Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 142 of 204
Found at i:43640188 original size:45 final size:45
Alignment explanation
Indices: 43640139--43640902 Score: 753
Period size: 45 Copynumber: 17.0 Consensus size: 45
43640129 AGATTCGCCG
* * *
43640139 TCTTCGATCTACTTCGCTACCAGTACAGAAAGACAAGATATGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
43640184 TCTTCGATCTACTTCACT-CCCGATACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACAGGAAGACAAGATCTGCTA
* * *
43640229 CCTTCGATCTACTTCGCTGCCAATATAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* ** * * * * *
43640274 TTTTTTTAACTTACTCCACTG-CTG-ATCAAGG-AGACAAG-GCTTG-TGA
1 -TCTTCGATC-TACTTCGCTGCCAGTA-C-AGGAAGACAAGATC-TGCT-A
* *
43640320 -CTTCGATCTACTTCGCTGAC-GATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACAGGAAGACAAGATCTGCTA
* * *
43640364 TCTTCAATCTACTTCGCTGAC-GATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAG-TACAGGAAGACAAGATCTGCTA
* * * * *
43640409 TATTCGATCTACTTCGCTGCCAGTATAGAAAGACAAGATATGTTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
43640454 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * *
43640499 TTTTCGATCTACTTCGCTGCCAGTATAGGAAGATAAAATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* ** * * *
43640544 TCTTCGACCTACTTTACTGCCAGTACAGAAAGACAAGATCTTCCA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * *
43640589 TCTTCGATCTACTTCGCTACCAATACAAGAAGACAAAATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
*** *
43640634 TCTTCGATCTACTTTTTTGCCAGTACAGGGAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * *
43640679 TCTTCGATATACTTTGCTGCCAGTACAGAAAGACAAGATCTACCA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* *
43640724 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGGTCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * *
43640769 TCTTCGATCTACTTCGTTGCCCGTACAGGAAGACAAGATCTACTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
* * * * * * * *
43640814 TTTTTGACCTACTTCACTG-CTGCT-CAAGG-AGATAAGGT-TGGTA
1 TCTTCGATCTACTTCGCTGCCAG-TAC-AGGAAGACAAGATCTGCTA
* * *
43640857 TCTTCGATCAACTTCGCTGCCAATACAAGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
43640902 T
1 T
43640903 TTTCAACCTA
Statistics
Matches: 583, Mismatches: 114, Indels: 44
0.79 0.15 0.06
Matches are distributed among these distances:
43 31 0.05
44 38 0.07
45 485 0.83
46 18 0.03
47 11 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGCTA
Found at i:43649529 original size:26 final size:27
Alignment explanation
Indices: 43649484--43649540 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
43649474 AATTTTAAAA
** * *
43649484 TATTTTTAAAATACTTTTTTTATTTTT
1 TATTTTTAAAATACAATTTTTAGTGTT
43649511 TATTTTTAAAATA-AATTTTTAGTGTT
1 TATTTTTAAAATACAATTTTTAGTGTT
43649537 TATT
1 TATT
43649541 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 13 0.50
27 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (27 bp):
TATTTTTAAAATACAATTTTTAGTGTT
Found at i:43654186 original size:13 final size:13
Alignment explanation
Indices: 43654168--43654298 Score: 117
Period size: 13 Copynumber: 10.2 Consensus size: 13
43654158 ATATTAAAAG
*
43654168 TTAAAACATTATA
1 TTAAAACAGTATA
*
43654181 TTAAAACAATATA
1 TTAAAACAGTATA
*
43654194 TTTATAACAGTATA
1 -TTAAAACAGTATA
*
43654208 TTAAAACAATATA
1 TTAAAACAGTATA
*
43654221 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
43654234 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
43654248 TTAAAACGGTATA
1 TTAAAACAGTATA
*
43654261 TTACAA-A-T-T-
1 TTAAAACAGTATA
*
43654270 TTATAACAGTATA
1 TTAAAACAGTATA
*
43654283 TTAAAATAGTATA
1 TTAAAACAGTATA
43654296 TTA
1 TTA
43654299 CATTAAAAAT
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 1 0.01
13 63 0.66
14 22 0.23
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:43654207 original size:27 final size:27
Alignment explanation
Indices: 43654168--43654297 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
43654158 ATATTAAAAG
*
43654168 TTAAAACATTATATTAAAACAATATAT
1 TTAAAACAGTATATTAAAACAATATAT
*
43654195 TTATAACAGTATATTAAAACAATATA-
1 TTAAAACAGTATATTAAAACAATATAT
* * * *
43654221 TTAAAAAAGTATATTTATAATAGTATA-
1 TTAAAACAGTATA-TTAAAACAATATAT
*
43654248 TTAAAACGGTATATT---ACAA-AT-T
1 TTAAAACAGTATATTAAAACAATATAT
* * *
43654270 TTATAACAGTATATTAAAATAGTATAT
1 TTAAAACAGTATATTAAAACAATATAT
43654297 T
1 T
43654298 ACATTAAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
22 15 0.19
23 2 0.02
25 2 0.02
26 15 0.19
27 47 0.58
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (27 bp):
TTAAAACAGTATATTAAAACAATATAT
Found at i:43654223 original size:40 final size:40
Alignment explanation
Indices: 43654168--43654298 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
43654158 ATATTAAAAG
*
43654168 TTAAAACATTATATTAAAACAATATATTTATAACAGTATA
1 TTAAAACAGTATATTAAAACAATATATTTATAACAGTATA
* *
43654208 TTAAAACAATATATTAAAA-AAGTATATTTATAATAGTATA
1 TTAAAACAGTATATTAAAACAA-TATATTTATAACAGTATA
*
43654248 TTAAAACGGTATATT---ACAA-AT-TTTATAACAGTATA
1 TTAAAACAGTATATTAAAACAATATATTTATAACAGTATA
*
43654283 TTAAAATAGTATATTA
1 TTAAAACAGTATATTA
43654299 CATTAAAAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
35 26 0.32
36 2 0.02
37 1 0.01
38 2 0.02
39 2 0.02
40 48 0.59
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (40 bp):
TTAAAACAGTATATTAAAACAATATATTTATAACAGTATA
Found at i:43656186 original size:7 final size:7
Alignment explanation
Indices: 43656174--43656215 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
43656164 ACGGGGTCGA
43656174 GGAAATG
1 GGAAATG
43656181 GGAAATG
1 GGAAATG
43656188 GGAAATG
1 GGAAATG
43656195 GGAAATG
1 GGAAATG
43656202 GGAAATG
1 GGAAATG
43656209 GGAAATG
1 GGAAATG
43656216 TAATAATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.14
Consensus pattern (7 bp):
GGAAATG
Found at i:43656838 original size:13 final size:13
Alignment explanation
Indices: 43656820--43656844 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43656810 AATTTTAATG
43656820 TAATATACTGTTT
1 TAATATACTGTTT
43656833 TAATATACTGTT
1 TAATATACTGTT
43656845 ATAAAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:43670746 original size:41 final size:41
Alignment explanation
Indices: 43670646--43670971 Score: 206
Period size: 41 Copynumber: 7.6 Consensus size: 41
43670636 AAGTAAATCC
* *
43670646 TATCTCCCTGAAGTTGCAGTGGAGCAAATTTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA--TAAAATCA-AG-TCT
* * * * *
43670691 TATCTCTCTTAAGTTGCAGTAGAGCAGATCACATCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCAAGTCT
* * *
43670732 TATCTCCCTGAAGTTGTAGTGGAGCAGAAAAAAAGTCAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-ATAAAA-TCAAGTCT
* * *
43670774 TATCTCTCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA--TAAAATCA-AG-TCT
** * * * *
43670819 TATCTCTTTGAAGTTGTAGTAGAGCAGATCACATCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCAAGTCT
* * * * * *
43670860 TATCTTCCTGAAGTTGTAGTGGAGAAGACAGAAGAAACTAA-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAG--ATAA-AATC-AAGTCT
** * **
43670904 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAAT--CAAGTCT
*
43670948 TATCTCCTTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
43670972 TGGATTAAAA
Statistics
Matches: 218, Mismatches: 48, Indels: 31
0.73 0.16 0.10
Matches are distributed among these distances:
41 52 0.24
42 38 0.17
43 25 0.11
44 51 0.23
45 52 0.24
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (41 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATAAAATCAAGTCT
Found at i:43670861 original size:128 final size:129
Alignment explanation
Indices: 43670632--43670967 Score: 482
Period size: 128 Copynumber: 2.6 Consensus size: 129
43670622 AGAACAAATT
** *
43670632 GAAAAAGTAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAATTTAAAACCACAGATCTTATCTC
1 GAAAAAGT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
*
43670697 TCTT-AAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-
65 T-TTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGAC
43670760 A
129 A
*
43670761 -AAAAAGTCAATCCTATCTCTCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
1 GAAAAAGT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
* *
43670825 TTTGAAGTTGTAGTAGAGCAGATCACATCAAGTCTTATCTTCCTGAAGTTGTAGTGGAGAAGACA
65 TTTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGACA
* * ** * *
43670890 GAAGAAACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTAAAATGATAAACCTTATCTC
1 GAA-AAAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTC
*
43670954 CTTGAAGTTGCAGT
65 TTTGAAGTTGCAGT
43670968 GGAGTGGATT
Statistics
Matches: 186, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
127 2 0.01
128 116 0.62
129 31 0.17
130 33 0.18
131 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (129 bp):
GAAAAAGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTTAAAACCATAGATCTTATCTCT
TTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGAAGACA
Found at i:43670952 original size:44 final size:44
Alignment explanation
Indices: 43670904--43671016 Score: 190
Period size: 44 Copynumber: 2.6 Consensus size: 44
43670894 AAACTAATCC
43670904 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
*
43670948 TATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
* * *
43670992 TATCTCTCTAAAGTTGCAGTAGAGT
1 TATCTCCCTGAAGTTGCAGTGGAGT
43671017 AGGCCGCATC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 64 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATGATAAACCT
Found at i:43674126 original size:44 final size:44
Alignment explanation
Indices: 43674077--43674421 Score: 175
Period size: 44 Copynumber: 7.8 Consensus size: 44
43674067 CGGTTGCAGC
* * * *
43674077 GGAGCAGGTTAAAGATTACAGATCTTATCTCCCTGAGTATTAGT
1 GGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGTAGTAGT
* *** * * * *
43674121 GGAGCAGATCGAAGACCCCAG-CCTTGTCTCCCTGAGTAGCAGT
1 GGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGTAGTAGT
* * * * *
43674164 GGAGTAGGTTGAAAAAAATTACAGATCTTATTTCCCTAAGTAGTAGT
1 GGAGCA-GAT--CAAAGATTACAGATCTTATCTCCCTAAGTAGTAGT
* * *
43674211 GGAGCAGAACGAAGATGT-CAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGATCAAAGAT-TACAGATCTTATCTCCCTAAGTAGTAGT
** * * ** *
43674255 GGAGCAGATTGAAG---CCAGTAATCCTATCTCTTTGAAGTTA-CAGT
1 GGAGCAGATCAAAGATTACAG--ATCTTATCTCCCT-AAG-TAGTAGT
* * * *
43674299 GGAGCGGAGT-AAA-ATAACAGATCTTATCTCTCTGAAGTTGTAGT
1 GGAGCAGA-TCAAAGATTACAGATCTTATCTCCCT-AAGTAGTAGT
* * * * *
43674343 GGAGCAGACCGAAGAATATCAGATCTTATCTCCATAAGCAGTAGT
1 GGAGCAGATCAAAGATTA-CAGATCTTATCTCCCTAAGTAGTAGT
* * * *
43674388 GGAGCAGATCGAAGATGACAGATTTTACCTCCCT
1 GGAGCAGATCAAAGATTACAGATCTTATCTCCCT
43674422 GAGGATATAG
Statistics
Matches: 223, Mismatches: 60, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
41 3 0.01
43 34 0.15
44 112 0.50
45 28 0.13
46 24 0.11
47 22 0.10
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
GGAGCAGATCAAAGATTACAGATCTTATCTCCCTAAGTAGTAGT
Found at i:43674152 original size:87 final size:88
