Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 395 of 410
Found at i:119852173 original size:4 final size:4
Alignment explanation
Indices: 119852164--119852194 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
119852154 GGCCAAGGTT
119852164 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
119852195 TTTGTGTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:119860817 original size:18 final size:18
Alignment explanation
Indices: 119860794--119861076 Score: 158
Period size: 18 Copynumber: 15.3 Consensus size: 18
119860784 GAATAATTAT
119860794 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* ** *
119860812 TTATTCGGTAACAACCAA
1 TTATTCAGTAACAGTCAG
* * **
119860830 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
119860848 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
119860874 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
119860892 TTATTCAGTAA-AATTAG
1 TTATTCAGTAACAGTCAG
* * *
119860909 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
119860928 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
119860945 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* * *
119860964 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAG
* *
119860982 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
119861000 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
119861018 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
119861036 TTATCCTGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* *
119861054 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
119861072 TTATT
1 TTATT
119861077 TTATACCTTT
Statistics
Matches: 205, Mismatches: 46, Indels: 28
0.73 0.16 0.10
Matches are distributed among these distances:
17 16 0.08
18 155 0.76
19 18 0.09
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:119860836 original size:36 final size:36
Alignment explanation
Indices: 119860794--119861076 Score: 187
Period size: 36 Copynumber: 7.6 Consensus size: 36
119860784 GAATAATTAT
* * *
119860794 TTATTCAGTAACAGTCAGTTATTCGGTAACAACCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
119860830 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
119860866 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATTAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
119860910 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* *
119860945 TTCATTCAGTGACAATCAGTTATTCAGTAATAATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * *
119860982 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * *
119861019 -TATCCAGTAACAGTCAATTATCCTGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
*
119861054 TTATTCAGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
119861077 TTATACCTTT
Statistics
Matches: 187, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
35 10 0.05
36 133 0.71
37 18 0.10
42 2 0.01
43 5 0.03
44 19 0.10
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:119860943 original size:54 final size:53
Alignment explanation
Indices: 119860874--119861064 Score: 174
Period size: 54 Copynumber: 3.5 Consensus size: 53
119860864 AATTGATCGG
*
119860874 TTATCCAGTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACTATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACTATCAA
* * * * *
119860927 GTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAA-TAATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGT-AAAATTAGATATTCAGTAACT-ATCAA
* * * * * *
119860982 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAAC-AGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAA-AAT-TAGATATTCAGTAACTA-TCAA
*
119861036 TTATCCTGTAACAGTCAATTATTCAGTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAA
119861065 TAATCAGTTA
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
53 5 0.05
54 81 0.74
55 23 0.21
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.36
Consensus pattern (53 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAATTAGATATTCAGTAACTATCAA
Found at i:119861009 original size:72 final size:71
Alignment explanation
Indices: 119860875--119861076 Score: 228
Period size: 72 Copynumber: 2.8 Consensus size: 71
119860865 ATTGATCGGT
