Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 120 of 295
Found at i:41211318 original size:22 final size:20
Alignment explanation
Indices: 41211287--41211328 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
41211277 TTGCTTATTA
*
41211287 TTTAATAAATAATAATTATAAT
1 TTTAAAAAAT-ATAA-TATAAT
41211309 TTTAAAAAATATAATATAAT
1 TTTAAAAAATATAATATAAT
41211329 AATATAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAAAAAATATAATATAAT
Found at i:41211444 original size:12 final size:13
Alignment explanation
Indices: 41211418--41211458 Score: 66
Period size: 12 Copynumber: 3.2 Consensus size: 13
41211408 AAATTGAGGG
41211418 AAAGAAAGAAGGAA
1 AAAGAAA-AAGGAA
41211432 AAAGAAAAA-GAA
1 AAAGAAAAAGGAA
41211444 AAAGAAAAAGGAA
1 AAAGAAAAAGGAA
41211457 AA
1 AA
41211459 TTAGGACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.46
13 7 0.27
14 7 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGGAA
Found at i:41211445 original size:5 final size:6
Alignment explanation
Indices: 41211418--41211458 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
41211408 AAATTGAGGG
41211418 AAAGAA AGAAGGAA AAAGAA AAAGAA AAAGAA AAAGGAA AA
1 AAAGAA A-AA-GAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
41211459 TTAGGACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 19 0.59
7 9 0.28
8 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:41214333 original size:34 final size:34
Alignment explanation
Indices: 41214295--41214361 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
41214285 GAGCATGTTT
* *
41214295 TTTTCTACTGAATC-AATATATTATAAGCATAATA
1 TTTTCCACTGAATCGAA-ATATTATAACCATAATA
*
41214329 TTTTCCACTGAATCGAACTATTATAACCATAAT
1 TTTTCCACTGAATCGAAATATTATAACCATAAT
41214362 GATTGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (34 bp):
TTTTCCACTGAATCGAAATATTATAACCATAATA
Found at i:41217854 original size:161 final size:161
Alignment explanation
Indices: 41217589--41217913 Score: 614
Period size: 161 Copynumber: 2.0 Consensus size: 161
41217579 TTTTCCCCTA
41217589 ATTACACTAGGATTATGTTTCTTTCCCATCCCAATTAGAATTTCTCTTCTCTCTTCCTATTTATT
1 ATTACACTAGGATTATGTTTCTTTCCCATCCCAATTAGAATTTCTCTTCTCTCTTCCTATTTATT
41217654 TTTCATCATCTTCTTTGCATCAAATTTTCGCTCCATTGCTGAAATTATCTTTGCTCTCAATATCA
66 TTTCATCATCTTCTTTGCATCAAATTTTCGCTCCATTGCTGAAATTATCTTTGCTCTCAATATCA
*
41217719 AATCAATCCCTGATAAATAGATTCTCTACTG
131 AATCAATCCCTGATAAATAGATTCTATACTG
*
41217750 ATTACACTAGGATTATGTTTCTTTCCCATCCCAATTAGAATTTCTCTTTTCTCTTCCTATTTATT
1 ATTACACTAGGATTATGTTTCTTTCCCATCCCAATTAGAATTTCTCTTCTCTCTTCCTATTTATT
* *
41217815 TTTCATCATCTTCTTTGCATCAAATTTTTGCTCCATTGCTGAAATTATCTTTTCTCTCAATATCA
66 TTTCATCATCTTCTTTGCATCAAATTTTCGCTCCATTGCTGAAATTATCTTTGCTCTCAATATCA
41217880 AATCAATCCCTGATAAATAGATTCTATACTG
131 AATCAATCCCTGATAAATAGATTCTATACTG
41217911 ATT
1 ATT
41217914 GTTGAAATCA
Statistics
Matches: 160, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 160 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (161 bp):
ATTACACTAGGATTATGTTTCTTTCCCATCCCAATTAGAATTTCTCTTCTCTCTTCCTATTTATT
TTTCATCATCTTCTTTGCATCAAATTTTCGCTCCATTGCTGAAATTATCTTTGCTCTCAATATCA
AATCAATCCCTGATAAATAGATTCTATACTG
Found at i:41220123 original size:13 final size:13
Alignment explanation
Indices: 41220105--41220131 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41220095 CTTTCCTCCA
41220105 ATTCCTATGTGAT
1 ATTCCTATGTGAT
41220118 ATTCCTATGTGAT
1 ATTCCTATGTGAT
41220131 A
1 A
41220132 AACAAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTCCTATGTGAT
Found at i:41222061 original size:25 final size:26
Alignment explanation
Indices: 41222015--41222077 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
41222005 AATAATTCAA
41222015 AAAATATAAAAATACACCAAAAATT-
1 AAAATATAAAAATACACCAAAAATTC
* *
41222040 AAAATATAAAAAGTTCA-TAAAAATTC
1 AAAATATAAAAA-TACACCAAAAATTC
41222066 AAAA-A-AAAAATA
1 AAAATATAAAAATA
41222078 GTGTGGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 5 0.15
25 20 0.61
26 7 0.21
ACGTcount: A:0.70, C:0.08, G:0.02, T:0.21
Consensus pattern (26 bp):
AAAATATAAAAATACACCAAAAATTC
Found at i:41223599 original size:3 final size:3
Alignment explanation
Indices: 41223591--41223630 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
41223581 ATATTCAATA
41223591 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
41223631 TGGCATGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:41224193 original size:21 final size:22
Alignment explanation
Indices: 41224139--41224193 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
41224129 AGATTAAAAC
*
41224139 TAAAAAAAATAAGTATATTTTTT
1 TAAAAAAAAT-AGTATATTTTTA
** *
41224162 TAAAATTAATA-TTTATTTTTA
1 TAAAAAAAATAGTATATTTTTA
41224183 TAAAAAAAATA
1 TAAAAAAAATA
41224194 ACTATATTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 17 0.65
22 1 0.04
23 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAAAAAATAGTATATTTTTA
Found at i:41238303 original size:6 final size:6
Alignment explanation
Indices: 41238294--41238318 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
41238284 AAAAAAAGTC
41238294 ACAATT ACAATT ACAATT ACAATT A
1 ACAATT ACAATT ACAATT ACAATT A
41238319 GAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ACAATT
Found at i:41238337 original size:22 final size:22
Alignment explanation
Indices: 41238312--41238353 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
41238302 AATTACAATT
*
41238312 ACAATTAGAATAAAAATACACA
1 ACAATTAGAACAAAAATACACA
41238334 ACAATTAGAACAAAAATACA
1 ACAATTAGAACAAAAATACA
41238354 TACATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (22 bp):
ACAATTAGAACAAAAATACACA
Found at i:41239377 original size:3 final size:3
Alignment explanation
Indices: 41239369--41239415 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
41239359 ATTAGCTCTC
**
41239369 ATT ATT ATT ACA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
41239416 GTTGATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:41245668 original size:29 final size:30
Alignment explanation
Indices: 41245620--41245680 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
41245610 AGATCAAATT
41245620 TTTATATATAAAATTACACA-AAATTAAAA
1 TTTATATATAAAATTACACATAAATTAAAA
* * *
41245649 TTTATGTATAATATTCCACATTAAATTAAAA
1 TTTATATATAAAATTACACA-TAAATTAAAA
41245680 T
1 T
41245681 GTTTGATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 17 0.63
31 10 0.37
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (30 bp):
TTTATATATAAAATTACACATAAATTAAAA
Found at i:41246392 original size:14 final size:14
Alignment explanation
Indices: 41246373--41246411 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
41246363 TTGTTTGATT
*
41246373 AAAAATAGTTTCTA
1 AAAAATAATTTCTA
*
41246387 AAAAATAATTTTTA
1 AAAAATAATTTCTA
*
41246401 AAAAAAAATTT
1 AAAAATAATTT
41246412 AATTAATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAAATAATTTCTA
Found at i:41251389 original size:7 final size:7
Alignment explanation
Indices: 41251377--41251411 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
41251367 GATAGCGAAA
41251377 GGAAGGG
1 GGAAGGG
41251384 GGAAGGG
1 GGAAGGG
41251391 GGAAGGG
1 GGAAGGG
41251398 GGAAGGG
1 GGAAGGG
41251405 GGAAGGG
1 GGAAGGG
41251412 TGATTGCTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (7 bp):
GGAAGGG
Found at i:41252623 original size:6 final size:6
Alignment explanation
Indices: 41252610--41252640 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
41252600 CCGCTTTTGC
41252610 TTTA-T TTTATT TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
41252641 CCCAAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:41254570 original size:17 final size:17
Alignment explanation
Indices: 41254548--41254581 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
41254538 GTGGTACACG
*
41254548 TAGTTTCCAACGGTGAT
1 TAGTTTCCAACGCTGAT
41254565 TAGTTTCCAACGCTGAT
1 TAGTTTCCAACGCTGAT
41254582 CCTATAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (17 bp):
TAGTTTCCAACGCTGAT
Found at i:41261793 original size:44 final size:44
Alignment explanation
Indices: 41261743--41261829 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
41261733 TTATGTTGGA
* * *
41261743 ACGTTATAAGGTCATCTATTCTAAATAATGCTTAGAATAAATTG
1 ACGTTATAAGGTCATCTATTCTAAAAAATGCTTAAAAGAAATTG
41261787 ACGTTATAAGGTCATCTATTCTAAAAAATGCTTAAAAGAAATT
1 ACGTTATAAGGTCATCTATTCTAAAAAATGCTTAAAAGAAATT
41261830 ATTCTGTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (44 bp):
ACGTTATAAGGTCATCTATTCTAAAAAATGCTTAAAAGAAATTG
Found at i:41262769 original size:22 final size:22
Alignment explanation
Indices: 41262718--41262782 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 22
41262708 ACCAGTTCAT
*
41262718 TTCAT-ACCAAACTTTCATCTAA
1 TTCATAACCAAACATTCATC-AA
*
41262740 TTCTTAACCAAAACATTCATC-A
1 TTCATAACC-AAACATTCATCAA
* *
41262762 TTCATAA-CATATATTCATCAA
1 TTCATAACCAAACATTCATCAA
41262783 CCTATTTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 11 0.31
23 3 0.09
24 10 0.29
ACGTcount: A:0.40, C:0.25, G:0.00, T:0.35
Consensus pattern (22 bp):
TTCATAACCAAACATTCATCAA
Found at i:41263620 original size:43 final size:43
Alignment explanation
Indices: 41263572--41263728 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
41263562 AGCTCATACA
* * *
41263572 ATGCCAATATCCCAGACGTGGTCTTACATGAAATCAAATGTCG
1 ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAAATGTCG
* * *
41263615 ATGCCACTGTCCTAGACAG-GGTCATACACGAAATCAAAT-ACG
1 ATGCCAATGTCCTAGAC-GTGGTCTTACACGAAATCAAATGTCG
* * *
41263657 ATGCCGATGTCCTAGACATGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCAATGTCCTAGACGTGGTCTTACACG-AAATCA-AATGTCG
* * *
41263701 ACGTCAACGTCCTAGACGTGGTCTTACA
1 ATGCCAATGTCCTAGACGTGGTCTTACA
41263729 TGGAAACACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 38 0.41
44 27 0.29
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACGTGGTCTTACACGAAATCAAATGTCG
Found at i:41263668 original size:42 final size:43
Alignment explanation
Indices: 41263591--41263693 Score: 138
Period size: 42 Copynumber: 2.4 Consensus size: 43
41263581 TCCCAGACGT
* *
41263591 GGTCTTACATGAAATCAAATGTCGATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATGACGATGCCACTGTCCTAGACAG
* *
41263634 GGTCATACACGAAATCAAAT-ACGATGCCGA-TGTCCTAGACAT
1 GGTCTTACACGAAATCAAATGACGATGCC-ACTGTCCTAGACAG
41263676 GGTCTTACACGTAAATCA
1 GGTCTTACACG-AAATCA
41263694 TAAGTCAACG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
42 28 0.53
43 25 0.47
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATGACGATGCCACTGTCCTAGACAG
Found at i:41266672 original size:18 final size:17
Alignment explanation
Indices: 41266645--41266681 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
41266635 TTAAGTAAAA
41266645 AATAATATAAAATTTAT
1 AATAATATAAAATTTAT
*
41266662 AATATATATAACATTTAT
1 AATA-ATATAAAATTTAT
41266680 AA
1 AA
41266682 AGAAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAATATAAAATTTAT
Found at i:41271154 original size:48 final size:48
Alignment explanation
Indices: 41271083--41271557 Score: 490
Period size: 48 Copynumber: 9.9 Consensus size: 48
41271073 AGGGTAAGAT
* *
41271083 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATGTAGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
* * *
41271131 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGCTCACCTATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGAG
* * * *
41271179 GCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
* * * *
41271227 GCTGATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCATATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGAG
* * * * *
41271275 GCCAAAGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
* * * * * * * *
41271323 ACCGATGCCATGTCCCAGACATGTTCTTACACTATCTCTCCTCTCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGAG
** * * * * *
41271371 GTTGATGCTATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
* *
41271419 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATAT-AGAG
** * * * * *
41271467 ATCGATGTCATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
* *
41271515 GCCGATGCCATGTCCCGAACATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATA
41271558 ACCCTAGTAT
Statistics
Matches: 340, Mismatches: 79, Indels: 16
0.78 0.18 0.04
Matches are distributed among these distances:
48 339 1.00
49 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAG
Found at i:41271254 original size:96 final size:96
Alignment explanation
Indices: 41271081--41271557 Score: 677
Period size: 96 Copynumber: 5.0 Consensus size: 96
41271071 AAAGGGTAAG
* * * * * *
41271081 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATGTAGAGGCCGATGCCATGTCC
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * *
41271146 TAAACATGGTCTTACACTAGCTCACCTATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
*
41271177 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCC
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
*
41271242 CAAACATAGTCTTACACTAGCTCTCATATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
** * *
41271273 ATGCCAAAGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGACCGATGCCATGTCC
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * * * *
41271338 CAGACATGTTCTTACACTATCTCTCCTCTCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * *
41271369 ATGTTGATGCTATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
41271434 CAAACATGGTCTTACACTAGCTCTCATATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * *
41271465 AT-ATCGATGTCATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
1 ATGCT-GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
* * *
41271529 CCGAACATGGTCTTACACTGGCTCACATA
65 CCAAACATGGTCTTACACTAGCTCTCATA
41271558 ACCCTAGTAT
Statistics
Matches: 340, Mismatches: 40, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
95 1 0.00
96 339 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:41277271 original size:39 final size:39
Alignment explanation
Indices: 41277225--41277341 Score: 189
Period size: 39 Copynumber: 3.0 Consensus size: 39
41277215 TATATTCTAG
41277225 CACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCCAA
1 CACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCCAA
* * *
41277264 CATGTAGCCTGCGGACCTCAACTCCGGATATGTTTCCAG
1 CACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCCAA
* *
41277303 CACGTAGCTTGTGGACCTCAAGTCCGGATATGTTTCCAA
1 CACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCCAA
41277342 TTATCATGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (39 bp):
CACGTAGCCTGCGGACCTCAAGTCCGGATATGTTTCCAA
Found at i:41278012 original size:21 final size:21
Alignment explanation
Indices: 41277986--41278026 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
41277976 TGCATATTCT
41277986 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
41278007 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
41278027 TAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:41285193 original size:39 final size:39
Alignment explanation
Indices: 41285121--41285251 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
41285111 GACTTTAGGA
* * * **
41285121 CCGGATAT-ATTCCAGCATGTAACCTGCAAACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
*
41285159 CCGGATATGTTTCTAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
*
41285198 CCGGATATGTTTCCAGCACGTAGCCTGTGGACCTCAAGT
1 CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
41285237 CCGGATATGTTTCCA
1 CCGGATATGTTTCCA
41285252 ATTATCATGC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
38 8 0.10
39 76 0.90
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATGTTTCCAGCACGTAGCCTGCGGACCTCAAGT
Found at i:41285923 original size:21 final size:21
Alignment explanation
Indices: 41285897--41285936 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
41285887 TGCATATTCT
41285897 AATTTCATAAACTAATTTATG
1 AATTTCATAAACTAATTTATG
41285918 AATTTCATAAACTAATTTA
1 AATTTCATAAACTAATTTA
41285937 CTAAATCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (21 bp):
AATTTCATAAACTAATTTATG
Found at i:41289999 original size:48 final size:48
Alignment explanation
Indices: 41289928--41290402 Score: 490
Period size: 48 Copynumber: 9.9 Consensus size: 48
41289918 AGGGTAAGAT
* * *
41289928 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATGTAGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
* * * *
41289976 GCCGATGCCATGTCCTAAACATGGTCTTACACTAGCTCACCTATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-AGAG
* * * *
41290024 GCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
* * * *
41290072 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-AGAG
* * *
41290120 GCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
* * * * * * * * *
41290168 ACCAATGCCATGTCCCAGACATGTTCTTACACTAGCTCTCCTCTCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-AGAG
** * * * *
41290216 GTTGATGCTATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
* ** *
41290264 GCCGATGCCATGTCCCAAACATGGTCTTATACTGGCTTTCATATCA-AT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAT-AGAG
* * * * *
41290312 GCCGATGTCATGTTCCAAATATGGTCTTACACTGACTCACATATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
* *
41290360 GCTGATGCCATGTCCCGAACATGGTCTTACACTGGCTCACATA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
41290403 ACCCTAGTAT
Statistics
Matches: 343, Mismatches: 76, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
48 342 1.00
49 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATATAGAG
Found at i:41290052 original size:96 final size:96
Alignment explanation
Indices: 41289926--41290402 Score: 666
Period size: 96 Copynumber: 5.0 Consensus size: 96
41289916 AAAGGGTAAG
* * * * *
41289926 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCCCACATGTAGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * *
41289991 TAAACATGGTCTTACACTAGCTCACCTATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * *
41290022 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTTACATATCGAGGCTGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
41290087 CAAACATGGTCTTACACTAGCTCTCATATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * *
41290118 ATGCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGACCAATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * * *
41290183 CAGACATGTTCTTACACTAGCTCTCCTCTCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
** * *
41290214 ATGTTGATGCTATGTTCCAAATATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * *
41290279 CAAACATGGTCTTATACTGGCTTTCATATCA
66 CAAACATGGTCTTACACTAGCTCTCATATCA
* * * *
41290310 ATGCCGATGTCATGTTCCAAATATGGTCTTACACTGACTCACATATCGAGGCTGATGCCATGTCC
1 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
* * *
41290375 CGAACATGGTCTTACACTGGCTCACATA
66 CAAACATGGTCTTACACTAGCTCTCATA
41290403 ACCCTAGTAT
Statistics
Matches: 336, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 336 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
ATGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:41296826 original size:24 final size:24
Alignment explanation
Indices: 41296797--41296855 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
41296787 TGAAATCGAC
41296797 ATAATTTAATTAATTTGGTTAGAT
1 ATAATTTAATTAATTTGGTTAGAT
*
41296821 ATAATTTAATTAATTTTGTTAGAT
1 ATAATTTAATTAATTTGGTTAGAT
41296845 -TAATTTAATTA
1 ATAATTTAATTA
41296856 TTCAACTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 11 0.32
24 23 0.68
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (24 bp):
ATAATTTAATTAATTTGGTTAGAT
Found at i:41302861 original size:8 final size:8
Alignment explanation
Indices: 41302844--41302888 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
41302834 ATTATATGCT
*
41302844 TTATTTTA
1 TTATTATA
41302852 TTATTATA
1 TTATTATA
41302860 TTATTTTATA
1 TTA--TTATA
*
41302870 TTAATATA
1 TTATTATA
41302878 TTATTATA
1 TTATTATA
41302886 TTA
1 TTA
41302889 ATTTCTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
8 24 0.75
10 8 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:41302877 original size:18 final size:16
Alignment explanation
Indices: 41302844--41302890 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
41302834 ATTATATGCT
* *
41302844 TTATTTTATTATTATA
1 TTATTATATTAATATA
41302860 TTATTTTATATTAATATA
1 TTA--TTATATTAATATA
