Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
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: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 16 of 22
Found at i:8021132 original size:27 final size:26
Alignment explanation
Indices: 8021077--8021140 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 26
8021067 AATATTTTAT
*
8021077 AATATTAATGA-TTAAATTATAAACAA
1 AATATTAAT-ATTTAAATTATAAAAAA
8021103 AATATTAATATTTAAAATT-TAAAAATA
1 AATATTAATATTT-AAATTATAAAAA-A
*
8021130 AATAATAATAT
1 AATATTAATAT
8021141 ATATAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 1 0.03
26 16 0.48
27 16 0.48
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
AATATTAATATTTAAATTATAAAAAA
Found at i:8024522 original size:13 final size:13
Alignment explanation
Indices: 8024504--8024539 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
8024494 AGTCTCTAAG
8024504 CATCATTGATGTA
1 CATCATTGATGTA
*
8024517 CATCATTGAAGTA
1 CATCATTGATGTA
8024530 CATCATTGAT
1 CATCATTGAT
8024540 ATCTAGTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (13 bp):
CATCATTGATGTA
Found at i:8025333 original size:19 final size:19
Alignment explanation
Indices: 8025305--8025353 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
8025295 TGTATCTCAG
*
8025305 TATTAATCAATGATACACC
1 TATTACTCAATGATACACC
8025324 TATTACTCAATGATACACC
1 TATTACTCAATGATACACC
8025343 TATTACTCAAT
1 TATTACTCAAT
8025354 TCTGGACTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (19 bp):
TATTACTCAATGATACACC
Found at i:8030374 original size:4 final size:4
Alignment explanation
Indices: 8030365--8030407 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
8030355 GCATTTGAAT
* * * *
8030365 ATAC ATAC ATAC ATAC ACAC ATAC ACAC ACAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
8030408 AAAGATGGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAC
Found at i:8041588 original size:22 final size:22
Alignment explanation
Indices: 8041554--8041595 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
8041544 TAGTAGTTCA
* *
8041554 TATTGTGTATGTAATTTGTTAG
1 TATTATGTATGTAATCTGTTAG
*
8041576 TATTATGTGTGTAATCTGTT
1 TATTATGTATGTAATCTGTT
8041596 GGCATTGGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.02, G:0.21, T:0.55
Consensus pattern (22 bp):
TATTATGTATGTAATCTGTTAG
Found at i:8041866 original size:9 final size:9
Alignment explanation
Indices: 8041852--8041882 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8041842 TTAAACAAGC
*
8041852 AATTAGTTA
1 AATTAGTAA
8041861 AATTAGTAA
1 AATTAGTAA
8041870 AATTAGTAA
1 AATTAGTAA
8041879 AATT
1 AATT
8041883 CAAGAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (9 bp):
AATTAGTAA
Found at i:8042033 original size:117 final size:117
Alignment explanation
Indices: 8041847--8042138 Score: 386
Period size: 117 Copynumber: 2.5 Consensus size: 117
8041837 TTTAGTTAAA
* * ** * * * * *
8041847 CAAGCAATTAGTTAAATTAGTAAAATTAGTAAAATTCAAGAAGTATTTAAATTAATTAAGGTTTT
1 CAAGCAATTAATTAAATTAGTAATATTA-TCTAATTTAAAAAATATTTAAATTAATTAAAGTTTC
*
8041912 ATTAAATTAATTAAAAAACTTAACTACTTGAATTGAAAAACTATTTTAGGTAT
65 ATTAAATTAATTAAAAAACTTAACTACTTGAATTGAAAAAATATTTTAGGTAT
* * * * *
8041965 TAAGCAATTAATTAAATTAGTAATGTTTTTTAATTTTAAAAATATTTAAATTAATTAAAGTTTCA
1 CAAGCAATTAATTAAATTAGTAATATTATCTAATTTAAAAAATATTTAAATTAATTAAAGTTTCA
* * * * *
8042030 TTAAATTAATTAAATAATTTGACTACTTGAATTGAAAAAATGTTTTAGTTAT
66 TTAAATTAATTAAAAAACTTAACTACTTGAATTGAAAAAATATTTTAGGTAT
*
8042082 CAAGTAATTAATTAAATTAGTAATATTATCTAATTTAAAAAATATTTAAATTAATTA
1 CAAGCAATTAATTAAATTAGTAATATTATCTAATTTAAAAAATATTTAAATTAATTA
8042139 TTGAGGTGCT
Statistics
Matches: 149, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
117 126 0.85
118 23 0.15
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.41
Consensus pattern (117 bp):
CAAGCAATTAATTAAATTAGTAATATTATCTAATTTAAAAAATATTTAAATTAATTAAAGTTTCA
TTAAATTAATTAAAAAACTTAACTACTTGAATTGAAAAAATATTTTAGGTAT
Found at i:8042463 original size:8 final size:9
Alignment explanation
Indices: 8042445--8042524 Score: 58
Period size: 9 Copynumber: 8.9 Consensus size: 9
8042435 TTAATTAGGC
8042445 AATTAATTA
1 AATTAATTA
8042454 AATTAA-TA
1 AATTAATTA
* *
8042462 AATTTAGTAA
1 AA-TTAATTA
*
8042472 AATT-ATTT
1 AATTAATTA
*
8042480 AATTATTTA
1 AATTAATTA
8042489 AATTAATTA
1 AATTAATTA
* *
8042498 AGCACTCATTA
1 A--ATTAATTA
8042509 AATTAATTA
1 AATTAATTA
8042518 AA-TAATT
1 AATTAATT
8042525 TGACTACTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
8 14 0.26
9 30 0.56
10 3 0.06
11 7 0.13
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:8042489 original size:117 final size:114
Alignment explanation
Indices: 8042201--8042499 Score: 298
Period size: 117 Copynumber: 2.6 Consensus size: 114
8042191 ATATGTTATA
* * * * *
8042201 AGTAATTAAGTAATTAATTAAATTAATAAAACTA-TATAATATTTATTTTATTTTAAGTAATTAA
1 AGTAATTAAGCAATTAATTAAATTAAT-AAA-TAGTAAAATATTTA-ATTATTTAAATTAATTAA
* * * * * *
8042265 GGTATGAGGGAATTAGTTACATAATTTTACTAATTAAAAAGAATCATGTATT
63 GGTATAAGGGAATTAATTACACAATTTAAATAATTAAAAAGAATCATCTATT
** * *
8042317 AGTAATTAAGCAATTAATTAAATT-AGCAATAGAACATAATATGTTGGGATT-TTTAAATTAATT
1 AGTAATTAAGCAATTAATTAAATTAATAAATAGTA-A-AATAT-TT--AATTATTTAAATTAATT
* * *
8042380 AAGGTTTAATGGAATTAATTACACAGTTTAAATAATTAAAAAGAATCATCTATT
61 AAGGTATAAGGGAATTAATTACACAATTTAAATAATTAAAAAGAATCATCTATT
* *
8042434 ATTAATTAGGCAATTAATTAAATTAATAAATTTAGTAAAATTATTTAATTATTTAAATTAATTAA
1 AGTAATTAAGCAATTAATTAAATTAATAAA--TAGTAAAA-TATTTAATTATTTAAATTAATTAA
8042499 G
63 G
8042500 CACTCATTAA
Statistics
Matches: 148, Mismatches: 24, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
113 2 0.01
114 3 0.02
115 1 0.01
116 31 0.21
117 94 0.64
118 9 0.06
119 4 0.03
120 4 0.03
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (114 bp):
AGTAATTAAGCAATTAATTAAATTAATAAATAGTAAAATATTTAATTATTTAAATTAATTAAGGT
ATAAGGGAATTAATTACACAATTTAAATAATTAAAAAGAATCATCTATT
Found at i:8043738 original size:21 final size:21
Alignment explanation
Indices: 8043714--8043770 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
8043704 AATTTAGATG
8043714 TTATTTATTGATAGATTGGGC
1 TTATTTATTGATAGATTGGGC
* ** *
8043735 TTATCTACCGATAGATTTGGC
1 TTATTTATTGATAGATTGGGC
*
8043756 -AATTTATTGATAGAT
1 TTATTTATTGATAGAT
8043771 AGGAACATCT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (21 bp):
TTATTTATTGATAGATTGGGC
Found at i:8045601 original size:74 final size:74
Alignment explanation
Indices: 8045512--8045709 Score: 290
Period size: 74 Copynumber: 2.7 Consensus size: 74
8045502 GCCGGTTCAT
* * * * * *
8045512 AGACAGAGAAGACTTAGTTGACTAAAAAGCATGGTTAGTCAACTAAGAGCTCATTGCCAAAGACT
1 AGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTACCAAAGAAT
8045577 TCAATTACA
66 TCAATTACA
* *
8045586 AGACAGAG-AGAACTTAATCAACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTACCAGAGAA
1 AGACAGAGAAG-ACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTACCAAAGAA
8045650 TTCAATTACA
65 TTCAATTACA
* *
8045660 AGACAGAGAAGACTTAATCGACTAAGAAGTATAGTTAGTCAACTAAGAGC
1 AGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGC
8045710 ACTCTATTTG
Statistics
Matches: 111, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
73 2 0.02
74 107 0.96
75 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.21
Consensus pattern (74 bp):
AGACAGAGAAGACTTAATCGACTAAGAAGCATGGTTAGTCAACTAAGAGCTCACTACCAAAGAAT
TCAATTACA
Found at i:8050601 original size:28 final size:28
Alignment explanation
Indices: 8050561--8050622 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
8050551 TAAGAGTCTG
*
8050561 ATTCTGATGATGTTTAAGTTATTTATGA-
1 ATTCTGATGATGTTTAA-TTATTTAGGAC
*
8050589 ATTCTGATGATGTTTAATTGTTTAGGAC
1 ATTCTGATGATGTTTAATTATTTAGGAC
8050617 ATTCTG
1 ATTCTG
8050623 CTATATTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.26, C:0.06, G:0.19, T:0.48
Consensus pattern (28 bp):
ATTCTGATGATGTTTAATTATTTAGGAC
Found at i:8051386 original size:74 final size:74
Alignment explanation
Indices: 8051303--8051491 Score: 236
Period size: 74 Copynumber: 2.6 Consensus size: 74
8051293 TCAGAGATAG
* * * *
8051303 AGAAGACTTAGTCGACTAAGAAGTATGGTTAGTTAACTAATAGCTCATTGTCAAAGATTTCAATT
1 AGAAGACTTAATCGACTAAGAAGTATGGTTAGTTAACTAATACCTCACTGTCAAAGAATTCAATT
8051368 ACAAAACAA
66 ACAAAACAA
* * * * *
8051377 AG-AGAACTTAATCGACTAAGAAGCATGGTTGGTCAACTAAAACCTCACTGTCAGAGAATTCAAT
1 AGAAG-ACTTAATCGACTAAGAAGTATGGTTAGTTAACTAATACCTCACTGTCAAAGAATTCAAT
* * *
8051441 TACAAGATAG
65 TACAAAACAA
* *
8051451 AGAAGAGTTAATCGACTAAAAAGTATGGTTAGTTAACTAAT
1 AGAAGACTTAATCGACTAAGAAGTATGGTTAGTTAACTAAT
8051492 TTGAATTTGA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
73 2 0.02
74 91 0.96
75 2 0.02
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (74 bp):
AGAAGACTTAATCGACTAAGAAGTATGGTTAGTTAACTAATACCTCACTGTCAAAGAATTCAATT
ACAAAACAA
Found at i:8056217 original size:85 final size:85
Alignment explanation
Indices: 8056061--8056218 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
8056051 TGTTATTGTG
* *
8056061 TATTTATTTTAATGATTTGGTTTTTACAATTATGGTTTGATGATGTTGATATTATTATTGTGACT
1 TATTTATTTTAATGATTTGGTTTTTACAATTATGGTTTGATGACGCTGATATTATTATTGTGACT
*
8056126 ATTATTGTCCATTTATCGTA
66 AGTATTGTCCATTTATCGTA
* * * *
8056146 TATTTGTTTTGATGCTTTGGTTTTTA-AGATTGTGGTTTGATGACGCTGATATTATTATTGTGAC
1 TATTTATTTTAATGATTTGGTTTTTACA-ATTATGGTTTGATGACGCTGATATTATTATTGTGAC
*
8056210 TGGTATTGT
65 TAGTATTGT
8056219 GTATTTTATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 1 0.02
85 63 0.98
ACGTcount: A:0.22, C:0.06, G:0.20, T:0.53
Consensus pattern (85 bp):