* * * *
119860875 TATCCAGTAACAGTCAATTATTCAGTAAAATTAGA-TATTCAGTAACTATTAAGTTATTCAGTAG
1 TATCCAGTAACAATCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
119860939 CAGTC-AT
64 CAGTCTAA
* * *
119860946 TCATTCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
119861011 CAGTCTAA
64 CAGTCTAA
* * * * *
119861019 TATCCAGTAACAGTCAATTATCCTGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
119861077 TTATACCTTT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 93 0.85
73 16 0.15
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (71 bp):
TATCCAGTAACAATCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:119861289 original size:45 final size:45
Alignment explanation
Indices: 119861238--119861416 Score: 286
Period size: 45 Copynumber: 4.0 Consensus size: 45
119861228 ATTCGGAATA
* * * *
119861238 GTAACAGTAACAGTATTCAATACACAAAGTGCTGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
119861283 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
* **
119861328 GTAACAGTAACAATATTCGACACACAAAGTGCTGAATCGGTAATA
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
119861373 GTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
119861417 AGTTGCAGTA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 124 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
Found at i:119862315 original size:13 final size:13
Alignment explanation
Indices: 119862297--119862321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
119862287 CATTTCTTTT
119862297 ATTTCTTTATTTC
1 ATTTCTTTATTTC
119862310 ATTTCTTTATTT
1 ATTTCTTTATTT
119862322 TATTATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTCTTTATTTC
Found at i:119867004 original size:15 final size:15
Alignment explanation
Indices: 119866984--119867014 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
119866974 ATTGTTTTGC
119866984 TTATTTTTACTATTA
1 TTATTTTTACTATTA
*
119866999 TTATTTTTACTTTTA
1 TTATTTTTACTATTA
119867014 T
1 T
119867015 CCTATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTTACTATTA
Found at i:119867631 original size:13 final size:13
Alignment explanation
Indices: 119867613--119867639 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
119867603 ATTATTATCC
119867613 ATTTATTTAGTTT
1 ATTTATTTAGTTT
119867626 ATTTATTTAGTTT
1 ATTTATTTAGTTT
119867639 A
1 A
119867640 CAGTATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (13 bp):
ATTTATTTAGTTT
Found at i:119874415 original size:16 final size:16
Alignment explanation
Indices: 119874394--119874429 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
119874384 TAGAGTGAAA
119874394 AAAATTGAAGAAATAG
1 AAAATTGAAGAAATAG
*
119874410 AAAATTGAAGTAATAG
1 AAAATTGAAGAAATAG
119874426 AAAA
1 AAAA
119874430 ATATAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.17, T:0.19
Consensus pattern (16 bp):
AAAATTGAAGAAATAG
Found at i:119876551 original size:26 final size:25
Alignment explanation
Indices: 119876513--119876563 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
119876503 GCAAAAGTTG
119876513 AAATTTTCATTTTCTTCAAAAACGT
1 AAATTTTCATTTTCTTCAAAAACGT
119876538 AAATTTTCATTTTTCTTCAAAAACGT
1 AAATTTTCA-TTTTCTTCAAAAACGT
119876564 CTACCCTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.35, C:0.16, G:0.04, T:0.45
Consensus pattern (25 bp):
AAATTTTCATTTTCTTCAAAAACGT
Found at i:119883163 original size:6 final size:6
Alignment explanation
Indices: 119883148--119883186 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
119883138 TTTTACTATT
*
119883148 ATTTCG ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
1 ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATTTCA ATT
119883187 ATTATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.51
Consensus pattern (6 bp):
ATTTCA
Found at i:119884585 original size:12 final size:13
Alignment explanation
Indices: 119884570--119884598 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
119884560 AAATGTAAAA
119884570 TTTT-AAAATAAT
1 TTTTAAAAATAAT
119884582 TTTTAAAAATAAT
1 TTTTAAAAATAAT
119884595 TTTT
1 TTTT
119884599 TTTTTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTTAAAAATAAT
Found at i:119891282 original size:6 final size:6