41302878 TTATTATATTAAT
1 TTATTATATTAAT
41302891 TTCTTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTATATTAATATA
Found at i:41312962 original size:38 final size:39
Alignment explanation
Indices: 41312903--41313241 Score: 231
Period size: 47 Copynumber: 8.1 Consensus size: 39
41312893 TTTCAAATTA
* *
41312903 ACATGTA-TAACCATAGCATATCCACTTAGCACCACGTT
1 ACATGTATTAACCGTGGCATATCCACTTAGCACCACGTT
*
41312941 ACATGT-TTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATTAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
41312982 GAATCAATATATGTAACCGTGACATATCAACTTAGCACCACGTTAAT
1 --A-C-ATGTAT-TAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
41313029 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCGCGTT
1 --A-C-ATGTAT-TAACCGTGGCATATCCACTTAGCACCACGTT
* *
41313073 ACATGT-TTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATTAACCGTGGCATATCCACTTAGCACCACGTT
* *
41313111 A-ATGAATCAATATA-TGTTGGCATATCCACTTAGCACCACGTT
1 ACATG--T-ATTA-ACCG-TGGCATATCCACTTAGCACCACGTT
*
41313153 ACATGT-TTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATTAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
41313194 GAATCAATATATGTAACCATGGCATATCCACTTAGCACCATGTT
1 --A-C-ATGTAT-TAACCGTGGCATATCCACTTAGCACCACGTT
41313238 ACAT
1 ACAT
41313242 ATATCAATAT
Statistics
Matches: 250, Mismatches: 24, Indels: 52
0.77 0.07 0.16
Matches are distributed among these distances:
37 3 0.01
38 84 0.34
39 7 0.03
40 5 0.02
41 8 0.03
42 28 0.11
43 5 0.02
44 4 0.02
45 6 0.02
46 4 0.02
47 96 0.38
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (39 bp):
ACATGTATTAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:41312999 original size:47 final size:47
Alignment explanation
Indices: 41312948--41313286 Score: 348
Period size: 47 Copynumber: 7.7 Consensus size: 47
41312938 GTTACATGTT
*
41312948 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
41312995 TAACCGTGACATATCAACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
41313042 TAACCGTGGCATATCCACTTAGCACCGCG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
41313080 TAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
41313127 T-----TGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
41313160 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
41313207 TAACCATGGCATATCCACTTAGCACCATGTTACAT-ATATCAATATGTG
1 TAACCGTGGCATATCCACTTAGCACCACGTTA-ATGA-ATCAATATATG
* * *
41313255 TAATCGTGGTATATCCACTTAGTACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
41313287 CACGTATAAC
Statistics
Matches: 242, Mismatches: 25, Indels: 49
0.77 0.08 0.16
Matches are distributed among these distances:
33 1 0.00
34 1 0.00
35 3 0.01
36 1 0.00
37 1 0.00
38 48 0.20
39 4 0.02
40 3 0.01
41 4 0.02
42 23 0.10
43 2 0.01
44 3 0.01
45 6 0.02
46 3 0.01
47 100 0.41
48 39 0.16
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:41313100 original size:85 final size:84
Alignment explanation
Indices: 41312995--41313241 Score: 385
Period size: 80 Copynumber: 3.0 Consensus size: 84
41312985 TCAATATATG
** *
41312995 TAACCGTGACATATCAACTTAGCACCACGTTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC-TGGCATATCCAC
*
41313060 TTAGCACCGCGTTACATGTT
65 TTAGCACCACGTTACATGTT
*
41313080 TAATCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGT----TGGCATATCCACT
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCTGGCATATCCACT
41313141 TAGCACCACGTTACATGTT
66 TAGCACCACGTTACATGTT
*
41313160 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCATGGCATATCCAC
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACC-TGGCATATCCAC
*
41313225 TTAGCACCATGTTACAT
65 TTAGCACCACGTTACAT
41313242 ATATCAATAT
Statistics
Matches: 149, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
80 77 0.52
85 72 0.48
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.30
Consensus pattern (84 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCTGGCATATCCACT
TAGCACCACGTTACATGTT
Found at i:41313269 original size:48 final size:48
Alignment explanation
Indices: 41313155--41313288 Score: 173
Period size: 48 Copynumber: 2.8 Consensus size: 48
41313145 ACCACGTTAC
* *
41313155 ATGTTTAACCGTGGTATATCCACTTAGCACCACGCTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * * *
41313202 ATATGTAACCATGGCATATCCACTTAGCACCATGTTACAT-ATATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGA-ATCAAT
* *
41313250 ATGTGTAATCGTGGTATATCCACTTAGTACCACGTTACA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACA
41313289 CGTATAACCA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
47 32 0.44
48 41 0.56
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:41316978 original size:28 final size:29
Alignment explanation
Indices: 41316946--41317044 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
41316936 ATAATAAGCC
*
41316946 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
41316974 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
41317002 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
41317031 CGCACACTTAGTGC
1 CGCACACTTAGTGC
41317045 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:41324965 original size:28 final size:29
Alignment explanation
Indices: 41324933--41325003 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 29
41324923 ATAATAAGCC
* *
41324933 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
41324961 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
41324989 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41325004 GTACAATTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:41328017 original size:18 final size:17
Alignment explanation
Indices: 41327986--41328030 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
41327976 TATTATATGC
* *
41327986 TTTATTTTATTATATTA
1 TTTATATTAATATATTA
41328003 TTTTATATTAATATATTA
1 -TTTATATTAATATATTA
41328021 -TTATATTAAT
1 TTTATATTAAT
41328031 TTCTTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
18 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTATATTAATATATTA
Found at i:41349711 original size:25 final size:25
Alignment explanation
Indices: 41349681--41349748 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
41349671 GTTCCGACCC
* * *
41349681 ACAGCTTGTGTGAGCATACCGATTT
1 ACAGCTCGTGTGAGCATACCAATCT
* * *
41349706 ATAGCTCGTGAGAGTATACCAATCT
1 ACAGCTCGTGTGAGCATACCAATCT
*
41349731 ACAGCTCGAGTGAGCATA
1 ACAGCTCGTGTGAGCATA
41349749 TTGATTTACA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
ACAGCTCGTGTGAGCATACCAATCT
Found at i:41353346 original size:16 final size:16
Alignment explanation
Indices: 41353325--41353357 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
41353315 TGATTGAGTT
41353325 TGCTATTGAACTAGTA
1 TGCTATTGAACTAGTA
41353341 TGCTATTGAACTAGTA
1 TGCTATTGAACTAGTA
41353357 T
1 T
41353358 CGGGGACATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.39
Consensus pattern (16 bp):
TGCTATTGAACTAGTA
Found at i:41357081 original size:25 final size:25
Alignment explanation
Indices: 41357050--41357119 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
41357040 CATTCTGACC
*
41357050 CACAGCTTGTGTGAGCATACCGA-T
1 CACAGCTTGTGTGAGCATACCAATT
* * *
41357074 CTATAGCTCGAGTGAGCATACCAATT
1 C-ACAGCTTGTGTGAGCATACCAATT
*
41357100 CACAGCTTGTATGAGCATAC
1 CACAGCTTGTGTGAGCATAC
41357120 ATGCACATGA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
24 1 0.03
25 33 0.92
26 2 0.06
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
CACAGCTTGTGTGAGCATACCAATT
Found at i:41358560 original size:21 final size:21
Alignment explanation
Indices: 41358520--41358560 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41358510 CTCTGCAGTG
*
41358520 TTGAAAATTTTCATTATTTTT
1 TTGAAAATTTTCATAATTTTT
*
41358541 TTGAAAATTTTC-TAAGTTTT
1 TTGAAAATTTTCATAATTTTT
41358561 CAATTTAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (21 bp):
TTGAAAATTTTCATAATTTTT
Found at i:41359779 original size:23 final size:23
Alignment explanation
Indices: 41359748--41359851 Score: 79
Period size: 19 Copynumber: 5.0 Consensus size: 23
41359738 AAAATAAAAG
*
41359748 AATAAATAAATATATATAATAAT
1 AATATATAAATATATATAATAAT
*
41359771 AATATAT-AA-A-A-ATAATATT
1 AATATATAAATATATATAATAAT
41359790 AATATAT-AA-ATATATAA-AAT
1 AATATATAAATATATATAATAAT
41359810 -AT-T-TAGAATATATATAATAA-
1 AATATATA-AATATATATAATAAT
*
41359830 AATAGATATAATATATA-AATAA
1 AATATATA-AATATATATAATAA
41359852 ATTGAATATA
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
17 1 0.01
18 1 0.01
19 21 0.31
20 12 0.18
21 9 0.13
22 7 0.10
23 16 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATATAAATATATATAATAAT
Found at i:41359833 original size:32 final size:32
Alignment explanation
Indices: 41359756--41359843 Score: 87
Period size: 32 Copynumber: 2.9 Consensus size: 32
41359746 AGAATAAATA
*
41359756 AATATATATAATAATAATATATAAAA-A-TAAT
1 AATATATATAATAA-AATATATAAAATATTAAG
* *
41359787 ATTA-ATAT-AT-AAATATATAAAATATTTAG
1 AATATATATAATAAAATATATAAAATATTAAG
* *
41359816 AATATATATAATAAAATAGATATAATAT
1 AATATATATAATAAAATATATAAAATAT
41359844 ATAAATAAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
27 11 0.24
28 2 0.04
29 7 0.15
30 8 0.17
31 5 0.11
32 13 0.28
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
AATATATATAATAAAATATATAAAATATTAAG
Found at i:41359860 original size:22 final size:22
Alignment explanation
Indices: 41359816--41359871 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 22
41359806 AAATATTTAG
41359816 AATATATATAATAAAATAGATAT
1 AATATATA-AATAAAATAGATAT
*
41359839 AATATATAAAT-AAATTGAATAT
1 AATATATAAATAAAATAG-ATAT
41359861 AATAT-TAAATA
1 AATATATAAATA
41359872 GATAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAAATAGATAT
Found at i:41359871 original size:38 final size:38
Alignment explanation
Indices: 41359759--41359879 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 38
41359749 ATAAATAAAT
* * *
41359759 ATATATAATAATAATATATAAAAATAATATT-AATATATAA
1 ATATATAA-AATAAT-TA-GAATATAATATTAAATAGATAA
* *
41359799 ATATATAAAATATTTAGAATATATATAATAAAATAGATATA
1 ATATATAAAATAATTAGAATATA-AT-ATTAAATAGATA-A
41359840 ATATAT-AAATAAATT-GAATATAATATTAAATAGATAA
1 ATATATAAAAT-AATTAGAATATAATATTAAATAGATAA
