Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 143 of 153
Found at i:44882035 original size:24 final size:24
Alignment explanation
Indices: 44881983--44882027 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
44881973 ATATAATTTC
44881983 ATTTTAATTTCA-TTTCATTTCCA
1 ATTTTAATTTCATTTTCATTTCCA
44882006 ATTTTAATTTCATTTTCATTTC
1 ATTTTAATTTCATTTTCATTTC
44882028 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTCATTTTCATTTCCA
Found at i:44882171 original size:27 final size:28
Alignment explanation
Indices: 44882141--44882204 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
44882131 TGTATTAATT
44882141 AATATATTTA-ATCAATTGTATAATTTG
1 AATATATTTATATCAATTGTATAATTTG
** * *
44882168 AATA-AAGTATGTCATTTGTATAATTTG
1 AATATATTTATATCAATTGTATAATTTG
*
44882195 TATATATTTA
1 AATATATTTA
44882205 CAATATTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
26 3 0.11
27 22 0.79
28 3 0.11
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (28 bp):
AATATATTTATATCAATTGTATAATTTG
Found at i:44890656 original size:24 final size:23
Alignment explanation
Indices: 44890614--44890660 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
44890604 ATCTAACATA
*
44890614 ATATATTATACTTATATTAATTAT
1 ATATATTATACTTAAATT-ATTAT
44890638 ATATATTAT-CTATAAATTATTAT
1 ATATATTATACT-TAAATTATTAT
44890661 GGTCAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATTATACTTAAATTATTAT
Found at i:44890962 original size:26 final size:26
Alignment explanation
Indices: 44890926--44890981 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
44890916 CTTTAATTAT
** *
44890926 AATTTTAAAATTGATTATTATATTTG
1 AATTTTAAAATAAATTAATATATTTG
* *
44890952 AATTTTTAAATAAATTAATATATTTT
1 AATTTTAAAATAAATTAATATATTTG
44890978 AATT
1 AATT
44890982 ATGTTCAGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (26 bp):
AATTTTAAAATAAATTAATATATTTG
Found at i:44891478 original size:14 final size:15
Alignment explanation
Indices: 44891459--44891488 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44891449 GTTGTTTAAA
44891459 TTTTAAAA-TATATT
1 TTTTAAAATTATATT
44891473 TTTTAAAATTATATT
1 TTTTAAAATTATATT
44891488 T
1 T
44891489 AGAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTAAAATTATATT
Found at i:44893615 original size:18 final size:20
Alignment explanation
Indices: 44893581--44893617 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
44893571 AAACGACAAT
44893581 AAAACAATGGCAAAACAACA
1 AAAACAATGGCAAAACAACA
44893601 AAAACAAT-G-AAAACAAC
1 AAAACAATGGCAAAACAAC
44893618 GGCAAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.68, C:0.19, G:0.08, T:0.05
Consensus pattern (20 bp):
AAAACAATGGCAAAACAACA
Found at i:44895995 original size:26 final size:28
Alignment explanation
Indices: 44895966--44896030 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 28
44895956 TTAGTAATAT
*
44895966 AAAATAATATGTA-CA-TAAGATAAC-A
1 AAAATAATATATACCACTAAGATAACTA
*
44895991 AAAA-AATATATACCACTAATATAACATA
1 AAAATAATATATACCACTAAGATAAC-TA
44896019 AAAATACATATA
1 AAAATA-ATATA
44896031 CAATTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
24 7 0.22
25 6 0.19
26 8 0.25
28 5 0.16
29 1 0.03
30 5 0.16
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.25
Consensus pattern (28 bp):
AAAATAATATATACCACTAAGATAACTA
Found at i:44896038 original size:28 final size:26
Alignment explanation
Indices: 44895985--44896039 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
44895975 TGTACATAAG
* *
44895985 ATAACAAAAAAATATATACCACTAAT
1 ATAACAAAAAAACATATACAACTAAT
*
44896011 ATAACATAAAAATACATATACAATTAAT
1 ATAACA-AAAAA-ACATATACAACTAAT
44896039 A
1 A
44896040 ATATGAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 5 0.21
28 13 0.54
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (26 bp):
ATAACAAAAAAACATATACAACTAAT
Found at i:44896446 original size:25 final size:25
Alignment explanation
Indices: 44896387--44896446 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
44896377 TATGTAGTAC
*
44896387 ATATTAAAAG-AATACATATAATAT
1 ATATTAAAAGAAAAACATATAATAT
** *
44896411 ATATTTCAAGAAAAAGATAATAATA-
1 ATATTAAAAGAAAAACAT-ATAATAT
44896436 ATATTAAAAGA
1 ATATTAAAAGA
44896447 GTAACTATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (25 bp):
ATATTAAAAGAAAAACATATAATAT
Found at i:44898659 original size:10 final size:10
Alignment explanation
Indices: 44898644--44898674 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
44898634 CTAATAATGT
44898644 AAGTTAAGCA
1 AAGTTAAGCA
44898654 AAGTTAAGCA
1 AAGTTAAGCA
*
44898664 AAGTCAAGCA
1 AAGTTAAGCA
44898674 A
1 A
44898675 GTCCACCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.16
Consensus pattern (10 bp):
AAGTTAAGCA
Found at i:44899599 original size:50 final size:50
Alignment explanation
Indices: 44899544--44899642 Score: 153
Period size: 50 Copynumber: 2.0 Consensus size: 50
44899534 CACCAATTAA
* * * *
44899544 TCCTAAACCCTAAATCGTAAAATAGAAACTCTAAACCCCTAACTCCTATC
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTATC
*
44899594 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCTTAACCCCTAT
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTAT
44899643 TTTACAATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.42, C:0.32, G:0.02, T:0.23
Consensus pattern (50 bp):
TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCCTATC
Found at i:44899770 original size:21 final size:21
Alignment explanation
Indices: 44899723--44899790 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
44899713 CCCCGAATAT
* * *
44899723 CTAAACCCTAAATCACTAACTC
1 CTAACCCCTAACT-ACTAACCC
* *
44899745 TTAACCTCTAACATA-TAACCC
1 CTAACCCCTAAC-TACTAACCC
*
44899766 CTAACCCCTGACTACTAACCC
1 CTAACCCCTAACTACTAACCC
44899787 CTAA
1 CTAA
44899791 ACCTTATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
20 2 0.06
21 24 0.67
22 9 0.25
23 1 0.03
ACGTcount: A:0.37, C:0.38, G:0.01, T:0.24
Consensus pattern (21 bp):
CTAACCCCTAACTACTAACCC
Found at i:44900485 original size:22 final size:21
Alignment explanation
Indices: 44900414--44900512 Score: 60
Period size: 22 Copynumber: 4.6 Consensus size: 21
44900404 ACCCCTGAAT
* *
44900414 CCTTAAACCTTAAATCTCT-AA
1 CCTTAAACCCT-AACCTCTAAA
* *
44900435 CTCTTAAACCCTAACATCTAAT
1 C-CTTAAACCCTAACCTCTAAA
* *
44900457 CCCTAAACCCCTGACCTCTAAA
1 CCTTAAA-CCCTAACCTCTAAA
44900479 CCTTAAATCCC-AACC-CTTAAA
1 CCTTAAA-CCCTAACCTC-TAAA
* *
44900500 CCATAAACGCTAA
1 CCTTAAACCCTAA
44900513 TCCATAATCC
Statistics
Matches: 60, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
20 3 0.05
21 26 0.43
22 31 0.52
ACGTcount: A:0.37, C:0.35, G:0.02, T:0.25
Consensus pattern (21 bp):
CCTTAAACCCTAACCTCTAAA
Found at i:44900531 original size:15 final size:15
Alignment explanation
Indices: 44900511--44900542 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44900501 CATAAACGCT
44900511 AATCCATAATCCCTA
1 AATCCATAATCCCTA
*
44900526 AATCCATACTCCCTA
1 AATCCATAATCCCTA
44900541 AA
1 AA
44900543 CATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (15 bp):
AATCCATAATCCCTA
Found at i:44900771 original size:15 final size:15
Alignment explanation
Indices: 44900743--44900798 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
44900733 CCTAACACGT
*
44900743 CTAACCCCTAAACCC
1 CTAACCCTTAAACCC
*
44900758 CTAACCCTTTAACCC
1 CTAACCCTTAAACCC
* * *
44900773 CGAAACCTTAAATCC
1 CTAACCCTTAAACCC
44900788 C-AACCCTTAAA
1 CTAACCCTTAAA
44900799 TCATAATCCC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
14 9 0.26
15 25 0.74
ACGTcount: A:0.36, C:0.43, G:0.02, T:0.20
Consensus pattern (15 bp):
CTAACCCTTAAACCC
Found at i:44901185 original size:41 final size:41
Alignment explanation
Indices: 44901123--44901309 Score: 250
Period size: 41 Copynumber: 4.6 Consensus size: 41
44901113 TTCTAGTGGT
* *
44901123 GCTTGTTCAAAAACGCCGCTAAAGACCAGAACATTAGCGGC
1 GCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGC
* *
44901164 GCTTCTTCAAAAACGCCGCTAAAGACCAGAGCTTTAGCTGC
1 GCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGC
*
44901205 GCTTATTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGC
1 GCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGC
* * ** * *
44901246 GCTTCTTCAGAAACGCCGCTAATG-CTTGGGTCTTTAGCGGC
1 GCTTCTTCAAAAACGCCGCTAAAGACCAGAG-CATTAGCGGC
*
44901287 GCTTCTTAAAAAACGCCGCTAAA
1 GCTTCTTCAAAAACGCCGCTAAA
44901310 TCCCAAAAAA
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 3 0.02
41 125 0.98
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (41 bp):
GCTTCTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGC
Found at i:44901432 original size:40 final size:38
Alignment explanation
Indices: 44901367--44901442 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 38
44901357 ACGCTTTTTG
*
44901367 GAAAACGCCGCTAATGCTCATTTTTAGAGGCGTTTTCA
1 GAAAACGCCGCTAATACTCATTTTTAGAGGCGTTTTCA
* *
44901405 GAAAAGCGTCGCTAATACTCGATTTTTAGCGGCGTTTT
1 GAAAA-CGCCGCTAATACTC-ATTTTTAGAGGCGTTTT
44901443 TTAGATAGCG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 12 0.36
40 16 0.48
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (38 bp):
GAAAACGCCGCTAATACTCATTTTTAGAGGCGTTTTCA
Found at i:44903338 original size:114 final size:114
Alignment explanation
Indices: 44903076--44903637 Score: 419
Period size: 114 Copynumber: 4.9 Consensus size: 114
44903066 GAAGCGCCAT
* * **
44903076 AAAATTTTTGACCAAAATGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACTTGA
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACACGA
* * * *
44903141 AAACACCGCTATATCTCGCAATTAGCGACGC-TCTACTAAAAAACG-C-C
66 AAACGCCGCTATATCTAGCAATTAGCGGCGCTTCTACT-AAAAGCGTCGC
* * * * * * * * *
44903188 AAAAAATTTTAAACCGAAATGCAACGTTTCGTCTTGAGCTATAGTGCCGTTAGCGGCGCTTACAC
1 -AAAAATTTT-GACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACAC
* ** * * *
44903253 GAAAACGCCGCTATATATTAGCTTTTAGTGGTGCTTCTACT-GAAGCGTCGC
64 GAAAACGCCGCTATAT-CTAGCAATTAGCGGCGCTTCTACTAAAAGCGTCGC
* * **
44903304 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCATTAGTGGCGCTTACTTGA
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACACGA
* ** * *
44903369 AAATGTTGCTATATCTCGCAATTAGCGGCGCTTAACTA-AAAAATGC-T-G-
66 AAACGCCGCTATATCTAGCAATTAGCGGCGCTT--CTACTAAAA-GCGTCGC
* * * * * ** * * * * * *
44903417 AAACATTTTAAACCGAAACGCAACGTTTCATCTTTAGCTATAGCGCCGTTAGAGGCGCTTACCCG
1 AAAAATTTT-GACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACACG
* ** * * * * *
44903482 AAAACGCCGCTATATATTAGCTTTTAGTGGCGCTTCCA-TAGAGGCGACGC
65 AAAACGCCGCTATAT-CTAGCAATTAGCGGCGCTTCTACTAAAAGCGTCGC
* * *
44903532 AAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCGTTAGCGACGCTTACTA-T
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTAC-ACG
* *
44903596 AAAACGCCGCTATATCCCA-CAATTAGCGGCGCTT-AACTAAAA
65 AAAACGCCGCTATAT-CTAGCAATTAGCGGCGCTTCTACTAAAA
44903638 AACACTGGAA
Statistics
Matches: 337, Mismatches: 96, Indels: 32
0.72 0.21 0.07
Matches are distributed among these distances:
112 3 0.01
113 48 0.14
114 229 0.68
115 48 0.14
116 9 0.03
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.27
Consensus pattern (114 bp):
AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACACGA
AAACGCCGCTATATCTAGCAATTAGCGGCGCTTCTACTAAAAGCGTCGC
Found at i:44903478 original size:228 final size:226
Alignment explanation
Indices: 44903076--44903692 Score: 889
Period size: 228 Copynumber: 2.7 Consensus size: 226
44903066 GAAGCGCCAT
* *
44903076 AAAATTTTTGACCAAAATGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACTTGA
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACTTGA
* * **
44903141 AAACACCGCTATATCTCGCAATTAGCGACGCTCT-ACTAAAAAACGCCAAAAAATTTTAAACCGA
66 AAACGCCGCTATATCTCGCAATTAGCGGCGCT-TAACTAAAAAACG-CTGAAAATTTTAAACCGA
* *
44903205 AATGCAACGTTTCGTCTTGAGCTATAGTGCCGTTAGCGGCGCTTACACGAAAACGCCGCTATATA
129 AA-GCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGAGGCGCTTACACGAAAACGCCGCTATATA
* * *
44903270 TTAGCTTTTAGTGGTGCTTCTACT-GAAGCGTCGC
193 TTAGCTTTTAGTGGCGCTTCCA-TAGAAGCGACGC
* *
44903304 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCATTAGTGGCGCTTACTTGA
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACTTGA
* ** *
44903369 AAATGTTGCTATATCTCGCAATTAGCGGCGCTTAACTAAAAAATGCTGAAACATTTTAAACCGAA
66 AAACGCCGCTATATCTCGCAATTAGCGGCGCTTAACTAAAAAACGCTGAAA-ATTTTAAACCGAA
* * *
44903434 ACGCAACGTTTCATCTTTAGCTATAGCGCCGTTAGAGGCGCTTACCCGAAAACGCCGCTATATAT
130 A-GCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGAGGCGCTTACACGAAAACGCCGCTATATAT
*
44903499 TAGCTTTTAGTGGCGCTTCCATAGAGGCGACGC
194 TAGCTTTTAGTGGCGCTTCCATAGAAGCGACGC
* *
44903532 AAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCGTTAGCGACGCTTACTAT-
1 AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACT-TG
* * * *
44903596 AAAACGCCGCTATATCCCACAATTAGCGGCGCTTAACTAAAAAACACTGGAAAACTTTAAACCGA
65 AAAACGCCGCTATATCTCGCAATTAGCGGCGCTTAACTAAAAAACGCT-GAAAATTTTAAACCGA
44903661 AAGTCAACGTTTCGTCTTGAGCTATAGCGCCG
129 AAG-CAACGTTTCGTCTTGAGCTATAGCGCCG
44903693 CAAAAATTTT
Statistics
Matches: 347, Mismatches: 36, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
227 7 0.02
228 335 0.97
229 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (226 bp):
AAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGAGGCGTTAGCGGCGCTTACTTGA
AAACGCCGCTATATCTCGCAATTAGCGGCGCTTAACTAAAAAACGCTGAAAATTTTAAACCGAAA
GCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGAGGCGCTTACACGAAAACGCCGCTATATATTA
GCTTTTAGTGGCGCTTCCATAGAAGCGACGC
Found at i:44904183 original size:13 final size:14
Alignment explanation
Indices: 44904161--44904193 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
44904151 CAAAGATATA
44904161 GTTTAGGA-TTATG
1 GTTTAGGATTTATG
*
44904174 GTTTATGATTTATG
1 GTTTAGGATTTATG
44904188 GTTTAG
1 GTTTAG
44904194 ACTTTAGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
GTTTAGGATTTATG
Found at i:44904407 original size:20 final size:20
Alignment explanation
Indices: 44904382--44904419 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44904372 TAGAGTTTAA
*
44904382 GGTTTACAGTTTGGGGTTAT
1 GGTTTACAGTTTAGGGTTAT
*
44904402 GGTTTATAGTTTAGGGTT
1 GGTTTACAGTTTAGGGTT
44904420 TAAGATTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (20 bp):
GGTTTACAGTTTAGGGTTAT
Found at i:44904434 original size:34 final size:34
Alignment explanation
Indices: 44904368--44904434 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
44904358 TTAATTGATG
*
44904368 GGTTTAGAGTTTAAGGTTTACAGTTTGGGGTTAT
1 GGTTTAGAGTTTAAGGTTTACAGTTTAGGGTTAT
* * *
44904402 GGTTTATAGTTTAGGGTTTA-AGATTTATGGTTA
1 GGTTTAGAGTTTAAGGTTTACAG-TTTAGGGTTA
44904435 CGGCTTACAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 26 0.93
ACGTcount: A:0.22, C:0.01, G:0.30, T:0.46
Consensus pattern (34 bp):
GGTTTAGAGTTTAAGGTTTACAGTTTAGGGTTAT
Found at i:44904697 original size:21 final size:21
Alignment explanation
Indices: 44904668--44904711 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44904658 ACACCAAAAC
* *
44904668 AGGCTTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGACACTTTTT
*
44904689 AGGCCTTTAGCGACGCTTTTT
1 AGGCCTTTAGCGACACTTTTT
44904710 AG
1 AG
44904712 CGCCGCAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCCTTTAGCGACACTTTTT
Found at i:44904945 original size:43 final size:43
Alignment explanation
Indices: 44904887--44904968 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
44904877 CGCTTTAGTG
**
44904887 GAAGCGCCGCTAAAGACCCTGATCTTTAGCGACGTTTTTGGGA
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTTGGGA
* * * *
44904930 GAAGTGCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTT
1 GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTT
44904969 CTCTCAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
GAAGCGCCGCTAAAGACCAGGATCTTTAGCGACGTTTTTGGGA
Found at i:44905042 original size:86 final size:85
Alignment explanation
Indices: 44904952--44905201 Score: 247
Period size: 86 Copynumber: 2.9 Consensus size: 85
44904942 AAGATCAGGG
* *
44904952 TCTTTAGCGGCGTTTTTCTCTCAAAAGCCGCAATAGACCTTGATCTATAACGGCGCTTCGACCAC
1 TCTTTAGCGGCGTTTTTC-CTCAAACGCCGCAATAGACCTTGATCTATAGCGGCGCTTCGACCAC
*
44905017 AAACGCCACTATAGAACC-TAA
65 AAACGCCACTAAAG-ACCATAA
** * * * *
44905038 TCTTTAGCGGCGCTTTCCCCTCAAACGTCGCAATAGACCCTGATCTATAGCGGCACTTTC-CCCA
1 TCTTTAGCGGCG-TTTTTCCTCAAACGCCGCAATAGACCTTGATCTATAGCGGCGC-TTCGACCA
* *
44905102 CAAACGCCGCTAAAGACCATGA
64 CAAACGCCACTAAAGACCATAA
* * * * * *
44905124 TCTTTAGTGGTGCTTTTTCCACAAACGCCGCTAA-AGACCCTT-ATCTTTAGTGGCGCTTTGACC
1 TCTTTAGCGGCG-TTTTTCCTCAAACGCCGC-AATAGA-CCTTGATCTATAGCGGCGCTTCGACC
*
44905187 AAAAACGCCACTAAA
63 ACAAACGCCACTAAA
44905202 TTTGGCAGAT
Statistics
Matches: 133, Mismatches: 25, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
85 5 0.04
86 116 0.87
87 12 0.09
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (85 bp):
TCTTTAGCGGCGTTTTTCCTCAAACGCCGCAATAGACCTTGATCTATAGCGGCGCTTCGACCACA
AACGCCACTAAAGACCATAA
Found at i:44905050 original size:43 final size:42
Alignment explanation
Indices: 44904992--44905201 Score: 145
Period size: 43 Copynumber: 4.9 Consensus size: 42
44904982 CAATAGACCT
* * * *
44904992 TGATCTATAACGGCGCTTCGACCACAAACGCCACTATAGAACC
1 TGATCTTTAGCGGCGCTTC-ACCACAAACGCCGCTAAAGAACC
* * * * *
44905035 TAATCTTTAGCGGCGCTTTCCCCTCAAACGTCGC-AATAGACCC
1 TGATCTTTAGCGGCGC-TTCACCACAAACGCCGCTAA-AGAACC
* * *
44905078 TGATCTATAGCGGCACTTTCCCCACAAACGCCGCTAAAG-ACC
1 TGATCTTTAGCGGCGC-TTCACCACAAACGCCGCTAAAGAACC
* * ** *
44905120 ATGATCTTTAGTGGTGCTTTTTCCACAAACGCCGCTAAAGACCC
1 -TGATCTTTAGCGGCGC-TTCACCACAAACGCCGCTAAAGAACC
* * * * *
44905164 TTATCTTTAGTGGCGCTTTGACCAAAAACGCCACTAAA
1 TGATCTTTAGCGGCGC-TTCACCACAAACGCCGCTAAA
44905202 TTTGGCAGAT
Statistics
Matches: 134, Mismatches: 28, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
42 3 0.02
43 124 0.93
44 7 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (42 bp):
TGATCTTTAGCGGCGCTTCACCACAAACGCCGCTAAAGAACC
Found at i:44905569 original size:21 final size:21
Alignment explanation
Indices: 44905509--44905578 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
44905499 TTTGACGCTG
* *
44905509 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* *
44905530 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
44905551 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
44905572 ATCTGCT
1 CTCTGCT
44905579 CTAAGCTGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.04, C:0.43, G:0.19, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCCGC
Found at i:44905633 original size:65 final size:66
Alignment explanation
Indices: 44905550--44905695 Score: 197
Period size: 65 Copynumber: 2.2 Consensus size: 66
44905540 CTCGCTGCCG
* * *
44905550 CCTCTGCTTCTCTTGCTGCCGCATCTGCTCTAAGCTGTTGCTGGAGTTCTTCATA-CTTTCATTG
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTT-ATTG
44905614 AA
65 AA
* * * *
44905616 CCT-AGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTTTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
44905680 A
66 A
*
44905681 CCTCAACTTCTCTCG
1 CCTCAGCTTCTCTCG
44905696 ATGTTACCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
65 53 0.76
66 17 0.24
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTCTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGA
A
Found at i:44907590 original size:41 final size:40
Alignment explanation
Indices: 44907533--44907613 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 40
44907523 GCCCATGTCA
*
44907533 AACAAGTCTCTAGGGATGTTACGGAGTACAACGTACCAAC
1 AACAAGTCTCTAGGGATGTTACAGAGTACAACGTACCAAC
44907573 NAACAAGTCTCTAGGGATGTTACAGAGTACAACGTACCAAC
1 -AACAAGTCTCTAGGGATGTTACAGAGTACAACGTACCAAC
44907614 CCTCATCAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.20
Consensus pattern (40 bp):
AACAAGTCTCTAGGGATGTTACAGAGTACAACGTACCAAC
Found at i:44911220 original size:16 final size:16
Alignment explanation
Indices: 44911199--44911315 Score: 67
Period size: 16 Copynumber: 7.8 Consensus size: 16
44911189 ACTAAGCTAC
44911199 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
44911215 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
44911231 G-AA---A---ATTAT
1 GTAAGTTATGTATTAT
*
44911240 GTAAGTTGTGTATTA-
1 GTAAGTTATGTATTAT
* *
44911255 GTCAAATTATG--CTAT
1 GT-AAGTTATGTATTAT
44911270 GTAAGTTATGTATGTCAT
1 GTAAGTTATGTAT-T-AT
* *
44911288 ATAAGTTATGTAAGT-T
1 GTAAGTTATGT-ATTAT
44911304 GTAAGTTATGTA
1 GTAAGTTATGTA
44911316 AGTTATTTAT
Statistics
Matches: 77, Mismatches: 10, Indels: 29
0.66 0.09 0.25
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 9 0.12
15 7 0.09
16 37 0.48
17 1 0.01
18 13 0.17
19 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:44911261 original size:25 final size:25
Alignment explanation
Indices: 44911210--44911282 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