TATTTATTTTAATGATTTGGTTTTTACAATTATGGTTTGATGACGCTGATATTATTATTGTGACT
AGTATTGTCCATTTATCGTA
Found at i:8056980 original size:24 final size:23
Alignment explanation
Indices: 8056945--8057018 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 23
8056935 TTTTAGAAAG
8056945 TTAT-ATACTATTTGTATTATTTAT
1 TTATAATA-TATTTGTATT-TTTAT
8056969 TTATAATATATTTGTATTTTTTAT
1 TTATAATATATTTGTA-TTTTTAT
* * *
8056993 ATGATACTATAATT-TATTTTTAT
1 -TTATAATATATTTGTATTTTTAT
8057016 TTA
1 TTA
8057019 ATTAAAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 2 0.05
23 7 0.16
24 19 0.44
25 15 0.35
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (23 bp):
TTATAATATATTTGTATTTTTAT
Found at i:8073805 original size:42 final size:42
Alignment explanation
Indices: 8073746--8073828 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
8073736 TGTGATATAA
* * *
8073746 CAGTCACCTCTGATCATGGTATCATGGTTCGTTGAAAATTAT
1 CAGTCACCTCTGATCATGGTAGCACGGGTCGTTGAAAATTAT
*
8073788 CAGTCACCTCTGATCATGGTAGCACGGGTCTTTGAAAATTA
1 CAGTCACCTCTGATCATGGTAGCACGGGTCGTTGAAAATTA
8073829 ATCATATTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
CAGTCACCTCTGATCATGGTAGCACGGGTCGTTGAAAATTAT
Found at i:8082135 original size:2 final size:2
Alignment explanation
Indices: 8082128--8082154 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8082118 ATTGAAATTA
8082128 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 A
8082155 GTAGCAATAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8083052 original size:16 final size:18
Alignment explanation
Indices: 8083031--8083064 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
8083021 CTTACCACTT
8083031 TCTTTGC-CTT-TCTTCA
1 TCTTTGCTCTTCTCTTCA
8083047 TCTTTGCTCTTCTCTTCA
1 TCTTTGCTCTTCTCTTCA
8083065 CCACAGGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 3 0.19
18 6 0.38
ACGTcount: A:0.06, C:0.32, G:0.06, T:0.56
Consensus pattern (18 bp):
TCTTTGCTCTTCTCTTCA
Found at i:8091277 original size:16 final size:18
Alignment explanation
Indices: 8091256--8091288 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
8091246 GTTATTATCA
8091256 TACAAAA-TAT-ACAATG
1 TACAAAAGTATAACAATG
8091272 TACAAAAGTATAACAAT
1 TACAAAAGTATAACAAT
8091289 AAAGGAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (18 bp):
TACAAAAGTATAACAATG
Found at i:8093601 original size:5 final size:6
Alignment explanation
Indices: 8093587--8093617 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8093577 ACACAGACCC
8093587 AAAAGA AAAAGA AAAAGA AAAAG- AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
8093618 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:8101776 original size:21 final size:22
Alignment explanation
Indices: 8101752--8101794 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8101742 AGATAAATAG
8101752 TAAAAATA-TATAAAAAAAAGA
1 TAAAAATAGTATAAAAAAAAGA
* *
8101773 TAAAAATAGTTTAAATAAAAGA
1 TAAAAATAGTATAAAAAAAAGA
8101795 AATATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (22 bp):
TAAAAATAGTATAAAAAAAAGA
Found at i:8111749 original size:19 final size:20
Alignment explanation
Indices: 8111708--8111756 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
8111698 AAAAGGGAAA
*
8111708 CCCCACCTCTCCACACACAC
1 CCCCACCTCTCAACACACAC
* *
8111728 CCCCACCTC-CAACACCCCC
1 CCCCACCTCTCAACACACAC
*
8111747 CCCCCCCTCT
1 CCCCACCTCT
8111757 TCCCCCAACA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.18, C:0.71, G:0.00, T:0.10
Consensus pattern (20 bp):
CCCCACCTCTCAACACACAC
Found at i:8118222 original size:108 final size:108
Alignment explanation
Indices: 8118033--8118231 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 108
8118023 AAGTAATACC
* * * * *
8118033 GGATGGATGGATGGACCAACAAGAAAAGACTACAATGGCTGGGGTGTGTCCGATTCTAGGCCAGC
1 GGATGGATGGATGGACCAACAAAAAAAGACTACAATGACTGGGGCGTGGCCGATTCTAGGCCAAC
8118098 TGGCAAGCAAAGTCATCAGGTCCAAACCCTTGGGGATCACAGT
66 TGGCAAGCAAAGTCATCAGGTCCAAACCCTTGGGGATCACAGT
*
8118141 GGATGGATGGATGGACCAACAAAAAAAGACTACAATGACTGGGGCGTGGCTGATTCTAGGCCAAC
1 GGATGGATGGATGGACCAACAAAAAAAGACTACAATGACTGGGGCGTGGCCGATTCTAGGCCAAC
* *
8118206 TGGTGAA-CAAAGTCATCATGTCCAAA
66 TGG-CAAGCAAAGTCATCAGGTCCAAA
8118232 ACCTCGCAGA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 80 0.98
109 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.29, T:0.19
Consensus pattern (108 bp):
GGATGGATGGATGGACCAACAAAAAAAGACTACAATGACTGGGGCGTGGCCGATTCTAGGCCAAC
TGGCAAGCAAAGTCATCAGGTCCAAACCCTTGGGGATCACAGT
Found at i:8131202 original size:15 final size:15
Alignment explanation
Indices: 8131182--8131232 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
8131172 AATTGTTAAA
*
8131182 TTAAGTTAATTTAGT
1 TTAAGTTAATTTACT
* *
8131197 TTAAGTTTATTTTATT
1 TTAAG-TTAATTTACT
*
8131213 TTAATTTAATTTACT
1 TTAAGTTAATTTACT
8131228 TTAAG
1 TTAAG
8131233 AAGAGTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (15 bp):
TTAAGTTAATTTACT
Found at i:8134283 original size:179 final size:179
Alignment explanation
Indices: 8133978--8134313 Score: 546
Period size: 179 Copynumber: 1.9 Consensus size: 179
8133968 TCTCGATTAG
* * * *
8133978 AAAGGGAGTGGAATATTCATTTGAAAAGGTAAGCCTATCTCCCAGCAATGGTATCAAAGCAAGTT
1 AAAGAGAGTGGAATATTCATTTGAAAAGGTAAGCCCACCTCCCAACAATGGTATCAAAGCAAGTT
*
8134043 TTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGTTTTGGCCATAATTTTGTTT
66 TTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGTTTTAGCCATAATTTTGTTT
8134108 AATTTAAATTACCAGTATATAATTTATAAAGCAAGCTTTTTTGGATCAA
131 AATTTAAATTACCAGTATATAATTTATAAAGCAAGCTTTTTTGGATCAA
* * * * *
8134157 AAAGAGAGTGGAATATTCATTTGAAAAGGTAAGCCCACCTCTCAACAGTGTTATTAAAGCAGGTT
1 AAAGAGAGTGGAATATTCATTTGAAAAGGTAAGCCCACCTCCCAACAATGGTATCAAAGCAAGTT
* * *
8134222 TTGGCTTGCTTTCGTTCTTCCAATTTGTGTATATTTGAAAGTATGTTTTAGTCATAATTTTGTTT
66 TTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGTTTTAGCCATAATTTTGTTT
*
8134287 AATTTAAATTACCAGTATATGATTTAT
131 AATTTAAATTACCAGTATATAATTTAT
8134314 TATGTATAAA
Statistics
Matches: 143, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
179 143 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (179 bp):
AAAGAGAGTGGAATATTCATTTGAAAAGGTAAGCCCACCTCCCAACAATGGTATCAAAGCAAGTT
TTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGTTTTAGCCATAATTTTGTTT
AATTTAAATTACCAGTATATAATTTATAAAGCAAGCTTTTTTGGATCAA
Found at i:8134473 original size:161 final size:161
Alignment explanation
Indices: 8134203--8134507 Score: 513
Period size: 161 Copynumber: 1.9 Consensus size: 161
8134193 ACCTCTCAAC
* * * *
8134203 AGTGTTATTAAAGCAGGTTTTGGCTTGCTTTCGTTCTTCCAATTTGTGTATATTTGAAAGTATGT
1 AGTGGTATTAAAGCAAGTTTTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGT
* *
8134268 TTTAGTCATAATTTTGTTTAATTTAAATTACCAGTATATGATTTATTATGTATAAATCTGTAATA
66 TTTAGTCATAATTTTATTTAATTTAAATTACCAATATATGATTTATTATGTATAAATCTGTAATA
8134333 AATATGTTCCATTTCTTATTTACTTCCCAAT
131 AATATGTTCCATTTCTTATTTACTTCCCAAT
*
8134364 AGTGGTATTAAAGCAAGTTTTGGCTTGTTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGT
1 AGTGGTATTAAAGCAAGTTTTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGT
*
8134429 TTT-GATCATAATTTTATTTAATTTAAATTACCAATATATGATTTATTATGTATAAATTTGTAAT
66 TTTAG-TCATAATTTTATTTAATTTAAATTACCAATATATGATTTATTATGTATAAATCTGTAAT
*
8134493 AGATATGTTCCATTT
130 AAATATGTTCCATTT
8134508 TTAATTTTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
160 1 0.01
161 133 0.99
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (161 bp):
AGTGGTATTAAAGCAAGTTTTGGCTTGCTTTCATTCTTCCAATTTGTGTATATTTGAAAGCATGT
TTTAGTCATAATTTTATTTAATTTAAATTACCAATATATGATTTATTATGTATAAATCTGTAATA
AATATGTTCCATTTCTTATTTACTTCCCAAT
Found at i:8139373 original size:41 final size:41
Alignment explanation
Indices: 8139323--8139435 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 41
8139313 ATGTTAGAAG
* * * *
8139323 CATGCAACCCATATCGATAGTAGTACAAAACATGCTAGGGA
1 CATGTAACCCATGTTGATAATAGTACAAAACATGCTAGGGA
*
8139364 CATGTAACCCATGTTGATAATAGTACAAAACATGCTAGGGG
1 CATGTAACCCATGTTGATAATAGTACAAAACATGCTAGGGA
*
8139405 CATGTAACCCATGTTGATAATAGTACTAAAC
1 CATGTAACCCATGTTGATAATAGTACAAAAC
8139436 TCTTAAATCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
CATGTAACCCATGTTGATAATAGTACAAAACATGCTAGGGA
Found at i:8147694 original size:50 final size:50
Alignment explanation
Indices: 8147640--8147770 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
8147630 TGGAGGTTTC
8147640 GCTTTAAGGGTCTTAATGACTTGATCTTGAATAAAAAATTTGAACACTTT
1 GCTTTAAGGGTCTTAATGACTTGATCTTGAATAAAAAATTTGAACACTTT
** * ** * * *
8147690 GCTTTAAGGGTCTTAACAACTTGATCTTAAATGCACAATTTGGAGACTTT
1 GCTTTAAGGGTCTTAATGACTTGATCTTGAATAAAAAATTTGAACACTTT
* * *
8147740 -ATTTCAAGGGTTTTGATGACTTGATCTTGAA
1 GCTTT-AAGGGTCTTAATGACTTGATCTTGAA
8147771 CTTCAAACTT
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
49 3 0.05
50 63 0.95
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (50 bp):
GCTTTAAGGGTCTTAATGACTTGATCTTGAATAAAAAATTTGAACACTTT
Found at i:8147863 original size:41 final size:42
Alignment explanation
Indices: 8147742--8147871 Score: 190
Period size: 42 Copynumber: 3.1 Consensus size: 42
8147732 GAGACTTTAT
* *
8147742 TTCAAGGGTTTTGATGACTTGATCTTGAACTTCAAACTTGGC
1 TTCAAGGGTTTTGACGACTTGATCTTGAACTTCAAACTTTGC
* * *
8147784 TTTAAGGGTTTTGACTACTTGATCTTAAACTTCAAACTTTGC
1 TTCAAGGGTTTTGACGACTTGATCTTGAACTTCAAACTTTGC
* *
8147826 TTCAAGGGTTTTG-CGACTTGATCTTGAACGTCGAACTTTGC
1 TTCAAGGGTTTTGACGACTTGATCTTGAACTTCAAACTTTGC
8147867 TTCAA
1 TTCAA
8147872 AGGCCTCAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 29 0.37
42 49 0.63
