Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 130 of 172
Found at i:43214613 original size:46 final size:46
Alignment explanation
Indices: 43214561--43214780 Score: 323
Period size: 46 Copynumber: 4.8 Consensus size: 46
43214551 TTCTGAAATG
43214561 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
* * *
43214607 AAATGTGTAAGACCATGATTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
*
43214653 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATAGGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
** * *
43214699 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
** * * *
43214745 AAATAAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
43214781 TCATGTCAAA
Statistics
Matches: 157, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 157 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGATATA
Found at i:43215087 original size:16 final size:17
Alignment explanation
Indices: 43215066--43215098 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43215056 ATGATGGAGC
43215066 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
43215082 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
43215099 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:43221402 original size:29 final size:30
Alignment explanation
Indices: 43221355--43221422 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
43221345 TGGCCCAAGA
* * *
43221355 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
43221385 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
43221415 GAAAATAT
1 GTAAATAT
43221423 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.47, C:0.04, G:0.21, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:43221600 original size:51 final size:51
Alignment explanation
Indices: 43221544--43221644 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
43221534 CTCAAGAATG
*
43221544 GAATTTTAAAAGATCACTAAGGGCAAAATGGTCAATTGAAAGAGAGAGAAA
1 GAATTTTAAAAGATAACTAAGGGCAAAATGGTCAATTGAAAGAGAGAGAAA
*
43221595 GAATTTTAAAAGATAACTAAGGGCAAAATGGTCAATTGGAAGAGAGAGAA
1 GAATTTTAAAAGATAACTAAGGGCAAAATGGTCAATTGAAAGAGAGAGAA
43221645 CTCTAGAGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.49, C:0.07, G:0.25, T:0.20
Consensus pattern (51 bp):
GAATTTTAAAAGATAACTAAGGGCAAAATGGTCAATTGAAAGAGAGAGAAA
Found at i:43230512 original size:20 final size:20
Alignment explanation
Indices: 43230487--43230525 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
43230477 TATATTTTCA
* *
43230487 TTCAATTCTCATTTTAAACC
1 TTCAATTCCCACTTTAAACC
43230507 TTCAATTCCCACTTTAAAC
1 TTCAATTCCCACTTTAAAC
43230526 TAAATTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (20 bp):
TTCAATTCCCACTTTAAACC
Found at i:43232636 original size:14 final size:14
Alignment explanation
Indices: 43232598--43232641 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
43232588 CAAAATGTAC
43232598 AATATAATTAAA-T
1 AATATAATTAAATT
43232611 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
43232626 AA-ATAATTTAATT
1 AATATAATTAAATT
43232639 AAT
1 AAT
43232642 TGTTTACTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:43236189 original size:20 final size:20
Alignment explanation
Indices: 43236170--43236206 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
43236160 CAAATGTGTG
43236170 GTAATAAA-AATATACATGT
1 GTAATAAATAATATACATGT
*
43236189 GTAATAAATATTATACAT
1 GTAATAAATAATATACAT
43236207 ATATTTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.35
Consensus pattern (20 bp):
GTAATAAATAATATACATGT
Found at i:43241758 original size:11 final size:10
Alignment explanation
Indices: 43241707--43241767 Score: 54
Period size: 11 Copynumber: 6.0 Consensus size: 10
43241697 TAGCTTTCTC
43241707 CTTTTTCTTT
1 CTTTTTCTTT
*
43241717 C-TCTT-TTT
1 CTTTTTCTTT
*
43241725 CTTCTTCCTTT
1 CTT-TTTCTTT
*
43241736 CTGTTTCGTTT
1 CTTTTTC-TTT
43241747 CTTTGTTCTTT
1 CTTT-TTCTTT
43241758 CTTTTTCTTT
1 CTTTTTCTTT
43241768 TATTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
8 4 0.10
9 4 0.10
10 11 0.28
11 18 0.45
12 3 0.08
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:43241799 original size:5 final size:5
Alignment explanation
Indices: 43241789--43242593 Score: 1603
Period size: 5 Copynumber: 161.2 Consensus size: 5
43241779 TTGTATTCTT
43241789 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43241839 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43241889 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43241939 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43241989 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242039 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242089 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242139 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242189 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242239 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242289 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242339 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242389 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242439 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242489 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242539 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
43242589 -AATA T
1 TAATA T
43242594 TTACTTAAAT
Statistics
Matches: 799, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
4 4 0.01
5 795 0.99
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:43247597 original size:15 final size:15
Alignment explanation
Indices: 43247577--43247606 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
43247567 CACATGTCAA
43247577 TACTCCAAGGGTAAT
1 TACTCCAAGGGTAAT
43247592 TACTCCAAGGGTAAT
1 TACTCCAAGGGTAAT
43247607 GGCTCGATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (15 bp):
TACTCCAAGGGTAAT
Found at i:43248935 original size:33 final size:33
Alignment explanation
Indices: 43248898--43249002 Score: 104
Period size: 33 Copynumber: 3.2 Consensus size: 33
43248888 TTTTCTAATT
* * *
43248898 GTACACCCGAGGTGCACATTCCCTTTTCAAGTG
1 GTACACACGAAGTGCACATACCCTTTTCAAGTG
* * * *
43248931 GTACACACGAAGTGTACATACCTTTTTCAATTT
1 GTACACACGAAGTGCACATACCCTTTTCAAGTG
* * * *
43248964 GTACACACAAAGTGCACATAACCATTTCAAAT-
1 GTACACACGAAGTGCACATACCCTTTTCAAGTG
43248996 GTACACA
1 GTACACA
43249003 TATAGTGTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
32 7 0.12
33 52 0.88
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (33 bp):
GTACACACGAAGTGCACATACCCTTTTCAAGTG
Found at i:43249044 original size:33 final size:33
Alignment explanation
Indices: 43248997--43249090 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
43248987 ATTTCAAATG
* *
43248997 TACACATATAGTGTACTTTTCCTTTTCACGTGGTA
1 TACACA-A-AGTGTACCTTTCCTTTTCACATGGTA
*
43249032 TACACAAAGTGTACCTTTCCTTTTCATATGGTA
1 TACACAAAGTGTACCTTTCCTTTTCACATGGTA
* * **
43249065 TACACAAAATATACCTAACCTTTTCA
1 TACACAAAGTGTACCTTTCCTTTTCA
43249091 AATTGTACCA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
33 45 0.87
34 1 0.02
35 6 0.12
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (33 bp):
TACACAAAGTGTACCTTTCCTTTTCACATGGTA
Found at i:43250201 original size:16 final size:16
Alignment explanation
Indices: 43250177--43250215 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
43250167 AAGACTTCTC
43250177 ACTTTTAATTC-TATA
1 ACTTTTAATTCTTATA
43250192 ACTATTTAATTCTTATA
1 ACT-TTTAATTCTTATA
43250209 ACTTTTA
1 ACTTTTA
43250216 GGATTCAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.14
16 12 0.55
17 7 0.32
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (16 bp):
ACTTTTAATTCTTATA
Found at i:43258529 original size:47 final size:47
Alignment explanation
Indices: 43258462--43258556 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
43258452 TGAACTTAGG
43258462 TAGCGATGAACACCTTATTACCCAGACTCGGGTATGTTTACTTTTCT
1 TAGCGATGAACACCTTATTACCCAGACTCGGGTATGTTTACTTTTCT
43258509 TAGCGATGAACACCTTATTACCCAGACTCGGGTATGTTTACTTTTCT
1 TAGCGATGAACACCTTATTACCCAGACTCGGGTATGTTTACTTTTCT
43258556 T
1 T
43258557 TTCCAAGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (47 bp):
TAGCGATGAACACCTTATTACCCAGACTCGGGTATGTTTACTTTTCT
Found at i:43260671 original size:409 final size:408
Alignment explanation
Indices: 43259896--43260881 Score: 1542
Period size: 409 Copynumber: 2.4 Consensus size: 408
43259886 TTCATCCGGC
* * * *
43259896 TAATACATACATCATTCGGCTAAATTATGCATTTGATTTACAATTATAATTACGTTCTTCAATCG
1 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAA-CC
** * * * *
43259961 GGAGAAGGATGACTATTATTTGTAATATACATCAATGAAACTTTTTTACTATCGTAGAGTTGTTA
65 GGAGAAGGATGACTATCCTTTGTAATATACGTCAATGAAAC-TTTTTAATATCTTACAGTTGTTA
* * *
43260026 TTAATACTCGGATTTATAACAAGTCATATGGAATGTTCAGTTCTATTTTATTTTAATAACATATG
129 TTAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTATTTTATTTTAATAACACATA
*
43260091 AATGATATCGACATTAATATTTAAGGCAAACTCGTGGATTATATAGTCAATGAAAGTTGGTAATA
194 AACGATATCGACATTAATATTTAAGGCAAACTCGTGGATTATATAGTCAATGAAAGTTGGTAATA
* * *
43260156 TCGTAAAGTTGTTTTTAATACTCGGTTTTATAACAAGCAAACACCTAGAACAAGAAAGTCCAAAA
259 TCGTAAAGTTATTTTTAATACTCGATTTTATAACAAGCAAACACCCAGAACAAGAAAGTCCAAAA
* * **
43260221 TTCGCCTTCAACATTTACACAGTTTTGCATTTAAGTCCTTATACAATTTACATTTGTAACCCGGA
324 TTCGCCTTCAACATTTACACAGTTTTGCATGTAAGTCCTTATACAACTTACATTCATAACCCGGA
*
43260286 GGACGTATGAGTATATCTGT
389 GGACGTATGAATATATCTGT
* *
43260306 TAATACATACTTCACCCGGCTAAATTATGTATTTGATTTACTATTATAATTACGTTCTTCAACCG
1 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAACCG
* * *
43260371 GAAGAACGATGACTATCCTTTGTAATATACGTCAACGAAACTATTTAATATCTTACAGTTGTTAT
66 G-AGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCTTACAGTTGTTAT
*
43260436 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTGTTTTATTTTAATAACACATAA
130 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTATTTTATTTTAATAACACATAA
* *
43260501 ACGATGTCGACATTAATATTTAAGGCAAACTCGTGGGTTATATAGTCAATGAAAGTTGGTAATAT
195 ACGATATCGACATTAATATTTAAGGCAAACTCGTGGATTATATAGTCAATGAAAGTTGGTAATAT
* *
43260566 TGTAAAGTTATTTTTAATACTCGATTTTATAACAAGCAAACACCCGGAACAAGAAAGTCCAAAAT
260 CGTAAAGTTATTTTTAATACTCGATTTTATAACAAGCAAACACCCAGAACAAGAAAGTCCAAAAT
* * * * *
43260631 TCGCCTTCAACTTTTGCACATTTTTTCATGTAATTCCTTATACAACTTACATTCATAACCCGGAG
325 TCGCCTTCAACATTTACACAGTTTTGCATGTAAGTCCTTATACAACTTACATTCATAACCCGGAG
