Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 67 of 230
Found at i:18322703 original size:24 final size:22
Alignment explanation
Indices: 18322659--18322710 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
18322649 ATATTTTTTG
18322659 ATAATTTTTCTGATACCTTATT
1 ATAATTTTTCTGATACCTTATT
* *
18322681 ATAATTTTTTTGATATCTT-TT
1 ATAATTTTTCTGATACCTTATT
*
18322702 ATGATTTTT
1 ATAATTTTT
18322711 ATAATTAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.62
Consensus pattern (22 bp):
ATAATTTTTCTGATACCTTATT
Found at i:18328519 original size:27 final size:27
Alignment explanation
Indices: 18328465--18328520 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
18328455 CTAGGCCAAA
* * **
18328465 AATTTTAATTAATTATGTAAATGTCCT
1 AATTTTAATAAAATATGTAAATAACCT
18328492 AATTTTAATAAAATATGTAAATAACCT
1 AATTTTAATAAAATATGTAAATAACCT
18328519 AA
1 AA
18328521 AATCTAGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.41
Consensus pattern (27 bp):
AATTTTAATAAAATATGTAAATAACCT
Found at i:18329663 original size:27 final size:27
Alignment explanation
Indices: 18329624--18329676 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
18329614 AAATCAAAAA
18329624 AATTAAAAGGACATTTTTAA-AGAAAG
1 AATTAAAAGGACATTTTTAATAGAAAG
*
18329650 AATTATAATGGACATTTTTAATAGAAA
1 AATTA-AAAGGACATTTTTAATAGAAA
18329677 TAAAAAAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 5 0.21
27 14 0.58
28 5 0.21
ACGTcount: A:0.51, C:0.04, G:0.13, T:0.32
Consensus pattern (27 bp):
AATTAAAAGGACATTTTTAATAGAAAG
Found at i:18330225 original size:7 final size:7
Alignment explanation
Indices: 18330215--18330259 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
18330205 TTTTAAAATA
18330215 CATTTCC
1 CATTTCC
*
18330222 CATTAACC
1 CATT-TCC
18330230 CATTTCCC
1 CATTT-CC
18330238 CATTTCC
1 CATTTCC
*
18330245 CATTCCC
1 CATTTCC
18330252 CATTTCC
1 CATTTCC
18330259 C
1 C
18330260 CTCTTCCACG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 19 0.59
8 13 0.41
ACGTcount: A:0.18, C:0.47, G:0.00, T:0.36
Consensus pattern (7 bp):
CATTTCC
Found at i:18330239 original size:8 final size:8
Alignment explanation
Indices: 18330215--18330260 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
18330205 TTTTAAAATA
18330215 CATTT-CC
1 CATTTCCC
**
18330222 CATTAACC
1 CATTTCCC
18330230 CATTTCCC
1 CATTTCCC
18330238 CATTT-CC
1 CATTTCCC
18330245 CA-TTCCC
1 CATTTCCC
18330252 CATTTCCC
1 CATTTCCC
18330260 C
1 C
18330261 TCTTCCACGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
6 2 0.06
7 12 0.36
8 19 0.58
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.35
Consensus pattern (8 bp):
CATTTCCC
Found at i:18330266 original size:22 final size:23
Alignment explanation
Indices: 18330215--18330260 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
18330205 TTTTAAAATA
18330215 CATTTCCCATTAACCCATTTCCC
1 CATTTCCCATTAACCCATTTCCC
*
18330238 CATTTCCCATT-CCCCATTTCCC
1 CATTTCCCATTAACCCATTTCCC
18330260 C
1 C
18330261 TCTTCCACGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.17, C:0.48, G:0.00, T:0.35
Consensus pattern (23 bp):
CATTTCCCATTAACCCATTTCCC
Found at i:18332773 original size:18 final size:18
Alignment explanation
Indices: 18332744--18332789 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
18332734 TCTACAAATT
*
18332744 CACCATAAAAAAGAATGTA
1 CACCA-AAAAAAAAATGTA
18332763 CACCAAAAAAAAAATGTA
1 CACCAAAAAAAAAATGTA
18332781 CACCAAAAA
1 CACCAAAAA
18332790 TACCGTGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.63, C:0.20, G:0.07, T:0.11
Consensus pattern (18 bp):
CACCAAAAAAAAAATGTA
Found at i:18333000 original size:22 final size:23
Alignment explanation
Indices: 18332955--18333018 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
18332945 TAAAAAACAC
* *
18332955 ATTTTAAAAAAAAAATTTAAATTT
1 ATTTTTAAAAAAAAA-GTAAATTT
*
18332979 -TTTTTAAAAAAAAAGTAGATTT
1 ATTTTTAAAAAAAAAGTAAATTT
18333001 ATTTTATAAAAATAAAAG
1 ATTTT-TAAAAA-AAAAG
18333019 CCTTGAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 6 0.18
23 17 0.50
24 6 0.18
25 5 0.15
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (23 bp):
ATTTTTAAAAAAAAAGTAAATTT
Found at i:18338535 original size:56 final size:56
Alignment explanation
Indices: 18338454--18338566 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
18338444 GATTGAGACA
* * **
18338454 AATTTGATGAGGCTTTATTTATTTCTTTGTTTAGGATGGAGTTGACCCTTGATTAT
1 AATTTGATGAGACTTTATTTATTTCTTTCTTTAGGATGGAGTCAACCCTTGATTAT
* * * * *
18338510 AATTTGATGAGATTTTGTTTCTTTCTTTCTTTAGGATTGAGTCAATCCTTGATTAT
1 AATTTGATGAGACTTTATTTATTTCTTTCTTTAGGATGGAGTCAACCCTTGATTAT
18338566 A
1 A
18338567 GGGATTCTTC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.50
Consensus pattern (56 bp):
AATTTGATGAGACTTTATTTATTTCTTTCTTTAGGATGGAGTCAACCCTTGATTAT
Found at i:18338766 original size:16 final size:16
Alignment explanation
Indices: 18338747--18338777 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18338737 AATTTTCTAA
18338747 AATTTTAAAAAGTTAG
1 AATTTTAAAAAGTTAG
*
18338763 AATTTTCAAAAGTTA
1 AATTTTAAAAAGTTA
18338778 ATTAAAAAAT
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:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (16 bp):
AATTTTAAAAAGTTAG
Found at i:18338960 original size:25 final size:27
Alignment explanation
Indices: 18338921--18338989 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 27
18338911 AAAAATTGGA
* *
18338921 AAAAAAGTATA-AAAATTTAAATT-TT
1 AAAAAACTATATAAAATTTAAATTATC
* *
18338946 AAAAAA-TATTTAAAATATAAATTATC
1 AAAAAACTATATAAAATTTAAATTATC
18338972 AAAAAACTATATAAAATT
1 AAAAAACTATATAAAATT
18338990 ATGAAAAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 3 0.08
25 17 0.47
26 7 0.19
27 9 0.25
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (27 bp):
AAAAAACTATATAAAATTTAAATTATC
Found at i:18347948 original size:24 final size:24
Alignment explanation
Indices: 18347921--18347972 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18347911 TTAGTAAGTC
*
18347921 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18347945 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18347969 AAAT
1 AAAT
18347973 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18349914 original size:24 final size:24
Alignment explanation
Indices: 18349887--18349938 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18349877 TTAGTAAGTC
*
18349887 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18349911 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18349935 AAAT
1 AAAT
18349939 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18357541 original size:24 final size:25
Alignment explanation
Indices: 18357494--18357655 Score: 83
Period size: 26 Copynumber: 6.6 Consensus size: 25
18357484 AAGCTCATGC
18357494 GAGCCA-ATAACGGGTAA-CTCCGAA
1 GAGCCATATAACGGG-AAGCTCCGAA
* *
18357518 GAGCTAT-TAACGGGAAGCTTCGAA
1 GAGCCATATAACGGGAAGCTCCGAA
* * *
18357542 TAGCCATATATCGGGAAG-TTC-AA
1 GAGCCATATAACGGGAAGCTCCGAA
*
18357565 GCGAGCCATAT--CGGGAAGCT-CTATA
1 --GAGCCATATAACGGGAAGCTCCGA-A
* *
18357590 GAGCCAT-TAATCAGGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
* * *
18357616 GAGCC-TTTAATCGAGAAGCTCACAAA
1 GAGCCATATAA-CGGGAAGCTC-CGAA
18357642 GAGCCATATAACGG
1 GAGCCATATAACGG
18357656 AACGCTCATA
Statistics
Matches: 111, Mismatches: 12, Indels: 28
0.74 0.08 0.19
Matches are distributed among these distances:
22 1 0.01
23 19 0.17
24 28 0.25
25 27 0.24
26 30 0.27
27 6 0.05
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCCGAA
Found at i:18357662 original size:26 final size:25
Alignment explanation
Indices: 18357589--18357663 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 25
18357579 GAAGCTCTAT
18357589 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATC-GGAAGCTCACAA
*
18357615 AGAGCCTTTAATCGAGAAGCTCACAA
1 AGAGCCATTAATCG-GAAGCTCACAA
18357641 AGAGCCATATAA-CGGAACGCTCA
1 AGAGCCAT-TAATCGGAA-GCTCA
18357664 TAAGGGCTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.09
26 37 0.84
27 3 0.07
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
AGAGCCATTAATCGGAAGCTCACAA
Found at i:18362218 original size:5 final size:5
Alignment explanation
Indices: 18362189--18362227 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
18362179 TAACTTTAGC
* *
18362189 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
18362228 CGTCCTAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:18364409 original size:7 final size:7
Alignment explanation
Indices: 18364387--18364430 Score: 70
Period size: 7 Copynumber: 6.0 Consensus size: 7
18364377 TAAGAATATC
18364387 AAAAAACG
1 AAAAAA-G
18364395 ACAAAAAG
1 A-AAAAAG
18364403 AAAAAAG
1 AAAAAAG
18364410 AAAAAAG
1 AAAAAAG
18364417 AAAAAAG
1 AAAAAAG
18364424 AAAAAAG
1 AAAAAAG
18364431 GAAGAGTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 27 0.77
8 3 0.09
9 5 0.14
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:18366503 original size:22 final size:22
Alignment explanation
Indices: 18366475--18366519 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
18366465 TTAACTTGTT
18366475 AACTGAGTTCGAGTAAATGAGA
1 AACTGAGTTCGAGTAAATGAGA
18366497 AACTGAGTTCGAGTAAATGAGA
1 AACTGAGTTCGAGTAAATGAGA
18366519 A
1 A
18366520 TTGTGCTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.27, T:0.22
Consensus pattern (22 bp):
AACTGAGTTCGAGTAAATGAGA
Found at i:18375779 original size:13 final size:13
Alignment explanation
Indices: 18375757--18375789 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18375747 CTGGGATAAT
18375757 TCCC-TTTTTTTC
1 TCCCTTTTTTTTC
*
18375769 TCCCTTTTTTTTT
1 TCCCTTTTTTTTC
18375782 TCCCTTTT
1 TCCCTTTT
18375790 CTATTGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TCCCTTTTTTTTC
Found at i:18376564 original size:49 final size:48
Alignment explanation
Indices: 18376507--18376600 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 48
18376497 AGAGTTATGG
*
18376507 AAGGTAAAATAATAAAATTGCT-TCTAGACGCATGGGAGGAGGCTTACGA
1 AAGGTAAAATAATAAAATTGCTCT-TAGACGCACGGG-GGAGGCTTACGA
* **
18376556 AAGGTAAAATACTAACCTTGCTCTTAGACGCACGGGGGAGGCTTA
1 AAGGTAAAATAATAAAATTGCTCTTAGACGCACGGGGGAGGCTTA
18376601 TGGAAGGCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
48 9 0.22
49 30 0.75
50 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (48 bp):
AAGGTAAAATAATAAAATTGCTCTTAGACGCACGGGGGAGGCTTACGA
Found at i:18377303 original size:23 final size:23
Alignment explanation
Indices: 18377273--18377323 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
18377263 ACTTAATAGC
*
18377273 GATCATATAACC-AGAACGAAATA
1 GATCATAT-ACCTAGAACGAAACA
*
18377296 GATCATATACCTAGAACGATACA
1 GATCATATACCTAGAACGAAACA
18377319 GATCA
1 GATCA
18377324 AAATATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.47, C:0.20, G:0.14, T:0.20
Consensus pattern (23 bp):
GATCATATACCTAGAACGAAACA
Found at i:18379268 original size:25 final size:25
Alignment explanation
