Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 137 of 207
Found at i:42052610 original size:19 final size:19
Alignment explanation
Indices: 42052583--42052621 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
42052573 ATTTAAATTG
42052583 TTTTATATTTGATTTG-TAA
1 TTTTATATTTG-TTTGATAA
*
42052602 TTTTGTATTTGTTTGATAA
1 TTTTATATTTGTTTGATAA
42052621 T
1 T
42052622 AGTTTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.13, T:0.64
Consensus pattern (19 bp):
TTTTATATTTGTTTGATAA
Found at i:42057137 original size:11 final size:11
Alignment explanation
Indices: 42057121--42057162 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
42057111 ATAATGCAAG
*
42057121 ATTTTTCTGTA
1 ATTTTTCTGTT
*
42057132 ATTTTTCTTTT
1 ATTTTTCTGTT
42057143 ATTTTTCTGTT
1 ATTTTTCTGTT
*
42057154 GTTTTTCTG
1 ATTTTTCTG
42057163 CCATATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (11 bp):
ATTTTTCTGTT
Found at i:42059551 original size:111 final size:114
Alignment explanation
Indices: 42059392--42059604 Score: 278
Period size: 111 Copynumber: 1.9 Consensus size: 114
42059382 GGAAGGATAT
* *
42059392 TTTTTTGTTGTGTTATTTTAGTTTTAGATTTATATTAAAGGTCTGATTAATTTGTTTTATT-AAT
1 TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
*
42059456 GCTTTTAT-G-GTATCTTATATC-AGTTTTTCGTATTTACTTGAAATGTTA
66 -CTTTTATGGAGAATCTTATATCGA-TTTTTCGTATTTACTTGAAATGTTA
* *
42059504 TTTTTTGTTGTGTT-TTATTAGCTTTAAG-TTTGTA-TAAAGGTTTGATTAATTTGTTTGATTAA
1 TTTTTTGTTGTGTTATT-TTAG-TTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAA
* *
42059566 ATTTTTTTTGGAGAATCTTATATCGATTTTTCGTATTTA
64 ATCTTTTATGGAGAATCTTATATCGATTTTTCGTATTTA
42059605 AGGTATGAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
111 31 0.35
112 27 0.31
113 29 0.33
114 1 0.01
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.57
Consensus pattern (114 bp):
TTTTTTGTTGTGTTATTTTAGTTTAAGATTTATATTAAAGGTCTGATTAATTTGTTTGATTAAAT
CTTTTATGGAGAATCTTATATCGATTTTTCGTATTTACTTGAAATGTTA
Found at i:42062434 original size:21 final size:21
Alignment explanation
Indices: 42062391--42062492 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
42062381 TCAGTAGACG
* *
42062391 ACACATAAGTGCCTGAAATGAC
1 ACACA-AAGTGCCTGATACGAC
* *
42062413 ACACGAAGTGTCTGATACGAC
1 ACACAAAGTGCCTGATACGAC
* * *
42062434 ACCCAAGGTGCCTGATACGGC
1 ACACAAAGTGCCTGATACGAC
* *
42062455 ACATAAAGTGTCTGATATACGAC
1 ACACAAAGTGCCTG--ATACGAC
* *
42062478 ACATAAAGTTCCTGA
1 ACACAAAGTGCCTGA
42062493 ACGGCAAAGC
Statistics
Matches: 62, Mismatches: 16, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
21 40 0.65
22 4 0.06
23 18 0.29
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
ACACAAAGTGCCTGATACGAC
Found at i:42062492 original size:44 final size:41
Alignment explanation
Indices: 42062391--42062498 Score: 99
Period size: 42 Copynumber: 2.5 Consensus size: 41
42062381 TCAGTAGACG
* * **
42062391 ACACATAAGTGCCTGAAATGACACACGAAGTGTCTGATACGAC
1 ACACA-AAGTGCCTG-AACGGCACATAAAGTGTCTGATACGAC
* *
42062434 ACCCAAGGTGCCTGATACGGCACATAAAGTGTCTGATATACGAC
1 ACACAAAGTGCCTGA-ACGGCACATAAAGTGTCTG--ATACGAC
* *
42062478 ACATAAAGTTCCTGAACGGCA
1 ACACAAAGTGCCTGAACGGCA
42062499 AAGCCGATAA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.02
42 23 0.44
43 10 0.19
44 18 0.35
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (41 bp):
ACACAAAGTGCCTGAACGGCACATAAAGTGTCTGATACGAC
Found at i:42063901 original size:30 final size:28
Alignment explanation
Indices: 42063865--42063922 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
42063855 TTTTACATAA
*
42063865 TATAATAATATAATATAATATAATATATTT
1 TATAATAAAATAATAT-AT-TAATATATTT
*
42063895 TATAATAAAATAATGTATTAATATATTT
1 TATAATAAAATAATATATTAATATATTT
42063923 AAAACATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 10 0.38
29 2 0.08
30 14 0.54
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TATAATAAAATAATATATTAATATATTT
Found at i:42063907 original size:20 final size:22
Alignment explanation
Indices: 42063873--42063913 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
42063863 AATATAATAA
42063873 TATAATATAATATAATATATTT
1 TATAATATAATATAATATATTT
*
42063895 TATAATA-AA-ATAATGTATT
1 TATAATATAATATAATATATT
42063914 AATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
TATAATATAATATAATATATTT
Found at i:42071304 original size:32 final size:32
Alignment explanation
Indices: 42071263--42071338 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
42071253 CCACAGAGAA
* * * *
42071263 AGGCAGCACACCATTGGTCATGCCCATTTCAC
1 AGGCGGCACACCACTGGTCAAGCCCATTCCAC
*
42071295 AGGCGGCACACCGCTGGTCAAGCCCATTCCAC
1 AGGCGGCACACCACTGGTCAAGCCCATTCCAC
*
42071327 AGGTGGCACACC
1 AGGCGGCACACC
42071339 TCTGACTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.16
Consensus pattern (32 bp):
AGGCGGCACACCACTGGTCAAGCCCATTCCAC
Found at i:42073584 original size:14 final size:14
Alignment explanation
Indices: 42073565--42073599 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
42073555 GACATTGTTT
*
42073565 TTCTAATGATACTA
1 TTCTAACGATACTA
42073579 TTCTAACGATACTA
1 TTCTAACGATACTA
42073593 TTCTAAC
1 TTCTAAC
42073600 ATGTAATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:42074280 original size:6 final size:6
Alignment explanation
Indices: 42074269--42074356 Score: 158
Period size: 6 Copynumber: 14.7 Consensus size: 6
42074259 GCTCAAGTCA
42074269 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT
* *
42074317 GAGCCT GAGCCT AAGCCT GAGCCT GAGCCT GAGCCC GAGC
1 GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGCCT GAGC
42074357 AGTCGCATAC
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 79 1.00
ACGTcount: A:0.18, C:0.34, G:0.33, T:0.15
Consensus pattern (6 bp):
GAGCCT
Found at i:42075025 original size:48 final size:48
Alignment explanation
Indices: 42074835--42075016 Score: 346
Period size: 48 Copynumber: 3.8 Consensus size: 48
42074825 AAATTAATTG
*
42074835 CAACATTAAAACTTAGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
42074883 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
*
42074931 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTA
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
42074979 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 CAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
42075017 AGGTACATTG
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 132 1.00
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (48 bp):
CAACATTAAAACTTGGAACAAACTTTGTAATATAAATTGAATACATTA
Found at i:42078476 original size:20 final size:21
Alignment explanation
Indices: 42078453--42078493 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
42078443 TCCTGTATGT
42078453 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
42078473 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
42078494 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:42078526 original size:25 final size:26
Alignment explanation
Indices: 42078484--42078571 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
42078474 TTTGTATATG
* *
42078484 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
42078509 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
42078537 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
42078561 ATTTATTTTAA
1 A-TTATTTTAA
42078572 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:42078564 original size:27 final size:26
Alignment explanation
Indices: 42078510--42078571 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
42078500 TTCTAGATTA
42078510 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
42078537 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
42078563 TTATTTTAA
1 TTATTTTAA
42078572 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:42085725 original size:44 final size:44
Alignment explanation
Indices: 42085676--42085814 Score: 104
Period size: 44 Copynumber: 3.2 Consensus size: 44
42085666 AATAGTAGAT
*
42085676 CTTGCCTTCCTGCATCGATAGTGAAGCAGATCGAAAACACAAGC
1 CTTGCCTTCCTGCATAGATAGTGAAGCAGATCGAAAACACAAGC
* * * * * * * * * *
42085720 CTTGCCTCCCT-CGGTTG-TAGTGGAGTAGGTTGAAGATAGCATA-T
1 CTTGCCTTCCTGC-ATAGATAGTGAAGCAGATCGAAAACA-CA-AGC
* * *
42085764 CTTACCTTCTTGCATAGAGAGTGAAGCAGATCGAAAACACAAGC
1 CTTGCCTTCCTGCATAGATAGTGAAGCAGATCGAAAACACAAGC
42085808 CTTGCCT
1 CTTGCCT
42085815 CCGTCGGTTG
Statistics
Matches: 65, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
43 17 0.26
44 32 0.49
45 16 0.25
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATAGATAGTGAAGCAGATCGAAAACACAAGC
Found at i:42085823 original size:88 final size:87
Alignment explanation
Indices: 42085667--42085991 Score: 445
Period size: 88 Copynumber: 3.7 Consensus size: 87
42085657 ATCAGTAAAA
* *
42085667 ATAGTAGATCTTGCCTTCCTGCATCGATAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCTC
42085732 GGTTGTAGTGGAGTAGGTTGAAG
65 GGTTGTAGTGGAGTAGGTTGAAG
* * * *
42085755 ATAGCATATCTTACCTTCTTGCATAGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCGTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCC-TC
42085820 GGTTGTAGTGGAGTAGGTTGAAG
65 GGTTGTAGTGGAGTAGGTTGAAG
* * * *
42085843 ATAGTAGATCTTGCCTTCTTGCATCGACGA-CGAAGCAGATCGAAGACACAAGCCTTGCCTGCCT
1 ATAGCAGATCTTGCCTTCCTGCATCGA-GAGTGAAGCAGATCGAAAACACAAGCCTTGCCT-CCT
* * *
42085907 TGATTGTAGTGGAGCAGGTTGAAG
64 CGGTTGTAGTGGAGTAGGTTGAAG
* * ** *
42085931 ATAGCAGATCTTGCCTTCCTGCATCGACAATGAAATAGATCGAAACCACAAGCCTTGCCTC
1 ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTC
42085992 TCTAAGTGGT
Statistics
Matches: 210, Mismatches: 23, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
87 4 0.02
88 202 0.96
89 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (87 bp):
ATAGCAGATCTTGCCTTCCTGCATCGAGAGTGAAGCAGATCGAAAACACAAGCCTTGCCTCCTCG
GTTGTAGTGGAGTAGGTTGAAG
Found at i:42086235 original size:131 final size:128
Alignment explanation
Indices: 42086006--42086273 Score: 394
Period size: 131 Copynumber: 2.1 Consensus size: 128
42085996 AGTGGTAGTA
* *
42086006 GAGCAGATCGAAGACGGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCGCAAGTCCT
1 GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
*
42086071 ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATTAC-AGATCTTATCCCCCTAAGCAGTAGCG
