1 TTTTTATATATTAATTTCAATTT
55311836 TT
1 TT
55311838 CATATTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 1 0.05
23 11 0.50
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTATATATTAATTTCAATTT
Found at i:55311820 original size:17 final size:18
Alignment explanation
Indices: 55311778--55311821 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
55311768 TTTTTGTAAA
*
55311778 TTTTATATTTATAATTTT
1 TTTTATATTTACAATTTT
*
55311796 TATATATATTT-CAATTTT
1 T-TTTATATTTACAATTTT
55311814 TTTTATAT
1 TTTTATAT
55311822 ATTAATTTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 8 0.36
19 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTATATTTACAATTTT
Found at i:55311828 original size:17 final size:17
Alignment explanation
Indices: 55311778--55311829 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
55311768 TTTTTGTAAA
*
55311778 TTTTATAT-TTATAATTT
1 TTTTATATATTA-ATTTT
*
55311795 TTATATATATTTCAATTTT
1 TTTTATATA-TT-AATTTT
55311814 TTTTATATATTAATTT
1 TTTTATATATTAATTT
55311830 CGATTTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 12 0.41
18 2 0.07
19 14 0.48
20 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTATATATTAATTTT
Found at i:55312973 original size:21 final size:21
Alignment explanation
Indices: 55312936--55312975 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
55312926 AAATAATGAG
55312936 AAAACAACAAAAAATAGCATT
1 AAAACAACAAAAAATAGCATT
55312957 AAAACAACAAAAAATAGCA
1 AAAACAACAAAAAATAGCA
55312976 AATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.15, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAACAACAAAAAATAGCATT
Found at i:55332465 original size:16 final size:17
Alignment explanation
Indices: 55332425--55332459 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
55332415 TCCTCTACCC
*
55332425 GTGATTTTTTCCGATAA
1 GTGATTTTTCCCGATAA
55332442 GTGATTTTTCCCGATAA
1 GTGATTTTTCCCGATAA
55332459 G
1 G
55332460 GGTTTTCCAC
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:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (17 bp):
GTGATTTTTCCCGATAA
Found at i:55333190 original size:26 final size:26
Alignment explanation
Indices: 55333135--55333191 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
55333125 TGTAAAAATC
* * **
55333135 ATGAAAATAATTATTTTTAACTTTTC
1 ATGAAAATAAATATTTTTAAATTTAA
55333161 ATGAAAATAAATATTTTTAAATTTAA
1 ATGAAAATAAATATTTTTAAATTTAA
55333187 ATGAA
1 ATGAA
55333192 TTAGGCTTGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (26 bp):
ATGAAAATAAATATTTTTAAATTTAA
Found at i:55333440 original size:20 final size:20
Alignment explanation
Indices: 55333409--55333447 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
55333399 TTTTAAAATA
55333409 TAAAAATGAAAAATTATTTTT
1 TAAAAATGAAAAA-TATTTTT
55333430 TAAAAAT-AAAAATATTTT
1 TAAAAATGAAAAATATTTT
55333448 CAGAAAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 5 0.28
21 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (20 bp):
TAAAAATGAAAAATATTTTT
Found at i:55336410 original size:20 final size:20
Alignment explanation
Indices: 55336376--55336417 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
55336366 AACTATTTAA
** *
55336376 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
55336396 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
55336416 AT
1 AT
55336418 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:55341763 original size:17 final size:17
Alignment explanation
Indices: 55341741--55341774 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
55341731 ACATTGCTCA
55341741 GAGCGTAGAGGACCATT
1 GAGCGTAGAGGACCATT
55341758 GAGCGTAGAGGACCATT
1 GAGCGTAGAGGACCATT
55341775 CTCGTCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (17 bp):
GAGCGTAGAGGACCATT
Found at i:55347883 original size:71 final size:71
Alignment explanation
Indices: 55347732--55347909 Score: 191
Period size: 71 Copynumber: 2.5 Consensus size: 71
55347722 ACACATATGA
* * * *
55347732 TATTGTCGGTTTATCCGACCAGCACTAGGCGCAAAACATTGTCAATTTATCTAATCAGTGCGGGG
1 TATTGTCGGTTTATCCGACCAGCGCTAGGCGCAAAACATTATCAATTTATCCAACCAGTGCGGGG
*
55347797 AATATC
66 AACATC
** * ** *
55347803 TATCATCGGTTTATCCGACCAGCGTTAGG-GACAAAACATTATCGGTTTATCCAACCAGTGTGGG
1 TATTGTCGGTTTATCCGACCAGCGCTAGGCG-CAAAACATTATCAATTTATCCAACCAGTGCGGG
* *
55347867 GCACATT
65 GAACATC
55347874 TATTGTCGGTATTA-CCGACCAGCGC-AGGGCGCAAAA
1 TATTGTCGGT-TTATCCGACCAGCGCTA-GGCGCAAAA
55347910 GATTGTTACA
Statistics
Matches: 87, Mismatches: 16, Indels: 8
0.78 0.14 0.07
Matches are distributed among these distances:
70 2 0.02
71 81 0.93
72 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (71 bp):
TATTGTCGGTTTATCCGACCAGCGCTAGGCGCAAAACATTATCAATTTATCCAACCAGTGCGGGG
AACATC
Found at i:55349584 original size:77 final size:77
Alignment explanation
Indices: 55349498--55349657 Score: 302
Period size: 77 Copynumber: 2.1 Consensus size: 77
55349488 GAAAGTTTAG
*
55349498 TATTTTCGGTTTGATTTCAATACTCGATAGGATTTCTAGAGATCCAAGGTTTTAAAATGAGTCAA
1 TATTTTCGGTTTGATTTCAATACTCGATAAGATTTCTAGAGATCCAAGGTTTTAAAATGAGTCAA
55349563 GGTTTCAATCTT
66 GGTTTCAATCTT
55349575 TATTTTCGGTTTGATTTCAATACTCGATAAGATTTCTAGAGATCCAAGGTTTTAAAATGAGTCAA
1 TATTTTCGGTTTGATTTCAATACTCGATAAGATTTCTAGAGATCCAAGGTTTTAAAATGAGTCAA
55349640 GGTTTCAATCTT
66 GGTTTCAATCTT
*
55349652 TCTTTT
1 TATTTT
55349658 ATTTTCAAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 81 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (77 bp):
TATTTTCGGTTTGATTTCAATACTCGATAAGATTTCTAGAGATCCAAGGTTTTAAAATGAGTCAA
GGTTTCAATCTT
Found at i:55354409 original size:15 final size:16
Alignment explanation
Indices: 55354389--55354418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55354379 TTTAACAAAT
55354389 AATT-AAAACAAATGA
1 AATTAAAAACAAATGA
55354404 AATTAAAAACAAATG
1 AATTAAAAACAAATG
55354419 CGTATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (16 bp):
AATTAAAAACAAATGA
Found at i:55357021 original size:111 final size:111
Alignment explanation
Indices: 55356827--55357042 Score: 351
Period size: 111 Copynumber: 1.9 Consensus size: 111
55356817 GAGCTAGAGC
* ***
55356827 CTTTGTTCCACCCACCAGATTGACTCCAACTAGAGGATTGACCTCCTTGATCAGCAGTGGATTGA
1 CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGACCTCCTTGATCAGCACCAGATTGA
* **
55356892 TTCCAAGTCTTGGCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
66 TTCCAACTCTTACCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
* *
55356938 CTTTGTTCCAGCCACCAGACTGACTCCAACTAGAGGATTGGCCTCCTTGATCAGCACCAGATTGA
1 CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGACCTCCTTGATCAGCACCAGATTGA
55357003 TTCCAACTCTTACCTCCACCTCCACTTGTTCCACCATTCC
66 TTCCAACTCTTACCTCCACCTCCACTTGTTCCACCATTCC
55357043 AGCCCTGGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
111 96 1.00
ACGTcount: A:0.21, C:0.37, G:0.14, T:0.28
Consensus pattern (111 bp):
CTTTGTTCCACCCACCAGACTGACTCCAACTAGAGGATTGACCTCCTTGATCAGCACCAGATTGA
TTCCAACTCTTACCTCCACCTCCACTTGTTCCACCATTCCCCCCCT
Found at i:55357312 original size:30 final size:30
Alignment explanation
Indices: 55357276--55357403 Score: 175
Period size: 30 Copynumber: 4.3 Consensus size: 30
55357266 ACCACCTCTT
* * * **
55357276 CCACCTCTACCTCTGTAGCCACCTCTGTCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
55357306 CCACCTCTACCTCCGTAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
*
55357336 CCACCTCTACCTCCGAAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
* * *
55357366 CCGCCTCTTCCTCTGTAGCCTCCACCATCA
1 CCACCTCTACCTCCGTAGCCTCCACCATCA
55357396 CCACCTCT
1 CCACCTCT
55357404 GCCACCAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 87 1.00
ACGTcount: A:0.18, C:0.52, G:0.08, T:0.23
Consensus pattern (30 bp):
CCACCTCTACCTCCGTAGCCTCCACCATCA
Found at i:55357418 original size:60 final size:60
Alignment explanation
Indices: 55357303--55357418 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
55357293 GCCACCTCTG
* * *
55357303 TCACCACCTCTACCTCCGTAGCCTCCACCATCACCACCTCTACCTCCGAAGCCTCCACCA
1 TCACCACCTCTACCTCCGTAGCCTCCACCATCACCACCTCTACCACCAAAACCTCCACCA
* * * *
55357363 TCACCGCCTCTTCCTCTGTAGCCTCCACCATCACCACCTCTGCCACCAAAACCTCC
1 TCACCACCTCTACCTCCGTAGCCTCCACCATCACCACCTCTACCACCAAAACCTCC
55357419 TCTGTCAGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.21, C:0.53, G:0.07, T:0.20
Consensus pattern (60 bp):
TCACCACCTCTACCTCCGTAGCCTCCACCATCACCACCTCTACCACCAAAACCTCCACCA
Found at i:55365547 original size:6 final size:6
Alignment explanation
Indices: 55365538--55365572 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
55365528 TAAACCACCT
* *
55365538 CCTTCT CCTTTC CCTTCC CCTTCC CCTTCC CCTTC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTC
55365573 GACGACATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (6 bp):
CCTTCC
Found at i:55370961 original size:17 final size:17
Alignment explanation
Indices: 55370935--55370976 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
55370925 TGTTTGACTG
*
55370935 AAAATGATTTTTTTAAA
1 AAAATTATTTTTTTAAA
55370952 AAAATTATTTTTTTAAA
1 AAAATTATTTTTTTAAA
55370969 AAAATTAT
1 AAAATTAT