Indices: 18379240--18379297 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
18379230 ATAGGAAGTT
*
18379240 CAAATGAGCC-ATATCAGGAAGCTCA
1 CAAA-GAGCCTATATCAAGAAGCTCA
*
18379265 CAAAGAGCCTATATCAAGACGCTCA
1 CAAAGAGCCTATATCAAGAAGCTCA
*
18379290 TAAAGAGC
1 CAAAGAGC
18379298 TGCCGTATGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 5 0.17
25 24 0.83
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (25 bp):
CAAAGAGCCTATATCAAGAAGCTCA
Found at i:18381195 original size:12 final size:12
Alignment explanation
Indices: 18381178--18381220 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
18381168 TTGAAGAACT
18381178 AATAAATAAATG
1 AATAAATAAATG
*
18381190 AATAAATAAAATA
1 AATAAAT-AAATG
18381203 AATAAACT-AATG
1 AATAAA-TAAATG
18381215 AATAAA
1 AATAAA
18381221 ACAATTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 16 0.59
13 10 0.37
14 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AATAAATAAATG
Found at i:18381202 original size:21 final size:21
Alignment explanation
Indices: 18381178--18381221 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
18381168 TTGAAGAACT
18381178 AATAAATAAA-TGAATAAATAA
1 AATAAATAAACT-AATAAATAA
*
18381199 AATAAATAAACTAATGAATAA
1 AATAAATAAACTAATAAATAA
18381220 AA
1 AA
18381222 CAATTTACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAAATAAACTAATAAATAA
Found at i:18382947 original size:143 final size:142
Alignment explanation
Indices: 18382686--18383476 Score: 1106
Period size: 143 Copynumber: 5.5 Consensus size: 142
18382676 TCCGACCCGT
* *
18382686 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTCAAGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
18382751 -TCGGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
66 TTC-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
18382815 TCAGTCTGCTCAGC
130 TCAGTCTGCTC-GC
* *
18382829 TGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCA-GAGAGATAAG
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA-AGATAAG
* * *
18382893 ATTCGCCATAATTTGTAGCTTTAATCCGTTCCACTGCAACGCCATGGAAATAAGATTCCCTGTCT
65 ATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
*
18382958 TCAGTCTACTTCGC
130 TCAGTCTGC-TCGC
*
18382972 TGCAACTTCTAG-GAGATAAGGCTGATGGCTTCAAT-TGCTCCACTGCAACTTCAGGAAGATAAG
1 TGCAACTTC-AGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * *
18383035 ATCCGCCATAACTTGCAGCTTTAATCTTGTTCCACTGCAATGCTAGGGAAATAAGATTCGCTGTC
65 ATTCGCCATAATTTGTAGCTTTAATC-TGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTC
*
18383100 TTCAGTCTACTCCGC
129 TTCAGTCTGCT-CGC
* * * * *
18383115 TGTAAGTTCAGGGAGATAAGGCTGGTTGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* * * * * **
18383180 TCCGCTATAACTTGTAGTTTTAATCTGTTCCACTGTAACGTTAGGGAAATAAGATTCGCTGTCTT
66 TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTT
18383245 CAGTCTGCTCTGC
131 CAGTCTGCTC-GC
* * *
18383258 TGCAACTTCAGAGAGATAAAGTTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
* * * *
18383323 TTCGTCATAATTTGTAGCTTTAAT-TCGTTCCACTACAACGCCATGGAAATAAGATTTGCTGTCT
66 TTCGCCATAATTTGTAGCTTTAATCT-GTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
18383387 TCAGTCTGCTCGGC
130 TCAGTCTGCTC-GC
** * *
18383401 TGCAACTTCAGAGAGATAAGGCCAGTGGCTTCAATTTGCTTCACTGCAACTTCAGGAAGATAAGA
1 TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
*
18383466 TTTGCCATAAT
66 TTCGCCATAAT
18383477 GACTTCAATC
Statistics
Matches: 579, Mismatches: 58, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
142 55 0.09
143 468 0.81
144 56 0.10
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (142 bp):
TGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
TTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCTT
CAGTCTGCTCGC
Found at i:18385576 original size:45 final size:45
Alignment explanation
Indices: 18385512--18385604 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
18385502 ACAGATACTT
* *
18385512 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
*
18385557 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
18385602 GGT
1 GGT
18385605 TCACATAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:18385668 original size:51 final size:50
Alignment explanation
Indices: 18385601--18385796 Score: 223
Period size: 51 Copynumber: 3.9 Consensus size: 50
18385591 CAATGATGTT
* * * *
18385601 CGGTTCACATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * *
18385652 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
18385703 CGGCACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
*
18385753 CGGTACACGTAGTAGCCTGCACATAGTACTATACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
18385797 CACTTTCACT
Statistics
Matches: 118, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 75 0.64
52 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:18385789 original size:101 final size:101
Alignment explanation
Indices: 18385608--18385792 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
18385598 GTTCGGTTCA
* *
18385608 CATAGTAGCCTGCACATATTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
18385673 CATAGTACTACACACGTGATCGAAACTATCCGGCACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGCACG
* *
18385710 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
*
18385774 CATAGTACTATACACGTGA
65 CATAGTACTACACACGTGA
18385793 CCATCACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGCACG
Found at i:18388053 original size:22 final size:22
Alignment explanation
Indices: 18388010--18388050 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
18388000 TGGTAGAGGT
18388010 TTTTGTTATTTTATTTTTTTTG
1 TTTTGTTATTTTATTTTTTTTG
18388032 TTTTG-T-TTTTATTTTTTTT
1 TTTTGTTATTTTATTTTTTTT
18388051 TTGCCTCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 1 0.05
22 5 0.26
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (22 bp):
TTTTGTTATTTTATTTTTTTTG
Found at i:18392863 original size:20 final size:19
Alignment explanation
Indices: 18392838--18392885 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
18392828 GTAATAAATT
18392838 ATATAAATAATA-ATAGTAAA
1 ATATAAATAATACATA--AAA
*
18392858 ATATAAA-AGTACATAAAA
1 ATATAAATAATACATAAAA
18392876 ATATAAATAA
1 ATATAAATAA
18392886 ATGAACTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 10 0.42
19 4 0.17
20 10 0.42
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
ATATAAATAATACATAAAA
Found at i:18398895 original size:12 final size:12
Alignment explanation
Indices: 18398878--18398910 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
18398868 ACCATTTAAA
18398878 TACTAGGCCTTT
1 TACTAGGCCTTT
18398890 TACTAGGCCTTT
1 TACTAGGCCTTT
18398902 TACTAGGCC
1 TACTAGGCC
18398911 CGGGCCCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (12 bp):
TACTAGGCCTTT
Found at i:18399050 original size:16 final size:16
Alignment explanation
Indices: 18399013--18399052 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
18399003 TCAATAAAAT
* *
18399013 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
18399029 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
18399045 TAAAATTA
1 TAAAATTA
18399053 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:18399131 original size:59 final size:59
Alignment explanation
Indices: 18399063--18399300 Score: 377
Period size: 59 Copynumber: 3.9 Consensus size: 59
18399053 TCAAATTATT
*
18399063 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-----A
18399127 TTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 --AA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
18399190 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
*
18399249 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
18399301 ACAAACTTGA
Statistics
Matches: 168, Mismatches: 2, Indels: 11
0.93 0.01 0.06
Matches are distributed among these distances:
59 107 0.64
60 1 0.01
61 2 0.01
63 1 0.01
66 2 0.01
67 1 0.01
68 54 0.32
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.45
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:18399158 original size:9 final size:9
Alignment explanation
Indices: 18399125--18399152 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18399115 TTTATCAAAT
18399125 TATTAATTG
1 TATTAATTG
18399134 TATTAATTG
1 TATTAATTG
18399143 TATTAATTG
1 TATTAATTG
18399152 T
1 T
18399153 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:18399162 original size:68 final size:68
Alignment explanation
Indices: 18399041--18399270 Score: 374
Period size: 68 Copynumber: 3.5 Consensus size: 68
18399031 AAATTAATTG
*
18399041 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
18399104 TGA
66 TGA
18399107 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
18399172 TGA
66 TGA
18399175 TTAGTAAATTTATC-----A--AA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
18399231 TGA
66 TGA
18399234 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
18399271 TGTAACAAAA
Statistics
Matches: 152, Mismatches: 1, Indels: 20
0.88 0.01 0.12
Matches are distributed among these distances:
59 55 0.36
60 1 0.01
61 2 0.01
63 1 0.01
64 1 0.01
66 28 0.18
67 1 0.01
68 63 0.41
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:18399396 original size:24 final size:23
Alignment explanation
Indices: 18399367--18399411 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
18399357 AAATAAACTT
*
18399367 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAAATA-TATATTTTA
18399391 AAAATAAAAAAATATATATTT
1 AAAATAAAAAAATATATATTT
18399412 AATATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAAAAAATATATATTTTA
Found at i:18405560 original size:14 final size:14
Alignment explanation
Indices: 18405543--18405593 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
18405533 AATAATAATC
18405543 AAATTTATTTAGTT
1 AAATTTATTTAGTT
*
18405557 AAATTTAATTA-TT
1 AAATTTATTTAGTT
18405570 AATCAATTTATTTAGTT
1 -A--AATTTATTTAGTT
18405587 AAATTTA
1 AAATTTA
18405594 ATTATTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 2 0.06
14 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (14 bp):
AAATTTATTTAGTT
Found at i:18405580 original size:30 final size:30
Alignment explanation
Indices: 18405538--18405608 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
18405528 CAAATAATAA
18405538 TAATCAAATTTATTTAGTTAAATTTAATTAT
1 TAATC-AATTTATTTAGTTAAATTTAATTAT
18405569 TAATCAATTTATTTAGTTAAATTTAATTAT
1 TAATCAATTTATTTAGTTAAATTTAATTAT
18405599 TAATC-ATTTA
1 TAATCAATTTA
18405609 CTATAAGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 5 0.12
30 30 0.75
31 5 0.12
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (30 bp):
TAATCAATTTATTTAGTTAAATTTAATTAT
Found at i:18409214 original size:13 final size:13
Alignment explanation
Indices: 18409196--18409220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18409186 TACGCATTTC
18409196 TTTTATTTTATTA
1 TTTTATTTTATTA
18409209 TTTTATTTTATT
1 TTTTATTTTATT
18409221 TCTAGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTA
Found at i:18412603 original size:17 final size:17
Alignment explanation
Indices: 18412581--18412616 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
18412571 ACTAAAGAAC
18412581 AAGAAAGGAAAATAATT
1 AAGAAAGGAAAATAATT
18412598 AAGAAAGGAAAATAATT
1 AAGAAAGGAAAATAATT
18412615 AA
1 AA
18412617 AGTAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (17 bp):
AAGAAAGGAAAATAATT
Found at i:18415089 original size:23 final size:24
Alignment explanation
Indices: 18415061--18415105 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18415051 GTAAAGTATT
*
18415061 AAAATAAAAACTAT-TATATTTTA
1 AAAATAAAAAATATATATATTTTA
18415084 AAAATAAAAAATATATATATTT
1 AAAATAAAAAATATATATATTT
18415106 AATATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATAAAAAATATATATATTTTA
Found at i:18415370 original size:27 final size:28
Alignment explanation
Indices: 18415319--18415372 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
18415309 ACATGAATTT
* *
18415319 TTTCATAAATTTTGTCATGCTAAATAAA
1 TTTCATAAAATTTATCATGCTAAATAAA
18415347 TTTCATAAAATTTAT-ATGCTAAATAA
1 TTTCATAAAATTTATCATGCTAAATAA
18415373 CATAATAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (28 bp):
TTTCATAAAATTTATCATGCTAAATAAA
Found at i:18415530 original size:10 final size:11
Alignment explanation
Indices: 18415489--18415564 Score: 63
Period size: 10 Copynumber: 7.1 Consensus size: 11
18415479 TTCCTCCCCT
18415489 CTTCTTC-TT-
1 CTTCTTCTTTC
*
18415498 CTTCTTTTTTTC
1 CTTC-TTCTTTC
*
18415510 TCTTCTCCTTTC
1 -CTTCTTCTTTC
18415522 CTT-TTCTTTC
1 CTTCTTCTTTC
18415532 CTTCTT-TTTC
1 CTTCTTCTTTC
*
18415542 TTTCTTTCTTT-
1 CTTC-TTCTTTC
18415553 CTTCTTCTTTC
1 CTTCTTCTTTC
18415564 C
1 C
18415565 CTCTCCTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 4 0.08
10 24 0.45
11 13 0.25
12 8 0.15
13 4 0.08
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (11 bp):
CTTCTTCTTTC
Found at i:18415545 original size:18 final size:18
Alignment explanation
Indices: 18415492--18415563 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
18415482 CTCCCCTCTT
*
18415492 CTTCTTCTTCTTTTTTTC
1 CTTCTTCTTCTTTCTTTC
*
18415510 TCTTCTCCTTTCCTTTTCTTTC
1 -CTTCTTC-TT-C-TTTCTTTC
*
18415532 CTTCTTTTTCTTTCTTTC
1 CTTCTTCTTCTTTCTTTC
*
18415550 TTTCTTCTTCTTTC
1 CTTCTTCTTCTTTC
18415564 CCTCTCCTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 20 0.45
19 7 0.16
20 4 0.09
21 6 0.14
22 7 0.16
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTTCTTCTTTCTTTC
Found at i:18415563 original size:14 final size:14
Alignment explanation
Indices: 18415493--18415563 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
18415483 TCCCCTCTTC
*
18415493 TTCTTCTTCTTTTT
1 TTCTTCTTCTTTCT
*
18415507 TTC-TCTTC-TCCT
1 TTCTTCTTCTTTCT
*
18415519 TTCCTT-TTCTTTCC
1 TT-CTTCTTCTTTCT
*
18415533 TTCTTTTTCTTTCT
1 TTCTTCTTCTTTCT
18415547 TTCTTTCTTC-TTCT
1 TTC-TTCTTCTTTCT
18415561 TTC
1 TTC
18415564 CCTCTCCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
12 4 0.09
13 12 0.26
14 25 0.54
15 5 0.11
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCTTCTTCTTTCT
Found at i:18415563 original size:32 final size:32
Alignment explanation
Indices: 18415461--18415564 Score: 90
Period size: 32 Copynumber: 3.2 Consensus size: 32
18415451 AAATTACCTT
* * * * **
18415461 TTCTTTCTTTCTTTTTCCTTCCTCCCCTCTTC
1 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
18415493 TTC-TT-CTTCTTTTT-TTCTCTTCTCCTTTCCTT-
1 TTCTTTCCTTCTTTTTCTT-TCTT-T-CTTT-CTTC
18415525 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
1 TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
18415557 TTCTTTCC
1 TTCTTTCC
18415565 CTCTCCTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
29 1 0.02
30 11 0.19
31 5 0.09
32 20 0.34
33 6 0.10
34 13 0.22
35 2 0.03
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (32 bp):
TTCTTTCCTTCTTTTTCTTTCTTTCTTTCTTC
Found at i:18416581 original size:17 final size:17
Alignment explanation
Indices: 18416555--18416588 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
18416545 TAATTTATCA
18416555 AAATTAATTATTTTAAAT
1 AAATTAATTA-TTTAAAT
18416573 AAATT-ATTATTTAAAT
1 AAATTAATTATTTAAAT
18416589 TTGAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTAATTATTTAAAT
Found at i:18417534 original size:22 final size:22
Alignment explanation
Indices: 18417506--18417556 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
18417496 CTCTCTAATC
*
18417506 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
18417528 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
18417550 CTCTCAA
1 CTCTCAA
18417557 ACTCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:18417640 original size:29 final size:31
Alignment explanation
Indices: 18417600--18417664 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
18417590 CTCTCAATCC
*
18417600 ATTTTTTTAAAATAATTAT-AA-TTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
*
18417629 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
18417660 ATTTT
1 ATTTT
18417665 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.53
30 2 0.06
31 13 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTATAAATTTTTTTAT
Found at i:18418089 original size:22 final size:22
Alignment explanation
Indices: 18418061--18418106 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
18418051 GCATTTTTTT
18418061 AATTTCCTTCCAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
18418083 AATTTCCTTCCAAAATTCTCTC
1 AATTTCCTTCCAAAATTCTCTC
18418105 AA
1 AA
18418107 ACTCATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTTCCTTCCAAAATTCTCTC
Found at i:18418190 original size:29 final size:31
Alignment explanation
Indices: 18418150--18418214 Score: 98
Period size: 29 Copynumber: 2.2 Consensus size: 31
18418140 CTCTCAATCC
*
18418150 ATTTTTTTAAAATAATTAT-AA-TTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
*
18418179 ATTTTTTAAAAATAATTTTAAATTTTTTTAT
1 ATTTTTTAAAAATAATTATAAATTTTTTTAT
18418210 ATTTT
1 ATTTT
18418215 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 17 0.53
30 2 0.06
31 13 0.41
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
ATTTTTTAAAAATAATTATAAATTTTTTTAT
Found at i:18418551 original size:550 final size:550
Alignment explanation
Indices: 18417511--18418606 Score: 2183
Period size: 550 Copynumber: 2.0 Consensus size: 550
18417501 TAATCCTCTC
*
18417511 AATTTCCTTCTAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAACTCATATTTAATTTTAAT
1 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAACTCATATTTAATTTTAAT
18417576 TTCCTTCCAAAATTCTCTCAATCCATTTTTTTAAAATAATTATAATTTTTTATATTTTTTAAAAA
66 TTCCTTCCAAAATTCTCTCAATCCATTTTTTTAAAATAATTATAATTTTTTATATTTTTTAAAAA
18417641 TAATTTTAAATTTTTTTATATTTTCATCAATGGCCGGATCATTGACTCGTCTTGATAGCAATCAC
131 TAATTTTAAATTTTTTTATATTTTCATCAATGGCCGGATCATTGACTCGTCTTGATAGCAATCAC
18417706 ATATCGGTGGAGCAAATGAAAATGGTAAGTATTAAATTTAATTTGTAATTATTATTTAAGATTTT
196 ATATCGGTGGAGCAAATGAAAATGGTAAGTATTAAATTTAATTTGTAATTATTATTTAAGATTTT
18417771 TTTATTTATGTATTTTTAGATAAGTATTAATTTATTGTTTGTTATAAAAGTCTAAAGATCGGGTA
261 TTTATTTATGTATTTTTAGATAAGTATTAATTTATTGTTTGTTATAAAAGTCTAAAGATCGGGTA
18417836 TTGGAATGCCATATCCGGAATATGCATGCTCTTCCATCATCGTTAGTAGAGAACTACCTGCGGGA
326 TTGGAATGCCATATCCGGAATATGCATGCTCTTCCATCATCGTTAGTAGAGAACTACCTGCGGGA
18417901 AGCGGGTTTTTGGCACGTGGCGACGGTAGGCCGGGGATTCAAGTTGGACCCGAAACTGATTAGTG
391 AGCGGGTTTTTGGCACGTGGCGACGGTAGGCCGGGGATTCAAGTTGGACCCGAAACTGATTAGTG
18417966 CGTTGATCGAGAGGTGGAGACCCGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATC
456 CGTTGATCGAGAGGTGGAGACCCGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATC
18418031 ACTCTAGAAGATGTCAGCATGCATTTTTTT
521 ACTCTAGAAGATGTCAGCATGCATTTTTTT
18418061 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAACTCATATTTAATTTTAAT
1 AATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAACTCATATTTAATTTTAAT
18418126 TTCCTTCCAAAATTCTCTCAATCCATTTTTTTAAAATAATTATAATTTTTTATATTTTTTAAAAA
66 TTCCTTCCAAAATTCTCTCAATCCATTTTTTTAAAATAATTATAATTTTTTATATTTTTTAAAAA
18418191 TAATTTTAAATTTTTTTATATTTTCATCAATGGCCGGATCATTGACTCGTCTTGATAGCAATCAC
131 TAATTTTAAATTTTTTTATATTTTCATCAATGGCCGGATCATTGACTCGTCTTGATAGCAATCAC
18418256 ATATCGGTGGAGCAAATGAAAATGGTAAGTATTAAATTTAATTTGTAATTATTATTTAAGATTTT
196 ATATCGGTGGAGCAAATGAAAATGGTAAGTATTAAATTTAATTTGTAATTATTATTTAAGATTTT
18418321 TTTATTTATGTATTTTTAGATAAGTATTAATTTATTGTTTGTTATAAAAGTCTAAAGATCGGGTA
261 TTTATTTATGTATTTTTAGATAAGTATTAATTTATTGTTTGTTATAAAAGTCTAAAGATCGGGTA
18418386 TTGGAATGCCATATCCGGAATATGCATGCTCTTCCATCATCGTTAGTAGAGAACTACCTGCGGGA
326 TTGGAATGCCATATCCGGAATATGCATGCTCTTCCATCATCGTTAGTAGAGAACTACCTGCGGGA
18418451 AGCGGGTTTTTGGCACGTGGCGACGGTAGGCCGGGGATTCAAGTTGGACCCGAAACTGATTAGTG
391 AGCGGGTTTTTGGCACGTGGCGACGGTAGGCCGGGGATTCAAGTTGGACCCGAAACTGATTAGTG
18418516 CGTTGATCGAGAGGTGGAGACCCGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATC
456 CGTTGATCGAGAGGTGGAGACCCGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATC
18418581 ACTCTAGAAGATGTCAGCATGCATTT
521 ACTCTAGAAGATGTCAGCATGCATTT
18418607 GGGATTGCCG
Statistics
Matches: 545, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
550 545 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (550 bp):
AATTTCCTTCCAAAATTCTCTCAATTTCCTTCCAAAATTCTCTCAAACTCATATTTAATTTTAAT
TTCCTTCCAAAATTCTCTCAATCCATTTTTTTAAAATAATTATAATTTTTTATATTTTTTAAAAA
TAATTTTAAATTTTTTTATATTTTCATCAATGGCCGGATCATTGACTCGTCTTGATAGCAATCAC
ATATCGGTGGAGCAAATGAAAATGGTAAGTATTAAATTTAATTTGTAATTATTATTTAAGATTTT
TTTATTTATGTATTTTTAGATAAGTATTAATTTATTGTTTGTTATAAAAGTCTAAAGATCGGGTA
TTGGAATGCCATATCCGGAATATGCATGCTCTTCCATCATCGTTAGTAGAGAACTACCTGCGGGA
AGCGGGTTTTTGGCACGTGGCGACGGTAGGCCGGGGATTCAAGTTGGACCCGAAACTGATTAGTG
CGTTGATCGAGAGGTGGAGACCCGAGACGCACACATTTCATCTTCCATGTGGAGAGTGCACTATC
ACTCTAGAAGATGTCAGCATGCATTTTTTT
Found at i:18419289 original size:7 final size:7
Alignment explanation
Indices: 18419277--18419301 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18419267 AGTTGATTGA
18419277 TATTTAG
1 TATTTAG
18419284 TATTTAG
1 TATTTAG
18419291 TATTTAG
1 TATTTAG
18419298 TATT
1 TATT
18419302 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:18420278 original size:24 final size:24
Alignment explanation
Indices: 18420245--18420300 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
18420235 ATGCGGAACC
*
18420245 GGAAGAACCACAACCACCACCGAA
1 GGAAGAACCACAACCACCACCAAA
* *
18420269 GGAAGGACCACAATCACCACCAAA
1 GGAAGAACCACAACCACCACCAAA
18420293 GGAAGAAC
1 GGAAGAAC
18420301 AATCGCCGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.32, G:0.20, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAAA
Found at i:18420571 original size:28 final size:28
Alignment explanation
Indices: 18420537--18421352 Score: 1025
Period size: 28 Copynumber: 28.4 Consensus size: 28
18420527 TAACCTAACA
*
18420537 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420565 CTAACCTAAATTAACTAAAAACCCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18420593 CTAACCCTAACCTAATTAACTAAAAACCCTAAT