Alignment explanation
Indices: 119891271--119891312 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
119891261 CTCATGTGCC
119891271 TACATA TACATA TACATA TACATA TACATA TACATA TACATA
1 TACATA TACATA TACATA TACATA TACATA TACATA TACATA
119891313 AGCTCGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
TACATA
Found at i:119891455 original size:2 final size:2
Alignment explanation
Indices: 119891448--119891472 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
119891438 CATACATACA
119891448 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
119891473 AAAACTCTAT
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:119905356 original size:40 final size:40
Alignment explanation
Indices: 119905282--119905427 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
119905272 CCGCACCAAG
* * * * * *
119905282 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
119905322 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
119905362 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
119905402 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
119905428 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:119905448 original size:40 final size:40
Alignment explanation
Indices: 119905314--119905465 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
119905304 ATCACGATTT
* * * * * *
119905314 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
*
119905354 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * * **
119905394 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTACCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
119905434 GCATAATTATCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTACCTTCGGGTCTTAGCCCGGATAT
119905466 CATTCAATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 4 0.04
40 90 0.94
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTACCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:119914097 original size:14 final size:14
Alignment explanation
Indices: 119914080--119914109 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
119914070 TAAAAGGGAG
119914080 CTCACAAAATAGAT
1 CTCACAAAATAGAT
*
119914094 CTCATAAAATAGAT
1 CTCACAAAATAGAT
119914108 CT
1 CT
119914110 GCAAACTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (14 bp):
CTCACAAAATAGAT
Found at i:119914206 original size:56 final size:55
Alignment explanation
Indices: 119914094--119914268 Score: 217
Period size: 55 Copynumber: 3.2 Consensus size: 55
119914084 CAAAATAGAT
* * * * *
119914094 CTCATAAAATAGATCTGCAAACTCAAAAGAAAAAAACAATTGGGGTAAAAGAGAG
1 CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAGACAATTGGAGTGAAAGAGAG
* *
119914149 CTCACAAAATAGATCTGTAGACTGAAAAGAGAAAAGACAATTGGAGTGAAAGAGAG
1 CTCACAAAATAGATCTGCAAACTGAAAAGA-AAAAGACAATTGGAGTGAAAGAGAG
* * * * *
119914205 CTCATAAAATAGATCTACAAACTGAAAAAAAAAAGATAATT-GAGGTGAAGGAGAG
1 CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAGACAATTGGA-GTGAAAGAGAG
119914260 CTCACAAAA
1 CTCACAAAA
119914269 AGAAAGAGAG
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
54 2 0.02
55 54 0.52
56 47 0.46
ACGTcount: A:0.51, C:0.12, G:0.20, T:0.17
Consensus pattern (55 bp):
CTCACAAAATAGATCTGCAAACTGAAAAGAAAAAGACAATTGGAGTGAAAGAGAG
Found at i:119920085 original size:24 final size:25
Alignment explanation
Indices: 119920058--119920107 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
119920048 GATGGTAAAA
*
119920058 TTATAATTTCATCATTTT-AATAGT
1 TTATAATTTCATAATTTTAAATAGT
* *
119920082 TTATATTTTTATAATTTTAAATAGT
1 TTATAATTTCATAATTTTAAATAGT
119920107 T
1 T
119920108 AAATCAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
TTATAATTTCATAATTTTAAATAGT
Found at i:119921632 original size:19 final size:19
Alignment explanation
Indices: 119921610--119921650 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
119921600 TTAATTAAAT
119921610 TAAGACTTAACTTAATAAG
1 TAAGACTTAACTTAATAAG
119921629 TAAGACTTAACTTAATAAG
1 TAAGACTTAACTTAATAAG
119921648 TAA
1 TAA
119921651 TATCTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (19 bp):
TAAGACTTAACTTAATAAG
Found at i:119923126 original size:30 final size:30
Alignment explanation
