Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 401 of 444
Found at i:116544618 original size:28 final size:28
Alignment explanation
Indices: 116544549--116544649 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
116544539 GACAAGATTG
* * * *
116544549 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
116544579 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
116544607 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
116544636 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116544650 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:116544643 original size:29 final size:28
Alignment explanation
Indices: 116544578--116544649 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
116544568 AAAATTGTAC
*
116544578 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
116544606 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
116544635 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
116544650 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:116547784 original size:39 final size:38
Alignment explanation
Indices: 116547729--116547816 Score: 167
Period size: 39 Copynumber: 2.3 Consensus size: 38
116547719 ATAGACATGC
116547729 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
116547767 ATTGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 A-TGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
116547806 ATGTTCGGCCA
1 ATGTTCGGCCA
116547817 TAGGTAAGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
38 11 0.22
39 38 0.78
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:116548505 original size:40 final size:40
Alignment explanation
Indices: 116548411--116548635 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
116548401 TATTCGAATG
*
116548411 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
116548452 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
116548492 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
116548532 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
116548572 ATATCCGGGCTAAG-TCCCGAAGGCATCTGTGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
116548612 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
116548636 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 128 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:116548585 original size:80 final size:80
Alignment explanation
Indices: 116548411--116548671 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
116548401 TATTCGAATG
* * * * *
116548411 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
116548476 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * *
116548492 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGAGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
116548557 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * *
116548572 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
116548637 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
116548651 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
116548672 ATTACTTGAG
Statistics
Matches: 156, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 13 0.08
79 14 0.09
80 97 0.62
81 32 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:116548625 original size:120 final size:120
Alignment explanation
Indices: 116548411--116548662 Score: 327
Period size: 120 Copynumber: 2.1 Consensus size: 120
116548401 TATTCGAATG
* * *
116548411 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
* * *
116548476 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-AGATT
66 ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGTAG-TT
* * *
116548532 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGAT-CCGAAGG
*
116548595 CA-TCTGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTC-GTGCGAGTTG-CCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
116548651 ATATCC-GGCTAA
1 ATATCCGGGCTAA
116548663 ATCCTGAAGA
Statistics
Matches: 117, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
118 6 0.05
119 21 0.18
120 58 0.50
121 32 0.27
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCGTGCGAGTTGCCATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
Found at i:116552791 original size:22 final size:22
Alignment explanation
Indices: 116552757--116552798 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
116552747 TGCGATATTC
*
116552757 ACGGCCTTTAGCCGTCCTGTCT
1 ACGGCCTTAAGCCGTCCTGTCT
*
116552779 ACGGCGTTAAGCCGTCCTGT
1 ACGGCCTTAAGCCGTCCTGT
116552799 TGACTTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.33, G:0.26, T:0.29
Consensus pattern (22 bp):
ACGGCCTTAAGCCGTCCTGTCT
Found at i:116552987 original size:27 final size:27
Alignment explanation
Indices: 116552940--116552991 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
116552930 TATCTGATAT
* *
116552940 TGATTCTGTATTGGGCTTAGGCCCACC
1 TGATTCTGTAATGGGCATAGGCCCACC
116552967 TGATTCTGTTAATGGG-ATAGGCCCA
1 TGATTCTG-TAATGGGCATAGGCCCA
116552992 ACTGTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (27 bp):
TGATTCTGTAATGGGCATAGGCCCACC
Found at i:116564574 original size:69 final size:69
Alignment explanation
Indices: 116564478--116564615 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
116564468 CCATAGATCG
116564478 AGTTAATGCAACCCTAGAGTGTTAATTACAGAAAAGTCTCGGTTATTCAATCTAGGGATTAGACG
1 AGTTAATGCAACCCTAGAGTGTTAATTACAGAAAAGTCTCGGTTATTCAATCTAGGGATTAGACG
116564543 TTAT
66 TTAT
*
116564547 AGTTAATGCAACCCTAGAGTGTTAATTAGAGAAAAGTCTCGGTTATTCAATCTAGGGATTAGACG
1 AGTTAATGCAACCCTAGAGTGTTAATTACAGAAAAGTCTCGGTTATTCAATCTAGGGATTAGACG
116564612 TTAT
66 TTAT
116564616 TAGTCTTGAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (69 bp):
AGTTAATGCAACCCTAGAGTGTTAATTACAGAAAAGTCTCGGTTATTCAATCTAGGGATTAGACG
TTAT
Found at i:116574691 original size:55 final size:55
Alignment explanation
Indices: 116574631--116574743 Score: 136
Period size: 55 Copynumber: 2.1 Consensus size: 55
116574621 CCCGTGTTAA
* * * *
116574631 TTTAACATGTTCGACCACGGGTGTTTCACACGGGCGTGTCGCACACCCGTGCTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCGCACACCCGTGCTGT
* * * * * *
116574686 TTTAACAGGTTTGCCCACGGTTCTTCCACATGGGCATGTCGCACGCCCGTGTTGT
1 TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCGCACACCCGTGCTGT
116574741 TTT
1 TTT
116574744 GGCAGGCTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (55 bp):
TTTAACAGGTTCGACCACGGGTCTTCCACACGGGCATGTCGCACACCCGTGCTGT
Found at i:116574759 original size:55 final size:55
Alignment explanation
Indices: 116574657--116574760 Score: 136
Period size: 55 Copynumber: 1.9 Consensus size: 55
116574647 ACGGGTGTTT
* *
116574657 CACACGGGCGTGTCGCACACCCGTGCTGTTTTAACAGGTTTGCCCACGGTTCTTC
1 CACACGGGCATGTCGCACACCCGTGCTGTTTTAACAGGCTTGCCCACGGTTCTTC
* * * ** *
116574712 CACATGGGCATGTCGCACGCCCGTGTTGTTTTGGCAGGCTTGGCCACGG
1 CACACGGGCATGTCGCACACCCGTGCTGTTTTAACAGGCTTGCCCACGG
116574761 CCATATCGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 41 1.00
ACGTcount: A:0.13, C:0.31, G:0.30, T:0.26
Consensus pattern (55 bp):
CACACGGGCATGTCGCACACCCGTGCTGTTTTAACAGGCTTGCCCACGGTTCTTC
Found at i:116578293 original size:39 final size:40
Alignment explanation
Indices: 116578191--116578702 Score: 504
Period size: 39 Copynumber: 13.0 Consensus size: 40
116578181 GCCTACGGGA
* * * * * *
116578191 CTTTAAGCTCGGATATAGTACCAGTACGAAGCCTACGGA-
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * * * * **
116578230 CCTTAAGTCCGAATATAGTACCAGCACGAAGCCTATGGAT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * *
116578270 C-TTAAGTCAGGATACAATTCCAGCATGAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* *
116578309 CTTTAAGCCCAGATACAATTCCAGCACGAAGCCTGTAGG-T
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTG-CGGAT
*
116578349 CTTTAAGCCCGGATACAAAT-CAGCACGAAGCCTGCGGA-
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * * *
116578387 CCTTAAGTCTGGATACAATTCCAGCACAAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * *
116578427 CTTTAAGCCCGGATATAATTCCAGCA-TATAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGCGGAT
* *
116578467 CTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGTGGA-
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * *
116578506 CCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGA-
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * * *
116578545 CCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* * * *
116578585 CTTTACGCCCGGATATAATTCCAGCA-TATAGCCTGCGGGT
1 CTTTAAGCCCGGATACAATTCCAGCACGA-AGCCTGCGGAT
*
116578625 CTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGA-
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
* *
116578664 CCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGA
1 CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGA
116578703 CCTTAAGTTT
Statistics
Matches: 398, Mismatches: 64, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
38 18 0.05
39 198 0.50
40 178 0.45
41 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (40 bp):
CTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGAT
Found at i:116578392 original size:118 final size:118
Alignment explanation
Indices: 116578250--116578701 Score: 550
Period size: 118 Copynumber: 3.8 Consensus size: 118
116578240 GAATATAGTA
** * * * * *
116578250 CCAGCACGAAGCCTATGGATCTTAAGTCAGGATACAATTCCAGCATGAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAA
* ** *
116578315 GCCCAGATACAATTCCAGCACGAAGCCTGTAGGTCTTTAAGCCCGGATACAAAT
65 GCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