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (42 bp):
TTCAAGGGTTTTGACGACTTGATCTTGAACTTCAAACTTTGC
Found at i:8147976 original size:41 final size:41
Alignment explanation
Indices: 8147900--8147977 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
8147890 TTTGGGGCAC
* * * * *
8147900 TTCATTTCAAGTGTCTTATGACTTGATCTTGAACTTTTAAT
1 TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTTTAAT
*
8147941 TTCACTTCAAGGGTCTTGTGACTTAATATTAAACTTT
1 TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTT
8147978 GAACTTTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (41 bp):
TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTTTAAT
Found at i:8147989 original size:41 final size:41
Alignment explanation
Indices: 8147900--8147989 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
8147890 TTTGGGGCAC
* * * * * *
8147900 TTCATTTCAAGTGTCTTATGACTTGATCTTGAACTTTTAAT
1 TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTTGAAT
*
8147941 TTCACTTCAAGGGTCTTGTGACTTAATATTAAACTTTGAACT
1 TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTTGAA-T
8147983 TT-ACTTC
1 TTCACTTC
8147990 TAGGATTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 38 0.93
42 3 0.07
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (41 bp):
TTCACTTCAAGGGTCTTATGACTTAATATTAAACTTTGAAT
Found at i:8156134 original size:21 final size:21
Alignment explanation
Indices: 8156108--8156148 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8156098 ACGAAGATAT
*
8156108 GAAGCCATAGTTGACCTTGAC
1 GAAGCCATAGTCGACCTTGAC
*
8156129 GAAGCCATAGTCGAGCTTGA
1 GAAGCCATAGTCGACCTTGA
8156149 GACAGAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (21 bp):
GAAGCCATAGTCGACCTTGAC
Found at i:8156696 original size:34 final size:34
Alignment explanation
Indices: 8156658--8156735 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
8156648 AAAGTTAGTG
* * *
8156658 TATGGGTTATGCTTGCTCCTAATAAAAGGTATTC
1 TATGGGTTATGCTTGCTCCCAATAAAAGGCATTA
*
8156692 TATGGGTTGTGCTTGCTCCCAATAAAAGGCATTA
1 TATGGGTTATGCTTGCTCCCAATAAAAGGCATTA
*
8156726 TAAGGGTTAT
1 TATGGGTTAT
8156736 CACTTGATCT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (34 bp):
TATGGGTTATGCTTGCTCCCAATAAAAGGCATTA
Found at i:8156806 original size:35 final size:36
Alignment explanation
Indices: 8156726--8156815 Score: 110
Period size: 35 Copynumber: 2.5 Consensus size: 36
8156716 AAAGGCATTA
8156726 TAAGGGTTATCACTTGATCTTATGAAAAAGCAAGTG
1 TAAGGGTTATCACTTGATCTTATGAAAAAGCAAGTG
* ** ** * *
8156762 CAATAGTTATTGCTTGATCTTGT-TAAAAGCAAGTG
1 TAAGGGTTATCACTTGATCTTATGAAAAAGCAAGTG
8156797 TAAGGGTTATCACTTGATC
1 TAAGGGTTATCACTTGATC
8156816 CCGTGAAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
35 25 0.60
36 17 0.40
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (36 bp):
TAAGGGTTATCACTTGATCTTATGAAAAAGCAAGTG
Found at i:8156850 original size:71 final size:71
Alignment explanation
Indices: 8156726--8156860 Score: 155
Period size: 71 Copynumber: 1.9 Consensus size: 71
8156716 AAAGGCATTA
** * * **
8156726 TAAGGGTTATCACTTGATCTTATGAAAAAGCAAGTGCAATAGTTATTGCTTGATCTTGTTAAAAG
1 TAAGGGTTATCACTTGATCCCATGAAAAAGCAAGTACAAGAGTTATTGCTTGATCCCGTTAAAAG
8156791 CAAGTG
66 CAAGTG
* * * * *
8156797 TAAGGGTTATCACTTGATCCCGTGAAAAAGCCAA-TATAAGGGTTCTTGTTTGATCCCGTTAAAA
1 TAAGGGTTATCACTTGATCCCATGAAAAAG-CAAGTACAAGAGTTATTGCTTGATCCCGTTAAAA
8156861 TACAATAATC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
71 49 0.94
72 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.33
Consensus pattern (71 bp):
TAAGGGTTATCACTTGATCCCATGAAAAAGCAAGTACAAGAGTTATTGCTTGATCCCGTTAAAAG
CAAGTG
Found at i:8157491 original size:23 final size:21
Alignment explanation
Indices: 8157444--8157491 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
8157434 TTTACAAGTA
* *
8157444 TAGTCGACTAGAAACTTTTTG
1 TAGTCGACTACAAACTTTTTC
*
8157465 TAGTCGACTACAATAGTATTTTC
1 TAGTCGACTACAA-ACT-TTTTC
8157488 TAGT
1 TAGT
8157492 TCTTCAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 12 0.55
22 2 0.09
23 8 0.36
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TAGTCGACTACAAACTTTTTC
Found at i:8163070 original size:32 final size:32
Alignment explanation
Indices: 8163020--8163098 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
8163010 CCTAATAGAC
* *
8163020 TTATACTAGAACACACCAATTTCTTAATAAAG
1 TTATACTAAAACACACCAATTTCATAATAAAG
* *
8163052 TTATTCTAAAACATACCAATTTCATAATAAAG
1 TTATACTAAAACACACCAATTTCATAATAAAG
*
8163084 TTATACCAAAACACA
1 TTATACTAAAACACA
8163099 TTAATAAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (32 bp):
TTATACTAAAACACACCAATTTCATAATAAAG
Found at i:8163894 original size:29 final size:29
Alignment explanation
Indices: 8163852--8163910 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
8163842 GACTTTTTCA
8163852 AAGATCGATTGGATATTTCATTGTGAGAT
1 AAGATCGATTGGATATTTCATTGTGAGAT
8163881 AAGATCGATTGGATATTTCATTGTGAGAT
1 AAGATCGATTGGATATTTCATTGTGAGAT
8163910 A
1 A
8163911 CTTAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (29 bp):
AAGATCGATTGGATATTTCATTGTGAGAT
Found at i:8179923 original size:2 final size:2
Alignment explanation
Indices: 8179916--8179940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8179906 CAGCCATCCA
8179916 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 A
8179941 ACCCTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8181511 original size:14 final size:14
Alignment explanation
Indices: 8181492--8181532 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
8181482 AAGCATATAT
8181492 ATATATATACACAA
1 ATATATATACACAA
* *
8181506 ATATATATACATAC
1 ATATATATACACAA
8181520 ATATATATACACA
1 ATATATATACACA
8181533 CACAGTTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.32
Consensus pattern (14 bp):
ATATATATACACAA
Found at i:8183093 original size:24 final size:24
Alignment explanation
Indices: 8183061--8183113 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8183051 TTGATGAGGA
* *
8183061 AAAAATATAAATTTTTCAAAA-AAT
1 AAAAATATAAA-ATTTAAAAACAAT
*
8183085 AAAATTATAAAATTTAAAAACAAT
1 AAAAATATAAAATTTAAAAACAAT
8183109 AAAAA
1 AAAAA
8183114 AAATTATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAAATATAAAATTTAAAAACAAT
Found at i:8187940 original size:66 final size:66
Alignment explanation
Indices: 8187868--8187994 Score: 200
Period size: 66 Copynumber: 1.9 Consensus size: 66
8187858 TTAATCCAAC
* * *
8187868 AACTTAATTAAACAATTTAATTAATTCCTTCAGAAGCGTATAAGTTCTTATTTAATTAAGTTCAA
1 AACTTAATTAAACAATTTAATTAAGTCCTTCAGAAACGTATAACTTCTTATTTAATTAAGTTCAA
8187933 T
66 T
* * *
8187934 AACTTAATTAAACAATTTAATTAAGTCCTTGAGAAACTTATAACTTCTTATTTGATTAAGT
1 AACTTAATTAAACAATTTAATTAAGTCCTTCAGAAACGTATAACTTCTTATTTAATTAAGT
8187995 CCAACTTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (66 bp):
AACTTAATTAAACAATTTAATTAAGTCCTTCAGAAACGTATAACTTCTTATTTAATTAAGTTCAA
T
Found at i:8200083 original size:14 final size:13
Alignment explanation
Indices: 8200056--8200089 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
8200046 GATTTTCAAT
8200056 TAAGTGTCTTAAGG
1 TAAGT-TCTTAAGG
8200070 TAAGTTCTTGAAGG
1 TAAGTTCTT-AAGG
8200084 TAAGTT
1 TAAGTT
8200090 GAAGTTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (13 bp):
TAAGTTCTTAAGG
Found at i:8205206 original size:17 final size:17
Alignment explanation
Indices: 8205165--8205206 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
8205155 GCTTTTGTTT
8205165 TTTTTTCTCTTTCAATTC
1 TTTTTT-TCTTTCAATTC
*
8205183 TTCTTTTCTTTCAA-TC
1 TTTTTTTCTTTCAATTC
8205199 TTATTTTT
1 TT-TTTTT
8205207 AAGGGATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 12 0.57
18 5 0.24
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTTTCTTTCAATTC
Found at i:8206389 original size:35 final size:34
Alignment explanation
Indices: 8206312--8206409 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
8206302 CAATGTATAT
*
8206312 AATGCGTTTTCACAAGAGCAAGCACAATCCTTAC
1 AATGCTTTTTCACAAGAGCAAGCACAATCCTTAC
* *
8206346 AATGCTTTTTCACAAGATCAAGCATGAATCC-TAC
1 AATGCTTTTTCACAAGAGCAAGCA-CAATCCTTAC
* *
8206380 AATGCCTTTTCA-AGGAGCAAGCACAA-CCTT
1 AATGCTTTTTCACAAGAGCAAGCACAATCCTT
8206410 TCTACCTTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
31 2 0.04
32 3 0.05
33 9 0.16
34 36 0.65
35 5 0.09
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (34 bp):
AATGCTTTTTCACAAGAGCAAGCACAATCCTTAC
Found at i:8206461 original size:66 final size:66
Alignment explanation
Indices: 8206384--8206524 Score: 203
Period size: 66 Copynumber: 2.1 Consensus size: 66
8206374 TCCTACAATG
** *
8206384 CCTTTTCAAGGAGCAAGCACAACCTT-TCTACCTTTTCACGGGCTTAGGAATAACCTATCAACAC
1 CCTTTTCAAGGAGCAAGCACAA-CTTCTCTACCTTTTCACAAGCTAAGGAATAACCTATCAACAC
8206448 TA
65 TA
* * * *
8206450 CCTTTTCAAGGAGTAAGCACAACTTCTCTCCCTTTTCACAAGCTAAGGTATAACTTATCAACACT
1 CCTTTTCAAGGAGCAAGCACAACTTCTCTACCTTTTCACAAGCTAAGGAATAACCTATCAACACT
8206515 A
66 A
8206516 CCTTTTCAA
1 CCTTTTCAA
8206525 AGGTTAAGGT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 3 0.04
66 64 0.96
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (66 bp):
CCTTTTCAAGGAGCAAGCACAACTTCTCTACCTTTTCACAAGCTAAGGAATAACCTATCAACACT
A
Found at i:8208614 original size:11 final size:11
Alignment explanation
Indices: 8208598--8208631 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
8208588 TCCTTACATG
8208598 ATCTTCATGCT
1 ATCTTCATGCT
8208609 ATCTTCATGCT
1 ATCTTCATGCT
*
8208620 ATCCTCATGCT
1 ATCTTCATGCT
8208631 A
1 A
8208632 AGTTCTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (11 bp):
ATCTTCATGCT