Indices: 119923090--119923150 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
119923080 TTGGTTGGAC
119923090 CCGATTTGGCCCATACTGAAACCCATTAAT
1 CCGATTTGGCCCATACTGAAACCCATTAAT
*
119923120 CCGATTTGGCCCATATTGAAACCCATTAAT
1 CCGATTTGGCCCATACTGAAACCCATTAAT
119923150 C
1 C
119923151 TATCTTACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.28
Consensus pattern (30 bp):
CCGATTTGGCCCATACTGAAACCCATTAAT
Found at i:119932651 original size:34 final size:36
Alignment explanation
Indices: 119932599--119932665 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
119932589 CAAATAATTT
119932599 AAAAATTATACAAATATTCATAAAAT-AAAATTTGA
1 AAAAATTATACAAATATTCATAAAATCAAAATTTGA
* *
119932634 AAAAATTATA-AATTATTCATAAATTCAAAATT
1 AAAAATTATACAAATATTCATAAAATCAAAATT
119932666 ATTAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.34
Consensus pattern (36 bp):
AAAAATTATACAAATATTCATAAAATCAAAATTTGA
Found at i:119932942 original size:59 final size:59
Alignment explanation
Indices: 119932877--119933006 Score: 176
Period size: 59 Copynumber: 2.2 Consensus size: 59
119932867 AAATATTATA
* *
119932877 TTAATAG-A-ATCATA-TAAGTAATTTATTTTCTTTAAATAAAAGAAAATTACCCTAAGCAT
1 TTAATAGTATATCATATTAA-TAATTT-TTTT-TTAAAATAAAAGAAAATTACCCCAAGCAT
**
119932936 TTAATAGTATATTGTATTAATAATTTTTTTTTAAAATAAAAGAAAATTACCCCAAGCAT
1 TTAATAGTATATCATATTAATAATTTTTTTTTAAAATAAAAGAAAATTACCCCAAGCAT
119932995 TTAATAGTATAT
1 TTAATAGTATAT
119933007 TGCATTAATT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
59 46 0.72
60 5 0.08
61 10 0.16
62 3 0.05
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (59 bp):
TTAATAGTATATCATATTAATAATTTTTTTTTAAAATAAAAGAAAATTACCCCAAGCAT
Found at i:119933007 original size:59 final size:61
Alignment explanation
Indices: 119932895--119933015 Score: 201
Period size: 59 Copynumber: 2.0 Consensus size: 61
119932885 ATCATATAAG
* * *
119932895 TAATTTATTTTCTTTAAATAAAAGAAAATTACCCTAAGCATTTAATAGTATATTGTATTAA
1 TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
119932956 TAATTT-TTTT-TTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
1 TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
119933015 T
1 T
119933016 TAGTATCTAA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 47 0.82
60 4 0.07
61 6 0.11
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (61 bp):
TAATTTATTTTCTTAAAATAAAAGAAAATTACCCCAAGCATTTAATAGTATATTGCATTAA
Found at i:119933763 original size:29 final size:31
Alignment explanation
Indices: 119933731--119933805 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
119933721 AATTTGATAC
119933731 ATGAACTTTAATTTGG-T-AGAAT-TATACAT
1 ATGAACTTTAATTTGGTTCA-AATGTATACAT
*
119933760 ATGAAACTTTGATTGTGGTTCAAATGTATACAT
1 ATG-AACTTTAATT-TGGTTCAAATGTATACAT
*
119933793 -TAAACTTTAATTT
1 ATGAACTTTAATTT
119933806 TGATTCAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 3 0.08
30 10 0.26
31 12 0.32
32 5 0.13
33 8 0.21
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (31 bp):
ATGAACTTTAATTTGGTTCAAATGTATACAT
Found at i:119933813 original size:31 final size:33
Alignment explanation
Indices: 119933753--119933813 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
119933743 TTGGTAGAAT
* *
119933753 TATACATATGAAACTTTGATTGTGGTTCAAATG
1 TATACATATGAAACTTTAATTGTGATTCAAATG
*
119933786 TATACAT-T-AAACTTTAATTTTGATTCAA
1 TATACATATGAAACTTTAATTGTGATTCAA
119933814 TCGTGCACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 17 0.68
32 1 0.04
33 7 0.28
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (33 bp):
TATACATATGAAACTTTAATTGTGATTCAAATG
Found at i:119937762 original size:2 final size:2
Alignment explanation
Indices: 119937755--119937782 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
119937745 TGTTTGCAAA
119937755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119937783 TACTCATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:119939060 original size:21 final size:21
Alignment explanation
Indices: 119939034--119939090 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
119939024 AAACATGCAT
*
119939034 AAAAATTATTAAAATTTTTTA
1 AAAAATTATTAAAATGTTTTA
*
119939055 AAAAATCATTAAAA-GTTTTA
1 AAAAATTATTAAAATGTTTTA
*
119939075 AAAAA-TAATAAAATGT