66 ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGA-ATCTTATCCCCCTAAGCAGTAGCG
*
42086134 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACAGCGAATCTTATCTT---CAGGAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * * * *
42086199 CCTATCTCCCTGGTCAGTAGTGGAGTAGTTTGGAAATAACGAATCTTATCTCCCTAAGCAGTAGT
63 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGC
42086264 G
128 G
42086265 GAGCAGATC
1 GAGCAGATC
42086274 AAGGATGACA
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
128 29 0.23
131 95 0.76
132 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (128 bp):
GAGCAGATCGAAGACAGCGAATCTTATCTTCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCT
ATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACGAATCTTATCCCCCTAAGCAGTAGCG
Found at i:42086324 original size:131 final size:130
Alignment explanation
Indices: 42086006--42086306 Score: 355
Period size: 131 Copynumber: 2.3 Consensus size: 130
42085996 AGTGGTAGTA
* * *
42086006 GAGCAGATCGAAGACGGCGAATCTTATCTT--C-AGGAGTAGGGAAGCAGATTTAAGCCGCAAGT
1 GAGCAGATCGAAGAC-ACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
*
42086068 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATTACAGATCTTATCCCCCTAAGCAGTAGC
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGC
42086133 G
130 G
* * *
42086134 GAGCAGATCGAAGACAGCGAATCTTATCTTCCCCAGGAGTAGGGAAGTAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACA-CGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGT
* * * * * *
42086199 CCTATCTCCCTGGTCAGTAGTGGAGTAGTTTGGAAATAAC-GAATCTTATCTCCCTAAGCAGTAG
65 CCTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAG-ATCTTATCCCCCTAAGCAGTAG
*
42086263 TG
129 CG
*
42086265 GAGCAGATC-AAGGATGAC-AGATCTTATC-TCCCTAAGCAGTAG
1 GAGCAGATCGAA-GA-CACGA-ATCTTATCTTCCC-AAGCAGTAG
42086307 TGGAGCATAT
Statistics
Matches: 150, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
128 28 0.19
130 9 0.06
131 112 0.75
132 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (130 bp):
GAGCAGATCGAAGACACGAATCTTATCTTCCCAAGCAGTAGGGAAGCAGATTTAAGCCACAAGTC
CTATCTCACTGGTCAGCAGTGGAATAGGTTAGAAATAACAGATCTTATCCCCCTAAGCAGTAGCG
Found at i:42086690 original size:44 final size:44
Alignment explanation
Indices: 42086631--42086724 Score: 161
Period size: 44 Copynumber: 2.1 Consensus size: 44
42086621 AATCCTATTT
42086631 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* **
42086675 CCCTGATATTGCAGTGGAGTGGATCAAAGCATTAATTCCTATAC
1 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
42086719 CCCTGA
1 CCCTGA
42086725 AGATGCAGTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:42086732 original size:44 final size:44
Alignment explanation
Indices: 42086631--42086735 Score: 149
Period size: 44 Copynumber: 2.4 Consensus size: 44
42086621 AATCCTATTT
* *
42086631 CCCTGATATTACAGTGGAGTGGATCAAAGCACCAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
* **
42086675 CCCTGATATTGCAGTGGAGTGGATCAAAGCATTAATTCCTATAC
1 CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
42086719 CCCTGA-AGATGCAGTGG
1 CCCTGATA-ATGCAGTGG
42086736 GTTAGAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (44 bp):
CCCTGATAATGCAGTGGAGTGGATCAAAGCACCAATTCCTATAC
Found at i:42088170 original size:20 final size:21
Alignment explanation
Indices: 42088147--42088187 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
42088137 TCCTGTATGT
42088147 ATTTATATAT-ATTATATTAA
1 ATTTATATATGATTATATTAA
* *
42088167 ATTTGTATATGATTATTTTAA
1 ATTTATATATGATTATATTAA
42088188 CTTGCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATATATGATTATATTAA
Found at i:42088220 original size:25 final size:26
Alignment explanation
Indices: 42088178--42088265 Score: 85
Period size: 25 Copynumber: 3.4 Consensus size: 26
42088168 TTTGTATATG
* *
42088178 ATTATTTTAACTTGCTTTCTA-G-ATT
1 ATTATTTTAAGTTACTTT-TACGTATT
*
42088203 ATTATTTTAAGTTACTTTATATGTCATT
1 ATTATTTTAAGTTACTTT-TACGT-ATT
42088231 -TTATTTTAAGTTA-TTTTACGTATT
1 ATTATTTTAAGTTACTTTTACGTATT
42088255 ATTTATTTTAA
1 A-TTATTTTAA
42088266 AATTAACCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
24 3 0.06
25 22 0.41
26 13 0.24
27 13 0.24
28 3 0.06
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (26 bp):
ATTATTTTAAGTTACTTTTACGTATT
Found at i:42088258 original size:27 final size:26
Alignment explanation
Indices: 42088204--42088265 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
42088194 TTCTAGATTA
42088204 TTATTTTAAGTTACTTTATATGTCATT
1 TTATTTTAAGTTACTTTATATGTCA-T
*
42088231 TTATTTTAAGTTATTTTACGTAT-T-AT
1 TTATTTTAAGTTACTTTA--TATGTCAT
42088257 TTATTTTAA
1 TTATTTTAA
42088266 AATTAACCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 10 0.31
27 18 0.56
28 1 0.03
29 3 0.09
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.61
Consensus pattern (26 bp):
TTATTTTAAGTTACTTTATATGTCAT
Found at i:42092754 original size:31 final size:31
Alignment explanation
Indices: 42092675--42092762 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
42092665 AAGGGCCTAT
* * *
42092675 CATTTACATAAAGTGCTC-AATGAGGGCCAAA
1 CATTTTCA-AAAGTGCTCAAATAAGGGCAAAA
* * * *
42092706 CCTTTTCGAAAGCGCTCAAATAAGGGTAAAA
1 CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
42092737 CATTTTCAAAAGTGCTCAAATAAGGG
1 CATTTTCAAAAGTGCTCAAATAAGGG
42092763 ATTTTTGAAT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 8 0.17
31 38 0.83
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (31 bp):
CATTTTCAAAAGTGCTCAAATAAGGGCAAAA
Found at i:42093550 original size:5 final size:5
Alignment explanation
Indices: 42093540--42093565 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
42093530 TGAGCATTCG
42093540 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
42093566 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:42094352 original size:30 final size:31
Alignment explanation
Indices: 42094313--42094372 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
42094303 GGAGGTGGGA
*
42094313 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
42094344 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
42094373 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:42097303 original size:47 final size:47
Alignment explanation
Indices: 42097225--42097528 Score: 398
Period size: 47 Copynumber: 6.4 Consensus size: 47
42097215 CCCTTCGGGA
* * * *
42097225 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
42097272 CTTATCACATATATACACTTTCTCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42097319 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
42097366 CTTATCACACATACACA-TATTCACATTCATCACATTGGCCAATCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
42097413 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
42097460 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
42097509 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
42097529 GTACATCAAT
Statistics
Matches: 232, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 190 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:42110932 original size:144 final size:144
Alignment explanation
Indices: 42110629--42110923 Score: 466
Period size: 144 Copynumber: 2.0 Consensus size: 144
42110619 TCAAAGTTTT
*
42110629 CTTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAAGAT
1 CTTTTAAAAAA-A--ACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
* * *
42110694 CAAAACTTTGTTTTAAAAATTTCAAACTTTTTCTTTAAAATGACCAAAAAACATATTTTTATTTT
63 CAAAACTTTGCTTTAAAAATTTCAAACTTTTCCTTTAAAATGACCAAAAAACAGATTTTTATTTT
42110759 AAAAATCTAAACATTCG
128 AAAAATCTAAACATTCG
*
42110776 CTTTTAAAAAAAACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
1 CTTTTAAAAAAAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
* * *
42110841 AACTTTGCTTTAAGAATTT-AAACTTTTCCTTTAATATGACTAAAAAACAGATTTTTATTTTAAA
66 AACTTTGCTTTAAAAATTTCAAACTTTTCCTTTAAAATGACCAAAAAACAGATTTTTATTTTAAA
* *
42110905 AATCTAAACTTTCT
131 AATCTAAACATTCG
42110919 CTTTT
1 CTTTT
42110924 TTTAAAAAAA
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
143 58 0.42
144 68 0.49
146 1 0.01
147 11 0.08
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (144 bp):
CTTTTAAAAAAAACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
AACTTTGCTTTAAAAATTTCAAACTTTTCCTTTAAAATGACCAAAAAACAGATTTTTATTTTAAA
AATCTAAACATTCG
Found at i:42113522 original size:22 final size:22
Alignment explanation
Indices: 42113497--42113553 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
42113487 AAAATAGTTG
42113497 AAAAAGATTAAAACTTTAT-TTT
1 AAAAAGATTAAAA-TTTATCTTT
*
42113519 AAAAA-ATTTAAAATTTTTCTTT
1 AAAAAGA-TTAAAATTTATCTTT
* *
42113541 AAAATGACTAAAA
1 AAAAAGATTAAAA
42113554 AACATATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 5 0.17
22 23 0.79
23 1 0.03
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.39
Consensus pattern (22 bp):
AAAAAGATTAAAATTTATCTTT
Found at i:42115018 original size:12 final size:12
Alignment explanation
Indices: 42115001--42115034 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
42114991 CGACCCACCC
42115001 ATATTAATTTTT
1 ATATTAATTTTT
*
42115013 ATATTATTTTTT
1 ATATTAATTTTT
42115025 ATA-TAATTTT
1 ATATTAATTTT
42115035 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:42115194 original size:30 final size:29
Alignment explanation
Indices: 42115158--42115216 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
42115148 ACTTAACAAG
42115158 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAAT-ATAACAAAATTAA
* *
42115188 CAAATGCCTTTAAAATATAATAAAATTAA
1 CAAATGCCTCTAAAATATAACAAAATTAA
42115217 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.27
Consensus pattern (29 bp):
CAAATGCCTCTAAAATATAACAAAATTAA
Found at i:42118206 original size:13 final size:13
Alignment explanation
Indices: 42118188--42118218 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
42118178 TTTGAGAGTG
42118188 GATTTTATTTCTC
1 GATTTTATTTCTC
42118201 GATTTTATTTCTC
1 GATTTTATTTCTC
42118214 GATTT
1 GATTT
42118219 CATATAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (13 bp):
GATTTTATTTCTC
Found at i:42119604 original size:42 final size:42
Alignment explanation
Indices: 42119557--42120027 Score: 640