Found at i:8215664 original size:119 final size:119
Alignment explanation
Indices: 8215453--8215669 Score: 353
Period size: 119 Copynumber: 1.8 Consensus size: 119
8215443 AACTCCTTTT
* * * ****
8215453 TTTTTCAAGGTAATTTGAAGTAATACTATTAATTATGTAAAACTGGTGAGTTTTCTATAGCTTAC
1 TTTTTCAAGATAATTCGAAGAAATACTATTAATTATGTAAAACAACAGAGTTTTCTATAGCTTAC
*
8215518 TGCTTCTCTAATATTAAAATCAAAGCTTAGATTTTAGGTCCAGAAAATTTTATC
66 TACTTCTCTAATATTAAAATCAAAGCTTAGATTTTAGGTCCAGAAAATTTTATC
*
8215572 TTTTTCAAGATAATTCGAAGAAATGCTATTAATTATGTAAAACAACAGAGTTTTCTATAGCTTAC
1 TTTTTCAAGATAATTCGAAGAAATACTATTAATTATGTAAAACAACAGAGTTTTCTATAGCTTAC
8215637 TACTTCTCTAATATTAAAATCAAAGCTTAGATT
66 TACTTCTCTAATATTAAAATCAAAGCTTAGATT
8215670 CTTTTTTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 89 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (119 bp):
TTTTTCAAGATAATTCGAAGAAATACTATTAATTATGTAAAACAACAGAGTTTTCTATAGCTTAC
TACTTCTCTAATATTAAAATCAAAGCTTAGATTTTAGGTCCAGAAAATTTTATC
Found at i:8216414 original size:59 final size:59
Alignment explanation
Indices: 8216345--8216460 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
8216335 TAATCTATGC
* * *
8216345 CAACAGCTAAATAATCC-AACAAATTTTGAAAAAATTAAGTTGTTCAAAAATTGTTCAAG
1 CAACAACTAAATAA-CCTAACAAATTTTCAAAAAACTAAGTTGTTCAAAAATTGTTCAAG
* * **
8216404 CAACAACTAAATAACCTAACAGATTTTCATATGACTAAGTTGTTCAAAAATTGTTCA
1 CAACAACTAAATAACCTAACAAATTTTCAAAAAACTAAGTTGTTCAAAAATTGTTCA
8216461 GGAAAATAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
58 2 0.04
59 47 0.96
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (59 bp):
CAACAACTAAATAACCTAACAAATTTTCAAAAAACTAAGTTGTTCAAAAATTGTTCAAG
Found at i:8217767 original size:13 final size:14
Alignment explanation
Indices: 8217739--8217782 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8217729 TTAAAAATGT
8217739 TTAAAATTAATATA
1 TTAAAATTAATATA
*
8217753 TTAAATTTAAT-TA
1 TTAAAATTAATATA
*
8217766 TTAATAATTAAAATA
1 TTAA-AATTAATATA
8217781 TT
1 TT
8217783 TATAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 6 0.24
14 15 0.60
15 4 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAAATTAATATA
Found at i:8217790 original size:18 final size:18
Alignment explanation
Indices: 8217767--8217804 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8217757 ATTTAATTAT
*
8217767 TAATAATTAA-AATATTTA
1 TAATAAATAATAAT-TTTA
8217785 TAATAAATAATAATTTTA
1 TAATAAATAATAATTTTA
8217803 TA
1 TA
8217805 TAACATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAATAAATAATAATTTTA
Found at i:8218673 original size:12 final size:12
Alignment explanation
Indices: 8218656--8218681 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8218646 ACTAATAACT
8218656 TGAAAGCTAGTA
1 TGAAAGCTAGTA
8218668 TGAAAGCTAGTA
1 TGAAAGCTAGTA
8218680 TG
1 TG
8218682 GACATTGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (12 bp):
TGAAAGCTAGTA
Found at i:8225757 original size:15 final size:17
Alignment explanation
Indices: 8225718--8225763 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
8225708 AAGTTTTTTT
* *
8225718 TATAATTTAAATATTAA
1 TATATTTTAATTATTAA
8225735 TATATTTTAATTATT-A
1 TATATTTTAATTATTAA
*
8225751 T-TATTTTAGTTAT
1 TATATTTTAATTAT
8225764 AACACCATGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 11 0.42
16 2 0.08
17 13 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TATATTTTAATTATTAA
Found at i:8231249 original size:20 final size:20
Alignment explanation
Indices: 8231212--8231249 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8231202 GATAAGTAAT
**
8231212 TTTAATATTTAATTTTTTTA
1 TTTAATATTTAAGATTTTTA
8231232 TTTAATATTTAAGATTTT
1 TTTAATATTTAAGATTTT
8231250 CTTTTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTAATATTTAAGATTTTTA
Found at i:8232837 original size:30 final size:30
Alignment explanation
Indices: 8232802--8232892 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
8232792 GAAAAAGAAA
* * * *
8232802 ATGATGAGTTTTGCTGTGATCTAGTTGAGG
1 ATGATGAGATTTACTGTGATCCAGATGAGG
8232832 ATGATGAGATTTACTGTGATCCAGATGAGG
1 ATGATGAGATTTACTGTGATCCAGATGAGG
* *
8232862 ATGATGAGATTTATTGTGATCCAAATGAGG
1 ATGATGAGATTTACTGTGATCCAGATGAGG
8232892 A
1 A
8232893 AGATTATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.34
Consensus pattern (30 bp):
ATGATGAGATTTACTGTGATCCAGATGAGG
Found at i:8236045 original size:28 final size:28
Alignment explanation
Indices: 8236012--8236076 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
8236002 GAAGATCAAT
8236012 GACACAATGCATAGTTGTGGATCTGTCA
1 GACACAATGCATAGTTGTGGATCTGTCA
*
8236040 TACACAATGCATAGTTGTGGATCTGTCA
1 GACACAATGCATAGTTGTGGATCTGTCA
8236068 GACACAATG
1 GACACAATG
8236077 GAAATTTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (28 bp):
GACACAATGCATAGTTGTGGATCTGTCA
Found at i:8246048 original size:23 final size:23
Alignment explanation
Indices: 8246022--8246068 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8246012 TTATGAAAAA
8246022 ATAACTTAAAAGAACAAATAAAG
1 ATAACTTAAAAGAACAAATAAAG
* * *
8246045 ATAACTTGAAAGAATAATTAAAG
1 ATAACTTAAAAGAACAAATAAAG
8246068 A
1 A
8246069 GAAAAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (23 bp):
ATAACTTAAAAGAACAAATAAAG
Found at i:8254746 original size:23 final size:24
Alignment explanation
Indices: 8254708--8254752 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8254698 ACCTCTATTG
8254708 AATTTTAAGTTGATTAAAATTTAA
1 AATTTTAAGTTGATTAAAATTTAA
* *
8254732 AATTTT-ATTTGATTAAGATTT
1 AATTTTAAGTTGATTAAAATTT
8254753 TTATTTATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (24 bp):
AATTTTAAGTTGATTAAAATTTAA
Found at i:8255129 original size:24 final size:26
Alignment explanation
Indices: 8255102--8255155 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 26
8255092 TTTTGTATTT
8255102 TTTTATTTATTTGATTTTTTA-A-AA
1 TTTTATTTATTTGATTTTTTAGACAA
* * *
8255126 TTTTGTTTGTTTTATTTTTTAGACAA
1 TTTTATTTATTTGATTTTTTAGACAA
8255152 TTTT
1 TTTT
8255156 CATAACAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.72
25 1 0.04
26 6 0.24
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (26 bp):
TTTTATTTATTTGATTTTTTAGACAA
Found at i:8257588 original size:22 final size:23
Alignment explanation
Indices: 8257563--8257609 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8257553 ATTTTTATGC
*
8257563 ATTACTACAAGAACTAAGCT-AA
1 ATTACTACAAAAACTAAGCTCAA
* *
8257585 ATTACTATAAAAATTAAGCTCAA
1 ATTACTACAAAAACTAAGCTCAA
8257608 AT
1 AT
8257610 AACTCTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (23 bp):
ATTACTACAAAAACTAAGCTCAA
Found at i:8257743 original size:3 final size:3
Alignment explanation
Indices: 8257735--8257796 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
8257725 TAAATATAGT
* * * *
8257735 TAC TAC TAC TAC TAC CAC TAC TAC TGC TAA TAC TAC TAC TAT TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
* *
8257783 TAT TAC TGC TAC TA
1 TAC TAC TAC TAC TA
8257797 GAGATAAAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.35
Consensus pattern (3 bp):
TAC
Found at i:8259209 original size:10 final size:10
Alignment explanation
Indices: 8259180--8259224 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
8259170 TTTTTTACTA
8259180 ATAAAT-AA-
1 ATAAATAAAG
8259188 ATAAATAAAG
1 ATAAATAAAG
* *
8259198 ATTAATATAG
1 ATAAATAAAG
8259208 ATAAATAAA-
1 ATAAATAAAG
8259217 ATAAATAA
1 ATAAATAA
8259225 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
8 6 0.19
9 10 0.32
10 15 0.48
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:8259227 original size:16 final size:16
Alignment explanation
Indices: 8259179--8259233 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 16
8259169 TTTTTTTACT
8259179 AATAAATAAATAAATAA
1 AATAAAT-AATAAATAA
8259196 AGATTAATATAGATAAATAA
1 A-A-TAA-ATA-ATAAATAA
8259216 AATAAATAATAAATAA
1 AATAAATAATAAATAA
8259232 AA
1 AA
8259234 ATAACAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
18 4 0.12
19 5 0.15
20 11 0.32
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AATAAATAATAAATAA
Found at i:8261059 original size:21 final size:21
Alignment explanation
Indices: 8261035--8261109 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
8261025 GCATTGGTCC
8261035 TTATCATAAATGCATCAGTCT
1 TTATCATAAATGCATCAGTCT
* * *
8261056 TTATTATGAATGCATTAGTCT
1 TTATCATAAATGCATCAGTCT
* * * *
8261077 TTGTTATGAATGCATCAATCT
1 TTATCATAAATGCATCAGTCT
*
8261098 TTGTCATGAAAT
1 TTATCAT-AAAT
8261110 ATATGAACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 42 0.93
22 3 0.07
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (21 bp):
TTATCATAAATGCATCAGTCT
Found at i:8267723 original size:15 final size:15
Alignment explanation
Indices: 8267699--8267740 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
8267689 ATTTTCTATA
8267699 TTCA-TTTTATTCTT
1 TTCATTTTTATTCTT
8267713 TTCATTTTTA-TCTT
1 TTCATTTTTATTCTT
8267727 TTCATTATTTATTC
1 TTCATT-TTTATTC
8267741 ACTTCTGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.56
15 9 0.36
16 2 0.08
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (15 bp):
TTCATTTTTATTCTT
Found at i:8267811 original size:28 final size:28
Alignment explanation
Indices: 8267751--8267811 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
8267741 ACTTCTGGTG
*
8267751 GGTTACAAGTATTCATCTACTTTTAGTA
1 GGTTACAAGCATTCATCTACTTTTAGTA
*
8267779 AGTTACAAGCATTCATCTACTTTT-GATA
1 GGTTACAAGCATTCATCTACTTTTAG-TA
8267807 GGTTA
1 GGTTA
8267812 TAAGTATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (28 bp):
GGTTACAAGCATTCATCTACTTTTAGTA
Found at i:8276505 original size:2 final size:2