44911200 TAAGTTATGT
*
44911210 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
44911235 ATTATGTAAGTTGTGTATTAGTCAAA
1 ATTATGTAAGTTATGTATTA-TGAAA
44911261 TTATGCTATGTAAGTTATGTAT
1 --AT--TATGTAAGTTATGTAT
44911283 GTCATATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
28 2 0.05
30 15 0.38
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:44911279 original size:9 final size:9
Alignment explanation
Indices: 44911267--44911669 Score: 84
Period size: 9 Copynumber: 46.7 Consensus size: 9
44911257 CAAATTATGC
44911267 TATGTAAGT
1 TATGTAAGT
*
44911276 TATGTATGT
1 TATGTAAGT
* *
44911285 CATATAAGT
1 TATGTAAGT
44911294 TATGTAAG-
1 TATGTAAGT
44911302 T-TGTAAGT
1 TATGTAAGT
44911310 TATGTAAGT
1 TATGTAAGT
*
44911319 TAT-TTA-T
1 TATGTAAGT
* *
44911326 TATGAAAAT
1 TATGTAAGT
*
44911335 TAAGTAAGT
1 TATGTAAGT
*
44911344 TATGTAATT
1 TATGTAAGT
*
44911353 TACG-AA-T
1 TATGTAAGT
* **
44911360 AAT-TAAAAA
1 TATGT-AAGT
*
44911369 AATGTAAGT
1 TATGTAAGT
44911378 TATGTAAG-
1 TATGTAAGT
44911386 T-TGTAAGT
1 TATGTAAGT
*
44911394 TATGTATA-A
1 TATGTA-AGT
44911403 TAT-TAA-T
1 TATGTAAGT
** *
44911410 TAACTAACT
1 TATGTAAGT
*
44911419 TATGTAATT
1 TATGTAAGT
* *
44911428 TAAGTATAATAT
1 T-A-TGTAA-GT
44911440 TAATGTAAGT
1 T-ATGTAAGT
*
44911450 TATGTATA-A
1 TATGTA-AGT
44911459 TAT-TAA-T
1 TATGTAAGT
***
44911466 TAACAAAGT
1 TATGTAAGT
*
44911475 TATGTAATT
1 TATGTAAGT
*
44911484 TATGTATA-A
1 TATGTA-AGT
44911493 TAT-TAATGT
1 TATGTAA-GT
*
44911502 AAT-T-AGT
1 TATGTAAGT
*
44911509 TATGTAATT
1 TATGTAAGT
44911518 TATGT-A--
1 TATGTAAGT
44911524 TAT-TAA-T
1 TATGTAAGT
44911531 TAAT-TAAGT
1 T-ATGTAAGT
*
44911540 TATGTAATT
1 TATGTAAGT
*
44911549 TATGTATAATAT
1 TATG--TAA-GT
44911561 TAATGTAAGT
1 T-ATGTAAGT
*
44911571 TATGTAATT
1 TATGTAAGT
44911580 TATGAATAA-T
1 TATG--TAAGT
*
44911590 TA--TAA-A
1 TATGTAAGT
*
44911596 AATGTAAGT
1 TATGTAAGT
44911605 TATGTAAG-
1 TATGTAAGT
44911613 T-TGTAAGT
1 TATGTAAGT
44911621 TATGTAAGT
1 TATGTAAGT
*
44911630 TATGTATA-A
1 TATGTA-AGT
44911639 TAT-TAA-T
1 TATGTAAGT
44911646 TAAT-TAAGT
1 T-ATGTAAGT
*
44911655 TATGTAATT
1 TATGTAAGT
44911664 TATGTA
1 TATGTA
44911670 TAATATTAAT
Statistics
Matches: 295, Mismatches: 55, Indels: 88
0.67 0.13 0.20
Matches are distributed among these distances:
5 1 0.00
6 8 0.03
7 38 0.13
8 46 0.16
9 163 0.55
10 13 0.04
11 17 0.06
12 6 0.02
13 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:44911445 original size:22 final size:22
Alignment explanation
Indices: 44911420--44911465 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
44911410 TAACTAACTT
*
44911420 ATGTAATTTAAGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
*
44911442 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTAAGTATAATATTA
44911464 AT
1 AT
44911466 TAACAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (22 bp):
ATGTAAGTTAAGTATAATATTA
Found at i:44911449 original size:56 final size:56
Alignment explanation
Indices: 44911387--44911871 Score: 526
Period size: 56 Copynumber: 8.2 Consensus size: 56
44911377 TTATGTAAGT
* * *
44911387 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
**
44911443 TGTAAGTTATGTATAATATTAATTAACAAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
44911499 TGTAATTAGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGT-A--AGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* * *** * **
44911564 TGTAAGTTATGTA-ATTTATGAA-TAATTATAAAAATGTAAGTTATGTAAGTTGTAAGTT-A
1 TGTAAGTTATGTATA-ATATTAATTAATTA-AGTTATGTAATTTATGT-A-TAAT-A-TTAA
44911623 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
* ** * *
44911679 TGTAAGCAATGTAATTTATGTGTAATAATTAATTAAGTTATGTAATTTATGTATAATACTAA
1 TGTAAG---T-T-ATGTAT-AATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
44911741 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAA
1 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
44911797 TGTAAATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
1 TG----T--AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
*
44911859 TGTAACTTATGTA
1 TGTAAGTTATGTA
44911872 ATCTATGTAT
Statistics
Matches: 366, Mismatches: 34, Indels: 58
0.80 0.07 0.13
Matches are distributed among these distances:
55 8 0.02
56 131 0.36
57 9 0.02
58 6 0.02
59 43 0.12
60 12 0.03
61 6 0.02
62 108 0.30
64 1 0.00
65 42 0.11
ACGTcount: A:0.41, C:0.01, G:0.12, T:0.46
Consensus pattern (56 bp):
TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:44911487 original size:34 final size:34
Alignment explanation
Indices: 44911442--44911589 Score: 186
Period size: 31 Copynumber: 4.5 Consensus size: 34
44911432 TATAATATTA
* *
44911442 ATGTAAGTTATGTATAATATTAAT-TAACAAAGTT
1 ATGTAATTTATGTATAATATTAATGTAA-TAAGTT
*
44911476 ATGTAATTTATGTATAATATTAATGTAATTAGTT
1 ATGTAATTTATGTATAATATTAATGTAATAAGTT
44911510 ATGTAATTTATG--T-ATATTAAT-TAATTAAGTT
1 ATGTAATTTATGTATAATATTAATGTAA-TAAGTT
44911541 ATGTAATTTATGTATAATATTAATG---TAAGTT
1 ATGTAATTTATGTATAATATTAATGTAATAAGTT
*
44911572 ATGTAATTTATGAATAAT
1 ATGTAATTTATGTATAAT
44911590 TATAAAAATG
Statistics
Matches: 103, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
30 3 0.03
31 48 0.47
32 1 0.01
33 1 0.01
34 47 0.46
35 3 0.03
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (34 bp):
ATGTAATTTATGTATAATATTAATGTAATAAGTT
Found at i:44911501 original size:22 final size:22
Alignment explanation
Indices: 44911474--44911576 Score: 76
Period size: 22 Copynumber: 4.7 Consensus size: 22
44911464 ATTAACAAAG
44911474 TTATGTAATTTATGTA-TAATA
1 TTATGTAATTTATGTATTAATA
44911495 TTAATGTAA-TTA-GTTATGTAAT-
1 TT-ATGTAATTTATG-TAT-TAATA
* *
44911517 TTATGTATATTAAT-TAATTAA-G
1 TTATGTA-ATTTATGT-ATTAATA
44911539 TTATGTAATTTATGTA-TAATA
1 TTATGTAATTTATGTATTAATA
*
44911560 TTAATGTAAGTTATGTA
1 TT-ATGTAATTTATGTA
44911577 ATTTATGAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
20 4 0.06
21 20 0.30
22 34 0.52
23 8 0.12
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
TTATGTAATTTATGTATTAATA
Found at i:44911530 original size:31 final size:31
Alignment explanation
Indices: 44911458--44911894 Score: 176
Period size: 31 Copynumber: 14.5 Consensus size: 31
44911448 GTTATGTATA
**
44911458 ATATTAATTAACAAAGTTATGTAATTTATGTAT
1 ATATTAATTAATTAAGTTATGTAATTTATG--T
44911491 AATATTAATGTAATT-AGTTATGTAATTTATGT
1 -ATATTAAT-TAATTAAGTTATGTAATTTATGT
44911523 ATATTAATTAATTAAGTTATGTAATTTATGT
1 ATATTAATTAATTAAGTTATGTAATTTATGT
*
44911554 ATAAT-ATTAATGTAAGTTATGTAATTTATG-
1 ATATTAATTAAT-TAAGTTATGTAATTTATGT
** *
44911584 A-A-TAATT-A-TAA-AAATGTAAGTTATGT
1 ATATTAATTAATTAAGTTATGTAATTTATGT
44911610 A-AGTTGTAAGTT-ATGTAAGTTATGTATAATATTAAT-T
1 ATA--T-TAA-TTAAT-TAAGTTATG--TAAT-TT-ATGT
* *
44911647 A-ATTAAGTT-ATGTAATTTATGT-ATAATAT-T
1 ATATTAA-TTAAT-TAAGTTATGTAAT-TTATGT
** * * *
44911677 A-ATGTAAGCAATGTAATTTATG---TGTA-AT
1 ATAT-TAATTAAT-TAAGTTATGTAATTTATGT
44911705 A-ATTAATTAAGTT-A-T---GTAATTTATGT
1 ATATTAATTAA-TTAAGTTATGTAATTTATGT
* *
44911731 ATAAT-ACTAATGTAAGTTATGT-A--TA---
1 ATATTAATTAAT-TAAGTTATGTAATTTATGT
*
44911756 ATATTAATTAATTAAGTTATGTAATTTAAGT
1 ATATTAATTAATTAAGTTATGTAATTTATGT
* * *
44911787 ATAAT-ATTAATGTAA---ATGCAAGTTATGTAT
1 ATATTAATTAAT-TAAGTTATGTAATTTATG--T
44911817 AATATTAATTAATTAAGTTATGTAATTTATGT
1 -ATATTAATTAATTAAGTTATGTAATTTATGT
* * *
44911849 ATAAT-ATTAATGTAACTTATGTAATCTATGT
1 ATATTAATTAAT-TAAGTTATGTAATTTATGT
44911880 ATATTAATTAATTAA
1 ATATTAATTAATTAA
44911895 ATGATATGTA
Statistics
Matches: 321, Mismatches: 33, Indels: 101
0.71 0.07 0.22
Matches are distributed among these distances:
22 1 0.00
25 30 0.09
26 19 0.06
27 9 0.03
28 23 0.07
29 5 0.02
30 35 0.11
31 113 0.35
32 15 0.05
33 3 0.01
34 54 0.17
35 4 0.01
36 3 0.01
37 5 0.02
38 2 0.01
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (31 bp):
ATATTAATTAATTAAGTTATGTAATTTATGT
Found at i:44911619 original size:16 final size:16
Alignment explanation
Indices: 44911598--44911630 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44911588 ATTATAAAAA
44911598 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
44911614 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
44911630 T
1 T
44911631 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:44911621 original size:50 final size:50
Alignment explanation
Indices: 44911564--44911661 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
44911554 ATAATATTAA
*
44911564 TGTAAGTTATGTAATTTATGAATAAT-TATAA-AAATGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGAATAATAT-TAATAAAT-TAAGTTATGTAAGT
* *
44911614 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAA
44911662 TTTATGTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 39 0.91
51 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (50 bp):
TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAAGT
Found at i:44911641 original size:180 final size:180
Alignment explanation
Indices: 44911387--44911894 Score: 653
Period size: 180 Copynumber: 2.9 Consensus size: 180
44911377 TTATGTAAGT
* * *** *
44911387 TGTAAGTTATGTATAATATTAATTAACTAACTTATGTAATTTAAGTAT-A-A-T-AT-T-AATGT
1 TGTAAGTTATGTATAATATGAATTAATTAAAAAATGTAAGTTAAGTATAATATTAATGTAAATGT
**
44911446 AAGTTATGTATAATATTAATTAACAAAGTTATGTAATTTATGTATAATATTAATGTAATTAGTTA
66 AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGT-A--AGTTA
*
44911511 TGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
128 TGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATACTAA
* * * *
44911564 TGTAAGTTATGTA-ATTTATGAA-TAATTATAAAAATGTAAGTTATGTA-AGT-TGTAA-GT-TA
1 TGTAAGTTATGTATA-ATATGAATTAATTA-AAAAATGTAAGTTAAGTATAATAT-TAATGTAAA
**
44911623 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGCAA
63 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
* *
44911688 TGTAATTTATGTGTAATAATTAATTAAGTTATGTAATTTATGTATAATACTAA
128 TGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATACTAA
* *** * *
44911741 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAATGC
1 TGTAAGTTATGTATAATATGAATTAATTAAAAAATGTAAGTTAAGTATAATATTAATGTAAATGT
*
44911806 AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAACTTATGT
66 AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
*
44911871 AATCTATGTATATTAATTAATTAA
131 AATTTATGTATATTAATTAATTAA
44911895 ATGATATGTA
Statistics
Matches: 284, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
176 6 0.02
177 115 0.40