55370977 AACTTTTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AAAATTATTTTTTTAAA
Found at i:55373115 original size:14 final size:14
Alignment explanation
Indices: 55373096--55373122 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55373086 ATCAACTATC
55373096 AAATTTAAAAATTT
1 AAATTTAAAAATTT
55373110 AAATTTAAAAATT
1 AAATTTAAAAATT
55373123 CAACTTATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATTTAAAAATTT
Found at i:55375789 original size:31 final size:31
Alignment explanation
Indices: 55375751--55375816 Score: 107
Period size: 31 Copynumber: 2.1 Consensus size: 31
55375741 AACAACCCAT
55375751 TGACTTAAATAAAAACTTTT-AAATAGTTTAG
1 TGACTTAAATAAAAA-TTTTCAAATAGTTTAG
*
55375782 TGACTTAAATGAAAATTTTCAAATAGTTTAG
1 TGACTTAAATAAAAATTTTCAAATAGTTTAG
55375813 TGAC
1 TGAC
55375817 CAAAATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (31 bp):
TGACTTAAATAAAAATTTTCAAATAGTTTAG
Found at i:55375823 original size:31 final size:31
Alignment explanation
Indices: 55375757--55375823 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
55375747 CCATTGACTT
* **
55375757 AAATAAAAACTTTTAAATAGTTTAGTGACTT
1 AAATGAAAACTTTTAAATAGTTTAGTGACCA
55375788 AAATGAAAA-TTTTCAAATAGTTTAGTGACCA
1 AAATGAAAACTTTT-AAATAGTTTAGTGACCA
55375819 AAATG
1 AAATG
55375824 TAACGTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.34
Consensus pattern (31 bp):
AAATGAAAACTTTTAAATAGTTTAGTGACCA
Found at i:55377349 original size:25 final size:25
Alignment explanation
Indices: 55377303--55377351 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
55377293 AATATATATT
*
55377303 TAATATATAATTCATATTAAAAGTC
1 TAATATATAATTCATATAAAAAGTC
*
55377328 TAATATATATATTTA-ATAAAAAGT
1 TAATATATA-ATTCATATAAAAAGT
55377352 ATATTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (25 bp):
TAATATATAATTCATATAAAAAGTC
Found at i:55385844 original size:12 final size:13
Alignment explanation
Indices: 55385819--55385843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55385809 CAAAAATTCA
55385819 AAAAATTATTTTT
1 AAAAATTATTTTT
55385832 AAAAATTATTTT
1 AAAAATTATTTT
55385844 ATTTTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:55389864 original size:67 final size:66
Alignment explanation
Indices: 55389698--55389933 Score: 314
Period size: 67 Copynumber: 3.6 Consensus size: 66
55389688 TTGATTTATT
* *
55389698 TATTGAATTTTCATTCTTTTATGAACTTCAATTATTTACATATATTTGCATTATG--TTATTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTTTGTTTTT
55389761 C
66 C
* *
55389762 TATTGAGTTTTCATTCTTGTATGAACTTCAATTATTTACTTATATTTGCATTATGTTTCTGTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTT-TGTTTT
55389827 TC
65 TC
* * * * * *
55389829 TATTGAATTTTCATTCTTGTATCAATTTAAATTATTTAAATATATCTGTATTATGTTTTTGTTTT
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATG-TTTTGTTTT
55389894 TC
65 TC
* * * *
55389896 TATTGAGTTTTCACTCTTATATAAACTTCAATTATTTA
1 TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTA
55389934 GATGAACTTG
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
64 52 0.35
66 1 0.01
67 94 0.63
68 3 0.02
ACGTcount: A:0.26, C:0.11, G:0.08, T:0.56
Consensus pattern (66 bp):
TATTGAATTTTCATTCTTGTATGAACTTCAATTATTTACATATATTTGCATTATGTTTTGTTTTT
C
Found at i:55396516 original size:19 final size:18
Alignment explanation
Indices: 55396468--55396519 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
55396458 AAAAATATTA
*
55396468 TTAAAAA-ATAATTTAAC
1 TTAAAAATATAATTAAAC
* *
55396485 -TAATAATAAAATTAATAC
1 TTAAAAATATAATTAA-AC
55396503 TTAAAAATATAATTAAA
1 TTAAAAATATAATTAAA
55396520 ATAAAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 5 0.19
17 6 0.22
18 3 0.11
19 13 0.48
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAATATAATTAAAC
Found at i:55401076 original size:23 final size:23
Alignment explanation
Indices: 55401045--55401090 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
55401035 GGAGGTGGGC
55401045 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
55401068 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
55401091 ACAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:55401377 original size:23 final size:23
Alignment explanation
Indices: 55401346--55401391 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
55401336 GGAGGTGGGC
55401346 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
55401369 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
55401392 GTAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:55406155 original size:22 final size:22
Alignment explanation