Alignment explanation
Indices: 43674053--43674225 Score: 224
Period size: 90 Copynumber: 2.0 Consensus size: 88
43674043 TCGAAAACAA
* * *
43674053 AGCCTTGCCTCCCTCG-GTTGCAGCGGAGCAGGTT-AAAGATTACAGATCTTATCTCCCTGAGTA
1 AGCCTTGCCTCCCT-GAGTAGCAGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAAGTA
* *
43674116 TTAGTGGAGCAGATCGAAGACCCC
65 GTAGTGGAGCAGAACGAAGACCCC
* * * *
43674140 AGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATTTCCCTAAGT
1 AGCCTTGCCTCCCTGAGTAGCAGCGGAGCAGGTT--AAAAAATTACAGATCTTATCTCCCTAAGT
43674205 AGTAGTGGAGCAGAACGAAGA
64 AGTAGTGGAGCAGAACGAAGA
43674226 TGTCAGATCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 1 0.01
87 28 0.38
90 44 0.60
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGAGTAGCAGCGGAGCAGGTTAAAAAATTACAGATCTTATCTCCCTAAGTAG
TAGTGGAGCAGAACGAAGACCCC
Found at i:43674342 original size:88 final size:87
Alignment explanation
Indices: 43674229--43674516 Score: 224
Period size: 88 Copynumber: 3.3 Consensus size: 87
43674219 ACGAAGATGT
** * **
43674229 CAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCTTTGAAGT
1 CAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCATGAAGT
43674293 TACAGTGGAGCGGAGTAAAATAA
66 TACAGTGGAGCGGA-TAAAATAA
* ** * *
43674316 CAGATCTTATCTCTCTGAAGTTGTAGTGGAGCAGACCGAAG-AATATCAGATCTTATCTCCAT-A
1 CAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCA-AT-A-ATCCTATCTCCATGA
* * * * *
43674379 AG-CAGTAGTGGAGCAGATCGAAGATGA
63 AGTTA-CAGTGGAGCGGAT--AAAATAA
* * * * * * * * *
43674406 CAGATTTTACCTCCCTGAGGATATAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGT
1 CAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCATGAAGT
* *
43674471 TGCAGTGGAGTGGATTAAAATAA
66 TACAGTGGAGCGGA-TAAAATAA
* *
43674494 CAGATCTTATCTCTCTGAGGTTG
1 CAGATCTTATCTCCCTGAAGTTG
43674517 CAGTAGAGTA
Statistics
Matches: 149, Mismatches: 41, Indels: 21
0.71 0.19 0.10
Matches are distributed among these distances:
87 16 0.11
88 57 0.38
89 27 0.18
90 48 0.32
91 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (87 bp):
CAGATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGCCAATAATCCTATCTCCATGAAGT
TACAGTGGAGCGGATAAAATAA
Found at i:43674457 original size:178 final size:177
Alignment explanation
Indices: 43674185--43674516 Score: 484
Period size: 178 Copynumber: 1.9 Consensus size: 177
43674175 AAAAAAATTA
* * * * *
43674185 CAGATCTTATTTCCCTAAGTAGTAGTGGAGCAGAACGAAGATGTCAGATCTTATCTCCCTAAGCA
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
* * * **
43674250 GTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCTTTGAAGTTACAGTGGAGCGGAGTAAAATA
66 ATAGTGGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGAGTAAAATA
43674315 ACAGATCTTATCTCTCTGAAGTTGTAGTGGAGCAGACCGAAGAATAT
131 ACAGATCTTATCTCTCTGAAGTTGTAGTGGAGCAGACCGAAGAATAT
* * * *
43674362 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGAGGA
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
* * * *
43674427 TATAGTGGAGTACATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAAT
66 -ATAGTGGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGAGTAAAAT
*
43674492 AACAGATCTTATCTCTCTGAGGTTG
130 AACAGATCTTATCTCTCTGAAGTTG
43674517 CAGTAGAGTA
Statistics
Matches: 135, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
177 56 0.41
178 79 0.59
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (177 bp):
CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGAACGAAGATGACAGATCTTACCTCCCTAAGCA
ATAGTGGAGCACATTGAAGCCACTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGAGTAAAATA
ACAGATCTTATCTCTCTGAAGTTGTAGTGGAGCAGACCGAAGAATAT
Found at i:43674505 original size:44 final size:44
Alignment explanation
Indices: 43674069--43675009 Score: 166
Period size: 44 Copynumber: 21.4 Consensus size: 44
43674059 GCCTCCCTCG
* * *
43674069 GTTGCAGCGGAGCAGGTTAAAGATTACAGATCTTATCTCCCTG-A
1 GTTGCAGTGGAGCAGATTAAA-ATAACAGATCTTATCTCCCTGAA
* * * *** * *
43674113 GTAT-TAGTGGAGCAGATCGAAGACCCCAG-CCTTGTCTCCCTG-A
1 GT-TGCAGTGGAGCAGAT-TAAAATAACAGATCTTATCTCCCTGAA
* * * * *
43674156 GTAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATTTCCCT-AA
1 GTTGCAGTGGAGCAGATT----AAAATAACAGATCTTATCTCCCTGAA
* * ** * **
43674203 GTAGTAGTGGAGCAGAACGAAGATGTCAGATCTTATCTCCCT-AA
1 GTTGCAGTGGAGCAG-ATTAAAATAACAGATCTTATCTCCCTGAA
** * * ** * **
43674247 GCAGTAGTGGAGCAGATT-GAA-GCCAGTAATCCTATCTCTTTGAA
1 GTTGCAGTGGAGCAGATTAAAATAACAG--ATCTTATCTCCCTGAA
* * * *
43674291 GTTACAGTGGAGCGGAGTAAAATAACAGATCTTATCTCTCTGAA
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
* ** * *
43674335 GTTGTAGTGGAGCAGACCGAAGAATATCAGATCTTATCTCCAT-AA
1 GTTGCAGTGGAGCAGA-TTAA-AATAACAGATCTTATCTCCCTGAA
** * * * * * * *
43674380 GCAGTAGTGGAGCAGATCGAAGATGACAGATTTTACCTCCCTGAG
1 GTTGCAGTGGAGCAGAT-TAAAATAACAGATCTTATCTCCCTGAA
* ** * * * *** *
43674425 GATATAGTGGAGTACATTGAAGCCACTA-ATCCTATCTCCCTGAA
1 GTTGCAGTGGAGCAGATTAAAATAAC-AGATCTTATCTCCCTGAA
** * *
43674469 GTTGCAGTGGAGTGGATTAAAATAACAGATCTTATCTCTCTGAG
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
* * *** *
43674513 GTTGCAGTAGAGTAGA-TCGCAT--CAGGTCTTATCTCCCT-AGA
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGA-A
* * ** * *
43674554 GTTGCAGCGAAGCAGACCGAAGAATTACAGATCTTATCTTCCT-AA
1 GTTGCAGTGGAGCAGA-TTAA-AATAACAGATCTTATCTCCCTGAA
** * * * * ***
43674599 GCAGTAGTGGAGCGGATCGAAGAT-GGTGAATCTTATCTCCCTG-A
1 GTTGCAGTGGAGCAGAT-TAAAATAACAG-ATCTTATCTCCCTGAA
* ** * * *
43674643 GTTTGCAGTGGAGCAGATT-GAA-GCCCGTAATCCTATCTTCCTGAA
1 G-TTGCAGTGGAGCAGATTAAAATAACAG--ATCTTATCTCCCTGAA
** * * ** * *
43674688 GTTATAGTGGAGCGGATTAAAAACAATTGATCTTATCTCTCTGAG
1 GTTGCAGTGGAGCAGATT-AAAATAACAGATCTTATCTCCCTGAA
** * * * *
43674733 GTTGCAGCAGAGTAGA-TCACAT--CAGGTCTTATCTCCCT-AA
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
* * * *
43674773 GGTTGCAGCGGAGCAGATTGAGAA-AGCA-AGTCTTATCCCCCTGAA
1 -GTTGCAGTGGAGCAGATT-AAAATAACAGA-TCTTATCTCCCTGAA
* * * ***
43674818 GTTGTAGTGG-GACAGACTGAAGAT-GGTGAATCTTATCTCCCTG-A
1 GTTGCAGTGGAG-CAGA-TTAAAATAACAG-ATCTTATCTCCCTGAA
* * ** * *
43674862 GTTTACAGTGGAGCAGATT-GAA-GCCTGTAATCCTATCTCCCTGAA
1 G-TTGCAGTGGAGCAGATTAAAATAACAG--ATCTTATCTCCCTGAA
* * * *
43674907 GTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAA
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
** * * * * *
43674951 GTTGCAGCAGAGTAGA-TCACAT--CAGGTCTTATCTCCCTGAG
1 GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
*
43674992 GTTGCAGCGGAGCAGATT
1 GTTGCAGTGGAGCAGATT
43675010 GAGAAAGCAA
Statistics
Matches: 631, Mismatches: 209, Indels: 116
0.66 0.22 0.12
Matches are distributed among these distances:
40 2 0.00
41 85 0.13
42 3 0.00
43 52 0.08
44 298 0.47
45 120 0.19
46 47 0.07
47 24 0.04
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
GTTGCAGTGGAGCAGATTAAAATAACAGATCTTATCTCCCTGAA
Found at i:43674589 original size:219 final size:218
Alignment explanation
Indices: 43674320--43675007 Score: 885
Period size: 219 Copynumber: 3.1 Consensus size: 218
43674310 AAATAACAGA
* * * * *
43674320 TCTTATCTCTCT-GAAGTTGTAGTGGAGCAGACCGAAGAATATCAGATCTTATCTCCATAAGCAG
1 TCTTATCTCCCTAGAGGTTGCAGCGGAGCAGACCGAAGAATAGCAGATCTTATCTCC-TAAGCAG
** * * ** * * *
43674384 TAGTGGAGCAGATCGAAGAT-GACAGATTTTACCTCCCTGAGGATATAGTGGAGTACATTGAAGC
65 TAGTGGAGCAGATCGAAGATGGTGA-ATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGC
* * *
43674448 CACTAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATAACAGATCTTATCTCTCTGAG
129 C-CTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAG
* *
43674513 GTTGCAGTAGAGTAGATCGCATCAGG
193 GTTGCAGCAGAGTAGATCACATCAGG
*
43674539 TCTTATCTCCCTAGA-GTTGCAGCGAAGCAGACCGAAGAATTA-CAGATCTTATCTTCCTAAGCA
1 TCTTATCTCCCTAGAGGTTGCAGCGGAGCAGACCGAAGAA-TAGCAGATCTTATC-TCCTAAGCA
* *
43674602 GTAGTGGAGCGGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTGCAGTGGAGCAGATTGAAGC
64 GTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGC
* ** *
43674667 CCGTAATCCTATCTTCCTGAAGTTATAGTGGAGCGGATTAAAAACAATTGATCTTATCTCTCTGA
129 CC-TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACAATAGATCTTATCTCTCTGA
43674732 GGTTGCAGCAGAGTAGATCACATCAGG
192 GGTTGCAGCAGAGTAGATCACATCAGG
** * *
43674759 TCTTATCTCCCTA-AGGTTGCAGCGGAGCAGATTG-AGAA-AGCA-AGTCTTATCCCCCTGAAGT
1 TCTTATCTCCCTAGAGGTTGCAGCGGAGCAGACCGAAGAATAGCAGA-TCTTAT-CTCCT-AAGC
*
43674820 TGTAGTGG-GACAGA-CTGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGA
63 AGTAGTGGAG-CAGATC-GAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGA
*
43674883 AGCCTGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCT
126 AGCC-CTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCT
*
43674948 GAAGTTGCAGCAGAGTAGATCACATCAGG
190 GAGGTTGCAGCAGAGTAGATCACATCAGG
43674977 TCTTATCTCCCT-GAGGTTGCAGCGGAGCAGA
1 TCTTATCTCCCTAGAGGTTGCAGCGGAGCAGA
43675008 TTGAGAAAGC
Statistics
Matches: 416, Mismatches: 38, Indels: 31
0.86 0.08 0.06
Matches are distributed among these distances:
217 2 0.00
218 94 0.23
219 235 0.56
220 85 0.20
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (218 bp):
TCTTATCTCCCTAGAGGTTGCAGCGGAGCAGACCGAAGAATAGCAGATCTTATCTCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCCTGAGTTTACAGTGGAGCAGATTGAAGCCC
TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACAATAGATCTTATCTCTCTGAGGTT
GCAGCAGAGTAGATCACATCAGG
Found at i:43675148 original size:50 final size:50
Alignment explanation
Indices: 43675057--43675347 Score: 205
Period size: 50 Copynumber: 5.9 Consensus size: 50
43675047 GCATACTGAA
* * * * * * *
43675057 GACGGCAAATCTTACTTCCCAGGCAGTGCATTGGAACAGATTAAAGCCAC
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
* * * * *
43675107 AACAGCGAATCTTACTTCCCCGACATTGCAGTTAAATAGATTGAAGCCAC
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
*** * * * * * * *
43675157 GATAACGAATCTTACTTTCTTGGCAGTGCAGTGGAACAGATTAAAGCTAC
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
*** * *
43675207 GACGGCGAATCTCGTTTCCCTGACATTGC-----AATAGATTGAAGCCAT
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
* ** ** * *
43675252 AACGGCGAATCTTACTTCTTTGACGGTGTAGTGGAACAGATTGAAGCCAC
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
* * * *
43675302 GACGGCGAATCTTATTTCCCCGACATTACAGTTAAACAGATTGAAG
1 GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAG
43675348 ACAGTAATCC
Statistics
Matches: 176, Mismatches: 60, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
45 32 0.18
50 144 0.82
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (50 bp):
GACGGCGAATCTTACTTCCCTGACATTGCAGTGAAACAGATTGAAGCCAC
Found at i:43676740 original size:5 final size:6
Alignment explanation
Indices: 43676688--43676745 Score: 53
Period size: 6 Copynumber: 9.2 Consensus size: 6
43676678 AACAATTTAG
* * * *
43676688 TTTATC TTTATT TTTCCTT TTTATT TATATT TGTAATGT TTTATT TTTATT
1 TTTATT TTTATT TTT-ATT TTTATT TTTATT T-TTAT-T TTTATT TTTATT
43676739 TTTATT T
1 TTTATT T
43676746 GAATTCCAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
6 30 0.71
7 10 0.24
8 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:43676779 original size:3 final size:3