Alignment explanation
Indices: 8276498--8276526 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8276488 TAAAACATGC
8276498 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
8276527 GTCCAAAACA
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:8279189 original size:21 final size:20
Alignment explanation
Indices: 8279151--8279190 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8279141 AGCTGTAAAA
*
8279151 AAAAATTGCAGTCATAGATG
1 AAAAATTGCAGCCATAGATG
*
8279171 AAAAATATGCAGCCTTAGAT
1 AAAAAT-TGCAGCCATAGAT
8279191 TAAGGTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAAAATTGCAGCCATAGATG
Found at i:8288495 original size:98 final size:96
Alignment explanation
Indices: 8288387--8288583 Score: 270
Period size: 98 Copynumber: 2.0 Consensus size: 96
8288377 TATAAAAACT
* * * * *
8288387 ATTAAAAAAATAGAAAATCCAACAACAAAATATCAAATTCTAG-ATTTTATTTGTTCTTACACAG
1 ATTAAAAAAATAGAAAACCCAACAACAAAATATCAAAATCTAGAATTCT-TTTATTCTTACAAAG
*
8288451 ATTAAAAGAAAAAAAAACTAAAATTCAAAATTGC
65 ATT--AAGAAAAAAAAACTAAAATTCAAAACTGC
* * *
8288485 ATTAAAAAAATAGAAAACCCAACAATAAGATATCAAAATCTAGAATTCTTTTATTTTTACAAAGA
1 ATTAAAAAAATAGAAAACCCAACAACAAAATATCAAAATCTAGAATTCTTTTATTCTTACAAAGA
*
8288550 TTAAGAAAAAAAATCTAAAATTCAAAACTGC
66 TTAAGAAAAAAAAACTAAAATTCAAAACTGC
8288581 ATT
1 ATT
8288584 CAGATACTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
96 30 0.34
98 54 0.61
99 4 0.05
ACGTcount: A:0.54, C:0.12, G:0.06, T:0.28
Consensus pattern (96 bp):
ATTAAAAAAATAGAAAACCCAACAACAAAATATCAAAATCTAGAATTCTTTTATTCTTACAAAGA
TTAAGAAAAAAAAACTAAAATTCAAAACTGC
Found at i:8289572 original size:20 final size:20
Alignment explanation
Indices: 8289547--8289586 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
8289537 ACATGTGTTA
8289547 GCGCATGCCGTGTAACATGT
1 GCGCATGCCGTGTAACATGT
*
8289567 GCGCATGGCGTGTAACATGT
1 GCGCATGCCGTGTAACATGT
8289587 TGTGAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (20 bp):
GCGCATGCCGTGTAACATGT
Found at i:8289627 original size:22 final size:22
Alignment explanation
Indices: 8289570--8289740 Score: 168
Period size: 23 Copynumber: 7.6 Consensus size: 22
8289560 AACATGTGCG
*
8289570 CATGGCGTGTAACATGTTGTGAA
1 CATGGCGTGTAACAT-TTTTGAA
*
8289593 CATGGTGTGTAACAATTTTTGAA
1 CATGGCGTGTAAC-ATTTTTGAA
*
8289616 C-TTGCGTGTAACATCTTTT-AA
1 CATGGCGTGTAACAT-TTTTGAA
*
8289637 CATGGCGTGTAACAATTTTTCAA
1 CATGGCGTGTAAC-ATTTTTGAA
*
8289660 C-TTGCGTGTAACATTTTTGAA
1 CATGGCGTGTAACATTTTTGAA
* *
8289681 CATGGCGTGTATCATTTTGTAAA
1 CATGGCGTGTAACATTTT-TGAA
* *
8289704 CATGGCATGTAACATATTTGAAA
1 CATGGCGTGTAACATTTTTG-AA
* *
8289727 AATGGTGTGTAACA
1 CATGGCGTGTAACA
8289741 ACATGACAGA
Statistics
Matches: 123, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
21 14 0.11
22 52 0.42
23 55 0.45
24 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (22 bp):
CATGGCGTGTAACATTTTTGAA
Found at i:8289647 original size:44 final size:43
Alignment explanation
Indices: 8289574--8289691 Score: 173
Period size: 44 Copynumber: 2.7 Consensus size: 43
8289564 TGTGCGCATG
* * *
8289574 GCGTGTAACATGTTGTGAACATGGTGTGTAACAATTTTTGAACTT
1 GCGTGTAACAT-TT-TTAACATGGCGTGTAACAATTTTTCAACTT
8289619 GCGTGTAACATCTTTTAACATGGCGTGTAACAATTTTTCAACTT
1 GCGTGTAACAT-TTTTAACATGGCGTGTAACAATTTTTCAACTT
8289663 GCGTGTAACATTTTTGAACATGGCGTGTA
1 GCGTGTAACATTTTT-AACATGGCGTGTA
8289692 TCATTTTGTA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 4 0.06
44 51 0.75
45 13 0.19
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (43 bp):
GCGTGTAACATTTTTAACATGGCGTGTAACAATTTTTCAACTT
Found at i:8293054 original size:31 final size:31
Alignment explanation
Indices: 8293019--8293089 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 31
8293009 GTGGTACCAA
8293019 ATTTAGGGCGTG-CGATGCTGAGTACTAGC-AG
1 ATTTAGGGCGTGAC-ATGCTGAGTACTA-CTAG
8293050 ATTTATGGG-GTGACATGCTGAGTACTACTAG
1 ATTTA-GGGCGTGACATGCTGAGTACTACTAG
8293081 ATTTAGGGC
1 ATTTAGGGC
8293090 ATCACACGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
30 4 0.11
31 28 0.78
32 4 0.11
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.30
Consensus pattern (31 bp):
ATTTAGGGCGTGACATGCTGAGTACTACTAG
Found at i:8293103 original size:31 final size:31
Alignment explanation
Indices: 8293035--8293766 Score: 155
Period size: 31 Copynumber: 23.6 Consensus size: 31
8293025 GGCGTGCGAT
* * *
8293035 GCTGAGTACTAGC-AGATTTATGGG-GTGACAT
1 GCTGAGTACTA-CTAGATTTA-GGGCATCACAC
8293066 GCTGAGTACTACTAGATTTAGGGCATCACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* * * * * * *
8293097 GTTGAGTATTTGC-ATATTGATGGCATTACAC
1 GCTGAGTA-CTACTAGATTTAGGGCATCACAC
* * * * *
8293128 GCTGAGTATTAGC-ATATTGATGGCATTACAC
1 GCTGAGTACTA-CTAGATTTAGGGCATCACAC
* * * * * *
8293159 GTTGAGAACTAGC-AGATTTATGACGTGACAC
1 GCTGAGTACTA-CTAGATTTAGGGCATCACAC
* * *
8293190 ACTGAGTACTAGC-AGATTTA--CCAAGTCACAT
1 GCTGAGTACTA-CTAGATTTAGGGC-A-TCACAC
* * * * *
8293221 GCTAAGTACTAGC-AGATATATGGCATGAAAC
1 GCTGAGTACTA-CTAGATTTAGGGCATCACAC
** ** *
8293252 ATTGAGTGGTACTAGATTTAGGGCATGACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* ** *
8293283 GTTGAAAAGTAGC-AGATTTAGGGCATCACAC
1 GCTGAGTACTA-CTAGATTTAGGGCATCACAC
*
8293314 GCTGAGTACTAGC-AAATTTATCAGGGTC-TCACA-
1 GCTGAGTACTA-CTAGA-TT-T-AGGG-CATCACAC
* * * *
8293347 -TTGAGTACTAGC-AAATATATGGCA-CGACAC
1 GCTGAGTACTA-CTAGATTTAGGGCATC-ACAC
* ** * ** *
8293377 GTTGAGTGGTACTAGATTTAAGGTGTAACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* * ** * *
8293408 GCTGAGTACTAGTAGATATATAGCATGAGAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* ** * * *
8293439 ACTGAGTGGTAGC-AGATTTAGGGCGTGACAT
1 GCTGAGTACTA-CTAGATTTAGGGCATCACAC
* * * *
8293470 GCTCAGTACTAGTAGATTTAGGGCGTTACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* *
8293501 GTTGAGTACTAGTAGATTTATCGGG--TCACAC
1 GCTGAGTACTACTAGATTTA--GGGCATCACAC
* * * * * *
8293532 GCTGAGTACCAATAGATATATGTCATGACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
** *
8293563 GCTGAGTGGTACTAG-TTTAGGGCATGACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
** * * ** *
8293593 ATTCAGTACTAGTAGATTTAGAACATCACAT
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
*
8293624 GCTGAGTACTAGC-AGATTTATTAGG--TCACAC
1 GCTGAGTACTA-CTAGATTTA--GGGCATCACAC
* * * * * *
8293655 GTTGAGT-CTAGTAGATATATGGCGTGACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
** ** * *
8293685 ATTGAGTGGTACTAGATTTAGGGCATGACAT
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* * *
8293716 GCTCAGTATTAGTAGATTTAGGGCATCACAC
1 GCTGAGTACTACTAGATTTAGGGCATCACAC
* *
8293747 ACTGGGTACTTA-TAGATTTA
1 GCTGAGTAC-TACTAGATTTA
8293767 TCAGGTGCGA
Statistics
Matches: 516, Mismatches: 150, Indels: 70
0.70 0.20 0.10
Matches are distributed among these distances:
28 4 0.01
29 8 0.02
30 50 0.10
31 417 0.81
32 22 0.04
33 5 0.01
34 9 0.02
35 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
GCTGAGTACTACTAGATTTAGGGCATCACAC
Found at i:8293103 original size:62 final size:62
Alignment explanation
Indices: 8293037--8293756 Score: 313
Period size: 62 Copynumber: 11.6 Consensus size: 62
8293027 CGTGCGATGC
** *
8293037 TGAGTACTAGCAGATTTATGGGGTGACATGCTGAGTACTA-CTAGATTTAGGGCATCACACGT
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGC-AGATTTAGGGCATCACACGT
* * * * * * * * * *
8293099 TGAGTATTTGCATATTGATGGCATTACACGCTGAGTATTAGCATATTGATGGCATTACACGT
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGATTTAGGGCATCACACGT
* * * * * * *
8293161 TGAGAACTAGCAGATTTATGACGTGACACACTGAGTACTAGCAGATTTA--CCAAGTCACATGC
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGATTTAGGGC-A-TCACACGT
* * * ** ** *
8293223 TAAGTACTAGCAGATATATGGCATGAAACATTGAGTGGTA-CTAGATTTAGGGCATGACACGT
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGC-AGATTTAGGGCATCACACGT
** * * * *
8293285 TGAAAAGTAGCAGATTTAGGGCATCACACGCTGAGTACTAGCAAATTTATCAGGGTC-TCACA--
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGA-TT-T-AGGG-CATCACACG
8293347 T
62 T
* * * * ** * ** * *
8293348 TGAGTACTAGCAAATATATGGCACGACACGTTGAGTGGTA-CTAGATTTAAGGTGTAACACGC
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGC-AGATTTAGGGCATCACACGT
* * * * * ** * * * *
8293410 TGAGTACTAGTAGATATATAGCATGAGACACTGAGTGGTAGCAGATTTAGGGCGTGACATGC
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGATTTAGGGCATCACACGT
* * * * * * * *
8293472 TCAGTACTAGTAGATTTAGGGCGTTACACGTTGAGTACTAGTAGATTTATCGGG--TCACACGC
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGATTTA--GGGCATCACACGT
* ** * * ** * *
8293534 TGAGTACCAATAGATATATGTCATGACACGCTGAGTGGTA-CTAG-TTTAGGGCATGACACAT
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGC-AGATTTAGGGCATCACACGT
* * * * * *
8293595 TCAGTACTAGTAGATTTA-GAACATCACATGCTGAGTACTAGCAGATTTATTAGG--TCACACGT
1 TGAGTACTAGCAGATTTATG-GCATGACACGCTGAGTACTAGCAGATTTA--GGGCATCACACGT
* * * ** ** * * *
8293657 TGAGT-CTAGTAGATATATGGCGTGACACATTGAGTGGTA-CTAGATTTAGGGCATGACATGC
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGC-AGATTTAGGGCATCACACGT
* * * * * * *
8293718 TCAGTATTAGTAGATTTAGGGCATCACACACTGGGTACT
1 TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACT
8293757 TATAGATTTA
Statistics
Matches: 479, Mismatches: 148, Indels: 62
0.70 0.21 0.09
Matches are distributed among these distances:
59 5 0.01
60 10 0.02
61 82 0.17
62 328 0.68
63 38 0.08
64 7 0.01
65 8 0.02
66 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (62 bp):
TGAGTACTAGCAGATTTATGGCATGACACGCTGAGTACTAGCAGATTTAGGGCATCACACGT
Found at i:8293458 original size:125 final size:125
Alignment explanation
Indices: 8293149--8293445 Score: 278