Indices: 55406108--55406160 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
55406098 AAAGAAAGGA
55406108 AAAATTGTAAAGAGAAATAGAGG
1 AAAATTG-AAAGAGAAATAGAGG
*
55406131 -AAATTGAAAGA-AAGATTGAGAG
1 AAAATTGAAAGAGAA-ATAGAG-G
55406153 AAAATTGA
1 AAAATTGA
55406161 GAGGGGGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.08
21 10 0.38
22 7 0.27
23 7 0.27
ACGTcount: A:0.57, C:0.00, G:0.25, T:0.19
Consensus pattern (22 bp):
AAAATTGAAAGAGAAATAGAGG
Found at i:55409646 original size:19 final size:17
Alignment explanation
Indices: 55409631--55409721 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
55409621 ATTTTAATAT
55409631 TTTAATATTAAATTAAA
1 TTTAATATTAAATTAAA
55409648 TTTAATACTT--ATCTAAA
1 TTTAATA-TTAAAT-TAAA
* **
55409665 --TAGTATTTTATT-AA
1 TTTAATATTAAATTAAA
* *
55409679 TTTAATATTAAAGTGATTA
1 TTTAATATTAAA-TTA-AA
55409698 TCTTAATATTAAATTAAA
1 T-TTAATATTAAATTAAA
55409716 TTTAAT
1 TTTAAT
55409722 GTTTATCTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 20
0.67 0.10 0.24
Matches are distributed among these distances:
14 4 0.07
15 5 0.09
16 11 0.20
17 17 0.30
18 4 0.07
19 4 0.07
20 11 0.20
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATATTAAATTAAA
Found at i:55409708 original size:31 final size:29
Alignment explanation
Indices: 55409673--55409730 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
55409663 AATAGTATTT
*
55409673 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
55409704 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
55409731 TTAGATAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:55417601 original size:9 final size:9
Alignment explanation
Indices: 55417584--55417620 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
55417574 TGAGTTTTCG
55417584 AATTCGAAT
1 AATTCGAAT
*
55417593 AACTCGAAT
1 AATTCGAAT
*
55417602 AATTCAAAT
1 AATTCGAAT
55417611 AATTCGAAT
1 AATTCGAAT
55417620 A
1 A
55417621 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:55418632 original size:5 final size:5
Alignment explanation
Indices: 55418622--55418647 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55418612 CTCGAAAATT
55418622 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
55418648 CGAATGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:55420090 original size:90 final size:90
Alignment explanation
Indices: 55419894--55420096 Score: 241
Period size: 90 Copynumber: 2.2 Consensus size: 90
55419884 GTTGTGGGTA
* * ***
55419894 AACCACAAAAATTGCAGGTTAATACACTGTTAGATGGTTGTGAATACACTAACATAATTACAGAT
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
55419959 TAAAGCTGCCAGATAATGGATGGGCG
66 TAAAGCTGCCAGATAAT-GATGGGCG
** * * *
55419985 AACCACCAGTGTTGCAGGTTAATACGCTACCAGATGGTTTTGAATACAC-AACATAATTGCAGA-
1 AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
*
55420048 TAATAGCTGCCAGATAAT-ATGTGGATG
66 TAA-AGCTGCCAGATAATGATG-GG-CG
*
55420075 AACCACCAGAATTGCAGATTAA
1 AACCACCAGAATTGCAGGTTAA
55420097 GAATCTGCCA
Statistics
Matches: 95, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.03
89 5 0.05
90 47 0.49
91 40 0.42
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (90 bp):
AACCACCAGAATTGCAGGTTAATACACTACCAGATGGTTGTGAATACACTAACATAATTACAGAT
TAAAGCTGCCAGATAATGATGGGCG
Found at i:55429852 original size:16 final size:16
Alignment explanation
Indices: 55429815--55429856 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55429805 TTAATCATAT
*
55429815 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
55429831 TT-AAATATATTATAA
1 TTAAAATATATTATAA
55429846 TTAAAATATAT
1 TTAAAATATAT
55429857 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:55429863 original size:14 final size:15
Alignment explanation
Indices: 55429824--55429865 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55429814 TTTAAACATA
*
55429824 ATTATTATTAAATAT
1 ATTATAATTAAATAT
55429839 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
55429853 A-TATAATTTAATA
1 ATTATAATTAAATA
55429866 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:55429915 original size:61 final size:61
Alignment explanation
Indices: 55429850--55430037 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
55429840 TTATAATTAA
55429850 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * *
55429911 AATATATGATACT-ATAAAA-TATAAATTAA-C-ATAATTATTAT-TAAATATA-TTATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAA-TAATCAAT-ATTCTTATATGAATTTACTCA-AATCAT
*
55429970 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
55430031 AATATAT
1 AATATAT
55430038 GATACTATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 30 0.31