1 AAAAATTATTAAAATGT
119939091 ATTGTACTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 6 0.19
20 12 0.39
21 13 0.42
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAAATTATTAAAATGTTTTA
Found at i:119939086 original size:19 final size:20
Alignment explanation
Indices: 119939050--119939087 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
119939040 TATTAAAATT
*
119939050 TTTTAAAAAATCATTAAAAG
1 TTTTAAAAAATCAATAAAAG
119939070 TTTTAAAAAAT-AATAAAA
1 TTTTAAAAAATCAATAAAA
119939088 TGTATTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATCAATAAAAG
Found at i:119939863 original size:16 final size:17
Alignment explanation
Indices: 119939832--119939864 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
119939822 GAAAGTAAGA
*
119939832 TTAAATTTTCTAAATAT
1 TTAAATTCTCTAAATAT
119939849 TTAAATTCT-TAAATAT
1 TTAAATTCTCTAAATAT
119939865 ATATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTCTCTAAATAT
Found at i:119940326 original size:24 final size:23
Alignment explanation
Indices: 119940282--119940327 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
119940272 CACTTTATCA
*
119940282 TTTTATTTTATTTCATTTATATG
1 TTTTATTTCATTTCATTTATATG
119940305 TTTTATCTTCATTTC-TTCTATAT
1 TTTTAT-TTCATTTCATT-TATAT
119940328 AATTATTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTTCATTTCATTTATATG
Found at i:119947743 original size:22 final size:22
Alignment explanation
Indices: 119947718--119947766 Score: 84
Period size: 20 Copynumber: 2.3 Consensus size: 22
119947708 ATACTCCCCA
119947718 TCTTATATAAATGTGTATGTTT
1 TCTTATATAAATGTGTATGTTT
119947740 TC-T-TATAAATGTGTATGTTT
1 TCTTATATAAATGTGTATGTTT
119947760 TCTTATA
1 TCTTATA
119947767 AATTTATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 19 0.76
21 2 0.08
22 4 0.16
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (22 bp):
TCTTATATAAATGTGTATGTTT
Found at i:119947748 original size:20 final size:20
Alignment explanation
Indices: 119947723--119947769 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
119947713 CCCCATCTTA
119947723 TATAAATGTGTATGTTTTCT
1 TATAAATGTGTATGTTTTCT
119947743 TATAAATGTGTATGTTTTCT
1 TATAAATGTGTATGTTTTCT
119947763 TATAAAT
1 TATAAAT
119947770 TTATTCTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
TATAAATGTGTATGTTTTCT
Found at i:119951173 original size:2 final size:2
Alignment explanation
Indices: 119951166--119951196 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
119951156 ATTTTCTAAT
119951166 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
119951197 TTGCATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:119960358 original size:17 final size:17
Alignment explanation
Indices: 119960338--119960394 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
119960328 CATATTTTAA
119960338 ATTGACTTATTTTTTTT
1 ATTGACTTATTTTTTTT
** *
119960355 ATTGAAGCCCA-TTTTTTA
1 ATTG-A-CTTATTTTTTTT
119960373 ATTGACTTATTTTTTTT
1 ATTGACTTATTTTTTTT
119960390 ATTGA
1 ATTGA
119960395 AGCCCATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
16 2 0.06
17 16 0.52
18 11 0.35
19 2 0.06
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (17 bp):
ATTGACTTATTTTTTTT
Found at i:119960369 original size:18 final size:18
Alignment explanation
Indices: 119960348--119960406 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
119960338 ATTGACTTAT
119960348 TTTTTTTATTGAAGCCCA
1 TTTTTTTATTGAAGCCCA
* **
119960366 TTTTTTAATTG-A-CTTA
1 TTTTTTTATTGAAGCCCA
119960382 TTTTTTTTATTGAAGCCCA
1 -TTTTTTTATTGAAGCCCA
119960401 TTTTTT
1 TTTTTT
119960407 AATCTAATCT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 2 0.06
17 11 0.34
18 17 0.53
19 2 0.06
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTTTTTATTGAAGCCCA
Found at i:119960377 original size:35 final size:35
Alignment explanation
Indices: 119960327--119960409 Score: 148
Period size: 35 Copynumber: 2.3 Consensus size: 35
119960317 AAAGCTTAAT
*
119960327 CCATATTTTAAATTGACTTATTTTTTTTATTGAAGC
1 CCAT-TTTTTAATTGACTTATTTTTTTTATTGAAGC
119960363 CCATTTTTTAATTGACTTATTTTTTTTATTGAAGC
1 CCATTTTTTAATTGACTTATTTTTTTTATTGAAGC
119960398 CCATTTTTTAAT
1 CCATTTTTTAAT