41359877 ATA
1 ATA
41359880 AATTAAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
37 9 0.13
38 15 0.22
39 9 0.13
40 26 0.38
41 10 0.14
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (38 bp):
ATATATAAAATAATTAGAATATAATATTAAATAGATAA
Found at i:41361758 original size:133 final size:133
Alignment explanation
Indices: 41361573--41361834 Score: 371
Period size: 133 Copynumber: 2.0 Consensus size: 133
41361563 TTTTTTTTAG
* * ** * **
41361573 CTATTCGGTTCGTAATGAACCTTCATCTATCCTAACAAAGATGAAATTGTTTTTCTTATGGTGTA
1 CTATTCGGTTCATAACGAACCTTCATCTATCCTAACAAAGACAAAATTGTTTTTATTACAGTGTA
* * ** *
41361638 TGCACTCCAATTATAAGGTCAATTGTTTCTGTACCGTTTTACATGCTCACTGGTCACTCATACTC
66 TGCACTCCAATTATAAGGTAAATTGTTTCTGTACCGTTTTACATACTCACCAGCCACTCATACTC
41361703 GCC
131 GCC
*
41361706 CTATTCGGTTCATAACGAACCTTCATCTGTCCTAACAAAGACAAAATTGTTTTTATTACAGTGTA
1 CTATTCGGTTCATAACGAACCTTCATCTATCCTAACAAAGACAAAATTGTTTTTATTACAGTGTA
* * * *
41361771 TGCACTCCGATTATAAGGTAAATTGTTTTTTTACTGTTTTACATACTCACCAGCCACTCATACT
66 TGCACTCCAATTATAAGGTAAATTGTTTCTGTACCGTTTTACATACTCACCAGCCACTCATACT
41361835 AGACCTATAT
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (133 bp):
CTATTCGGTTCATAACGAACCTTCATCTATCCTAACAAAGACAAAATTGTTTTTATTACAGTGTA
TGCACTCCAATTATAAGGTAAATTGTTTCTGTACCGTTTTACATACTCACCAGCCACTCATACTC
GCC
Found at i:41362938 original size:31 final size:31
Alignment explanation
Indices: 41362902--41362960 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
41362892 TTGGGAAAAA
*
41362902 TTATTGAATCGCTTCTAATATGGGAGTGGAC
1 TTATTGAATCGCTTCTAATAAGGGAGTGGAC
* *
41362933 TTATTGATTCGCTTCTAGTAAGGGAGTG
1 TTATTGAATCGCTTCTAATAAGGGAGTG
41362961 CACAACATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (31 bp):
TTATTGAATCGCTTCTAATAAGGGAGTGGAC
Found at i:41364885 original size:20 final size:18
Alignment explanation
Indices: 41364838--41364944 Score: 60
Period size: 19 Copynumber: 5.8 Consensus size: 18
41364828 CAAGATAAAC
41364838 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
41364855 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
41364875 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
41364894 ATTAAGA-TAAGTATTAAAT
1 ATTAA-ATTAA-TATTTAAT
* *
41364913 -TTAATTTAATATTAAACT
1 ATTAAATTAATATTTAA-T
*
41364931 ATTAAAATAATATT
1 ATTAAATTAATATT
41364945 ATTTTTGGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 18
0.70 0.11 0.18
Matches are distributed among these distances:
17 15 0.22
18 9 0.13
19 27 0.39
20 18 0.26
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:41369570 original size:49 final size:48
Alignment explanation
Indices: 41369414--41369583 Score: 162
Period size: 49 Copynumber: 3.5 Consensus size: 48
41369404 AGACGAGAGC
* * * * *
41369414 TAGTGTAAGACATATCTGGGACATGCATCAGCCACGAGATATGCAA-T
1 TAGTGTAAGACCTATCTGGGACATGCATCGGCCTCGATATATGAAAGT
* * * * * *
41369461 CTAGTGTAAGACCTATCTAGGACATGGCATCGACATCGATAGATGAGAGC
1 -TAGTGTAAGACCTATCTGGGACAT-GCATCGGCCTCGATATATGAAAGT
* * * *
41369511 CAATGCAAGACCTCTCTGGGACATGACATCGGCCTCGATATATGAAAGT
1 TAGTGTAAGACCTATCTGGGACATG-CATCGGCCTCGATATATGAAAGT
*
41369560 TAGTGTAAGACCTGTCTGGGACAT
1 TAGTGTAAGACCTATCTGGGACAT
41369584 ATCATCGACT
Statistics
Matches: 94, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
48 23 0.24
49 71 0.76
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (48 bp):
TAGTGTAAGACCTATCTGGGACATGCATCGGCCTCGATATATGAAAGT
Found at i:41369582 original size:98 final size:96
Alignment explanation
Indices: 41369384--41369618 Score: 244
Period size: 98 Copynumber: 2.4 Consensus size: 96
41369374 AACAAGTCTA
* * * * * *
41369384 AGGACATGGCATCGATATTA-AGACGAGAGCTAGTGTAAGACATATCTGGGACATGCATCAGCCA
1 AGGACATGGCATCGACATGATAGATGAGAGCCAATGTAAGACCTATCTGGGACATGCATCAGCCA
*
41369448 CGAGATATGCAATCTAGTGTAAGACCTATCT
66 CGAGATATGAAATCTAGTGTAAGACCTATCT
* * *
41369479 AGGACATGGCATCGACATCGATAGATGAGAGCCAATGCAAGACCTCTCTGGGACATGACATCGGC
1 AGGACATGGCATCGACAT-GATAGATGAGAGCCAATGTAAGACCTATCTGGGACATG-CATCAGC
* * *
41369544 CTCGATATATGAAAGT-TAGTGTAAGACCTGTCT
64 CACGAGATATGAAA-TCTAGTGTAAGACCTATCT
* ** * *
41369577 GGGACATATCATCGACTTAGAT-G-TGTGAGCCAATGTAAGACC
1 AGGACATGGCATCGACAT-GATAGATGAGAGCCAATGTAAGACC
41369619 ATGTTTGGAA
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
95 17 0.15
96 18 0.16
97 30 0.26
98 50 0.43
99 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (96 bp):
AGGACATGGCATCGACATGATAGATGAGAGCCAATGTAAGACCTATCTGGGACATGCATCAGCCA
CGAGATATGAAATCTAGTGTAAGACCTATCT
Found at i:41372500 original size:39 final size:40
Alignment explanation
Indices: 41372450--41372555 Score: 124
Period size: 39 Copynumber: 2.6 Consensus size: 40
41372440 TGAGATTACG
*
41372450 TGTAAGACCATATTTGGGATATGGCATCGATATGAGAT-T
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCA
** * * *
41372489 TGTAAGACCATAGATGGGCTATTGGTATCGGTATGAGATCCCA
1 TGTAAGACCATATTTGGGATA-TGGCATCGATATGAGAT--CA
41372532 TGTAAGACCATATTTGGGATATGG
1 TGTAAGACCATATTTGGGATATGG
41372556 TATTGGTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
39 18 0.33
40 15 0.28
42 3 0.06
43 18 0.33
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (40 bp):
TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCA
Found at i:41375234 original size:23 final size:23
Alignment explanation
Indices: 41375137--41375237 Score: 89
Period size: 23 Copynumber: 4.4 Consensus size: 23
41375127 GCTAATGAAT
* *
41375137 AGTAAGCTTTATTGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
* *
41375160 GGTAACCTCT-ATCGAGCTG-AAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* *
41375182 AGTAAGCTCCAATAAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
** * *
41375205 AACAAGCTTTAATGAGCTAAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
41375228 AGTAAGCTCT
1 AGTAAGCTCT
41375238 TACAAGCTGA
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 16 0.28
23 42 0.72
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:41378553 original size:46 final size:45
Alignment explanation
Indices: 41378503--41378675 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
41378493 GTTGAGCATC
*
41378503 CGAACTTGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGCT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGCT
* * * *
41378549 CGAACTCATTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--GC-T
* *
41378595 CCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGAC-
1 CGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG-CT
41378642 CGAGA-TCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 CGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
41378676 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 23
0.75 0.09 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 6 0.06
46 56 0.54
47 24 0.23
48 4 0.04
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGCT
Found at i:41386114 original size:46 final size:45
Alignment explanation
Indices: 41386064--41386236 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
41386054 GTTGAGCATA
*
41386064 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTC
* * *
41386110 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G--TC
* * *
41386157 CAAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGTC
*
41386202 CTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
41386237 GGCAGGTTAC
Statistics
Matches: 104, Mismatches: 13, Indels: 21
0.75 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 7 0.07
46 55 0.53
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGTC
Found at i:41393511 original size:40 final size:40
Alignment explanation
Indices: 41393456--41393673 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
41393446 CAGATGGTAA
* *
41393456 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
41393496 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
41393536 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41393576 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41393616 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41393656 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41393674 TACTTGGTTT
Statistics
Matches: 168, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 18 0.11
40 149 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41400534 original size:79 final size:81
Alignment explanation
Indices: 41400398--41400580 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
41400388 TCGAATGATG
* *
41400398 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
41400462 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
41400477 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
41400539 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
41400557 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41400581 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:41400596 original size:40 final size:40
Alignment explanation
Indices: 41400399--41400582 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
41400389 CGAATGATGT
* * * *
41400399 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
41400439 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
41400479 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41400517 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
41400558 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
41400583 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:41400604 original size:79 final size:79
Alignment explanation
Indices: 41400451--41400615 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
41400441 GGACTAAGAT
* **
41400451 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
41400516 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
41400530 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
41400593 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
41400609 CCGAAGG
1 CCGAAGG
41400616 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:41411189 original size:39 final size:40
Alignment explanation
Indices: 41411075--41411258 Score: 209
Period size: 39 Copynumber: 4.7 Consensus size: 40
41411065 GCTACTCGTT
*
41411075 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