116578369 -CAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAA
* *
116578433 GCCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
65 GCCCGGATACAATTCCAGCACGA-AGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
116578487 CCAGCACGAAGCTTGTGGACCTTAAGTCCGGATACAATTCCAGCATGAAGCCTGCAGACCTTAAG
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
* * * * *
116578552 TCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTACGCCCGGATATAATT
66 CCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * * *
116578605 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGACCTTA
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTA
*
116578669 AGTCCGGATACAATTCCAGCACGAAGCCTGCGG
64 AGCCCGGATACAATTCCAGCACGAAGCCTGCGG
116578702 ACCTTAAGTT
Statistics
Matches: 291, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
117 2 0.01
118 167 0.57
119 122 0.42
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.22
Consensus pattern (118 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
CCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:116578467 original size:158 final size:158
Alignment explanation
Indices: 116578211--116578710 Score: 745
Period size: 158 Copynumber: 3.2 Consensus size: 158
116578201 GGATATAGTA
* * * * * * ** *
116578211 CCAGTACGAAGCCTACGGACCTTAAGTCCGAATATAGTACCAGCACGAAGCCTATGGATC-TTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
* * * *
116578275 GTCAGGATACAATTCCAGCATGA-AGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCACGAA
66 GCCCGGATATAATTCCAGCAT-ATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAA
* * * * *
116578339 GCCTGTAGGTCTTTAAGCCCGGATACAAAT
130 GCTTGT-GGACCTTAAGTCCGGATACAATT
* *
116578369 -CAGCACGAAGCCTGCGGACCTTAAGTCTGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
116578433 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
66 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
116578498 CTTGTGGACCTTAAGTCCGGATACAATT
131 CTTGTGGACCTTAAGTCCGGATACAATT
* * *
116578526 CCAGCATGAAGCCTGCAGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAC
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
116578591 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
66 GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
*
116578656 CTTGCGGACCTTAAGTCCGGATACAATT
131 CTTGTGGACCTTAAGTCCGGATACAATT
116578684 CCAGCACGAAGCCTGCGGACCTTAAGT
1 CCAGCACGAAGCCTGCGGACCTTAAGT
116578711 TTGGATATAC
Statistics
Matches: 311, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
157 68 0.22
158 243 0.78
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (158 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGAATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
GCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAG
CTTGTGGACCTTAAGTCCGGATACAATT
Found at i:116581719 original size:6 final size:6
Alignment explanation
Indices: 116581698--116581828 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
116581688 AAGAAACATT
* * *
116581698 ATCAGA A-CTAGA ATCAGG ATCAGA ATCAGA ATCAGA ATTAGA ATTAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
116581745 GTGACAGA ATCAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
116581796 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
116581829 GTGAATGCAA
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.06
6 82 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:116581719 original size:18 final size:18
Alignment explanation
Indices: 116581698--116581825 Score: 82
Period size: 19 Copynumber: 6.9 Consensus size: 18
116581688 AAGAAACATT
116581698 ATCAGAA-CTAGAATCAGG
1 ATCAGAATC-AGAATCAGG
*
116581716 ATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGG
* * * *
116581734 ATTAGAATTAG-GTGACAGA
1 ATCAGAATCAGAAT--CAGG
*
116581753 ATCAGAATCAGAATCAGT
1 ATCAGAATCAGAATCAGG
**
116581771 ATCAGGTAA-CAGAATCAAA
1 ATCA-G-AATCAGAATCAGG
*
116581790 ATCAGAATCAGTATCAGG
1 ATCAGAATCAGAATCAGG
* *
116581808 TAACAGAATCAAAATCAG
1 -ATCAGAATCAGAATCAG
116581826 AATGTGAATG
Statistics
Matches: 86, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
17 3 0.03
18 39 0.45
19 41 0.48
20 3 0.03
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGG
Found at i:116581756 original size:31 final size:31
Alignment explanation
Indices: 116581710--116581828 Score: 168
Period size: 31 Copynumber: 3.9 Consensus size: 31
116581700 CAGAACTAGA
* * * *
116581710 ATCAGG-ATCAGAATCAGAATCAGAATTAGA
1 ATCAGGTAACAGAATCAAAATCAGAATCAGT
* * *
116581740 ATTAGGTGACAGAATCAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAAAATCAGAATCAGT
116581771 ATCAGGTAACAGAATCAAAATCAGAATCAGT
1 ATCAGGTAACAGAATCAAAATCAGAATCAGT
116581802 ATCAGGTAACAGAATCAAAATCAGAAT
1 ATCAGGTAACAGAATCAAAATCAGAAT
116581829 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
ATCAGGTAACAGAATCAAAATCAGAATCAGT
Found at i:116582278 original size:27 final size:27
Alignment explanation
Indices: 116582258--116582883 Score: 850
Period size: 27 Copynumber: 23.2 Consensus size: 27
116582248 GGGTTTCTCG
116582258 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582285 GT-ATTCCTACCCTACAAGGGTATTTCA
1 GTAATT-CTACCCTACAGGGGTATTTCA
116582312 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
116582339 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
116582365 GATAATTCTACCCTACAGGGGTATTTC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
116582392 GATAATTCTACCCTACAGGGGTATTTC-
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
116582419 GATAGTTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
116582447 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
116582474 GTAATTCTACCTTACAGGGATATTT-T
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582500 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
116582528 GTAATTCTACCATATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582555 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
116582582 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582609 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
116582636 GTAATTCTACACTACAGGGGTA-TTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
116582662 GTAATTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
116582689 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582716 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
116582743 GTAATTGTACCTTGCAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
116582770 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
116582797 GTAATTCTACTCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
116582824 GTAATTTTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
116582851 GTAATTCTACCTTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
116582878 GTAATT
1 GTAATT
116582884 TTACAAATCG
Statistics
Matches: 542, Mismatches: 50, Indels: 14
0.89 0.08 0.02
Matches are distributed among these distances:
26 27 0.05
27 510 0.94
28 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:116582950 original size:27 final size:27
Alignment explanation
Indices: 116582868--116582956 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
116582858 TACCTTATAA
* *
116582868 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAACTCGG
* * *
116582895 GGATATTTGGGTAATTTTATAAAC-CGG
1 GGGTATTTCGGTAATTTTA-CAACTCGG
*
116582922 GGGTACTTT-GGTAATTTTACAACT-AG
1 GGGTA-TTTCGGTAATTTTACAACTCGG
116582948 GGGTATTTC
1 GGGTATTTC
116582957 AGTATTTGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
25 3 0.06
26 9 0.18
27 33 0.66
28 5 0.10
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAACTCGG
Found at i:116586059 original size:28 final size:28
Alignment explanation
Indices: 116586013--116586081 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
116586003 TTTAAAACCC
*
116586013 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116586040 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116586068 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
116586082 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:116587857 original size:12 final size:12
Alignment explanation
Indices: 116587842--116587866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
116587832 ACAGTAAATA
116587842 ATAAAAATTTTC
1 ATAAAAATTTTC
116587854 ATAAAAATTTTC
1 ATAAAAATTTTC
116587866 A
1 A
116587867 AACATACATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAAAAATTTTC
Found at i:116587917 original size:19 final size:18
Alignment explanation
Indices: 116587880--116587923 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
116587870 ATACATACAG
116587880 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
116587897 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
116587916 TACTAATT
1 TAATAATT
116587924 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:116594113 original size:21 final size:21
Alignment explanation
Indices: 116594089--116594151 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
116594079 CCAATCAAGC
116594089 TAAGTGTTGAACCTAAATATA
1 TAAGTGTTGAACCTAAATATA
116594110 TAAGTGTTGAACCTAAATATA
1 TAAGTGTTGAACCTAAATATA
116594131 TAAGTGTTGAACCTAAATATA
1 TAAGTGTTGAACCTAAATATA
116594152 CAACTCCCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (21 bp):
TAAGTGTTGAACCTAAATATA
Found at i:116595395 original size:23 final size:23
Alignment explanation
Indices: 116595355--116595398 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
116595345 AAATCAACCA
** *
116595355 TTTCATTTAGTCATTCAAAACTC
1 TTTCATTTACACAATCAAAACTC