178 12 0.04
179 5 0.02
180 146 0.51
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (180 bp):
TGTAAGTTATGTATAATATGAATTAATTAAAAAATGTAAGTTAAGTATAATATTAATGTAAATGT
AAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
AATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATACTAA
Found at i:44911726 original size:62 final size:60
Alignment explanation
Indices: 44911622--44911894 Score: 304
Period size: 62 Copynumber: 4.5 Consensus size: 60
44911612 GTTGTAAGTT
*
44911622 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGCA
1 ATGTAATTTATGTAT-A-A-TAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA--A
* *
44911687 ATGTAATTTATGTGTAATAATTAATTAAGTTATGTAATTTATGTATAATACTAATGT--A
1 ATGTAATTTATGTATAATAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAA
* * * * *
44911745 A-GTTATGTAT-AATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGT-AA
1 ATGTAATTTATGTATAATAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAA
* * *
44911802 ATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAACTT
1 ATGTAATTTATGTAT-A-A-TAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAA--A
* *
44911867 ATGTAATCTATGTATATTAATTAATTAA
1 ATGTAATTTATGTATAATAATTAATTAA
44911895 ATGATATGTA
Statistics
Matches: 177, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
56 40 0.23
57 9 0.05
58 7 0.04
59 2 0.01
60 1 0.01
62 89 0.50
63 2 0.01
64 2 0.01
65 25 0.14
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (60 bp):
ATGTAATTTATGTATAATAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAA
Found at i:44911744 original size:22 final size:22
Alignment explanation
Indices: 44911718--44911768 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
44911708 TAATTAAGTT
44911718 ATGTAATTTATGTATAATACTA
1 ATGTAATTTATGTATAATACTA
* *
44911740 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATACTA
44911762 AT-TAATT
1 ATGTAATT
44911769 AAGTTATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (22 bp):
ATGTAATTTATGTATAATACTA
Found at i:44911789 original size:34 final size:37
Alignment explanation
Indices: 44911740--44911815 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 37
44911730 TATAATACTA
* *
44911740 ATGTAAGTTATGTATAATATTAAT-T-AAT-TAAGTT
1 ATGTAAGTTAAGTATAATATTAATGTAAATGCAAGTT
*
44911774 ATGTAATTTAAGTATAATATTAATGTAAATGCAAGTT
1 ATGTAAGTTAAGTATAATATTAATGTAAATGCAAGTT
44911811 ATGTA
1 ATGTA
44911816 TAATATTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 22 0.61
35 1 0.03
36 3 0.08
37 10 0.28
ACGTcount: A:0.42, C:0.01, G:0.13, T:0.43
Consensus pattern (37 bp):
ATGTAAGTTAAGTATAATATTAATGTAAATGCAAGTT
Found at i:44912834 original size:14 final size:14
Alignment explanation
Indices: 44912815--44912841 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44912805 GAACAAAGCA
44912815 GAACAGACATGTAG
1 GAACAGACATGTAG
44912829 GAACAGACATGTA
1 GAACAGACATGTA
44912842 AGAAATCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (14 bp):
GAACAGACATGTAG
Found at i:44914063 original size:16 final size:16
Alignment explanation
Indices: 44914035--44914092 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
44914025 CCGATTTCTT
* *
44914035 CGACGGCAGAGGAGTG
1 CGACGGTAGAGGAATG
* *
44914051 CGATGGTAGAGGACTG
1 CGACGGTAGAGGAATG
* *
44914067 CGACGGTCGACGAATG
1 CGACGGTAGAGGAATG
44914083 CGACGGTAGA
1 CGACGGTAGA
44914093 CGATCGACGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.43, T:0.12
Consensus pattern (16 bp):
CGACGGTAGAGGAATG
Found at i:44914072 original size:32 final size:30
Alignment explanation
Indices: 44914034--44914106 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 30
44914024 ACCGATTTCT
* * * *
44914034 TCGACGGCAGAGGAGTGCGATGGTAGAGGA
1 TCGACGGCAGACGAATGCGACGGTAGACGA
44914064 CTGCGACGGTC-GACGAATGCGACGGTAGACGA
1 -T-CGACGG-CAGACGAATGCGACGGTAGACGA
44914096 TCGACGGCAGA
1 TCGACGGCAGA
44914107 AGGGACGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.03
30 8 0.23
31 2 0.06
32 23 0.66
33 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.41, T:0.12
Consensus pattern (30 bp):
TCGACGGCAGACGAATGCGACGGTAGACGA
Found at i:44914505 original size:84 final size:83
Alignment explanation
Indices: 44914352--44914633 Score: 309
Period size: 84 Copynumber: 3.4 Consensus size: 83
44914342 AATACCGTAA
* * *
44914352 AGGCAAAACGGCACCGTTTTGTTTAAAAAACCCG-AAACTTTACGGCGTTTTCATCATAGCGCCA
1 AGGCAAAACGACACCGTTTTGTTTAAAAAACCCGAAAACTTTGCGGCGTTTT-ACCATAGCGCCA
* *
44914416 TTAATGTCGTTAATGTGCC
65 CTAATGCCGTTAATGTGCC
* *
44914435 AGGGAAAACGACACCGTTTGGTTTAAAAAACCCGAAAACTTTGCGGCGCTTTTACCATAGCGCCA
1 AGGCAAAACGACACCGTTTTGTTTAAAAAACCCGAAAACTTTGCGGCG-TTTTACCATAGCGCCA
* *
44914500 CTAATGCCCTTAATGTGCT
65 CTAATGCCGTTAATGTGCC
** * ** * * * **
44914519 AGTTAAAACGACACCATTTCATTAAAAAAACCCCGACAA-TTTGCAGCGTTTT-CGGCATAATGC
1 AGGCAAAACGACACCGTTTTGTTTAAAAAA-CCCGAAAACTTTGCGGCGTTTTAC--CATAGCGC
*
44914582 CACTAATGCCGTTAATATGCC
63 CACTAATGCCGTTAATGTGCC
44914603 AGGCAAAACGACACCGTTTTGTTTACAAAAA
1 AGGCAAAACGACACCGTTTTGTTTA-AAAAA
44914634 TGATAAAATT
Statistics
Matches: 165, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
82 1 0.01
83 35 0.21
84 113 0.68
85 16 0.10
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (83 bp):
AGGCAAAACGACACCGTTTTGTTTAAAAAACCCGAAAACTTTGCGGCGTTTTACCATAGCGCCAC
TAATGCCGTTAATGTGCC
Found at i:44914970 original size:6 final size:6
Alignment explanation
Indices: 44914955--44914984 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
44914945 TCATTTTGAT
44914955 TTTTATA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTA-A TTTTAA TTTTAA TTTTAA TTTTA
44914985 TTTCTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:44914970 original size:20 final size:19
Alignment explanation
Indices: 44914925--44914977 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
44914915 TTAAATTAAA
44914925 AATTTTAGAGTTTTTATATTT
1 AATTTT-GA-TTTTTATATTT
*
44914946 CATTTTGATTTTTATATTTT
1 AATTTTGATTTTTATA-TTT
*
44914966 AATTTTAATTTT
1 AATTTTGATTTT
44914978 AATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (19 bp):
AATTTTGATTTTTATATTT
Found at i:44914977 original size:19 final size:20
Alignment explanation
Indices: 44914936--44914984 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
44914926 ATTTTAGAGT
* *
44914936 TTTTATA-TTTCATTTTGAT
1 TTTTATATTTTAATTTTGAA
44914955 TTTTATATTTTAATTTT-AA
1 TTTTATATTTTAATTTTGAA
44914974 TTTTA-ATTTTA
1 TTTTATATTTTA
44914985 TTTCTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 6 0.22
19 13 0.48
20 8 0.30
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATATTTTAATTTTGAA
Found at i:44915357 original size:15 final size:17
Alignment explanation
Indices: 44915318--44915350 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44915308 CTAACCCGAC
44915318 CCTCTTAAAACCCTAAA
1 CCTCTTAAAACCCTAAA
*
44915335 CCTCTTAAATCCCTAA
1 CCTCTTAAAACCCTAA
44915351 CTCTTAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.27
Consensus pattern (17 bp):
CCTCTTAAAACCCTAAA
Found at i:44915439 original size:14 final size:15
Alignment explanation
Indices: 44915420--44915450 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44915410 GACCAACCCT
44915420 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
44915434 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
44915449 TA
1 TA
44915451 TATATAGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:44915709 original size:14 final size:14
Alignment explanation
Indices: 44915649--44915713 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
44915639 TGGAACCTTA
* *
44915649 AACCCTAAATCCCT
1 AACCCTTAACCCCT
*
44915663 AACTCTTAA-CCCT
1 AACCCTTAACCCCT
* *
44915676 AA-CATCTACCCCCT
1 AACCCT-TAACCCCT
44915690 ACACCCTTAACCCCT
1 A-ACCCTTAACCCCT
44915705 AACCCTTAA
1 AACCCTTAA
44915714 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 1 0.03
13 8 0.20
14 20 0.50
15 9 0.22
16 2 0.05
ACGTcount: A:0.32, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
AACCCTTAACCCCT
Found at i:44915718 original size:21 final size:21
Alignment explanation
Indices: 44915694--44915734 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44915684 CCCCCTACAC
44915694 CCTT-AACCCCTAACCCTTAAA
1 CCTTAAACCCC-AACCCTTAAA
*
44915715 CCTTAAATCCCAACCCTTAA
1 CCTTAAACCCCAACCCTTAA
44915735 TTAAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAACCCCAACCCTTAAA
Found at i:44916504 original size:115 final size:114
Alignment explanation
Indices: 44916222--44916649 Score: 617
Period size: 114 Copynumber: 3.7 Consensus size: 114
44916212 GTTAAAACCT
* * * *
44916222 ATATTATTCGCGGCGCTAATCTAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAATGACGTCG
1 ATATTATTAGCGGCGCTATTCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTCG
* *
44916287 TCTAGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTC
66 TCTAGGGTTTAGTTTTTGCGGCGTTTTTATAGAAACACCGCTAATACTC
* *
44916336 ATATTATTAGCGGCGCTATTCAAAAAATGCCACTAATA-TCACCGAAGTGTCTCCAAACGACGTC
1 ATATTATTAGCGGCGCTATTCGAAAAACGCCACTAA-AGTCACCGAAGTGTCTCCAAACGACGTC
* *
44916400 GTCTAGGTTTTAGTTTTTGCGGCGTTTTTATACAAAACACCGCTAATACTC
65 GTCTAGGGTTTAGTTTTTGCGGCGTTTTTATA-GAAACACCGCTAATACTC
* * * *
44916451 ATATTATTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCG
1 ATATTATTAGCGGCGCTATTCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTCG
* * * *
44916516 T-TTGGGTTTTAGTTTTTCCGACGTTTTTGTAGAAACACCGCTAATACTC
66 TCTAGGG-TTTAGTTTTTGCGGCGTTTTTATAGAAACACCGCTAATACTC
* * *
44916565 ATATTATTAGCGGCGCTATTAGAAAAACACCACTAAAGTCATCGAAGTGTCTCCAAACGACGTCG
1 ATATTATTAGCGGCGCTATTCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTCG
*
44916630 TCTGGGGTTTAGTTTTTGCG
66 TCTAGGGTTTAGTTTTTGCG
44916650 CGCTAATACT
Statistics
Matches: 279, Mismatches: 30, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
114 178 0.64
115 101 0.36
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (114 bp):
ATATTATTAGCGGCGCTATTCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGACGTCG
TCTAGGGTTTAGTTTTTGCGGCGTTTTTATAGAAACACCGCTAATACTC
Found at i:44916623 original size:229 final size:229
Alignment explanation
Indices: 44916222--44916849 Score: 648
Period size: 229 Copynumber: 2.8 Consensus size: 229
44916212 GTTAAAACCT
* * * *
44916222 ATATTATTCGCGGCGCTAATCTAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAATGACGTCG
1 ATATTATTAGCGGCGCTAATCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGAAGTCG
* * *
44916287 TCTAGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCCGCTAATACTCATATTATTAGCGGCGC
66 TCTAGGGTTTAGTTTTTCCGACATTTTTATAGAAACACCGCTAATACTCATATTATTAGCGGCGC
** *
44916352 TATTCAAAAAATGCCACTAATATCACCGAAGTGTCTCCAAACGACGTCGTCTAGGTTTTAGTTTT
131 TATTCAAAAAACACCACTAATATCACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGTTTT
44916417 TGCGGCGTTTTTATACAAAACACCGCTAATACTC
196 TGCGGCGTTTTTATACAAAACACCGCTAATACTC
* * *
44916451 ATATTATTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCG
1 ATATTATTAGCGGCGCTAATCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGAAGTCG
* * *
44916516 T-TTGGGTTTTAGTTTTTCCGACGTTTTTGTAGAAACACCGCTAATACTCATATTATTAGCGGCG
66 TCTAGGG-TTTAGTTTTTCCGACATTTTTATAGAAACACCGCTAATACTCATATTATTAGCGGCG
* *
44916580 CTATT-AGAAAAACACCACTAA-AGTCATCGAAGTGTCTCCAAACGACGTCGTCTGGGGTTTAGT
130 CTATTCA-AAAAACACCACTAATA-TCACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGT
44916643 TTTT---GCG----------------CGCTAATACTC
193 TTTTGCGGCGTTTTTATACAAAACACCGCTAATACTC
* ** * * *
44916661 ATATTATTAGCGGCGCTATTCAA--AAAACGCCACTAAT---GTCACCGAAGTGTCTCCAAACGA
1 ATATTATTAGCGGCGC---T-AATCGAAA-AACGCCACTAAAGTCACCGAAGTGTCTCCAAACGA
* * * * * *
44916721 CGTCGTCT-GGGTTTTAGTTTTTGCGGCATTTTTACAAAAACGCCGCTAATACTCATATTATTAG
61 AGTCGTCTAGGG-TTTAGTTTTTCCGACATTTTTATAGAAACACCGCTAATACTCATATTATTAG
* * * * * *
44916785 CGTCGCTATTCGAAAAACGCCACTAATGTCACCGAAGTTTCTCCAAACGACATCGTCT-GGGTTT
125 CGGCGCTATTCAAAAAACACCACTAATATCACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTT
44916849 A
190 A
44916850 AACGCCGCCA
Statistics
Matches: 347, Mismatches: 41, Indels: 42
0.81 0.10 0.10
Matches are distributed among these distances:
209 7 0.02
210 153 0.44
211 1 0.00
212 2 0.01
213 5 0.01
214 1 0.00
226 3 0.01
228 6 0.02
229 169 0.49
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (229 bp):
ATATTATTAGCGGCGCTAATCGAAAAACGCCACTAAAGTCACCGAAGTGTCTCCAAACGAAGTCG
TCTAGGGTTTAGTTTTTCCGACATTTTTATAGAAACACCGCTAATACTCATATTATTAGCGGCGC
TATTCAAAAAACACCACTAATATCACCGAAGTGTCTCCAAACGACGTCGTCTAGGGTTTAGTTTT
TGCGGCGTTTTTATACAAAACACCGCTAATACTC
Found at i:44916675 original size:96 final size:96
Alignment explanation
Indices: 44916554--44916745 Score: 332
Period size: 96 Copynumber: 2.0 Consensus size: 96
44916544 GTAGAAACAC
*
44916554 CGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACACCACTAAAGTCATCGAAGTGTCTC
1 CGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACACCACTAAAGTCACCGAAGTGTCTC
44916618 CAAACGACGTCGTCTGGGGTTTAGTTTTTGCG
65 CAAACGACGTCGTCTGGGGTTTAGTTTTTGCG
* *
44916650 CGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCC
1 CGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACACCACTAAAGTCACCGAAGTGTCTCC
*
44916715 AAACGACGTCGTCTGGGTTTTAGTTTTTGCG
66 AAACGACGTCGTCTGGGGTTTAGTTTTTGCG
44916746 GCATTTTTAC
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
96 90 0.99
97 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (96 bp):
CGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACACCACTAAAGTCACCGAAGTGTCTCC
AAACGACGTCGTCTGGGGTTTAGTTTTTGCG
Found at i:44916802 original size:210 final size:209
Alignment explanation
Indices: 44916440--44916849 Score: 640
Period size: 210 Copynumber: 2.0 Consensus size: 209
44916430 TACAAAACAC
**
44916440 CGCTAATACTCATATTATTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCGAAGTGTCTCC
1 CGCTAATACTCATATTATTAGCGGCGCTACTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCC
* * ** *
44916505 AAACGAAGTCGTTTGGGTTTTAGTTTTTCCGACGTTTTTGTAGAAACACCGCTAATACTCATATT
66 AAACGAAGTCGTCTGGGTTTTAGTTTTTCCGACATTTTTACAAAAACACCGCTAATACTCATATT
* *
44916570 ATTAGCGGCGCTATTAGAAAAACACCACTAAAGTCATCGAAGTGTCTCCAAACGACGTCGTCTGG
131 ATTAGCGGCGCTATTAGAAAAACACCACTAAAGTCACCGAAGTGTCTCCAAACGACATCGTCT-G
44916635 GGTTTAGTTTTTGCG
195 GGTTTAGTTTTTGCG
*
44916650 CGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCC
1 CGCTAATACTCATATTATTAGCGGCGCTACTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCC
* * * *
44916715 AAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAAAAACGCCGCTAATACTCATATT
66 AAACGAAGTCGTCTGGGTTTTAGTTTTTCCGACATTTTTACAAAAACACCGCTAATACTCATATT
* * * * *
44916780 ATTAGCGTCGCTATTCGAAAAACGCCACTAATGTCACCGAAGTTTCTCCAAACGACATCGTCTGG
131 ATTAGCGGCGCTATTAGAAAAACACCACTAAAGTCACCGAAGTGTCTCCAAACGACATCGTCTGG
44916845 GTTTA
196 GTTTA
44916850 AACGCCGCCA
Statistics
Matches: 181, Mismatches: 19, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
209 7 0.04
210 174 0.96
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (209 bp):
CGCTAATACTCATATTATTAGCGGCGCTACTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCC
AAACGAAGTCGTCTGGGTTTTAGTTTTTCCGACATTTTTACAAAAACACCGCTAATACTCATATT
ATTAGCGGCGCTATTAGAAAAACACCACTAAAGTCACCGAAGTGTCTCCAAACGACATCGTCTGG
GTTTAGTTTTTGCG
Found at i:44918226 original size:20 final size:21
Alignment explanation
Indices: 44918201--44918239 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44918191 TTACAATGTA
44918201 AGTTAAA-ATAACATATAACG
1 AGTTAAACATAACATATAACG
44918221 AGTTAAACATAACATATAA
1 AGTTAAACATAACATATAA
44918240 AAGAGGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (21 bp):
AGTTAAACATAACATATAACG
Found at i:44920309 original size:19 final size:20
Alignment explanation
Indices: 44920268--44920311 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
44920258 AACTGTCATC
*
44920268 TCCCCTAAATCCCTAAAATT
1 TCCCCTAAATCCCTAAAAGT
* *
44920288 TCCCCT-AATCCTTAACAGT
1 TCCCCTAAATCCCTAAAAGT
44920307 TCCCC
1 TCCCC
44920312 AAACCCGACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.27, C:0.41, G:0.02, T:0.30
Consensus pattern (20 bp):
TCCCCTAAATCCCTAAAAGT
Found at i:44920809 original size:14 final size:15
Alignment explanation
Indices: 44920792--44920824 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44920782 TGAATGACGA
44920792 AATTC-AAGTTATTT
1 AATTCAAAGTTATTT
44920806 AATTCAAAGTTATTT
1 AATTCAAAGTTATTT
44920821 AATT
1 AATT
44920825 TACGTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
AATTCAAAGTTATTT
Found at i:44921120 original size:15 final size:15
Alignment explanation
Indices: 44921100--44921131 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44921090 CTTCATATCT
44921100 TATATAATATTAAGA
1 TATATAATATTAAGA
*
44921115 TATATAGTATTAAGA
1 TATATAATATTAAGA
44921130 TA
1 TA
44921132 AAATTTCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (15 bp):
TATATAATATTAAGA
Found at i:44921165 original size:37 final size:36
Alignment explanation
Indices: 44921115--44921357 Score: 149
Period size: 37 Copynumber: 6.9 Consensus size: 36
44921105 AATATTAAGA
*
44921115 TATATAGTATTAAGATAAAATTTCTAATTACATAACT
1 TATATAATATTAAGAT-AAATTTCTAATTACATAACT
* * * *
44921152 TATATAATATTAAGATAACTTATACAATATTAAGATAAAAT
1 TATATAATATTAAGATAAATT-T-CTA-ATT-ACAT-AACT
* * * * *
44921193 T-TCT-A-ATT-ACATAACTTATATAATATTAAGATAACT
1 TATATAATATTAAGATAAATT-TCT-A-ATT-ACATAACT
44921229 TATATAATATTAAGATAAAATTTCTAATTACATAACT
1 TATATAATATTAAGAT-AAATTTCTAATTACATAACT
*
44921266 TATATAATA-T----T-AATTTCTAATAACATAACT
1 TATATAATATTAAGATAAATTTCTAATTACATAACT
*
44921296 TATATAATA-T----T-AATTTCTCATTACATAACT
1 TATATAATATTAAGATAAATTTCTAATTACATAACT
*
44921326 TATATAATATTAACATAAAATTTCTAATTACA
1 TATATAATATTAAGAT-AAATTTCTAATTACA
44921358 CATCAATTTC
Statistics
Matches: 169, Mismatches: 19, Indels: 36
0.75 0.08 0.16
Matches are distributed among these distances:
30 55 0.33
31 1 0.01
32 1 0.01
35 1 0.01
36 9 0.05
37 67 0.40
38 9 0.05
39 8 0.05
40 10 0.06
41 8 0.05
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.41
Consensus pattern (36 bp):
TATATAATATTAAGATAAATTTCTAATTACATAACT
Found at i:44921171 original size:20 final size:20
Alignment explanation
Indices: 44921146--44921246 Score: 129
Period size: 20 Copynumber: 5.2 Consensus size: 20
44921136 TTCTAATTAC
44921146 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
*
44921166 ATAACTTATACAATATTAAG
1 ATAACTTATATAATATTAAG
* * *
44921186 ATAAAATT-TCT-A-ATT-AC
1 AT-AACTTATATAATATTAAG
44921203 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
44921223 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
44921243 ATAA
1 ATAA
44921247 AATTTCTAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
16 4 0.06
17 5 0.07
18 4 0.06
19 4 0.06
20 47 0.69
21 4 0.06
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
ATAACTTATATAATATTAAG
Found at i:44921197 original size:57 final size:56
Alignment explanation
Indices: 44921093--44921400 Score: 310
Period size: 57 Copynumber: 5.4 Consensus size: 56
44921083 CAGGACACTT
* *
44921093 CATATCTTATATAATATTAAGAT-A--TAT-AGTATTAAGATAAAATTTCTAATTA
1 CATAACTTATATAATATTAAGATAACTTATAAATATTAAGATAAAATTTCTAATTA
44921145 CATAACTTATATAATATTAAGATAACTTATACAATATTAAGATAAAATTTCTAATTA
1 CATAACTTATATAATATTAAGATAACTTATA-AATATTAAGATAAAATTTCTAATTA
44921202 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTA
1 CATAACTTATATAATATTAAGATAACTTATA-AATATTAAGATAAAATTTCTAATTA
** * * * *
44921259 CATAACTTATATAATATT-A-ATTTCTAATAACATAACTTATATAATATTAATTTCTCATTA
1 CATAACTTATATAATATTAAGATAACTTATAA-AT-A-TTA-A-GATA-AAATTTCTAATTA
* * ** * *
44921319 CATAACTTATATAATATTAACATAAAATT-TCTA-ATTACACAT-CAATTTCTAATTTTA
1 CATAACTTATATAATATTAAGAT-AACTTATAAATATTA-AGATAAAATTTCTAA--TTA
*
44921376 GATAACTTATATAATATTAAGATAA
1 CATAACTTATATAATATTAAGATAA
44921401 AATTTCATAA
Statistics
Matches: 219, Mismatches: 21, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
52 22 0.10
53 1 0.00
54 1 0.00
55 20 0.09
56 4 0.02
57 127 0.58
58 5 0.02
59 4 0.02
60 29 0.13
61 2 0.01
62 3 0.01
63 1 0.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (56 bp):
CATAACTTATATAATATTAAGATAACTTATAAATATTAAGATAAAATTTCTAATTA
Found at i:44921281 original size:30 final size:30
Alignment explanation
Indices: 44921133--44921338 Score: 189
Period size: 30 Copynumber: 7.1 Consensus size: 30
44921123 ATTAAGATAA
44921133 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
** * * * *
44921163 AA--GATAACTTATACAA--TAT-TAAGATAA
1 AATTTCTAA-TTACATAACTTATATAATAT-T
44921190 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
** * * *
44921220 AA--GATAACTTATATAA--TAT-TAAGATAA
1 AATTTCTAA-TTACATAACTTATATAATAT-T
44921247 AATTTCTAATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