Period size: 42 Copynumber: 11.3 Consensus size: 42
42119547 CTTCATATAC
* *
42119557 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
42119599 AATGCAATGAAAAGTAAACGGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * *
42119641 GATGTAAGGAAAAGTCAATAGACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
** *
42119683 AATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCCTATA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
42119725 AATGCAATGAAAAG-AAATGGAACTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
42119766 AATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
42119808 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * *
42119850 AGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
42119891 AATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * * * **
42119933 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
42119975 AATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
42120017 AATGCAATGAA
1 AATGCAATGAA
42120028 TGTTTTCCTT
Statistics
Matches: 375, Mismatches: 52, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
41 72 0.19
42 303 0.81
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:42119792 original size:167 final size:168
Alignment explanation
Indices: 42119552--42120027 Score: 672
Period size: 167 Copynumber: 2.8 Consensus size: 168
42119542 TGTGCCTTCA
* *
42119552 TATACAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAA
1 TATA-AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * * *
42119617 CGGACCTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAAT-AGACCTCCACACCTGGGCCTC
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGA-ACCTCCACACCTGGGCCTC
42119681 TAAATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCC
129 TAAATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCC
*
42119721 TATAAATGCAATGAAAAG-AAATGGA-ACTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAA
1 TATAAATGCAATGAAAAGTAAATGGACA-TCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAA
* * *
42119784 TGGACCTCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCT
65 TGGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCT
* * * * **
42119849 AAGTGTAAT-AAAAGTAAATGGACCTCTACGCCTGGGCC
130 AAATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCC
* * * *
42119887 TCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTAAATGTAATAAAAAGTAAAT
1 TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
* * ** *
42119952 GAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTAGGCCTCTA
66 GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
42120017 AATGCAATGAA
131 AATGCAATGAA
42120028 TGTTTTCCTT
Statistics
Matches: 271, Mismatches: 31, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
166 43 0.16
167 207 0.76
168 17 0.06
169 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (168 bp):
TATAAATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTCTAAATGCAATAAAAAGTAAAT
GGACCTCCACACCTGGGCCTCTAAATGTAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTA
AATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCC
Found at i:42119814 original size:125 final size:126
Alignment explanation
Indices: 42119557--42120027 Score: 633
Period size: 125 Copynumber: 3.8 Consensus size: 126
42119547 CTTCATATAC
* * * * *
42119557 AATGCAATGAAAAGTAAATGGACATCCACACCTGGGCCTTTAAATGCAATGAAAAGTAAACGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * * *
42119622 CTCCACACCTGGGCCTCTAGATGTAAGGAAAAGTCAATAGACCTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTGGGCCTCTA
* ** *
42119683 AATGCAATGAAAAGTAAATGGACCTCCACACCCAGGCCTATAAATGCAATGAAAAG-AAATGGAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * *
42119747 CTCCACACCTAGGCCTCTAAATGCAATAAAAAGTAAATGGACCTCCACACCTGGGCCTTTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTGGGCCTCTA
* * * *
42119808 AATGCAATGAAAAGTAAATGAACCTCCATACCTGGGCCTCTAAGTGTAAT-AAAAGTAAATGGAC
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
* * * *
42119872 CTCTACGCCTGGGCCTCTAAATGCAATGAAAAGTAAATAGACTTCCACACCTGGGCCTCTA
66 CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTGGGCCTCTA
* * * ** *
42119933 AATGTAATAAAAAGTAAATGAACTTCCACTTCTGGGCCTCTAAATGTAATGAAAAGTAAAT-GAA
1 AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
42119997 CCTCCACACCTAGGCCTCTAAATGCAATGAA
66 -CTCCACACCTAGGCCTCTAAATGCAATGAA
42120028 TGTTTTCCTT
Statistics
Matches: 302, Mismatches: 40, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
124 5 0.02
125 208 0.69
126 89 0.29
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (126 bp):
AATGCAATGAAAAGTAAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGAA
CTCCACACCTAGGCCTCTAAATGCAATGAAAAGTAAATAGACCTCCACACCTGGGCCTCTA
Found at i:42127354 original size:18 final size:18
Alignment explanation
Indices: 42127331--42127371 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
42127321 CTATATGCAT
42127331 CTTAACCATGGAGTAGTC
1 CTTAACCATGGAGTAGTC
*
42127349 CTTAACCATGGAGTATTC
1 CTTAACCATGGAGTAGTC
42127367 CTTAA
1 CTTAA
42127372 ACTTATGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (18 bp):
CTTAACCATGGAGTAGTC
Found at i:42128783 original size:26 final size:26
Alignment explanation
Indices: 42128754--42128818 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 26
42128744 CTAACCTAAA
42128754 TTTAAATGGT-AAAACCTTATAGTTTC
1 TTTAAAT-GTAAAAACCTTATAGTTTC
*
42128780 TTTAAAATGTAAAAACCTTATGGTTTC
1 TTT-AAATGTAAAAACCTTATAGTTTC
*
42128807 ATTAAAATGTAA
1 -TTTAAATGTAA
42128819 CATCTACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (26 bp):
TTTAAATGTAAAAACCTTATAGTTTC
Found at i:42128795 original size:27 final size:27
Alignment explanation
Indices: 42128764--42128818 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
42128754 TTTAAATGGT
*
42128764 AAAACCTTATAGTTTCTTTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
*
42128791 AAAACCTTATGGTTTCATTAAAATGTA
1 AAAACCTTATAGTTTCATTAAAATGTA
42128818 A
1 A
42128819 CATCTACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAACCTTATAGTTTCATTAAAATGTA
Found at i:42130025 original size:147 final size:149
Alignment explanation
Indices: 42129727--42130038 Score: 470
Period size: 147 Copynumber: 2.1 Consensus size: 149
42129717 CAAAGTTTTC
* *
42129727 TTTTAAAAAAGATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGGAATAGTTGAAAAAGATC
1 TTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATC
* * *
42129792 AAAATTTTGTTTTAAAAATTTTAAACTTTTTCTTTAAAATGACTAAAAAACATATTTTTATTTTA
66 AAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTA
42129857 AAAATCTAAACGTTTGC-T
131 AAAATCTAAACGTTTGCTT
* *
42129875 TTTTAAAAAAAAT-AGTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATC
1 TTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATC
* *
42129939 AAAACTTTGCTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAAAACATATTTTTATTTTA
66 AAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTA
* *
42130003 AAAATCTAAA-TTTTCTCTTTT
131 AAAATCTAAACGTTT-GC--TT
42130024 TTTTAAAAAAAATCA
1 TTTTAAAAAAAATCA
42130039 AAACATTTCT
Statistics
Matches: 148, Mismatches: 11, Indels: 8
0.89 0.07 0.05
Matches are distributed among these distances:
145 3 0.02
146 55 0.37
147 63 0.43
148 12 0.08
149 14 0.09
150 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.42
Consensus pattern (149 bp):
TTTTAAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATC
AAAACTTTGCTTTAAAAATTTTAAACTTTTCCTTTAAAATGACTAAAAAACATATTTTTATTTTA
AAAATCTAAACGTTTGCTT
Found at i:42130247 original size:3 final size:3
Alignment explanation
Indices: 42130239--42130264 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
42130229 ACTAGAATGC
42130239 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
42130265 TTTCCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:42138554 original size:41 final size:40
Alignment explanation
Indices: 42138428--42138563 Score: 129
Period size: 37 Copynumber: 3.5 Consensus size: 40
42138418 ACCAGTTTAG
* * *
42138428 CACCCAGTGCCTTATCGGAT-AATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGTA-TAAATTGA
* * * *
42138468 CACCCAGTGTCTCAT-TAGTTAAA-CCGAAG--TAAATTGG
1 CACCCAGTGCCTCATCGA-ATAAATCCGAAGTATAAATTGA
42138505 CACCCAGTGCCTCATCGAATAAATCCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATAAATCCGAAGT-ATAAATTGA
* *
42138546 CACTCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
42138564 CTCGAAATCG
Statistics
Matches: 76, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
37 25 0.33
38 7 0.09
40 19 0.25
41 25 0.33
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAAATCCGAAGTATAAATTGA
Found at i:42139606 original size:108 final size:109
Alignment explanation
Indices: 42139416--42139623 Score: 409
Period size: 108 Copynumber: 1.9 Consensus size: 109
42139406 TTCTTCTTTC
42139416 TTCCTTTCCCTTTTTTTCTTTTCTTTCCTTTCTGTTTCGTTTTAGCTTCTTTCTTTCTCTTTTTC
1 TTCCTTTCCCTTTTTTTCTTTTCTTTCCTTTCTGTTTCGTTTTAGCTTCTTTCTTTCTCTTTTTC
42139481 TTATTTTGTTTTATTATAATTTTATAATATATATATATACTTAA
66 TTATTTTGTTTTATTATAATTTTATAATATATATATATACTTAA
42139525 TTCCTTTCCC-TTTTTTCTTTTCTTTCCTTTCTGTTTCGTTTTAGCTTCTTTCTTTCTCTTTTTC
1 TTCCTTTCCCTTTTTTTCTTTTCTTTCCTTTCTGTTTCGTTTTAGCTTCTTTCTTTCTCTTTTTC
42139589 TTATTTTGTTTTATTATAATTTTATAATATATATA
66 TTATTTTGTTTTATTATAATTTTATAATATATATA
42139624 CTTAATTCTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
108 89 0.90
109 10 0.10
ACGTcount: A:0.14, C:0.17, G:0.04, T:0.65
Consensus pattern (109 bp):
TTCCTTTCCCTTTTTTTCTTTTCTTTCCTTTCTGTTTCGTTTTAGCTTCTTTCTTTCTCTTTTTC
TTATTTTGTTTTATTATAATTTTATAATATATATATATACTTAA
Found at i:42153060 original size:18 final size:19
Alignment explanation
Indices: 42153034--42153082 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
42153024 TATTTCAAAA
*
42153034 AATTATTTTTATTTTT-AC
1 AATTTTTTTTATTTTTAAC
* *
42153052 AATTTTTTTAATTTTTAAAT
1 AATTTTTTTTATTTTT-AAC
42153072 AATTTTTTTTA
1 AATTTTTTTTA
42153083 CATCCGGTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 14 0.56
20 11 0.44
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
AATTTTTTTTATTTTTAAC
Found at i:42167909 original size:23 final size:23
Alignment explanation
Indices: 42167866--42167923 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