41411115 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
41411155 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
41411194 CAAATGCCTTC--GATCTTAGTCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
41411233 CAAA-GCCTTCGGGACTTAGCCGCGGA
1 CAAATGCCTTCGGGACTTAGCC-CGGA
41411259 GCATCATTCG
Statistics
Matches: 123, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 13 0.11
39 54 0.44
40 51 0.41
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:41418461 original size:39 final size:41
Alignment explanation
Indices: 41418361--41418544 Score: 222
Period size: 40 Copynumber: 4.6 Consensus size: 41
41418351 TCGAATGATG
* * *
41418361 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
41418400 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
41418440 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
41418479 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
41418519 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41418545 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
39 46 0.36
40 72 0.57
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:41418496 original size:79 final size:80
Alignment explanation
Indices: 41418361--41418542 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
41418351 TCGAATGATG
* * *
41418361 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
41418425 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
41418439 TTCCGGGCTAAGCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
41418502 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
41418519 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAG-CCCGAAGGCATT
41418543 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 69 0.78
80 19 0.21
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:41418566 original size:79 final size:79
Alignment explanation
Indices: 41418413--41418567 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
41418403 GGACTAAGAT
* **
41418413 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
41418478 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
41418492 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
41418555 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
41418568 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:41423516 original size:40 final size:40
Alignment explanation
Indices: 41423460--41423676 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
41423450 CGGATGGTAA
* *
41423460 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
41423500 TCGGGCTAAGTCCCGAAGGTATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41423540 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41423580 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
41423620 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
41423659 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41423677 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 9 0.06
39 32 0.20
40 121 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41429674 original size:23 final size:22
Alignment explanation
Indices: 41429590--41429675 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 22
41429580 TGATGAACAA
* *
41429590 TAAGCTCTATTGAGCTAAAATGG
1 TAAGCTCTA-TGAGCTGAAATAG
*
41429613 TAAGCTCTATCAAGCT-AAATAG
1 TAAGCTCTAT-GAGCTGAAATAG
*
41429635 TAAGCTCCAATGAGCTGAAATAG
1 TAAGCT-CTATGAGCTGAAATAG
41429658 TAAGCTCTTATGAGCTGA
1 TAAGCTC-TATGAGCTGA
41429676 TATATCGGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
22 17 0.31
23 37 0.69
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (22 bp):
TAAGCTCTATGAGCTGAAATAG
Found at i:41431627 original size:37 final size:36
Alignment explanation
Indices: 41431576--41431683 Score: 107
Period size: 37 Copynumber: 2.9 Consensus size: 36
41431566 ATTCTAAAAA
*
41431576 TAATATTATTTTAATAGTTTAATATTAAATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATT-AATTTAATAT
*
41431612 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
*
41431649 TAAAGTGATTATCTTAATA-TTAAAT-TTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAATTTAAT
41431684 GTTTACCTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
36 13 0.21
37 29 0.48
38 6 0.10
39 12 0.20
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:41432666 original size:24 final size:24
Alignment explanation
Indices: 41432630--41432679 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
41432620 ATCTAACTAT
*
41432630 ATATCTATTTTAT-AAATGTTTATA
1 ATATCTATATTATGAAATG-TTATA
* *
41432654 ATATTTATATTATGTAATGTTATA
1 ATATCTATATTATGAAATGTTATA
41432678 AT
1 AT
41432680 TGTGATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (24 bp):
ATATCTATATTATGAAATGTTATA
Found at i:41435799 original size:42 final size:42
Alignment explanation
Indices: 41435749--41435903 Score: 193
Period size: 42 Copynumber: 3.7 Consensus size: 42
41435739 CTGAGATTAT
* *
41435749 GTGTAAGACCATATCTGGGATATGGAATTGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
*
41435791 GTGTAAGACCATATCTGGGATATGGCATCGATATTAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
* * * * * *
41435833 GTGTAAGACCATAGCTGGGCTATTGTCCTCGATACGAGATTTC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTTC
* * *
41435876 ATGTAAGGCCATATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
41435904 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 63 0.66
43 32 0.34
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
Found at i:41440357 original size:38 final size:39
Alignment explanation
Indices: 41440297--41440389 Score: 136
Period size: 38 Copynumber: 2.4 Consensus size: 39
41440287 TGTGAATCAT
*
41440297 GGGTA-CGACGTACAACAGGGGCACATATGTGCATTAAG
1 GGGTACCGAAGTACAACAGGGGCACATATGTGCATTAAG
** *
41440335 GGGTACCGAAGTACAACA-GGGCATGTATGTGCATTCAG
1 GGGTACCGAAGTACAACAGGGGCACATATGTGCATTAAG
41440373 GGGTACCGAAGTACAAC
1 GGGTACCGAAGTACAAC
41440390 TGAGTATAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 39 0.78
39 11 0.22
ACGTcount: A:0.31, C:0.19, G:0.31, T:0.18
Consensus pattern (39 bp):
GGGTACCGAAGTACAACAGGGGCACATATGTGCATTAAG
Found at i:41444945 original size:27 final size:26
Alignment explanation
Indices: 41444914--41445002 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
41444904 CAGCGACGGT
*
41444914 AATATAATCGGCACACAGCCATGGGTA
1 AATATGATCGGCACACAGCCAT-GGTA
* * **
41444941 AATATGATCGGCACAGAGTCATCAATA
1 AATATGATCGGCACACAGCCAT-GGTA
* *
41444968 AATATGATAGGCACATAGCCACTGGTA
1 AATATGATCGGCACACAGCCA-TGGTA
41444995 AATATGAT
1 AATATGAT
41445003 TTGCACAAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
AATATGATCGGCACACAGCCATGGTA
Found at i:41445492 original size:54 final size:54
Alignment explanation
Indices: 41445428--41445668 Score: 231
Period size: 54 Copynumber: 4.5 Consensus size: 54
41445418 TTTACCTTAT
*
41445428 AGGGTTATTTCAGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAACTG
1 AGGG-TATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAACTG
** * * * *
41445483 AGGACATTTCAGTAATTTTACAAATTAAGGGTATTT-TAGTAATTTTACAAATTA
1 AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAACTG
*** * * *
41445537 AGGGTATTTC-GATAATTTTACAAATTGGGGGTATTTTGGTAATTTTACAAATTG
1 AGGGTATTTCAG-TAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAACTG
** * * *
41445591 AGGGTATTTTGGTAATTTTAC-AATCCAGGGGTATTTCGATAATTTTACAATCCG
1 AGGGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAACTG
*
41445645 GGGGTATTTCAGTAATTTTA-AAAT
1 AGGGTATTTCAGTAATTTTACAAAT
41445669 TTAGGGGTGC
Statistics
Matches: 154, Mismatches: 25, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
53 5 0.03
54 143 0.93
55 6 0.04
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAACTG
Found at i:41445552 original size:81 final size:81
Alignment explanation
Indices: 41445428--41445691 Score: 325
Period size: 81 Copynumber: 3.2 Consensus size: 81
41445418 TTTACCTTAT
* * * **
41445428 AGGGTTATTTCAGTAATTTTACACTACAAGGGTATTTCGATAATTTTACAAACTGAGGACATTTC
1 AGGG-TATTTTAGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTC
41445493 AGTAATTTTACAAATTA
65 AGTAATTTTACAAATTA
* * *
41445510 AGGGTATTTTAGTAATTTTACAA-ATTAAGGGTATTTCGATAATTTTACAAATTGGGGGTATTTT
1 AGGGTATTTTAGTAATTTTACAATA-CAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTC
* *
41445574 GGTAATTTTACAAATTG
65 AGTAATTTTACAAATTA
* * * * *
41445591 AGGGTATTTTGGTAATTTTACAATCCAGGGGTATTTCGATAATTTTACAATCCGGGGGTATTTCA
1 AGGGTATTTTAGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCA
41445656 GTAATTTTA-AAATTTA
66 GTAATTTTACAAA-TTA
* **
41445672 GGGGTGCTTTAGTAATTTTA
1 AGGGTATTTTAGTAATTTTA
41445692 TAATCCGGGG
Statistics
Matches: 155, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
80 4 0.03
81 147 0.95
82 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTTACAATACAAGGGTATTTCGATAATTTTACAAACTGGGGGTATTTCA
GTAATTTTACAAATTA
Found at i:41445675 original size:27 final size:28
Alignment explanation
Indices: 41445427--41445691 Score: 187
Period size: 27 Copynumber: 9.8 Consensus size: 28
41445417 TTTTACCTTA
* * *
41445427 TAGGGTTATTTCAGTAATTTTAC-ACTA
1 TAGGGGTATTTCAGTAATTTTACAAATT
* * *
41445454 CAAGGGTATTTC-GATAATTTTACAAACT
1 TAGGGGTATTTCAG-TAATTTTACAAATT
* **
41445482 GA-GGACATTTCAGTAATTTTACAAA-T
1 TAGGGGTATTTCAGTAATTTTACAAATT
* *
41445508 TAAGGGTATTTTAGTAATTTTACAAA-T
1 TAGGGGTATTTCAGTAATTTTACAAATT
*
41445535 TAAGGGTATTTC-GATAATTTTACAAA-T
1 TAGGGGTATTTCAG-TAATTTTACAAATT
* **
41445562 TGGGGGTATTTTGGTAATTTTACAAATT
1 TAGGGGTATTTCAGTAATTTTACAAATT
* ** *
41445590 GA-GGGTATTTTGGTAATTTTAC-AATC
1 TAGGGGTATTTCAGTAATTTTACAAATT
* *
41445616 CAGGGGTATTTC-GATAATTTTAC-AATC
1 TAGGGGTATTTCAG-TAATTTTACAAATT
**
41445643 CGGGGGTATTTCAGTAATTTTA-AAATT
1 TAGGGGTATTTCAGTAATTTTACAAATT
*
41445670 TAGGGGTGCTTT-AGTAATTTTA
1 TAGGGGT-ATTTCAGTAATTTTA
41445692 TAATCCGGGG
Statistics
Matches: 199, Mismatches: 27, Indels: 24
0.80 0.11 0.10
Matches are distributed among these distances:
26 9 0.05
27 181 0.91
28 9 0.05
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (28 bp):
TAGGGGTATTTCAGTAATTTTACAAATT
Found at i:41446529 original size:17 final size:18
Alignment explanation
Indices: 41446492--41446529 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