1 CTAA-CCT-A---AATTAATTAAAAACCCTAAT
18420626 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18420654 CTAACCTAAATTAACTAAAAA-CC----
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18420677 CTAACCTAAATTAACTAAAAACCCTAATCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
* *
18420707 AACGCTAACCTAAATTAACTAAAAATCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
18420739 CTAACCTAAATTAATTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420767 CTAACCTAATTTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420795 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
* **
18420824 CTAACTTAAATTAATTAAAAAATCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18420852 CTAACCTAAATTAACTAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420880 CTAACCTAAATTAATTAAAAACTCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420908 CTAACCTAAATTAACTAAAAACCTTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* *
18420936 CTAACCTAAATTAATTTAAAACCCTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
18420965 CTAACCTAAATTAATTAAAAA-CCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18420992 CTAACCTAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
*
18421022 AACCTTAACCTAAATTAACTAAAAACCCTAAT
1 ---C-TAACCTAAATTAATTAAAAACCCTAAT
*
18421054 CTAACCTAAATTAATTAAAAACCCTAAC
1 CTAACCTAAATTAATTAAAAACCCTAAT
18421082 CTAACCTAAATTAA-TAAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18421109 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18421137 CTAACCTAAATTAATTTAAAACCCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
* * *
18421165 CTAACCTAAATTAATTTAAAACCTTAACC
1 CTAACCTAAATTAATTAAAAACCCTAA-T
*
18421194 CTAACCTAAATTAATTAAAAAACCTAAT
1 CTAACCTAAATTAATTAAAAACCCTAAT
*
18421222 CTAACCTAAATTAACTAAAAACCCTAACCT
1 CTAACCTAAATTAATTAAAAACCCTAA--T
18421252 AACCCTAACCTAAATTAATTAAAAACCCTAAT
1 ----CTAACCTAAATTAATTAAAAACCCTAAT
*
18421284 CTAACCTAAATTAATTAAAAACCCTAAAC
1 CTAACCTAAATTAATTAAAAACCCT-AAT
* *
18421313 CTAACCTAAATTAATTAAAAACCCAAAA
1 CTAACCTAAATTAATTAAAAACCCTAAT
18421341 CTAACCTAAATT
1 CTAACCTAAATT
18421353 TTTTTGGCTT
Statistics
Matches: 702, Mismatches: 52, Indels: 68
0.85 0.06 0.08
Matches are distributed among these distances:
23 21 0.03
24 2 0.00
27 48 0.07
28 422 0.60
29 97 0.14
30 3 0.00
31 1 0.00
32 6 0.01
33 24 0.03
34 78 0.11
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (28 bp):
CTAACCTAAATTAATTAAAAACCCTAAT
Found at i:18421386 original size:26 final size:26
Alignment explanation
Indices: 18421350--18421406 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
18421340 ACTAACCTAA
18421350 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
18421376 ATTTTTTTGGCTTAATAATTTTACAT
1 ATTTTTTTGGCTTAATAATTTTACAT
18421402 ATTTT
1 ATTTT
18421407 GAACACTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.07, T:0.60
Consensus pattern (26 bp):
ATTTTTTTGGCTTAATAATTTTACAT
Found at i:18421463 original size:55 final size:56
Alignment explanation
Indices: 18421378--18421508 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 56
18421368 TTTTACATAT
* * *
18421378 TTTTTTGGCTTAATAATTTTACATATTTTGA-ACACTTTAATAACCATTAACACAA
1 TTTTTTGGCTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
* * ** *
18421433 -TTTTTGGACTTAATAATTTGAGAT-TATTTGATAAATTTTTCTAACCATTAAGAAAA
1 TTTTTTGG-CTTAATAATTTGACATAT-TTTGATAAACTTTAATAACCATTAACAAAA
18421489 TTGTTTTGGCTTAATAATTT
1 TT-TTTTGGCTTAATAATTT
18421509 TATATAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
54 8 0.13
55 19 0.30
56 18 0.29
57 12 0.19
58 6 0.10
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (56 bp):
TTTTTTGGCTTAATAATTTGACATATTTTGATAAACTTTAATAACCATTAACAAAA
Found at i:18431527 original size:11 final size:11
Alignment explanation
Indices: 18431505--18431544 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
18431495 AACTAATCCT
18431505 CTCTCAAATTTC
1 CTCTC-AATTTC
18431517 CTCTCAATTTC
1 CTCTCAATTTC
18431528 CTCTCAATTTC
1 CTCTCAATTTC
18431539 CT-TCAA
1 CTCTCAA
18431545 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:18431624 original size:12 final size:12
Alignment explanation
Indices: 18431585--18431627 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
18431575 TTAACTCCCT
18431585 TTTTTAAAAATA
1 TTTTTAAAAATA
* *
18431597 ATTTTAAAACTA
1 TTTTTAAAAATA
18431609 TTTTTAAAAAT-
1 TTTTTAAAAATA
18431620 TTTTTAAA
1 TTTTTAAA
18431628 CCGTAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:18432739 original size:7 final size:7
Alignment explanation
Indices: 18432727--18432751 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18432717 AGTCGATTGA
18432727 TATTTAG
1 TATTTAG
18432734 TATTTAG
1 TATTTAG
18432741 TATTTAG
1 TATTTAG
18432748 TATT
1 TATT
18432752 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:18433989 original size:23 final size:23
Alignment explanation
Indices: 18433963--18434866 Score: 819
Period size: 23 Copynumber: 39.7 Consensus size: 23
18433953 AATACCCTTA
*
18433963 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
18433986 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* ***
18434008 ACTTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
18434030 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
18434054 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
18434077 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
18434099 ACTTAAAAACCCTAATCTAATTA
1 AATTAAAAACCCTAACCTAATTT
18434122 AATTAAAAACCCTCAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
18434144 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
*
18434166 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
18434190 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
18434213 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
18434236 AATTAAAAATCCCAAACCCTAA---
1 AATTAAAAA-CCCTAA-CCTAATTT
* *
18434258 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
18434281 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
18434304 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
18434326 ACTTAAAAACCCTAACCTAA-TG
1 AATTAAAAACCCTAACCTAATTT
18434348 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
18434372 AATT-AAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
*
18434393 ACTTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
18434416 AATTAAAAACCCTAA-CTCAATTT
1 AATTAAAAACCCTAACCT-AATTT
18434439 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
18434461 ACTTAAAAACGCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
18434484 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
18434507 AATTAAAAACCCAAAACCCAA---
1 AATTAAAAACCC-TAACCTAATTT
*
18434528 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
18434552 AATT-AAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
*
18434574 AATTAAAAACCCTAAACCCTAAACTT
1 AATTAAAAACCCT-AA-CCT-AATTT
* *
18434600 AA-AAACCCTAAACCCTAACCTAA-TG
1 AATTAA----AAACCCTAACCTAATTT
*
18434625 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
18434649 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
**
18434672 AATTAAAAATTCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
18434694 ACTTAAAAACCATAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
18434717 AATTAAAAACCCTAAACCTAA---
1 AATTAAAAACCCT-AACCTAATTT
* *
18434738 ACTTAAAAACCCTAAACTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
18434761 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
18434783 ATTTAAAAACCCTAACTTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
18434806 AATTAAAAATCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
* *
18434829 AATTAAAAACCCTAACGTAATTA
1 AATTAAAAACCCTAACCTAATTT
18434852 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
18434867 ACCCTAAACC
Statistics
Matches: 740, Mismatches: 69, Indels: 144
0.78 0.07 0.15
Matches are distributed among these distances:
20 46 0.06
21 44 0.06
22 138 0.19
23 393 0.53
24 53 0.07
25 43 0.06
26 9 0.01
27 5 0.01
28 2 0.00
29 7 0.01
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:18434022 original size:45 final size:43
Alignment explanation
Indices: 18433962--18434982 Score: 796
Period size: 45 Copynumber: 22.6 Consensus size: 43
18433952 TAATACCCTT
* *
18433962 AAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* ***
18434007 AACTTAAAAACCCTAACC-CCCTTAACTTAAAAACCCTAACCTAA
1 AAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACCT-A
*
18434051 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTA
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* * *
18434098 AACTTAAAAACCCTAATCTAATTAAATTAAAAACCCTCAACCCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* *
18434143 AACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCTAACCTAA
1 AAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACCT-A
18434187 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
* *
18434232 ATTTAATTAAAAATCCCAAACCCTAA---ACTTAAAAACCCTAACCTAA
1 A---AATTAAAAA-CCCTAA-CCTAATTTAATTAAAAACCCTAACCT-A
18434278 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTA
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* *
18434325 AACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCCTAACCTA
1 AAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAACCTA
*
18434368 ATTTAATT-AAAACCCTAAACCCTAA---ACTTAAAAACCCTAACCTA
1 A---AATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAACCTA
18434412 ATTTAATTAAAAACCCTAA-CTCAATTTAATTAAAAACCCTAAACCCTA
1 A---AATTAAAAACCCTAACCT-AATTTAATTAAAAACCCT-AA-CCTA
* * *
18434460 AACTTAAAAACGCTAACCTAATTAAATTAAAAACCCTAACCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
* *
18434503 ATTTAATTAAAAACCCAAAACCCAA---AACTTAAAAACCCTAACCTAA
1 A---AATTAAAAACCC-TAACCTAATTTAA-TTAAAAACCCTAACCT-A
*
18434549 TTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTA
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* *
18434595 AACTTAAAAACCCTAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAA
1 AAATTAAAAACCCT-AA-CCTAA--T--TTAA-TTAAAAACCCTAACCT-A
**
18434646 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATTCTAAACCCTA
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* *
18434693 AACTTAAAAACCATAACCTAATTTAATTAAAAACCCTAAACCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCTA
* * *
18434737 AACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-CCTA
* * * *
18434782 AATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT-A
* *
18434826 TTAAATTAAAAACCCTAACGTAATTAAATTAAAAACCCTAAACC--
1 --AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AACCTA
* * *
18434870 ---CT--AAACCCTAAACCCTAA---ACTTAAAAACCCTAACCCCCTT
1 AAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAA---CCTA
* * *
18434910 AACTTAAAAACCCTAACCTAATTAAATTATAAACCCTAACCTA
1 AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
* *
18434953 ATTTAATTAAAAACCCTAAACTAAATTAAT
1 A---AATTAAAAACCCTAACCTAATTTAAT