Alignment explanation
Indices: 43676771--43676795 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43676761 TTTTTAATCC
43676771 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
43676796 CCTTCTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:43678483 original size:14 final size:14
Alignment explanation
Indices: 43678456--43678573 Score: 71
Period size: 13 Copynumber: 9.3 Consensus size: 14
43678446 AGTTTCAACA
*
43678456 ATACTGTT-TTAAT
1 ATACTGTTATAAAT
*
43678469 ATACTATTATAAAT
1 ATACTGTTATAAAT
* *
43678483 ATACT-TTTTTAAT
1 ATACTGTTATAAAT
* *
43678496 ATATTGTT-TTAAT
1 ATACTGTTATAAAT
43678509 ATACTGTTATAAAT
1 ATACTGTTATAAAT
* *
43678523 ATATTGTT-TTAAT
1 ATACTGTTATAAAT
*
43678536 ATAATGTT-T---T
1 ATACTGTTATAAAT
43678546 A-ACT-TT-T-AAT
1 ATACTGTTATAAAT
43678556 ATACTGTTATAAAT
1 ATACTGTTATAAAT
43678570 ATAC
1 ATAC
43678574 ATCTAATTTG
Statistics
Matches: 85, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
8 3 0.04
9 2 0.02
10 4 0.05
11 3 0.04
12 2 0.02
13 42 0.49
14 29 0.34
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (14 bp):
ATACTGTTATAAAT
Found at i:43678504 original size:40 final size:40
Alignment explanation
Indices: 43678460--43678547 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
43678450 TCAACAATAC
*
43678460 TGTTTTAATATACTATTATAAATATACTT-TTTTAATATAT
1 TGTTTTAATATACTATTATAAATATA-TTGTTTTAATATAA
*
43678500 TGTTTTAATATACTGTTATAAATATATTGTTTTAATATAA
1 TGTTTTAATATACTATTATAAATATATTGTTTTAATATAA
43678540 TGTTTTAA
1 TGTTTTAA
43678548 CTTTTAATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (40 bp):
TGTTTTAATATACTATTATAAATATATTGTTTTAATATAA
Found at i:43678523 original size:27 final size:27
Alignment explanation
Indices: 43678480--43678572 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
43678470 TACTATTATA
* *
43678480 AATATACT-TTTTTAATATATTGTTTT
1 AATATACTGTTATAAATATATTGTTTT
43678506 AATATACTGTTATAAATATATTGTTTT
1 AATATACTGTTATAAATATATTGTTTT
* *
43678533 AATATAATGTT-T---TA-A--CTTTT
1 AATATACTGTTATAAATATATTGTTTT
43678553 AATATACTGTTATAAATATA
1 AATATACTGTTATAAATATA
43678573 CATCTAATTT
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
20 14 0.25
21 1 0.02
22 1 0.02
23 2 0.04
24 2 0.04
25 1 0.02
26 9 0.16
27 26 0.46
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (27 bp):
AATATACTGTTATAAATATATTGTTTT
Found at i:43678543 original size:13 final size:13
Alignment explanation
Indices: 43678456--43678547 Score: 103
Period size: 13 Copynumber: 6.9 Consensus size: 13
43678446 AGTTTCAACA
43678456 ATACTGTTTTAAT
1 ATACTGTTTTAAT
* *
43678469 ATACTATTATAAAT
1 ATACTGTT-TTAAT
*
43678483 ATACTTTTTTAAT
1 ATACTGTTTTAAT
*
43678496 ATATTGTTTTAAT
1 ATACTGTTTTAAT
*
43678509 ATACTGTTATAAAT
1 ATACTGTT-TTAAT
*
43678523 ATATTGTTTTAAT
1 ATACTGTTTTAAT
*
43678536 ATAATGTTTTAA
1 ATACTGTTTTAA
43678548 CTTTTAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
13 44 0.67
14 22 0.33
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.53
Consensus pattern (13 bp):
ATACTGTTTTAAT
Found at i:43679065 original size:18 final size:18
Alignment explanation
Indices: 43679042--43679116 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 18
43679032 CTCATAAGTG
*
43679042 CTTTTGAGTTAAAAAACA
1 CTTTTGAGTTAAAAAATA
43679060 CTTTTGAGCAAAAGTTAAAATAAGTA
1 CTTTTGAG------TTAAAA-AA-TA
43679086 CTTTTGAGTTAAAAAATA
1 CTTTTGAGTTAAAAAATA
43679104 CTTTTGAG-TAAAA
1 CTTTTGAGTTAAAA
43679117 GTTAAAATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 17
0.73 0.02 0.26
Matches are distributed among these distances:
17 5 0.10
18 18 0.38
19 2 0.04
20 6 0.12
24 6 0.12
25 2 0.04
26 9 0.19
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (18 bp):
CTTTTGAGTTAAAAAATA
Found at i:43679097 original size:20 final size:18
Alignment explanation
Indices: 43679072--43679116 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
43679062 TTTGAGCAAA
43679072 AGTTAAAATAAGTACTTTTG
1 AGTTAAAA-AA-TACTTTTG
43679092 AGTTAAAAAATACTTTTG
1 AGTTAAAAAATACTTTTG
43679110 AG-TAAAA
1 AGTTAAAA
43679117 GTTAAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 2 0.08
20 8 0.32
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (18 bp):
AGTTAAAAAATACTTTTG
Found at i:43679098 original size:44 final size:44
Alignment explanation
Indices: 43679035--43679124 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
43679025 ATTATTTCTC
*
43679035 ATAAGTGCTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
1 ATAAGTACTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
* *
43679079 ATAAGTACTTTTGAGTTAAAAAATACTTTTGAGTAAAAGTTAAA
1 ATAAGTACTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
43679123 AT
1 AT
43679125 TTATTATTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.34
Consensus pattern (44 bp):
ATAAGTACTTTTGAGTTAAAAAACACTTTTGAGCAAAAGTTAAA
Found at i:43680080 original size:18 final size:18
Alignment explanation
Indices: 43680022--43680081 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
43680012 TTTTAGATTT
* *
43680022 TTTTTAACTTCTATTAGA
1 TTTTTAAATTCAATTAGA
* * *
43680040 -TTTTAAGTTTTAGTTAGA
1 TTTTTAA-ATTCAATTAGA
43680058 TTTTTTAAATTCAATTAGA
1 -TTTTTAAATTCAATTAGA
43680077 TTTTT
1 TTTTT
43680082 TAGATTTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 6 0.19
18 12 0.38
19 8 0.25
20 6 0.19
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.58
Consensus pattern (18 bp):
TTTTTAAATTCAATTAGA
Found at i:43684775 original size:35 final size:35
Alignment explanation
Indices: 43684736--43684807 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
43684726 ATAAATGGTT
* * *
43684736 TACTGGCTCTACGGAGCGACATCATGGAAATGATC
1 TACTGGCTCTACAGAGCGACACCATGAAAATGATC
* *
43684771 TACTGGTTCTACAGAGCGACACCATGAAAATGGTC
1 TACTGGCTCTACAGAGCGACACCATGAAAATGATC
43684806 TA
1 TA
43684808 TTGACTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (35 bp):
TACTGGCTCTACAGAGCGACACCATGAAAATGATC
Found at i:43686426 original size:25 final size:25
Alignment explanation
Indices: 43686398--43686451 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
43686388 TTAGTGTTAA
*
43686398 CGATTTATAGCTCGTGAGAGCATAC
1 CGATTCATAGCTCGTGAGAGCATAC
43686423 CGATTCATAGCTCGTGAGAGCATAC
1 CGATTCATAGCTCGTGAGAGCATAC
43686448 CGAT
1 CGAT
43686452 CTTCAACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
CGATTCATAGCTCGTGAGAGCATAC
Found at i:43694204 original size:18 final size:19
Alignment explanation
Indices: 43694171--43694223 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
43694161 AATCATAGCT
43694171 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43694190 TCTAAGATT-CATATCATA
1 TCTAAGATTGCATATCATA
*
43694208 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
43694224 CTTGAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43694684 original size:44 final size:44
Alignment explanation
Indices: 43694636--43694925 Score: 190
Period size: 44 Copynumber: 6.7 Consensus size: 44
43694626 TTTTAATTCA
* *
43694636 CTCCACTGCAATTTCAGGGAGATAGGATTATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
* * * * * *
43694680 CTCCACTGTAACTTTAGAGAGATAAGA-T-TCGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGC-T-TT-AATCTG
* * * * *
43694725 C-CTCACTACAACTTCA-GGAGGATAAGGCTTGCTT-AC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAA-GATT-ATTGGCTTTAATCTG
* * *
43694769 CTCCACTGCAACTTCAGGGAGATAAGACTAGAT-GC---GATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTA-TTGGCTTTAATCTG
* * * ** *
43694810 CT-CTCTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATTGGCTTTAATCTG
* * *
43694853 CTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
43694897 CTCCACTGCAACTTCAGGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
43694926 CGCCATCTTC
Statistics
Matches: 185, Mismatches: 42, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 22 0.12
41 7 0.04
42 3 0.02
43 13 0.07
44 108 0.58
45 27 0.15
46 1 0.01
47 1 0.01
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATTGGCTTTAATCTG
Found at i:43695339 original size:44 final size:44
Alignment explanation
Indices: 43695289--43695408 Score: 179
Period size: 44 Copynumber: 2.7 Consensus size: 44
43695279 ATCTGCTATT
* *
43695289 TTCAACCTACTCCACTGTTGTTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTT-ACAATC
*
43695333 TTCAACCTATTCCACTGTTGACCAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATC
**
43695377 TTCAACCTATTCCACTACTGTCCAGGGAGATA
1 TTCAACCTATTCCACTGTTGTCCAGGGAGATA
43695409 AGGCTGGGGT
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
44 67 0.97
45 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGTTGTCCAGGGAGATAGGACTTACAATC
Found at i:43697779 original size:25 final size:26
Alignment explanation
Indices: 43697728--43697788 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
43697718 AAGAAAATCC
* **
43697728 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
43697754 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
43697779 AAAATGAATG
1 AAAA-GAATG
43697789 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:43703199 original size:19 final size:19
Alignment explanation
Indices: 43703131--43703205 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
43703121 AATCAATACA
43703131 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
43703151 C--TTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
*
43703168 CGATTTC-CAATTCACATAT
1 C-AATTCACAATTCACATAT
43703187 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
43703206 TCACACATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.05
17 8 0.18
18 8 0.18
19 19 0.43
20 7 0.16
ACGTcount: A:0.36, C:0.27, G:0.01, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:43704023 original size:13 final size:13
Alignment explanation
Indices: 43704005--43704045 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
43703995 CTCAATTTTC
43704005 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
43704018 TCTTTTCTTTCTT
1 TCTTTTCTTTCTT
* *
43704031 TC-CTTCTTTCCT
1 TCTTTTCTTTCTT
43704043 TCT
1 TCT
43704046 CTGTTTCGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TCTTTTCTTTCTT
Found at i:43704259 original size:8 final size:8
Alignment explanation
Indices: 43704246--43704300 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
43704236 GTTTATTTAA
43704246 AATATAAT
1 AATATAAT
43704254 AATATAAT
1 AATATAAT
43704262 AATATAAT
1 AATATAAT
* *
43704270 -ATAATTTAC
1 AAT-A-TAAT
43704279 AATATAAT
1 AATATAAT
*
43704287 AAAATAAT
1 AATATAAT
43704295 AATATA
1 AATATA
43704301 CTTCAAAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 2 0.05
8 31 0.82
9 3 0.08
10 2 0.05
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATAAT
Found at i:43706284 original size:18 final size:19
Alignment explanation
Indices: 43706251--43706303 Score: 90
Period size: 18 Copynumber: 2.8 Consensus size: 19
43706241 AATCATAGCT
43706251 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43706270 TCTAAGATT-CATATCATA