44921277 AATTTCTAATAACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
*
44921307 AATTTCTCATTACATAACTTATATAATATT
1 AATTTCTAATTACATAACTTATATAATATT
44921337 AA
1 AA
44921339 CATAAAATTT
Statistics
Matches: 137, Mismatches: 25, Indels: 28
0.72 0.13 0.15
Matches are distributed among these distances:
26 10 0.07
27 10 0.07
28 19 0.14
29 19 0.14
30 69 0.50
31 10 0.07
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (30 bp):
AATTTCTAATTACATAACTTATATAATATT
Found at i:44921410 original size:117 final size:117
Alignment explanation
Indices: 44921115--44921403 Score: 308
Period size: 117 Copynumber: 2.5 Consensus size: 117
44921105 AATATTAAGA
* * **
44921115 TATATAGTATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAGATAACTTATAC--A
1 TATATAATATTAACATAAAATTTCTAATTACATAACTTATATAATATTAAGATAAAATA-ACATA
* * * *
44921178 A--TAT-TAAGATAAAATTTCTAATTACATAACTTATATAATATTAAGATAACT
65 ACTTATATAATAT-TAATTTCTAATTACATAACTTATATAATATTAACATAAAT
* ** **
44921229 TATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAATTTCTAATAACATAA
1 TATATAATATTAACATAAAATTTCTAATTACATAACTTATATAATATTAAGATAAAATAACATAA
*
44921294 CTTATATAATATTAATTTCTCATTACATAACTTATATAATATTAACATAAAAT
66 CTTATATAATATTAATTTCTAATTACATAACTTATATAATATTAACAT-AAAT
* * *
44921347 T-TCT-A-ATTACACAT-CAATTTCTAATTTTAGATAACTTATATAATATTAAGATAAAAT
1 TATATAATATTA-ACATAAAATTTCTAA--TTACATAACTTATATAATATTAAGATAAAAT
44921404 TTCATAATAC
Statistics
Matches: 146, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
113 2 0.01
114 52 0.36
115 15 0.10
116 4 0.03
117 64 0.44
118 9 0.06
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (117 bp):
TATATAATATTAACATAAAATTTCTAATTACATAACTTATATAATATTAAGATAAAATAACATAA
CTTATATAATATTAATTTCTAATTACATAACTTATATAATATTAACATAAAT
Found at i:44921444 original size:16 final size:16
Alignment explanation
Indices: 44921423--44921488 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
44921413 CATAACTTAA
44921423 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
44921439 ACAACTTATTACATAACTTAA
1 ATAAC---TTACATAA--TAC
44921460 ATAACTTACATAATAC
1 ATAACTTACATAATAC
*
44921476 ATAACTTTCATAA
1 ATAACTTACATAA
44921489 CTTACATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
16 18 0.45
18 8 0.20
19 8 0.20
21 6 0.15
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:44921452 original size:37 final size:37
Alignment explanation
Indices: 44921411--44921482 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
44921401 AATTTCATAA
44921411 TACATAACTTAAATAACTTACATAATACACAACTTAT
1 TACATAACTTAAATAACTTACATAATACACAACTTAT
*
44921448 TACATAACTTAAATAACTTACATAATACATAACTT
1 TACATAACTTAAATAACTTACATAATACACAACTT
44921483 TCATAACTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (37 bp):
TACATAACTTAAATAACTTACATAATACACAACTTAT
Found at i:44921476 original size:25 final size:25
Alignment explanation
Indices: 44921448--44921495 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44921438 CACAACTTAT
44921448 TACATAACTTAAATAACTTACATAA
1 TACATAACTTAAATAACTTACATAA
**
44921473 TACATAACTTTCATAACTTACAT
1 TACATAACTTAAATAACTTACAT
44921496 TATTCACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (25 bp):
TACATAACTTAAATAACTTACATAA
Found at i:44921506 original size:25 final size:25
Alignment explanation
Indices: 44921460--44921507 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44921450 CATAACTTAA
*
44921460 ATAACTTACATAATACATAACTTTC
1 ATAACTTACATAATACACAACTTTC
* *
44921485 ATAACTTACATTATTCACAACTT
1 ATAACTTACATAATACACAACTT
44921508 GGCCGATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.38
Consensus pattern (25 bp):
ATAACTTACATAATACACAACTTTC
Found at i:44921541 original size:9 final size:9
Alignment explanation
Indices: 44921527--44921628 Score: 77
Period size: 9 Copynumber: 11.3 Consensus size: 9
44921517 ATTAATATTA
44921527 TACATAACT
1 TACATAACT
44921536 TACATATATAACT
1 TAC--ATA--ACT
*
44921549 CACATAACT
1 TACATAACT
*
44921558 TACATAGCT
1 TACATAACT
*
44921567 TACAT-TC-
1 TACATAACT
*
44921574 TACACAACT
1 TACATAACT
*
44921583 TACATAACA
1 TACATAACT
44921592 TACATAA--
1 TACATAACT
*
44921599 TACGTAACT
1 TACATAACT
44921608 TACATAACT
1 TACATAACT
*
44921617 TACATAATT
1 TACATAACT
44921626 TAC
1 TAC
44921629 TTAATACAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
7 10 0.14
8 2 0.03
9 51 0.69
11 6 0.08
13 5 0.07
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:44921585 original size:25 final size:25
Alignment explanation
Indices: 44921574--44921624 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
44921564 GCTTACATTC
*
44921574 TACACAACTTACATAACATACATAA
1 TACACAACTTACATAACTTACATAA
**
44921599 TACGTAACTTACATAACTTACATAA
1 TACACAACTTACATAACTTACATAA
44921624 T
1 T
44921625 TTACTTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (25 bp):
TACACAACTTACATAACTTACATAA
Found at i:44927105 original size:66 final size:66
Alignment explanation
Indices: 44927022--44927157 Score: 209
Period size: 66 Copynumber: 2.1 Consensus size: 66
44927012 GACCACAGTT
* * * *
44927022 GAGGTCCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGAGAAGC
1 GAGGTCCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGACAGCAAGAGAAGC
44927087 A
66 A
* * *
44927088 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGATGCGACATCAAGAGAAGC
1 GAGGTCCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGACAGCAAGAGAAGC
44927153 A
66 A
44927154 GAGG
1 GAGG
44927158 CTGCAGCGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.12
Consensus pattern (66 bp):
GAGGTCCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGACAGCAAGAGAAGC
A
Found at i:44927578 original size:43 final size:43
Alignment explanation
Indices: 44927525--44927650 Score: 155
Period size: 44 Copynumber: 2.9 Consensus size: 43
44927515 CACCAAAACA
* *
44927525 ATAGCAGCGTTTGTGGAAGAAGCAACGCTAAAAGTCATGTTCT
1 ATAGCGGCGTTTGTGGAAGAAGCACCGCTAAAAGTCATGTTCT
*
44927568 ATAGCGGCGTTTGTAGG-AGAAGCGCCGCTAAAAAGTCATGTTCT
1 ATAGCGGCGTTTGT-GGAAGAAGCACCGCT-AAAAGTCATGTTCT
* * * * *
44927612 TTAGCGGCGTTTGTGAAAAAAGCACCACTAAAATTCATG
1 ATAGCGGCGTTTGTGGAAGAAGCACCGCTAAAAGTCATG
44927651 ACCTTTAGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
43 33 0.46
44 38 0.54
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (43 bp):
ATAGCGGCGTTTGTGGAAGAAGCACCGCTAAAAGTCATGTTCT
Found at i:44927650 original size:87 final size:86
Alignment explanation
Indices: 44927526--44927685 Score: 196
Period size: 87 Copynumber: 1.8 Consensus size: 86
44927516 ACCAAAACAA
* * * **
44927526 TAGCAGCGTTTGTGGAAGAAGCAACGCTAAAAGTCATGTTCTATAGCGGCGTTTGTAG-GAGAAG
1 TAGCAGCGTTTGTGAAAAAAGCAACACTAAAAGTCATGACCTATAGCGGCGTTT-TAGTG-GAAG
44927590 CGCCGCTAAAAAGTCATGTTCTT
64 CGCCGCTAAAAAGTCATGTTCTT
* * * * * *
44927613 TAGCGGCGTTTGTGAAAAAAGCACCACTAAAATTCATGACCTTTAGCTGCGTTTTTGTGGAAGCG
1 TAGCAGCGTTTGTGAAAAAAGCAACACTAAAAGTCATGACCTATAGCGGCGTTTTAGTGGAAGCG
44927678 CCGCTAAA
66 CCGCTAAA
44927686 GAACATGACC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
86 16 0.26
87 45 0.74
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (86 bp):
TAGCAGCGTTTGTGAAAAAAGCAACACTAAAAGTCATGACCTATAGCGGCGTTTTAGTGGAAGCG
CCGCTAAAAAGTCATGTTCTT
Found at i:44928324 original size:18 final size:19
Alignment explanation
Indices: 44928297--44928345 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
44928287 GAATAAACTC
44928297 AATATAAAAAAATA-AATTA
1 AATATAAAAAAATAGAA-TA
*
44928316 AAT-TAAAAAATTAGAATA
1 AATATAAAAAAATAGAATA
44928334 AATATAAAAAAA
1 AATATAAAAAAA
44928346 ATCTACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (19 bp):
AATATAAAAAAATAGAATA
Found at i:44929511 original size:19 final size:20
Alignment explanation
Indices: 44929489--44929578 Score: 94
Period size: 19 Copynumber: 4.4 Consensus size: 20
44929479 GAAAATTAAA
44929489 AAAAATTCAAATA-ATTTTT
1 AAAAATTCAAATATATTTTT
*
44929508 AAAAATTCAAA-ATATTTAT
1 AAAAATTCAAATATATTTTT
44929527 AAAAATTCCAAAATTATATTTTTT
1 AAAAATT-C-AAA-TATA-TTTTT
* * *
44929551 AAAAATTAAAATAAATTTTA
1 AAAAATTCAAATATATTTTT
44929571 AAAAATTC
1 AAAAATTC
44929579 TAAAGAATAT
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
18 1 0.02
19 23 0.39
20 12 0.20
21 6 0.10
22 3 0.05
23 3 0.05
24 11 0.19
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTCAAATATATTTTT
Found at i:44930724 original size:20 final size:20
Alignment explanation
Indices: 44930679--44930727 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
44930669 TTTTTTAAGG
44930679 AATTTTAAAAACTTCATTAAA
1 AATTTT-AAAACTTCATTAAA
44930700 AATTTTAAAA-TT-ATTAAA
1 AATTTTAAAACTTCATTAAA
44930718 TATATTTTAA
1 -A-ATTTTAA
44930728 TTTATAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.23
19 3 0.12
20 11 0.42
21 6 0.23
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTTAAAACTTCATTAAA
Found at i:44931078 original size:20 final size:19
Alignment explanation
Indices: 44931028--44931085 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
44931018 ATCGAGCTCT
44931028 AAACCTCAAACCCTAAACTC
1 AAACC-CAAACCCTAAACTC
* * *
44931048 AAATTCTAAACCCTAAATTCC
1 AAA-CCCAAACCCTAAACT-C
*
44931069 AAACCCAAACCTTAAAC
1 AAACCCAAACCCTAAAC
44931086 CTTGAACCTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (19 bp):
AAACCCAAACCCTAAACTC
Found at i:44931271 original size:106 final size:106
Alignment explanation
Indices: 44931086--44931295 Score: 332
Period size: 106 Copynumber: 2.0 Consensus size: 106
44931076 AACCTTAAAC
* * *
44931086 CTTGAACCTTGAATGAGTTTAGGGTTTGGGGTAAAAAATTACCAAAATTGTGTATAAATAATATG
1 CTTGAACCTTGAACGAGTTTAGGGTTTGGGGTAAAAAATTACCAAAATTATGTATAAATAACATG
*
44931151 AAAAAAATTACTGAAATATAGTTAAATAATTGGAAAGGGGA
66 AAAAAAATTACTGAAATATAATTAAATAATTGGAAAGGGGA
*
44931192 CTTGAACCTTGAACGAGTTTAGGG-TTGAGGGTAAAAAATTACCAAAATTATGTATCAATAACAT
1 CTTGAACCTTGAACGAGTTTAGGGTTTG-GGGTAAAAAATTACCAAAATTATGTATAAATAACAT
* * *
44931256 GAAAAAATTTGCTGAAATATAATTAAATAATTGGGAAGGG
65 GAAAAAAATTACTGAAATATAATTAAATAATTGGAAAGGG
44931296 ACCATAGATG
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
105 3 0.03
106 92 0.97
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (106 bp):
CTTGAACCTTGAACGAGTTTAGGGTTTGGGGTAAAAAATTACCAAAATTATGTATAAATAACATG
AAAAAAATTACTGAAATATAATTAAATAATTGGAAAGGGGA
Found at i:44931407 original size:23 final size:24
Alignment explanation
Indices: 44931376--44931420 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44931366 TTTAAGAATC