42167856 GAAAATGATT
* *
42167866 ATTAATTTAATACAATAAATTATA
1 ATTATTTTAA-ACAATAAATTAAA
42167890 ATT-TTTTAAACAATATAATTAAA
1 ATTATTTTAAACAATA-AATTAAA
42167913 ATTATTTTAAA
1 ATTATTTTAAA
42167924 ATAACCTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.20
23 14 0.47
24 10 0.33
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTATTTTAAACAATAAATTAAA
Found at i:42177353 original size:26 final size:26
Alignment explanation
Indices: 42177324--42177373 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
42177314 TCCCATCCCT
*
42177324 ATTTTACCATTCGTAAAATTTTGATG
1 ATTTTACCATTAGTAAAATTTTGATG
*
42177350 ATTTTACCCTTAGTAAAATTTTGA
1 ATTTTACCATTAGTAAAATTTTGA
42177374 GAAAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTTACCATTAGTAAAATTTTGATG
Found at i:42179208 original size:23 final size:23
Alignment explanation
Indices: 42179190--42179263 Score: 130
Period size: 23 Copynumber: 3.2 Consensus size: 23
42179180 ATGACACACG
42179190 AAGTGCCTAAAATACGACACATA
1 AAGTGCCTAAAATACGACACATA
* *
42179213 AAGTGCCTGAAATACCACACATA
1 AAGTGCCTAAAATACGACACATA
42179236 AAGTGCCTAAAATACGACACATA
1 AAGTGCCTAAAATACGACACATA
42179259 AAGTG
1 AAGTG
42179264 TCTGATTGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (23 bp):
AAGTGCCTAAAATACGACACATA
Found at i:42179212 original size:45 final size:44
Alignment explanation
Indices: 42179156--42179268 Score: 131
Period size: 46 Copynumber: 2.5 Consensus size: 44
42179146 CCTGATCAGT
* *
42179156 ATACAACACATAAGTGCCCCTGAAATGA-CACAC-GAAGTGCCTAAA
1 ATACGACACATAAGTG--CCTGAAAT-ACCACACAAAAGTGCCTAAA
42179201 ATACGACACATAAAGTGCCTGAAATACCACACATAAAGTGCCTAAA
1 ATACGACACAT-AAGTGCCTGAAATACCACACA-AAAGTGCCTAAA
*
42179247 ATACGACACATAAAGTGTCTGA
1 ATACGACACAT-AAGTGCCTGA
42179269 TTGGAAAAGC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
43 1 0.02
44 13 0.21
45 10 0.16
46 37 0.61
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.18
Consensus pattern (44 bp):
ATACGACACATAAGTGCCTGAAATACCACACAAAAGTGCCTAAA
Found at i:42179621 original size:26 final size:25
Alignment explanation
Indices: 42179590--42179639 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
42179580 TAGTTCAATA
42179590 ATTCAATTCAAAC-CATTTCAATTTCT
1 ATTCAA-T-AAACACATTTCAATTTCT
*
42179616 ATTCAATAATCACATTTCAATTTC
1 ATTCAATAAACACATTTCAATTTC
42179640 ACTTTCTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.59
26 6 0.27
ACGTcount: A:0.36, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
ATTCAATAAACACATTTCAATTTCT
Found at i:42181950 original size:20 final size:20
Alignment explanation
Indices: 42181927--42181970 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
42181917 TTAATGTAAA
*
42181927 CAATGGATTATTTTATTGAC
1 CAATGGATTATTTTATTAAC
42181947 CAATGGATTATTTTATTAAC
1 CAATGGATTATTTTATTAAC
42181967 CAAT
1 CAAT
42181971 TTGTTCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (20 bp):
CAATGGATTATTTTATTAAC
Found at i:42185114 original size:21 final size:20
Alignment explanation
Indices: 42185076--42185114 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
42185066 AATTTTAATC
*
42185076 ATTTTATTTTTTAGATTTCA
1 ATTTTATTTTTTAAATTTCA
*
42185096 ATTTTTTTTTGTTAAATTT
1 ATTTTATTTT-TTAAATTT
42185115 GTTGTTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
ATTTTATTTTTTAAATTTCA
Found at i:42199903 original size:19 final size:19
Alignment explanation
Indices: 42199879--42199915 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
42199869 AATATCATAT
42199879 TAATTTTAATTGATTTGAC
1 TAATTTTAATTGATTTGAC
* *
42199898 TAATTTTATTTTATTTGA
1 TAATTTTAATTGATTTGA
42199916 TCAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (19 bp):
TAATTTTAATTGATTTGAC
Found at i:42202188 original size:6 final size:6
Alignment explanation
Indices: 42202177--42202263 Score: 62
Period size: 6 Copynumber: 15.7 Consensus size: 6
42202167 CTAGAATAGT
* * * **
42202177 AGTAGC AGTAGC AGTAGT AGTAAC A--A-C AGTAGT AGTAGC AACAG-
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC
* *
42202221 AGTAGC AGTAGC AGTAGC ---AGC AGCAGC AGTAGC AGTAGT AGTA
1 AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTAGC AGTA
42202264 TTAGTAGTAG
Statistics
Matches: 63, Mismatches: 11, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
3 5 0.08
4 1 0.02
5 4 0.06
6 53 0.84
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.17
Consensus pattern (6 bp):
AGTAGC
Found at i:42202198 original size:12 final size:12
Alignment explanation
Indices: 42202177--42202274 Score: 54
Period size: 12 Copynumber: 7.8 Consensus size: 12
42202167 CTAGAATAGT
*
42202177 AGTAGCAGTAGC
1 AGTAGTAGTAGC
*
42202189 AGTAGTAGTAACAAC
1 AGTAGTAGT---AGC
42202204 AGTAGTAGTAGC
1 AGTAGTAGTAGC
**
42202216 AACAG-AGTAGC
1 AGTAGTAGTAGC
*
42202227 AGTAGCAGTAGCAGC
1 AGT---AGTAGTAGC
* *
42202242 AGCAGCAGTAGC
1 AGTAGTAGTAGC
**
42202254 AGTAGTAGTATT
1 AGTAGTAGTAGC
42202266 AGTAGTAGT
1 AGTAGTAGT
42202275 TAGTAATAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
11 7 0.11
12 37 0.58
14 2 0.03
15 18 0.28
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (12 bp):
AGTAGTAGTAGC
Found at i:42202255 original size:15 final size:15
Alignment explanation
Indices: 42202174--42202252 Score: 79
Period size: 15 Copynumber: 5.3 Consensus size: 15
42202164 TAACTAGAAT
*
42202174 AGTAGTAGCAGTAGC
1 AGTAGTAGCAGCAGC
* * *
42202189 AGTAGTAGTAACAAC
1 AGTAGTAGCAGCAGC
* *
42202204 AGTAGTAGTAGCAAC
1 AGTAGTAGCAGCAGC
*
42202219 AG-AGTAGCAGTAGC
1 AGTAGTAGCAGCAGC
*
42202233 AGTAGCAGCAGCAGC
1 AGTAGTAGCAGCAGC
42202248 AGTAG
1 AGTAG
42202253 CAGTAGTAGT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
14 11 0.21
15 42 0.79
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.16
Consensus pattern (15 bp):
AGTAGTAGCAGCAGC
Found at i:42206758 original size:27 final size:27
Alignment explanation
Indices: 42206717--42206772 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
42206707 TTTGTTCCTC
42206717 AAGTTGTAAGCGGCCCTAAAACCAACA
1 AAGTTGTAAGCGGCCCTAAAACCAACA
*
42206744 AAGTTGTAAGTGGCCCTAAAACCAACA
1 AAGTTGTAAGCGGCCCTAAAACCAACA
42206771 AA
1 AA
42206773 CTCGTTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (27 bp):
AAGTTGTAAGCGGCCCTAAAACCAACA
Found at i:42213255 original size:17 final size:19
Alignment explanation
Indices: 42213223--42213257 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
42213213 TTATAAAATA
42213223 TGAACTTGATAAATGATAT
1 TGAACTTGATAAATGATAT
42213242 TGAA-TTGA-AAATGATA
1 TGAACTTGATAAATGATA
42213258 GTATGAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (19 bp):
TGAACTTGATAAATGATAT
Found at i:42220942 original size:2 final size:2
Alignment explanation
Indices: 42220937--42220974 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
42220927 CTCTCACTAT
* *
42220937 CA CA CA CA CA CA CA CA TA CA CA CA CA CA AA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
42220975 TGCGCGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:42222470 original size:111 final size:109
Alignment explanation
Indices: 42222244--42222472 Score: 422
Period size: 109 Copynumber: 2.1 Consensus size: 109
42222234 AGCCTTTAAC
*
42222244 TTTTGTTTCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
1 TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
42222309 TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
*
42222353 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCATCACA
1 TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCA--ACA
42222418 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
64 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
42222464 TTTTGTTGC
1 TTTTGTTGC
42222473 ATCCCATTGG
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
109 58 0.50
111 58 0.50
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.48
Consensus pattern (109 bp):
TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
Found at i:42222617 original size:2 final size:2
Alignment explanation
Indices: 42222610--42222636 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42222600 ATTAAAATAT
42222610 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
42222637 TTTTAGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:42226904 original size:26 final size:25
Alignment explanation
Indices: 42226844--42226904 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 25
42226834 CCAAGTTTTT
42226844 TTTTTAATTTTTTTATTAGTATATA
1 TTTTTAATTTTTTTATTAGTATATA
42226869 TTTTT-A---TTTTATT-GTATTATA
1 TTTTTAATTTTTTTATTAGTA-TATA
42226890 TTTTATAATTTTTTT
1 TTTT-TAATTTTTTT
42226905 TAAAAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 1 0.03
23 1 0.03
24 1 0.03
25 5 0.17
26 4 0.13
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTAATTTTTTTATTAGTATATA
Found at i:42227007 original size:2 final size:2
Alignment explanation
Indices: 42227000--42227028 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42226990 TTGCATTTTA
42227000 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42227029 CTTTTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42228186 original size:10 final size:9
Alignment explanation
Indices: 42228147--42228213 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 9
42228137 AAGTGGCAAA
42228147 AAAAATTAT
1 AAAAATTAT
42228156 AAAAA--AT
1 AAAAATTAT
*
42228163 AAAAATCAAT
1 AAAAAT-TAT
*
42228173 AAAAGTTAT
1 AAAAATTAT
42228182 AAAAATTATT
1 AAAAATTA-T
**
42228192 AAATTTTAAT
1 AAAAATT-AT
42228202 AAAAA-TAT
1 AAAAATTAT
42228210 AAAA
1 AAAA
42228214 TATATTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.15
8 6 0.13
9 15 0.33
10 17 0.37
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:42233504 original size:15 final size:16
Alignment explanation
Indices: 42233481--42233513 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
42233471 ATAGTTAATT
42233481 AATTAAAAAAGAT-TA
1 AATTAAAAAAGATGTA
*
42233496 AATTGAAAAAGATGTA
1 AATTAAAAAAGATGTA
42233512 AA
1 AA
42233514 AGTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (16 bp):
AATTAAAAAAGATGTA
Found at i:42243402 original size:107 final size:107
Alignment explanation
Indices: 42243212--42243404 Score: 233