116595378 TTTCATTTACACAATCAAAAC
1 TTTCATTTACACAATCAAAAC
116595399 CAAGCCAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTCATTTACACAATCAAAACTC
Found at i:116598096 original size:2 final size:2
Alignment explanation
Indices: 116598089--116598113 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116598079 TCATGCTAAA
116598089 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
116598114 AGAAAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:116605017 original size:29 final size:28
Alignment explanation
Indices: 116604985--116605087 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
116604975 GTGACGAGAT
* *
116604985 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
116605014 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
116605043 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
116605072 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
116605088 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:116612226 original size:29 final size:28
Alignment explanation
Indices: 116612194--116612296 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
116612184 GTGACGAGAT
* *
116612194 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
116612223 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
116612252 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
116612281 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
116612297 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:116623478 original size:17 final size:17
Alignment explanation
Indices: 116623456--116623493 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
116623446 TTCATTCCCC
116623456 TTAGGTATTTAGGGGGT
1 TTAGGTATTTAGGGGGT
116623473 TTAGGTATTTAGGGGGT
1 TTAGGTATTTAGGGGGT
116623490 TTAG
1 TTAG
116623494 TTCATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (17 bp):
TTAGGTATTTAGGGGGT
Found at i:116625663 original size:21 final size:21
Alignment explanation
Indices: 116625638--116625678 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
116625628 ATGAGTCTTC
*
116625638 AAAAATAAATAGAAATAAAAGT
1 AAAAA-AAATAAAAATAAAAGT
116625660 AAAAAAAATAAAAATAAAA
1 AAAAAAAATAAAAATAAAA
116625679 TGAGTCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAAAAAATAAAAATAAAAGT
Found at i:116625678 original size:15 final size:15
Alignment explanation
Indices: 116625638--116625678 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
116625628 ATGAGTCTTC
*
116625638 AAAAATAAATAGAAAT
1 AAAAATAAA-AAAAAT
*
116625654 AAAAGTAAAAAAAAT
1 AAAAATAAAAAAAAT
116625669 AAAAATAAAA
1 AAAAATAAAA
116625679 TGAGTCTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAATAAAAAAAAT
Found at i:116637395 original size:17 final size:18
Alignment explanation
Indices: 116637366--116637399 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
116637356 TGTGGTTCAC
116637366 CCGTGTGGGCCTACACGT
1 CCGTGTGGGCCTACACGT
116637384 CCGTGT-GGCCTACACG
1 CCGTGTGGGCCTACACG
116637400 GCCCAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (18 bp):
CCGTGTGGGCCTACACGT
Found at i:116639943 original size:44 final size:44
Alignment explanation
Indices: 116639812--116640093 Score: 323
Period size: 45 Copynumber: 6.3 Consensus size: 44
116639802 GCCACAGCAC
* * * * *
116639812 CTTTCAGATATGGTCTTACGCGTTAGAATCGTGATGCTATAACGT
1 CTTTCAGCTATGGTCTTAC-TGTTAAAATCATGATGCCATAACGT
* * *
116639857 CTTTTAGCTATGGTCTTACTCGTTAAAATCATGATGCAATAATGT
1 CTTTCAGCTATGGTCTTACT-GTTAAAATCATGATGCCATAACGT
* *
116639902 CTTTCAGCTATGGGCTTACTGTTAAAATCATGATGCCATAATGT
1 CTTTCAGCTATGGTCTTACTGTTAAAATCATGATGCCATAACGT
* *
116639946 CTTTCAGCTATGGTCTTACTGTTTAAATCATGATGCCATAACGA
1 CTTTCAGCTATGGTCTTACTGTTAAAATCATGATGCCATAACGT
* * *
116639990 CTTTCAGGTATGGTCTTACTCGTTAAAATCATGATGTCATAACAT
1 CTTTCAGCTATGGTCTTACT-GTTAAAATCATGATGCCATAACGT
* *** *
116640035 CTTTCAGCTATGTTCTTACTCGTTTCCA-CTATGATGCCATAACAT
1 CTTTCAGCTATGGTCTTACT-GTTAAAATC-ATGATGCCATAACGT
*
116640080 CTTTCAACTATGGT
1 CTTTCAGCTATGGT
116640094 TTTATTCAAT
Statistics
Matches: 207, Mismatches: 27, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
44 83 0.40
45 124 0.60
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (44 bp):
CTTTCAGCTATGGTCTTACTGTTAAAATCATGATGCCATAACGT
Found at i:116639964 original size:89 final size:89
Alignment explanation
Indices: 116639812--116640058 Score: 325
Period size: 89 Copynumber: 2.8 Consensus size: 89
116639802 GCCACAGCAC
* * * * *
116639812 CTTTCAGATATGGTCTTACGCGTTAGAATCGTGATGCTATAACGTCTTTTAGCTATGGTCTTACT
1 CTTTCAGATATGGTCTTAC-TGTTAAAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTACT
* *
116639877 CGTTAAAATCATGATGCAATAATGT
65 CGTTAAAATCATGATGCAATAACGA
* * *
116639902 CTTTCAGCTATGGGCTTACTGTTAAAATCATGATGCCATAATGTCTTTCAGCTATGGTCTTACT-
1 CTTTCAGATATGGTCTTACTGTTAAAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTC
* *
116639966 GTTTAAATCATGATGCCATAACGA
66 GTTAAAATCATGATGCAATAACGA
* * * *
116639990 CTTTCAGGTATGGTCTTACTCGTTAAAATCATGATGTCATAACATCTTTCAGCTATGTTCTTACT
1 CTTTCAGATATGGTCTTACT-GTTAAAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTACT
116640055 CGTT
65 CGTT
116640059 TCCACTATGA
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
88 38 0.28
89 79 0.58
90 20 0.15
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (89 bp):
CTTTCAGATATGGTCTTACTGTTAAAATCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTC
GTTAAAATCATGATGCAATAACGA
Found at i:116640069 original size:45 final size:45
Alignment explanation
Indices: 116639776--116640093 Score: 322
Period size: 45 Copynumber: 7.1 Consensus size: 45
116639766 TTTTTCAATC
* * * * * * * *
116639776 ATGGTCTTATTCGTCTGATTCATGATGCCACAGCACCTTTCAGAT
1 ATGGTCTTACTCGTTTAAATCATGATGCCATAACATCTTTCAGCT
* * * * *
116639821 ATGGTCTTACGCG-TTAGAATCGTGATGCTATAACGTCTTTTAGCT
1 ATGGTCTTACTCGTTTA-AATCATGATGCCATAACATCTTTCAGCT
* * **
116639866 ATGGTCTTACTCGTTAAAATCATGATGCAATAATGTCTTTCAGCT
1 ATGGTCTTACTCGTTTAAATCATGATGCCATAACATCTTTCAGCT
* * **
116639911 ATGGGCTTACT-GTTAAAATCATGATGCCATAATGTCTTTCAGCT
1 ATGGTCTTACTCGTTTAAATCATGATGCCATAACATCTTTCAGCT
*
116639955 ATGGTCTTACT-GTTTAAATCATGATGCCATAACGA-CTTTCAGGT
1 ATGGTCTTACTCGTTTAAATCATGATGCCATAAC-ATCTTTCAGCT
* *
116639999 ATGGTCTTACTCGTTAAAATCATGATGTCATAACATCTTTCAGCT
1 ATGGTCTTACTCGTTTAAATCATGATGCCATAACATCTTTCAGCT
* ** *
116640044 ATGTTCTTACTCGTTTCCA-CTATGATGCCATAACATCTTTCAACT
1 ATGGTCTTACTCGTTTAAATC-ATGATGCCATAACATCTTTCAGCT
116640089 ATGGT
1 ATGGT
116640094 TTTATTCAAT
Statistics
Matches: 231, Mismatches: 36, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
44 84 0.36
45 145 0.63
46 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (45 bp):
ATGGTCTTACTCGTTTAAATCATGATGCCATAACATCTTTCAGCT
Found at i:116640089 original size:24 final size:24
Alignment explanation
Indices: 116640020--116640091 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
116640010 CGTTAAAATC
*
116640020 ATGATGTCATAACATCTTTCAGCT
1 ATGATGTCATAACATCTTTCAACT
* *
116640044 ATG-T-TC-TTAC-TCGTTTCCACT
1 ATGATGTCATAACATC-TTTCAACT
*
116640065 ATGATGCCATAACATCTTTCAACT
1 ATGATGTCATAACATCTTTCAACT
116640089 ATG
1 ATG
116640092 GTTTTATTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 2 0.05
21 12 0.32
22 3 0.08
23 2 0.05
24 16 0.43
25 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (24 bp):
ATGATGTCATAACATCTTTCAACT
Found at i:116644657 original size:35 final size:35
Alignment explanation
Indices: 116644611--116644681 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
116644601 TAGAGTTTAT
116644611 TACGCATTGTATAAGCTTTGTCTCGTAATCAAAAA
1 TACGCATTGTATAAGCTTTGTCTCGTAATCAAAAA
116644646 TACGCATTGTATAAGCTTTGTCTCGTAATCAAAAA
1 TACGCATTGTATAAGCTTTGTCTCGTAATCAAAAA
116644681 T
1 T
116644682 GGTCAATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (35 bp):
TACGCATTGTATAAGCTTTGTCTCGTAATCAAAAA
Found at i:116648385 original size:28 final size:28
Alignment explanation
Indices: 116648320--116648420 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
116648310 ATAGTGAATC
*
116648320 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
116648349 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
116648377 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
116648407 CGCACACTTAGTGC
1 CGCACACTTAGTGC
116648421 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:116662956 original size:125 final size:125
Alignment explanation
Indices: 116662732--116662956 Score: 290
Period size: 125 Copynumber: 1.8 Consensus size: 125
116662722 CATGCATACA
* * * * ** *
116662732 GATTTGATGATAACATGATCGAATGTCAAGTTTAGAGAAAAACATTGTCTAACCAAGCTTGTCTA
1 GATTTGATAATAACATAATCGAAGGTCAAGTTTAAAGAAAAACATTACCTAACCAAGCTTGCCTA
* * *
116662797 ATAGTTCTTCTATTAATGGAATAGGGAAGTTGTCTTGTGTATATCCCCTTTATGCATGTG
66 ATAGTTCATCTATTAATGGAATAGAGAAGCTGTCTTGTGTATATCCCCTTTATGCATGTG
* * * *
116662857 GATTTGATAATAACCTAATTGAAGGTCAAGTTTAAAGAAAAATATTACCTGACCAAGCTTGCCTA
1 GATTTGATAATAACATAATCGAAGGTCAAGTTTAAAGAAAAACATTACCTAACCAAGCTTGCCTA
* *
116662922 ATAGCTT-ATCTATTACTGGAATCGAGAAGCTGTCT
66 ATAG-TTCATCTATTAATGGAATAGAGAAGCTGTCT
116662957 CTGATAGTCA
Statistics
Matches: 83, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
125 81 0.98
126 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (125 bp):
GATTTGATAATAACATAATCGAAGGTCAAGTTTAAAGAAAAACATTACCTAACCAAGCTTGCCTA
ATAGTTCATCTATTAATGGAATAGAGAAGCTGTCTTGTGTATATCCCCTTTATGCATGTG
Found at i:116671039 original size:23 final size:23
Alignment explanation
Indices: 116671009--116671055 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