* *
43260696 GATGTATGAATATATTTGT
390 GACGTATGAATATATCTGT
* *
43260715 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTACTATTATAATTACATTCTTCAACTA
1 TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAAC-C
* *
43260780 GGGGAAGGATGACTATCCTTTGTAATATATGTCAATG-AACTTTTTAATATCTTACAGTTGTTAT
65 GGAGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCTTACAGTTGTTAT
43260844 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCA
130 TAATACTCGGATTTATAACAAGCCATATGGAATGTTCA
43260882 TCCTCACACT
Statistics
Matches: 526, Mismatches: 48, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
408 64 0.12
409 369 0.70
410 93 0.18
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (408 bp):
TAATACATACTTCATCCGGCTAAATTATGCATTTGATTTACTATTATAATTACGTTCTTCAACCG
GAGAAGGATGACTATCCTTTGTAATATACGTCAATGAAACTTTTTAATATCTTACAGTTGTTATT
AATACTCGGATTTATAACAAGCCATATGGAATGTTCAGTTCTATTTTATTTTAATAACACATAAA
CGATATCGACATTAATATTTAAGGCAAACTCGTGGATTATATAGTCAATGAAAGTTGGTAATATC
GTAAAGTTATTTTTAATACTCGATTTTATAACAAGCAAACACCCAGAACAAGAAAGTCCAAAATT
CGCCTTCAACATTTACACAGTTTTGCATGTAAGTCCTTATACAACTTACATTCATAACCCGGAGG
ACGTATGAATATATCTGT
Found at i:43263773 original size:2 final size:2
Alignment explanation
Indices: 43263766--43263800 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
43263756 CACCGGTAAT
43263766 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
43263801 TAATTTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:43291570 original size:46 final size:47
Alignment explanation
Indices: 43291501--43291591 Score: 112
Period size: 46 Copynumber: 1.9 Consensus size: 47
43291491 TTGCACATAG
* * *
43291501 TCACATATCATACACCGAAGCCATATCTTAGCCATGGTCTTACACGGA
1 TCACATAT-ATACACCGAAGCCATATCCTAGACATAGTCTTACACGGA
* * *
43291549 TCACATAT-TACACTGATGCCATATCCTAGATATAGTCTTACAC
1 TCACATATATACACCGAAGCCATATCCTAGACATAGTCTTACAC
43291592 AGAAGCACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 29 0.78
48 8 0.22
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (47 bp):
TCACATATATACACCGAAGCCATATCCTAGACATAGTCTTACACGGA
Found at i:43292654 original size:14 final size:14
Alignment explanation
Indices: 43292635--43292665 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43292625 TGCTACTATT
43292635 TTACTATTATGTTG
1 TTACTATTATGTTG
*
43292649 TTACTATTTTGTTG
1 TTACTATTATGTTG
43292663 TTA
1 TTA
43292666 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:43292907 original size:14 final size:15
Alignment explanation
Indices: 43292888--43292916 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43292878 TTTTAAAATT
43292888 ATATAAAAA-TAATA
1 ATATAAAAATTAATA
43292902 ATATAAAAATTAATA
1 ATATAAAAATTAATA
43292917 TGGGTAGGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATATAAAAATTAATA
Found at i:43294374 original size:210 final size:206
Alignment explanation
Indices: 43293980--43294400 Score: 641
Period size: 210 Copynumber: 2.0 Consensus size: 206
43293970 AATTCAGTAC
* *
43293980 TTGAGGCATTGGTTGTGATGTAGTTGTTAAAGGCTTATGTCTTATGTGACATTACGAGAATCATA
1 TTGAGGCATTAGTTGTGATGTAGTTGTTAAAGCCTTATGTCTTATGTGACATTACGAGAATCATA
* *
43294045 TGGAAACCTCATTTGCATGCATGCAAGATCATTTGCTATGAGCTTAGATTTTACGATTAGTTGAC
66 TGGAAACCTCATTTGCATGAATGCAAGATCATTTGCTATAAGCTTAGATTTTACGATTAGTTGAC
43294110 TTACTTAGAATGGTTTTATAATGATTTTATTTTGTTAATATTCTTCATGAATGGTCTGTTAGATA
131 TTACTTAGAATGGTTTTATAATGATTTTATTTTGTTAATATTCTTCATGAATGGTCTGTTAGATA
*
43294175 ATGGTTTTGAA
196 ATGGTTCTGAA
*
43294186 TTGAGGCATTAGTTGTGATGTAGTTGTTAAAGCCTTATGTCTTATGTGACATTATGAGAAT-AGT
1 TTGAGGCATTAGTTGTGATGTAGTTGTTAAAGCCTTATGTCTTATGTGACATTACGAGAATCA-T
* *
43294250 ATGGAAACCTCATTTGCATGAATGCAAATAGTTTCATTTGCTATAAGCTCTA-ATTTTACGGTT-
65 ATGGAAACCTCATTTGCATGAATGC--A-AG-ATCATTTGCTATAAGCT-TAGATTTTACGATTA
* * * * *
43294313 GATTGACTTACTTGGAATGGTTTTATGATGATTTTATTTTTTTTATATTCTTCATGAATGGTTTG
125 G-TTGACTTACTTAGAATGGTTTTATAATGATTTTATTTTGTTAATATTCTTCATGAATGGTCTG
43294378 TTAGATAATGGTTCTGAA
189 TTAGATAATGGTTCTGAA
43294396 TTGAG
1 TTGAG
43294401 CAAGTTCTTA
Statistics
Matches: 195, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
205 1 0.01
206 83 0.43
208 1 0.01
209 3 0.02
210 105 0.54
211 2 0.01
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.43
Consensus pattern (206 bp):
TTGAGGCATTAGTTGTGATGTAGTTGTTAAAGCCTTATGTCTTATGTGACATTACGAGAATCATA
TGGAAACCTCATTTGCATGAATGCAAGATCATTTGCTATAAGCTTAGATTTTACGATTAGTTGAC
TTACTTAGAATGGTTTTATAATGATTTTATTTTGTTAATATTCTTCATGAATGGTCTGTTAGATA
ATGGTTCTGAA
Found at i:43298759 original size:56 final size:56
Alignment explanation
Indices: 43298647--43298764 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
43298637 TTATAATCCA
* * * *
43298647 TTTGGCTTTGTTTGGTTGATTGGGAAACAAGAGACACCGAAGCAAAATCTTTGGAT
1 TTTGGCTTTGTTTGGTTGATGGGGAAACAAGAGAAACCGAAGCAAAAGCTTCGGAT
* ** *
43298703 TTTGGCTTTGTTTGGTTGATGGGGAAACAAGAGAAAGC-AAGGCGTAAGGTTCGGAT
1 TTTGGCTTTGTTTGGTTGATGGGGAAACAAGAGAAACCGAA-GCAAAAGCTTCGGAT
43298759 TTTGGC
1 TTTGGC
43298765 ATTATAATCC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 2 0.04
56 51 0.96
ACGTcount: A:0.26, C:0.11, G:0.31, T:0.31
Consensus pattern (56 bp):
TTTGGCTTTGTTTGGTTGATGGGGAAACAAGAGAAACCGAAGCAAAAGCTTCGGAT
Found at i:43301634 original size:45 final size:43
Alignment explanation
Indices: 43301597--43301678 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
43301587 GTTTATTGGA
43301597 AAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG
1 AAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG
** * *
43301640 GGAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGACGTTT
1 AAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTT
43301679 TTTTTACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGG
Found at i:43301785 original size:31 final size:31
Alignment explanation
Indices: 43301750--43301816 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
43301740 CTTCCTGCAT
* *
43301750 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
43301781 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
43301812 TAAAA
1 TAAAA
43301817 AATACAACAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.60, C:0.18, G:0.04, T:0.18
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:43307568 original size:9 final size:9
Alignment explanation
Indices: 43307554--43307705 Score: 171
Period size: 9 Copynumber: 17.0 Consensus size: 9
43307544 TGACAACATA
43307554 TAAGTTATG
1 TAAGTTATG
*
43307563 TAAGTTATA
1 TAAGTTATG
43307572 TAAGTTATG
1 TAAGTTATG
43307581 TAAGTTATG
1 TAAGTTATG
*
43307590 TAAGTTATA
1 TAAGTTATG
43307599 TAAGTTATG
1 TAAGTTATG
43307608 TAAGTTATG
1 TAAGTTATG
* *
43307617 TATGTTATA
1 TAAGTTATG
*
43307626 TGAGTTATG
1 TAAGTTATG
*
43307635 TAAGTTATA
1 TAAGTTATG
*
43307644 TAAGTTATA
1 TAAGTTATG
* *
43307653 T-ATTTATC
1 TAAGTTATG
*
43307661 TAAGTTATA
1 TAAGTTATG
43307670 TAAGTTATG
1 TAAGTTATG
* *
43307679 TACGTTTTG
1 TAAGTTATG
*
43307688 TAAGTTATA
1 TAAGTTATG
*
43307697 TAAATTATG
1 TAAGTTATG
43307706 ATATCAAATA
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
8 6 0.05
9 113 0.95
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:43307585 original size:27 final size:27
Alignment explanation
Indices: 43307554--43307704 Score: 196
Period size: 27 Copynumber: 5.6 Consensus size: 27
43307544 TGACAACATA
*
43307554 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
*
43307581 TAAGTTATGTAAGTTATATAAGTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
* * *
43307608 TAAGTTATGTATGTTATATGAGTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
* *
43307635 TAAGTTATATAAGTTATAT-ATTTATC
1 TAAGTTATATAAGTTATATAAGTTATG
* * *
43307661 TAAGTTATATAAGTTATGTACGTTTTG
1 TAAGTTATATAAGTTATATAAGTTATG
*
43307688 TAAGTTATATAAATTAT
1 TAAGTTATATAAGTTAT
43307705 GATATCAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
26 23 0.21
27 88 0.79
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (27 bp):
TAAGTTATATAAGTTATATAAGTTATG
Found at i:43307830 original size:15 final size:15
Alignment explanation
Indices: 43307810--43307865 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
43307800 AAGTAGCAGG
43307810 ATTAAATAATATTTA
1 ATTAAATAATATTTA
43307825 ATTAAATAATATTT-
1 ATTAAATAATATTTA
43307839 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
43307854 ATTAAGTAATAT
1 ATTAAATAATAT
43307866 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:43309354 original size:604 final size:604
Alignment explanation
Indices: 43308206--43309415 Score: 2402
Period size: 604 Copynumber: 2.0 Consensus size: 604
43308196 AAAATATTTA
*
43308206 AATATTAAAATCAAACATTATTAATATAAAAAAATAGTGATTTGAATATAATAATATCAAAAAAG
1 AATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCAAAAAAG
43308271 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAATAGTA
66 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAATAGTA
43308336 AATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTT
131 AATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTT
43308401 GTTACACTTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAG
196 GTTACACTTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAG
43308466 CCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
261 CCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
43308531 ATTTTAATGGACAAGCAAGCTACACGGTAATAAAATTAATTCATACCTATTCATACTTAAGTTGA
326 ATTTTAATGGACAAGCAAGCTACACGGTAATAAAATTAATTCATACCTATTCATACTTAAGTTGA
43308596 ATCAAATAATAATTAAGTTGAACCAAATATTTAAAATTAATTTGGAAACAAAATAGTTCTACTCC
391 ATCAAATAATAATTAAGTTGAACCAAATATTTAAAATTAATTTGGAAACAAAATAGTTCTACTCC
43308661 AAACAGAACCAGCAATTAAATCTTTACAATATCGCAACCCCAAAATATTAATTTTTCCAAAATCA
456 AAACAGAACCAGCAATTAAATCTTTACAATATCGCAACCCCAAAATATTAATTTTTCCAAAATCA
43308726 TCATGATAAAACTATTATTGATTAGAATTTTGAAATAAAGCCTACCTTAATAAAACGTACCTAGT
521 TCATGATAAAACTATTATTGATTAGAATTTTGAAATAAAGCCTACCTTAATAAAACGTACCTAGT
43308791 CTACTCCACTCTCACCAGC
586 CTACTCCACTCTCACCAGC
*
43308810 AATATTAAAATCGAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCAAAAAAG
1 AATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCAAAAAAG
43308875 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAATAGTA
66 AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAATAGTA
43308940 AATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTT
131 AATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTT
43309005 GTTACACTTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAG
196 GTTACACTTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAG
43309070 CCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
261 CCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
43309135 ATTTTAATGGACAAGCAAGCTACACGGTAATAAAATTAATTCATACCTATTCATACTTAAGTTGA
326 ATTTTAATGGACAAGCAAGCTACACGGTAATAAAATTAATTCATACCTATTCATACTTAAGTTGA
43309200 ATCAAATAATAATTAAGTTGAACCAAATATTTAAAATTAATTTGGAAACAAAATAGTTCTACTCC
391 ATCAAATAATAATTAAGTTGAACCAAATATTTAAAATTAATTTGGAAACAAAATAGTTCTACTCC
43309265 AAACAGAACCAGCAATTAAATCTTTACAATATCGCAACCCCAAAATATTAATTTTTCCAAAATCA
456 AAACAGAACCAGCAATTAAATCTTTACAATATCGCAACCCCAAAATATTAATTTTTCCAAAATCA
43309330 TCATGATAAAACTATTATTGATTAGAATTTTGAAATAAAGCCTACCTTAATAAAACGTACCTAGT
521 TCATGATAAAACTATTATTGATTAGAATTTTGAAATAAAGCCTACCTTAATAAAACGTACCTAGT
43309395 CTACTCCACTCTCACCAGC
586 CTACTCCACTCTCACCAGC
43309414 AA
1 AA
43309416 GCAGAGGCTG
Statistics
Matches: 604, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
604 604 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (604 bp):
AATATTAAAATCAAACATTATTAATATAAAAAAATAGTAATTTGAATATAATAATATCAAAAAAG
AATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAATGTTATATAAATATTCAATAGTA
AATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTT
GTTACACTTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAG
CCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTA
ATTTTAATGGACAAGCAAGCTACACGGTAATAAAATTAATTCATACCTATTCATACTTAAGTTGA
ATCAAATAATAATTAAGTTGAACCAAATATTTAAAATTAATTTGGAAACAAAATAGTTCTACTCC
AAACAGAACCAGCAATTAAATCTTTACAATATCGCAACCCCAAAATATTAATTTTTCCAAAATCA
TCATGATAAAACTATTATTGATTAGAATTTTGAAATAAAGCCTACCTTAATAAAACGTACCTAGT
CTACTCCACTCTCACCAGC
Found at i:43311294 original size:62 final size:61
Alignment explanation
Indices: 43311048--43311351 Score: 572
Period size: 61 Copynumber: 5.0 Consensus size: 61
43311038 ACAAACTAGT
43311048 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
43311109 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
43311170 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
*
43311231 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAAAGAAATGAA
1 TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGAC-AAAAAGGAAATGAA
*
43311293 TTTTCCATTTCAGAACAAAAATATCCAAACAACAGACATAAAACTGACAAAAAAGAAAT
1 TTTTCCATTTCAGAACAAAAA-ATCCAAACAACAGACATAAAACTGACAAAAAGGAAAT
43311352 CAAATTTTGG
Statistics
Matches: 240, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
61 169 0.70
62 45 0.19
63 26 0.11
ACGTcount: A:0.55, C:0.18, G:0.09, T:0.18
Consensus pattern (61 bp):
TTTTCCATTTCAGAACAAAAAATCCAAACAACAGACATAAAACTGACAAAAAGGAAATGAA
Found at i:43313732 original size:26 final size:25
Alignment explanation
Indices: 43313703--43313752 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
43313693 GAATTAATCA
43313703 TAAACCTTCAAATAC-TAGTTAACTCC
1 TAAACCTT-AAA-ACATAGTTAACTCC
*
43313729 TAAACCTTAAACCATAGTTAACTC
1 TAAACCTTAAAACATAGTTAACTC
43313753 ATAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.59
26 8 0.36
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAACCTTAAAACATAGTTAACTCC
Found at i:43313787 original size:14 final size:14
Alignment explanation
Indices: 43313770--43313809 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43313760 ATTAAACATG
* *
43313770 CTTAAACCATATAT
1 CTTAAACCATAAAC
43313784 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
43313798 CTTAAACTATAA
1 CTTAAACCATAA
43313810 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:43314025 original size:41 final size:41
Alignment explanation
Indices: 43313966--43314390 Score: 602
Period size: 41 Copynumber: 10.4 Consensus size: 41
43313956 GGTTATGAGA
*
43313966 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTGATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
*
43314007 TATTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
43314048 TTTTTTGCGGCGTTTTAGGAAAAGCGACGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
43314089 TTTTTTA-CGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTAG
1 -TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
43314130 TTTTTAGCAGCATTTTACGAGAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
43314171 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
43314212 TTTTTAGCAGCATTTTACGAGAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* *
43314253 TTTTTTGCGGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* * *
43314294 TTTTTAACGGCATTTTACGAAAAGCGCCGCTAATGCTCTAG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
* ** *
43314335 TTTTTTGTTGCGTTTTAGGAAAAGCGCCGCTAATGCTCTGG
1 TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
43314376 -TTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
43314391 TTCTAGAACG
Statistics
Matches: 336, Mismatches: 46, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
40 18 0.05
41 313 0.93
42 5 0.01
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTACGAAAAGCGCCGCTAATGCTCTGG
Found at i:43317705 original size:20 final size:19
Alignment explanation
Indices: 43317681--43317743 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
43317671 ATAAAAATCC
43317681 CTAATCAAATACCAATATTT
1 CTAAT-AAATACCAATATTT
* * *
43317701 TTAATAGATGCCAATATTT
1 CTAATAAATACCAATATTT
* *
43317720 CTAATTGAATACCAAAATTT
1 CTAA-TAAATACCAATATTT
43317740 CTAA
1 CTAA
43317744 ATTTTTATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
CTAATAAATACCAATATTT
Found at i:43317919 original size:19 final size:19
Alignment explanation
Indices: 43317876--43317964 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
43317866 CTTACGTGGC
43317876 ATACCAAAATTTTTGAA-GG
1 ATACCAAAATTTTT-AACGG
*
43317895 AGTACCAAAATTTTTAACTG
1 A-TACCAAAATTTTTAACGG
* **
43317915 ATACCAAAATTTCTAACAA
1 ATACCAAAATTTTTAACGG
* * *
43317934 ATATCAAAATCTCTAA-GG
1 ATACCAAAATTTTTAACGG
43317952 AATACCAAAATTT
1 -ATACCAAAATTT
43317965 CCTAACTAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 42 0.74
20 15 0.26
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (19 bp):
ATACCAAAATTTTTAACGG
Found at i:43319903 original size:83 final size:83
Alignment explanation
Indices: 43319764--43319930 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
43319754 GCCACTAATA
43319764 CAATGGTAAAAGACTTAATGCTAAGGTTTTGGTTGACATAAATTCTAGTTTCAAACCTTGGACAA
1 CAATGGTAAAAGACTTAATGCTAAGGTTTTGGTTGACATAAATTCTAGTTTCAAACCTTGGACAA
43319829 CCTCTTCTCCACTCTTTC
66 CCTCTTCTCCACTCTTTC
43319847 CAATGGTAAAAGACTTAATGCTAAGGTTTTGGTTGACATAAATTCTAGTTTCAAACCTTGGACAA
1 CAATGGTAAAAGACTTAATGCTAAGGTTTTGGTTGACATAAATTCTAGTTTCAAACCTTGGACAA
*
43319912 CCTCTTCTCCATTCTTTC
66 CCTCTTCTCCACTCTTTC
43319930 C
1 C
43319931 TCATAAATGG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (83 bp):
CAATGGTAAAAGACTTAATGCTAAGGTTTTGGTTGACATAAATTCTAGTTTCAAACCTTGGACAA
CCTCTTCTCCACTCTTTC
Found at i:43321250 original size:28 final size:28
Alignment explanation
Indices: 43321195--43321253 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
43321185 TATGAAATAT
*
43321195 CTTGCACTTGGAGTGTCTGCCACTTTGG
1 CTTGCACTTGGAGTGTCTGCCACATTGG
* *
43321223 CTTGCACTTGGATTGT-TCGCTACATTGG
1 CTTGCACTTGGAGTGTCT-GCCACATTGG
43321251 CTT
1 CTT
43321254 ACACCCATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.12, C:0.24, G:0.25, T:0.39
Consensus pattern (28 bp):
CTTGCACTTGGAGTGTCTGCCACATTGG
Found at i:43327210 original size:56 final size:56
Alignment explanation
Indices: 43327108--43327283 Score: 144
Period size: 56 Copynumber: 3.3 Consensus size: 56
43327098 CCACTTTAGC
***
43327108 TGTC-ACCAATTTTGGCTTGAATTTAGACTGT-TCATTGCTTTGGCTTGCACTTGGGT
1 TGTCTACC-ATTTTGGCTTGAATTTAGACTGTCT-ACCACTTTGGCTTGCACTTGGGT
* *
43327164 TGTCTACCATTTTGGCTTGTATTTAGACTGTCTACCACTTTAGCTTGCAC------
1 TGTCTACCATTTTGGCTTGAATTTAGACTGTCTACCACTTTGGCTTGCACTTGGGT
* ** *
43327214 ---CTA-C-TTTTGGCTTGCATTTAGACTGTCCGCCACTTTGGCTTACACTTGGGT
1 TGTCTACCATTTTGGCTTGAATTTAGACTGTCTACCACTTTGGCTTGCACTTGGGT
* *
43327265 TGTCTGCAATTTTGGCTTG
1 TGTCTACCATTTTGGCTTG
43327284 CACCCACTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
45 36 0.38
46 1 0.01
47 3 0.03
54 2 0.02
56 49 0.52
57 4 0.04
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.42
Consensus pattern (56 bp):
TGTCTACCATTTTGGCTTGAATTTAGACTGTCTACCACTTTGGCTTGCACTTGGGT
Found at i:43327250 original size:101 final size:100
Alignment explanation
Indices: 43327088--43327283 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 100
43327078 GGGGTGTGAC
* ***
43327088 AGACTGTCCACCACTTTAGCTGTCACCAATTTTGGCTTGAATTTAGACTGTTCATTGCTTTGGCT
1 AGACTGTCCACCACTTTAGCTGTCACCAATTTTGGCTTGAATTTAGACTGTCCACCACTTTGGCT
* *
43327153 TGCACTTGGGTTGTCTACCATTTTGGCTTGTATTT
66 TACACTTGGGTTGTCTACAATTTTGGCTTGTATTT
* * * *
43327188 AGACTGTCTACCACTTTAGCT-TGCACCTACTTTTGGCTTGCATTTAGACTGTCCGCCACTTTGG
1 AGACTGTCCACCACTTTAGCTGT-CACC-AATTTTGGCTTGAATTTAGACTGTCCACCACTTTGG
*
43327252 CTTACACTTGGGTTGTCTGCAATTTTGGCTTG
64 CTTACACTTGGGTTGTCTACAATTTTGGCTTG
43327284 CACCCACTTT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
99 1 0.01
100 24 0.29
101 58 0.70
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.40
Consensus pattern (100 bp):
AGACTGTCCACCACTTTAGCTGTCACCAATTTTGGCTTGAATTTAGACTGTCCACCACTTTGGCT
TACACTTGGGTTGTCTACAATTTTGGCTTGTATTT
Found at i:43327269 original size:73 final size:73
Alignment explanation
Indices: 43327192--43327327 Score: 175
Period size: 73 Copynumber: 1.9 Consensus size: 73
43327182 GTATTTAGAC
* * * * * *
43327192 TGTCTACCACTTTAGCTTGCACCTACTTTTGGCTTGCATTTAGA-CTGTCCGCCACTTTGGCTTA
1 TGTCTACAACTTTAGCTTGCACCCACTTTTAGCTTACATTTAGATC-ATCCACCACTTTGGCTTA
43327256 CACTTGGGT
65 CACTTGGGT
* * *
43327265 TGTCTGCAATTTTGGCTTGCACCCACTTTTAGCTTACATTTAGATCATCCACCACTTTGGCTT
1 TGTCTACAACTTTAGCTTGCACCCACTTTTAGCTTACATTTAGATCATCCACCACTTTGGCTT
43327328 GCCCTCATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
73 52 0.98
74 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (73 bp):
TGTCTACAACTTTAGCTTGCACCCACTTTTAGCTTACATTTAGATCATCCACCACTTTGGCTTAC
ACTTGGGT
Found at i:43327324 original size:45 final size:45
Alignment explanation
Indices: 43327275--43327395 Score: 158
Period size: 44 Copynumber: 2.7 Consensus size: 45
43327265 TGTCTGCAAT
*