60 23 0.24
61 37 0.39
62 3 0.03
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:55429963 original size:120 final size:121
Alignment explanation
Indices: 55429818--55430078 Score: 472
Period size: 120 Copynumber: 2.2 Consensus size: 121
55429808 ATCATATTTA
55429818 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
55429883 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
55429938 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
*
55430003 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
*
55430059 AA-ATAATTAATATTAAATAT
1 AACATAATTATTATTAAATAT
55430079 NNNNNNNNNN
Statistics
Matches: 136, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
120 134 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAAATTG
Found at i:55429983 original size:14 final size:15
Alignment explanation
Indices: 55429934--55429985 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
55429924 ATAAAATATA
55429934 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
55429949 TATTAAATATATTAT
1 AATTAAATATATTAT
55429964 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
55429977 AATTTAATA
1 AATTAAATA
55429986 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:55433684 original size:6 final size:6
Alignment explanation
Indices: 55433673--55433698 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55433663 TAGTTTGAAC
55433673 ATTTAA ATTTAA ATTTAA ATTTAA AT
1 ATTTAA ATTTAA ATTTAA ATTTAA AT
55433699 ATAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATTTAA
Found at i:55433814 original size:17 final size:17
Alignment explanation
Indices: 55433783--55433821 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
55433773 ATGATTAGTT
55433783 TAATT-AAGATTGAACA
1 TAATTAAAGATTGAACA
*
55433799 TAATTAAAGGTTGAACA
1 TAATTAAAGATTGAACA
55433816 TAATTA
1 TAATTA
55433822 TTATTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (17 bp):
TAATTAAAGATTGAACA
Found at i:55433824 original size:20 final size:20
Alignment explanation
Indices: 55433801--55433863 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
55433791 ATTGAACATA
55433801 ATTAAAGGTTGAACATAATT
1 ATTAAAGGTTGAACATAATT
* *
55433821 ATTATTA-TTTG-A-ATAATAT
1 ATTA-AAGGTTGAACATAAT-T
55433840 CAATTAAAGGTTGAACATAATT
1 --ATTAAAGGTTGAACATAATT
55433862 AT
1 AT
55433864 ATATTAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
18 5 0.16
19 2 0.06
20 10 0.31
21 8 0.25
22 2 0.06
23 5 0.16
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.40
Consensus pattern (20 bp):
ATTAAAGGTTGAACATAATT
Found at i:55434218 original size:12 final size:12
Alignment explanation
Indices: 55434201--55434225 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55434191 AATATGTTTT
55434201 CATAATTTTAAC
1 CATAATTTTAAC
55434213 CATAATTTTAAC
1 CATAATTTTAAC
55434225 C
1 C
55434226 CAGATAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (12 bp):
CATAATTTTAAC
Found at i:55439022 original size:34 final size:34
Alignment explanation
Indices: 55438961--55439025 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
55438951 GGTTGTTAAT
**
55438961 AGTTCGATACAGTGGCAAATGTTATGCTTATGAC
1 AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
*
55438995 AGTTCGTTACAGTGGCCAAA-GGCATGCTTAT
1 AGTTCGATACAGTGG-CAAATGGCATGCTTAT
55439026 CATGCGTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
34 23 0.85
35 4 0.15
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (34 bp):
AGTTCGATACAGTGGCAAATGGCATGCTTATGAC
Found at i:55441011 original size:13 final size:13
Alignment explanation
Indices: 55440993--55441017 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55440983 CTAAATCATA
55440993 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
55441006 ATTTTAGTAAAA
1 ATTTTAGTAAAA
55441018 CCTTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:55446784 original size:79 final size:79
Alignment explanation
Indices: 55446653--55446805 Score: 288
Period size: 79 Copynumber: 1.9 Consensus size: 79
55446643 TCTTCTCAAA
*
55446653 GCCTATAAATATGCATCACTTATGGATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
1 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
55446718 ACTCATTATATTTT
66 ACTCATTATATTTT
*
55446732 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTTTGAGTGCTTGTGCTACATTTT
1 GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
55446797 ACTCATTAT
66 ACTCATTAT
55446806 TTGCTTGTGT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.42
Consensus pattern (79 bp):
GCCTATAAATATGCATCACTTATGCATGTGTGATGCAACTTTTGTGAGTGCTTGTGCTACATTTT