18434983 AATTTTACTT
Statistics
Matches: 817, Mismatches: 71, Indels: 175
0.77 0.07 0.16
Matches are distributed among these distances:
35 2 0.00
36 12 0.01
37 7 0.01
38 4 0.00
39 5 0.01
42 2 0.00
43 43 0.05
44 111 0.14
45 319 0.39
46 200 0.24
47 49 0.06
48 21 0.03
49 2 0.00
50 3 0.00
51 11 0.01
52 13 0.02
53 13 0.02
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (43 bp):
AAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTA
Found at i:18434102 original size:68 final size:66
Alignment explanation
Indices: 18433962--18434981 Score: 694
Period size: 68 Copynumber: 15.1 Consensus size: 66
18433952 TAATACCCTT
* * * *
18433962 AAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA---ACTTAAAAACCCTAAC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAA-
*
18434024 CCCCTT
63 --CCTA
* *
18434030 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-AA-C
18434095 CTA
64 CTA
* * *
18434098 AACTTAAAAACCCTAATCTAATTAAATTAAAAACCCTCAACCCTAA---ACTTAAAAACCCTAAC
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTAAC
18434160 CTA
64 CTA
18434163 ATGAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 A--AA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
18434228 CCTA
63 CCTA
* * *
18434232 ATTTAATTAAAAATCCCAAACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCT
1 A---AATTAAAAA-CCCTAA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
18434294 AACCTA
61 AACCTA
* *
18434300 ATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAA-TGAACTTAAAAACCC
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCC
18434361 TAACCTA
60 TAACCTA
*
18434368 ATTTAATT-AAAACCCTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAACCCT
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
18434429 AA-CTCA
61 AACCT-A
* * *
18434435 ATTTAATTAAAAACCCTAAACCCT-A--AACTTAAAAACGCTAACCTAATTAAATTAAAAACCCT
1 A---AATTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
18434497 AACCTA
61 AACCTA
* * * *
18434503 ATTTAATTAAAAACCCAAAACCCAA--AACTTAAAAACCCTAACCTAATTAAATT-AAAACCCTA
1 A---AATTAAAAACCC-TAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
18434565 ACCTAA
62 ACCT-A
*
18434571 TTAAATTAAAAACCCTAAACCCTAAACTTAAA--AACCCTAAACCCTAACCTAA-TGAACTTAAA
1 --AAATTAAAAACCCT-AA-CCT-AA-TTAAATTAA----AAACCCTAACCTAATTTAA-TTAAA
18434633 AACCCTAACCTAA
55 AACCCTAACCT-A
* ** * *
18434646 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATTCTAAACCCTAA---ACTTAAAAACCATA
1 --AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
18434708 ACCTA
62 ACCTA
* * *
18434713 ATTTAATTAAAAACCCTAAACCT-A--AACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTA
1 A---AATTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT-
18434775 AACCCTA
61 AA-CCTA
* * * * *
18434782 AATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAACGT
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
18434847 AA
66 -A
* *
18434849 TTAAATTAAAAACCCTAAACC--------CT--AAACCCTAAACCCTAA---ACTTAAAAACCCT
1 --AAATTAAAAACCCT-AACCTAATTAAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCT
*
18434901 AACCCCCTT
61 AA---CCTA
* * *
18434910 AACTTAAAAACCCTAACCTAATTAAATTATAAACCCTAACCTAATTTAATTAAAAACCCTAAACT
1 AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
18434975 -
66 A
18434975 AAATTAA
1 AAATTAA
18434982 TAATTTTACT
Statistics
Matches: 815, Mismatches: 61, Indels: 155
0.79 0.06 0.15
Matches are distributed among these distances:
58 4 0.00
59 27 0.03
60 6 0.01
61 2 0.00
62 8 0.01
64 4 0.00
65 18 0.02
66 47 0.06
67 127 0.16
68 389 0.48
69 86 0.11
70 24 0.03
71 12 0.01
72 4 0.00
73 8 0.01
74 18 0.02
75 31 0.04
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (66 bp):
AAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCT
A
Found at i:18434438 original size:135 final size:135
Alignment explanation
Indices: 18434052--18434875 Score: 899
Period size: 135 Copynumber: 6.0 Consensus size: 135
18434042 CTAACCTAAT
* *
18434052 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAA---ACTTAAAAACCCTA
1 TAAACTTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
* ** * *
18434113 ATCTAATTAAA-TTAAAAACCCTCAACCCT-A--AACTTAAAAACCCTAACCTAA-TGAACTTAA
63 AAC--CCTAAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAA
18434173 AAACCCT-AA-CC
123 AAACCCTAAACCC
*
18434184 TAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAATCCC
1 T-A--AACTTAAAAACCCTAACCTAA-TTAATTAAAAACCCTAACCTAATTTAATTAAAAA-CCC
18434249 -AAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
61 TAAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
18434313 CCCTAAACCC
126 CCCTAAACCC
*
18434323 TAAACTTAAAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTTAATT-AAAACCCTAAA
1 TAAACTTAAAAACCCTAACCTAATTAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
*
18434387 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-CTCAATTTAATTAAAAACCC
65 CCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCT-AATTTAATTAAAAACCC
18434451 TAAACCC
129 TAAACCC
* *
18434458 TAAACTTAAAAACGCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCAAAA
1 TAAACTTAAAAACCCTAACCTAATT-AATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA
* *
18434523 CCCAAAACTTAAAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCCT
65 CCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCT
18434587 AAACCC
130 AAACCC
*
18434593 TAAACTTAAAAACCCTAAACCCTAACCTAATGAACTTAAAAACCCTAACCTAATTAAATTAAAAA
1 TAAACTTAAAAACCCT-AA-CCTAA--T--T-AA-TTAAAAACCCTAACCTAATTTAATTAAAAA
* ** * *
18434658 CCCT-AA-CCTAATTTAATTAAAAATTCTAAACCCT-A--AACTTAAAAACCATAACCTAATTTA
58 CCCTAAACCCTAA---ACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTA
18434718 ATTAAAAACCCTAAA-CC
118 ATTAAAAACCCTAAACCC
* * *
18434735 TAAACTTAAAAACCCTAAACTAATTTAATTAAAAACCTTAAACCCTAA---ATTTAAAAACCCT-
1 TAAACTTAAAAACCCTAACCTAA-TTAATTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCTA
* * * * *
18434796 AA-CTTAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACCCTAACGTAATTAAATTAAAA
63 AACCCT-A--AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAA
18434860 ACCCTAAACCC
125 ACCCTAAACCC
18434871 TAAAC
1 TAAAC
18434876 CCTAAACCCT
Statistics
Matches: 612, Mismatches: 37, Indels: 82
0.84 0.05 0.11
Matches are distributed among these distances:
132 4 0.01
133 4 0.01
134 41 0.07
135 231 0.38
136 147 0.24
137 54 0.09
138 9 0.01
139 5 0.01
140 8 0.01
141 7 0.01
142 54 0.09
143 42 0.07
144 3 0.00
145 3 0.00
ACGTcount: A:0.50, C:0.24, G:0.01, T:0.25
Consensus pattern (135 bp):
TAAACTTAAAAACCCTAACCTAATTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
CCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTA
AACCC
Found at i:18434593 original size:30 final size:29
Alignment explanation
Indices: 18434557--18434640 Score: 92
Period size: 30 Copynumber: 3.1 Consensus size: 29
18434547 AATTAAATTA
*
18434557 AAACCCTAACCTAATTAAATTAAAAACCCT
1 AAACCCTAACCTAA-TAACTTAAAAACCCT
18434587 AAA--C---CCT-A-AACTTAAAAACCCT
1 AAACCCTAACCTAATAACTTAAAAACCCT
18434609 AAACCCTAACCTAATGAACTTAAAAACCCT
1 AAACCCTAACCTAAT-AACTTAAAAACCCT
18434639 AA
1 AA
18434641 CCTAATTAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
22 16 0.36
24 2 0.04
25 3 0.07
27 3 0.07
28 2 0.04
30 19 0.42
ACGTcount: A:0.50, C:0.29, G:0.01, T:0.20
Consensus pattern (29 bp):
AAACCCTAACCTAATAACTTAAAAACCCT
Found at i:18434870 original size:7 final size:7
Alignment explanation
Indices: 18434858--18434889 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18434848 ATTAAATTAA
18434858 AAACCCT
1 AAACCCT
18434865 AAACCCT
1 AAACCCT
18434872 AAACCCT
1 AAACCCT
18434879 AAACCCT
1 AAACCCT
18434886 AAAC
1 AAAC
18434890 TTAAAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.47, C:0.41, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:18434913 original size:23 final size:23
Alignment explanation
Indices: 18434872--18434950 Score: 88
Period size: 23 Copynumber: 3.5 Consensus size: 23
18434862 CCTAAACCCT
* *
18434872 AAACCCTAA-ACCCTAAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
18434894 AAACCCTAACCCCCTTAACTTAA
1 AAACCCTAACCCCCTTAACTTAA
*** * *
18434917 AAACCCTAACCTAATTAAATTAT
1 AAACCCTAACCCCCTTAACTTAA
18434940 AAACCCTAACC
1 AAACCCTAACC
18434951 TAATTTAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 9 0.18
23 40 0.82
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (23 bp):
AAACCCTAACCCCCTTAACTTAA
Found at i:18434918 original size:105 final size:105
Alignment explanation
Indices: 18434767--18434973 Score: 315
Period size: 105 Copynumber: 2.0 Consensus size: 105
18434757 ATTTAATTAA
* * ** *
18434767 AAACCTTAAACCCTAAATTTAAAAACCCTAACTTAATTAAATTAAAAATCCTAACCTAATTAAAT
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
*
18434832 TAAAAACCCTAACGTAATTAAATTAAAAACCCTAAACCCT
66 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCT
** *
18434872 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTAATTAAAT
1 AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
* *
18434937 TATAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
66 TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAAC
18434974 TAAATTAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 91 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (105 bp):
AAACCCTAAACCCTAAACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTAATTAAAT
TAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCT
Found at i:18434951 original size:23 final size:23
Alignment explanation
Indices: 18434885--18434981 Score: 113
Period size: 23 Copynumber: 4.1 Consensus size: 23
18434875 CCCTAAACCC
***
18434885 TAAACTTAAAAACCCTAACCCCCT
1 TAAA-TTAAAAACCCTAACCTAAT
*
18434909 TAACTTAAAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
*
18434932 TAAATTATAAACCCTAACCTAAT
1 TAAATTAAAAACCCTAACCTAAT
* *
18434955 TTAATTAAAAACCCTAAACTAAAT
1 TAAATTAAAAACCCTAACCT-AAT
18434979 TAA
1 TAA
18434982 TAATTTTACT
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
23 54 0.87
24 8 0.13
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAATTAAAAACCCTAACCTAAT
Found at i:18435121 original size:116 final size:116
Alignment explanation
Indices: 18434976--18435219 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
18434966 CCCTAAACTA
* **
18434976 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGGTACTAACAAT
* * *
18435041 TAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
*
18435092 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTTCTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
18435157 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
66 AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
18435208 AATTAATAATTT
1 AATTAATAATTT
18435220 CACAAACTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 40 0.33
116 80 0.67
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATT
AATAATTTTACATAATTTGATAATTTTTACTAACCATTAATACAAATTATC
Found at i:18438457 original size:124 final size:123