41446482 AAAATGGAAA
* *
41446492 GAGAGTGAAAAGAGGTTT
1 GAGAGGGAAAAGAGATTT
41446510 GAGAGGGAAAAGA-ATTT
1 GAGAGGGAAAAGAGATTT
41446527 GAG
1 GAG
41446530 GAAAATACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.18
Consensus pattern (18 bp):
GAGAGGGAAAAGAGATTT
Found at i:41475677 original size:40 final size:40
Alignment explanation
Indices: 41475583--41475765 Score: 253
Period size: 40 Copynumber: 4.5 Consensus size: 40
41475573 GGATGATAAT
* *
41475583 CGGGCTAAGTCCCAAAGGCATTT-TGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* *
41475624 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
41475664 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
41475704 CGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
41475744 CGGGCTATGTCCCGAAGACATT
1 CGGGCTAAGTCCCGAAGGCATT
41475766 GAGCGAATAG
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
40 103 0.80
41 22 0.17
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:41483810 original size:40 final size:40
Alignment explanation
Indices: 41483711--41483928 Score: 266
Period size: 40 Copynumber: 5.5 Consensus size: 40
41483701 TGGATGATAA
*
41483711 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * **
41483752 CCTGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
41483792 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41483832 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
41483872 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
41483911 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
41483929 TACTTGGCTT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 100 0.64
41 23 0.15
42 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:41488003 original size:22 final size:22
Alignment explanation
Indices: 41487972--41488015 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41487962 TATAACATCG
*
41487972 ACTCAGTTACTATGCTGTCAAA
1 ACTCAATTACTATGCTGTCAAA
41487994 ACTCAATTACTATGCTGTCAAA
1 ACTCAATTACTATGCTGTCAAA
41488016 TCAGGTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (22 bp):
ACTCAATTACTATGCTGTCAAA
Found at i:41489938 original size:46 final size:46
Alignment explanation
Indices: 41489888--41490063 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
41489878 TGGTTGAGCA
*
41489888 TCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
41489934 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* **
41489979 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGACCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
41490027 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41490064 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.59
47 28 0.27
48 2 0.02
50 3 0.03
51 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41490044 original size:93 final size:93
Alignment explanation
Indices: 41489885--41490055 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
41489875 GGATGGTTGA
* * *
41489885 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
41489950 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
41489978 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGACCGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
41490043 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41490056 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:41493074 original size:29 final size:29
Alignment explanation
Indices: 41492988--41493071 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
41492978 GCATATATCG
* * * *
41492988 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGG-TTTCTC
41493018 TAT-TCTGGATTTCTTTATTCTGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGTTTCTC
41493047 TATCTTGGATTTCTTTATTC-GGTTT
1 TATCTTGGATTTCTTTATTCTGGTTT
41493072 TCTTGTTATC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.10
29 23 0.48
30 20 0.42
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCTGGTTTCTC
Found at i:41493075 original size:14 final size:15
Alignment explanation
Indices: 41492997--41493075 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
41492987 GTATCTTGGG
*
41492997 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
41493012 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
41493027 TTTCTTTATTCTGG-
1 TTTCTTTATTCTGGA
*
41493041 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
41493056 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
41493070 TTTCTT
1 TTTCTT
41493076 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
13 2 0.04
14 18 0.33
15 33 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:41495513 original size:46 final size:46
Alignment explanation
Indices: 41495463--41495637 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
41495453 GGTTGAGCAT
* *
41495463 CCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* * * * * *
41495509 CCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATGC
* *
41495554 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* *
41495602 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41495638 GTGGGTTACA
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 59 0.57
47 27 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
Found at i:41495618 original size:93 final size:93
Alignment explanation
Indices: 41495459--41495630 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
41495449 GGATGGTTGA
* * * *
41495459 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
41495524 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
41495552 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
41495617 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
41495631 CTTATGGGTG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGCTGAGTCCGAGTTCACCTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:41503312 original size:6 final size:6
Alignment explanation
Indices: 41503301--41503333 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
41503291 TCCTCCTATC
*
41503301 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
41503334 AAATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:41503339 original size:18 final size:18
Alignment explanation
Indices: 41503301--41503349 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
41503291 TCCTCCTATC
* **
41503301 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTAAA
41503319 TTTTTATTTTCATTTAAA
1 TTTTTATTTTCATTTAAA
41503337 TTTAATTATTTTC
1 TTT--TTATTTTC
41503350 TTTTGAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 18 0.69
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTATTTTCATTTAAA
Found at i:41511716 original size:12 final size:12
Alignment explanation
Indices: 41511698--41511727 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41511688 GATTTTCTCA
41511698 AAAATGGAAATG
1 AAAATGGAAATG
*
41511710 GAAATGGAAATG
1 AAAATGGAAATG
41511722 AAAATG
1 AAAATG
41511728 ATAAATGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:41513171 original size:8 final size:8
Alignment explanation
Indices: 41513158--41513187 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
41513148 CTTTGGGGTG
41513158 AATTTTAT
1 AATTTTAT
41513166 AATTTTAT
1 AATTTTAT
41513174 AATTTTAT
1 AATTTTAT
*
41513182 TATTTT
1 AATTTT
41513188 TCTAGAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
AATTTTAT
Found at i:41517341 original size:42 final size:43
Alignment explanation
Indices: 41517236--41517389 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 43
41517226 TGTGATTTCA
** * *
41517236 TGTAAGACCACATTTGAGACATTGGCATCGATTTATGAATTACG
1 TGTAAGACCATGTTTGGGACATTGGCATCG-TATATGAATTACG
* * *
41517280 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTT-TG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTATATGAATTACG
* * * * *
41517322 TGTATGACCCTGTTTGGGACAGTGGCATCG-ATATGTGATTACA
1 TGTAAGACCATGTTTGGGACATTGGCATCGTATATG-AATTACG
*
41517365 TGTAAGACCACGTTTGGGACATTGG
1 TGTAAGACCATGTTTGGGACATTGG
41517390 GGTTGTACAA
Statistics
Matches: 89, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 5 0.06
42 29 0.33
43 29 0.33
44 26 0.29
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTATATGAATTACG
Found at i:41517384 original size:43 final size:43
Alignment explanation
Indices: 41517222--41517389 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 43
41517212 ATAGGATTTT
* * * *
41517222 GATATGTGATTTCATGTAAGACCACATTTGAGACATTGGCATC
1 GATATATGATTACATGTAAGACCACGTTTGGGACATTGGCATC
* * * *
41517265 GATTTATGAATTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATATG-ATTACATGTAAGACCACGTTTGGGACATTGGCATC
** * *
41517309 G-TATATGAGTT-TGTGTATGACC-CTGTTTGGGACAGTGGCATC
1 GATATATGA-TTACATGTAAGACCAC-GTTTGGGACATTGGCATC
*
41517351 GATATGTGATTACATGTAAGACCACGTTTGGGACATTGG
1 GATATATGATTACATGTAAGACCACGTTTGGGACATTGG
41517390 GGTTGTACAA
Statistics
Matches: 100, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
42 29 0.29
43 40 0.40
44 31 0.31
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
GATATATGATTACATGTAAGACCACGTTTGGGACATTGGCATC
Found at i:41523075 original size:42 final size:40
Alignment explanation
Indices: 41522962--41523151 Score: 219
Period size: 40 Copynumber: 4.8 Consensus size: 40
41522952 CATTTGAATG
* * *
41522962 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * *
41523002 TTATCCGGGCT----CCCAAAGGCATTTGTACGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
41523038 ATATCCGGGCTAAGACCCGAAGGCATATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGC--ATTTGTGCGAGTTGAT
* *
41523080 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
41523120 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
41523152 TTGTGGTTAT
Statistics
Matches: 129, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
36 27 0.21
37 3 0.02
40 61 0.47
42 38 0.29
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:41523128 original size:82 final size:77
Alignment explanation
Indices: 41522966--41523167 Score: 230
Period size: 82 Copynumber: 2.6 Consensus size: 77
41522956 TGAATGATAT
* * * *
41522966 CCGGGCTAAGTCCCGAAGGC-ATTTATGCTAGTGATTTTATCCGGGCTCCCAAAGGCATTTGTAC
1 CCGGGCTAAGACCCGAAGGCAATTTGTGCGAGTGATTATATCCGGGCTCCCAAAGGCATTTGTAC