1 TCTAAGATTGCATATCATA
*
43706288 TATAAGATTGCATATC
1 TCTAAGATTGCATATC
43706304 CTTGAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 17 0.53
19 15 0.47
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43711319 original size:7 final size:7
Alignment explanation
Indices: 43711307--43711336 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
43711297 TTAAGCGATG
43711307 TGAGATA
1 TGAGATA
43711314 TGAGATA
1 TGAGATA
43711321 TGAGATA
1 TGAGATA
43711328 TGAGTATA
1 TGAG-ATA
43711336 T
1 T
43711337 ATAGACTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.82
8 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (7 bp):
TGAGATA
Found at i:43711481 original size:42 final size:41
Alignment explanation
Indices: 43711434--43711536 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 41
43711424 GATGTGACTG
43711434 AAAACGCTACCAGTTGGAATTTTTTTTTTTGCAA-ATCACCTA
1 AAAACGCTACCAGTTGGAA-TTTTTTTTTTG-AATATCACCTA
* * * *
43711476 AAAACGCTTA-CAGCTGGACATTTTTTTTTTGAATTTCACTTG
1 AAAACGC-TACCAGTTGGA-ATTTTTTTTTTGAATATCACCTA
*
43711518 AAAACGCTTCCAGTTGGAA
1 AAAACGCTACCAGTTGGAA
43711537 ATGTTTTCGT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.08
42 44 0.86
43 3 0.06
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (41 bp):
AAAACGCTACCAGTTGGAATTTTTTTTTTGAATATCACCTA
Found at i:43711892 original size:41 final size:40
Alignment explanation
Indices: 43711818--43711897 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 40
43711808 TTGTAATATT
43711818 ATTATTTATACTAAGTATTTAAAAGATAATTAAATATTTAG
1 ATTATTTATACTAAGTATTTAAAAGATAATTAAA-ATTTAG
* * * *
43711859 ATTATTTTATATTAATTATTTACAA-ATATTTAAAATTTA
1 ATTA-TTTATACTAAGTATTTAAAAGATAATTAAAATTTA
43711898 TATTTCATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 5 0.15
41 12 0.35
42 17 0.50
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (40 bp):
ATTATTTATACTAAGTATTTAAAAGATAATTAAAATTTAG
Found at i:43714532 original size:26 final size:26
Alignment explanation
Indices: 43714496--43714624 Score: 125
Period size: 26 Copynumber: 5.0 Consensus size: 26
43714486 TAGTGATTAT
43714496 GTGATTATTTAGCAAGCTTTGAGCTG
1 GTGATTATTTAGCAAGCTTTGAGCTG
*
43714522 GTGATTTTTTAGCAAGCTTTGAGCTG
1 GTGATTATTTAGCAAGCTTTGAGCTG
* * * *
43714548 ATGATTATTTAACAGGCTTTGAGCTA
1 GTGATTATTTAGCAAGCTTTGAGCTG
* * * *
43714574 GTGCTTA-CTAGTAGGCTTTGAGCTG
1 GTGATTATTTAGCAAGCTTTGAGCTG
* * * *
43714599 CTGATTTATCTAGCCAGCTGTGAGCT
1 GTGA-TTATTTAGCAAGCTTTGAGCT
43714625 AGTGTTTAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
25 16 0.19
26 54 0.65
27 13 0.16
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.38
Consensus pattern (26 bp):
GTGATTATTTAGCAAGCTTTGAGCTG
Found at i:43715672 original size:21 final size:22
Alignment explanation
Indices: 43715632--43715679 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
43715622 ACGGTTTGAG
* *
43715632 CACACGGGCGTGTGGAGGTAGT
1 CACACGGGCATGTGGAGGTAGC
43715654 CACACGGGCATGT-GAGGTAGC
1 CACACGGGCATGTGGAGGTAGC
43715675 CACAC
1 CACAC
43715680 AGGCTAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.15
Consensus pattern (22 bp):
CACACGGGCATGTGGAGGTAGC
Found at i:43716221 original size:13 final size:13
Alignment explanation
Indices: 43716203--43716227 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43716193 AACATATTTT
43716203 TTTATTTGTGTAG
1 TTTATTTGTGTAG
43716216 TTTATTTGTGTA
1 TTTATTTGTGTA
43716228 ACACCCCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.20, T:0.64
Consensus pattern (13 bp):
TTTATTTGTGTAG
Found at i:43721166 original size:29 final size:29
Alignment explanation
Indices: 43721095--43721200 Score: 122
Period size: 29 Copynumber: 3.7 Consensus size: 29
43721085 GTTCCGGAAG
* * * *
43721095 AAATAAATTTGACAAGATGGGATATGAAA
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
43721124 AAATAAATTTGACGTGATGTGTTCTGAAG
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
43721153 AAATAAATTTGACGTGATGTGTTCTAAAA
1 AAATAAATTTGACGAGATGTGTTCTGAAA
* *
43721182 AAATTATTTTGACGAGATG
1 AAATAAATTTGACGAGATG
43721201 GATTTTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.32
Consensus pattern (29 bp):
AAATAAATTTGACGAGATGTGTTCTGAAA
Found at i:43721183 original size:58 final size:58
Alignment explanation
Indices: 43721091--43721200 Score: 139
Period size: 58 Copynumber: 1.9 Consensus size: 58
43721081 TATTGTTCCG
* *
43721091 GAAGAAATAAATTTGACAAGATGGGATATGAAAAAATAAATTTGACGTGATGTGTTCT
1 GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATGTGTTCT
** * * * * *
43721149 GAAGAAATAAATTTGACGTGATGTGTTCTAAAAAAATTATTTTGACGAGATG
1 GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATG
43721201 GATTTTGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (58 bp):
GAAGAAATAAATTTGACAAGATGGGATATAAAAAAATAAATTTGACGAGATGTGTTCT
Found at i:43726112 original size:18 final size:18
Alignment explanation
Indices: 43726060--43726129 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
43726050 TCGACTGTTA
*
43726060 TAAAAAATATAAAAAATAT
1 TAAAAAAT-TAAATAATAT
* *
43726079 TAATTAAATTAAA-AATGAAA
1 TAA-AAAATTAAATAAT--AT
43726099 TAAAAATATTAAATAATAT
1 TAAAAA-ATTAAATAATAT
43726118 TAAAAAATTAAA
1 TAAAAAATTAAA
43726130 ATTAACCCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
18 9 0.21
19 16 0.38
20 14 0.33
21 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (18 bp):
TAAAAAATTAAATAATAT
Found at i:43726129 original size:8 final size:9
Alignment explanation
Indices: 43726062--43726130 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
43726052 GACTGTTATA
*
43726062 AAAAATATA
1 AAAAATATT
43726071 AAAAATATT
1 AAAAATATT
*
43726080 AATTAA-ATT
1 AA-AAATATT
*
43726089 AAAAATGAAAT
1 AAAAAT--ATT
43726100 AAAAATATT
1 AAAAATATT
43726109 AAATAATATT
1 AAA-AATATT
43726119 AAAAA-ATT
1 AAAAATATT
43726127 AAAA
1 AAAA
43726131 TTAACCCCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 9 0.18
9 22 0.44
10 11 0.22
11 8 0.16
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:43727705 original size:14 final size:14
Alignment explanation
Indices: 43727686--43727725 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
43727676 TTGATTGACA
43727686 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
43727700 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
43727714 GGAAAATGTTTT
1 GTAAAATGTTTT
43727726 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:43727734 original size:20 final size:20
Alignment explanation
Indices: 43727709--43727748 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43727699 CGTAAAATGA
*
43727709 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
43727729 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
43727749 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:43727738 original size:34 final size:35
Alignment explanation
Indices: 43727694--43727760 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43727684 CAGTAAAATG
* *
43727694 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
43727728 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
43727761 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:43727943 original size:22 final size:24
Alignment explanation
Indices: 43727918--43727968 Score: 56
Period size: 26 Copynumber: 2.2 Consensus size: 24
43727908 TTATTTATAA
43727918 ATAAATAA-A-TCAA-ATT-AAAT
1 ATAAATAATACTCAATATTAAAAT
43727938 ATATAATAATACTCAATTATTAAAAT
1 ATA-AATAATACTCAA-TATTAAAAT
43727964 ATAAA
1 ATAAA
43727969 AGCATTGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 3 0.12
21 5 0.20
22 1 0.04
23 4 0.16
25 5 0.20
26 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATAATACTCAATATTAAAAT
Found at i:43733337 original size:17 final size:17
Alignment explanation
Indices: 43733315--43733348 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43733305 CAATAATTTC
43733315 GGATTGTGTGGATGGAT
1 GGATTGTGTGGATGGAT
*
43733332 GGATTGTGTGGGTGGAT
1 GGATTGTGTGGATGGAT
43733349 TTTTGGCTAA
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:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (17 bp):
GGATTGTGTGGATGGAT
Found at i:43743097 original size:25 final size:25
Alignment explanation
Indices: 43743069--43743117 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
43743059 TACAGTCTAT
* * *
43743069 CTGTAGTAGTTTTAGTATATACTAC
1 CTGTAGCAGTTTCAGGATATACTAC
43743094 CTGTAGCAGTTTCAGGATATACTA
1 CTGTAGCAGTTTCAGGATATACTA
43743118 TCAAAACAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (25 bp):
CTGTAGCAGTTTCAGGATATACTAC
Found at i:43744545 original size:17 final size:17
Alignment explanation
Indices: 43744518--43744560 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
43744508 TGGTTCACTT
43744518 GTGTGGGCCCATACACCC
1 GTGT-GGCCCATACACCC
43744536 GTGTGGCCCATACACCC
1 GTGTGGCCCATACACCC
43744553 GTGTGGCC
1 GTGTGGCC
43744561 TATATGACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 21 0.84
18 4 0.16
ACGTcount: A:0.14, C:0.37, G:0.30, T:0.19
Consensus pattern (17 bp):
GTGTGGCCCATACACCC
Found at i:43745291 original size:16 final size:15
Alignment explanation
Indices: 43745261--43745295 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
43745251 TGGGAATTTG
43745261 AAAATAAAAAAAATA
1 AAAATAAAAAAAATA
43745276 AAAATAAAAGAAAATA
1 AAAATAAAA-AAAATA
43745292 AAAA
1 AAAA
43745296 ATTTCAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAATAAAAAAAATA
Found at i:43746773 original size:23 final size:22
Alignment explanation
Indices: 43746746--43746794 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
43746736 CTAAGAAATT
43746746 TTTAAGTGTGAATA-ATATGAGAA
1 TTTAAGTG-GAATACATA-GAGAA
* *
43746769 TTTAATTGGTATACATAGAGAA
1 TTTAAGTGGAATACATAGAGAA
43746791 TTTA
1 TTTA
43746795 TTTACAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (22 bp):
TTTAAGTGGAATACATAGAGAA
Found at i:43748887 original size:26 final size:25
Alignment explanation
Indices: 43748817--43748896 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 25
43748807 TTTCCTTTCC
*
43748817 TTAGATTCTCACAAAGGCTTCTATTT
1 TTAGATTCT-ACAAAGGCTTCCATTT
* * *
43748843 CATAGACTTCCACAGAGGCTTCCATTT
1 -TTAGA-TTCTACAAAGGCTTCCATTT
43748870 TTAGATTTCTACAAAGGCTTCCATTT
1 TTAGA-TTCTACAAAGGCTTCCATTT
43748896 T
1 T
43748897 CTCGTGAGTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
26 23 0.52
27 18 0.41
28 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (25 bp):
TTAGATTCTACAAAGGCTTCCATTT
Found at i:43750428 original size:30 final size:30
Alignment explanation
Indices: 43750394--43750452 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
43750384 ACCGTAACAC
43750394 TTTGTTAAGCCTTTCGAATTCCTTAACAAT
1 TTTGTTAAGCCTTTCGAATTCCTTAACAAT
*
43750424 TTTGTTAAGCCTTTTGAATTCCTTAACAA
1 TTTGTTAAGCCTTTCGAATTCCTTAACAA
43750453 ATTTCTAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (30 bp):
TTTGTTAAGCCTTTCGAATTCCTTAACAAT
Found at i:43753245 original size:27 final size:28
Alignment explanation