119960410 CTAATCTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 42 0.91
36 4 0.09
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (35 bp):
CCATTTTTTAATTGACTTATTTTTTTTATTGAAGC
Found at i:119960404 original size:17 final size:17
Alignment explanation
Indices: 119960349--119960407 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
119960339 TTGACTTATT
119960349 TTTTTTATTGAAGCCCA
1 TTTTTTATTGAAGCCCA
**
119960366 TTTTTTAATTG-A-CTTA
1 TTTTTT-ATTGAAGCCCA
119960382 TTTTTTTTATTGAAGCCCA
1 --TTTTTTATTGAAGCCCA
119960401 TTTTTTA
1 TTTTTTA
119960408 ATCTAATCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 2 0.06
17 18 0.55
18 11 0.33
19 2 0.06
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (17 bp):
TTTTTTATTGAAGCCCA
Found at i:119965395 original size:53 final size:53
Alignment explanation
Indices: 119965315--119965422 Score: 180
Period size: 53 Copynumber: 2.0 Consensus size: 53
119965305 CTTTGTGTCC
**
119965315 TCAATAGACTAATAAACCTGACTGAAGTGAACATCTCTTTTGATGTCTACATA
1 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
* *
119965368 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGCTGTTTACATA
1 TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
119965421 TC
1 TC
119965423 TGGGCATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.32
Consensus pattern (53 bp):
TCAATAGACTAATAAACCCAACTGAAGTGAACATCTCTTTTGATGTCTACATA
Found at i:119970501 original size:1 final size:1
Alignment explanation
Indices: 119970495--119970521 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
119970485 AGGTGAGGCC
119970495 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
119970522 GATCCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:119973760 original size:50 final size:50
Alignment explanation
Indices: 119973685--119973833 Score: 246
Period size: 50 Copynumber: 3.0 Consensus size: 50
119973675 CCATGGAAAC
119973685 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
119973735 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
119973785 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATG
119973834 GCAAATGACA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 88 0.98
51 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:119973884 original size:31 final size:31
Alignment explanation
Indices: 119973846--119974078 Score: 358
Period size: 31 Copynumber: 7.5 Consensus size: 31
119973836 AAATGACAAC
*
119973846 TGAAAAGTGGTAGCTTCAGCTACCTGATTAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
119973877 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
119973908 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
119973939 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
119973970 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
119974001 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* ** *
119974032 TGAAAAATGGTAGCACCAACTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
119974063 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
119974079 TGGCTACAAG
Statistics
Matches: 186, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 186 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:119974096 original size:7 final size:7
Alignment explanation
Indices: 119974084--119974112 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
119974074 AGCTTTGGCT
119974084 ACAAGTG
1 ACAAGTG
119974091 ACAAGTG
1 ACAAGTG
119974098 ACAAGTG
1 ACAAGTG
119974105 ACAAGTG
1 ACAAGTG
119974112 A
1 A
119974113 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:119974185 original size:47 final size:48
Alignment explanation
Indices: 119974116--119974239 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 48
119974106 CAAGTGATTT
*
119974116 CTGTATAAGACCATATCTGGGATATGGCATC-GTTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAG-TGAGATATATGACTA
* * *
119974163 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
119974211 C-GTGTAAGACCATAGCTGGGCTATGGCAT
1 CTGTATAAGACCATATCTGGGATATGGCAT
119974240 TATTATGTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 63 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:119996003 original size:5 final size:5
Alignment explanation