43327275 TTTGGCTTGCACCCACTTTTAGCTTACATTTAGA-TCATCCACCAC
1 TTTGGCTTGCACCCACTTTTAGCTTGCATTTAGACT-ATCCACCAC
* * * *
43327320 TTTGGCTTGC-CCTCA-TTTTGGCTTGTACTTGGACTATCCACCAC
1 TTTGGCTTGCACC-CACTTTTAGCTTGCATTTAGACTATCCACCAC
43327364 TTTGGCTTGCACCCACTTTTAGCTTGCATTTA
1 TTTGGCTTGCACCCACTTTTAGCTTGCATTTA
43327396 AGTTGTCTGA
Statistics
Matches: 63, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
44 36 0.57
45 27 0.43
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.39
Consensus pattern (45 bp):
TTTGGCTTGCACCCACTTTTAGCTTGCATTTAGACTATCCACCAC
Found at i:43327444 original size:28 final size:28
Alignment explanation
Indices: 43327409--43327561 Score: 155
Period size: 28 Copynumber: 5.5 Consensus size: 28
43327399 TGTCTGACGC
*
43327409 TTTGGCTTGCACTTGGATTGCCCGCCAT
1 TTTGGCTTGCACTTGGATTGTCCGCCAT
* * * *
43327437 TTTAGCTTGTACTTGGACTGTCCACCAT
1 TTTGGCTTGCACTTGGATTGTCCGCCAT
* * **
43327465 TTTAGCTTGTACTTGGATTGTCCATCAT
1 TTTGGCTTGCACTTGGATTGTCCGCCAT
* * * *
43327493 TTTGGCTT-TACTTGAACTATCCGCCAT
1 TTTGGCTTGCACTTGGATTGTCCGCCAT
** *
43327520 TTTGGCTTGCACTTAAATTGTCCGCCAC
1 TTTGGCTTGCACTTGGATTGTCCGCCAT
43327548 TTTGGCTTGCACTT
1 TTTGGCTTGCACTT
43327562 TTTTGGTTTG
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 22 0.21
28 84 0.79
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (28 bp):
TTTGGCTTGCACTTGGATTGTCCGCCAT
Found at i:43327540 original size:55 final size:56
Alignment explanation
Indices: 43327409--43327561 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 56
43327399 TGTCTGACGC
* * * *
43327409 TTTGGCTTGCACTTGGATTGCCCGCCATTTTAGCTTGTACTTGGACTGTCCACCAT
1 TTTGGCTTGCACTTGGATTGTCCACCATTTTAGCTTGTACTTGAACTATCCACCAT
* * * * *
43327465 TTTAGCTTGTACTTGGATTGTCCATCATTTTGGCTT-TACTTGAACTATCCGCCAT
1 TTTGGCTTGCACTTGGATTGTCCACCATTTTAGCTTGTACTTGAACTATCCACCAT
** * * * *
43327520 TTTGGCTTGCACTTAAATTGTCCGCCACTTTGGCTTGCACTT
1 TTTGGCTTGCACTTGGATTGTCCACCATTTTAGCTTGTACTT
43327562 TTTTGGTTTG
Statistics
Matches: 79, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
55 45 0.57
56 34 0.43
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (56 bp):
TTTGGCTTGCACTTGGATTGTCCACCATTTTAGCTTGTACTTGAACTATCCACCAT
Found at i:43331956 original size:3 final size:3
Alignment explanation
Indices: 43331948--43331972 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43331938 TAAAAGGAAA
43331948 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
43331973 GATTATAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:43343431 original size:14 final size:15
Alignment explanation
Indices: 43343408--43343438 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
43343398 AGCGAAAATG
43343408 AAAATGAAAAACAAA
1 AAAATGAAAAACAAA
43343423 AAAAT-AAAAACAAA
1 AAAATGAAAAACAAA
43343437 AA
1 AA
43343439 TAACCTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.84, C:0.06, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAATGAAAAACAAA
Found at i:43349980 original size:30 final size:30
Alignment explanation
Indices: 43349939--43350027 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
43349929 GATGATGGCA
*
43349939 TAGGCCTATCAACAGTGCCCAAACAATCAT
1 TAGGCCCATCAACAGTGCCCAAACAATCAT
* * *
43349969 TAGGCCCATCAACAGGGCCTAAACAATCACC
1 TAGGCCCATCAACAGTGCCCAAACAATCA-T
* *
43350000 T-GGCCCATCAATAGTGCCC-TACAATCAT
1 TAGGCCCATCAACAGTGCCCAAACAATCAT
43350028 CGGGCCTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
29 7 0.14
30 41 0.84
31 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.15, T:0.19
Consensus pattern (30 bp):
TAGGCCCATCAACAGTGCCCAAACAATCAT
Found at i:43350112 original size:18 final size:18
Alignment explanation
Indices: 43350089--43350131 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
43350079 TGCTAGGTGC
*
43350089 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
43350107 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
43350125 GTTTCCT
1 GTATCCT
43350132 TTTTTCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:43353859 original size:123 final size:123
Alignment explanation
Indices: 43353640--43354211 Score: 921
Period size: 123 Copynumber: 4.6 Consensus size: 123
43353630 GGCCAATCAT
43353640 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
43353705 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
43353763 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
43353828 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
43353886 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
43353951 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
66 CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * * ***
43354009 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCTGTGATTTTTGCTGACAGCACAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAG-AAATTTTGCTGACATTGCAT
* * * * * *
43354074 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTTTCAAAATTATTTTTTCAG
65 CCTACTTGAAGC---TTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
43354136 GAATTACTGTAGAAAAAGAGCGTCCACGTG-GTAGCTTTTTTCTGTAATTTTGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAG-AGCTTTTTTCAGAAATTTTGCTGACATTGCAT
* *
43354200 CCTGCTTCAAGC
65 CCTACTTGAAGC
43354212 GTTTTTGACA
Statistics
Matches: 425, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
123 288 0.68
124 26 0.06
126 28 0.07
127 83 0.20
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (123 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
CTACTTGAAGCTTTAACACTACTTGTTTAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:43354385 original size:34 final size:33
Alignment explanation
Indices: 43354347--43354467 Score: 102
Period size: 34 Copynumber: 3.6 Consensus size: 33
43354337 ATTTAACCTT
*
43354347 AAACTTTAAACCCTAATTTGATTAATTTATTTAA
1 AAACTATAAACCCTAATTT-ATTAATTTATTTAA
***
43354381 AAACTATAAACCCTAA-ACCTTAATTTATTTAA
1 AAACTATAAACCCTAATTTATTAATTTATTTAA
* * * *
43354413 AACCCTAAAAATCTTAATTTATTTAATTTATTTATA
1 AA-ACTATAAACCCTAATTTA-TTAATTTATTTA-A
* *
43354449 AACCT-TAAACCTTAATTTA
1 AAACTATAAACCCTAATTTA
43354468 AATAATTTTT
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
32 15 0.21
33 10 0.14
34 27 0.39
35 15 0.21
36 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.01, T:0.41
Consensus pattern (33 bp):
AAACTATAAACCCTAATTTATTAATTTATTTAA
Found at i:43354419 original size:24 final size:25
Alignment explanation
Indices: 43354388--43354438 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
43354378 TAAAAACTAT
43354388 AAACCCT-AAACCTTAATTTATTTA
1 AAACCCTAAAACCTTAATTTATTTA
*
43354412 AAACCCTAAAAATCTTAATTTATTTA
1 AAACCCT-AAAACCTTAATTTATTTA
43354438 A
1 A
43354439 TTTATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
26 17 0.71
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (25 bp):
AAACCCTAAAACCTTAATTTATTTA
Found at i:43354474 original size:34 final size:36
Alignment explanation
Indices: 43354401--43354482 Score: 93
Period size: 34 Copynumber: 2.4 Consensus size: 36
43354391 CCCTAAACCT
* **
43354401 TAATTTATTTA-AAACCCTAAAAATCTTAATTTATT
1 TAATTTATTTATAAACCCTAAAAACCTTAATTTAAA
*
43354436 TAATTTATTTATAAA-CCT-TAAACCTTAATTTAAA
1 TAATTTATTTATAAACCCTAAAAACCTTAATTTAAA
43354470 TAA-TT-TTTATAAA
1 TAATTTATTTATAAA
43354483 ATAACACTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
32 8 0.19
33 2 0.05
34 15 0.36
35 14 0.33
36 3 0.07
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (36 bp):
TAATTTATTTATAAACCCTAAAAACCTTAATTTAAA
Found at i:43363602 original size:17 final size:17
Alignment explanation
Indices: 43363582--43363615 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43363572 TCCTTAACTA
43363582 AAAGAACTGTTTATCTC
1 AAAGAACTGTTTATCTC
43363599 AAAGAACTGTTTATCTC
1 AAAGAACTGTTTATCTC
43363616 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
AAAGAACTGTTTATCTC
Found at i:43364926 original size:31 final size:29
Alignment explanation
Indices: 43364891--43364958 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 29
43364881 TACAATAAAC
* *
43364891 TTTGATCTAATGTGTAATTTTATACTTGAAA
1 TTTGAT-T-ATGTGTAATTTTACACATGAAA
*
43364922 TTTGATTTTGTGTAATTTTACACATGAAA
1 TTTGATTATGTGTAATTTTACACATGAAA
43364951 TTTTGATT
1 -TTTGATT
43364959 GGATCAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 19 0.58
30 8 0.24
31 6 0.18
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.51
Consensus pattern (29 bp):
TTTGATTATGTGTAATTTTACACATGAAA
Found at i:43364935 original size:29 final size:30
Alignment explanation
Indices: 43364901--43364958 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
43364891 TTTGATCTAA
* *
43364901 TGTGTAATTTTATACTTGAAA-TTTGATTT
1 TGTGTAATTTTACACATGAAATTTTGATTT
43364930 TGTGTAATTTTACACATGAAATTTTGATT
1 TGTGTAATTTTACACATGAAATTTTGATT
43364959 GGATCAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (30 bp):
TGTGTAATTTTACACATGAAATTTTGATTT
Found at i:43365209 original size:29 final size:27
Alignment explanation
Indices: 43365142--43365209 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
43365132 AAAGTTTTAT
43365142 GTGTATAATTACACCAAATCAAAGTTA
1 GTGTATAATTACACCAAATCAAAGTTA
*
43365169 GTGTATCAAATTACACATTAAATCAAAGTTCA
1 GTGTAT--AATTACAC--CAAATCAAAGTT-A
43365201 -TGTATAATT
1 GTGTATAATT
43365210 TTAAGATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
27 6 0.17
29 12 0.34
31 16 0.46
32 1 0.03
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (27 bp):
GTGTATAATTACACCAAATCAAAGTTA
Found at i:43375194 original size:12 final size:12
Alignment explanation
Indices: 43375153--43375219 Score: 73
Period size: 12 Copynumber: 5.6 Consensus size: 12
43375143 CCTGAGTGTA
43375153 GCTCCGGCTCTG
1 GCTCCGGCTCTG
*
43375165 GC-CGCCGCTCTG
1 GCTC-CGGCTCTG
* *
43375177 GGTCCGGCACTG
1 GCTCCGGCTCTG
*
43375189 CCTCCGGCTCTG
1 GCTCCGGCTCTG
*
43375201 GCTCTGGCTCTG
1 GCTCCGGCTCTG
43375213 GCTCCGG
1 GCTCCGG
43375220 AGTTGGTGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.01, C:0.42, G:0.34, T:0.22
Consensus pattern (12 bp):
GCTCCGGCTCTG
Found at i:43381017 original size:43 final size:43
Alignment explanation
Indices: 43380928--43381067 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
43380918 TGTGATTACA
* *
43380928 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATCACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATCGAGATCACG
* * *
43380971 TGTAAGACCATGTCGGGGACATTGGCATCGTTAATCGA-TTTA-G