Period size: 107 Copynumber: 1.8 Consensus size: 107
42243202 CACGATGGCT
* * * * * * ** *
42243212 GAGATGCTGCATATGTTGTGGATTCTCGACAGCTTGTGTGAGTAGCATCGTAAATTGGCGAATTG
1 GAGATCCTACATATGGTGTGAATTCTCGACAGCTTGTGTGAGCAGCATCATAAACCGGCGAAATG
** **
42243277 AATGGCTACTCTGTTATGATGGTATAGATCGTTCAGATAGTC
66 AATGAATACTCTACTATGATGGTATAGATCGTTCAGATAGTC
* **
42243319 GAGATCCTACATATGGTGTGAATTCTCGACAGCTTGTGTGAGCAGCATCATGAACCGGTTAAATG
1 GAGATCCTACATATGGTGTGAATTCTCGACAGCTTGTGTGAGCAGCATCATAAACCGGCGAAATG
*
42243384 ACTGAATACTCTACTATGATG
66 AATGAATACTCTACTATGATG
42243405 AAACAAGTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
107 69 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (107 bp):
GAGATCCTACATATGGTGTGAATTCTCGACAGCTTGTGTGAGCAGCATCATAAACCGGCGAAATG
AATGAATACTCTACTATGATGGTATAGATCGTTCAGATAGTC
Found at i:42245607 original size:25 final size:25
Alignment explanation
Indices: 42245579--42245630 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
42245569 CTCACTTGAA
42245579 CTTCTCGA-TATATGGCTATTCAGAG
1 CTTCTCGATTA-ATGGCTATTCAGAG
* *
42245604 CTTCTCGATTAATGGCTCTTCTGAG
1 CTTCTCGATTAATGGCTATTCAGAG
42245629 CT
1 CT
42245631 AATCGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
CTTCTCGATTAATGGCTATTCAGAG
Found at i:42247681 original size:40 final size:40
Alignment explanation
Indices: 42247637--42247727 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 40
42247627 GGACTAAGAT
* * * *
42247637 CCGAAGGCCTTTGTGCGAGATACCAATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACAAAATCCGGGTTAAGTC
* **
42247677 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACAAAATCCGGGTTAAGTC
42247717 CCGAAGGCATT
1 CCGAAGGCATT
42247728 GAATGAGTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACAAAATCCGGGTTAAGTC
Found at i:42247748 original size:39 final size:39
Alignment explanation
Indices: 42247664--42247774 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
42247654 AGATACCAAT
** *
42247664 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
42247704 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
42247744 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42247775 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:42255081 original size:39 final size:39
Alignment explanation
Indices: 42254997--42255107 Score: 116
Period size: 40 Copynumber: 2.8 Consensus size: 39
42254987 AGATACTAAT
** *
42254997 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* **
42255037 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATGA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
42255077 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42255108 GAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 25 0.42
40 35 0.58
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:42257407 original size:25 final size:25
Alignment explanation
Indices: 42257370--42257424 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
42257360 ACAGGCTGGG
* *
42257370 ATACGATCTTGTGTCCCTACTTTGA
1 ATACCATCGTGTGTCCCTACTTTGA
42257395 ATACCATCGTGTGTCCCTACTTTGA
1 ATACCATCGTGTGTCCCTACTTTGA
42257420 ATACC
1 ATACC
42257425 CACACGGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (25 bp):
ATACCATCGTGTGTCCCTACTTTGA
Found at i:42260003 original size:17 final size:17
Alignment explanation
Indices: 42259983--42260019 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
42259973 TTAGAATTGG
42259983 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
42260000 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
42260017 ATT
1 ATT
42260020 AATTAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTGAGAAAATAATTTA
Found at i:42262642 original size:24 final size:24
Alignment explanation
Indices: 42262615--42262666 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
42262605 TTAGTAAGTC
*
42262615 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
42262639 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
42262663 AAAT
1 AAAT
42262667 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:42264925 original size:111 final size:111
Alignment explanation
Indices: 42264688--42265002 Score: 501
Period size: 111 Copynumber: 2.8 Consensus size: 111
42264678 ATATTTGGCA
* *
42264688 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAT
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAAC
42264753 GCAAAACATTGCCTTATTTT--AAAATTTTTAAAAGGATATTAAGCC
65 GCAAAACATTGCCTTATTTTAAAAAATTTTTAAAAGGATATTAAGCC
* * *
42264798 ATTTGATTGAATGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
42264863 CAAAACATTGCCTTATTTTAAAAAATTTTTAAAAGGTTATTAAGCC
66 CAAAACATTGCCTTATTTTAAAAAATTTTTAAAAGGATATTAAGCC
*
42264909 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAGG
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * *
42264974 CTAAATATTGCCTCA-TTTAGAAAAATTTT
66 CAAAACATTGCCTTATTTTA-AAAAATTTT
42265003 CCTTTCTTGA
Statistics
Matches: 189, Mismatches: 13, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
109 25 0.13
110 58 0.31
111 106 0.56
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (111 bp):
ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAAAATTTTTAAAAGGATATTAAGCC
Found at i:42265134 original size:22 final size:22
Alignment explanation
Indices: 42265109--42265173 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
42265099 CAATCATAGC
42265109 AAATAAATAAATAAAC-TAAAGT
1 AAATAAATAAATAAACATAAA-T
*
42265131 AAATAAA-AAAGAACACATAAAT
1 AAATAAATAAATAA-ACATAAAT
* *
42265153 AAATACATAAATGAACATAAA
1 AAATAAATAAATAAACATAAA
42265174 AAACAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (22 bp):
AAATAAATAAATAAACATAAAT
Found at i:42265492 original size:3 final size:3
Alignment explanation
Indices: 42265484--42265554 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
42265474 TAGATGAAGA
* * *
42265484 AAT AAT AAT AAT AAT AAC AAC AAT AAT AAT AAA AGAT AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * *
42265529 ATT AAA AAT AAT GAAG AA- AAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AAT AAT AA
42265555 AAATGGTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
2 4 0.07
3 47 0.85
4 4 0.07
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:42265556 original size:21 final size:21
Alignment explanation
Indices: 42265466--42265558 Score: 68
Period size: 21 Copynumber: 4.4 Consensus size: 21
42265456 AAGATTTAAA
*
42265466 AATATAAATAGATGAAG-AAAT
1 AATAAAAATAGAT-AAGAAAAT
* *
42265487 AATAATAATA-ATAACAACAAT
1 AATAAAAATAGATAAGAA-AAT
* *
42265508 AATAATAAA-AGATAATAATAT
1 AATAA-AAATAGATAAGAAAAT
*
42265529 ATTAAAAATA-ATGAAGAAAAT
1 AATAAAAATAGAT-AAGAAAAT
42265550 AATAAAAAT
1 AATAAAAAT
42265559 GGTAAAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.04
20 8 0.14
21 38 0.68
22 8 0.14
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (21 bp):
AATAAAAATAGATAAGAAAAT
Found at i:42267073 original size:43 final size:44
Alignment explanation
Indices: 42267019--42267999 Score: 140
Period size: 44 Copynumber: 22.3 Consensus size: 44
42267009 AGATTCACCA
*
42267019 TCTTTGATCTGCTCCACT-ACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * *
42267062 TCTTCGATCTGCTTCGCTGTCAA-TGAAGGAAGGCAAGATCTAT-TG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCT-TGTG
* * * * *
42267107 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* ** * * * *
42267150 TCTTCGATCTGCTTCACTGTCAGTA-C-AAGAAGGCAA-GATCTGCTA
1 TCTTCGATCTGCTCCAC--TCACAACCGAGGGAGGCAAGGCT-TG-TG
** * * * *
42267195 TCTTC-AGTCTGCTCCACTGTCAA-TGCAGGAAGGGAA-GATCTGTTG
1 TCTTCGA-TCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * ** * *
42267240 TCTTCAACCAGCTCTGCT-ACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * *** * * *
42267283 TCTTCGATCTGCTTCGCTGTTAA-TGCAGGAAGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * *
42267328 TCTTC-AACTAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTA
1 TCTTCGATCT-GCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * *
42267371 TCTTCGACCTGCTTCGCTGTCAA-TGCA-GGACGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGA-GGCAAGGCT-TG-TG
* * * *
42267416 TCTTC-AACTAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTA
1 TCTTCGATCT-GCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * * * *
42267459 TCTTCGACCTGCTTCGCTGTCAA-TGCAGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCTTGTG
* * * * *
42267504 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * * * *
42267547 TCTTCGACCTGCTTCGCTGTCAATAC-AGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAA-CCGAGGGAGGCAAG-GCTTGTG
* * * * *
42267592 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * *
42267635 TCTTCGATCTGCTTCGCTGTCAA-TGCAGGAAGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * * *
42267680 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* ** * * ** * * * **
42267723 TCTTCGACCCACTTCGCTGTCAA-TGTAGGAAGGTAA-AATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * * *
42267768 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * * *
42267811 TCTTCGACCTGCTTCACTGTCAATAC-AGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAA-CCGAGGGAGGCAAG-GCTTGTG
* * * * * *
42267856 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGAAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* ** ** * * * * *
42267899 TCTTCGATCTGCTTCGTTGTCAA-TGCAGGAAGGCAAGATCTTTTA
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCTTGTG
* * * * *
42267944 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
42267987 TCTTCGATCTGCT
1 TCTTCGATCTGCT
42268000 TCGCTGTCAA
Statistics
Matches: 634, Mismatches: 241, Indels: 126
0.63 0.24 0.13
Matches are distributed among these distances:
42 1 0.00
43 174 0.27
44 265 0.42
45 188 0.30
46 6 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
Found at i:42267189 original size:88 final size:88
Alignment explanation
Indices: 42267029--42267190 Score: 247
Period size: 88 Copynumber: 1.8 Consensus size: 88
42267019 TCTTTGATCT
* * *
42267029 GCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAGGAAG
1 GCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAAGAAG
42267094 GCAAGATCTATTGTCTTCAACCA
66 GCAAGATCTATTGTCTTCAACCA
* *