116670999 ACTAAAAGTA
116671009 TACTTTTAACTCTTCATTCTCCT
1 TACTTTTAACTCTTCATTCTCCT
116671032 TACTTTTAACTCTTCATTCTCCT
1 TACTTTTAACTCTTCATTCTCCT
116671055 T
1 T
116671056 CAATTACTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.17, C:0.30, G:0.00, T:0.53
Consensus pattern (23 bp):
TACTTTTAACTCTTCATTCTCCT
Found at i:116671066 original size:21 final size:23
Alignment explanation
Indices: 116671014--116671066 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
116671004 AAGTATACTT
**
116671014 TTAACTCTTCATTCTCCTTACTT
1 TTAACTCTTCATTCTCCTTACAA
116671037 TTAACTCTTCATTCTCCTT-CAA
1 TTAACTCTTCATTCTCCTTACAA
116671059 TT-ACTCTT
1 TTAACTCTT
116671067 ATGTGATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 3 0.11
23 19 0.68
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAACTCTTCATTCTCCTTACAA
Found at i:116678872 original size:20 final size:20
Alignment explanation
Indices: 116678824--116678875 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
116678814 AGAAAAAGCT
* *
116678824 TTTACCAAAATATCTAACGA
1 TTTACCAATATTTCTAACGA
*
116678844 TTTACCAATATTTCTAAGGA
1 TTTACCAATATTTCTAACGA
*
116678864 TTTATCAATATT
1 TTTACCAATATT
116678876 GACTTTACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.40
Consensus pattern (20 bp):
TTTACCAATATTTCTAACGA
Found at i:116679164 original size:5 final size:5
Alignment explanation
Indices: 116679154--116679181 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
116679144 AAACAGGAAA
116679154 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
116679182 TTATAAGACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:116682766 original size:21 final size:21
Alignment explanation
Indices: 116682740--116682780 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
116682730 TCCAGCAACC
*
116682740 AAACACTCTCATTCCAGCTCT
1 AAACACTCCCATTCCAGCTCT
*
116682761 AAACACTCCCATTCCGGCTC
1 AAACACTCCCATTCCAGCTC
116682781 CTGTCCAGCA
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:0.27, C:0.41, G:0.07, T:0.24
Consensus pattern (21 bp):
AAACACTCCCATTCCAGCTCT
Found at i:116691106 original size:3 final size:3
Alignment explanation
Indices: 116691098--116691131 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
116691088 CAATTTAACA
116691098 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
116691132 CAATTGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:116691274 original size:16 final size:16
Alignment explanation
Indices: 116691255--116691286 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
116691245 ACCAAAGAAA
116691255 ATTTCCATTGAAAATT
1 ATTTCCATTGAAAATT
*
116691271 ATTTTCATTGAAAATT
1 ATTTCCATTGAAAATT
116691287 CTAACTTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
ATTTCCATTGAAAATT
Found at i:116693084 original size:20 final size:20
Alignment explanation
Indices: 116693043--116693091 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
116693033 GTGGATGTCT
*
116693043 TTAGTTTAATTAAAGCATGA
1 TTAGTTTAATTAAAGCAAGA
*
116693063 TTAGTGTTAGTTAAA-CAAGA
1 TTAGT-TTAATTAAAGCAAGA
*
116693083 TTAATTTAA
1 TTAGTTTAA
116693092 CTAATTAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 13 0.54
21 8 0.33
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (20 bp):
TTAGTTTAATTAAAGCAAGA
Found at i:116699867 original size:93 final size:93
Alignment explanation
Indices: 116699755--116699926 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
116699745 GCCCATAAGT
* *
116699755 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
116699820 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
116699848 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
116699913 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
116699927 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:116699922 original size:46 final size:46
Alignment explanation
Indices: 116699747--116699922 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
116699737 TGTAACCCGC
* * *
116699747 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
116699793 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
116699843 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
116699886 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
116699923 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:116704314 original size:71 final size:71
Alignment explanation
Indices: 116704228--116704391 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
116704218 CGATTTGTCT
116704228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
116704293 CTTTCA
66 CTTTCA
116704299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
116704364 CTTTCA
66 CTTTCA
116704370 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
116704392 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:116704429 original size:71 final size:70
Alignment explanation
Indices: 116704228--116704425 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
116704218 CGATTTGTCT
* * * *
116704228 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
116704293 CTTTCA
65 CTTTCA
* * * *
116704299 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
116704364 CTTTCA
65 CTTTCA
* *
116704370 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
116704426 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:116711881 original size:71 final size:71
Alignment explanation
Indices: 116711795--116711957 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
116711785 CGATTTGTCT
116711795 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
116711860 CTTTCA
66 CTTTCA
116711866 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
116711931 CTTTCA
66 CTTTCA
116711937 CGTAGCTCTCTT-TCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
116711958 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 9 0.10
71 83 0.90
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:116715490 original size:10 final size:11
Alignment explanation
Indices: 116715475--116715522 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
116715465 ATTTCGATAT
*
116715475 ACATGATTTG-
1 ACATGATATGC
116715485 ACATGATATGC
1 ACATGATATGC
116715496 ACATGATATG-
1 ACATGATATGC
*
116715506 -TATGATATGC
1 ACATGATATGC
116715516 ACATGAT
1 ACATGAT
116715523 GTATTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:116715601 original size:24 final size:26
Alignment explanation
Indices: 116715569--116715664 Score: 128
Period size: 26 Copynumber: 3.8 Consensus size: 26
116715559 GATGAAGTGC
*
116715569 AAAAGGGC-TATGCCCCAG-TTACAG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
*
116715593 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACAG
116715618 AAAAGGGCTTTTGCCCCAGTTTATCA-
1 AAAAGGGCTTTTGCCCCAGTTTA-CAG
*
116715644 AAAAGAGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
116715665 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
24 17 0.26
25 13 0.20
26 34 0.52
27 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACAG
Found at i:116715923 original size:31 final size:31
Alignment explanation
Indices: 116715885--116715967 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 31
116715875 TTGTTATAGT
116715885 AAAGGCTTCGGCCCAGTGATATGAATAACGA
1 AAAGGCTTCGGCCCAGTGATATGAATAACGA
* *
116715916 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAACGA
116715947 AAAGGCTTCGGCCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
116715968 ACTGAGATTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAACGA
Found at i:116723594 original size:11 final size:10
Alignment explanation
Indices: 116723563--116723615 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
116723553 ATGAGATTTC
116723563 GATAT-ACAT
1 GATATGACAT
*
116723572 GATTTGACAT
1 GATATGACAT
116723582 GATATGCACAT
1 GATATG-ACAT
*
116723593 GATATG-TAT
1 GATATGACAT
116723602 GATATGTACAT
1 GATATG-ACAT
116723613 GAT
1 GAT
116723616 GTATTCATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 12 0.33
10 9 0.25
11 15 0.42
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (10 bp):
GATATGACAT
Found at i:116723731 original size:26 final size:25
Alignment explanation
Indices: 116723662--116723747 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 25
116723652 GAGGAAGTGC
* *
116723662 AAAAGGGCTATGCCCCAG-TTACAG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
116723686 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
116723711 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
116723737 AAAAGGGCTTT
1 AAAAGGGCTTT
116723748 TGTAACATCC
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
24 16 0.30
25 16 0.30
26 22 0.41
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:116725441 original size:25 final size:24
Alignment explanation
Indices: 116725408--116725455 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
116725398 TTATAATATG
* * *
116725408 AAAAAGACCGTTTTGCCCCTAGGT
1 AAAAAGACCATTATACCCCTAGGT
116725432 AAAAATGACCATTATACCCCTAGG
1 AAAAA-GACCATTATACCCCTAGG
116725456 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (24 bp):
AAAAAGACCATTATACCCCTAGGT
Found at i:116725517 original size:20 final size:20
Alignment explanation
Indices: 116725492--116725558 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
116725482 ATTTTGATAT
116725492 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
116725512 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
116725532 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
116725552 ACATGAT
1 ACATGAT