1 TGTAAGACCATGTCTGGGACATTGGCATCG-T-ATCGAGATCACG
* * * * * *
43381014 TGTAAGACCCTGTTTGGGACAGTGGCATCGATAT-GTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATCGAGATCACG
43381057 TGTAAGACCAT
1 TGTAAGACCAT
43381068 ATATGAGATA
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 66 0.85
44 3 0.04
45 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATCGAGATCACG
Found at i:43391322 original size:25 final size:26
Alignment explanation
Indices: 43391294--43391344 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
43391284 CTTATTTCAT
*
43391294 TAAATAAAAAAT-TTTAAAAATATAA
1 TAAATAAAAAATATTTAAAAACATAA
* *
43391319 TAAATCAAATATATTTAAAAACATAA
1 TAAATAAAAAATATTTAAAAACATAA
43391345 AAACAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAATAAAAAATATTTAAAAACATAA
Found at i:43391336 original size:26 final size:24
Alignment explanation
Indices: 43391306--43391354 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
43391296 AATAAAAAAT
*
43391306 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
43391332 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
43391355 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:43403122 original size:14 final size:15
Alignment explanation
Indices: 43403103--43403134 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
43403093 TGTTGTACTG
43403103 AAAACAATTTTT-GA
1 AAAACAATTTTTAGA
43403117 AAAACAATTTTTAGA
1 AAAACAATTTTTAGA
43403132 AAA
1 AAA
43403135 TAGATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (15 bp):
AAAACAATTTTTAGA
Found at i:43403211 original size:14 final size:14
Alignment explanation
Indices: 43403192--43403224 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
43403182 TTATGTAAAA
*
43403192 TATTTTTCAAAA-T
1 TATTTTTTAAAATT
43403205 TATTTTTTAAAATT
1 TATTTTTTAAAATT
43403219 TATTTT
1 TATTTT
43403225 CAATGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTTTTTAAAATT
Found at i:43403690 original size:48 final size:48
Alignment explanation
Indices: 43403619--43403714 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
43403609 CTATTTATAG
* *
43403619 GAATTTTCACGTCTCTTCATAGAGACATTTTTCATCAATAGGCGTCTT
1 GAATTTTCACATCTCTTCATAGAGACATCTTTCATCAATAGGCGTCTT
* * *
43403667 GAATTTTCATATCTCTTCATAGAGATATCTTTCATCAATAGGTGTCTT
1 GAATTTTCACATCTCTTCATAGAGACATCTTTCATCAATAGGCGTCTT
43403715 TTTGAATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (48 bp):
GAATTTTCACATCTCTTCATAGAGACATCTTTCATCAATAGGCGTCTT
Found at i:43409592 original size:14 final size:15
Alignment explanation
Indices: 43409575--43409615 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
43409565 TTATTCATTA
43409575 AATTAATTTT-AATT
1 AATTAATTTTCAATT
43409589 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
43409605 AAATAATTTTC
1 AATTAATTTTC
43409616 TCAACTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:43409606 original size:16 final size:16
Alignment explanation
Indices: 43409575--43409619 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
43409565 TTATTCATTA
43409575 AATTAA-TTTT-AATT
1 AATTAATTTTTCAATT
43409589 AATTAATTTTTCAATT
1 AATTAATTTTTCAATT
*
43409605 AAATAATTTTCTCAA
1 AATTAATTTT-TCAA
43409620 CTCAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 6 0.22
15 4 0.15
16 13 0.48
17 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTTTTCAATT
Found at i:43412161 original size:13 final size:13
Alignment explanation
Indices: 43412153--43412177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43412143 AGAGTTATTA
43412153 ACATAAGTTTTAC
1 ACATAAGTTTTAC
43412166 ACATAAGTTTTA
1 ACATAAGTTTTA
43412178 TATATCTTTA
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:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
ACATAAGTTTTAC
Found at i:43414526 original size:77 final size:75
Alignment explanation
Indices: 43414423--43414575 Score: 234
Period size: 77 Copynumber: 2.0 Consensus size: 75
43414413 ATAATTTTGA
* *
43414423 ACTAACATATACTCCTATCTCATTTTCTTTTCTCTTATAATTTCAATTTAGATACTTTTTTATTT
1 ACTAACATATACTCCTATCTCATTTTCTTTTATATTATAATTTCAATTT--ATACTTTTTTATTT
43414488 TTATACATTAGT
64 TTATACATTAGT
* ** *
43414500 ACTAACATATACTCCTATCTCATTTTCTTTTATATTATACTTTCAATTTATTTTTTTTTGTTTTT
1 ACTAACATATACTCCTATCTCATTTTCTTTTATATTATAATTTCAATTTATACTTTTTTATTTTT
43414565 ATACATTAGT
66 ATACATTAGT
43414575 A
1 A
43414576 TGAAAAATAA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
75 24 0.34
77 46 0.66
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.55
Consensus pattern (75 bp):
ACTAACATATACTCCTATCTCATTTTCTTTTATATTATAATTTCAATTTATACTTTTTTATTTTT
ATACATTAGT
Found at i:43416873 original size:8 final size:7
Alignment explanation
Indices: 43416861--43416919 Score: 54
Period size: 6 Copynumber: 8.6 Consensus size: 7
43416851 ATGGGTAATA
43416861 AATAAAT
1 AATAAAT
43416868 AGATAAAT
1 A-ATAAAT
43416876 AAT-AAT
1 AATAAAT
43416882 AAT-AAT
1 AATAAAT
*
43416888 AATAGAT
1 AATAAAT
43416895 AAT-AAT
1 AATAAAT
43416901 AATAATAGT
1 AATAA-A-T
43416910 AAT-AAT
1 AATAAAT
43416916 AATA
1 AATA
43416920 GTAATAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
6 21 0.48
7 10 0.23
8 9 0.20
9 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (7 bp):
AATAAAT
Found at i:43416881 original size:3 final size:3
Alignment explanation
Indices: 43416873--43416986 Score: 101
Period size: 3 Copynumber: 37.0 Consensus size: 3
43416863 TAAATAGATA
*
43416873 AAT AAT AAT AAT AAT AAT AGAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
43416919 AGT AAT AAT AGT GAAGGT -AT AAAT AA- AAT AA- ATAT AAT AAT AAT
1 AAT AAT AAT AAT -AA--T AAT -AAT AAT AAT AAT A-AT AAT AAT AAT
*
43416963 AGAT AAT AA- AAT AGT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT
43416987 GAAGGCATAA
Statistics
Matches: 92, Mismatches: 8, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
2 6 0.07
3 74 0.80
4 11 0.12
6 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:43416961 original size:56 final size:57
Alignment explanation
Indices: 43416882--43417010 Score: 199
Period size: 56 Copynumber: 2.3 Consensus size: 57
43416872 AAATAATAAT
* * *
43416882 AATAATAATAGATAATAATAATAATAG-TAATAATAATAGTAATAATAGTGAAGGTATA
1 AATAA-AATAAATAATAATAATAATAGATAATAA-AATAGTAATAATAATGAAGGCATA
43416940 AATAAAATAAAT-ATAATAATAATAGATAATAAAATAGTAATAATAATGAAGGCATA
1 AATAAAATAAATAATAATAATAATAGATAATAAAATAGTAATAATAATGAAGGCATA
43416996 AATAAAATAAATAAT
1 AATAAAATAAATAAT
43417011 CTATGAAAGA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
56 47 0.71
57 14 0.21
58 5 0.08
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.29
Consensus pattern (57 bp):
AATAAAATAAATAATAATAATAATAGATAATAAAATAGTAATAATAATGAAGGCATA
Found at i:43417008 original size:27 final size:26
Alignment explanation
Indices: 43416922--43417028 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 26
43416912 TAATAATAGT
*
43416922 AATAATAGTGAAGGTATAAATAAAATAA
1 AATAATAATGAAGG-ATAAATAAAAT-A
*
43416950 ATATAATAAT-AATAGAT-AATAAAATA
1 A-ATAATAATGAA-GGATAAATAAAATA
43416976 GTAATAATAATGAAGGCATAAATAAAATA
1 --AATAATAATGAAGG-ATAAATAAAATA
* *
43417005 AATAATCTATGAAAGA-AAATAAAA
1 AATAAT-AATGAAGGATAAATAAAA
43417029 GTTAAGAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
26 9 0.14
27 24 0.36
28 16 0.24
29 17 0.26
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.25
Consensus pattern (26 bp):
AATAATAATGAAGGATAAATAAAATA
Found at i:43417092 original size:4 final size:4
Alignment explanation
Indices: 43417083--43417207 Score: 72
Period size: 4 Copynumber: 30.2 Consensus size: 4
43417073 TTTAAAAAAT
* * * *
43417083 ATAA ATAA ATAA ATAA ATAA ATAA ATGAGCA ATAT ATCA ATAG ATAA GTAA
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-A--A ATAA ATAA ATAA ATAA ATAA
* * * * * * *
43417134 ATGA ACAA ACAA ATGA ATAAA ATAAA AGAA AT-A ATGA ATAA ATAA ACAA
1 ATAA ATAA ATAA ATAA AT-AA AT-AA ATAA ATAA ATAA ATAA ATAA ATAA
* * *
43417183 GTAA ATAA ATAA ATGA ATAC ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
43417208 AGAATTAAAA
Statistics
Matches: 91, Mismatches: 25, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
3 3 0.03
4 76 0.84
5 8 0.09
6 1 0.01
7 3 0.03
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:43417333 original size:53 final size:53
Alignment explanation
Indices: 43417269--43417376 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
43417259 TTGAATAAAT
* * *
43417269 ATCAAAGGGGCTAAAATATAACGCGCGAAAACAAGCGAGGGTCGAAGGAGGAA
1 ATCAAAAGGGCTAAAATATAACGCGCGAAAACAAGCGAGGGCCAAAGGAGGAA
*
43417322 ATCAAAAGGGCTAAAATATAATGCGCGAAAACAAGCGAGGGCCAAAGGAGGAA
1 ATCAAAAGGGCTAAAATATAACGCGCGAAAACAAGCGAGGGCCAAAGGAGGAA
43417375 AT
1 AT
43417377 AACCCAATCC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.45, C:0.15, G:0.30, T:0.10
Consensus pattern (53 bp):
ATCAAAAGGGCTAAAATATAACGCGCGAAAACAAGCGAGGGCCAAAGGAGGAA
Found at i:43418360 original size:17 final size:18
Alignment explanation
Indices: 43418338--43418374 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
43418328 CTAGGCTTTA
43418338 AATTTT-TTTGGGTTTGT
1 AATTTTATTTGGGTTTGT
43418355 AATTTTATTTGGGTTTGT
1 AATTTTATTTGGGTTTGT
43418373 AA
1 AA
43418375 CTAGTCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (18 bp):
AATTTTATTTGGGTTTGT
Found at i:43423114 original size:40 final size:40
Alignment explanation
Indices: 43423059--43423159 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
43423049 TTGGCTCGGA
* *
43423059 TATAACAACCAGCACGAATGCCTTCAGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
* *
43423099 TATAATAACCCGCACGAATTCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
43423139 TATAATAACCCGCACGAATGC
1 TATAATAACCCGCACGAATGC
43423160 TATGCACATA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
Found at i:43432231 original size:21 final size:22
Alignment explanation
Indices: 43432189--43432231 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
43432179 TAAACAAAGT
* *
43432189 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
43432211 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
43432232 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:43435825 original size:36 final size:36
Alignment explanation
Indices: 43435785--43435857 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
43435775 TGCGCATGAC
* *