Period size: 125 Copynumber: 2.4 Consensus size: 125
8293139 GCATATTGAT
* * * * * * * *
8293149 GGCATTACACGTTGAGAACTAGCAGATTTATGA-CGTGACACACTGAGTACTAGCAGATTTACCA
1 GGCATAACACGCTGAAAACTAGCAGATATA-GAGCATCACACACTGAGTACTAGCAAATTTATCA
* * * * *
8293213 -AG--TCACATGCTAAGTACTAGCAGATATATGGCATGAAACATTGAGTGGTACTAGATTTAG
65 GGGTCTCACAT--TGAGTACTAGCAAATATATGGCACGAAACATTGAGTGGTACTAGATTTAA
* * * * * *
8293273 GGCATGACACGTTGAAAAGTAGCAGATTTAGGGCATCACACGCTGAGTACTAGCAAATTTATCAG
1 GGCATAACACGCTGAAAACTAGCAGATATAGAGCATCACACACTGAGTACTAGCAAATTTATCAG
* *
8293338 GGTCTCACATTGAGTACTAGCAAATATATGGCACGACACGTTGAGTGGTACTAGATTTAA
66 GGTCTCACATTGAGTACTAGCAAATATATGGCACGAAACATTGAGTGGTACTAGATTTAA
** ** * * * *
8293398 GGTGTAACACGCTGAGTACTAGTAGATATATAGCATGAGACACTGAGT
1 GGCATAACACGCTGAAAACTAGCAGATATAGAGCATCACACACTGAGT
8293446 GGTAGCAGAT
Statistics
Matches: 139, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
123 1 0.01
124 53 0.38
125 79 0.57
127 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (125 bp):
GGCATAACACGCTGAAAACTAGCAGATATAGAGCATCACACACTGAGTACTAGCAAATTTATCAG
GGTCTCACATTGAGTACTAGCAAATATATGGCACGAAACATTGAGTGGTACTAGATTTAA
Found at i:8293532 original size:124 final size:124
Alignment explanation
Indices: 8293373--8293918 Score: 566
Period size: 124 Copynumber: 4.4 Consensus size: 124
8293363 ATATGGCACG
** * * * * *
8293373 ACACGTTGAGTGGTACTAGATTTA-AGGTGTAACACGCTGAGTACTAGTAGATATATAGCATGAG
1 ACACGTTGAGTACTAGTAGATTTATCGG-GTCACACGCTGAGTACTAGTAGATATATGGCATGAC
* * *
8293437 ACACTGAGTGGTAGC-AGATTTAGGGCGTGACATGCTCAGTACTAGTAGATTTAGGGCGTT
65 ACACTGAGTGGTA-CTAGATTTAGGGCATGACATGCTCAGTACTAGTAGATTTAGGGCATC
* * *
8293497 ACACGTTGAGTACTAGTAGATTTATCGGGTCACACGCTGAGTACCAATAGATATATGTCATGACA
1 ACACGTTGAGTACTAGTAGATTTATCGGGTCACACGCTGAGTACTAGTAGATATATGGCATGACA
* *** **
8293562 CGCTGAGTGGTACTAG-TTTAGGGCATGACACATTCAGTACTAGTAGATTTAGAACATC
66 CACTGAGTGGTACTAGATTTAGGGCATGACATGCTCAGTACTAGTAGATTTAGGGCATC
* * * ** * *
8293620 ACATGCTGAGTACTAGCAGATTTATTAGGTCACACGTTGAGT-CTAGTAGATATATGGCGTGACA
1 ACACGTTGAGTACTAGTAGATTTATCGGGTCACACGCTGAGTACTAGTAGATATATGGCATGACA
* *
8293684 CATTGAGTGGTACTAGATTTAGGGCATGACATGCTCAGTATTAGTAGATTTAGGGCATC
66 CACTGAGTGGTACTAGATTTAGGGCATGACATGCTCAGTACTAGTAGATTTAGGGCATC
** * * * * * * *
8293743 ACACACTGGGTACTTA-TAGATTTATCAGGTGC-GATGCTGAATACTAATAGATATATGGCGTGA
1 ACACGTTGAGTAC-TAGTAGATTTATCGGGT-CACACGCTGAGTACTAGTAGATATATGGCATGA
* * * * * * *
8293806 CACACTAAATGGTACTAGATTTAGGGCATGACAAGCTTAATACTA-TCAAATTTAGGGCGTC
64 CACACTGAGTGGTACTAGATTTAGGGCATGACATGCTCAGTACTAGT-AGATTTAGGGCATC
* * * *
8293867 ACATGTTGAGTACTAGTAGATTTATCGAGTCACATGTTGAGTACTAGTAGAT
1 ACACGTTGAGTACTAGTAGATTTATCGGGTCACACGCTGAGTACTAGTAGAT
8293919 TTATCGAGTC
Statistics
Matches: 347, Mismatches: 66, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
122 32 0.09
123 139 0.40
124 174 0.50
125 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (124 bp):
ACACGTTGAGTACTAGTAGATTTATCGGGTCACACGCTGAGTACTAGTAGATATATGGCATGACA
CACTGAGTGGTACTAGATTTAGGGCATGACATGCTCAGTACTAGTAGATTTAGGGCATC
Found at i:8293881 original size:31 final size:31
Alignment explanation
Indices: 8293864--8293949 Score: 172
Period size: 31 Copynumber: 2.8 Consensus size: 31
8293854 AATTTAGGGC
8293864 GTCACATGTTGAGTACTAGTAGATTTATCGA
1 GTCACATGTTGAGTACTAGTAGATTTATCGA
8293895 GTCACATGTTGAGTACTAGTAGATTTATCGA
1 GTCACATGTTGAGTACTAGTAGATTTATCGA
8293926 GTCACATGTTGAGTACTAGTAGAT
1 GTCACATGTTGAGTACTAGTAGAT
8293950 ATATGGCGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 55 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (31 bp):
GTCACATGTTGAGTACTAGTAGATTTATCGA
Found at i:8293900 original size:155 final size:155
Alignment explanation
Indices: 8293700--8293986 Score: 330
Period size: 155 Copynumber: 1.9 Consensus size: 155
8293690 GTGGTACTAG
* * * *
8293700 ATTTAGGGCATGACATGCTCAGTATTAGTAGATTTAGGGCATCACACACTGGGTACTTA-TAGAT
1 ATTTAGGGCATCACATGCTCAGTACTAGTAGATTTAGCGCATCACACACTGAGTAC-TAGTAGAT
* * *
8293764 TTATC-AGGTGC-GATGCTGAATACTAATAGATATATGGCGTGACACACTAAATGGTACTAGATT
65 TTATCGA-GT-CACATGCTGAATACTAATAGATATATGGCGTAACACACTAAATGGTACCAGATT
8293827 TAGGGCATGACAAGCTTAATACTATCAA
128 TAGGGCATGACAAGCTTAATACTATCAA
* * * * ***
8293855 ATTTAGGGCGTCACATGTTGAGTACTAGTAGATTTATCG-AGTCACATGTTGAGTACTAGTAGAT
1 ATTTAGGGCATCACATGCTCAGTACTAGTAGATTTAGCGCA-TCACACACTGAGTACTAGTAGAT
* * * ** *
8293919 TTATCGAGTCACATGTTGAGTACTAGTAGATATATGGCGTAACAGGCTAAGTGGTACCAGATTTA
65 TTATCGAGTCACATGCTGAATACTAATAGATATATGGCGTAACACACTAAATGGTACCAGATTTA
8293984 GGG
130 GGG
8293987 TGTCGACACT
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
154 4 0.04
155 103 0.95
156 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (155 bp):
ATTTAGGGCATCACATGCTCAGTACTAGTAGATTTAGCGCATCACACACTGAGTACTAGTAGATT
TATCGAGTCACATGCTGAATACTAATAGATATATGGCGTAACACACTAAATGGTACCAGATTTAG
GGCATGACAAGCTTAATACTATCAA
Found at i:8293981 original size:62 final size:62
Alignment explanation
Indices: 8293864--8293983 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
8293854 AATTTAGGGC
* * * * * **
8293864 GTCACATGTTGAGTACTAGTAGATTTATCGAGTCACATGTTGAGTACTAGTAGATTTATCGA
1 GTCACATGTTGAGTACTAGTAGATATATCGAGTAACAGGCTAAGTACTACCAGATTTATCGA
* * **
8293926 GTCACATGTTGAGTACTAGTAGATATATGGCGTAACAGGCTAAGTGGTACCAGATTTA
1 GTCACATGTTGAGTACTAGTAGATATATCGAGTAACAGGCTAAGTACTACCAGATTTA
8293984 GGGTGTCGAC
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (62 bp):
GTCACATGTTGAGTACTAGTAGATATATCGAGTAACAGGCTAAGTACTACCAGATTTATCGA
Found at i:8294061 original size:31 final size:31
Alignment explanation
Indices: 8294021--8294158 Score: 170
Period size: 31 Copynumber: 4.5 Consensus size: 31
8294011 AATTTATCAG
* *
8294021 GTGAGACACTAAGTACTAGCAGATATATGGC
1 GTGACACACTGAGTACTAGCAGATATATGGC
*
8294052 GTGACACACTGAGTACTAACAGATATATGGC
1 GTGACACACTGAGTACTAGCAGATATATGGC
*
8294083 GTGACACACTGAGTACTAGCAGATTTATGG-
1 GTGACACACTGAGTACTAGCAGATATATGGC
* * ** * *
8294113 GATCACACGCTGAGTGGTGGCAAATATATGGC
1 G-TGACACACTGAGTACTAGCAGATATATGGC
8294145 GTGACACACTGAGT
1 GTGACACACTGAGT
8294159 GGTGACAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
30 1 0.01
31 89 0.98
32 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (31 bp):
GTGACACACTGAGTACTAGCAGATATATGGC
Found at i:8294140 original size:93 final size:93
Alignment explanation
Indices: 8294043--8294220 Score: 232
Period size: 93 Copynumber: 1.9 Consensus size: 93
8294033 GTACTAGCAG
* * *
8294043 ATATATGGCGTGACACACTGAGTACTAACAGATATATGGCGTGACACACTGAGTACTAGCAGATT
1 ATATATGGCGTGACACACTGAGTACTAACAAATATAGGGCATGACACACTGAGTACTAGCAGATT
8294108 TAT-GGGATCACACGCTGAGTGGTGGCAA
66 TATCGGG-TCACACGCTGAGTGGTGGCAA
** * * * * * *
8294136 ATATATGGCGTGACACACTGAGTGGTGACAAATTTAGGGCATGGCACATTGAGTATTAGCATATT
1 ATATATGGCGTGACACACTGAGTACTAACAAATATAGGGCATGACACACTGAGTACTAGCAGATT
*
8294201 TATCGGGTCACTCGCTGAGT
66 TATCGGGTCACACGCTGAGT
8294221 TGTTATGTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 69 0.96
94 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (93 bp):
ATATATGGCGTGACACACTGAGTACTAACAAATATAGGGCATGACACACTGAGTACTAGCAGATT
TATCGGGTCACACGCTGAGTGGTGGCAA
Found at i:8294189 original size:31 final size:31
Alignment explanation
Indices: 8294117--8294189 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
8294107 TTATGGGATC
* * * *
8294117 ACACGCTGAGTGGTGGCAAATATATGGCGTG
1 ACACACTGAGTGGTGACAAATATAGGGCATG
*
8294148 ACACACTGAGTGGTGACAAATTTAGGGCATG
1 ACACACTGAGTGGTGACAAATATAGGGCATG
* *
8294179 GCACATTGAGT
1 ACACACTGAGT
8294190 ATTAGCATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.16, G:0.32, T:0.23
Consensus pattern (31 bp):
ACACACTGAGTGGTGACAAATATAGGGCATG
Found at i:8298104 original size:31 final size:31
Alignment explanation
Indices: 8298065--8298273 Score: 319
Period size: 31 Copynumber: 6.7 Consensus size: 31
8298055 ACTGAAAAAA
*
8298065 AAGTAAAATGTTGTTACACGCCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
**
8298096 AAGAAAAATGTTGTTACACGCCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
*
8298127 AAGTCAAATGTTGTTAAACGCCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
* * *
8298158 ACGTAAAATGTTGTTACATGCCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
*
8298189 AAGTCAAATATTGTTACACGCCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
* *
8298220 AAGTCAAATATTGTTACACACCATGCATATC
1 AAGTCAAATGTTGTTACACGCCATGCATATC
*
8298251 AAGTCAAATGTTGTTACATGCCA
1 AAGTCAAATGTTGTTACACGCCA
8298274 AAGCTGACAT
Statistics
Matches: 162, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (31 bp):
AAGTCAAATGTTGTTACACGCCATGCATATC
Found at i:8299058 original size:47 final size:47
Alignment explanation
Indices: 8298905--8299344 Score: 400
Period size: 47 Copynumber: 9.4 Consensus size: 47
8298895 CATTTGACAT
** * * * * * *
8298905 ACTCTGAACCCTGGCATGTCACAGATTCCCTCTATTGCGTGTCACAC
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * * *
8298952 CCTCT-AAACCTCGACATGTCAC-AATTCCCTCCATGGCATGTCACAA
1 ACTCTGAACCCTC-CCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * * * *
8298998 ACTTTGAACCCTCCCGTGTAACAAATTACCTCTATGGTATGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* ** * *
8299045 ACTCTGAATCCTCCTATGTCACAGATTCCTTCCATGGCATGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * ** * *
8299092 ACTCTAAACCCTCTCGCATCACAGATTTCCTCCATGGCATGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * * * *
8299139 ACTTTGAACCTTCTCGTGTCACAAATTCCCTCCATGTCGTGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* *