Alignment explanation
Indices: 18438231--18438578 Score: 507
Period size: 124 Copynumber: 2.8 Consensus size: 123
18438221 CAAACATGCT
* *
18438231 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCAATTTTACAAATTCTTCTCAAATAGCATCCTGTTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-CAAATTCTTCTCAAATAGCATCCTGCTA
* * * * *
18438296 GAAGCGATTTTATCCTATTTGCTCAGAAACGTGAAAAAAAGTTATTTCTTTCATGACCG
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* *
18438355 ACTGTAGCAAAAGCCCGTCCACGAGGGCGCGATTTTCTAAATTCTCCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTC-AAATTCTTCTCAAATAGCATCCTGCTA
* *
18438420 GAAGCGATTTTATACTATTTGCTCAAAAATGTCAAAAAAAATTATTTCTTCCATGACCT
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
** * *
18438479 ACTGTAGCAAAAGCGCGTCCACGAGGGCATGATTTCACAAATTCTTCTCAAATAGCATTCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTT-TCAAATTCTTCTCAAATAGCATCCTGCTA
* * *
18438544 GAAGCGATTTTATACTATCTGATCAGAAACGTCAA
65 GAAGCGATTTTATACTATTTGCTCAAAAACGTCAA
18438579 CTCGAAATTA
Statistics
Matches: 201, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
123 1 0.00
124 199 0.99
125 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (123 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTCAAATTCTTCTCAAATAGCATCCTGCTAG
AAGCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:18441708 original size:24 final size:24
Alignment explanation
Indices: 18441680--18441727 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
18441670 GAATTTTTAA
* *
18441680 GTTTTAAATTTTTTAAACTGAATT
1 GTTTTAAATTGTTTAAACTCAATT
18441704 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
18441728 TTTAAGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.52
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:18446828 original size:9 final size:9
Alignment explanation
Indices: 18446814--18446840 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
18446804 TTAAGCATAT
18446814 TTTAAATTA
1 TTTAAATTA
18446823 TTTAAATTA
1 TTTAAATTA
18446832 TTTAAATTA
1 TTTAAATTA
18446841 AAACAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAAATTA
Found at i:18448195 original size:20 final size:21
Alignment explanation
Indices: 18448173--18448217 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
18448163 TTTTCTCTCT
*
18448173 CTTTCT-TTTTCCGTTTT-TTT
1 CTTTCTATTCTCC-TTTTCTTT
18448193 CTTT-TATTCTCCTTTTCTTT
1 CTTTCTATTCTCCTTTTCTTT
18448213 CTTTC
1 CTTTC
18448218 CCTTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (21 bp):
CTTTCTATTCTCCTTTTCTTT
Found at i:18458244 original size:16 final size:15
Alignment explanation
Indices: 18458223--18458263 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
18458213 GAAGTTGATA
18458223 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
18458239 ATAATTGATATAATT
1 ATAATTAATATAATT
18458254 ATATATTAAT
1 ATA-ATTAAT
18458264 GATTATCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:18466320 original size:5 final size:6
Alignment explanation
Indices: 18466303--18466335 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
18466293 TACATAATAT
18466303 ATAAAA ATAAAA ATAAAA AT-AAA ATAAACA ATA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A ATA
18466336 TGTTACAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 16 0.64
7 4 0.16
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:18470818 original size:37 final size:38
Alignment explanation
Indices: 18470768--18470847 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
18470758 TTATTACGAA
* *
18470768 GTCTTACCCGGAC-ATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAAATTC-CCACACGAAGTCATCGG
*
18470805 GTCTTACCCGGACAAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
18470843 GTCTT
1 GTCTT
18470848 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 13 0.34
38 23 0.61
39 2 0.05
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (38 bp):
GTCTTACCCGGACAAAAATTCCCACACGAAGTCATCGG
Found at i:18471044 original size:47 final size:47
Alignment explanation
Indices: 18470966--18471347 Score: 631
Period size: 47 Copynumber: 8.1 Consensus size: 47
18470956 CCCTTCGGGA
* * * * *
18470966 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
***
18471013 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18471060 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18471107 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18471154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18471201 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18471248 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18471295 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18471344 CTTA
1 CTTA
18471348 CTATCATTTC
Statistics
Matches: 315, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 2 0.01
47 271 0.86
49 42 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18475104 original size:40 final size:40
Alignment explanation
Indices: 18475034--18475309 Score: 419
Period size: 40 Copynumber: 6.9 Consensus size: 40
18475024 TGAATACACG
* * ** * ** *
18475034 TCACCAGCATGATTGCTCTTCAAGATTTAGCATGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
18475074 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
18475114 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
18475154 TCGCTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
18475194 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
18475234 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
18475273 TCGCTAGCATGAATGCTCTTTGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
18475310 TTAGTAACTC
Statistics
Matches: 217, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 36 0.17
40 181 0.83
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:18475144 original size:80 final size:80
Alignment explanation
Indices: 18475034--18475388 Score: 421
Period size: 80 Copynumber: 4.5 Consensus size: 80
18475024 TGAATACACG
* * ** * ** *
18475034 TCACCAGCATGATTGCTCTTCAAGATTTAGCATGGATATATCACTAGCACGAATGCTCTTCGGAA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
18475099 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* * *
18475114 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
18475179 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* *
18475194 TCACTAGCATGAATGCTCTTCGGGACTTAACCCGGATACATCACTAGCATGAATGCTCTTCGG-A
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
18475258 CTTAGCCCGGATACA
66 CTTAGCCCGGATACA
* * ** * * *
18475273 TCGCTAGCATGAATGCTCTTTGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGA
* * **
18475337 TCTTAGTCCGGATATGG
65 ACTTAGCCCGGATA-CA
* *
18475354 TCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
18475389 CATCATTCGA
Statistics
Matches: 241, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
79 57 0.24
80 172 0.71
81 7 0.03
82 5 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAA
CTTAGCCCGGATACA
Found at i:18475342 original size:40 final size:40
Alignment explanation
Indices: 18475091--18475388 Score: 118
Period size: 40 Copynumber: 7.5 Consensus size: 40
18475081 CACGAATGCT
* * * * *
18475091 CTTCGGAACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* ** * *
18475130 TCTTCGGGACTTAGCCCGGATACA-TCGC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * * *
18475170 TCTTCGGGACTTAGCCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * * * *
18475210 TCTTCGGGACTTAACCCGGATACA-TCAC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* ** * *
18475250 TCTTC-GGACTTAGCCCGGATACA-TCGC-TAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * * *
18475289 TCTTTGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * *
18475330 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGC
18475370 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
18475389 CATCATTCGA
Statistics
Matches: 231, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 39 0.17
40 174 0.75
41 18 0.08
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGC
Found at i:18475348 original size:119 final size:119
Alignment explanation
Indices: 18475039--18475388 Score: 429
Period size: 120 Copynumber: 2.9 Consensus size: 119
18475029 ACACGTCACC
* ** * ** * *
18475039 AGCATGATTGCTCTTCAAGATTTAGCATGGATATATCACTAGCACGAATGCTCTTCGGAACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACGAATGCTCTTCGG-ACTTAG
18475104 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
65 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * *
18475159 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAA
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACGAATGCTCTTC-GGACTTAG
18475224 CCCGGATACATCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACATCGCT
65 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
* ** * *
18475278 AGCATGAATGCTCTTTGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTCGGATCTTA
1 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACA-TAACTAGCACGAATGCTCTTCGGA-CTTA
* ** * *
18475342 GTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
64 GCCCGGATA-CATCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
18475389 CATCATTCGA
Statistics
Matches: 202, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
118 3 0.01
119 74 0.37
120 118 0.58
121 7 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (119 bp):
AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATAACTAGCACGAATGCTCTTCGGACTTAGC
CCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:18475791 original size:43 final size:43
Alignment explanation
Indices: 18475730--18475872 Score: 286
Period size: 43 Copynumber: 3.3 Consensus size: 43
18475720 ACTTTAAACT
18475730 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
18475773 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
18475816 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
1 CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
18475859 CGCACACTTAGTGC
1 CGCACACTTAGTGC
18475873 TGAAAACCAA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
CGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATTGCC
Found at i:18477774 original size:37 final size:37
Alignment explanation
Indices: 18477724--18477802 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18477714 TTATTACGAA
* *
18477724 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
18477761 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
18477798 GTCTT
1 GTCTT
18477803 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:18477999 original size:47 final size:47
Alignment explanation
Indices: 18477921--18478302 Score: 593
Period size: 47 Copynumber: 8.1 Consensus size: 47
18477911 CCCTTCGCGA
* * * * * * *
18477921 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*** *