Indices: 43753213--43753310 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 28
43753203 CTTTTGTGTG
* *
43753213 TGCCACAAAGGCATT-CTTTTCTTCA-TT
1 TGCCACAAAGGCATTCCTTTCCTT-AGAT
* * *
43753240 TTCCACAAGGGCTTTCCTTTCCTTAGAT
1 TGCCACAAAGGCATTCCTTTCCTTAGAT
** *
43753268 TGCCACAAAGGCATTTATTT-CATAGAT
1 TGCCACAAAGGCATTCCTTTCCTTAGAT
*
43753295 TGCCAAAAAGGC-TTCC
1 TGCCACAAAGGCATTCC
43753311 ATTTTCTGGC
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
26 2 0.04
27 30 0.55
28 23 0.42
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.35
Consensus pattern (28 bp):
TGCCACAAAGGCATTCCTTTCCTTAGAT
Found at i:43761989 original size:19 final size:19
Alignment explanation
Indices: 43761965--43762008 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
43761955 ATTTATTTAT
*
43761965 TTTAATTAGAATCGAAAAG
1 TTTAATTAGAATAGAAAAG
43761984 TTTAATTAGAATAGAAAAG
1 TTTAATTAGAATAGAAAAG
*
43762003 TATAAT
1 TTTAAT
43762009 AAAAGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
TTTAATTAGAATAGAAAAG
Found at i:43764049 original size:19 final size:19
Alignment explanation
Indices: 43764004--43764050 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
43763994 GGCTATTTAG
*
43764004 TATCGATACTGATACAAAA
1 TATCGATACTGATAAAAAA
* *
43764023 TATTGATACTTA-AAAAAA
1 TATCGATACTGATAAAAAA
43764041 TTATCGATAC
1 -TATCGATAC
43764051 CTATCAAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.32
Consensus pattern (19 bp):
TATCGATACTGATAAAAAA
Found at i:43764612 original size:21 final size:21
Alignment explanation
Indices: 43764588--43764629 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
43764578 AAATTTAGTA
*
43764588 TTAAATTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
43764609 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATTAATT
43764630 GAACAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
TTAAAGTTCCGATAATTAATT
Found at i:43766701 original size:46 final size:44
Alignment explanation
Indices: 43766634--43767029 Score: 383
Period size: 46 Copynumber: 9.6 Consensus size: 44
43766624 TGAGTACTTT
* *
43766634 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC--TAGCTACACTTATC
43766680 TGATCAAGTGAAAAAGTGAT-A-----AG-T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATC
* * *
43766716 TGATCAAGAGACAAAGTGATAACTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGC--TAGCTACACTTATC
43766762 TGATCAAGTGAAAAAGTGATAA---GT-GCTA--T--ACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATC
43766798 TGATCAAGTGAAAAAGTGATAAGT-G--G-TA--T--ACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATC
43766834 TGATCAAGTGAAAAAGTGAT-A-----AG-T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATC
*
43766870 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-C-TAGCTACACTTATC
*
43766916 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-C-TAGCTACACTTATC
*
43766962 TGATCAAGTGATAAAGTGATAAGTGGTAGCCTAGCTACACTTATC
1 TGATCAAGTGAAAAAGTGATAAGTGGTAG-CTAGCTACACTTATC
* *
43767007 TGATC-AG-GGACAAGTGATAAGTG
1 TGATCAAGTGAAAAAGTGATAAGTG
43767030 ATCATACGTA
Statistics
Matches: 312, Mismatches: 11, Indels: 57
0.82 0.03 0.15
Matches are distributed among these distances:
33 2 0.01
34 1 0.00
35 1 0.00
36 115 0.37
37 4 0.01
38 2 0.01
40 4 0.01
42 6 0.02
43 15 0.05
44 2 0.01
45 22 0.07
46 138 0.44
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (44 bp):
TGATCAAGTGAAAAAGTGATAAGTGGTAGCTAGCTACACTTATC
Found at i:43766709 original size:36 final size:36
Alignment explanation
Indices: 43766668--43766894 Score: 310
Period size: 36 Copynumber: 6.0 Consensus size: 36
43766658 GGTAGCTTTA
43766668 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
43766704 GCTACACTTATCTGATCAAGAGACAAAGTGATAACTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
43766749 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
43766786 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
43766822 GGTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
43766858 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
43766894 G
1 G
43766895 GTAGCCTTAG
Statistics
Matches: 172, Mismatches: 9, Indels: 20
0.86 0.04 0.10
Matches are distributed among these distances:
36 134 0.78
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.17
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:43766771 original size:82 final size:81
Alignment explanation
Indices: 43766634--43767029 Score: 499
Period size: 82 Copynumber: 4.9 Consensus size: 81
43766624 TGAGTACTTT
*
43766634 TGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGTGATAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
43766699 TAAGTGCTACACTTATC
65 TAAGTGCTACACTTATC
* * *
43766716 TGATCAAGAGACAAAGTGATAACTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGTGATAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
*
43766781 TAAGTGCTATACTTATC
65 TAAGTGCTACACTTATC
*
43766798 TGATCAAGTGAAAAAGTGATAAGT-G--G--TA--T--ACTTATCTGATCAAGTGAAAAAGTGAT
1 TGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
43766854 AAGTGCTACACTTATC
66 AAGTGCTACACTTATC
* *
43766870 TGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGA
1 TGATCAAGTGATAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
43766935 TAAGTGGTAGCCTTAGCTACACTTATC
65 T-A-----AG---T-GCTACACTTATC
* * *
43766962 TGATCAAGTGATAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTGAT
1 TGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
43767025 AAGTG
66 AAGTG
43767030 ATCATACGTA
Statistics
Matches: 280, Mismatches: 14, Indels: 43
0.83 0.04 0.13
Matches are distributed among these distances:
72 65 0.23
73 1 0.00
74 1 0.00
75 1 0.00
76 2 0.01
78 2 0.01
79 2 0.01
80 2 0.01
81 1 0.00
82 126 0.45
83 3 0.01
88 3 0.01
89 8 0.03
90 2 0.01
91 21 0.08
92 40 0.14
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (81 bp):
TGATCAAGTGATAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGAT
AAGTGCTACACTTATC
Found at i:43770777 original size:38 final size:38
Alignment explanation
Indices: 43770722--43770798 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
43770712 ATTTTTAACG
*
43770722 TTAATTCTGTCCTATTATTTTCCCTAATTAACATAAAA
1 TTAATTCTGTCCGATTATTTTCCCTAATTAACATAAAA
*
43770760 TTAATTCTGTCCGATTATTTTCCCTAATTGACATAAAA
1 TTAATTCTGTCCGATTATTTTCCCTAATTAACATAAAA
43770798 T
1 T
43770799 CCACCCTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.05, T:0.44
Consensus pattern (38 bp):
TTAATTCTGTCCGATTATTTTCCCTAATTAACATAAAA
Found at i:43778495 original size:23 final size:23
Alignment explanation
Indices: 43778423--43778533 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 23
43778413 ATCTGATCAG
*
43778423 TATACAACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
****
43778445 -A-ACGACACACGGGGTGCCTG-
1 TATACGACACATAAAGTGCCTGA
* *
43778465 -ATACGACATATAAAGTGCTTGA
1 TATACGACACATAAAGTGCCTGA
43778487 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
* *
43778510 TGTACGTCACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
43778533 T
1 T
43778534 CGACAAGGCC
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
20 8 0.11
21 21 0.30
23 42 0.59
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:43778793 original size:36 final size:38
Alignment explanation
Indices: 43778733--43778821 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 38
43778723 CTTTTCAAAT
* * *
43778733 TCACATTTCAAATC-AATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
43778769 TCACAATTCAATTCAAATTT-ACTTTTCCATTTTCAAG
1 TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
*
43778806 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
43778822 TTCCACACAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 27 0.60
37 18 0.40
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.44
Consensus pattern (38 bp):
TCACAATTCAATTCAAATTTCACTTTTCCACTTTCAAG
Found at i:43779776 original size:17 final size:16
Alignment explanation
Indices: 43779756--43779811 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
43779746 TGTCTTTATT
*
43779756 TAATTTATTTCTTAATA
1 TAATTTATTT-ATAATA
43779773 TAA--TATTTATAATA
1 TAATTTATTTATAATA
*
43779787 TAATTAATTTGATAATA
1 TAATTTATTT-ATAATA
*
43779804 TACTTTAT
1 TAATTTAT
43779812 AATTAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
14 8 0.25
15 5 0.16
16 4 0.12
17 15 0.47
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATTTATTTATAATA
Found at i:43779787 original size:14 final size:17
Alignment explanation
Indices: 43779768--43779805 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
43779758 ATTTATTTCT
43779768 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTGA
43779782 TAATATAATTAATTTGA
1 TAATATAATTAATTTGA
43779799 TAATATA
1 TAATATA
43779806 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTGA
Found at i:43793010 original size:27 final size:27
Alignment explanation
Indices: 43792980--43793052 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
43792970 ATAGGTGGTG
*
43792980 CCTATCTGGTAGGCGCCACCGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
* * *
43793007 CCTATCTAATAGTCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACCGGTGACT
43793034 CCTA-CTTGATAGGCGCCAC
1 CCTATC-TGATAGGCGCCAC
43793053 TAGTGCTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.03
27 38 0.97
ACGTcount: A:0.19, C:0.33, G:0.23, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACCGGTGACT
Found at i:43795064 original size:62 final size:62
Alignment explanation
Indices: 43794996--43795156 Score: 205
Period size: 62 Copynumber: 2.6 Consensus size: 62
43794986 CCGTGTGATT
* * **
43794996 TTATACCACAAATAATGAGTTACACGACCAAGGCACACGCCTGTGTACCTAGCCATGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* * * * * * *
43795058 TTATACCATAAACAGTGAGTTATACGGCCAAAGCACACGCCCATGTCCCTGGCCGTGTGGTC
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
* *
43795120 TTATACCACAAGTAGTGAGTTACACGGCCATGGCACA
1 TTATACCACAAATAGTGAGTTACACGGCCAAGGCACA
43795157 TGTTCGTGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 82 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (62 bp):
TTATACCACAAATAGTGAGTTACACGGCCAAGGCACACGCCCATGTACCTAGCCATGTGGTC
Found at i:43796758 original size:44 final size:45
Alignment explanation
Indices: 43796695--43796879 Score: 180
Period size: 45 Copynumber: 4.2 Consensus size: 45
43796685 GTTCTGCTGT
43796695 AACTTCAGGGAGATAAAATTAG-TAGCTTCAATCTACTCCACTGC
1 AACTTCAGGGAGATAAAATTAGCTAGCTTCAATCTACTCCACTGC
* * * ** *
43796739 AACTTCAGGGAAATAAAATTTA--TCGCTTTAATCTACTTTACTGT
1 AACTTCAGGGAGATAAAA-TTAGCTAGCTTCAATCTACTCCACTGC
* ** * * * * *
43796783 AATTTCAAAGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGT
1 AACTTCAGGGAGATAAAATTAGCTAGCTTCAATCTACTCCACTGC
* *
43796828 AACTTCAGGGAGATAAGATTTGCT-GTCTTCAATCTACTCCACTGC
1 AACTTCAGGGAGATAAAATTAGCTAG-CTTCAATCTACTCCACTGC
43796873 AACTTCA
1 AACTTCA
43796880 AAGTGATGAG
Statistics
Matches: 113, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
43 2 0.02
44 47 0.42