ACTCATTATATTTT
Found at i:55447151 original size:18 final size:18
Alignment explanation
Indices: 55447108--55447144 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
55447098 TAAAATGCTT
*
55447108 TTTCAA-TATTTTTATTA
1 TTTCAATTAATTTTATTA
55447125 TTTCAATTAATTTTATTA
1 TTTCAATTAATTTTATTA
55447143 TT
1 TT
55447145 CGAATTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTCAATTAATTTTATTA
Found at i:55452423 original size:14 final size:16
Alignment explanation
Indices: 55452383--55452425 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
55452373 TAAAAATAAC
55452383 ATAAAATTTATAATAT
1 ATAAAATTTATAATAT
*
55452399 ATAACATTTATAATA-
1 ATAAAATTTATAATAT
55452414 A-AAAATTTATAA
1 ATAAAATTTATAA
55452426 ATTATCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATAAAATTTATAATAT
Found at i:55453352 original size:53 final size:54
Alignment explanation
Indices: 55453276--55453530 Score: 235
Period size: 53 Copynumber: 4.8 Consensus size: 54
55453266 GCACAATAAT
* *
55453276 AATTGTTTGAAAACACGTAAATTTGTGAAACACGAGAATTTTTTGAAAACATGAA
1 AATT-TTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
*
55453331 AATTTTTG-AAACACGAAAATTTTTGAAACAC-AGGAATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAAAATTTGTGAAACACGA-GAATTTTTTGAAAACACGAA
* * * *
55453384 AATTTTTG-AAACACAGGAAATTT-TGAAAATACGA-AGA-GTTTTG-AAACACCG-G
1 AATTTTTGAAAACAC-GAAAATTTGTG-AAACACGAGA-ATTTTTTGAAAACA-CGAA
* * * * *
55453436 AATTTTTGAAAACACGAAGATTTTTGAAACAC--GATTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
* * *
55453488 AATTTGTGAAAACACGAAGATTTGTGAAAACACG-GATTTTTTT
1 AATTTTTGAAAACACGAAAATTTGTG-AAACACGAGAATTTTTT
55453531 TTGAAACACG
Statistics
Matches: 169, Mismatches: 17, Indels: 29
0.79 0.08 0.13
Matches are distributed among these distances:
51 6 0.04
52 54 0.32
53 78 0.46
54 26 0.15
55 5 0.03
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (54 bp):
AATTTTTGAAAACACGAAAATTTGTGAAACACGAGAATTTTTTGAAAACACGAA
Found at i:55453372 original size:35 final size:35
Alignment explanation
Indices: 55453295--55453521 Score: 214
Period size: 35 Copynumber: 6.5 Consensus size: 35
55453285 AAAACACGTA
* * *
55453295 AATTTGTG-AAACACGAGAATTTTTTGAAA-ACATGAA
1 AATTTTTGAAAACACGA-AAATTTTTGAAACACA-G-G
55453331 AATTTTTG-AAACACGAAAATTTTTGAAACACAGG
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
55453365 AATTTTTTGAAAACACGAAAATTTTTGAAACACAGG
1 AA-TTTTTGAAAACACGAAAATTTTTGAAACACAGG
* * * * *
55453401 AAATTTTGAAAATACGAAGAGTTTTGAAACACCGG
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
*
55453436 AATTTTTGAAAACACGAAGATTTTTGAAACAC--G
1 AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
* * * * *
55453469 ATTTTTTTAAAAACAAGAAAATTTGTGAAA-ACACGA
1 A-ATTTTTGAAAACACGAAAATTTTTGAAACACA-GG
*
55453505 AGATTTGTGAAAACACG
1 A-ATTTTTGAAAACACG
55453522 GATTTTTTTT
Statistics
Matches: 162, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
33 4 0.02
34 25 0.15
35 75 0.46
36 58 0.36
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (35 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACACAGG
Found at i:55453520 original size:18 final size:17
Alignment explanation
Indices: 55453276--55453521 Score: 205
Period size: 18 Copynumber: 13.9 Consensus size: 17
55453266 GCACAATAAT
55453276 AATTGTTTGAAAACACGTA
1 AATT-TTTGAAAACACG-A
*
55453295 AATTTGTG-AAACACGA
1 AATTTTTGAAAACACGA
*
55453311 GAATTTTTTGAAAACATGAA
1 -AA-TTTTTGAAAACACG-A
55453331 AATTTTTG-AAACACGAA
1 AATTTTTGAAAACACG-A
*
55453348 AATTTTTGAAACACAGGA
1 AATTTTTGAAA-ACACGA
*
55453366 ATTTTTTGAAAACACGAA
1 AATTTTTGAAAACACG-A
*
55453384 AATTTTTGAAACACAGGA
1 AATTTTTGAAA-ACACGA
*
55453402 AA-TTTTGAAAATACGA
1 AATTTTTGAAAACACGA
* *
55453418 AGAGTTTTG-AAACACCGG
1 A-ATTTTTGAAAACA-CGA
55453436 AATTTTTGAAAACACGA
1 AATTTTTGAAAACACGA
55453453 AGATTTTTG-AAACACGA
1 A-ATTTTTGAAAACACGA
** * *
55453470 TTTTTTTAAAAACAAGAA
1 AATTTTTGAAAACACG-A
*
55453488 AATTTGTGAAAACACGA
1 AATTTTTGAAAACACGA
*
55453505 AGATTTGTGAAAACACG
1 A-ATTTTTGAAAACACG
55453522 GATTTTTTTT
Statistics
Matches: 187, Mismatches: 24, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
16 11 0.06
17 67 0.36
18 88 0.47
19 20 0.11
20 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (17 bp):
AATTTTTGAAAACACGA
Found at i:55453703 original size:19 final size:20
Alignment explanation
Indices: 55453667--55453704 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
55453657 CGTGATTCTA
55453667 TTAAAACACGAGAATTTTTT
1 TTAAAACACGAGAATTTTTT
*
55453687 TTAAAACATGA-AATTTTT