116725559 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:116725519 original size:11 final size:11
Alignment explanation
Indices: 116725503--116725558 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
116725493 CATGATTGAT
116725503 ATGATATGCAC
1 ATGATATGCAC
*
116725514 ATGATATG--T
1 ATGATATGCAC
*
116725523 ATGGTATGCAC
1 ATGATATGCAC
*
116725534 ATGATATG--T
1 ATGATATGCAC
116725543 ATGATATGCAC
1 ATGATATGCAC
116725554 ATGAT
1 ATGAT
116725559 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:116725619 original size:23 final size:25
Alignment explanation
Indices: 116725589--116725642 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
116725579 TTGGGTCCCC
**
116725589 AGTTATTAAAAG-GGCTTTGCC-CT
1 AGTTATTAAAAGAGGCTAGGCCTCT
116725612 AGTTATTAAAAGAGGCTAGGCCTCT
1 AGTTATTAAAAGAGGCTAGGCCTCT
116725637 AGTTAT
1 AGTTAT
116725643 ATGATAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 12 0.44
24 7 0.26
25 8 0.30
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (25 bp):
AGTTATTAAAAGAGGCTAGGCCTCT
Found at i:116728680 original size:11 final size:11
Alignment explanation
Indices: 116728664--116728688 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
116728654 TTTGGTCTTG
116728664 CTAAAACTATA
1 CTAAAACTATA
116728675 CTAAAACTATA
1 CTAAAACTATA
116728686 CTA
1 CTA
116728689 CTGTTCGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (11 bp):
CTAAAACTATA
Found at i:116733895 original size:40 final size:40
Alignment explanation
Indices: 116733749--116733930 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
116733739 TTGAATGATG
* * * *
116733749 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
116733789 TCCGGACTAAGAT-CCGAAGGCATTTGT-CGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116733828 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
116733866 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
116733907 -CCGGGCTATGTCCC-AAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
116733931 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
37 13 0.11
38 21 0.17
39 26 0.21
40 55 0.45
41 8 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:116733952 original size:78 final size:77
Alignment explanation
Indices: 116733802--116733953 Score: 184
Period size: 78 Copynumber: 2.0 Consensus size: 77
116733792 GGACTAAGAT
* * **
116733802 CCGAAGGCATTTGTCGAGTTACTAATTCCGGGCTAAGCCGAAGGCATTGGTGCGAGTTACTAAAT
1 CCGAAGGCATTTGTCGAGTTACTAATACCGGGCTAAGCCCAAGGCATTGGAACGAGTTACTAAAT
116733867 CCGGGTTAAGTC
66 CCGGGTTAAGTC
* *
116733879 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAGGCATTTGAACGAG-TAGCT
1 CCGAAGGCATTTGT-CGAGTTACTAAT-ACCGGGCTAAG-CCCAAGGCATTGGAACGAGTTA-CT
*
116733942 ATATCC-GGTTAA
62 AAATCCGGGTTAA
116733954 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
77 16 0.25
78 26 0.41
79 22 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CCGAAGGCATTTGTCGAGTTACTAATACCGGGCTAAGCCCAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAGTC
Found at i:116741120 original size:40 final size:40
Alignment explanation
Indices: 116741073--116741273 Score: 232
Period size: 40 Copynumber: 5.0 Consensus size: 40
116741063 CGAATGATGT
* * *
116741073 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCC
*
116741113 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
116741153 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
116741192 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
116741232 GGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
116741272 GG
1 GG
116741274 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 37 0.27
40 94 0.68
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:116741193 original size:79 final size:81
Alignment explanation
Indices: 116741073--116741252 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
116741063 CGAATGATGT
* *
116741073 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAG-TCCCGAAGGCATTTG
*
116741136 TGCGAGTTACTA-ATTCC
65 TGCGAGTTACTATA-ACC
* * * **
116741153 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTTGT
116741216 GCGAGTTACTATAACC
66 GCGAGTTACTATAACC
*
116741232 GGGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
116741253 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.68
80 27 0.31
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAACC
Found at i:116741276 original size:79 final size:79
Alignment explanation
Indices: 116741123--116741287 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
116741113 GGACTAAGAT
* **
116741123 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
116741188 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
116741202 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
116741265 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
116741281 CCGAAGG
1 CCGAAGG
116741288 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:116747174 original size:23 final size:23
Alignment explanation
Indices: 116747146--116747189 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
116747136 CTTTCAATTC
*
116747146 CCTTCAGGAGTTTTGGGTTTTTT
1 CCTTCAGGAGTTCTGGGTTTTTT
116747169 CCTTCAGGAGTTCTGGGTTTT
1 CCTTCAGGAGTTCTGGGTTTT
116747190 CTTCATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.48
Consensus pattern (23 bp):
CCTTCAGGAGTTCTGGGTTTTTT
Found at i:116747412 original size:22 final size:22
Alignment explanation
Indices: 116747387--116747432 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
116747377 GATTCAAGTT
*
116747387 AATGCACTTATTCAGATGAGCA
1 AATGCACTTATTCAGAGGAGCA
116747409 AATGCACTTATTCAGAGGAGCA
1 AATGCACTTATTCAGAGGAGCA
116747431 AA
1 AA
116747433 AGTCCCTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (22 bp):
AATGCACTTATTCAGAGGAGCA
Found at i:116752215 original size:32 final size:32
Alignment explanation
Indices: 116752174--116752271 Score: 187
Period size: 32 Copynumber: 3.1 Consensus size: 32
116752164 AGCTGCTAAT
116752174 CAAATATTAGGCTCAATAGCCATCGATGGATC
1 CAAATATTAGGCTCAATAGCCATCGATGGATC
116752206 CAAATATTAGGCTCAATAGCCATCGATGGATC
1 CAAATATTAGGCTCAATAGCCATCGATGGATC
*
116752238 CAAATATTAGGCTTAATAGCCATCGATGGATC
1 CAAATATTAGGCTCAATAGCCATCGATGGATC
116752270 CA
1 CA
116752272 CGGTCGTCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (32 bp):
CAAATATTAGGCTCAATAGCCATCGATGGATC
Found at i:116752607 original size:27 final size:27
Alignment explanation
Indices: 116752576--116752916 Score: 274
Period size: 27 Copynumber: 12.7 Consensus size: 27
116752566 TTATACTATA
**
116752576 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
116752603 GGGGTGTTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
116752630 ACGCTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
116752657 AGACTATTTTGGTAATTTTACAAAAT-A
1 AGGGTATTTCGGTAATTTTAC-AAATCG
**
116752684 AGGGTATTTCAATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
116752711 ATGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * **
116752738 AAGGTGTTTCGGTAATTTTTCAAATTA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
116752765 AGAGTGTTTCGATAATTTCACAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * * *
116752792 AGGGTGTTTAGATAATTTTAAAAATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
116752819 AGGGTATTTTAGTAATTTCAC-AATTG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
116752845 AGGGTGTTTCAGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
116752872 AGGGTATTTTGATAATTTTACAAATC-
1 AGGGTATTTCGGTAATTTTACAAATCG
**
116752898 AGGGGTATTTTAGTAATTT
1 A-GGGTATTTCGGTAATTT
116752917 CTCTTTATTA
Statistics
Matches: 258, Mismatches: 52, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 28 0.11
27 226 0.88
28 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:116752673 original size:81 final size:81
Alignment explanation
Indices: 116752588--116752916 Score: 313
Period size: 81 Copynumber: 4.1 Consensus size: 81
116752578 GGTATTTCAA
*** *** * * *
116752588 TAATTTTACAAATCGGGGGTGTTTTGGTAATTTTACAAATCGACGCTATTTTGGTAATTTTACAA
1 TAATTTTACAAATTAAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
*
116752653 ATCGAGACTATTTTGG
66 ATCGAGAGTATTTTGG
* * * * * *
116752669 TAATTTTACAAAATAAGGGTATTTCAATAATTTTACAAATCGATGGTGTTTCGGTAATTTTACAA
1 TAATTTTACAAATTAAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
* *
116752734 ATCGA-AGGTGTTTCGG
66 ATCGAGA-GTATTTTGG
* * * * * * * *
116752750 TAATTTTTCAAATTAAGAGTGTTTCGATAATTTCACAAATTGAGGGTGTTTAGATAATTTTAAAA
1 TAATTTTACAAATTAAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
* * *
116752815 ATTGAGGGTATTTTAG
66 ATCGAGAGTATTTTGG
* * *
116752831 TAATTTCAC-AATTGAGGGTGTTTCAGTAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
1 TAATTTTACAAATTAAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
* *
116752895 ATC-AGGGGTATTTTAG
66 ATCGA-GAGTATTTTGG
116752911 TAATTT
1 TAATTT
116752917 CTCTTTATTA
Statistics
Matches: 202, Mismatches: 43, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
79 1 0.00
80 66 0.33
81 135 0.67
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
TAATTTTACAAATTAAGGGTGTTTCAATAATTTTACAAATCGAGGGTATTTTGATAATTTTACAA
ATCGAGAGTATTTTGG
Found at i:116753282 original size:28 final size:28
Alignment explanation
Indices: 116753233--116753324 Score: 112
Period size: 28 Copynumber: 3.3 Consensus size: 28
116753223 TGGCCCCTTT
* * * *
116753233 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATGCATATGGCCCATC
* *
116753261 AGGCCCAATTACATGCGTATGGCCCATC
1 AGGCCCAATCACATGCATATGGCCCATC
**
116753289 AGGCCCAATCACATTTATATGGCCCATC