*
44931376 ACTTGCATT-ATATAAAAATAATT
1 ACTTCCATTAATATAAAAATAATT
*
44931399 ACTTCCATTAATTTAAAAATAA
1 ACTTCCATTAATATAAAAATAA
44931421 GGCATAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (24 bp):
ACTTCCATTAATATAAAAATAATT
Found at i:44936751 original size:25 final size:26
Alignment explanation
Indices: 44936719--44936773 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
44936709 TTATTAAATT
*
44936719 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
44936744 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
44936769 A-ATAT
1 ATATAT
44936774 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:44936940 original size:39 final size:40
Alignment explanation
Indices: 44936897--44937001 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
44936887 TTCCATTATG
44936897 CTATTACACCTCTATTCCATTCAACCAAACACATGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACATGATTTA
* ** *
44936936 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACATGATTTA
*
44936981 CTATTACACATCTATTCCATT
1 CTATTACACCTCTATTCCATT
44937002 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 18 0.33
45 16 0.30
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACATGATTTA
Found at i:44936978 original size:44 final size:45
Alignment explanation
Indices: 44936914--44937004 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
44936904 ACCTCTATTC
* *
44936914 CATTCAACCAAACACATGA-TTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACATGATTTACTATTACACATCTATTCCATTA
** *
44936958 CATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCCATTA
1 CATTCAACCAAACACATGATTTACTATTACACATCTATTCCATTA
44937003 CA
1 CA
44937005 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 17 0.41
45 24 0.59
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (45 bp):
CATTCAACCAAACACATGATTTACTATTACACATCTATTCCATTA
Found at i:44937004 original size:16 final size:16
Alignment explanation
Indices: 44936985--44937052 Score: 100
Period size: 16 Copynumber: 4.2 Consensus size: 16
44936975 GATTTGCTAT
* * *
44936985 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
44937001 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44937017 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
44937033 TACACCTCTAATTCAA
1 TACACCTCTAATCCAA
44937049 TACA
1 TACA
44937053 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.34, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44938046 original size:19 final size:19
Alignment explanation
Indices: 44938004--44938047 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44937994 ATGAAAATAA
*
44938004 TATTTTTTATAATTTACCT
1 TATTTTTTATAATTCACCT
* *
44938023 AATTTTTTATAATTCGCCT
1 TATTTTTTATAATTCACCT
44938042 TATTTT
1 TATTTT
44938048 ATCTAATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.02, T:0.61
Consensus pattern (19 bp):
TATTTTTTATAATTCACCT
Found at i:44942643 original size:41 final size:41
Alignment explanation
Indices: 44942594--44942723 Score: 190
Period size: 41 Copynumber: 3.2 Consensus size: 41
44942584 GGGTACAAAA
* *
44942594 GTGC-ATTCAGGGGTACCGAAGTACAAACAAGGGCACGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCATGTAT
* * * *
44942634 GTGCAATTCAGGGGTACTGAATTACAAATAGGGGCATGCAT
1 GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCATGTAT
*
44942675 GTGCAATTCAGGGGTACCAAAGTACAAATAAGGGCATGTAT
1 GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCATGTAT
44942716 GTGCAATT
1 GTGCAATT
44942724 AAACAATATT
Statistics
Matches: 78, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 4 0.05
41 74 0.95
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCGAAGTACAAATAAGGGCATGTAT
Found at i:44946498 original size:23 final size:23
Alignment explanation
Indices: 44946472--44946516 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
44946462 GAAGCAATCA
* *
44946472 AACAAAAAAAGAAGAAGAAAAAG
1 AACAAAAAAACAAAAAGAAAAAG
* *
44946495 AACAGAAGAACAAAAAGAAAAA
1 AACAAAAAAACAAAAAGAAAAA
44946517 AGGAAGGAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.78, C:0.07, G:0.16, T:0.00
Consensus pattern (23 bp):
AACAAAAAAACAAAAAGAAAAAG
Found at i:44946503 original size:17 final size:17
Alignment explanation
Indices: 44946481--44946513 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44946471 AAACAAAAAA
*
44946481 AGAAGAAGAAAAAGAAC
1 AGAAGAACAAAAAGAAC
44946498 AGAAGAACAAAAAGAA
1 AGAAGAACAAAAAGAA
44946514 AAAAGGAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.21, T:0.00
Consensus pattern (17 bp):
AGAAGAACAAAAAGAAC
Found at i:44959604 original size:20 final size:21
Alignment explanation
Indices: 44959579--44959626 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
44959569 GAGCACACCC
*
44959579 CAAAGGCTAGTAGAA-TGCCA
1 CAAAGGCTAATAGAAGTGCCA
44959599 CAAAGGCTAATAGAATGTGCCA
1 CAAAGGCTAATAGAA-GTGCCA
44959621 CAAAGG
1 CAAAGG
44959627 TGAGATCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 14 0.56
22 11 0.44
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
CAAAGGCTAATAGAAGTGCCA
Found at i:44967571 original size:12 final size:12
Alignment explanation
Indices: 44967556--44967582 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44967546 GGTTTATTTG
44967556 AAATTTTAAACC
1 AAATTTTAAACC
44967568 AAATTTTAAACC
1 AAATTTTAAACC
44967580 AAA
1 AAA
44967583 ACACCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTTTAAACC
Found at i:44971635 original size:50 final size:50
Alignment explanation
Indices: 44971460--44971635 Score: 221
Period size: 50 Copynumber: 3.5 Consensus size: 50
44971450 ATGAACAAAT
* * * *
44971460 GAGTTAC-TAATGCATGACTTTATTAAAAGATGCATACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATTATT-TATGATGCATAC-TTAACTAACATGA
*
44971511 GAGTTACATAATGCATGACATAATTTATGATGCA-ATCTTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCATA-CTTAACTAACATGA
* *
44971561 GCGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCATACTTAACTAACATGA
* * *
44971611 AAGTTACATAATGCTTGACTTTATT
1 GAGTTACATAATGCATGACATTATT
44971636 AAATGCATAA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
50 78 0.72
51 16 0.15
52 15 0.14
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (50 bp):
GAGTTACATAATGCATGACATTATTTATGATGCATACTTAACTAACATGA
Found at i:44976122 original size:7 final size:7
Alignment explanation
Indices: 44976106--44976136 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
44976096 ATAAAGAAGG
44976106 AAAGAGA
1 AAAGAGA
*
44976113 AAATAGA
1 AAAGAGA
44976120 AAAGAGA
1 AAAGAGA
44976127 AAAGAGA
1 AAAGAGA
44976134 AAA
1 AAA
44976137 AAGGGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (7 bp):
AAAGAGA
Found at i:44977517 original size:31 final size:29
Alignment explanation
Indices: 44977474--44977532 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
44977464 TGTATAATTT
*
44977474 TTTCTTTAGTTTTAGAATTTAGTTTTTCC
1 TTTCTTTAGTTTTAGAATTTACTTTTTCC
* *
44977503 TTTCTCTTAGGTTTTGGATTTTACTTTTTC
1 TTTCT-TTA-GTTTTAGAATTTACTTTTTC
44977533 ATTCTTGCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 5 0.20
30 3 0.12
31 17 0.68
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.63
Consensus pattern (29 bp):
TTTCTTTAGTTTTAGAATTTACTTTTTCC
Found at i:44994355 original size:32 final size:33
Alignment explanation
Indices: 44994309--44994429 Score: 95
Period size: 32 Copynumber: 3.5 Consensus size: 33
44994299 ATTAATTTAT
44994309 TATATGATTAAATACTATCTTTTTGACTAGAAG
1 TATATGATTAAATACTATCTTTTTGACTAGAAG
* * * * *
44994342 TATAT-ATTCAATACTAAT-TAATTTTTAATATTAATTTAT
1 TATATGATTAAATACT-ATCT--TTTTGACTA--GA---AG
44994381 TATATGATTAAATACTATCTTTTTGACTAGAAG
1 TATATGATTAAATACTATCTTTTTGACTAGAAG
*
44994414 TATAT-ATTCAATACTA
1 TATATGATTAAATACTA
44994430 ATTAATTTTT
Statistics
Matches: 67, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
32 20 0.30
33 13 0.19
34 7 0.10
36 2 0.03
38 7 0.10
39 8 0.12
40 10 0.15
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (33 bp):
TATATGATTAAATACTATCTTTTTGACTAGAAG
Found at i:44994367 original size:35 final size:35
Alignment explanation
Indices: 44994328--44994439 Score: 97
Period size: 35 Copynumber: 3.1 Consensus size: 35
44994318 AAATACTATC
44994328 TTTTTGACTAGAAGTATATATTCAATACTAATTAA
1 TTTTTGACTAGAAGTATATATTCAATACTAATTAA
* * * * *
44994363 TTTTT-AATATTAATTTATTATATGATTAAATACT-A-T-C
1 TTTTTGACTA--GA---AGTATAT-ATTCAATACTAATTAA
44994400 TTTTTGACTAGAAGTATATATTCAATACTAATTAA
1 TTTTTGACTAGAAGTATATATTCAATACTAATTAA
44994435 TTTTT
1 TTTTT
44994440 AATATTAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
32 9 0.16
33 7 0.12
34 4 0.07
35 10 0.18
36 2 0.04
37 5 0.09
38 4 0.07
39 7 0.12
40 9 0.16
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (35 bp):
TTTTTGACTAGAAGTATATATTCAATACTAATTAA
Found at i:44994395 original size:40 final size:39
Alignment explanation
Indices: 44994342--44994480 Score: 114
Period size: 40 Copynumber: 3.7 Consensus size: 39
44994332 TGACTAGAAG
*
44994342 TATATATTCAATACTAATTAATTTTTAATATTAATTTAT
1 TATATATTAAATACTAATTAATTTTTAATATTAATTTAT
* * * *
44994381 TATATGATTAAATACT-ATCT--TTTTGACTA--GA---AG
1 TATAT-ATTAAATACTAAT-TAATTTTTAATATTAATTTAT
*
44994414 TATATATTCAATACTAATTAATTTTTAATATTAATTTAT
1 TATATATTAAATACTAATTAATTTTTAATATTAATTTAT
* *
44994453 TATATGATTAAATGCTATTTAATATTTT
1 TATAT-ATTAAATACTAATTAAT-TTTT
44994481 TAAAAGCTAG
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
32 10 0.13
33 8 0.11
34 7 0.09
36 2 0.03
38 7 0.09
39 13 0.17
40 24 0.32
41 4 0.05
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (39 bp):
TATATATTAAATACTAATTAATTTTTAATATTAATTTAT
Found at i:44994413 original size:72 final size:72
Alignment explanation
Indices: 44994296--44994470 Score: 341
Period size: 72 Copynumber: 2.4 Consensus size: 72
44994286 TTGACTAAAA
44994296 AATATTAATTTATTATATGATTAAATACTATCTTTTTGACTAGAAGTATATATTCAATACTAATT
1 AATATTAATTTATTATATGATTAAATACTATCTTTTTGACTAGAAGTATATATTCAATACTAATT
44994361 AATTTTT
66 AATTTTT
44994368 AATATTAATTTATTATATGATTAAATACTATCTTTTTGACTAGAAGTATATATTCAATACTAATT
1 AATATTAATTTATTATATGATTAAATACTATCTTTTTGACTAGAAGTATATATTCAATACTAATT
44994433 AATTTTT
66 AATTTTT
*
44994440 AATATTAATTTATTATATGATTAAATGCTAT
1 AATATTAATTTATTATATGATTAAATACTAT
44994471 TTAATATTTT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 102 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (72 bp):