43435785 TTAAATGAAGCAAAACATTATATATATCCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATCCATTAATA
* *
43435821 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATCCATTAATA
43435857 T
1 T
43435858 ATATATATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATCCATTAATA
Found at i:43435973 original size:43 final size:42
Alignment explanation
Indices: 43435898--43435978 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
43435888 CCTGTTAATT
*
43435898 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
1 ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
43435940 ATGGAATATATATGC-ATTATGCGCATGACTTAAATGAAG
1 ATGGAATATATATGCAATTAT--GCATGACTTAAATGAAG
43435979 CAAAACATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 5 0.14
42 14 0.39
43 17 0.47
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
Found at i:43435992 original size:43 final size:42
Alignment explanation
Indices: 43435901--43435995 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 42
43435891 GTTAATTATG
** **
43435901 GTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATG
1 GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
*
43435943 GAATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACA
1 GTATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACA
*
43435986 TTATATATAT
1 GTATATATAT
43435996 ATGCATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 5 0.11
42 11 0.25
43 28 0.64
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (42 bp):
GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
Found at i:43436083 original size:45 final size:45
Alignment explanation
Indices: 43436034--43436124 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
43436024 ATAATGCATA
* *
43436034 TATATATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAATTAAACCTGCTAATAATGG
43436079 TATATATATGCATGACTTAAATGAAATTAAACCTGCTAATAATGG
1 TATATATATGCATGACTTAAATGAAATTAAACCTGCTAATAATGG
43436124 T
1 T
43436125 TAATTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (45 bp):
TATATATATGCATGACTTAAATGAAATTAAACCTGCTAATAATGG
Found at i:43436620 original size:21 final size:21
Alignment explanation
Indices: 43436569--43436608 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43436559 CAACTAATGG
43436569 TGGTTGTGGCTTGTGGAACCT
1 TGGTTGTGGCTTGTGGAACCT
*
43436590 TGTTTGTGGCTTGTGGAAC
1 TGGTTGTGGCTTGTGGAAC
43436609 TATGGTCGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.12, G:0.38, T:0.40
Consensus pattern (21 bp):
TGGTTGTGGCTTGTGGAACCT
Found at i:43436772 original size:36 final size:36
Alignment explanation
Indices: 43436725--43436796 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
43436715 TAAAGAACAA
43436725 AGGAAAAATTGGGGAAGG-GGTTGGGAATTTGGAACG
1 AGGAAAAATTGGGGAAGGAGG-TGGGAATTTGGAACG
*
43436761 AGGAAAAATTGGGGGAGGAGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGAAGGAGGTGGGAATTTGGAACG
43436797 GCAGAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 32 0.94
37 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.46, T:0.18
Consensus pattern (36 bp):
AGGAAAAATTGGGGAAGGAGGTGGGAATTTGGAACG
Found at i:43443969 original size:49 final size:49
Alignment explanation
Indices: 43443907--43444926 Score: 1890
Period size: 49 Copynumber: 20.9 Consensus size: 49
43443897 TAGTATGGCG
* *
43443907 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
*
43443956 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444003 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444052 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444101 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444150 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444199 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444248 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444297 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444346 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444395 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444444 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444493 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444542 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444591 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444640 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444689 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444738 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
43444787 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
* * *
43444836 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
* * * * * *
43444883 GAGTGGCCAACGTGATGGATGTGAAAGTGTACA-A-ATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
43444927 TCCCGAAGGG
Statistics
Matches: 954, Mismatches: 13, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
47 93 0.10
48 1 0.00
49 860 0.90
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGTC
Found at i:43445101 original size:37 final size:37
Alignment explanation
Indices: 43445045--43445123 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
43445035 CCGAGCTCTA
* * *
43445045 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
43445082 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
43445119 AAGAC
1 AAGAC
43445124 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:43446360 original size:15 final size:15
Alignment explanation
Indices: 43446340--43446368 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43446330 CAATACATTG
43446340 TTTTTGTGTAAAACA
1 TTTTTGTGTAAAACA
43446355 TTTTTGTGTAAAAC
1 TTTTTGTGTAAAAC
43446369 CTTTGGCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTTTGTGTAAAACA
Found at i:43455037 original size:16 final size:16
Alignment explanation
Indices: 43455013--43455053 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
43455003 TGAAGACACA
*
43455013 AAAAGAAAAAAAAAAC
1 AAAACAAAAAAAAAAC
*
43455029 AAAACAAAACAAAAAC
1 AAAACAAAAAAAAAAC
43455045 AAATACAAA
1 AAA-ACAAA
43455054 GTCCCTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.83, C:0.12, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAACAAAAAAAAAAC
Found at i:43458332 original size:29 final size:29
Alignment explanation
Indices: 43458299--43458360 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
43458289 TTTTTAAAAA
43458299 TTAATTA-ATTACTGACATAGACTGCAAAG
1 TTAATTAGA-TACTGACATAGACTGCAAAG
43458328 TTAA-TAGATACTGACATAGACTGCAAAG
1 TTAATTAGATACTGACATAGACTGCAAAG
43458356 TTAAT
1 TTAAT
43458361 AGACTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (29 bp):
TTAATTAGATACTGACATAGACTGCAAAG
Found at i:43458340 original size:28 final size:28
Alignment explanation
Indices: 43458308--43458363 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
43458298 ATTAATTAAT
43458308 TACTGACATAGACTGCAAAGTTAATAGA
1 TACTGACATAGACTGCAAAGTTAATAGA
43458336 TACTGACATAGACTGCAAAGTTAATAGA
1 TACTGACATAGACTGCAAAGTTAATAGA
43458364 CTTTTAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (28 bp):
TACTGACATAGACTGCAAAGTTAATAGA
Found at i:43461913 original size:36 final size:36
Alignment explanation
Indices: 43461866--43461938 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
43461856 TCCATATAGG
43461866 ATGCGGAGAATAGAAGCTTGACATTGGGAAGATGCA
1 ATGCGGAGAATAGAAGCTTGACATTGGGAAGATGCA
43461902 ATGCGGAGAATAGAAGCTTGACATTGGGAAGATGCA
1 ATGCGGAGAATAGAAGCTTGACATTGGGAAGATGCA
43461938 A
1 A
43461939 CAAAAAGAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.33, T:0.19
Consensus pattern (36 bp):
ATGCGGAGAATAGAAGCTTGACATTGGGAAGATGCA
Found at i:43485694 original size:25 final size:25
Alignment explanation
Indices: 43485635--43485722 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
43485625 AATTCATATT
43485635 CAGGAATGCTCATGTGAG-CATATAAA
1 CAGGAA-GCTCATGTGAGCCATAT-AA
* * *
43485661 TAGGTAGCTC-TTTCGAGCCATATAA
1 CAGGAAGCTCATGT-GAGCCATATAA
*
43485686 CAGGAAGCTCATGTGAGCCATGTAA
1 CAGGAAGCTCATGTGAGCCATATAA
*
43485711 CGGGAAGCTCAT
1 CAGGAAGCTCAT
43485723 AAGAGCCACA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 2 0.04
25 38 0.75
26 11 0.22
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CAGGAAGCTCATGTGAGCCATATAA
Found at i:43485728 original size:25 final size:25
Alignment explanation
Indices: 43485675--43485730 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
43485665 TAGCTCTTTC
**
43485675 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATAA
* *
43485700 GAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
43485725 GAGCCA
1 GAGCCA
43485731 CATTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.21, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:43486891 original size:27 final size:27
Alignment explanation
Indices: 43486860--43486949 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
43486850 TTAATTTCAA
43486860 TTTATTTACTATTTTTCCATTAATGGC
1 TTTATTTACTATTTTTCCATTAATGGC
* * **
43486887 TTTATTTGATTATTTTTTTC-TT-ATTTC
1 TTTATTT-ACTA-TTTTTCCATTAATGGC
43486914 AATTTATTTACTATTTTTCCATTAATGGC
1 --TTTATTTACTATTTTTCCATTAATGGC
43486943 TTTATTT
1 TTTATTT
43486950 GATTTTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
27 23 0.47
28 10 0.20
29 16 0.33
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTATTTACTATTTTTCCATTAATGGC
Found at i:43486923 original size:56 final size:55
Alignment explanation
Indices: 43486853--43486964 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 55
43486843 TTTGTTTTTA
43486853 ATTTCAATTTATTTACTATTTTTCCATTAATGGCTTTATTTGATTATTTTTTTCTT
1 ATTTCAATTTATTTACTATTTTTCCATTAATGGCTTTATTTGATT-TTTTTTTCTT
43486909 ATTTCAATTTATTTACTATTTTTCCATTAATGGCTTTATTTGATTTTTTTTTCTT
1 ATTTCAATTTATTTACTATTTTTCCATTAATGGCTTTATTTGATTTTTTTTTCTT
43486964 A
1 A
43486965 CTTATGCCGC
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 11 0.20
56 45 0.80
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.62
Consensus pattern (55 bp):
ATTTCAATTTATTTACTATTTTTCCATTAATGGCTTTATTTGATTTTTTTTTCTT
Found at i:43486928 original size:28 final size:30
Alignment explanation
Indices: 43486850--43486939 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 30
43486840 TTGTTTGTTT
43486850 TTAATTTCAATTTATTTACTA-TTTTTCCA
1 TTAATTTCAATTTATTTACTATTTTTTCCA
** * *
43486879 TTAATGGC--TTTATTTGATTATTTTTTTC-
1 TTAATTTCAATTTATTT-ACTATTTTTTCCA
43486907 TT-ATTTCAATTTATTTACTA-TTTTTCCA
1 TTAATTTCAATTTATTTACTATTTTTTCCA
43486935 TTAAT