1 AGGCCCAATCACATGCATATGGCCCATC
116753317 AGGCCCAA
1 AGGCCCAA
116753325 CTACTTCTAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.26, C:0.35, G:0.18, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATGCATATGGCCCATC
Found at i:116755596 original size:27 final size:26
Alignment explanation
Indices: 116755566--116755625 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
116755556 CGTGGGCCAA
* * *
116755566 AGCCCATTACAATATCATTTGGGTCAT
1 AGCCCATAACAAAATCAATTGGG-CAT
* *
116755593 AGCCCATAATAAAATCAATTGGGCCT
1 AGCCCATAACAAAATCAATTGGGCAT
116755619 AGCCCAT
1 AGCCCAT
116755626 CTTAGCCTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (26 bp):
AGCCCATAACAAAATCAATTGGGCAT
Found at i:116756221 original size:27 final size:27
Alignment explanation
Indices: 116756181--116756304 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
116756171 ACACTACAAA
*
116756181 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
116756208 GGTGTTTTGGTAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* * *
116756235 GCTATTTCGATAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
* *
116756262 GGTATTCCGGTAATTTTAAAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAG
*
116756289 GGTATTTCAGTAATTT
1 GGTATTTCGGTAATTT
116756305 CTTTTTATTA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATCGAG
Found at i:116756665 original size:28 final size:28
Alignment explanation
Indices: 116756621--116756737 Score: 150
Period size: 28 Copynumber: 4.3 Consensus size: 28
116756611 TGGCCCCTTT
* *
116756621 AGGCCCAATCTCTTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* *
116756649 AGGCCCAATTACATT--CATAG-CCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
116756674 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
* *
116756702 AGGCCCAATCATATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
116756730 AGGCCCAA
1 AGGCCCAA
116756738 CTACTTCCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
25 19 0.24
26 4 0.05
27 3 0.04
28 52 0.67
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:116756696 original size:53 final size:55
Alignment explanation
Indices: 116756621--116756737 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 55
116756611 TGGCCCCTTT
* * *
116756621 AGGCCCAATCTCTTTCACATGGCCCATCAGGCCCAATTACATTCATA-G-CCATC
1 AGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCACATTCATAGGCCCATC
* *
116756674 AGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCATATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCACATTCATA-GGCCCATC
116756730 AGGCCCAA
1 AGGCCCAA
116756738 CTACTTCCCA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
53 42 0.75
55 1 0.02
56 13 0.23
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (55 bp):
AGGCCCAATCACATTCACATGGCCCATCAGGCCCAATCACATTCATAGGCCCATC
Found at i:116761896 original size:27 final size:27
Alignment explanation
Indices: 116761866--116762183 Score: 347
Period size: 27 Copynumber: 11.8 Consensus size: 27
116761856 TATGCCGGTC
*
116761866 ATTTTAC-AATACAAGGGTATTTTGATA
1 ATTTTACAAAT-CGAGGGTATTTTGATA
* * *
116761893 ATTTTAAAAATCG-GGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
116761919 ATTTTACAAATCGAGGCTATTTTTAGTA
1 ATTTTACAAATCGAGGGTATTTTGA-TA
** * *
116761947 ATTTTACAAATTAAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* * * **
116761974 ATTTTACAAATCGATGGTGTGTCAATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
116762001 ATTTTACAAATCGAGGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
* * *
116762028 ATTTCACAAATCGAGGGTGTTTCGATA
1 ATTTTACAAATCGAGGGTATTTTGATA
* *
116762055 ATTTTACAAATCAAAGGTATTTT-AGTA
1 ATTTTACAAATCGAGGGTATTTTGA-TA
* * *
116762082 ATTTCACAAA-CGAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
*
116762108 ATTTTACAAATCGAGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTTGATA
116762135 ATTTTACAAATCGAGGGTATTTTGATA
1 ATTTTACAAATCGAGGGTATTTTGATA
116762162 ATTTTACAAATCGAGGGTATTT
1 ATTTTACAAATCGAGGGTATTT
116762184 CAGTTATTTC
Statistics
Matches: 242, Mismatches: 43, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
26 44 0.18
27 174 0.72
28 24 0.10
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
ATTTTACAAATCGAGGGTATTTTGATA
Found at i:116762018 original size:54 final size:54
Alignment explanation
Indices: 116761866--116762183 Score: 390
Period size: 54 Copynumber: 5.9 Consensus size: 54
116761856 TATGCCGGTC
* * * *
116761866 ATTTTAC-AATACAAGGGTATTTTGATAATTTTAAAAATCG-GGGTGTTTTGGTA
1 ATTTTACAAAT-CGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* ** ** *
116761919 ATTTTACAAATCGAGGCTATTTTTAGTAATTTTACAAATTAAGGGTATTTCGGTA
1 ATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTTGGTA
* * * * *
116761974 ATTTTACAAATCGATGGTGTGTCAATAATTTTACAAATCGAGGGTGTTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* * * * *
116762028 ATTTCACAAATCGAGGGTGTTTCGATAATTTTACAAATCAAAGGTATTTTAGTA
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
* *
116762082 ATTTCACAAA-CGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTA
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
*
116762135 ATTTTACAAATCGAGGGTATTTTGATAATTTTACAAATCGAGGGTATTT
1 ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTT
116762184 CAGTTATTTC
Statistics
Matches: 227, Mismatches: 34, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
53 65 0.29
54 132 0.58
55 30 0.13
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
ATTTTACAAATCGAGGGTATTTCGATAATTTTACAAATCGAGGGTATTTTGGTA
Found at i:116762551 original size:28 final size:28
Alignment explanation
Indices: 116762510--116762598 Score: 142
Period size: 28 Copynumber: 3.2 Consensus size: 28
116762500 CCCCTTTAGT
* * *
116762510 CCCAATCTCGTTCACATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
*
116762538 CCCAATTACATTCATATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
116762566 CCCAATCACATTCATATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
116762594 CCCAA
1 CCCAA
116762599 CTACTTCCCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.27, C:0.37, G:0.15, T:0.21
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGG
Found at i:116764414 original size:27 final size:28
Alignment explanation
Indices: 116764384--116764445 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
116764374 GAGTTTTTGA
116764384 TGAAATTGAGCTATTTG-GGA-TAAATTG
1 TGAAATTGAGCT-TTTGAGGACTAAATTG
* *
116764411 TGAAAATGAGGTTTTGAAGGACTAAATTG
1 TGAAATTGAGCTTTTG-AGGACTAAATTG
116764440 TGAAAT
1 TGAAAT
116764446 AAACATGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 4 0.14
27 10 0.34
28 3 0.10
29 12 0.41
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.34
Consensus pattern (28 bp):
TGAAATTGAGCTTTTGAGGACTAAATTG
Found at i:116765274 original size:24 final size:24
Alignment explanation
Indices: 116765219--116765274 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
116765209 TCTATCTCTG
*
116765219 TGAAATATGTATGGAAATGAAGCG
1 TGAAATATGTATGGAAATGAAGCA
*
116765243 TGAAATATGTATGGAAATGATGCA
1 TGAAATATGTATGGAAATGAAGCA
*
116765267 TGACATAT
1 TGAAATAT
116765275 ATGCAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (24 bp):
TGAAATATGTATGGAAATGAAGCA
Found at i:116768059 original size:78 final size:78
Alignment explanation
Indices: 116767930--116768080 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 78
116767920 GATTTACTCA
* *
116767930 ATGGTTAAGATCCAACATAAATTGCAGATTCTCGACAGCTTGAGTGAGCAACATCGAA-TTATTA
1 ATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATC-AACTCATTA
116767994 GTTAGCGATCTGTG
65 GTTAGCGATCTGTG
* * * ** * *
116768008 ATGGTTGAGATCTAACATAAGTTGTGGATTCTTAACAGCTTGAGTGAGCAACATCAACTCATTAT
1 ATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATCAACTCATTAG
116768073 TTAGCGAT
66 TTAGCGAT
116768081 GTTTGAGATC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
77 2 0.03
78 61 0.97
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (78 bp):
ATGGTTAAGATCCAACATAAATTGCAGATTCTCAACAGCTTGAGTGAGCAACATCAACTCATTAG
TTAGCGATCTGTG
Found at i:116786037 original size:30 final size:30
Alignment explanation
Indices: 116786003--116786112 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
116785993 TAATCAAATT
*
116786003 TAGGAGTTAGTAGGGATATGGGTGGTTTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
116786033 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
* * **
116786063 TGGGAGTTAGTGGGGATATTGGTGGCGTAA
1 TAGGAGTTAGTGGGGATATGGGTGGTTTAA
*
116786093 T-GAAAGTTAGTGGGGATATG
1 TAG-GAGTTAGTGGGGATATG
116786113 AATGGCTTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 1 0.01
30 71 0.99
ACGTcount: A:0.25, C:0.01, G:0.43, T:0.32
Consensus pattern (30 bp):
TAGGAGTTAGTGGGGATATGGGTGGTTTAA
Found at i:116787851 original size:13 final size:13
Alignment explanation
Indices: 116787829--116787863 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
116787819 TATTAGTTTA
*
116787829 TTAATATTTTAAT
1 TTAATTTTTTAAT
116787842 TTAATTTTTTTAAT
1 TTAA-TTTTTTAAT
116787856 TTAATTTT
1 TTAATTTT
116787864 ATTATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTAATTTTTTAAT
Found at i:116787852 original size:14 final size:14
Alignment explanation
Indices: 116787835--116787863 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
116787825 TTTATTAATA
116787835 TTTTAATTTAATTT
1 TTTTAATTTAATTT
116787849 TTTTAATTTAATTT
1 TTTTAATTTAATTT
116787863 T
1 T
116787864 ATTATTATTT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTAATTT
Found at i:116787873 original size:11 final size:11