1 TTAAAACACGAGAATTTTT
55453705 GAATATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
TTAAAACACGAGAATTTTTT
Found at i:55454056 original size:27 final size:26
Alignment explanation
Indices: 55454018--55454079 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
55454008 CTTGGGCCCC
*
55454018 TTTTTCTTTCTTCTTTTTTATTTTTTA
1 TTTTT-TTTCTTCTTTTTTATTTCTTA
* *
55454045 TTTTTTTCTCTTCTTTTTTCTTTCTTC
1 TTTTTTT-TCTTCTTTTTTATTTCTTA
55454072 TTTTTTTT
1 TTTTTTTT
55454080 GGGCCTGCTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTTCTTCTTTTTTATTTCTTA
Found at i:55454068 original size:16 final size:15
Alignment explanation
Indices: 55454018--55454079 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 15
55454008 CTTGGGCCCC
*
55454018 TTTTTCTTTCTTC-T
1 TTTTTTTTTCTTCTT
* *
55454032 TTTTTATTT-TT-TA
1 TTTTTTTTTCTTCTT
*
55454045 TTTTTTTCTCTTC-T
1 TTTTTTTTTCTTCTT
*
55454059 TTTTTCTTTCTTCTT
1 TTTTTTTTTCTTCTT
55454074 TTTTTT
1 TTTTTT
55454080 GGGCCTGCTG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
13 9 0.25
14 21 0.58
15 6 0.17
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTCTTCTT
Found at i:55454344 original size:5 final size:5
Alignment explanation
Indices: 55454334--55454383 Score: 55
Period size: 5 Copynumber: 9.2 Consensus size: 5
55454324 CTGGCCTGCT
*
55454334 GGGTC GGGTC GGTGGTC GGGTGC GGGTC GGAGGC GGGTC GGGTC GGGTC
1 GGGTC GGGTC -G-GGTC GGGT-C GGGTC GG-GTC GGGTC GGGTC GGGTC
55454383 G
1 G
55454384 ACTCAATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 24 0.62
6 11 0.28
7 4 0.10
ACGTcount: A:0.02, C:0.18, G:0.62, T:0.18
Consensus pattern (5 bp):
GGGTC
Found at i:55454363 original size:11 final size:10
Alignment explanation
Indices: 55454334--55454383 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 10
55454324 CTGGCCTGCT
55454334 GGGTCGGGTC
1 GGGTCGGGTC
55454344 GGTGGTCGGGTGC
1 -G-GGTCGGGT-C
*
55454357 GGGTCGGAGGC
1 GGGTCGG-GTC
55454368 GGGTCGGGTC
1 GGGTCGGGTC
55454378 GGGTCG
1 GGGTCG
55454384 ACTCAATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
10 8 0.24
11 15 0.44
12 10 0.29
13 1 0.03
ACGTcount: A:0.02, C:0.18, G:0.62, T:0.18
Consensus pattern (10 bp):
GGGTCGGGTC
Found at i:55454648 original size:22 final size:23
Alignment explanation
Indices: 55454618--55454670 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
55454608 TTTTTTTCTT
*
55454618 TTTGGTTGCTATTTTTTTGTTGA
1 TTTGCTTGCTATTTTTTTGTTGA
* *
55454641 TTT-CTTGCTTTTTTTTTGTTGC
1 TTTGCTTGCTATTTTTTTGTTGA
55454663 TTTGCTTG
1 TTTGCTTG
55454671 TTTGGGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.04, C:0.09, G:0.19, T:0.68
Consensus pattern (23 bp):
TTTGCTTGCTATTTTTTTGTTGA
Found at i:55455250 original size:30 final size:30
Alignment explanation
Indices: 55455164--55455264 Score: 84
Period size: 30 Copynumber: 3.4 Consensus size: 30
55455154 AATACGGGCC
* * * *
55455164 AAAATGTAATTTCTAGAAAGTTTAAGGGCTT
1 AAAATATAATTTTTAAAAAGTTT-AGGGGTT
*
55455195 -GAATATAA--TTTACAAAA-TATTAGGGGTT
1 AAAATATAATTTTTA-AAAAGT-TTAGGGGTT
*
55455223 AAAATATAATTTTTAAAAAGTTTAGGGGCT
1 AAAATATAATTTTTAAAAAGTTTAGGGGTT
*
55455253 AAAATGTAATTT
1 AAAATATAATTT
55455265 CTATTTTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
28 10 0.18
29 12 0.21
30 29 0.52
31 5 0.09
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (30 bp):
AAAATATAATTTTTAAAAAGTTTAGGGGTT
Found at i:55455263 original size:59 final size:57
Alignment explanation
Indices: 55455130--55455264 Score: 135
Period size: 59 Copynumber: 2.3 Consensus size: 57
55455120 CAAAACTTCT
* * * *
55455130 GGGGCAAAAATGTAATTTTATAAAAATACGGGCCAAAATGTAATTTCTAGAAAGTTTA
1 GGGGCTAAAATGTAA-TTTACAAAAATACGGGCCAAAATATAATTTCTAAAAAGTTTA
* ** * * ** *
55455188 AGGGCTTGAATATAATTTACAAAATATTAGGGGTTAAAATATAATTTTTAAAAAGTTTA
1 GGGGCTAAAATGTAATTTACAAAA-A-TACGGGCCAAAATATAATTTCTAAAAAGTTTA
55455247 GGGGCTAAAATGTAATTT
1 GGGGCTAAAATGTAATTT
55455265 CTATTTTTTG
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
57 8 0.14
58 11 0.19
59 40 0.68
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (57 bp):
GGGGCTAAAATGTAATTTACAAAAATACGGGCCAAAATATAATTTCTAAAAAGTTTA
Found at i:55455906 original size:75 final size:77
Alignment explanation
Indices: 55455675--55456400 Score: 946
Period size: 76 Copynumber: 9.6 Consensus size: 77
55455665 CCCGAAACTG
* * * * * **
55455675 AACTGACCTCTCGGATTATGAGTTGA-TTTTTGAAAAA-A-AAATTGAAAAATACATCGGTGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
55455737 GACCCGAGGCTC
66 GACCCGAGGCTC
* * * * *