8299186 ACTCTGAACCCTCCCATGTCAC-AATTCCCTCCATGGCCTGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * * * * *
8299232 ACTCTGAACCCTCTCATGTCATAAATTCCTTACATGGCCTGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* * * * * * *
8299279 ATTCTGAACCCTCTCATGTCACAGATTCCTTACATGGCCTGTCACAA
1 ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
* *
8299326 ATTCTGAACCCTCTCGTGT
1 ACTCTGAACCCTCCCGTGT
8299345 GGCAACTGTG
Statistics
Matches: 329, Mismatches: 60, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
46 75 0.23
47 254 0.77
ACGTcount: A:0.25, C:0.34, G:0.12, T:0.28
Consensus pattern (47 bp):
ACTCTGAACCCTCCCGTGTCACAAATTCCCTCCATGGCATGTCACAA
Found at i:8299299 original size:140 final size:138
Alignment explanation
Indices: 8298905--8299338 Score: 460
Period size: 140 Copynumber: 3.1 Consensus size: 138
8298895 CATTTGACAT
** * * * ** * *
8298905 ACTCTGAACCCTGGCATGTCACAGATTCCCTCTATTGCGTGTCACACCCTCTAAACCTCGACATG
1 ACTCTGAACCCTCCCATGTCACAGATTCCCTCCATGGCATGTCACAAACTCTAACCCTC-TCATG
* * * * *
8298970 TCACAATTCCCTCCATGGCATGTCACAAACTTTGAACCCTCCCGTGTAACAAATTACCTCTATGG
65 TCAAAATT-CCTCCATGGCATGTCACAAACTTTGAACCCTCTCGTGTCACAAATTCCCTCCAT-G
8299035 T-ATGTCACAA
128 TCATGTCACAA
* * *
8299045 ACTCTGAATCCTCCTATGTCACAGATTCCTTCCATGGCATGTCACAAACTCTAAACCCTCTCGCA
1 ACTCTGAACCCTCCCATGTCACAGATTCCCTCCATGGCATGTCACAAACTCT-AACCCTCT--CA
** * * *
8299110 TCACAGATTTCCTCCATGGCATGTCACAAACTTTGAACCTTCTCGTGTCACAAATTCCCTCCATG
63 TGTCAAAATTCCTCCATGGCATGTCACAAACTTTGAACCCTCTCGTGTCACAAATTCCCTCCATG
*
8299175 TCGTGTCACAA
128 TCATGTCACAA
*
8299186 ACTCTGAACCCTCCCATGTCACA-ATTCCCTCCATGGCCTGTCACAAACTCTGAACCCTCTCATG
1 ACTCTGAACCCTCCCATGTCACAGATTCCCTCCATGGCATGTCACAAACTCT-AACCCTCTCATG
* * * * * *
8299250 TCATAAATTCCTTACATGGCCTGTCACAAA-TTCTGAACCCTCTCATGTCACAGATTCCTTACAT
65 TCA-AAATTCC-TCCATGGCATGTCACAAACTT-TGAACCCTCTCGTGTCACAAATTCCCTCCAT
* *
8299314 GGCCTGTCACAA
127 GTCATGTCACAA
*
8299326 ATTCTGAACCCTC
1 ACTCTGAACCCTC
8299339 TCGTGTGGCA
Statistics
Matches: 246, Mismatches: 41, Indels: 14
0.82 0.14 0.05
Matches are distributed among these distances:
138 5 0.02
139 7 0.03
140 142 0.58
141 84 0.34
142 8 0.03
ACGTcount: A:0.26, C:0.34, G:0.12, T:0.28
Consensus pattern (138 bp):
ACTCTGAACCCTCCCATGTCACAGATTCCCTCCATGGCATGTCACAAACTCTAACCCTCTCATGT
CAAAATTCCTCCATGGCATGTCACAAACTTTGAACCCTCTCGTGTCACAAATTCCCTCCATGTCA
TGTCACAA
Found at i:8299329 original size:23 final size:23
Alignment explanation
Indices: 8299248--8299329 Score: 76
Period size: 23 Copynumber: 3.5 Consensus size: 23
8299238 AACCCTCTCA
*
8299248 TGTCATAAATTCCTTACATGGCC
1 TGTCACAAATTCCTTACATGGCC
* * ** *
8299271 TGTCACAAATT-CTGAACCCTCTCA
1 TGTCACAAATTCCT-TA-CATGGCC
*
8299295 TGTCACAGATTCCTTACATGGCC
1 TGTCACAAATTCCTTACATGGCC
8299318 TGTCACAAATTC
1 TGTCACAAATTC
8299330 TGAACCCTCT
Statistics
Matches: 43, Mismatches: 13, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
22 2 0.05
23 25 0.58
24 14 0.33
25 2 0.05
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.32
Consensus pattern (23 bp):
TGTCACAAATTCCTTACATGGCC
Found at i:8299634 original size:23 final size:23
Alignment explanation
Indices: 8299606--8299668 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8299596 CACAATGTCA
8299606 TCTCACATATTCCCTCCGAGTCG
1 TCTCACATATTCCCTCCGAGTCG
* * * **
8299629 TGTCACATATTCTCACCTTGTCG
1 TCTCACATATTCCCTCCGAGTCG
*
8299652 TCTTACATATTCCCTCC
1 TCTCACATATTCCCTCC
8299669 ATGAAGTGTC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.17, C:0.37, G:0.10, T:0.37
Consensus pattern (23 bp):
TCTCACATATTCCCTCCGAGTCG
Found at i:8299678 original size:46 final size:46
Alignment explanation
Indices: 8299583--8299681 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
8299573 GACACTGGCA
**
8299583 TGTCACATATTCTCACAATGTCATCTCACATATTCCCTCCGAGTCG
1 TGTCACATATTCTCACAATGTCATCTCACATATTCCCTCCGAGAAG
** * *
8299629 TGTCACATATTCTCACCTTGTCGTCTTACATATTCCCTCC-ATGAAG
1 TGTCACATATTCTCACAATGTCATCTCACATATTCCCTCCGA-GAAG
8299675 TGTCACA
1 TGTCACA
8299682 AACTCTAAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
45 1 0.02
46 45 0.98
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.34
Consensus pattern (46 bp):
TGTCACATATTCTCACAATGTCATCTCACATATTCCCTCCGAGAAG
Found at i:8302203 original size:30 final size:30
Alignment explanation
Indices: 8302167--8302230 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
8302157 TTGTTTGAGT
8302167 TACATGATGTGAGGTAACTTTCATTCTTCA
1 TACATGATGTGAGGTAACTTTCATTCTTCA
8302197 TACATGATGTGAGGTAACTTTCATTCTTCA
1 TACATGATGTGAGGTAACTTTCATTCTTCA
8302227 TACA
1 TACA
8302231 ATTCTTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (30 bp):
TACATGATGTGAGGTAACTTTCATTCTTCA
Found at i:8305744 original size:10 final size:10
Alignment explanation
Indices: 8305679--8305756 Score: 54
Period size: 10 Copynumber: 7.5 Consensus size: 10
8305669 GAAAAAAAAG
*
8305679 AAGAAAGAAGA
1 AAGAAGGAA-A
8305690 AAGAAGG-AA
1 AAGAAGGAAA
*
8305699 GAGAAAGGAAGAA
1 AAG-AAGG-A-AA
8305712 AAGAAGGAGAGA
1 AAGAAGGA-A-A
*
8305724 AAG--GGAGA
1 AAGAAGGAAA
8305732 AAGAAGGAAA
1 AAGAAGGAAA
8305742 AAGAAGGAAA
1 AAGAAGGAAA
8305752 AAGAA
1 AAGAA
8305757 AAAGGAAGGG
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 27 0.49
11 9 0.16
12 8 0.15
13 4 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (10 bp):
AAGAAGGAAA
Found at i:8322361 original size:2 final size:2
Alignment explanation
Indices: 8322354--8322378 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8322344 CCAAAGGGAG
8322354 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 A
8322379 AATGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8330883 original size:24 final size:23
Alignment explanation
Indices: 8330841--8330903 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
8330831 GCCTACCTAT
8330841 CCAAAACCCTAAAAAAAAAAAAC
1 CCAAAACCCTAAAAAAAAAAAAC
**
8330864 CCAAAACCCTAAAAAGAAAAAGTC
1 CCAAAACCCTAAAAA-AAAAAAAC
8330888 CCAAAA--CTAAAAAAAA
1 CCAAAACCCTAAAAAAAA
8330904 GGGAAGAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.08
22 7 0.19
23 15 0.41
24 12 0.32
ACGTcount: A:0.67, C:0.24, G:0.03, T:0.06
Consensus pattern (23 bp):
CCAAAACCCTAAAAAAAAAAAAC
Found at i:8333829 original size:23 final size:23
Alignment explanation
Indices: 8333799--8333844 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8333789 TGAAACTTTT
8333799 CATATAATTCCACAGTATAATCA
1 CATATAATTCCACAGTATAATCA
**
8333822 CATATAATTCCATGGTATAATCA
1 CATATAATTCCACAGTATAATCA
8333845 ATAGGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.33
Consensus pattern (23 bp):
CATATAATTCCACAGTATAATCA
Found at i:8334225 original size:24 final size:24
Alignment explanation
Indices: 8334179--8334231 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8334169 CTCATGTATC
* * *
8334179 AAAATTCTAATAAATATAGGAAA-
1 AAAATTCAAATAAATAAAAGAAAG
8334202 AAAATTCAAAGTAAATAAAAGAAAG
1 AAAATTCAAA-TAAATAAAAGAAAG
8334227 AAAAT
1 AAAAT
8334232 AAAATCCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.36
24 11 0.44
25 5 0.20
ACGTcount: A:0.66, C:0.04, G:0.09, T:0.21
Consensus pattern (24 bp):
AAAATTCAAATAAATAAAAGAAAG
Found at i:8348524 original size:21 final size:23
Alignment explanation
Indices: 8348478--8348524 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
8348468 ACATACACCC
8348478 CAAAAAGATACTCAACCTATGAA
1 CAAAAAGATACTCAACCTATGAA
*
8348501 CAAAAAGATACTTAA-CTA-GAA
1 CAAAAAGATACTCAACCTATGAA
8348522 CAA
1 CAA
8348525 TCTCAAACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 3 0.13
23 14 0.61
ACGTcount: A:0.55, C:0.19, G:0.09, T:0.17
Consensus pattern (23 bp):
CAAAAAGATACTCAACCTATGAA
Found at i:8350107 original size:34 final size:34
Alignment explanation
Indices: 8350064--8350134 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
8350054 TGGCACACTA
8350064 AAACTATTACTCATCTCTCTGAATATCACAAGAT
1 AAACTATTACTCATCTCTCTGAATATCACAAGAT
8350098 AAACTATTACTCATCTCTCTGAATATCACAAGAT
1 AAACTATTACTCATCTCTCTGAATATCACAAGAT
8350132 AAA
1 AAA
8350135 ATGCAATCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.31
Consensus pattern (34 bp):
AAACTATTACTCATCTCTCTGAATATCACAAGAT
Found at i:8350709 original size:15 final size:16
Alignment explanation
Indices: 8350681--8350729 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
8350671 AATTGAGGCA
*
8350681 TTCAAAATGCCTTCA-T
1 TTCAAAAT-TCTTCACT
8350697 TTCAAAATTCTTCTAACT
1 TTCAAAATTCTTC--ACT
8350715 TTCAAAATTCTTCAC
1 TTCAAAATTCTTCAC
8350730 ACAAACACAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 1 0.03
18 14 0.48
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (16 bp):
TTCAAAATTCTTCACT
Found at i:8367300 original size:134 final size:137
Alignment explanation
Indices: 8367032--8367297 Score: 335
Period size: 134 Copynumber: 1.9 Consensus size: 137
8367022 CGAAGCAGAT
* * * * *
8367032 TTCTATGCATGTCTTAATCATGGAGGTAATATGTCTGAATGTAGCTTTGCTGGGGATTTGGCATT
1 TTCTAAGCATGTCTTAATCAGGGAGGTAATA-GTCTGAATGTAGCATTGATGGGCATTTGGCATT
* * * *
8367097 ATAATATATTTTAGAAGATCTTTGTTTCCCTTAATGTATACTTTCTACACCATATGCCTGATTTT
65 ATAATATATTTTAGAAGACCTTGGCTTCCCTTAATGTATACTTTCTACACCACATGCCTGATTTT
8367162 TTCTTGGC
130 TTCTTGGC
* *
8367170 TTCTAAGCATGTCTTAATCAGGGAGGT-A-A-TCTGAATGTATCATTGATAGGGCA-TTGGTATT
1 TTCTAAGCATGTCTTAATCAGGGAGGTAATAGTCTGAATGTAGCATTGAT-GGGCATTTGGCATT
* * *
8367231 ATAATATATTTTAGAAGACCTCTGGCTTGCTTTGATGTATACTCTT-TACACCACATGCCTGATT
65 ATAATATATTTTAGAAGACCT-TGGCTTCCCTTAATGTATACT-TTCTACACCACATGCCTGATT
8367295 TTT
128 TTT
8367298 CTTTGTTGGA
Statistics
Matches: 111, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