45 64 0.57
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (45 bp):
AACTTCAGGGAGATAAAATTAGCTAGCTTCAATCTACTCCACTGC
Found at i:43796833 original size:89 final size:90
Alignment explanation
Indices: 43796720--43796898 Score: 227
Period size: 90 Copynumber: 2.0 Consensus size: 90
43796710 AAATTAGTAG
* * ** *
43796720 CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAAATTT-ATCG-CTTTAATCTACTTTACTGT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAAATTTGCT-GTCTTCAATCTACTCCACTGC
*
43796783 AATTTCAAAGAGATAAGATTTGCTAT
65 AACTTCAAAGAGATAAGATTTGCTAT
* * * *
43796809 CTTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCTGTCTTCAATCTACTCCACTGCA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAAATTTGCTGTCTTCAATCTACTCCACTGCA
* *
43796874 ACTTCAAAGTGATGAGATTTGCTAT
66 ACTTCAAAGAGATAAGATTTGCTAT
43796899 GGTAGAATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
89 37 0.49
90 39 0.51
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (90 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAAATAAAATTTGCTGTCTTCAATCTACTCCACTGCA
ACTTCAAAGAGATAAGATTTGCTAT
Found at i:43797034 original size:44 final size:44
Alignment explanation
Indices: 43796955--43797511 Score: 279
Period size: 44 Copynumber: 11.9 Consensus size: 44
43796945 TGACTTATAA
* * * *
43796955 CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
* * * * * *
43796999 CTTCAATCTATTTCATTGCAACTTCAAGGAGATAAGATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-TCGC----AT
* * *
43797050 CTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
* * * * *
43797094 CTTTAATCTGTTTCATTTCAACTTCAAGGAGATAAGATTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-TCGC----AT
* * * *
43797145 CTTTAATCTGTTTCACTGCAACTTTAGGGAAATAAGATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
* * * * * * *
43797189 CATCAATATGCTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAA
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-TCGC----AT
* * * * *
43797240 CTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
** * * *
43797284 CTTTAATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGA--T-TCGC----AT
* * * * *
43797335 CTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAG-ATTCGCAT
* * * * * * *
43797379 CTTCAATCTGCTCCATTTCAACTTCAAGGAGATAAGGTTGTGGCTTTAAG
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAA-GAT-TCGC----AT
* *
43797429 CTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCAT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
* * * *
43797473 CTTCAATCTGCTCTATTGCAACTTCAAGGAGATAAGATT
1 CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATT
43797512 TGTAGCTTTA
Statistics
Matches: 380, Mismatches: 97, Indels: 72
0.69 0.18 0.13
Matches are distributed among these distances:
44 185 0.49
45 2 0.01
46 8 0.02
47 11 0.03
48 14 0.04
49 5 0.01
50 33 0.09
51 122 0.32
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (44 bp):
CTTTAATCTGTTCCATTGCAACTTCAAGGAAATAAGATTCGCAT
Found at i:43797057 original size:95 final size:95
Alignment explanation
Indices: 43796939--43797607 Score: 889
Period size: 95 Copynumber: 7.1 Consensus size: 95
43796929 AGAGGTATAG
* * *
43796939 GATTTGTGACTTATAA-CTTTAATCTATTCCACTGCAATTTCAGGGAAATAAGATTCGCATCTTC
1 GATTTGTGGCTT-TAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTC
** *
43797003 AATCTATTTCATTGCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* *
43797034 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGTATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
* * *
43797099 ATCTGTTTCATTTCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * *
43797129 GATTTGTGGCTTTAAGCTTTAATCTGTTTCACTGCAACTTTAGGGAAATAAGATTCGCATCATCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
43797194 ATATGCTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * *
43797224 GATTTGTAGCTTTAAACTTTAATCTGTTCGACTGCAATTTCAGGGAAATAAGATTTGCATCTTTA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
43797289 ATCTACTCCATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * *
43797319 GATTTGTAGCTTTAAGCTTTAATATGTTCCACTACAACTTCAGGGAAAT-AGTATTTGCATCTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAG-ATTCGCATCTTC
*
43797383 AATCTGCTCCATTTCAACTTCAAGGAGATAA
65 AATCTGCTCCATTGCAACTTCAAGGAGATAA
* * *
43797414 G-GTTGTGGCTTTAAGCTTTAATCTGTTCCATTGCAACTTCAGGGAAATAATATTCGCATCTTCA
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
*
43797478 ATCTGCTCTATTGCAACTTCAAGGAGATAA
66 ATCTGCTCCATTGCAACTTCAAGGAGATAA
* * * * * * *
43797508 GATTTGTAGCTTTAAGCTTTAATTTGTTCCACTACAACTTCAAGGAGATAAGACTT-GTAACTTC
1 GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTCGCATCTTC
* * * *
43797572 AACCTGTTCCACTGTAACTTC-AGAGAGATAA
65 AATCTGCTCCATTGCAACTTCAAG-GAGATAA
43797603 GATTT
1 GATTT
43797608 TCCATAATGA
Statistics
Matches: 509, Mismatches: 59, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
94 90 0.18
95 417 0.82
96 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (95 bp):
GATTTGTGGCTTTAAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCATCTTCA
ATCTGCTCCATTGCAACTTCAAGGAGATAA
Found at i:43808495 original size:7 final size:7
Alignment explanation
Indices: 43808483--43808516 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
43808473 AAGTAAATTA
43808483 ATAAAAG
1 ATAAAAG
43808490 ATAAAAG
1 ATAAAAG
43808497 ATAAAAG
1 ATAAAAG
*
43808504 ATAAAAA
1 ATAAAAG
43808511 ATAAAA
1 ATAAAA
43808517 TAATAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (7 bp):
ATAAAAG
Found at i:43816567 original size:19 final size:19
Alignment explanation
Indices: 43816545--43816581 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
43816535 CAAACAGATA
*
43816545 GCTTTCATACAATTAAATC
1 GCTTTCATACAATCAAATC
43816564 GCTTTCATACAATCAAAT
1 GCTTTCATACAATCAAAT
43816582 TCAACTATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (19 bp):
GCTTTCATACAATCAAATC
Found at i:43816876 original size:62 final size:62
Alignment explanation
Indices: 43816797--43816964 Score: 151
Period size: 62 Copynumber: 2.7 Consensus size: 62
43816787 TACATGCTCG
* * * * *
43816797 TGTCCTTGACCGTGTGGTTTTATACGACAAAAAGTGAGTTATACGGCCAAGGCACACGACCA
1 TGTCCCTGACCGTGTGGTATTATACCACAAAAAGTGAGTTACACGACCAAGGCACACGACCA
* * * * * **
43816859 TGTCCCTGGCCGTGTGGTATTATCCCATAAATAGTGAGTTACACGACTAAGGCACAC-ACTTG
1 TGTCCCTGACCGTGTGGTATTATACCACAAAAAGTGAGTTACACGACCAAGGCACACGAC-CA
** * * *
43816921 TGTCTATGGCCGTGTGGTCTTATACCATAAATAA-TGAGTTACAC
1 TGTCCCTGACCGTGTGGTATTATACCACAAA-AAGTGAGTTACAC
43816965 AGCCAATTAC
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
61 2 0.02
62 84 0.97
63 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (62 bp):
TGTCCCTGACCGTGTGGTATTATACCACAAAAAGTGAGTTACACGACCAAGGCACACGACCA
Found at i:43820146 original size:75 final size:76
Alignment explanation
Indices: 43819996--43820228 Score: 299
Period size: 75 Copynumber: 3.1 Consensus size: 76
43819986 TTACGTAAAT
* * * * * ** *
43819996 AATACAAAGTTTATTATTTAAATTGCAAAAAAACTCC-TAAAATTAATAATTGAAATAGCGAAGA
1 AATACAAAGTTGAATATTTAAATTGCAAAAAAAC-CCATAAAATTAATAACTAAAATGGAAAAAA
43820060 AGTCATTACATA
65 AGTCATTACATA
* *
43820072 AATACAAACTTGAATATTTAGATTGCAAAAAAACCCAT-AAATTAATAACTAAAATGGAAAAAAA
1 AATACAAAGTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAAA
*
43820136 TTCATTACATA
66 GTCATTACATA
* *
43820147 AATACAAAGTTGACTTTTTAAATTGCAAAAAAAACCCATAAAATTAATAACTAAAATGGCAAAAA
1 AATACAAAGTTGAATATTTAAATTGC-AAAAAAACCCATAAAATTAATAACTAAAATGG-AAAAA
*
43820212 AAGTCATTATATA
64 AAGTCATTACATA
43820225 AATA
1 AATA
43820229 TGAAGTTATT
Statistics
Matches: 136, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
75 54 0.40
76 43 0.32
77 19 0.14
78 20 0.15
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (76 bp):
AATACAAAGTTGAATATTTAAATTGCAAAAAAACCCATAAAATTAATAACTAAAATGGAAAAAAA
GTCATTACATA
Found at i:43822557 original size:16 final size:15
Alignment explanation
Indices: 43822533--43822562 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
43822523 TAAAAATCAA
43822533 ATAAAATTACATTAT
1 ATAAAATTACATTAT
43822548 ATAAATATTACATTA
1 ATAAA-ATTACATTA
43822563 AAAAATCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:43822689 original size:104 final size:96
Alignment explanation
Indices: 43822564--43822877 Score: 313
Period size: 104 Copynumber: 3.1 Consensus size: 96
43822554 ATTACATTAA
43822564 AAAATCACAAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAAAAAA
1 AAAA-CACAAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACT-AAAAA
*
43822629 TTATTTTTTTTTAAAACTACATTATTAAAAATCAC
62 TTATTTTTTTTTAAAATTACATTATTAAAAATCAC
* * ** *
43822664 AAAACCCTAAACTAAACACTAACAATTTGTAACCTAATCCCATAAATTACTAAGTAAATAAATAA
1 AAAA--C---ACAAAACACTAACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTAA
* ** * *
43822729 CAATTACATTTTTTTAAAAGAAATTACATTACTAAAAAATAAC
59 AAATT--ATTTTTTT-TTA-AAATTACATTA-TTAAAAATCAC
* * * *
43822772 AAAACACAAAACACTATCAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAATTTT
1 AAAACACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTAAAAATTAT
* *
43822837 TTTTTTTTAAATTTACATTACTAAAAACTCAC
66 TTTTTTTTAAAATTACATTATTAAAAA-TCAC
*
43822869 AGAACACAA
1 AAAACACAA
43822878 CAATTTATAA
Statistics
Matches: 173, Mismatches: 29, Indels: 27
0.76 0.13 0.12
Matches are distributed among these distances:
96 5 0.03
97 21 0.12
98 1 0.01
99 7 0.04
100 4 0.02
101 25 0.14
102 10 0.06
103 33 0.19
104 34 0.20
105 8 0.05
106 2 0.01
107 10 0.06
108 13 0.08
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.31
Consensus pattern (96 bp):
AAAACACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTAAAAATTAT
TTTTTTTTAAAATTACATTATTAAAAATCAC
Found at i:43822844 original size:103 final size:98
Alignment explanation
Indices: 43822564--43822863 Score: 293
Period size: 103 Copynumber: 2.9 Consensus size: 98
43822554 ATTACATTAA
* *
43822564 AAAATCACAAAACACTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTAAAAAA
1 AAAACCACAAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAACAAAATAACTATAAAA
* *
43822629 TTATTTTTTTTTAAAACTACATTATTAAAAATCAC
64 TTATTTTTTTTTAAAACTACATTATAAAAAATAAC
* * **
43822664 AAAACCCTAAACTAAACACTAACAATTTGTAACCTAATCCCATAAATTACTAAGTAAATAA--AT
1 AAAA-CC---ACAAAACACTAACAATTTATAACCTAAT--CATAAATTACTAACAAAATAACTAT
** *
43822727 AACAATTACATTTTTTTAAAAGAAATTACATTACTAAAAAATAAC
60 AA-AATT--ATTTTTTT-TTA-AAACTACATTA-TAAAAAATAAC
* *
43822772 AAAA-CACAAAACACTATCAATTTATAACCTAATCATAAACTACTAACAAAATAACTAT-AAATT
1 AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
* **
43822835 TTTTTTTTTTAAATTTACATTACTAAAAA
66 ATTTTTTTTTAAAACTACATTA-TAAAAA
43822864 CTCACAGAAC
Statistics
Matches: 165, Mismatches: 21, Indels: 31
0.76 0.10 0.14
Matches are distributed among these distances:
97 17 0.10
98 1 0.01
99 7 0.04
100 4 0.02
101 23 0.14
102 14 0.08
103 33 0.20
104 33 0.20
105 8 0.05
106 2 0.01
107 10 0.06
108 13 0.08
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.32
Consensus pattern (98 bp):
AAAACCACAAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAACTATAAAATT
ATTTTTTTTTAAAACTACATTATAAAAAATAAC
Found at i:43822921 original size:38 final size:38
Alignment explanation
Indices: 43822879--43823064 Score: 151
Period size: 34 Copynumber: 5.1 Consensus size: 38
43822869 AGAACACAAC
*
43822879 AATTTATAATAAATTACTAACAAAATATTTAGCAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * *** * *
43822917 AA-TT-T--TACATTACTAA-AAACTCACAAAACACAAC
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
43822951 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * * ** *
43822989 AA-TT-T--TACATTACTAA-AAACTCGTAAAACAAAAA
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
43823023 AATTTATAATAAATTACTAACAAAATATTTAAC-AAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
43823060 AATTT
1 AATTT
43823065 TACATTAATA
Statistics
Matches: 109, Mismatches: 27, Indels: 25
0.68 0.17 0.16
Matches are distributed among these distances:
33 8 0.07
34 38 0.35
35 4 0.04
36 4 0.04
37 12 0.11
38 35 0.32
39 8 0.07
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (38 bp):
AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
Found at i:43822955 original size:34 final size:34
Alignment explanation
Indices: 43822848--43822955 Score: 83
Period size: 34 Copynumber: 3.1 Consensus size: 34
43822838 TTTTTTTAAA
*
43822848 TTTACATTACTAAAAACTCACAGAACACAACAATT
1 TTTACATTACTAAAAACTCACAAAACACAACAA-T
* * *** * * *
43822883 TATAATAAATTACTAACAAAAT-ATTTAGCAAAATAAT
1 T-T--TACATTACTAA-AAACTCACAAAACACAACAAT
43822920 TTTACATTACTAAAAACTCACAAAACACAACAAT
1 TTTACATTACTAAAAACTCACAAAACACAACAAT
43822954 TT
1 TT
43822956 ATAATAAATT
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
33 4 0.08
34 21 0.40
35 1 0.02
36 2 0.04
37 2 0.04
38 18 0.35
39 4 0.08
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.29
Consensus pattern (34 bp):
TTTACATTACTAAAAACTCACAAAACACAACAAT
Found at i:43822965 original size:72 final size:72
Alignment explanation
Indices: 43822848--43823083 Score: 393
Period size: 72 Copynumber: 3.3 Consensus size: 72
43822838 TTTTTTTAAA
* *
43822848 TTTACATTACTAAAAACTCACAGAACACAACAATTTATAATAAATTACTAACAAAATATTTAGCA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
43822913 AAATAAT
66 AAATAAT
43822920 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
43822985 AAATAAT
66 AAATAAT
** * *
43822992 TTTACATTACTAAAAACTCGTAAAACAAAAAAATTTATAATAAATTACTAACAAAATATTTAAC-
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
43823056 AAATAAT
66 AAATAAT
* *
43823063 TTTACATTAATAAAAAATCAC
1 TTTACATTACTAAAAACTCAC
43823084 CAAATATTAA
Statistics
Matches: 154, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 24 0.16
72 130 0.84
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:43823166 original size:60 final size:60
Alignment explanation
Indices: 43823096--43823219 Score: 230
Period size: 60 Copynumber: 2.1 Consensus size: 60
43823086 AATATTAAAC
*
43823096 TAAACACAACAATTTAAAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
43823156 TAAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
43823216 TAAA
1 TAAA
43823220 AAACAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
TAAACACAACAATTTAAAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:43823186 original size:27 final size:27
Alignment explanation
Indices: 43823095--43823186 Score: 67
Period size: 27 Copynumber: 3.2 Consensus size: 27
43823085 AAATATTAAA
*
43823095 CTAAACACAACAATTTAAAACATAATC
1 CTAAACACAACAATTTATAACATAATC
* * * * *
43823122 CTAAATTACTAATAAATTAATTTTAAAATAATT
1 CTAAA-CAC-AA-CAA-T--TTATAACATAATC
*
43823155 ATAAACACAACAATTTATAACATAATC
1 CTAAACACAACAATTTATAACATAATC
43823182 CTAAA
1 CTAAA
43823187 TTACTAACAA
Statistics
Matches: 46, Mismatches: 13, Indels: 12
0.65 0.18 0.17
Matches are distributed among these distances:
27 19 0.41
28 2 0.04
29 3 0.07
30 4 0.09
31 3 0.07
32 2 0.04
33 13 0.28
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (27 bp):
CTAAACACAACAATTTATAACATAATC
Found at i:43823384 original size:3 final size:3
Alignment explanation
Indices: 43823378--43823422 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
43823368 ATACATTACC
43823378 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
43823423 CTTTTCTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:43831171 original size:25 final size:25
Alignment explanation
Indices: 43831090--43831187 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
43831080 ATTAGGGTCA
**
43831090 CCGAT-TTCAGCTCTTATGAGCTTC
1 CCGATATTCAGCTCGCATGAGCTTC
* *
43831114 CCGATACTCAGCTCGCATGAGCATC
1 CCGATATTCAGCTCGCATGAGCTTC
*
43831139 CCGTTATTCAGCT-GACATGAGCTTC
1 CCGATATTCAGCTCG-CATGAGCTTC
* * * *
43831164 CCGCTATTTAGCTCGGAGGAGCTT
1 CCGATATTCAGCTCGCATGAGCTT
43831188 ACTGTTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
24 6 0.10
25 53 0.88
26 1 0.02
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (25 bp):
CCGATATTCAGCTCGCATGAGCTTC
Found at i:43832905 original size:50 final size:50
Alignment explanation
Indices: 43832726--43832904 Score: 250
Period size: 50 Copynumber: 3.6 Consensus size: 50
43832716 CAATGCCGTA
* ** * * * *
43832726 TCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
** *
43832776 TCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAGTGCCAACACCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
*
43832826 TCCCAGACATGGTCTTACATGGGACCTCTTATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
*
43832876 TCCCAGAAATGGTCTTACATGGGACCTCT
1 TCCCAGACATGGTCTTACATGGGACCTCT
43832905 TTACCCAAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 114 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGCCATG
Found at i:43834354 original size:17 final size:17
Alignment explanation
Indices: 43834328--43834366 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
43834318 AGTAACTCAA
* *
43834328 AAGCTTGTTCGGGTTGG
1 AAGCTCGTTCGGGTTAG
43834345 AAGCTCGTTCGGGTTAG
1 AAGCTCGTTCGGGTTAG
43834362 AAGCT
1 AAGCT
43834367 GATTGAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.36, T:0.31
Consensus pattern (17 bp):
AAGCTCGTTCGGGTTAG
Found at i:43834419 original size:22 final size:22
Alignment explanation
Indices: 43834391--43834433 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
43834381 CACACTATCT
*
43834391 ATCGGTCCTTTTGGTACTTTCC
1 ATCGGTCCTTTCGGTACTTTCC
43834413 ATCGGTCCTTTCGGTACTTTC
1 ATCGGTCCTTTCGGTACTTTC
43834434 AGTAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.28, G:0.19, T:0.44
Consensus pattern (22 bp):
ATCGGTCCTTTCGGTACTTTCC
Found at i:43837842 original size:25 final size:25
Alignment explanation
Indices: 43837814--43837894 Score: 108
Period size: 25 Copynumber: 3.2 Consensus size: 25
43837804 TGTAAAAAGT
* *
43837814 AAGCTCTTCCAAACTGAATAACGGG
1 AAGCTCATGCAAACTGAATAACGGG
* *
43837839 AAGCTCATGCGAACTGAATAACGAG
1 AAGCTCATGCAAACTGAATAACGGG
* *
43837864 AAGCTCATGCAAGCTGTATAACGGG
1 AAGCTCATGCAAACTGAATAACGGG
43837889 AAGCTC
1 AAGCTC
43837895 GTGCGGGCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (25 bp):
AAGCTCATGCAAACTGAATAACGGG
Found at i:43837904 original size:25 final size:25
Alignment explanation
Indices: 43837831--43837905 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
43837821 TCCAAACTGA
* *
43837831 ATAACGGGAAGCTCATGCGAACTGA
1 ATAACGGGAAGCTCATGCGAGCTGT
* *
43837856 ATAACGAGAAGCTCATGCAAGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
* *
43837881 ATAACGGGAAGCTCGTGCGGGCTGT
1 ATAACGGGAAGCTCATGCGAGCTGT
43837906 GGTGTGTGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.19
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGCGAGCTGT
Found at i:43854456 original size:44 final size:43
Alignment explanation
Indices: 43854390--43854553 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
43854380 TCTGATATGT
*
43854390 GATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTG
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
43854432 CGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCG-TATAG
1 -GATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
* * * *
43854476 GAGTTCGTGTAAGACCCCGTCGGGGACAG-TGGCATCGATATTT
1 GATTTCGTGTAAGACCACGTCTGGGAC-GTTGGCATCGATATTG
* *
43854519 GATTTCATGTAAGACCACGTCTGGGATGTTGGCAT
1 GATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
43854554 TGAATGAGCT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.28
43 40 0.41
44 31 0.32
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTG
Found at i:43860142 original size:22 final size:23
Alignment explanation
Indices: 43860116--43860165 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
43860106 AAGCTCCATG
43860116 TTCATATATCAT-TATCCAT-ATT
1 TTCATATATCATGTAT-CATCATT
43860138 TTCATATATCATGTATCATCATT
1 TTCATATATCATGTATCATCATT
43860161 TTCAT
1 TTCAT
43860166 GTATTTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (23 bp):
TTCATATATCATGTATCATCATT
Found at i:43860643 original size:64 final size:64
Alignment explanation
Indices: 43860557--43860683 Score: 191
Period size: 64 Copynumber: 2.0 Consensus size: 64
43860547 CGGAGAGCCA
* *
43860557 TATAATAGGACACTCATAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
1 TATAACAGGACACTCACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
* * * * *
43860621 TATAACAGGACGCTCACAAAGAGCTGTGGTATGTTCGCAACACATGCCGGGTCACTACCGATC
1 TATAACAGGACACTCACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGATC
43860684 AAGATGCTCG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.31, C:0.26, G:0.23, T:0.20
Consensus pattern (64 bp):
TATAACAGGACACTCACAAAGAGCTGCGGTATGTCCGCAACACATGCAGGATCACTACCGATCG
Found at i:43863760 original size:3 final size:3
Alignment explanation
Indices: 43863752--43863779 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43863742 TCATGTCATG
43863752 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
43863780 CAAGGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43866735 original size:16 final size:16
Alignment explanation
Indices: 43866696--43866742 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
43866686 AATTATTTTT
43866696 ACAATTTTTTTTGAAA
1 ACAATTTTTTTTGAAA
43866712 ACATATTTTTTTT-AAA
1 ACA-ATTTTTTTTGAAA
*
43866728 ATTAATTTTTTTTGA
1 A-CAATTTTTTTTGA
43866743 CATGGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (16 bp):
ACAATTTTTTTTGAAA
Found at i:43868637 original size:57 final size:58
Alignment explanation
Indices: 43868575--43868696 Score: 183
Period size: 57 Copynumber: 2.1 Consensus size: 58
43868565 TTTTTCAATT
** * *
43868575 TTCATTTTCATTTTTGTTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-TATTTC
1 TTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTATTTC
*
43868632 TTCATTTTCATTTTCATTTTGGAGAAAACCATAATCATCTCCAAATGTTTCTTATTTC
1 TTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTATTTC
*
43868690 TCCATTT
1 TTCATTT
43868697 CACCATTTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 46 0.79
58 12 0.21