55455749 AACTCACCTCTCGTATTATGTGTTGA-TTTTTGAAAAAAAATAGAAATT-AAAGATGCCTCGGCA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTG---AAAAACAGAAATTGAAAGATACCTCGGCA
55455812 TGTGACCCGAGGCTC
63 TGTGACCCGAGGCTC
* * * *
55455827 AACTCACCTCTCGCAAAATGAGTTGA-TTTTTAAAAAACAGAAATT-AAAGATACCTTGGTATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
* *
55455890 AATCCGAGGCTC
66 GACCCGAGGCTC
* * * *
55455902 AACTCACCTCTCGCAATATAAGTTGATTTTTTAAAAAATAGAAATT-AAAGATACCTCGGTATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
55455966 GACCCGAGGCTC
66 GACCCGAGGCTC
*
55455978 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAA-ATACCTCAGC--GT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
55456040 GACCCGAGGCTC
66 GACCCGAGGCTC
*
55456052 AACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA-ATACCTCAGC--G
1 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATG
55456114 TGACCCGAGGCTC
65 TGACCCGAGGCTC
* * * *
55456127 AACTCACCTCTCGCAATATGAGTTGATTTTTT-AGAAACATAAATTGAAAAATACCTCGGCGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
55456191 GACCCGAGGCTC
66 GACCCGAGGCTC
* * * * *
55456203 AACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACATAAATTAAAAAATACCTCGGCATAT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
55456267 GACCCGAGGCTC
66 GACCCGAGGCTC
* * *
55456279 AACTCACATCTTGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTG-AAGAATACCTCGGCAT
1 AACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAG-ATACCTCGGCAT
55456343 GTGACCCGAGGCTC
64 GTGACCCGAGGCTC
*
55456357 AACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAAACAGAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA
55456401 AAGAAATGGT
Statistics
Matches: 587, Mismatches: 50, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
73 15 0.03
74 84 0.14
75 140 0.24
76 198 0.34
77 27 0.05
78 118 0.20
79 5 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (77 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAGATACCTCGGCATGT
GACCCGAGGCTC
Found at i:55456076 original size:225 final size:224
Alignment explanation
Indices: 55455675--55456394 Score: 943
Period size: 225 Copynumber: 3.2 Consensus size: 224
55455665 CCCGAAACTG
* * * * *
55455675 AACTGACCTCTCGGATTATGAGTTGA-TTTTTGAAAAA-AAAATTGAAAAATACATCGGTGTGTG
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAATAAAATTGAAAAATACCTCGGTGTGTG
* * *
55455738 ACCCGAGGCTCAACTCACCTCTCGTATTATGTGTTGATTTTTGAAAAAAAATAGAAATTAAAGAT
66 ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTG---AAAAACAGAAATTAAA-AT
* * *
55455803 GCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAAAATGAGTTGA-TTTTTAAAAAACAG
127 ACCTCGGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAG
* * *
55455867 AAATTAAAGATACCTTGGTATGTAATCCGAGGCTC
191 AAATTAAAGATACCTCGG-ATGTGACCCGAGGCTC
* * *
55455902 AACTCACCTCTCGCAATATAAGTTGATTTTTTAAAAAATAGAAATT-AAAGATACCTCGGTATGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAATA-AAATTGAAAAATACCTCGGTGTGT
*
55455966 GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATA
65 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAATA
*
55456031 CCTCAGC-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
128 CCTCGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGA
* *
55456095 AATTGAAA-ATACCTCAG-CGTGACCCGAGGCTC
192 AATT-AAAGATACCTCGGATGTGACCCGAGGCTC
* *
55456127 AACTCACCTCTCGCAATATGAGTTGATTTTTTAGAAACAT-AAATTGAAAAATACCTCGGCGTGT
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTA-AAAAATAAAATTGAAAAATACCTCGGTGTGT
*
55456191 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACATAAATTAAAAAATA
65 GACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATT--AAAATA
* * * *
55456256 CCTCGGCATATGACCCGAGGCTCAACTCACATCTTGCAATATGAGTTGATTTTTTTGAAAAATAG
128 CCTCGGCA-GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAG
*
55456321 AAATTGAAGAATACCTCGGCATGTGACCCGAGGCTC
191 AAATTAAAG-ATACCTCGG-ATGTGACCCGAGGCTC
* *
55456357 AACTCACCTCTCGCAATATGAGCTGATTTTTTGAAAAA
1 AACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAA
55456395 CAGAAAAAGA
Statistics
Matches: 436, Mismatches: 40, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
224 23 0.05
225 147 0.34
226 7 0.02
227 124 0.28
228 24 0.06
229 55 0.13
230 56 0.13
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (224 bp):
AACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAAATAAAATTGAAAAATACCTCGGTGTGTG
ACCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAACAGAAATTAAAATACCT
CGGCAGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT
AAAGATACCTCGGATGTGACCCGAGGCTC
Done.