42267117 GCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAGT-ACAAGA
1 GCTCCACT-ACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGA-AAGA
42267180 AGGCAAGATCT
64 AGGCAAGATCT
42267191 GCTATCTTCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
87 2 0.03
88 65 0.97
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (88 bp):
GCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAAGAAG
GCAAGATCTATTGTCTTCAACCA
Found at i:42267206 original size:45 final size:45
Alignment explanation
Indices: 42267157--42267245 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
42267147 GTGTCTTCGA
* *
42267157 TCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAG
1 TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTGCTATCTTCAG
* * * * *
42267202 TCTGCTCCACTGTCAATGCAGGAAGGGAAGATCTGTTGTCTTCA
1 TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTGCTATCTTCA
42267246 ACCAGCTCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTGCTATCTTCAG
Found at i:42267209 original size:88 final size:88
Alignment explanation
Indices: 42267025--42267212 Score: 245
Period size: 88 Copynumber: 2.1 Consensus size: 88
42267015 ACCATCTTTG
* * *
42267025 ATCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCAATGAAG
1 ATCTGCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAA
* *
42267090 GAAGGCAAGATCTATTGTCTTCA
66 GAAGGCAAGATCTACTATCTTCA
* * * *
42267113 ACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAGT-AC
1 ATCTGCTCCACT-ACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGA-
*
42267176 AAGAAGGCAAGATCTGCTATCTTCA
64 AAGAAGGCAAGATCTACTATCTTCA
*
42267201 GTCTGCTCCACT
1 ATCTGCTCCACT
42267213 GTCAATGCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
87 2 0.02
88 81 0.96
89 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (88 bp):
ATCTGCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAA
GAAGGCAAGATCTACTATCTTCA
Found at i:42267287 original size:88 final size:88
Alignment explanation
Indices: 42267211--42268037 Score: 1370
Period size: 88 Copynumber: 9.4 Consensus size: 88
42267201 GTCTGCTCCA
*
42267211 CTGTCAATGCAGGAAGGGAAGATCTGTTGTCTTCAACCAGCT-C-TGCTACAACCGAGAGAGGCA
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCAT-C-ACAACCGAGAGAGGCA
*
42267274 AGGTTTGTGTCTTCGATCTGCTTCG
64 AGGTTTGTGTCTTCGACCTGCTTCG
* *
42267299 CTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267364 GTTTGTATCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* *
42267387 CTGTCAATGCAGGACGGCAAGATCTGTTGTCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267452 GTTTGTATCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
*
42267475 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
42267540 GTTTGTGTCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* *
42267563 CTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267628 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
42267651 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
**
42267716 GTTTGTGTCTTCGACCCACTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* * *
42267739 CTGTCAATGTAGGAAGGTAAAATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267804 GTTTGTGTCTTCGACCTGCTTCA
66 GTTTGTGTCTTCGACCTGCTTCG
* * *
42267827 CTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGAAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267892 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* * *
42267915 TTGTCAATGCAGGAAGGCAAGATCTTTTATCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
42267980 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* *
42268003 CTGTCAATGCAAGAAGGCAAGATCTTTTGTCTTCA
1 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
42268038 CTGATCTGTT
Statistics
Matches: 698, Mismatches: 39, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
88 695 1.00
89 2 0.00
90 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
GTTTGTGTCTTCGACCTGCTTCG
Found at i:42267315 original size:133 final size:133
Alignment explanation
Indices: 42267069--42267587 Score: 431
Period size: 133 Copynumber: 3.9 Consensus size: 133
42267059 GTGTCTTCGA
* *
42267069 TCTGCTTCGCTGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAG
1 TCTGCTCCACTGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAG
*
42267134 AGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTGCTATCTT
66 AGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTGCTATCTT
42267199 CAG
131 CAG
* * *
42267202 TCTGCTCCACTGTCAATGCAGGAAGGGAAGATCTGTTGTCTTCAACCAGCT-C-TGCTACAACCG
1 TCTGCTCCACTGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCAT-C-ACAACCG
* * * * * *
42267265 AGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTC
64 AGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTGCTATC
42267330 TTCA-
129 TTCAG
* ** * * * * * **
42267334 ACTAGCTCCA-TCACAACCG-A-GAGAGGCAAGGT-T-TGTATCTTCGACCTGCTTCGC-TGTCA
1 TCT-GCTCCACTGTCAA-TGAAGGA-AGGCAAGATCTAT-TGTCTTCAACCAGC-TC-CATCACA
* * * * * ** * * *
42267393 A-TGCAG-GACGGCAAGATCTGTTGTCTTC-AACTAGCTCCA-TCACAA-CCGAGAGAGGCAAGG
60 ACCG-AGAGA-GGCAAGGTTTG-TGTCTTCGATCT-GCTTCACTGTCAATACAAGA-AGGCAAGA
*
42267453 TTTG-TATCTTC-G
120 TCTGCTATCTTCAG
* * * * *
42267465 ACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGA
1 -TCTGCTCCACTGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGA
* * *
42267530 GAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCT
65 GAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCT
42267588 TTTGTCTTCA
Statistics
Matches: 296, Mismatches: 63, Indels: 55
0.71 0.15 0.13
Matches are distributed among these distances:
130 1 0.00
131 44 0.15
132 95 0.32
133 153 0.52
134 3 0.01
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (133 bp):
TCTGCTCCACTGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAG
AGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTGCTATCTT
CAG
Found at i:42269135 original size:21 final size:21
Alignment explanation
Indices: 42269109--42269155 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
42269099 GGTATAGCAA
42269109 GATCACCACATGCCCCGA-TCT
1 GATCACCACATGCCCC-ATTCT
**
42269130 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCATTCT
42269151 GATCA
1 GATCA
42269156 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCATTCT
Found at i:42269261 original size:9 final size:9
Alignment explanation
Indices: 42269247--42269279 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
42269237 CCATTTTTAC
42269247 TTTTTCATT
1 TTTTTCATT
42269256 TTTTTCA--
1 TTTTTCATT
42269263 TTTTTCATT
1 TTTTTCATT
42269272 TTTTTCAT
1 TTTTTCAT
42269280 CATTTTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.32
9 15 0.68
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCATT
Found at i:42269266 original size:16 final size:16
Alignment explanation
Indices: 42269247--42269279 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42269237 CCATTTTTAC
42269247 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
42269263 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
42269279 T
1 T
42269280 CATTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:42270099 original size:7 final size:6
Alignment explanation
Indices: 42270089--42270133 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
42270079 TTGACCTCTC
*
42270089 CTTTTT CCTTTT CTTTTT -TTTTT CTTTTTT CTTCTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT CTT-TTT CTTTTT CT
42270134 CCTATTTTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.15
6 17 0.50
7 12 0.35
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:42270892 original size:17 final size:18
Alignment explanation
Indices: 42270860--42270896 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42270850 TCTGCACAGT
42270860 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
42270878 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
42270895 AT
1 AT
42270897 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:42280444 original size:28 final size:28
Alignment explanation
Indices: 42280413--42280478 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
42280403 AAATAAACAA
**
42280413 TAAACCCTAATTTATTTTTTAAAAACCT
1 TAAACCCTAATTTATTTTCCAAAAACCT
*
42280441 TAAACCCTAATTTATTTTCCAAAGACCT
1 TAAACCCTAATTTATTTTCCAAAAACCT
42280469 TAAACCCTAA
1 TAAACCCTAA
42280479 CATACAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (28 bp):
TAAACCCTAATTTATTTTCCAAAAACCT
Found at i:42283549 original size:20 final size:20
Alignment explanation
Indices: 42283524--42283597 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
42283514 AATATTTTCC
*
42283524 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
42283544 AGTAAAACATTTT-CTAG-AA
1 AGTAAAACATTTTAC-AGAAA
42283563 A-T----CATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
42283578 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
42283598 TCATTTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
14 8 0.18
15 4 0.09
16 1 0.02
18 1 0.02
19 4 0.09
20 26 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:42283566 original size:34 final size:34
Alignment explanation
Indices: 42283512--42283606 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
42283502 CAAACACCAG
* *
42283512 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAG-AAATCATTTTACAGAAAAGT
42283547 AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
42283581 AAAACATTTT-TCAGAAATCATTTTAC
1 AAAACATTTTCT-AGAAATCATTTTAC
42283607 TGGCAATCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 1 0.02
34 44 0.77
35 12 0.21
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (34 bp):
AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
Found at i:42284456 original size:23 final size:23
Alignment explanation
Indices: 42284430--42284509 Score: 79
Period size: 24 Copynumber: 3.4 Consensus size: 23
42284420 TACAAAATTA
42284430 AGTGGCTTGTCCACAACGATATG
1 AGTGGCTTGTCCACAACGATATG
* * * **
42284453 AGTGGCTTGTCCATAATGCTAACA
1 AGTGGCTTGTCCACAACGAT-ATG
* *
42284477 AGTGGCTTGACCACAACAATATTG
1 AGTGGCTTGTCCACAACGATA-TG
42284501 AGTGGCTTG
1 AGTGGCTTG
42284510 GACACAATGT
Statistics
Matches: 43, Mismatches: 12, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
23 18 0.42
24 25 0.58