Alignment explanation
Indices: 116787819--116787884 Score: 53
Period size: 11 Copynumber: 5.7 Consensus size: 11
116787809 AATAAATAAA
*
116787819 TATTAGTTTAT
1 TATTATTTTAT
*
116787830 TAATATTTTAATT
1 TATTATTTT-A-T
*
116787843 TAATTTTTTTAAT
1 T-ATTATTTT-AT
*
116787856 T-TAATTTTAT
1 TATTATTTTAT
116787866 TATTATTTTAT
1 TATTATTTTAT
116787877 TATTATTT
1 TATTATTT
116787885 CATGTAATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
10 3 0.07
11 28 0.64
12 1 0.02
13 4 0.09
14 8 0.18
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:116794656 original size:15 final size:15
Alignment explanation
Indices: 116794636--116794665 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116794626 CAACACTTGT
116794636 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
116794651 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
116794666 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:116797553 original size:47 final size:47
Alignment explanation
Indices: 116797490--116797737 Score: 374
Period size: 47 Copynumber: 5.3 Consensus size: 47
116797480 CCCTTCGGGA
* *
116797490 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
116797537 CTTATCACATATATACA-TCTTCACA-TCTATCACATCGGCCATTAGGT
1 CTTATCACATATATACACT-TTCACATTC-ATCACATTGGCCATTCGGC
* *
116797584 CTTATCTCATATATACACTTTCACATTCATCATATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
116797631 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
116797678 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
116797725 CTTATCACATATA
1 CTTATCACATATA
116797738 CATATCTTGT
Statistics
Matches: 179, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
46 2 0.01
47 174 0.97
48 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:116803971 original size:24 final size:24
Alignment explanation
Indices: 116803939--116803987 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
116803929 ATACCCATGA
116803939 AGATAACCAAAAAGGAGTATATTG
1 AGATAACCAAAAAGGAGTATATTG
116803963 AGATAACCAAAAAGGAGTATATTG
1 AGATAACCAAAAAGGAGTATATTG
116803987 A
1 A
116803988 CTCTTATGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.20, T:0.20
Consensus pattern (24 bp):
AGATAACCAAAAAGGAGTATATTG
Found at i:116808159 original size:28 final size:28
Alignment explanation
Indices: 116808118--116808186 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
116808108 TTTAAAACCA
*
116808118 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116808145 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116808173 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
116808187 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:116810012 original size:19 final size:18
Alignment explanation
Indices: 116809975--116810018 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
116809965 ATACATACAG
116809975 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
116809992 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
116810011 TACTAATT
1 TAATAATT
116810019 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:116812440 original size:28 final size:28
Alignment explanation
Indices: 116812395--116812463 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
116812385 ATTTAAAACC
*
116812395 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116812422 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
116812450 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
116812464 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:116815453 original size:29 final size:29
Alignment explanation
Indices: 116815404--116815468 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
116815394 GTGACGAGAT
** * *
116815404 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGAAAAAATA
*
116815433 TGGCACTAAGTGTGCAAGCTGAAAAAATA
1 CGGCACTAAGTGTGCAAGCTGAAAAAATA
116815462 CGGCACT
1 CGGCACT
116815469 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGAAAAAATA
Found at i:116823234 original size:29 final size:29
Alignment explanation
Indices: 116823201--116823277 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
116823191 CGGTGACGAG
* *
116823201 ATGGCACTAAGTGTGCGTGCTGGAAATAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
116823230 ATGGCACTAAGTGTGC-AGCTGGAAAAAT
1 ATGGCACTAAGTGTGCGAGCTGGAAAAAT
* *
116823258 ACGGCACT-GGTGTGCGAGCT
1 ATGGCACTAAGTGTGCGAGCT
116823278 CGAGGGTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 6 0.14
28 21 0.49
29 16 0.37
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.23
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTGGAAAAAT
Found at i:116831021 original size:25 final size:29
Alignment explanation
Indices: 116830963--116831036 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 29
116830953 TGACGAGATT
*
116830963 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
*
116830992 TGGCACTAAGTGTGC-AGCT-G-AA-ATA
1 CGGCACTAAGTGTGCGAGCTGGAAATATA
**
116831017 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
116831037 CGGAGGGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 15 0.38
26 6 0.15
27 1 0.03
28 3 0.08
29 14 0.36
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAATATA
Found at i:116838859 original size:28 final size:29
Alignment explanation
Indices: 116838797--116838860 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
116838787 GTGACGAGAT
** *
116838797 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
*
116838826 TGGCACTAAGTGTGCAAGCT-GAAAAATA
1 CGGCACTAAGTGTGCAAGCTGGAAAAATA
116838854 CGGCACT
1 CGGCACT
116838861 GGGTGTGCGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCAAGCTGGAAAAATA
Found at i:116840733 original size:19 final size:18
Alignment explanation
Indices: 116840696--116840739 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
116840686 ATACATACAG
116840696 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
116840713 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
116840732 TACTAATT
1 TAATAATT
116840740 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:116841757 original size:30 final size:30
Alignment explanation
Indices: 116841705--116841766 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
116841695 CGGTAAAACT
116841705 TAAATTATTTTACTTTGAGCTAAACT-TTTG
1 TAAATTATTTTACTTTGAGCT-AACTATTTG
116841735 TAAATTATTGTATA-TTTG-GCTAACTATTTG
1 TAAATTATT-T-TACTTTGAGCTAACTATTTG
116841765 TA
1 TA
116841767 TAGATTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 4 0.14
30 18 0.62
31 5 0.17
32 2 0.07
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (30 bp):
TAAATTATTTTACTTTGAGCTAACTATTTG
Found at i:116855401 original size:32 final size:32
Alignment explanation
Indices: 116855360--116855424 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
116855350 TAATACACCA
116855360 ATTCGACCATATCACACAGACTAATTTCAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
116855392 ATTCGACCATATCACACAGACTAATTTCAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
116855424 A
1 A
116855425 ACATAATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (32 bp):
ATTCGACCATATCACACAGACTAATTTCAGTT
Found at i:116856396 original size:43 final size:43
Alignment explanation
Indices: 116856337--116856438 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
116856327 TCCCAGACGT
*
116856337 GGTCTTACA--TATAATCAAATATCGATCCCACTGTCCCAAACAG
1 GGTCTTACACGTA-AATCAAATA-CGATCCCAATGTCCCAAACAG
* * * * *
116856380 GGTTTTACACG-AAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
116856422 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
116856439 TCAAGTCGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 27 0.55
43 21 0.43
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
Found at i:116856430 original size:42 final size:43
Alignment explanation
Indices: 116856318--116856480 Score: 134
Period size: 43 Copynumber: 3.8 Consensus size: 43
116856308 AGGTCGTACA
* * *
116856318 ATGCCAACGTCCCAGACGTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAAATATCG
* * * * * *
116856361 ATCCCACTGTCCCAAACAGGGTTTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
116856403 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-GTCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATC-AAATATCG
** * * *
116856447 ATGCCAACATCCCAGACGTGGCCTTACATGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
116856481 TACATCTCTG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
42 27 0.29
43 38 0.40
44 29 0.31
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:116859607 original size:29 final size:29
Alignment explanation
Indices: 116859551--116859610 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
116859541 CATAGGAAAA
* *
116859551 TTTTTAATTTTTTCTATTACTTTTTTTTG
1 TTTTTAATTTTTTCTATTACTATGTTTTG
*
116859580 TTTTTAATTTTTT-TATTTTCTATGTTTTG
1 TTTTTAATTTTTTCTA-TTACTATGTTTTG
116859609 TT
1 TT
116859611 GGTGCTTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.13, C:0.05, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTTTAATTTTTTCTATTACTATGTTTTG
Found at i:116868140 original size:30 final size:30
Alignment explanation
Indices: 116868095--116868154 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
116868085 CATTTAATAC
*
116868095 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
116868125 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
116868155 GGCTCGGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:116876955 original size:24 final size:24
Alignment explanation