1 TTAAT
43486940 GGCTTTATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
27 16 0.34
28 10 0.21
29 21 0.45
ACGTcount: A:0.24, C:0.11, G:0.03, T:0.61
Consensus pattern (30 bp):
TTAATTTCAATTTATTTACTATTTTTTCCA
Found at i:43486958 original size:28 final size:28
Alignment explanation
Indices: 43486871--43486959 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
43486861 TTATTTACTA
43486871 TTTTTCCATTAATGGCTTTATTTGATTAT
1 TTTTTCCATTAATGGCTTTATTTGATT-T
* ** * *
43486900 TTTTTTC-TT-ATTTCAATTTATTT-ACTA
1 TTTTTCCATTAATGGC--TTTATTTGATTT
43486927 TTTTTCCATTAATGGCTTTATTTGATTT
1 TTTTTCCATTAATGGCTTTATTTGATTT
43486955 TTTTT
1 TTTTT
43486960 TCTTACTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
27 16 0.36
28 13 0.29
29 16 0.36
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTTCCATTAATGGCTTTATTTGATTT
Found at i:43492679 original size:58 final size:58
Alignment explanation
Indices: 43492608--43492726 Score: 211
Period size: 58 Copynumber: 2.1 Consensus size: 58
43492598 ATGTGTTAGC
*
43492608 TTACTTTAGCATTTGATTCATTTTGTATAAGACCATGGTAAATGGCTAATATTGAAAG
1 TTACTTTAACATTTGATTCATTTTGTATAAGACCATGGTAAATGGCTAATATTGAAAG
* *
43492666 TTACTTTAACATTTGATTCATTTTGTATAAGGCCATGGTAAATTGCTAATATTGAAAG
1 TTACTTTAACATTTGATTCATTTTGTATAAGACCATGGTAAATGGCTAATATTGAAAG
43492724 TTA
1 TTA
43492727 TTCTATGAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (58 bp):
TTACTTTAACATTTGATTCATTTTGTATAAGACCATGGTAAATGGCTAATATTGAAAG
Found at i:43493236 original size:29 final size:28
Alignment explanation
Indices: 43493182--43493236 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
43493172 TACGGGCTAA
*
43493182 GACACGGGCGTGTCATGGCCGTGTGAGG
1 GACACGGGCGTGTCATAGCCGTGTGAGG
43493210 GACACGGGCATGTGTCA-AGCCGTGTGA
1 GACACGGGC--GTGTCATAGCCGTGTGA
43493237 AAACCCCAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.18, C:0.22, G:0.42, T:0.18
Consensus pattern (28 bp):
GACACGGGCGTGTCATAGCCGTGTGAGG
Found at i:43501635 original size:5 final size:5
Alignment explanation
Indices: 43501621--43501654 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
43501611 AAATAGAAAG
*
43501621 ATTTT ATTTT GTTTT ATTTT ATTTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT ATT
43501655 AATTTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:43501648 original size:11 final size:11
Alignment explanation
Indices: 43501622--43501654 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
43501612 AATAGAAAGA
*
43501622 TTTTATTTT-G
1 TTTTATTTTAT
43501632 TTTTATTTTAT
1 TTTTATTTTAT
43501643 TTTTATTTTAT
1 TTTTATTTTAT
43501654 T
1 T
43501655 AATTTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:43505341 original size:42 final size:42
Alignment explanation
Indices: 43505278--43505441 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
43505268 CTTCGTTTTC
** *
43505278 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
43505321 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
43505362 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
* *
43505411 TCGATACCATAGCCCAGCTATGGTCGTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
43505442 GAATCACATA
Statistics
Matches: 104, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.61
43 1 0.01
45 2 0.02
48 1 0.01
49 35 0.34
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:43505421 original size:49 final size:48
Alignment explanation
Indices: 43505348--43505484 Score: 179
Period size: 49 Copynumber: 2.9 Consensus size: 48
43505338 TATGGTCTTA
*
43505348 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
43505398 CACATATCACATATCGATACCATAGCCCAGCTATGGTCGTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * *
43505446 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
43505485 TACAGTAGCA
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
46 22 0.28
47 1 0.01
48 13 0.17
49 36 0.46
50 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:43505513 original size:47 final size:46
Alignment explanation
Indices: 43505363--43505531 Score: 176
Period size: 47 Copynumber: 3.6 Consensus size: 46
43505353 ATTCATATAT
* *
43505363 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 CGATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCAC--AC
* * * * *
43505412 CGATACCATAGCCCAGCTATGGTCGTACACGAATCACATATCTCAC
1 CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
* * * * *
43505458 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACAC
* *
43505505 CGATGCCATATCCCAAATATGGTCTTA
1 CGATGCCATAGCCCAGATATGGTCTTA
43505532 TACGGAAATC
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 25 0.25
47 37 0.36
48 11 0.11
49 29 0.28
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (46 bp):
CGATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACAC
Found at i:43505604 original size:31 final size:31
Alignment explanation
Indices: 43505568--43505708 Score: 210
Period size: 31 Copynumber: 4.5 Consensus size: 31
43505558 TTGTACCCAA
*
43505568 AGCTACCACTATTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
43505599 TGCTACCATTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
43505630 AGCTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
43505661 AGCTACCACTTTTCACTGATCAGGTAGCTGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
43505692 AACTACCACTTTTCACT
1 AGCTACCACTTTTCACT
43505709 TGTCATTTGC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:43505786 original size:50 final size:51
Alignment explanation
Indices: 43505684--43505812 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
43505674 CACTGATCAG
* * * * *
43505684 GTAGCTGAAACTACCACTTTTCACTTGTCATTTGCCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGT
43505735 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCC-TTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTG-CCATTGATCAGATAAGT
43505785 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
43505813 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGCCATTGATCAGATAAGT
Found at i:43511674 original size:26 final size:26
Alignment explanation
Indices: 43511645--43511726 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
43511635 TGATACAAAT
43511645 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
43511671 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43511697 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
43511723 TGAT
1 TGAT
43511727 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:43522112 original size:7 final size:7
Alignment explanation
Indices: 43522102--43522126 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43522092 AAATTTAAAG
43522102 TTTAGGA
1 TTTAGGA
43522109 TTTAGGA
1 TTTAGGA
43522116 TTTAGGA
1 TTTAGGA
43522123 TTTA
1 TTTA
43522127 AATTTGAGGT
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:0.24, T:0.48
Consensus pattern (7 bp):
TTTAGGA
Found at i:43538078 original size:127 final size:127
Alignment explanation
Indices: 43537767--43538088 Score: 434
Period size: 127 Copynumber: 2.5 Consensus size: 127
43537757 GTCCAACGAA
* * * ** *
43537767 AAATCGAAACCCGGCACAGTAGGGCACGATTCCTCGAACTTCC-ATTATTGAACATTGCCTTGCT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
*
43537831 TTAGAATTTATAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAATAAACCGG
66 TTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAATAAACCGG
* * *
43537893 AAATCGAAACCTAGCACGATAGGGCACGATTCCTCGAATTTCCAAACCTTGAACATTGCCTTGTT
1 AAATCGAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
* * * * *
43537958 TTAGAATTTGGAAAACACGAGTGAAATTCTAAAGGAATATTCAATTATTTTG-ATCAAACGGG
66 TTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAAT-AAACCGG
** *
43538020 AAATCGAAACCCAGCACGGTAGGGCACGATTTCCT-GAATTTCCAAACATCAAATATTGCCTTCG
1 AAATCGAAACCCAGCACGGTAGGGCACGA-TTCCTCGAATTTCCAAACATTGAACATTGCCTT-G
43538084 TTTTA
64 TTTTA
43538089 AGGAATTTTC
Statistics
Matches: 171, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
126 40 0.23
127 120 0.70
128 11 0.06
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (127 bp):
AAATCGAAACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTGAACATTGCCTTGTT
TTAGAATTTAGAAAACACGAGTGAAATACTAAAGGAACATTCAATTATTTGGAATAAACCGG
Found at i:43538874 original size:14 final size:14
Alignment explanation
Indices: 43538855--43538883 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43538845 AAGTAAACTA
43538855 TATGCATAATAGAT
1 TATGCATAATAGAT
43538869 TATGCATAATAGAT
1 TATGCATAATAGAT
43538883 T
1 T
43538884 TGAAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (14 bp):
TATGCATAATAGAT
Found at i:43543907 original size:3 final size:3
Alignment explanation
Indices: 43543899--43543941 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
43543889 TTGTCACCCC
43543899 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
43543942 TATGTTATGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:43550344 original size:21 final size:21
Alignment explanation
Indices: 43550314--43550354 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43550304 TAACAGGAAC
43550314 GCTGACGTGGCAAGTTAACTA
1 GCTGACGTGGCAAGTTAACTA
* *
43550335 GCTGATGTGGCCAGTTAACT
1 GCTGACGTGGCAAGTTAACT
43550355 TGCCACGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACTA
Found at i:43550764 original size:14 final size:15
Alignment explanation
Indices: 43550745--43550773 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43550735 CACCAAAAAC
43550745 CAGAGGAA-AAGAAG
1 CAGAGGAAGAAGAAG
43550759 CAGAGGAAGAAGAAG
1 CAGAGGAAGAAGAAG
43550774 ATGATGAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.07, G:0.38, T:0.00
Consensus pattern (15 bp):
CAGAGGAAGAAGAAG
Found at i:43555052 original size:18 final size:19
Alignment explanation
Indices: 43555017--43555053 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
43555007 ATTATTAAGA
43555017 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
43555036 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
43555054 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:43555304 original size:16 final size:16
Alignment explanation
Indices: 43555285--43555324 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
43555275 AGTGGATTAG
43555285 CCAATACACCTCTAAT
1 CCAATACACCTCTAAT
43555301 CCAATACACCTCTAAT
1 CCAATACACCTCTAAT
43555317 CCAATACA
1 CCAATACA