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (23 bp):
AGTGGCTTGTCCACAACGATATG
Found at i:42285447 original size:254 final size:254
Alignment explanation
Indices: 42284989--42285491 Score: 817
Period size: 254 Copynumber: 2.0 Consensus size: 254
42284979 TCTCGATATC
* * * * *
42284989 CAAAATTATTGTTGTGTCATCGAACAAGTTGATCTGTGGAAGCTGAATAGTAGCTTTGATACCAA
1 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
*
42285054 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACGAACACAAATAT
66 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
42285119 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
131 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
*
42285184 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTATTAAACATAAA
196 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAACATAAA
*
42285243 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATTGTAGCTTTGATACCAA
1 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
* *** ** *
42285308 TTTTTTGGGGATTGACCTGTATATGCAATGAAGTAGTAAAAGTGGAGAAGAACAAACACAAATAT
66 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
* * * *
42285373 TTTACGTAGAAAACCCTGAAAGAGGGAAAAACCACAGGTAGAGGAGGTATCGACTTTTCACTAAA
131 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
* *
42285438 TGTGTAAACAAATAAGAGTACAATATGGAGAAAATAAATCTAAATGTACTAAAC
196 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAAC
42285492 GTACATTACC
Statistics
Matches: 228, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
254 228 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (254 bp):
CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAACATAAA
Found at i:42285839 original size:23 final size:23
Alignment explanation
Indices: 42285801--42285845 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
42285791 GTTCCATTCG
*
42285801 TGTAATATCCCAAAAATTACTAT
1 TGTAATACCCCAAAAATTACTAT
*
42285824 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCAAAAATTACTA
42285846 CAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAT
Found at i:42285851 original size:23 final size:23
Alignment explanation
Indices: 42285802--42285851 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
42285792 TTCCATTCGT
* **
42285802 GTAATATCCCAAAAATTACTATT
1 GTAATACCCCAAAAATTACTACA
*
42285825 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCAAAAATTACTACA
42285848 GTAA
1 GTAA
42285852 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (23 bp):
GTAATACCCCAAAAATTACTACA
Found at i:42291305 original size:18 final size:18
Alignment explanation
Indices: 42291279--42291317 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
42291269 TATTTAATAT
42291279 TTTTATAATATTTTACAAA
1 TTTTATAATATTTTA-AAA
42291298 TTTT-TAATATTTTAAAA
1 TTTTATAATATTTTAAAA
42291315 TTT
1 TTT
42291318 AAAAAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATAATATTTTAAAA
Found at i:42302687 original size:39 final size:40
Alignment explanation
Indices: 42302629--42302752 Score: 99
Period size: 40 Copynumber: 3.1 Consensus size: 40
42302619 AATCAAGCAT
* * * *
42302629 CTTCGGGG-TTTAGCCGGATATAACCACTCGCA-CAAGGC
1 CTTCGGGGCTTAACCCGGATATAACCACTAGCATAAAGGC
* *** *
42302667 CTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGGCTTAACCCGGATATAACCACTAGCATAAAGGC
* ** * * *
42302707 CTTCGGGGCTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGGCTTAACCCGGATATAACCACTAGCATAAAGGC
42302747 CTTCGG
1 CTTCGG
42302753 ATCTTAGTCC
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
38 7 0.10
39 18 0.26
40 45 0.64
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.24
Consensus pattern (40 bp):
CTTCGGGGCTTAACCCGGATATAACCACTAGCATAAAGGC
Found at i:42302800 original size:41 final size:41
Alignment explanation
Indices: 42302665--42302850 Score: 234
Period size: 41 Copynumber: 4.6 Consensus size: 41
42302655 CTCGCACAAG
* * * * * *
42302665 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
42302705 GCCTTCGGGGCTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
42302745 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAACACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
42302786 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
42302827 GCCTTCAGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42302851 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 2 0.02
40 59 0.46
41 65 0.50
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:42310646 original size:39 final size:40
Alignment explanation
Indices: 42310563--42310705 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
42310553 CTCGCACAAG
* * * * *
42310563 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
42310603 GCCTTCGGGACTTAGCCCGGAT-TAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
42310642 GCCTTC-GGACTTAGTCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
42310682 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42310706 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
38 14 0.15
39 27 0.29
40 35 0.38
41 16 0.17
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:42312329 original size:96 final size:98
Alignment explanation
Indices: 42312159--42312347 Score: 355
Period size: 96 Copynumber: 1.9 Consensus size: 98
42312149 GTCACAGTCC
42312159 ATGTAACACTTACCAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGTACTTATTTTCTCG
1 ATGTAACACTTACCAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGTACTTATTTTCTCG
42312224 ATGCCATAGTCCAACTATGAGCTTACACCATGT
66 ATGCCATAGTCCAACTATGAGCTTACACCATGT
42312257 ATGT-ACACTTACCAACTTTGTC-AATTAGTGAACGTCTTACGGAATTGAGTACTTATTTTCTCG
1 ATGTAACACTTACCAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGTACTTATTTTCTCG
*
42312320 ATGCCATAGTCCAACTATGATCTTACAC
66 ATGCCATAGTCCAACTATGAGCTTACAC
42312348 GTAATCACAT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 68 0.76
97 18 0.20
98 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
ATGTAACACTTACCAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGTACTTATTTTCTCG
ATGCCATAGTCCAACTATGAGCTTACACCATGT
Found at i:42315434 original size:19 final size:20
Alignment explanation
Indices: 42315405--42315445 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
42315395 ATTAGGCCTT
**
42315405 ATCACCATATAGGCTTTCAC
1 ATCACCATATACACTTTCAC
42315425 ATCA-CATATACACTTTCAC
1 ATCACCATATACACTTTCAC
42315444 AT
1 AT
42315446 TCATCACATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (20 bp):
ATCACCATATACACTTTCAC
Found at i:42315486 original size:47 final size:47
Alignment explanation
Indices: 42315430--42315771 Score: 519
Period size: 47 Copynumber: 7.4 Consensus size: 47
42315420 TTCACATCAC
42315430 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315477 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315524 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315571 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C------ACAT
*
42315626 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315673 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315718 ATATACACTTTCACA-T-A-CACAT----C---AGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
42315755 ATATACACTTTCACATT
1 ATATACACTTTCACATT
42315772 TATTCTTGTA
Statistics
Matches: 282, Mismatches: 2, Indels: 31
0.90 0.01 0.10
Matches are distributed among these distances:
35 12 0.04
37 15 0.05
38 2 0.01
42 5 0.02
43 1 0.00
44 1 0.00
45 15 0.05
47 184 0.65
49 1 0.00
53 1 0.00
55 45 0.16
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:42315538 original size:94 final size:94
Alignment explanation
Indices: 42315430--42315771 Score: 519
Period size: 102 Copynumber: 3.7 Consensus size: 94
42315420 TTCACATCAC
42315430 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
42315495 ATCACATCGGCCATTAGGCCTTATCACAT
66 ATCACATCGGCCATTAGGCCTTATCACAT
42315524 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
42315589 ATCACATCGGCCATTAGGCCTTATCACATATATACAT
66 ATCACATCGGCCATTAGGCCTTAT--C------ACAT
*
42315626 ATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
42315691 ATCACATCGGCCATTAGGCCTTATCAC--
66 ATCACATCGGCCATTAGGCCTTATCACAT
42315718 ATATACACTTTCACA-T-A-CACAT----C---AGGCCTTATCACATATATACACTTTCACATT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
42315772 TATTCTTGTA
Statistics
Matches: 238, Mismatches: 2, Indels: 28
0.89 0.01 0.10
Matches are distributed among these distances:
82 31 0.13
89 5 0.02
90 1 0.00
91 1 0.00
92 15 0.06
94 91 0.38
96 1 0.00
100 1 0.00
102 92 0.39
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (94 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
ATCACATCGGCCATTAGGCCTTATCACAT
Found at i:42315741 original size:149 final size:139
Alignment explanation
Indices: 42315425--42315771 Score: 525
Period size: 149 Copynumber: 2.5 Consensus size: 139
42315415 AGGCTTTCAC
42315425 ATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 ATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
42315490 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
66 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
42315555 TTAGGCCTT
131 TTAGGCCTT
42315564 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATATA
1 ATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--C------ACATATA
*
42315629 TACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATC
56 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
42315694 ACATCGGCCATTAGGCCTT
121 ACATCGGCCATTAGGCCTT
42315713 ATCACATATACACTTTCACA-T-A-CACAT----C---AGGCCTTATCACATATATACACTTTCA
1 ATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
42315768 CATT
66 CATT
42315772 TATTCTTGTA
Statistics
Matches: 197, Mismatches: 1, Indels: 30
0.86 0.00 0.13
Matches are distributed among these distances:
129 21 0.11
135 1 0.01
137 9 0.05
139 5 0.03
140 1 0.01
141 42 0.21
143 1 0.01
144 5 0.03
145 1 0.01
146 1 0.01
147 15 0.08
149 95 0.48
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (139 bp):
ATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTT
Found at i:42318163 original size:23 final size:23
Alignment explanation
Indices: 42318137--42318281 Score: 204
Period size: 23 Copynumber: 6.3 Consensus size: 23
42318127 ATAAGTGCCA