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.48
Consensus pattern (58 bp):
TTCATTTTCATTTTCATTTTGGAGAAAACCACAATCATCTCCAAATGTTTCTTATTTC
Found at i:43884795 original size:56 final size:56
Alignment explanation
Indices: 43884702--43884955 Score: 289
Period size: 56 Copynumber: 4.8 Consensus size: 56
43884692 ATTTAGGTAA
*
43884702 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
* *
43884758 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATAATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
* * *
43884814 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCA-C--CGAG---ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
** * *
43884864 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT---A-TATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
** * * *
43884914 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
43884956 GTACAAGAAA
Statistics
Matches: 173, Mismatches: 22, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
50 78 0.45
53 3 0.02
56 92 0.53
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (56 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
Found at i:43892483 original size:19 final size:19
Alignment explanation
Indices: 43892445--43892484 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43892435 AAAATATTAT
* *
43892445 ATTAATTTTATTTAATTTG
1 ATTAATTTAATTTAACTTG
*
43892464 ATTAATTTAATTTTACTTG
1 ATTAATTTAATTTAACTTG
43892483 AT
1 AT
43892485 CAAAGTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTAATTTAACTTG
Found at i:43893526 original size:25 final size:25
Alignment explanation
Indices: 43893470--43893584 Score: 99
Period size: 25 Copynumber: 4.7 Consensus size: 25
43893460 CGAAAGAGTG
* ** *
43893470 TCCTGTTAT-TAGCTCTCATGAGCA
1 TCCTGTTATATGGCTCTCACAAGCT
* *
43893494 TCCCGTTATTTGGCTCTCACAAGCT
1 TCCTGTTATATGGCTCTCACAAGCT
* *
43893519 TCCTGTTATATGGTTCTTACAAGCT
1 TCCTGTTATATGGCTCTCACAAGCT
* * *
43893544 TCCTGTTATATGGTTCTTACGAGCT
1 TCCTGTTATATGGCTCTCACAAGCT
* *
43893569 TCCCGTTA-ATAGCTCT
1 TCCTGTTATATGGCTCT
43893585 TCAAAGCATC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
24 14 0.18
25 63 0.82
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (25 bp):
TCCTGTTATATGGCTCTCACAAGCT
Found at i:43893709 original size:27 final size:25
Alignment explanation
Indices: 43893661--43893733 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
43893651 CTCAATAGAT
43893661 GGCTCTTTAGAGCTTCTCGATTAAA
1 GGCTCTTTAGAGCTTCTCGATTAAA
*
43893686 GGCTCTTTCATGAGCTTC-CTGATTAAT
1 GGCTCTTT-A-GAGCTTCTC-GATTAAA
* *
43893713 GGCTCTCTAGAGCTTCCCGAT
1 GGCTCTTTAGAGCTTCTCGAT
43893734 ATTGGCTCGC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 18 0.43
26 4 0.10
27 20 0.48
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (25 bp):
GGCTCTTTAGAGCTTCTCGATTAAA
Found at i:43893776 original size:24 final size:24
Alignment explanation
Indices: 43893659--43893783 Score: 89
Period size: 24 Copynumber: 5.1 Consensus size: 24
43893649 GTCTCAATAG
*
43893659 ATGGCTCTT-TAGAGCTTCTCGATT
1 ATGGCTCTTAT-GAGCTTCCCGATT
* *
43893683 AAAGGCTCTTTCATGAGCTTCCTGATT
1 -ATGGCTC-TT-ATGAGCTTCCCGATT
43893710 AATGGCTCTCTA-GAGCTTCCCGA-T
1 -ATGGCTCT-TATGAGCTTCCCGATT
* *
43893734 ATTGGCTCGCT-TGAACTTCCCGATT
1 A-TGGCTC-TTATGAGCTTCCCGATT
*
43893759 ACGGCTCTTATGAGCTTCCC-ATT
1 ATGGCTCTTATGAGCTTCCCGATT
43893782 AT
1 AT
43893784 ACAGCTCGAA
Statistics
Matches: 80, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
23 6 0.08
24 32 0.40
25 18 0.22
26 4 0.05
27 19 0.24
28 1 0.01
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (24 bp):
ATGGCTCTTATGAGCTTCCCGATT
Found at i:43898289 original size:16 final size:16
Alignment explanation
Indices: 43898268--43898314 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
43898258 TTAATCACTT
*
43898268 TAATATTAAATTAATA
1 TAATATTAAATTAAAA
* *
43898284 TAATATT-TATCAAAA
1 TAATATTAAATTAAAA
43898299 TAAATATTAAATTAAA
1 T-AATATTAAATTAAA
43898315 TTGAAACATT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 6 0.25
16 13 0.54
17 5 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATTAAATTAAAA
Found at i:43900680 original size:17 final size:18
Alignment explanation
Indices: 43900658--43900757 Score: 61
Period size: 17 Copynumber: 5.8 Consensus size: 18
43900648 ATTATTTTAA
43900658 TAATTTAATATTTAAT-T
1 TAATTTAATATTTAATAT
** *
43900675 TAATTTAATACGT-ATCT
1 TAATTTAATATTTAATAT
* *
43900692 TAA--TAGTATTT-TTAT
1 TAATTTAATATTTAATAT
*
43900707 TAATTTAATATTAAAGTGAT
1 TAATTTAATATTTAA-T-AT
43900727 T-ATCTTAATATTTAAT-T
1 TAAT-TTAATATTTAATAT
*
43900744 TAATTTAATGTTTA
1 TAATTTAATATTTA
43900758 TCTACCAGAT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 10 0.16
16 2 0.03
17 32 0.51
18 2 0.03
19 4 0.06
20 13 0.21
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATTTAATATTTAATAT
Found at i:43908132 original size:5 final size:5
Alignment explanation
Indices: 43908119--43908160 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
43908109 AAAAAAACGC
* *
43908119 AAAAG AAAAT AAAAT -ATAT -AAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
43908161 ATGCTAGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 6 0.18
5 27 0.82
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43909435 original size:40 final size:40
Alignment explanation
Indices: 43909362--43909485 Score: 176
Period size: 41 Copynumber: 3.0 Consensus size: 40
43909352 ACCAAAATTT
43909362 TATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATT--AA-AAAAATTAAAAAAAGTATTTTAAAAA
43909406 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
* * *
43909446 AATTTTTAAATTTAAAAAAATTTAAAAAAGTATTTTAAAA
1 TA-TTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAA
43909486 TTAAAAAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 27 0.36
41 37 0.49
43 6 0.08
44 6 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (40 bp):
TATTTTAAAATTAAAAAAATTAAAAAAAGTATTTTAAAAA
Found at i:43909452 original size:12 final size:14
Alignment explanation
Indices: 43909385--43909485 Score: 56
Period size: 12 Copynumber: 7.4 Consensus size: 14
43909375 AAAATAAAAA
43909385 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
43909399 TT--AAAAA-TATT
1 TTAAAAAAAGTATT
* **
43909410 TTAAAATTAAA-AAAA
1 TTAAAA--AAAGTATT
43909425 TTAAAAAAAGTATT
1 TTAAAAAAAGTATT
43909439 TTAAAAAAA-T-TT
1 TTAAAAAAAGTATT
* *
43909451 TTAAATTTAAAA-AAAT
1 TTAAA---AAAAGTATT
43909467 TT-AAAAAAGTATT
1 TTAAAAAAAGTATT
43909480 TTAAAA
1 TTAAAA
43909486 TTAAAAAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 22
0.67 0.10 0.22
Matches are distributed among these distances:
11 6 0.09
12 16 0.24
13 10 0.15
14 15 0.23
15 16 0.24
16 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
TTAAAAAAAGTATT
Found at i:43909462 original size:29 final size:29
Alignment explanation
Indices: 43909438--43909501 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
43909428 AAAAAAGTAT
*
43909438 TTTAAAAAAAT-TTTTAAATTTAAAAAAA
1 TTTAAAAAAATATTTTAAAATTAAAAAAA
*
43909466 TTTAAAAAAGTATTTTAAAATT-AAAAAA
1 TTTAAAAAAATATTTTAAAATTAAAAAAA
43909494 TTTAAAAA
1 TTTAAAAA
43909502 TAAAAATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTAAAAAAATATTTTAAAATTAAAAAAA
Found at i:43909501 original size:16 final size:16
Alignment explanation
Indices: 43909479--43909513 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43909469 AAAAAAGTAT
*
43909479 TTTAAAATTAAAAA-A
1 TTTAAAAATAAAAATA
43909494 TTTAAAAATAAAAATA
1 TTTAAAAATAAAAATA
43909510 TTTA
1 TTTA
43909514 TTATTCGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTTAAAAATAAAAATA
Found at i:43914627 original size:16 final size:18
Alignment explanation
Indices: 43914594--43914634 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
43914584 TGTATCCTTG
*
43914594 TTATTATATTATTCATTA
1 TTATTTTATTATTCATTA
43914612 TT-TTTTATTA-TCATTA
1 TTATTTTATTATTCATTA
43914628 TTATTTT
1 TTATTTT
43914635 TATACACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 8 0.38
17 11 0.52
18 2 0.10
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
TTATTTTATTATTCATTA
Found at i:43914754 original size:16 final size:16
Alignment explanation
Indices: 43914712--43914755 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
43914702 TTTACATATA
43914712 TATATACATTATTATTT
1 TATATACA-TATTATTT
* * *
43914729 TATTTTCATATTTTTT
1 TATATACATATTATTT
43914745 TATATACATAT
1 TATATACATAT
43914756 ATATACTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATACATATTATTT
Found at i:43914794 original size:23 final size:23
Alignment explanation
Indices: 43914741--43914807 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
43914731 TTTTCATATT
43914741 TTTTTATATACATATA-TATACTCA
1 TTTTTAT-TA-ATATATTATACTCA
* *
43914765 TACTTTATTAATATATTATACTTA
1 T-TTTTATTAATATATTATACTCA
* *
43914789 TTTTTATTTATATTTTATA
1 TTTTTATTAATATATTATA
43914808 AGTATATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 20 0.56
24 11 0.31
25 5 0.14
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTTTATTAATATATTATACTCA
Found at i:43915943 original size:21 final size:21
Alignment explanation
Indices: 43915896--43915954 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
43915886 CAAAAATGAT
* *
43915896 TATTTTTTATTGTCTTATTAT
1 TATTTTTTATTGTTTTATTAC
* * *
43915917 TGTTTTTTATTATTTTGTTAC
1 TATTTTTTATTGTTTTATTAC
43915938 TATTTTCTTATTGTTTT
1 TATTTT-TTATTGTTTT
43915955 TACACTATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (21 bp):
TATTTTTTATTGTTTTATTAC
Found at i:43915954 original size:11 final size:10
Alignment explanation
Indices: 43915898--43915955 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
43915888 AAAATGATTA
43915898 TTTTTTATTG
1 TTTTTTATTG
*
43915908 TCTTATTATTG
1 T-TTTTTATTG
*
43915919 TTTTTTATTA
1 TTTTTTATTG
* *
43915929 TTTTGTTACTA
1 TTTT-TTATTG
43915940 TTTTCTTATTG
1 TTTT-TTATTG
43915951 TTTTT
1 TTTTT
43915956 ACACTATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 13 0.33
11 26 0.67
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTTTATTG
Found at i:43919251 original size:21 final size:21
Alignment explanation
Indices: 43919208--43919264 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
43919198 AAATGATTGT
* * *
43919208 TTTTTTATTGTCTTATTATTA
1 TTTTTTATTATTTTATTACTA
*
43919229 TTTTTTATTATTTTGTTACTA
1 TTTTTTATTATTTTATTACTA
*
43919250 TTATCTTATTATTTT
1 TT-TTTTATTATTTT
43919265 TACACGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.19, C:0.05, G:0.04, T:0.72
Consensus pattern (21 bp):
TTTTTTATTATTTTATTACTA
Found at i:43925228 original size:23 final size:23
Alignment explanation
Indices: 43925198--43925244 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43925188 TTGTAAACCG
43925198 ATCCTGATTGGGACTCATGTGGA
1 ATCCTGATTGGGACTCATGTGGA
43925221 ATCCTGATTGGGACTCATGTGGA
1 ATCCTGATTGGGACTCATGTGGA
43925244 A
1 A
43925245 GCTGCAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (23 bp):
ATCCTGATTGGGACTCATGTGGA
Done.