18477968 CCCGTCACATCTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18478015 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18478062 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18478109 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18478156 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18478203 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18478250 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18478299 CTTA
1 CTTA
18478303 CTATCATTTC
Statistics
Matches: 313, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 271 0.87
49 42 0.13
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18482312 original size:34 final size:34
Alignment explanation
Indices: 18482274--18482342 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
18482264 GAAAGAATTG
*
18482274 ATTTAACTTAAAGTAGTTATATGGAATTGATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
* * *
18482308 ATTTATCTTGAAGTATTTATATGGAATTCATTTA
1 ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
18482342 A
1 A
18482343 ATAATAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.46
Consensus pattern (34 bp):
ATTTAACTTAAAGTAGTTATATGGAATTCATTTA
Found at i:18482473 original size:23 final size:22
Alignment explanation
Indices: 18482398--18482480 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
18482388 GTAACATTTG
* *
18482398 ATATGCTTTAAATGCTGGCAAA
1 ATATGTTTTAAATGCTGTCAAA
* *
18482420 AGCATGTTTCAAATGCTGTCAAA
1 A-TATGTTTTAAATGCTGTCAAA
* * *
18482443 GTAGGTTTTAAATGTTGTCCAAA
1 ATATGTTTTAAATGCTGT-CAAA
18482466 ATATGTTTTAAATGC
1 ATATGTTTTAAATGC
18482481 CATCCAAAGC
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 14 0.30
23 33 0.70
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (22 bp):
ATATGTTTTAAATGCTGTCAAA
Found at i:18485108 original size:21 final size:23
Alignment explanation
Indices: 18485071--18485118 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
18485061 TGTTACATTT
18485071 AAATGCTAGCAAAAGTATG-TTC
1 AAATGCTAGCAAAAGTATGTTTC
*
18485093 AAATGCTATC-AAAGTATGTTTC
1 AAATGCTAGCAAAAGTATGTTTC
18485115 AAAT
1 AAAT
18485119 CTTGTCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (23 bp):
AAATGCTAGCAAAAGTATGTTTC
Found at i:18485172 original size:23 final size:23
Alignment explanation
Indices: 18485102--18485173 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
18485092 CAAATGCTAT
* *
18485102 CAAAGTATGTTTCAAATCTTGTC
1 CAAAGTATGTTTTAAATGTTGTC
* **
18485125 CAAAATATGTTTTAAATGTCATC
1 CAAAGTATGTTTTAAATGTTGTC
* *
18485148 CAAAGCATGTTTTAAGTGTTGTC
1 CAAAGTATGTTTTAAATGTTGTC
18485171 CAA
1 CAA
18485174 GTTGGACATT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (23 bp):
CAAAGTATGTTTTAAATGTTGTC
Found at i:18485293 original size:105 final size:104
Alignment explanation
Indices: 18485160--18485488 Score: 536
Period size: 105 Copynumber: 3.2 Consensus size: 104
18485150 AAGCATGTTT
* *
18485160 TAAGTG-TTGTCC-AAGTTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* *
18485223 AAGTGTTTATGTCAATTTTAATGCTAATATTATAGGTGGA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGG-GAA
* *
18485263 TAAGTGATTTTGCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
1 TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
* * *
18485328 AAGTGTTTATGTCGATTTTAATGCTGATATTATAAGCAA
66 AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGGAA
18485367 GTAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAA
1 -TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAA
18485432 TAAGTGTTTATGTCGATTTTAATGCTAATATTATAGGCGAA
65 TAAGTGTTTATGTCGATTTTAATGCTAATATTATAGG-GAA
18485473 TAAGTGTTTTTCCAAA
1 TAAGTGTTTTTCCAAA
18485489 AAAAACTATA
Statistics
Matches: 209, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
103 6 0.03
104 5 0.02
105 196 0.94
106 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (104 bp):
TAAGTGTTTTTCCAAAGCTGGACATTTCTATTATGTTTATGTTAAATTAAATGTTAGGATTAAAT
AAGTGTTTATGTCGATTTTAATGCTAATATTATAGGGAA
Found at i:18485981 original size:36 final size:36
Alignment explanation
Indices: 18485877--18486299 Score: 190
Period size: 36 Copynumber: 11.7 Consensus size: 36
18485867 GAATGAATGA
* * *
18485877 ACACTCATTTGTCGGTTTTACCGACCAGAGCAGGGC
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * * * * ** * *
18485913 ACATTTATTT-ACCAGTTATAGTGACTATTGCTGGGC
1 ACACTCATTTGTCGA-TTTTACCGACCAGTGCTGGGC
* *
18485949 ACACTCATTTGAT-GATTTTATCGACCAGTGCTGGGT
1 ACACTCATTTG-TCGATTTTACCGACCAGTGCTGGGC
* * * * ** **
18485985 ACACACAGTTGTCTTGGTTTTACCGAACAGCACAAGGC
1 ACACTCATTTGTC--GATTTTACCGACCAGTGCTGGGC
* * * * * *
18486023 ACATTTATTTGTCGGTTATATCGACTAGTGCTGGGC
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * * *
18486059 ACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGT
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * * * * *
18486095 GCATTTATTTGTCGATTATACCGACTAGTGCTGGGT
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * *
18486131 ACACTCATTTGTCGATTTTACTGACCAGCGCAGGGC
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * * * * * *
18486167 ACATTTATTTGTCAATTATACTGACCAGTGCTAGAC
1 ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
* * * * ** *
18486203 ACACTTATTTGTCGGTATTACTGAAGAATG-TAGGGC
1 ACACTCATTTGTCGATTTTACCGACCAGTGCT-GGGC
* * ** *
18486239 ACATTTATTTGTC-AGTTACACCGACAAGTGCTGGGC
1 ACACTCATTTGTCGA-TTTTACCGACCAGTGCTGGGC
* *
18486275 ACACACATTT-TCAAGTTTTACCGAC
1 ACACTCATTTGTCGA-TTTTACCGAC
18486300 TAGCGCAGTG
Statistics
Matches: 276, Mismatches: 101, Indels: 20
0.70 0.25 0.05
Matches are distributed among these distances:
35 5 0.02
36 245 0.89
37 2 0.01
38 24 0.09
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (36 bp):
ACACTCATTTGTCGATTTTACCGACCAGTGCTGGGC
Found at i:18486104 original size:72 final size:72
Alignment explanation
Indices: 18485970--18486307 Score: 336
Period size: 72 Copynumber: 4.7 Consensus size: 72
18485960 ATGATTTTAT
* * * * * *
18485970 CGACCAGTGCTGGGTACACACAGTTGTCTTGGTTTTACCGAACAGCACAAGGCACATTTATTTGT
1 CGACCAGTGCTGGGCACACTCATTTGTC--GGTTTTACCGACCAGCGCAGGGCACATTTATTTGT
** *
18486035 CGGTTATAT
64 CAATTATAC
* ** *
18486044 CGACTAGTGCTGGGCACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGTGCATTTATTTGTCG
1 CGACCAGTGCTGGGCACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGTCA
18486109 ATTATAC
66 ATTATAC
* * * *
18486116 CGACTAGTGCTGGGTACACTCATTTGTCGATTTTACTGACCAGCGCAGGGCACATTTATTTGTCA
1 CGACCAGTGCTGGGCACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGTCA
18486181 ATTATAC
66 ATTATAC
* * * * * * ** ** *
18486188 TGACCAGTGCTAGACACACTTATTTGTCGGTATTACTGAAGAATGTAGGGCACATTTATTTGTCA
1 CGACCAGTGCTGGGCACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGTCA
* *
18486253 GTTACAC
66 ATTATAC
* * * *
18486260 CGACAAGTGCTGGGCACACACATTT-TCAAGTTTTACCGACTAGCGCAG
1 CGACCAGTGCTGGGCACACTCATTTGTC-GGTTTTACCGACCAGCGCAG
18486308 TGTAACACCT
Statistics
Matches: 217, Mismatches: 46, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
71 2 0.01
72 191 0.88
74 24 0.11
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (72 bp):
CGACCAGTGCTGGGCACACTCATTTGTCGGTTTTACCGACCAGCGCAGGGCACATTTATTTGTCA
ATTATAC
Found at i:18486107 original size:110 final size:108
Alignment explanation
Indices: 18485877--18486094 Score: 262
Period size: 110 Copynumber: 2.0 Consensus size: 108
18485867 GAATGAATGA
* * * *
18485877 ACACTCATTTGTCGGTTTTACCGACCAGAGCAGGGCACATTTATTTACCAGTTATAGTGACTATT
1 ACACACATTTGTCGGTTTTACCGAACAGAGCAAGGCACATTTATTTACCAGTTATAGTGACTAGT
* * *
18485942 GCTGGGCACACTCATTTGATGATTTTATCGACCAGTGCTGGGT
66 GCTGGGCACACTCATTTGATGATTTTACCGACCAGCGCAGGGT
* ** *
18485985 ACACACAGTTGTCTTGGTTTTACCGAACAGCA-CAAGGCACATTTATTTGTCGGTTATA-TCGAC
1 ACACACATTTGTC--GGTTTTACCGAACAG-AGCAAGGCACATTTATTTACCAGTTATAGT-GAC
*
18486048 TAGTGCTGGGCACACTCATTTG-TCGGTTTTACCGACCAGCGCAGGGT
62 TAGTGCTGGGCACACTCATTTGAT-GATTTTACCGACCAGCGCAGGGT
18486095 GCATTTATTT
Statistics
Matches: 93, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
108 11 0.12
109 2 0.02
110 79 0.85
111 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (108 bp):
ACACACATTTGTCGGTTTTACCGAACAGAGCAAGGCACATTTATTTACCAGTTATAGTGACTAGT
GCTGGGCACACTCATTTGATGATTTTACCGACCAGCGCAGGGT
Found at i:18494837 original size:21 final size:20
Alignment explanation
Indices: 18494808--18494846 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18494798 ATTATATTGG
*
18494808 GAGAACAAATATTATCCTAAA
1 GAGAACAAAGA-TATCCTAAA
*
18494829 GAGATCAAAGATATCCTA
1 GAGAACAAAGATATCCTA
18494847 TGAGGGTAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (20 bp):
GAGAACAAAGATATCCTAAA
Found at i:18498549 original size:24 final size:24
Alignment explanation
Indices: 18498504--18498550 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18498494 GTTCCAGAAA
*
18498504 AAAAGAGAAGAAACTAAGAGAGAG
1 AAAAGAGAAGAAAATAAGAGAGAG
*
18498528 AAAAGAAGGAGAAAATAA-AGAGA
1 AAAAG-AGAAGAAAATAAGAGAGA
18498551 AACAGCAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.66, C:0.02, G:0.28, T:0.04
Consensus pattern (24 bp):
AAAAGAGAAGAAAATAAGAGAGAG
Found at i:18500574 original size:49 final size:49
Alignment explanation
Indices: 18500518--18500612 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
18500508 TGCGACAGCT
* * *
18500518 AATGTCTGCTTTGTTGATCTTCATGATATGGTAGTACCCCAACATGCAA
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATGCAA
*
18500567 AATGTCTGCTTTGTTGAACGTCATGATGTGGCAGTACCCCAACATG
1 AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATG
18500613 TAAATAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (49 bp):
AATGTCTGCTTTGTTGAACGTCATGATATGGCAGTACCCCAACATGCAA
Found at i:18504660 original size:98 final size:98
Alignment explanation
Indices: 18504491--18504668 Score: 356
Period size: 98 Copynumber: 1.8 Consensus size: 98
18504481 TTCCATAGGT
18504491 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
18504556 CTATAGAAATATAAACCATAATACATTATTTAA
66 CTATAGAAATATAAACCATAATACATTATTTAA
18504589 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
1 TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
18504654 CTATAGAAATATAAA
66 CTATAGAAATATAAA
18504669 AAAGTCAATC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 80 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.35
Consensus pattern (98 bp):
TTATCAACACAAATGTACATACTAATATGTTTTTAGCCAAATACATTATTTAATTATAAAACCTA
CTATAGAAATATAAACCATAATACATTATTTAA
Found at i:18505215 original size:43 final size:44
Alignment explanation
Indices: 18505162--18505251 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 44
18505152 GAAATCATGG
* ***
18505162 AGAATAAATTTAATCGTCGATAAAAGGTTTTATCACTTTGAGCA
1 AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
* *
18505206 AGAA-AAATTTGATCCTCGATAAAAGGAAGTATCATTTTGAGCA
1 AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
18505249 AGA
1 AGA
18505252 TCGTTCTGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 36 0.90
44 4 0.10
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (44 bp):
AGAATAAATTTAATCCTCGATAAAAGGAAGTATCACTTTGAGCA
Found at i:18518216 original size:24 final size:25