42318137 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
42318160 CACTGATACGTAACC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* *
42318183 CTCTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
42318206 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
42318229 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
42318252 CACTGATATGTAGCCGTAA-CTAC
1 CACTGATATGTAGCCG-AAGCTAC
42318275 CACTGAT
1 CACTGAT
42318282 CAATAACACT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
22 1 0.01
23 103 0.96
24 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:42318880 original size:14 final size:14
Alignment explanation
Indices: 42318861--42318889 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
42318851 TATGGCAACA
42318861 TCAAATTCCCACTC
1 TCAAATTCCCACTC
42318875 TCAAATTCCCACTC
1 TCAAATTCCCACTC
42318889 T
1 T
42318890 AACACTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.41, G:0.00, T:0.31
Consensus pattern (14 bp):
TCAAATTCCCACTC
Found at i:42328693 original size:42 final size:42
Alignment explanation
Indices: 42328634--42328715 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
42328624 TAACCTAATT
42328634 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
*
42328676 GGGAAAATAATTTCCTTATTCTAATAAACTACTAAAAGAT
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGAT
42328716 AAAATAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
Found at i:42329846 original size:24 final size:24
Alignment explanation
Indices: 42329814--42329864 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
42329804 ACCTCTTTGT
42329814 GAGTGAACCGTTCAAACCAAGCTC
1 GAGTGAACCGTTCAAACCAAGCTC
42329838 GAGTGAACCGTTCAAACCAAGCTC
1 GAGTGAACCGTTCAAACCAAGCTC
42329862 GAG
1 GAG
42329865 GAGACTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (24 bp):
GAGTGAACCGTTCAAACCAAGCTC
Found at i:42331906 original size:19 final size:19
Alignment explanation
Indices: 42331882--42331927 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
42331872 TGATTTATTC
42331882 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
42331901 TAAGATTTATCTACCTAAA
1 TAAGATTTATCTACCTAAA
42331920 TAA-ATTTA
1 TAAGATTTA
42331928 AACTATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:42333474 original size:63 final size:63
Alignment explanation
Indices: 42333355--42333475 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
42333345 GCACTTCTTC
* * ** *
42333355 CATGTCCTGCTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTCCTGTCTCTATAATGTTGT
1 CATGTCCTACTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
*
42333418 CATGTCCTACTTGTTGAATGCATTTGAAAGGGAGTG-AC-TGGTTAGTGAAATATATAAT
1 CATGTCCTACTTGTTGAATGCATTTGAAAGGGAGTGCACTTGG-TACTG-AATATATAAT
42333476 TTCAACCTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 3 0.06
62 5 0.10
63 42 0.84
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (63 bp):
CATGTCCTACTTGTTGAATGCATTTGAAAGGGAGTGCACTTGGTACTGAATATATAATGTTGT
Found at i:42339053 original size:120 final size:120
Alignment explanation
Indices: 42338856--42339118 Score: 481
Period size: 120 Copynumber: 2.2 Consensus size: 120
42338846 TTTTCAAGTT
*
42338856 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* * *
42338921 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATAGTTTAATTAAA
42338976 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
42339041 TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATAGTTTAATTAAA
42339096 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
42339119 TAAATATGAT
Statistics
Matches: 138, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 138 1.00
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTAATAAAATAAATAGTTTAATTAAA
Found at i:42339103 original size:16 final size:16
Alignment explanation
Indices: 42339067--42339108 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
42339057 ATTATTAAGA
42339067 ATTTTAATAAAATAAAT
1 ATTTTAATAAAAT-AAT
42339084 ATTTTAATTAAAAT-AT
1 ATTTTAA-TAAAATAAT
42339100 A-TTTAATAA
1 ATTTTAATAA
42339109 TAATTATGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 3 0.12
17 7 0.29
18 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAATAAAATAAT
Found at i:42339358 original size:16 final size:16
Alignment explanation
Indices: 42339337--42339372 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
42339327 GATTTGCTAT
42339337 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42339353 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
42339369 TACA
1 TACA
42339373 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:42342137 original size:10 final size:10
Alignment explanation
Indices: 42342105--42342137 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
42342095 AAATAAATTT
42342105 AAAA-TTCAA
1 AAAAGTTCAA
*
42342114 AAAAGTTCAT
1 AAAAGTTCAA
42342124 AAAAGTTCAA
1 AAAAGTTCAA
42342134 AAAA
1 AAAA
42342138 TAGAAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.19
10 17 0.81
ACGTcount: A:0.64, C:0.09, G:0.06, T:0.21
Consensus pattern (10 bp):
AAAAGTTCAA
Found at i:42359776 original size:51 final size:50
Alignment explanation
Indices: 42359691--42359849 Score: 152
Period size: 51 Copynumber: 3.3 Consensus size: 50
42359681 GAAGATAGCG
* * *
42359691 AATCTTATTTCCCTGAAGTTGCAATGGAATAGATTAAAGCTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAG-TACAAGTTACA
** * * *
42359742 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAG---ATG-T--G
1 AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAGTACAAGTTACA
* *
42359786 AATCTTATTTCCCTGAAGTTGCAG-AGGAATAGATTAAAGTTACGAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAATAGATTAAAG-TACAAGTTACA
42359837 AATCTTATCTCCC
1 AATCTTATCTCCC
42359850 GAAAATTGTA
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 33 0.39
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
51 45 0.54
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (50 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAGTACAAGTTACA
Found at i:42359821 original size:95 final size:96
Alignment explanation
Indices: 42359652--42359901 Score: 330
Period size: 95 Copynumber: 2.6 Consensus size: 96
42359642 CGCAAACCTC
* *
42359652 ATCTTCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
42359717 GAATAGATTAAAGCTACAAGTTACAAATCTT
66 GAATAGATTAAAGCTACAAGTTACAAATCTT
* *
42359748 ATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT-GTGAATCTTATTTCCCTGAAGTTGCAGA-
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA-AT
* *
42359811 GGAATAGATTAAAGTTACGAGTTACAAATCTT
65 GGAATAGATTAAAGCTACAAGTTACAAATCTT
* * * * * *
42359843 ATCTCCC-GAAAATTGTAATGGAGCAGATTGAAGCTA-CTAATCTTATCTT-CTTGAAGTTG
1 ATCTCCCTG-AAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTCCCTGAAGTTG
42359902 TAGTGGAACA
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
94 1 0.01
95 100 0.74
96 35 0.26
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (96 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
GAATAGATTAAAGCTACAAGTTACAAATCTT
Found at i:42368752 original size:26 final size:26
Alignment explanation
Indices: 42368716--42368803 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
42368706 TTTTGCCCCA
*
42368716 TGTTTAATGTCCCGACAGACTACCCG
1 TGTTTACTGTCCCGACAGACTACCCG
* ** *
42368742 TGTTTACTGTCCTGGTAGACTATCCCA
1 TGTTTACTGTCCCGACAGACTA-CCCG
* * *
42368769 TGTTCACTG-CCCCAGCAGGCTACCCAG
1 TGTTTACTGTCCCGA-CAGACTACCC-G
42368796 TGTTTACT
1 TGTTTACT
42368804 ATCCTAACAG
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 23 0.50
27 23 0.50
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTTTACTGTCCCGACAGACTACCCG
Found at i:42373319 original size:21 final size:21
Alignment explanation
Indices: 42373295--42373337 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
42373285 AATAAAGTAG
**
42373295 ATTATATATTATTTTTTTAGT
1 ATTATATATTATGATTTTAGT
42373316 ATTATATATTATGATTTTAGT
1 ATTATATATTATGATTTTAGT
42373337 A
1 A
42373338 AATTCATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATGATTTTAGT
Found at i:42373346 original size:24 final size:22
Alignment explanation
Indices: 42373290--42373347 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
42373280 AAAATAATAA
**
42373290 AGTAGATTATATATTATTTTTTT
1 AGTA-ATTATATATTATGATTTT
42373313 AGT-ATTATATATTATGATTTT
1 AGTAATTATATATTATGATTTT
42373334 AGTAAATTCATATA
1 AGT-AATT-ATATA
42373348 ATAATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 19 0.63
23 6 0.20
24 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (22 bp):
AGTAATTATATATTATGATTTT
Found at i:42373477 original size:58 final size:57
Alignment explanation
Indices: 42373345--42373479 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 57
42373335 GTAAATTCAT
* **
42373345 ATAATAATTATATTAAGAATTTTATTAAATTATATACTTTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATACTTTTTTATTAAATTATATTTA
* * * *
42373403 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATACT-TTTTTATTAAATTATATTTA
42373461 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
42373480 TTAATAACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 16 0.24
58 50 0.75
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATACTTTTTTATTAAATTATATTTA
Found at i:42373674 original size:16 final size:16
Alignment explanation
Indices: 42373655--42373716 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
42373645 ATTATAGCTT
**
42373655 TATTCCATTACAACTC
1 TATTCCATTACAGTTC
* *
42373671 TATTCAATTACAGTTT
1 TATTCCATTACAGTTC
42373687 TATTCCATTACAGTTC
1 TATTCCATTACAGTTC
42373703 TATTCCATTACAGT
1 TATTCCATTACAGT
42373717 GAACCAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.05, T:0.44
Consensus pattern (16 bp):
TATTCCATTACAGTTC
Found at i:42373694 original size:32 final size:32
Alignment explanation
Indices: 42373653--42373716 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
42373643 TGATTATAGC
42373653 TTTATTCCATTACAACTCTATTCAATTACAGT
1 TTTATTCCATTACAACTCTATTCAATTACAGT
** *
42373685 TTTATTCCATTACAGTTCTATTCCATTACAGT
1 TTTATTCCATTACAACTCTATTCAATTACAGT
42373717 GAACCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (32 bp):
TTTATTCCATTACAACTCTATTCAATTACAGT
Done.