43555325 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.23
Consensus pattern (16 bp):
CCAATACACCTCTAAT
Found at i:43556309 original size:3 final size:3
Alignment explanation
Indices: 43556296--43556414 Score: 104
Period size: 3 Copynumber: 41.0 Consensus size: 3
43556286 TTCCATTTTC
* * * * * *
43556296 TCT TAT TCT TCT TC- TCC TCC TCC TCT TTT TCT TCT TTT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
43556343 TCT TCT TCT TCT TTT TCT TCT TCT TCT TCT TC- TCT GT-T TCT TC-
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT -TCT TCT TCT
* * *
43556386 TCT TAT TCT TCT T-T TTT TCT TCT TAT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
43556415 ACTACCCAAG
Statistics
Matches: 96, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
2 9 0.09
3 86 0.90
4 1 0.01
ACGTcount: A:0.03, C:0.29, G:0.01, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:43561704 original size:18 final size:18
Alignment explanation
Indices: 43561681--43561718 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
43561671 CCCAATTTAC
43561681 CTCACATTCACAAAACAA
1 CTCACATTCACAAAACAA
43561699 CTCACATTCACAAAACAA
1 CTCACATTCACAAAACAA
43561717 CT
1 CT
43561719 AACAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.18
Consensus pattern (18 bp):
CTCACATTCACAAAACAA
Found at i:43562600 original size:75 final size:73
Alignment explanation
Indices: 43562463--43562718 Score: 336
Period size: 74 Copynumber: 3.4 Consensus size: 73
43562453 ATGGTGGAAG
* *
43562463 TTGCGCCCAGCGCTAGTCGGATAAACCGACG-AATAATTAGTGAGCCTAGCTCTAGTTCGATAAA
1 TTGCG-CCAGCGCTAGTCAGATAAA-CGACGAAATAATTAGTGAGCCTAGCTCTAGTTGGATAAA
43562527 CCAATGATAT
64 CCAATGATAT
* * *
43562537 TTGTGTCCAGTGCTAGTCAGATAAACGGACGAAATAATTAGTTAGCCTAGCTCTAGTTGGATAAA
1 TTGCG-CCAGCGCTAGTCAGATAAAC-GACGAAATAATTAGTGAGCCTAGCTCTAGTTGGATAAA
43562602 CCAATGATAT
64 CCAATGATAT
* * *
43562612 TTGCGCCTAGCGCTAGTTAGATAAACAACGAAATAATTAGTGAGCCCAGCTCTAGTTGGATAAAC
1 TTGCGCC-AGCGCTAGTCAGATAAACGACGAAATAATTAGTGAGCCTAGCTCTAGTTGGATAAAC
*
43562677 CAACGATAT
65 CAATGATAT
*
43562686 TTACGCCCAGCGCTAGTC-GAATAAATCGACGAA
1 TTGCG-CCAGCGCTAGTCAG-ATAAA-CGACGAA
43562719 TGTTTGCCCA
Statistics
Matches: 160, Mismatches: 16, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
73 2 0.01
74 89 0.56
75 69 0.43
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (73 bp):
TTGCGCCAGCGCTAGTCAGATAAACGACGAAATAATTAGTGAGCCTAGCTCTAGTTGGATAAACC
AATGATAT
Found at i:43562628 original size:35 final size:35
Alignment explanation
Indices: 43562463--43562702 Score: 131
Period size: 35 Copynumber: 6.5 Consensus size: 35
43562453 ATGGTGGAAG
* *
43562463 TTGCGCCCAGCGCTAGTCGGATAAACCGACGAATAAT
1 TTGCGCCCAGCGCTAGTTGGATAAACCAACG-AT-AT
* * * * *
43562500 TAGTGAGCCTAGCTCTAGTTCGATAAACCAATGATAT
1 T--TGCGCCCAGCGCTAGTTGGATAAACCAACGATAT
* * * ** **
43562537 TTGTGTCCAGTGCTAGTCAGATAAACGGACGAAATAAT
1 TTGCGCCCAGCGCTAGTTGGATAAACCAACG--AT-AT
** * * *
43562575 TAGTTAGCCTAGCTCTAGTTGGATAAACCAATGATAT
1 T--TGCGCCCAGCGCTAGTTGGATAAACCAACGATAT
* *
43562612 TTGCGCCTAGCGCTAGTTAGATAAA-CAACGAAATAAT
1 TTGCGCCCAGCGCTAGTTGGATAAACCAACG--AT-AT
* *
43562649 TAGTGAGCCCAGCTCTAGTTGGATAAACCAACGATAT
1 T--TGCGCCCAGCGCTAGTTGGATAAACCAACGATAT
*
43562686 TTACGCCCAGCGCTAGT
1 TTGCGCCCAGCGCTAGT
43562703 CGAATAAATC
Statistics
Matches: 150, Mismatches: 40, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
34 4 0.03
35 53 0.35
36 2 0.01
37 15 0.10
38 9 0.06
39 43 0.29
40 24 0.16
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (35 bp):
TTGCGCCCAGCGCTAGTTGGATAAACCAACGATAT
Found at i:43566289 original size:25 final size:25
Alignment explanation
Indices: 43566261--43566310 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
43566251 GGAAACAGAA
43566261 ATGAAGTACGTTTTAAGAAACAACT
1 ATGAAGTACGTTTTAAGAAACAACT
43566286 ATGAAGTACGTTTTAAGAAACAACT
1 ATGAAGTACGTTTTAAGAAACAACT
43566311 TCCCAACTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (25 bp):
ATGAAGTACGTTTTAAGAAACAACT
Found at i:43580003 original size:561 final size:561
Alignment explanation
Indices: 43578941--43580062 Score: 2226
Period size: 561 Copynumber: 2.0 Consensus size: 561
43578931 CAGCAACAAA
43578941 CCATAAAAACAATTTTGTCATTGTCTAAACCTATTGGGGAAATGTTATGCAACCATTTTAAAGAC
1 CCATAAAAACAATTTTGTCATTGTCTAAACCTATTGGGGAAATGTTATGCAACCATTTTAAAGAC
* *
43579006 ACAAGCATGAAAATTAGCAAAAAAGAAAAAAGAAAGATGAATTGCCTGCGGGAAAGTTCCAGCAC
66 ACAAACATCAAAATTAGCAAAAAAGAAAAAAGAAAGATGAATTGCCTGCGGGAAAGTTCCAGCAC
43579071 TCGAACCCTTTTTGCCTGAGAATCATCAGAACAACCCAAAACAGCTAAAATCCCACACATTTTGT
131 TCGAACCCTTTTTGCCTGAGAATCATCAGAACAACCCAAAACAGCTAAAATCCCACACATTTTGT
43579136 TTCAATAATTAAACACTCCCAAAACACATTTCTTTTTAACAAGAAGTAGAGAAAAATAGAGGGCA
196 TTCAATAATTAAACACTCCCAAAACACATTTCTTTTTAACAAGAAGTAGAGAAAAATAGAGGGCA
43579201 GTATTTGAAGAAAAAGAAAGAGGAAGAAGATGAAAAGGAAGATATCTGAAGGGGGAAGGAAAGAG
261 GTATTTGAAGAAAAAGAAAGAGGAAGAAGATGAAAAGGAAGATATCTGAAGGGGGAAGGAAAGAG
43579266 AAGAGAGGAAAGAGAGGGGGAGTGTAAAAGGGGGAAGGCAAACACGTTGTTGTGTTTTCAAATAT
326 AAGAGAGGAAAGAGAGGGGGAGTGTAAAAGGGGGAAGGCAAACACGTTGTTGTGTTTTCAAATAT
43579331 CCATCACAACCTATTTATAGTTGCAAAATGTCTGGGGCACCTTTCAAACGGCGATGTTTCGTCGC
391 CCATCACAACCTATTTATAGTTGCAAAATGTCTGGGGCACCTTTCAAACGGCGATGTTTCGTCGC
43579396 TTCCTCGGGCCCACCTCTCCCATCACGCCACGTGTTCTTACTTGGTTTCGTCCCATCACTAACGG
456 TTCCTCGGGCCCACCTCTCCCATCACGCCACGTGTTCTTACTTGGTTTCGTCCCATCACTAACGG
43579461 GGCTTTATCCACTTCCATTGCTGACTCATCATCACCCCTCC
521 GGCTTTATCCACTTCCATTGCTGACTCATCATCACCCCTCC
43579502 CCATAAAAACAATTTTGTCATTGTCTAAACCTATTGGGGAAATGTTATGCAACCATTTTAAAGAC
1 CCATAAAAACAATTTTGTCATTGTCTAAACCTATTGGGGAAATGTTATGCAACCATTTTAAAGAC
43579567 ACAAACATCAAAATTAGCAAAAAAGAAAAAAGAAAGATGAATTGCCTGCGGGAAAGTTCCAGCAC
66 ACAAACATCAAAATTAGCAAAAAAGAAAAAAGAAAGATGAATTGCCTGCGGGAAAGTTCCAGCAC
43579632 TCGAACCCTTTTTGCCTGAGAATCATCAGAACAACCCAAAACAGCTAAAATCCCACACATTTTGT
131 TCGAACCCTTTTTGCCTGAGAATCATCAGAACAACCCAAAACAGCTAAAATCCCACACATTTTGT
43579697 TTCAATAATTAAACACTCCCAAAACACATTTCTTTTTAACAAGAAGTAGAGAAAAATAGAGGGCA
196 TTCAATAATTAAACACTCCCAAAACACATTTCTTTTTAACAAGAAGTAGAGAAAAATAGAGGGCA
43579762 GTATTTGAAGAAAAAGAAAGAGGAAGAAGATGAAAAGGAAGATATCTGAAGGGGGAAGGAAAGAG
261 GTATTTGAAGAAAAAGAAAGAGGAAGAAGATGAAAAGGAAGATATCTGAAGGGGGAAGGAAAGAG
43579827 AAGAGAGGAAAGAGAGGGGGAGTGTAAAAGGGGGAAGGCAAACACGTTGTTGTGTTTTCAAATAT
326 AAGAGAGGAAAGAGAGGGGGAGTGTAAAAGGGGGAAGGCAAACACGTTGTTGTGTTTTCAAATAT
43579892 CCATCACAACCTATTTATAGTTGCAAAATGTCTGGGGCACCTTTCAAACGGCGATGTTTCGTCGC
391 CCATCACAACCTATTTATAGTTGCAAAATGTCTGGGGCACCTTTCAAACGGCGATGTTTCGTCGC
43579957 TTCCTCGGGCCCACCTCTCCCATCACGCCACGTGTTCTTACTTGGTTTCGTCCCATCACTAACGG
456 TTCCTCGGGCCCACCTCTCCCATCACGCCACGTGTTCTTACTTGGTTTCGTCCCATCACTAACGG
43580022 GGCTTTATCCACTTCCATTGCTGACTCATCATCACCCCTCC
521 GGCTTTATCCACTTCCATTGCTGACTCATCATCACCCCTCC
43580063 TGTTTTTGGA
Statistics
Matches: 559, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
561 559 1.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (561 bp):
CCATAAAAACAATTTTGTCATTGTCTAAACCTATTGGGGAAATGTTATGCAACCATTTTAAAGAC
ACAAACATCAAAATTAGCAAAAAAGAAAAAAGAAAGATGAATTGCCTGCGGGAAAGTTCCAGCAC
TCGAACCCTTTTTGCCTGAGAATCATCAGAACAACCCAAAACAGCTAAAATCCCACACATTTTGT
TTCAATAATTAAACACTCCCAAAACACATTTCTTTTTAACAAGAAGTAGAGAAAAATAGAGGGCA
GTATTTGAAGAAAAAGAAAGAGGAAGAAGATGAAAAGGAAGATATCTGAAGGGGGAAGGAAAGAG
AAGAGAGGAAAGAGAGGGGGAGTGTAAAAGGGGGAAGGCAAACACGTTGTTGTGTTTTCAAATAT
CCATCACAACCTATTTATAGTTGCAAAATGTCTGGGGCACCTTTCAAACGGCGATGTTTCGTCGC
TTCCTCGGGCCCACCTCTCCCATCACGCCACGTGTTCTTACTTGGTTTCGTCCCATCACTAACGG
GGCTTTATCCACTTCCATTGCTGACTCATCATCACCCCTCC
Found at i:43581322 original size:30 final size:29
Alignment explanation
Indices: 43581288--43581355 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
43581278 AAATATTTTT
* *
43581288 AAAATTTTTAGAGATAGGACTAAATTGAAA
1 AAAATTTGTA-AGACAGGACTAAATTGAAA
*
43581318 AAAA-TTGTAAGACGGGACTAAATTGAAA
1 AAAATTTGTAAGACAGGACTAAATTGAAA
43581346 AAAA-TTGTAA
1 AAAATTTGTAA
43581356 ATACTAAGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 27 0.77
29 4 0.11
30 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.26
Consensus pattern (29 bp):
AAAATTTGTAAGACAGGACTAAATTGAAA
Found at i:43593133 original size:25 final size:25
Alignment explanation
Indices: 43593084--43593172 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
43593074 CGGGCACACC
*
43593084 ACAGCTTGCATGAGCTTCCCA-TTAT
1 ACAGCTCGCATGAGCTT-CCAGTTAT
*
43593109 ACAGCTCGCATGAGCTTCCTGTTAT
1 ACAGCTCGCATGAGCTTCCAGTTAT
* * *
43593134 TCAGCTCGGAGGAGCTTCCAGTT-T
1 ACAGCTCGCATGAGCTTCCAGTTAT
* *
43593158 ACAGTTCGTATGAGC
1 ACAGCTCGCATGAGC
43593173 ATATATGAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
24 14 0.26
25 39 0.74
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.30
Consensus pattern (25 bp):
ACAGCTCGCATGAGCTTCCAGTTAT
Found at i:43599578 original size:76 final size:76
Alignment explanation
Indices: 43599486--43599637 Score: 277
Period size: 76 Copynumber: 2.0 Consensus size: 76
43599476 TGCGTGAAGT
*
43599486 AGCTGATCATCTGCAAACTTTAGCAGTTCAGGCTGATCTATTAAGTTTGAAGTATGAGTTAGAGT
1 AGCTGATCATCTGCAAACTCTAGCAGTTCAGGCTGATCTATTAAGTTTGAAGTATGAGTTAGAGT
43599551 CCGACAGGGGC
66 CCGACAGGGGC
*
43599562 AGCTGATCATCTGCAAACTCTAGCGGTTCAGGCTGATCTATTAAGTTTGAAGTATGAGTTAGAGT
1 AGCTGATCATCTGCAAACTCTAGCAGTTCAGGCTGATCTATTAAGTTTGAAGTATGAGTTAGAGT
*
43599627 CGGACAGGGGC
66 CCGACAGGGGC
43599638 CGAGAGTTAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (76 bp):
AGCTGATCATCTGCAAACTCTAGCAGTTCAGGCTGATCTATTAAGTTTGAAGTATGAGTTAGAGT
CCGACAGGGGC
Found at i:43607110 original size:65 final size:65
Alignment explanation
Indices: 43607006--43607160 Score: 301
Period size: 65 Copynumber: 2.4 Consensus size: 65
43606996 GGGAACAAAA
43607006 GTGAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAAGGGAGACTTTGGAGAGGCTAAG
1 GTGAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAAGGGAGACTTTGGAGAGGCTAAG
43607071 GTGAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAAGGGAGACTTTGGAGAGGCTAAG
1 GTGAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAAGGGAGACTTTGGAGAGGCTAAG
*
43607136 GTGAAAACCCGTAAAGGGCACTTTG
1 GTGAAAACCCGTAAAGGGCGCTTTG
43607161 AGACCAAAGA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 89 1.00
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (65 bp):
GTGAAAACCCGTAAAGGGCGCTTTGCTTCCTAAAAAAAAAAAAGGGAGACTTTGGAGAGGCTAAG
Done.