*
41523030 GAGTTGATATAT
66 GAGTTGATATAC
41523042 CCGGGCTAAGACCCGAAGGCATATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCAAAGGCAT
1 CCGGGCTAAGACCCGAAGGCA-ATTTGTGCGAG-TGATTATATCCGGGCT----CCCAAAGGCAT
* *
41523106 TTGTGCGAGTTGCTATAC
60 TTGTACGAGTTGATATAC
* ** *
41523124 CCGGGTTAAGACCCGAAGGCAA-TTGTGCTTGTGGTTATATCCGG
1 CCGGGCTAAGACCCGAAGGCAATTTGTGCGAGTGATTATATCCGG
41523168 CTAAATTCCG
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
76 19 0.18
78 20 0.19
79 5 0.05
80 16 0.15
81 1 0.01
82 46 0.43
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (77 bp):
CCGGGCTAAGACCCGAAGGCAATTTGTGCGAGTGATTATATCCGGGCTCCCAAAGGCATTTGTAC
GAGTTGATATAC
Found at i:41531120 original size:40 final size:39
Alignment explanation
Indices: 41531065--41531273 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
41531055 ATTTGAATGA
*
41531065 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGA-TT
*
41531105 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
* * *
41531143 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * *
41531183 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATT
* * * * * *
41531223 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
41531262 ATATCC-GGCTAA
1 -TATCCGGGCTAA
41531274 ATTCCGAAGA
Statistics
Matches: 152, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
38 32 0.21
39 11 0.07
40 109 0.72
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATT
Found at i:41531194 original size:78 final size:80
Alignment explanation
Indices: 41531064--41531273 Score: 257
Period size: 78 Copynumber: 2.7 Consensus size: 80
41531054 CATTTGAATG
* * * * *
41531064 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
*
41531129 TTTATGCTAG-TGAT
66 TTTATGCGAGTTGAT
41531143 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
* *
41531206 ATTTGTGCGAGTTGCT
65 ATTTATGCGAGTTGAT
* * * ** *
41531222 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAA
41531274 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 63 0.56
79 14 0.12
80 36 0.32
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTATGCGAGTTGAT
Found at i:41533433 original size:38 final size:38
Alignment explanation
Indices: 41533358--41533460 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
41533348 GGCTTAAAGA
* ** **
41533358 CCCGCAGGCTTCGAGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGAATAAAT
* *
41533396 CTCGTAGGCTTCGTGCTGGTATTATATCCGGAATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGAATAAAT
* *
41533434 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
41533461 TCGAGCCTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGAATAAAT
Found at i:41533582 original size:43 final size:43
Alignment explanation
Indices: 41533458--41533569 Score: 197
Period size: 43 Copynumber: 2.6 Consensus size: 43
41533448 GCTGGTATTA
* * *
41533458 TATTCGAGCCTTCATGCCTAGCAGGCTTCGTGCCGCTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
41533501 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
41533544 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
41533570 GTAATGCCGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.12, C:0.28, G:0.31, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:41540182 original size:43 final size:43
Alignment explanation
Indices: 41540135--41540273 Score: 142
Period size: 43 Copynumber: 3.3 Consensus size: 43
41540125 GACTACATCA
*
41540135 GGGACGTTGGCATCGAT-TGTGATTTACGTGTAAGACCATGTCT
1 GGGACGTTGGCATCGATATGTGA-TTACATGTAAGACCATGTCT
* * * *
41540178 GGGACATTGGCATTGTATATGAGA-T-CATGTAAGACCCTGTCT
1 GGGACGTTGGCATCG-ATATGTGATTACATGTAAGACCATGTCT
* ** *
41540220 GGGACAG-TGGAATCGATATGTGATTACATGTAAGACCACATTT
1 GGGAC-GTTGGCATCGATATGTGATTACATGTAAGACCATGTCT
41540263 GGGACGTTGGC
1 GGGACGTTGGC
41540274 GATGTACGAG
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
41 7 0.09
42 28 0.37
43 35 0.46
44 2 0.03
45 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
GGGACGTTGGCATCGATATGTGATTACATGTAAGACCATGTCT
Found at i:41540219 original size:42 final size:43
Alignment explanation
Indices: 41540158--41540257 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
41540148 CGATTGTGAT
* * * *
41540158 TTACGTGTAAGACCATGTCTGGGACATTGGCATTGTATATGAGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGAATCG-ATATGAGA
* *
41540202 -T-CATGTAAGACCCTGTCTGGGACAGTGGAATCGATATGTGA
1 TTACATGTAAGACCATGTCTGGGACAGTGGAATCGATATGAGA
41540243 TTACATGTAAGACCA
1 TTACATGTAAGACCA
41540258 CATTTGGGAC
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
41 7 0.15
42 28 0.60
43 12 0.26
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGGAATCGATATGAGA
Found at i:41541283 original size:13 final size:13
Alignment explanation
Indices: 41541260--41541334 Score: 92
Period size: 13 Copynumber: 6.3 Consensus size: 13
41541250 GCCTAAATAG
41541260 ATATG-GTATCAT
1 ATATGTGTATCAT
41541272 ATATGTGTATCAT
1 ATATGTGTATCAT
41541285 ATA--TGTAT--T
1 ATATGTGTATCAT
*
41541294 A-ATGTGTATCTT
1 ATATGTGTATCAT
41541306 ATATG-GTATCAT
1 ATATGTGTATCAT
41541318 ATATGTGTATCAT
1 ATATGTGTATCAT
41541331 ATAT
1 ATAT
41541335 AAATAGCCCA
Statistics
Matches: 55, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
8 1 0.02
9 2 0.04
10 5 0.09
11 5 0.09
12 18 0.33
13 24 0.44
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.47
Consensus pattern (13 bp):
ATATGTGTATCAT
Found at i:41541323 original size:25 final size:25
Alignment explanation
Indices: 41541260--41541334 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
41541250 GCCTAAATAG
41541260 ATATGGTATCATATATGTGTATCAT
1 ATATGGTATCATATATGTGTATCAT
*
41541285 ATAT-GTAT--TA-ATGTGTATCTT
1 ATATGGTATCATATATGTGTATCAT
41541306 ATATGGTATCATATATGTGTATCAT
1 ATATGGTATCATATATGTGTATCAT
41541331 ATAT
1 ATAT
41541335 AAATAGCCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
21 14 0.32
22 6 0.14
24 6 0.14
25 18 0.41
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.47
Consensus pattern (25 bp):
ATATGGTATCATATATGTGTATCAT
Found at i:41543807 original size:46 final size:44
Alignment explanation
Indices: 41543709--41543844 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 44
41543699 GACTCACCAT
* *
41543709 AGCTCAAAAGAGCTTACTGTTTTAGCTC-ATTGTACCTTACCGATTC
1 AGCTCAAAAGAGCTTAC--TTTTAGCTCAATAG-AGCTTACCGATTC
* *
41543755 AACTCAAAAGAGCTTACTATTTAGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAAAAGAGCTTACT-TTTAGCTCAATAGAGCTTACCG-ATTC
*
41543801 AGCTCAATAGAGCTTACCGTTTTCAGCTCAATAGAGCTTACCGA
1 AGCTCAAAAGAGCTTA-C-TTTT-AGCTCAATAGAGCTTACCGA
41543845 CCATGACTCG
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
44 1 0.01
45 16 0.21
46 36 0.47
47 4 0.05
48 20 0.26
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (44 bp):
AGCTCAAAAGAGCTTACTTTTAGCTCAATAGAGCTTACCGATTC
Found at i:41543809 original size:24 final size:24
Alignment explanation
Indices: 41543709--41543843 Score: 147
Period size: 24 Copynumber: 5.8 Consensus size: 24
41543699 GACTCACCAT
* *
41543709 AGCTCAAAAGAGCTTACTGTTTT-
1 AGCTCAATAGAGCTTACCGTTTTC
* * *
41543732 AGCTC-ATTGTACCTTACCG-ATTC
1 AGCTCAATAG-AGCTTACCGTTTTC
* *
41543755 AACTCAAAAGAGCTTA-C-TATTT-
1 AGCTCAATAGAGCTTACCGT-TTTC
41543777 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTACCGTTTTC
41543801 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTACCGTTTTC
41543825 AGCTCAATAGAGCTTACCG
1 AGCTCAATAGAGCTTACCG
41543844 ACCATGACTC
Statistics
Matches: 92, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
22 19 0.21
23 27 0.29
24 46 0.50
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACCGTTTTC
Found at i:41543861 original size:48 final size:45
Alignment explanation
Indices: 41543715--41543861 Score: 124
Period size: 46 Copynumber: 3.2 Consensus size: 45
41543705 CCATAGCTCA
* * *
41543715 AAAGAGCTTACTGTTTTAGCTC-ATTGTACCTTACCGATTCA-ACTC
1 AAAGAGCTTACCGTTTTAGCTCAATAG-AGCTTACCGA-TCAGACTC
*
41543760 AAAAGAGCTTA-C-TATTTAGCTCAATAGAGCTTACCGTTTTCAG-CTC
1 -AAAGAGCTTACCGT-TTTAGCTCAATAGAGCTTACCG--ATCAGACTC
*
41543806 AATAGAGCTTACCGTTTTCAGCTCAATAGAGCTTACCGACCATGACTC
1 AA-AGAGCTTACCGTTTT-AGCTCAATAGAGCTTACCGATCA-GACTC
41543854 GAAAGAGC
1 -AAAGAGC
41543862 ATGTATGATG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
44 1 0.01
45 18 0.22
46 29 0.35
47 5 0.06
48 28 0.34
49 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (45 bp):
AAAGAGCTTACCGTTTTAGCTCAATAGAGCTTACCGATCAGACTC
Found at i:41549067 original size:42 final size:42
Alignment explanation
Indices: 41549020--41549193 Score: 235
Period size: 42 Copynumber: 4.2 Consensus size: 42
41549010 GCTCTCGATA
* *
41549020 TAATATATATATTCGGGTTAAATCTCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
41549062 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
41549102 TAATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* * ** * *
41549144 TAATATATATATCTGGGTAAAATCCCATAGGCTTAGTGTTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
41549186 TACTATAT
1 TAATATAT
41549194 CCGGACTTAG
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 36 0.31
41 2 0.02
42 79 0.68
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:41549068 original size:40 final size:40
Alignment explanation
Indices: 41549024--41549153 Score: 215
Period size: 40 Copynumber: 3.2 Consensus size: 40
41549014 TCGATATAAT
* *
41549024 ATATATATTCGGGTTAAATCTCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
41549064 ATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
41549104 ATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 A--TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
41549146 ATATATAT
1 ATATATAT
41549154 ATCTGGGTAA
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
40 45 0.54
42 39 0.46
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (40 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:41549193 original size:82 final size:82
Alignment explanation
Indices: 41549020--41549177 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 82
41549010 GCTCTCGATA
* * * *
41549020 TAATATATATATTCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCC
1 TAATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTAAAATCC
*
41549085 CGCAGGCTTCATGCTGG
66 CACAGGCTTCATGCTGG
*
41549102 TAATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATCTGGGTAAAAT
1 TAATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-ATATATATCCGGGTAAAAT
*
41549167 CCCATAGGCTT
64 CCCACAGGCTT
41549178 AGTGTTGGTA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
82 40 0.60
83 1 0.01
84 26 0.39
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (82 bp):
TAATCTATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTAAAATCC
CACAGGCTTCATGCTGG
Found at i:41556823 original size:40 final size:40
Alignment explanation
Indices: 41556779--41556910 Score: 201
Period size: 40 Copynumber: 3.2 Consensus size: 40
41556769 GCTCTCGATA
**
41556779 TAATATATATCCGGGTTAAATCTTGCAGGCTTCGTGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* * *
41556819 TAATATATATCTGGGTTAAATCCCGCAGGCTCCATGCTGG
1 TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
41556859 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 T-A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
41556901 TAATATATAT
1 TAATATATAT
41556911 ATATCTGGGT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
40 44 0.54
41 2 0.02
42 36 0.44
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (40 bp):
TAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:41556867 original size:42 final size:42
Alignment explanation
Indices: 41556781--41556936 Score: 208
Period size: 42 Copynumber: 3.7 Consensus size: 42
41556771 TCTCGATATA
**
41556781 ATATATATCCGGGTTAAATCTTGCAGGCTTCGTGCTGGT-A-
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
41556821 ATATATATCTGGGTTAAATCCCGCAGGCTCCATGCTGGTAAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
41556863 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATAT
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-AT
* * *
41556907 ATATATATCTGGGTAAAATCCCGTAGGCTT
1 ATATATATCCGGGTTAAATCCCGCAGGCTT
41556937 AGTGTTGGCA
Statistics
Matches: 101, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
40 34 0.34
41 1 0.01
42 36 0.36
43 1 0.01
44 29 0.29
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:41556956 original size:82 final size:80
Alignment explanation
Indices: 41556781--41556935 Score: 211
Period size: 82 Copynumber: 1.9 Consensus size: 80
41556771 TCTCGATATA
** *
41556781 ATATATATCCGGGTTAAATCTTGCAGGCTTCGTGCTGGTAATATATATCTGGGTTAAATCCCGCA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCTGGGTAAAATCCCGCA
*
41556846 GGCTCCATGCTGGTAAT
66 GGCTCCATGCTGG--AC
41556863 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATATATCTGGGTAAAATCC
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG---TA-ATATATATCTGGGTAAAATCC
*
41556928 CGTAGGCT
62 CGCAGGCT
41556936 TAGTGTTGGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
82 36 0.55
85 2 0.03
86 27 0.42
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (80 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCTGGGTAAAATCCCGCA
GGCTCCATGCTGGAC
Found at i:41558955 original size:18 final size:17
Alignment explanation
Indices: 41558932--41558966 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
41558922 GATGGGGTGA
41558932 AATGGGCCATGTGGGCCC
1 AATGGG-CATGTGGGCCC
*
41558950 AATGGGCTTGTGGGCCC
1 AATGGGCATGTGGGCCC
41558967 TACATGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (17 bp):
AATGGGCATGTGGGCCC
Found at i:41564536 original size:27 final size:27
Alignment explanation
Indices: 41564506--41564832 Score: 158
Period size: 27 Copynumber: 12.1 Consensus size: 27
41564496 ACTAAAATGT
* *
41564506 CCTCAATTTGTAAAATTACCAAAGTAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * ***
41564533 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCAATTTATAAAATTACCAAATTAC
** * * ***
41564560 CCTTGATTTACAGAATTACCGTTTTAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * **
41564587 CCTCAAATTATAGAATTACCATTTTAC
1 CCTCAATTTATAAAATTACCAAATTAC
* **
41564614 CCTCAATTTATAGAATTACCATTTTAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * ***
41564641 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCAATTTATAAAATTACCAAATTAC
** * * *
41564668 CCTTGATTTACAAAATTACTAAAATAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * * *
41564695 CCTTAGTTTACAAAATTACCAAAATAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * *
41564722 CC-CTAGTTTCTAAAATTACCAAAATAC
1 CCTC-AATTTATAAAATTACCAAATTAC
** * *
41564749 CACT-GGTTTGTGAAATTACCGAAA-TAC
1 C-CTCAATTTATAAAATTACC-AAATTAC
* *
41564776 CCTCAATTTGTAAAATTACCAAACTAC
1 CCTCAATTTATAAAATTACCAAATTAC
* * * *
41564803 CC-CTGATTTACAAAATTACAAAAATAC
1 CCTC-AATTTATAAAATTACCAAATTAC
41564830 CCT
1 CCT
41564833 TGACTTTCTA
Statistics
Matches: 250, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.02
27 240 0.96
28 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (27 bp):
CCTCAATTTATAAAATTACCAAATTAC
Found at i:41564588 original size:54 final size:54
Alignment explanation
Indices: 41564530--41564686 Score: 242
Period size: 54 Copynumber: 2.9 Consensus size: 54
41564520 ATTACCAAAG
*
41564530 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
* * * ** *
41564584 TACCCTCAAATTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
*
41564638 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTAC
41564687 TAAAATACCC
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTT
Found at i:41564696 original size:54 final size:54
Alignment explanation
Indices: 41564517--41564697 Score: 218
Period size: 54 Copynumber: 3.4 Consensus size: 54
41564507 CTCAATTTGT
*
41564517 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
* *** * * * ** *
41564571 AGAATTACCGTTTTACCCTCAAATTATAGAATTACCATTTTACCCTCAATTTAT
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
* **
41564625 AGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
* *
41564679 AAAATTACTAAAATACCCT
1 AAAATTACCAAATTACCCT
41564698 TAGTTTACAA
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 104 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTAC
Found at i:41564696 original size:81 final size:81
Alignment explanation
Indices: 41564517--41564715 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 81
41564507 CTCAATTTGT
* * * *
41564517 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
*
41564582 TTTACCCTCAAATTAT
66 TTTACCCTCAAATTAC
* *** *
41564598 AGAATTACCATTTTACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGT
1 AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
** *
41564663 TTTACCCTTGATTTAC
66 TTTACCCTCAAATTAC
* * * * *
41564679 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCA
1 AAAATTACCAAAATACCCTCAATTTATAGAATTACCA
41564716 AAATACCCCT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGT
TTTACCCTCAAATTAC
Found at i:41564723 original size:54 final size:55
Alignment explanation
Indices: 41564665--41564917 Score: 196
Period size: 54 Copynumber: 4.7 Consensus size: 55
41564655 ATTACCGTTT
* *
41564665 TACCCTTGA-TTTAC-AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTTGACTTT-CTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * *** *
41564719 TACCCCT-AGTTTCTAAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAA
1 TACCCTTGACTTTCTAAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAA
* * * * * * *
41564773 TACCC-TCAATTTGTAAAATTACCAAACTACCCCTGATTTACAAAATTACAAAAA
1 TACCCTTGACTTTCTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
* * ***
41564827 TACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTATTGAAA
1 TACCCTTGACTTTCT-AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAA
* * * * *
41564883 TACCCTTG-GTTTGTAGATTTACCAAAACACCCTTG
1 TACCCTTGACTTTCTAAAATTACCAAAATACCCTTG
41564918 TAGGATGAAA
Statistics
Matches: 156, Mismatches: 34, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
53 4 0.03
54 101 0.65
55 13 0.08
56 38 0.24
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (55 bp):
TACCCTTGACTTTCTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAA
Found at i:41564765 original size:81 final size:81
Alignment explanation
Indices: 41564680--41564830 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
41564670 TTGATTTACA
* * * *
41564680 AAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCT-AGTTT-CTAAAATTACCA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTGA-TTTAC-AAAATTACAA
41564743 AAATACCACTGGTTTGTG
64 AAATACCACTGGTTTGTG
* ** *
41564761 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAACTACCCCTGATTTACAAAATTACAAAA
1 AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAA
41564826 ATACC
66 ATACC
41564831 CTTGACTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
81 58 0.97
82 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAA
ATACCACTGGTTTGTG
Found at i:41564856 original size:29 final size:27
Alignment explanation
Indices: 41564800--41564894 Score: 93
Period size: 27 Copynumber: 3.4 Consensus size: 27
41564790 ATTACCAAAC
* * * *
41564800 TACCCCTGATTTACAAAATTACAAAAA
1 TACCCTTGGTTTACAAAATTATAGAAA
*
41564827 TACCCTTGACTTT-CTAAAAATTATAGAAA
1 TACCCTTG-GTTTAC--AAAATTATAGAAA
* *
41564856 TACCATTGGTTTACAAAATTATTGAAA
1 TACCCTTGGTTTACAAAATTATAGAAA
41564883 TACCCTTGGTTT
1 TACCCTTGGTTT
41564895 GTAGATTTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
27 31 0.55
28 6 0.11
29 19 0.34
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTATAGAAA
Found at i:41565781 original size:16 final size:16
Alignment explanation
Indices: 41565760--41565790 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41565750 CAAATATGGG
*
41565760 CATGACATTTTGCATA
1 CATGACATGTTGCATA
41565776 CATGACATGTTGCAT
1 CATGACATGTTGCAT
41565791 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:41565854 original size:25 final size:25
Alignment explanation
Indices: 41565821--41565887 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
41565811 AGAAAGTGCT
*
41565821 AAAAGGGCTATGCCCCAATTTACCA
1 AAAAGGGCTTTGCCCCAATTTACCA
* *
41565846 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAATTTACCA
*
41565871 AAATGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
41565888 GTTATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAATTTACCA
Done.