134 42 0.38
135 40 0.36
136 3 0.03
137 1 0.01
138 25 0.23
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (137 bp):
TTCTAAGCATGTCTTAATCAGGGAGGTAATAGTCTGAATGTAGCATTGATGGGCATTTGGCATTA
TAATATATTTTAGAAGACCTTGGCTTCCCTTAATGTATACTTTCTACACCACATGCCTGATTTTT
TCTTGGC
Found at i:8378549 original size:56 final size:56
Alignment explanation
Indices: 8378478--8378584 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
8378468 TATCTTGGAA
* * *
8378478 AGAATATTTTCTTATTTTCT-TTTTACTTTATTTGTACTCTAAGTAAGTTTAAGGTT
1 AGAATATTTTCTTATTTGCTATTTT-CTTTACTTGTACACTAAGTAAGTTTAAGGTT
*
8378534 AGAATA-TTTCTTTATTTGCTATTTTCTTTACTTGTACACTAAGTAGGTTTA
1 AGAATATTTTC-TTATTTGCTATTTTCTTTACTTGTACACTAAGTAAGTTTA
8378585 GATTTAGTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 4 0.09
56 37 0.82
57 4 0.09
ACGTcount: A:0.25, C:0.10, G:0.11, T:0.53
Consensus pattern (56 bp):
AGAATATTTTCTTATTTGCTATTTTCTTTACTTGTACACTAAGTAAGTTTAAGGTT
Found at i:8378702 original size:49 final size:49
Alignment explanation
Indices: 8378559--8378689 Score: 199
Period size: 49 Copynumber: 2.7 Consensus size: 49
8378549 TTGCTATTTT
* *
8378559 CTTTACTTGTACACTAAGTAGGTTTAGATTTAGTTGGTTATTATAATTA
1 CTTTACTTGTACACCAAGTAGGTTTAGGTTTAGTTGGTTATTATAATTA
* ** *
8378608 CTTTACTTATATTCCAAGTAAGTTTAGGTTTAGTTGGTTATTATAATTA
1 CTTTACTTGTACACCAAGTAGGTTTAGGTTTAGTTGGTTATTATAATTA
*
8378657 CTTTACTTGCACACCAAGTAGGTTTAGGTTTAG
1 CTTTACTTGTACACCAAGTAGGTTTAGGTTTAG
8378690 ATAGCTATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 71 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (49 bp):
CTTTACTTGTACACCAAGTAGGTTTAGGTTTAGTTGGTTATTATAATTA
Found at i:8389723 original size:19 final size:21
Alignment explanation
Indices: 8389695--8389737 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
8389685 GATATTTTTT
8389695 AAAACATAAT-A-TTTATTTCA
1 AAAACATAATAAGTTTATTT-A
8389715 AAAAC-TAATAAGTTTATTTA
1 AAAACATAATAAGTTTATTTA
8389735 AAA
1 AAA
8389738 TTTTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAACATAATAAGTTTATTTA
Found at i:8389862 original size:2 final size:2
Alignment explanation
Indices: 8389855--8389881 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8389845 AAATTTCCTA
8389855 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 A
8389882 AGCCTTTTAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8397358 original size:24 final size:24
Alignment explanation
Indices: 8397331--8397378 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
8397321 TGATTAATGC
8397331 TTTAGATTGACTGAAATAGAAGTT
1 TTTAGATTGACTGAAATAGAAGTT
8397355 TTTAGATTGACTGAAATAGAAGTT
1 TTTAGATTGACTGAAATAGAAGTT
8397379 GATCACAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTAGATTGACTGAAATAGAAGTT
Found at i:8401941 original size:43 final size:43
Alignment explanation
Indices: 8401876--8401958 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 43
8401866 ACGTGTAGAG
* *
8401876 TTATGATGCCATCTATTAAGACTGCT-TCGGATGATGATTACAT
1 TTATGATGCCATCCATTAAGACTACTCT-GGATGATGATTACAT
* *
8401919 TTATGATGCCATCCGTTGAGACTACTCTGGATGATGATTA
1 TTATGATGCCATCCATTAAGACTACTCTGGATGATGATTA
8401959 TGTCCATGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (43 bp):
TTATGATGCCATCCATTAAGACTACTCTGGATGATGATTACAT
Found at i:8416306 original size:2 final size:2
Alignment explanation
Indices: 8416299--8416330 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8416289 ATAACTCATA
8416299 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8416331 ACACACACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:8421137 original size:20 final size:21
Alignment explanation
Indices: 8421112--8421152 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
8421102 ATATTATTTT
8421112 TTATTA-ATTTTAAAAAATTA
1 TTATTATATTTTAAAAAATTA
8421132 TTATTATATTTTAAAAAATTA
1 TTATTATATTTTAAAAAATTA
8421153 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTATATTTTAAAAAATTA
Found at i:8422189 original size:3 final size:3
Alignment explanation
Indices: 8422175--8422204 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8422165 TTTGCTTTCC
*
8422175 TCT TCT TAT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
8422205 AATTTTGGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:8429215 original size:3 final size:3
Alignment explanation
Indices: 8429207--8429234 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8429197 ATTTTCCACA
8429207 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8429235 TCCAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8432842 original size:5 final size:5
Alignment explanation
Indices: 8432832--8432871 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
8432822 ATATTTATGT
8432832 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA
8432872 TATACTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:8432919 original size:25 final size:24
Alignment explanation
Indices: 8432885--8432950 Score: 73
Period size: 26 Copynumber: 2.7 Consensus size: 24
8432875 ACTTAAAATT
8432885 AAAATAATTTAATTT-TTTAATTTTA
1 AAAATAATTTAATTTATTT--TTTTA
8432910 AAAATAATTTTAATTTAATTTTTTTA
1 AAAATAA-TTTAATTT-ATTTTTTTA
*
8432936 ATAAT-ATTTAATTTA
1 AAAATAATTTAATTTA
8432951 AACACTCTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
23 1 0.03
24 8 0.22
25 8 0.22
26 17 0.46
28 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAAATAATTTAATTTATTTTTTTA
Found at i:8432930 original size:23 final size:24
Alignment explanation
Indices: 8432900--8432951 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
8432890 AATTTAATTT
8432900 TTTAATTTTAAAAATAAT-TTTAA
1 TTTAATTTTAAAAATAATATTTAA
***
8432923 TTTAATTTTTTTAATAATATTTAA
1 TTTAATTTTAAAAATAATATTTAA
8432947 TTTAA
1 TTTAA
8432952 ACACTCTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAATTTTAAAAATAATATTTAA
Found at i:8432932 original size:24 final size:23
Alignment explanation
Indices: 8432900--8432951 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
8432890 AATTTAATTT
8432900 TTTAATTTTAAAAATAAT-TTTAA
1 TTTAATTTT-AAAATAATATTTAA
**
8432923 TTTAATTTTTTTAATAATATTTAA
1 TTTAA-TTTTAAAATAATATTTAA
8432947 TTTAA
1 TTTAA
8432952 ACACTCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 11 0.44
24 14 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTAATTTTAAAATAATATTTAA
Found at i:8432934 original size:26 final size:26
Alignment explanation
Indices: 8432835--8432951 Score: 84
Period size: 25 Copynumber: 4.5 Consensus size: 26
8432825 TTTATGTATT
* **
8432835 TAATTTAATTTAATTTAATTT-AATT
1 TAATTTAATTTAATTTATTTTAAAAA
**
8432860 TAATTTAATTTATATACTTAAAATT-AAAA
1 TAATTTAATTTA-AT--TT-ATTTTAAAAA
8432889 TAATTTAATTT--TTTAATTTTAAAAA
1 TAATTTAATTTAATTT-ATTTTAAAAA
*
8432914 TAATTTTAATTTAATTT-TTTTAATAA
1 TAA-TTTAATTTAATTTATTTTAAAAA
8432940 T-ATTTAATTTAA
1 TAATTTAATTTAA
8432952 ACACTCTATC
Statistics
Matches: 78, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
24 16 0.21
25 20 0.26
26 20 0.26
28 5 0.06
29 17 0.22
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATTTAATTTAATTTATTTTAAAAA
Found at i:8447845 original size:3 final size:3
Alignment explanation
Indices: 8447839--8447866 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8447829 ATAATAATAG
8447839 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8447867 ATTCATATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8449292 original size:33 final size:33
Alignment explanation
Indices: 8449222--8449292 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
8449212 GTCACGTAAT
* * * *
8449222 CATCAATTATGATATGTCAGCATGTCACATTAT
1 CATCAATTATAATATGTCAGCATATCACATCAG
* * *
8449255 CATCAATTATAATATTTTAGCATATTACATCAG
1 CATCAATTATAATATGTCAGCATATCACATCAG
8449288 CATCA
1 CATCA
8449293 CGAGATATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (33 bp):
CATCAATTATAATATGTCAGCATATCACATCAG
Found at i:8473013 original size:2 final size:2
Alignment explanation
Indices: 8473006--8473040 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8472996 TTGATTCACT
* *
8473006 TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8473041 GTGTGTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:8474583 original size:13 final size:13
Alignment explanation
Indices: 8474565--8474589 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8474555 CGTTAGAAAA
8474565 GAGAAAAAAATTT
1 GAGAAAAAAATTT
8474578 GAGAAAAAAATT
1 GAGAAAAAAATT
8474590 AGATTTGATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (13 bp):
GAGAAAAAAATTT
Found at i:8479346 original size:62 final size:62
Alignment explanation
Indices: 8479270--8479393 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
8479260 GCATGCTCGG
*
8479270 AAGATTCTCCACCCTGTTTGCATTGTCTACGTCATAATCGTGTACTTGTAGCTGATCTTAAA
1 AAGATTCTCCACCCTGTTTGCATTGTCTACGTCATAATCCTGTACTTGTAGCTGATCTTAAA
8479332 AAGATTCTCCACCCTGTTTGCATTGTCTACGTCATAATCCTGTACTTGTAGCTGATCTTAAA
1 AAGATTCTCCACCCTGTTTGCATTGTCTACGTCATAATCCTGTACTTGTAGCTGATCTTAAA
8479394 TCAGATTATT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (62 bp):
AAGATTCTCCACCCTGTTTGCATTGTCTACGTCATAATCCTGTACTTGTAGCTGATCTTAAA
Found at i:8492575 original size:17 final size:18
Alignment explanation
Indices: 8492542--8492580 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8492532 AAATTACTTT
*
8492542 TCTTTCTCTCTCATTTTA
1 TCTTTCTCTCACATTTTA
*
8492560 TCTTTC-CTCACATTTTC
1 TCTTTCTCTCACATTTTA
8492577 TCTT
1 TCTT
8492581 CCATCTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.59
Consensus pattern (18 bp):
TCTTTCTCTCACATTTTA
Done.