AATATTAATTTATTATATGATTAAATACTATCTTTTTGACTAGAAGTATATATTCAATACTAATT
AATTTTT
Found at i:44994670 original size:43 final size:43
Alignment explanation
Indices: 44994512--44994663 Score: 198
Period size: 43 Copynumber: 3.5 Consensus size: 43
44994502 TATAAACGCA
* * * * *
44994512 GCTAAAGGTCATGATCTTTAGCCGCGTTTGTGGGT-AAAGCGCT
1 GCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAAGCGCC
* *
44994555 GCTAAAGATCATGTTATTTTAGCGGCATTTGTGATAAAAGCGCC
1 GCTAAAGATCATGTT-CTTTAGCGGCGTTTGTGATAAAAGCGCC
44994599 GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
1 GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
* *
44994642 GCTAAAGGTCATGTTCTATAGC
1 GCTAAAGATCATGTTCTTTAGC
44994664 AACGTTTTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 61 0.64
44 35 0.36
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCC
Found at i:44994686 original size:87 final size:87
Alignment explanation
Indices: 44994503--44994687 Score: 187
Period size: 87 Copynumber: 2.1 Consensus size: 87
44994493 GCATTTTTTT
* * * *
44994503 ATAAACGCAGCTAAAGGTCATGATCTTTAGCCGCGTTTGTGGGTAAAGCGCTGCTAAAGATCATG
1 ATAAACGCCGCTAAAGATCATGATCTTTAGCCGCGTTTGTGGATAAAGCGCCGCTAAAGATCATG
* * ** * *
44994568 TTATTTTAGCGGCATTTGTGAT
66 TTACTATAGCAACATTTGTCAC
* * *
44994590 A-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCA
1 ATAAA-CGCCGCTAAAGATCATGATCTTTAGCCGCGTTTGTGGAT-AAAGCGCCGCTAAAGATCA
* *
44994653 TGTT-CTATAGCAACGTTTTTTCAC
64 TGTTACTATAGCAAC-ATTTGTCAC
44994677 ATAAACGCCGC
1 ATAAACGCCGC
44994688 GAAATTTAGC
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
86 11 0.14
87 65 0.82
88 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (87 bp):
ATAAACGCCGCTAAAGATCATGATCTTTAGCCGCGTTTGTGGATAAAGCGCCGCTAAAGATCATG
TTACTATAGCAACATTTGTCAC
Found at i:45005759 original size:20 final size:20
Alignment explanation
Indices: 45005734--45005808 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
45005724 TACATCCACT
*
45005734 ATACTGGTAGCTTGTCTGCA
1 ATACTGGTAGCTTGTCTACA
*
45005754 ATACTGGT-GGTTAGATC-ACA
1 ATACTGGTAGCTT-G-TCTACA
* * *
45005774 ATACTGGCAGTTTATCTACA
1 ATACTGGTAGCTTGTCTACA
*
45005794 ATACTGGCAGCTTGT
1 ATACTGGTAGCTTGT
45005809 TTGCAATATT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
19 5 0.11
20 34 0.77
21 5 0.11
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
ATACTGGTAGCTTGTCTACA
Found at i:45007275 original size:20 final size:20
Alignment explanation
Indices: 45007227--45007275 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
45007217 AAAGAATCTA
*
45007227 AATTGAGCTCAAATGAGCTG
1 AATTGAGCTCAAATAAGCTG
* * *
45007247 AATTAAGCTCAAGTAAGCTT
1 AATTGAGCTCAAATAAGCTG
*
45007267 ATTTGAGCT
1 AATTGAGCT
45007276 AGATGGAGCT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
AATTGAGCTCAAATAAGCTG
Found at i:45010176 original size:17 final size:19
Alignment explanation
Indices: 45010148--45010183 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
45010138 GCATAAATTT
45010148 TAAAAGTAAAACT-AAAAA
1 TAAAAGTAAAACTGAAAAA
45010166 TAAAA-TAAAACTGAAAAA
1 TAAAAGTAAAACTGAAAAA
45010184 GAGAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (19 bp):
TAAAAGTAAAACTGAAAAA
Found at i:45010257 original size:14 final size:15
Alignment explanation
Indices: 45010238--45010272 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
45010228 CAAAAATAAT
*
45010238 ATTTTTACAA-TTTC
1 ATTTTTACAACATTC
45010252 ATTTTTACAACATTC
1 ATTTTTACAACATTC
45010267 ATTTTT
1 ATTTTT
45010273 CTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTACAACATTC
Found at i:45010949 original size:41 final size:41
Alignment explanation
Indices: 45010887--45010971 Score: 143
Period size: 41 Copynumber: 2.1 Consensus size: 41
45010877 TGCACCCCAC
* *
45010887 TACATCGGTGCAGTTACAGTTAGGGACAATTGCCCGCTTAG
1 TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCACTTAG
*
45010928 TACACCGGTGCAGTTACAGTTAGTGACAATTGCCCACTTAG
1 TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCACTTAG
45010969 TAC
1 TAC
45010972 CTCATTGGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (41 bp):
TACACCGGTGCAGTTACAGTTAGGGACAATTGCCCACTTAG
Found at i:45015683 original size:14 final size:13
Alignment explanation
Indices: 45015637--45015689 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
45015627 TAATTTAGCC
*
45015637 ATTTTTATTTTTA
1 ATTTTAATTTTTA
* *
45015650 TTTTTATTGTTTTA
1 ATTTTAAT-TTTTA
*
45015664 AATTTAATTTTTA
1 ATTTTAATTTTTA
45015677 CATTTTAATTTTT
1 -ATTTTAATTTTT
45015690 CTTTTATTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:45019644 original size:16 final size:14
Alignment explanation
Indices: 45019623--45019665 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
45019613 TCTTATTAAT
45019623 TAAAAAATATAAAATA
1 TAAAAAA-ATAAAA-A
45019639 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
45019653 TAAATAAAA-AAAA
1 TAAA-AAAATAAAA
45019666 GTGTCACACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:45019646 original size:17 final size:17
Alignment explanation
Indices: 45019619--45019664 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
45019609 AGTTTCTTAT
*
45019619 TAATTAAAAAATATAAAA
1 TAATAAAAAAATA-AAAA
45019637 T-ATAAAAAAATAAAAA
1 TAATAAAAAAATAAAAA
45019653 TAAATAAAAAAA
1 T-AATAAAAAAA
45019665 AGTGTCACAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
TAATAAAAAAATAAAAA
Found at i:45019648 original size:10 final size:9
Alignment explanation
Indices: 45019624--45019665 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
45019614 CTTATTAATT
*
45019624 AAAAAATAT
1 AAAAAATAA
*
45019633 AAAATAT-A
1 AAAAAATAA
45019641 AAAAAATAA
1 AAAAAATAA
45019650 AAATAAATAA
1 AAA-AAATAA
45019660 AAAAAA
1 AAAAAA
45019666 GTGTCACACG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
8 6 0.21
9 13 0.46
10 9 0.32
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATAA
Found at i:45020249 original size:15 final size:16
Alignment explanation
Indices: 45020223--45020253 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
45020213 CCAAACTATC
45020223 TTTTATTATTATTTGT
1 TTTTATTATTATTTGT
45020239 TTTTATT-TTATTTGT
1 TTTTATTATTATTTGT
45020254 CGAGCTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTATTATTATTTGT
Found at i:45027437 original size:15 final size:15
Alignment explanation
Indices: 45027414--45027455 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
45027404 GATTTTTATG
45027414 TTTTA-TATATACTA
1 TTTTATTATATACTA
*
45027428 TTTTATTATATATTA
1 TTTTATTATATACTA
45027443 TATTATATTATAT
1 T-TT-TATTATAT
45027456 TAATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 9 0.38
16 2 0.08
17 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATTATATACTA
Found at i:45027444 original size:5 final size:5
Alignment explanation
Indices: 45027436--45027472 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
45027426 TATTTTATTA
45027436 TATAT TATAT TATAT TATAT TA-AT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
45027473 TATATCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:45027463 original size:19 final size:17
Alignment explanation
Indices: 45027416--45027477 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 17
45027406 TTTTTATGTT
*
45027416 TTATATA-TACTATTTTA
1 TTATATATTA-TATTATA
45027433 TTATATATTATATTATA
1 TTATATATTATATTATA
45027450 TTATATTAATTATATTATA
1 TTATA-T-ATTATATTATA
45027469 TTATTATAT
1 TTA-TATAT
45027478 CTTAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 18 0.45
18 5 0.12
19 15 0.38
20 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATTATATTATA
Found at i:45027473 original size:22 final size:21
Alignment explanation
Indices: 45027416--45027477 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
45027406 TTTTTATGTT
* *
45027416 TTATATATACTATTTTATTATA
1 TTAT-TATATTATATTATTATA
45027438 -TATTATATTATATTA-TAT-
1 TTATTATATTATATTATTATA
*
45027456 TAATTATATTATATTATTATA
1 TTATTATATTATATTATTATA
45027477 T
1 T
45027478 CTTAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 17 0.50
20 13 0.38
21 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATATTATATTATTATA
Found at i:45027726 original size:16 final size:16
Alignment explanation
Indices: 45027705--45027739 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45027695 AGACGAAAAA
* *
45027705 AAAGAAAGGAAAGGGG
1 AAAGAAAAGAAAAGGG
45027721 AAAGAAAAGAAAAGGG
1 AAAGAAAAGAAAAGGG
45027737 AAA
1 AAA
45027740 AACTAGGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AAAGAAAAGAAAAGGG
Found at i:45028703 original size:27 final size:28
Alignment explanation
Indices: 45028645--45028703 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 28
45028635 ATCTAATTCC
**
45028645 TTATTGGTGTGTTTGGGAGGATATGATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
* *
45028673 -TATTGGTGTGTTAATGAGGAT-TTATA
1 TTATTGGTGTGTTAAGGAGGATATGATA
45028699 TTATT
1 TTATT
45028704 TCAAGTGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (28 bp):
TTATTGGTGTGTTAAGGAGGATATGATA
Found at i:45032168 original size:15 final size:15
Alignment explanation
Indices: 45032145--45032186 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
45032135 GATTTTTATG
45032145 TTTTA-TATATACTA
1 TTTTATTATATACTA
*
45032159 TTTTATTATATATTA
1 TTTTATTATATACTA
45032174 TATTATATTATAT
1 T-TT-TATTATAT
45032187 TAATTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 5 0.21
15 9 0.38
16 2 0.08
17 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTTATTATATACTA
Found at i:45032175 original size:5 final size:5
Alignment explanation
Indices: 45032167--45032203 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
45032157 TATTTTATTA
45032167 TATAT TATAT TATAT TATAT TA-AT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
45032204 TATATCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:45032194 original size:19 final size:17
Alignment explanation
Indices: 45032147--45032208 Score: 72
Period size: 17 Copynumber: 3.5 Consensus size: 17
45032137 TTTTTATGTT
*
45032147 TTATATA-TACTATTTTA
1 TTATATATTA-TATTATA
45032164 TTATATATTATATTATA
1 TTATATATTATATTATA
45032181 TTATATTAATTATATTATA
1 TTATA-T-ATTATATTATA
45032200 TTATTATAT
1 TTA-TATAT
45032209 CTTAAATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 18 0.45
18 5 0.12
19 15 0.38
20 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATATATTATATTATA
Done.