Indices: 116876928--116876974 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
116876918 ATATGTTGAC
116876928 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
116876952 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
116876975 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:116877008 original size:24 final size:24
Alignment explanation
Indices: 116876938--116877000 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
116876928 ATTCAAATCA
* * * *
116876938 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
116876962 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
116876986 GCACACATAGTGCCA
1 GCACACATAGTGCCA
116877001 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:116883066 original size:21 final size:21
Alignment explanation
Indices: 116883042--116883106 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
116883032 AAAAGGGTAG
116883042 TCCTATACATTAACCATGATA
1 TCCTATACATTAACCATGATA
* * * *
116883063 TCCTCT-CACT-ACTA-GTCTA
1 TCCTATACATTAACCATG-ATA
*
116883082 TTCTATACATTAACCATGATA
1 TCCTATACATTAACCATGATA
116883103 TCCT
1 TCCT
116883107 CTCACTACTA
Statistics
Matches: 30, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
18 1 0.03
19 9 0.30
20 6 0.20
21 13 0.43
22 1 0.03
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.37
Consensus pattern (21 bp):
TCCTATACATTAACCATGATA
Found at i:116883143 original size:40 final size:40
Alignment explanation
Indices: 116883044--116883131 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
116883034 AAGGGTAGTC
116883044 CTATACATTAACCATGATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCATGATATCCTCTCACTACTAGTCTATT
116883084 CTATACATTAACCATGATATCCTCTCACTACTAGTCTATT
1 CTATACATTAACCATGATATCCTCTCACTACTAGTCTATT
116883124 CTATACAT
1 CTATACAT
116883132 GCCATAAGAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.38
Consensus pattern (40 bp):
CTATACATTAACCATGATATCCTCTCACTACTAGTCTATT
Found at i:116883600 original size:37 final size:36
Alignment explanation
Indices: 116883550--116883636 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
116883540 TACGAAGTCT
*
116883550 TACCCGGACATAATCTCCACATGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
116883586 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
116883623 TCACCCGGAACATA
1 T-ACCCGG-ACATA
116883637 TTTTCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.87
38 5 0.11
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:116883772 original size:49 final size:49
Alignment explanation
Indices: 116883705--116884006 Score: 523
Period size: 49 Copynumber: 6.1 Consensus size: 49
116883695 TTTACCACAT
* **
116883705 ATATATATACACTTTCACATTCATCATGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
116883754 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
116883803 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* * *
116883852 ATATATATATATATTTTCACGTTCATCACGTCGGCCATTAGGCCTTATCAC
1 --ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
116883903 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
116883952 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
116884001 ATATAT
1 ATATAT
116884007 TATTATTTAC
Statistics
Matches: 242, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
49 195 0.81
51 47 0.19
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:116883861 original size:149 final size:149
Alignment explanation
Indices: 116883685--116884006 Score: 572
Period size: 149 Copynumber: 2.2 Consensus size: 149
116883675 ATTCACATTA
* * * *
116883685 GCCATTCGGCTTTACCACATATATATATACACTTTCACATTCATCATGTCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
116883750 TCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
66 TCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
*
116883815 TTTCACATTCATCACGTCG
131 TTTCACATTCATCACATCG
* * *
116883834 GCCATTAGGCCTTATCACATATATATATATATTTTCACGTTCATCACGTCGGCCATTAGGCCTTA
1 GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
116883899 TCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
66 TCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
116883964 TTTCACATTCATCACATCG
131 TTTCACATTCATCACATCG
116883983 GCCATTAGGCCTTATCACATATAT
1 GCCATTAGGCCTTATCACATATAT
116884007 TATTATTTAC
Statistics
Matches: 165, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
149 165 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (149 bp):
GCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTA
TCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAT
TTTCACATTCATCACATCG
Found at i:116894772 original size:40 final size:40
Alignment explanation
Indices: 116894713--116894854 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
116894703 AAATTGAATG
* * *
116894713 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
116894753 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
116894793 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
116894833 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
116894855 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:116894878 original size:40 final size:39
Alignment explanation
Indices: 116894751--116894880 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
116894741 ATGCTGGAAA
* * *
116894751 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
116894792 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
116894830 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
116894871 TTATATCCGG
1 TTATATCCGG
116894881 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:116898525 original size:24 final size:24
Alignment explanation
Indices: 116898498--116898544 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
116898488 ATATGTTGAC
116898498 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
116898522 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
116898545 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:116898557 original size:24 final size:24
Alignment explanation
Indices: 116898508--116898570 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
116898498 ATTCAAATCA
* * *
116898508 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACAACACC
*
116898532 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACAACACC
116898556 GCACACATAGTGCCA
1 GCACACATAGTGCCA
116898571 ATGTACCCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACAACACC
Found at i:116900443 original size:30 final size:30
Alignment explanation
Indices: 116900398--116900457 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
116900388 ATTTAATACG
*
116900398 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
116900428 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
116900458 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:116919652 original size:27 final size:27
Alignment explanation
Indices: 116919605--116919761 Score: 128
Period size: 27 Copynumber: 5.8 Consensus size: 27
116919595 CGAGGCTGCC
* *
116919605 AGATATTGTGAC-GAAGTCACCAGATAA
1 AGATATTGTGGCAG-AGCCACCAGATAA
**
116919632 AGATATTGTGGTGGAGCCACCA-A-AA
1 AGATATTGTGGCAGAGCCACCAGATAA
*
116919657 TAGATATATGTGGCAGAGCCACCAGAT-T
1 -AGATAT-TGTGGCAGAGCCACCAGATAA
* * *
116919685 AGATAATCGTGGCATAGCCACCAGA-AC
1 AGAT-ATTGTGGCAGAGCCACCAGATAA
*
116919712 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATAT-TGTGGCAGAGCCACCAGATAA
*
116919739 AGATAATTGTGGCATAGCCACCA
1 AGAT-ATTGTGGCAGAGCCACCA
116919762 AGATTCTTCC
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.02
26 9 0.08
27 91 0.84
28 6 0.06
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AGATATTGTGGCAGAGCCACCAGATAA
Found at i:116919704 original size:54 final size:54
Alignment explanation
Indices: 116919646--116919762 Score: 198
Period size: 54 Copynumber: 2.2 Consensus size: 54
116919636 ATTGTGGTGG
* *
116919646 AGCCACCAAAATAGATATATGTGGCAGAGCCACCAGATTAGATAATCGTGGCAT
1 AGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
* *
116919700 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
116919754 AGCCACCAA
1 AGCCACCAA
116919763 GATTCTTCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (54 bp):
AGCCACCAAAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAT
Found at i:116919913 original size:25 final size:27
Alignment explanation
Indices: 116919866--116919940 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 27
116919856 CAAAATTAAC
** * *
116919866 CCTAGGGGTATAACGGTACTTTTGC-A
1 CCTAGGGGTATAATAGTAATTTTCCAA
116919892 CCTA-GGGTATAATAGTAATTTTCCATA
1 CCTAGGGGTATAATAGTAATTTTCCA-A
* *
116919919 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAATAGTAATTT
116919941 AGCTGCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 16 0.40
26 4 0.10
27 4 0.10
28 16 0.40
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAATAGTAATTTTCCAA
Found at i:116921407 original size:26 final size:26
Alignment explanation
Indices: 116921376--116921431 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
116921366 TGAAATGCCC
116921376 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
116921402 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
116921428 ATCA
1 ATCA
116921432 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:116925697 original size:5 final size:5
Alignment explanation
Indices: 116925677--116925711 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
116925667 AATAATCATA
116925677 AAAAT AAAACT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAA
116925712 TAGACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Done.