Alignment explanation
Indices: 18518169--18518216 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
18518159 AAATAATCAA
** *
18518169 TTTAATTTAAAATATATGATAATAT
1 TTTAATTTAAAATATACAAAAATAT
18518194 TTTAATTTAAAAT-TACAAAAATA
1 TTTAATTTAAAATATACAAAAATA
18518217 ATCATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAAAATATACAAAAATAT
Found at i:18524636 original size:15 final size:14
Alignment explanation
Indices: 18524616--18524647 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
18524606 CACATCCCAA
18524616 AAATTGGGTTAGTAG
1 AAATTGGGTTAGT-G
18524631 AAATTGGGTTAGTG
1 AAATTGGGTTAGTG
18524645 AAA
1 AAA
18524648 CCCAGAGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (14 bp):
AAATTGGGTTAGTG
Found at i:18531871 original size:16 final size:16
Alignment explanation
Indices: 18531850--18531880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18531840 GGGGAAAATA
*
18531850 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
18531866 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
18531881 AGTAAATAGG
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:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:18532006 original size:30 final size:31
Alignment explanation
Indices: 18531967--18532026 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
18531957 AGAGGAGGGA
*
18531967 TGGGAAGGGAATAAAAGTTTT-AGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGA-GGGAAAAG
*
18531998 TGGG-AGGGACTAAAAATTTTGAGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGAGGGAAAA
18532027 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGAGGGAAAAG
Found at i:18532254 original size:9 final size:9
Alignment explanation
Indices: 18532240--18532276 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
18532230 TATAGTTTAA
18532240 TATTCGAAT
1 TATTCGAAT
18532249 TATTCGAAT
1 TATTCGAAT
*
18532258 TATTCGAGT
1 TATTCGAAT
18532267 TATTCGAAT
1 TATTCGAAT
18532276 T
1 T
18532277 CAAAAATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:18532346 original size:18 final size:18
Alignment explanation
Indices: 18532325--18532362 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18532315 ATAATTTGAG
*
18532325 TTGATTCGAATAACTCGA
1 TTGACTCGAATAACTCGA
18532343 TTGACTCGAATAACTCGA
1 TTGACTCGAATAACTCGA
18532361 TT
1 TT
18532363 CGTTTAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (18 bp):
TTGACTCGAATAACTCGA
Found at i:18538516 original size:18 final size:18
Alignment explanation
Indices: 18538493--18538527 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18538483 AAATTATGGG
*
18538493 CTCACATGCTCGTGTGGA
1 CTCACATGCCCGTGTGGA
18538511 CTCACATGCCCGTGTGG
1 CTCACATGCCCGTGTGG
18538528 GCCCCTATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.31, G:0.29, T:0.26
Consensus pattern (18 bp):
CTCACATGCCCGTGTGGA
Found at i:18552113 original size:27 final size:27
Alignment explanation
Indices: 18552083--18552173 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
18552073 CATCACGTGG
*
18552083 TAAAATGGCTATTATGCCCCTAAGTTA
1 TAAAATGACTATTATGCCCCTAAGTTA
** *
18552110 TAAAATGACGGTTATGCCTC-AATGTTA
1 TAAAATGACTATTATGCCCCTAA-GTTA
18552137 TAAAATGACTATTATGCCCCTATA-TTA
1 TAAAATGACTATTATGCCCCTA-AGTTA
18552164 TAAAATGACT
1 TAAAATGACT
18552174 TATGCTTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.04
27 50 0.93
28 1 0.02
29 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (27 bp):
TAAAATGACTATTATGCCCCTAAGTTA
Found at i:18552116 original size:54 final size:55
Alignment explanation
Indices: 18552052--18552171 Score: 156
Period size: 54 Copynumber: 2.2 Consensus size: 55
18552042 CCCCCAAACT
* * *
18552052 GTTATAAAATGAATGTTATGCCATC-ACGTGGTAAAATGGCTATTATGCCCCTA-A
1 GTTATAAAATGAAGGTTATGCC-TCAACGTGATAAAATGACTATTATGCCCCTATA
* * *
18552106 GTTATAAAATGACGGTTATGCCTCAATGTTATAAAATGACTATTATGCCCCTATA
1 GTTATAAAATGAAGGTTATGCCTCAACGTGATAAAATGACTATTATGCCCCTATA
18552161 -TTATAAAATGA
1 GTTATAAAATGA
18552172 CTTATGCTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.03
54 55 0.95
55 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (55 bp):
GTTATAAAATGAAGGTTATGCCTCAACGTGATAAAATGACTATTATGCCCCTATA
Found at i:18552172 original size:54 final size:51
Alignment explanation
Indices: 18552083--18552188 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 51
18552073 CATCACGTGG
*
18552083 TAAAATGGCTATTATGCCCCTAAGTTATAAAATGACGGTTATGCCTCAATGTTA
1 TAAAATGACTATTATGCCCCTAAGTTATAAAATGAC--TTATG-CTCAATGTTA
*
18552137 TAAAATGACTATTATGCCCCTATA-TTATAAAATGACTTATGCTTAATGTTA
1 TAAAATGACTATTATGCCCCTA-AGTTATAAAATGACTTATGCTCAATGTTA
18552188 T
1 T
18552189 GTATAACTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
51 10 0.20
52 5 0.10
54 33 0.67
55 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (51 bp):
TAAAATGACTATTATGCCCCTAAGTTATAAAATGACTTATGCTCAATGTTA
Found at i:18558263 original size:33 final size:33
Alignment explanation
Indices: 18558226--18558290 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
18558216 TAGGAGGAGT
* *
18558226 TAATTAAGGAATTTTAAAGGTTATTAGAAAATC
1 TAATTAAGGAATTCTAAAGGTTATCAGAAAATC
*
18558259 TAATTAAGGAATTCTAGAGGTTATCAGAAAAT
1 TAATTAAGGAATTCTAAAGGTTATCAGAAAAT
18558291 TTGATAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.34
Consensus pattern (33 bp):
TAATTAAGGAATTCTAAAGGTTATCAGAAAATC
Found at i:18559402 original size:27 final size:27
Alignment explanation
Indices: 18559359--18559506 Score: 208
Period size: 27 Copynumber: 5.5 Consensus size: 27
18559349 ACCCCCAAAG
*
18559359 TGTTATAAAATGACTATTATG-CCCTCA
1 TGTTGTAAAATGACTATTATGCCCCT-A
* * *
18559386 CGTGGTAAAATAACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
* **
18559413 TGTTATAAAATGACGGTTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
18559440 TGTTGTAAAATGACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
18559467 TGTTGTAAAATGACTATTATGCCCCTA
1 TGTTGTAAAATGACTATTATGCCCCTA
*
18559494 TGTTATAAAATGA
1 TGTTGTAAAATGA
18559507 TTGTATGCTT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 102 0.96
28 4 0.04
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (27 bp):
TGTTGTAAAATGACTATTATGCCCCTA
Found at i:18559831 original size:34 final size:33
Alignment explanation
Indices: 18559782--18559858 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 33
18559772 TGCATGTTTA
* *
18559782 AACTGTTACTGTCACTGTAATGGACTAGGGCCC
1 AACTGATACTGTCACTGTAATGGACTAAGGCCC
*
18559815 ACACTGATACTGTCACTGTAATGGGCTAAGGCCC
1 A-ACTGATACTGTCACTGTAATGGACTAAGGCCC
18559849 AACTGA-ACTG
1 AACTGATACTG
18559859 AACTGTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 4 0.10
33 6 0.15
34 30 0.75
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (33 bp):
AACTGATACTGTCACTGTAATGGACTAAGGCCC
Found at i:18561294 original size:18 final size:19
Alignment explanation
Indices: 18561256--18561294 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
18561246 AGGAAGCAGA
* *
18561256 TTTTCAAAAGATGTATTTT
1 TTTTCAAAACATGTATGTT
18561275 TTTTCAAAACAT-TATGTT
1 TTTTCAAAACATGTATGTT
18561293 TT
1 TT
18561295 CGTACCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (19 bp):
TTTTCAAAACATGTATGTT
Found at i:18564702 original size:22 final size:22
Alignment explanation
Indices: 18564638--18564703 Score: 87
Period size: 24 Copynumber: 2.9 Consensus size: 22
18564628 ATCTGCATCG
*
18564638 TTGAGTGGTTTATCCACACCAT
1 TTGAGTGGTTTATTCACACCAT
* *
18564660 TTGAGTAGCTTTTATTTACACCAT
1 TTGAGT-G-GTTTATTCACACCAT
18564684 TTGAGTGGTTTATTCACACC
1 TTGAGTGGTTTATTCACACC
18564704 GTATTAGCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.46
23 2 0.05
24 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.41
Consensus pattern (22 bp):
TTGAGTGGTTTATTCACACCAT
Found at i:18564757 original size:45 final size:44
Alignment explanation
Indices: 18564685--18564770 Score: 100
Period size: 45 Copynumber: 1.9 Consensus size: 44
18564675 TTACACCATT
** * * *
18564685 TGAGTGGTTTATTCACACCGTATTAGCAACTTTTATCTGCAACAA
1 TGAGTGGTTTAACCACACCATACTAGC-ACTTTAATCTGCAACAA
* *
18564730 TGAGTGGTTTAACCACACTATACTAGCAGTTTAATCTGCAA
1 TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAA
18564771 ACATGTTGTG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
44 12 0.35
45 22 0.65
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TGAGTGGTTTAACCACACCATACTAGCACTTTAATCTGCAACAA
Found at i:18564882 original size:18 final size:18
Alignment explanation
Indices: 18564859--18564893 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
18564849 TTTTTTTACT
* *
18564859 AGTGGTTTATTCACAACG
1 AGTGGTTCATCCACAACG
18564877 AGTGGTTCATCCACAAC
1 AGTGGTTCATCCACAAC
18564894 AATTAGTGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (18 bp):
AGTGGTTCATCCACAACG
Found at i:18566645 original size:11 final size:10
Alignment explanation
Indices: 18566616--18566650 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
18566606 TTAATATTTT
*
18566616 AAATTTTAAA
1 AAATTTAAAA
18566626 AAATTTAAAA
1 AAATTTAAAA
18566636 AAATTATAAAA
1 AAATT-TAAAA
18566647 AAAT
1 AAAT
18566651 AATTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:18568034 original size:17 final size:18
Alignment explanation
Indices: 18568000--18568035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
18567990 AAAATAAATG
18568000 AAATATATTATATTATAA
1 AAATATATTATATTATAA
*
18568018 AAATTTATTAT-TTATAA
1 AAATATATTATATTATAA
18568035 A
1 A
18568036 GTTTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATATATTATATTATAA
Found at i:18568138 original size:16 final size:15
Alignment explanation
Indices: 18568117--18568150 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18568107 AAGGAAACAT
18568117 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
18568133 AATAATTCAATATAA
1 AATAATTAAATATAA
18568148 AAT
1 AAT
18568151 TTTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:18570438 original size:10 final size:10
Alignment explanation
Indices: 18570411--18570477 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
18570401 ACTAAAATAA
*
18570411 AAATTAAATT
1 AAATTAAAAT
* *
18570421 GAACTAAAAT
1 AAATTAAAAT
18570431 AAATTAAAAT
1 AAATTAAAAT
18570441 AAATTAAAA-
1 AAATTAAAAT
*
18570450 ATAATTAATTAT
1 A-AATTAA-AAT
*
18570462 AAAATTAAATT
1 -AAATTAAAAT
18570473 AAATT
1 AAATT
18570478 GAAGAAAAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 1 0.02
10 35 0.78
11 2 0.04
12 6 0.13
13 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:18570463 original size:21 final size:22
Alignment explanation
Indices: 18570426--18570470 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18570416 AAATTGAACT
18570426 AAAATAAATTAAAAT-AAATTA
1 AAAATAAATTAAAATAAAATTA
*
18570447 AAAAT-AATTAATTATAAAATTA
1 AAAATAAATTAA-AATAAAATTA
18570469 AA
1 AA
18570471 TTAAATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 7 0.33
22 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATTAAAATAAAATTA
Done.