Indices: 119995993--119996028 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
119995983 TCTTAAACCT
*
119995993 TATAA TATAA TATAA CATAA TATAA TATAA TATAA T
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
119996029 GTTTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:119997859 original size:5 final size:5
Alignment explanation
Indices: 119997846--119997894 Score: 89
Period size: 5 Copynumber: 9.6 Consensus size: 5
119997836 GTTGTACAAT
119997846 ATAATA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAA-A ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATA
119997895 TATGACACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 39 0.91
6 4 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:120008963 original size:18 final size:20
Alignment explanation
Indices: 120008923--120008965 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
120008913 ATAATTATTA
120008923 ATTTTATATGTATAATAAAT
1 ATTTTATATGTATAATAAAT
*
120008943 ATTTTATAT-TA-AATTAAT
1 ATTTTATATGTATAATAAAT
120008961 ATTTT
1 ATTTT
120008966 TAAAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 2 0.09
20 9 0.41
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTATATGTATAATAAAT
Found at i:120009427 original size:82 final size:82
Alignment explanation
Indices: 120009290--120009453 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
120009280 TAGCATGGTC
120009290 GGGCTTTCGAGTTCGGGCCTATTTTGCTAACTCTAATCAAAACAACCTAATGACAACAATCAGTC
1 GGGCTTTCGAGTTCGGGCCTATTTTGCTAACTCTAATCAAAACAACCTAATGACAACAATCAGTC
120009355 AATTAAAAAACCATGAG
66 AATTAAAAAACCATGAG
120009372 GGGCTTTCGAGTTCGGGCCTATTTTGCTAACTCTAATCAAAACAACCTAATGACAACAATCAGTC
1 GGGCTTTCGAGTTCGGGCCTATTTTGCTAACTCTAATCAAAACAACCTAATGACAACAATCAGTC
120009437 AATTAAAAAACCATGAG
66 AATTAAAAAACCATGAG
120009454 AGAATCGCTG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.26
Consensus pattern (82 bp):
GGGCTTTCGAGTTCGGGCCTATTTTGCTAACTCTAATCAAAACAACCTAATGACAACAATCAGTC
AATTAAAAAACCATGAG
Found at i:120011003 original size:8 final size:8
Alignment explanation
Indices: 120010986--120011020 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
120010976 TGACGTGAAT
120010986 AATA-TAA
1 AATATTAA
120010993 AATATTAA
1 AATATTAA
120011001 AATATTAA
1 AATATTAA
*
120011009 AATATTAG
1 AATATTAA
120011017 AATA
1 AATA
120011021 ATAATAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 4 0.15
8 22 0.85
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (8 bp):
AATATTAA
Found at i:120011208 original size:20 final size:21
Alignment explanation
Indices: 120011166--120011208 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
120011156 CCTTTTTTAG
* *
120011166 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
120011187 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
120011207 AA
1 AA
120011209 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:120011425 original size:11 final size:11
Alignment explanation
Indices: 120011409--120011438 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120011399 TAACATTAAG
120011409 AATATATATAT
1 AATATATATAT
*
120011420 AATATAAATAT
1 AATATATATAT
120011431 AATATATA
1 AATATATA
120011439 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:120011775 original size:12 final size:12
Alignment explanation
Indices: 120011742--120011779 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
120011732 AAATGAAAAA
120011742 GAAGAGAG-AGG
1 GAAGAGAGAAGG
120011753 GAAGAGAGAAGG
1 GAAGAGAGAAGG
* *
120011765 GAGGAGGGAAGG
1 GAAGAGAGAAGG
120011777 GAA
1 GAA
120011780 ATCCGGCCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:120011900 original size:15 final size:13
Alignment explanation
Indices: 120011866--120011914 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
120011856 AAAAAATGTA
120011866 ATTTTTTTTATAT
1 ATTTTTTTTATAT
*
120011879 -TTGTTTTGTATAT
1 ATT-TTTTTTATAT
120011892 ATATTTTTTT-T-T
1 AT-TTTTTTTATAT
120011904 ATTTTTTTTAT
1 ATTTTTTTTAT
120011915 TATGATGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 10 0.33
14 6 0.20
15 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (13 bp):
ATTTTTTTTATAT
Found at i:120011989 original size:18 final size:18
Alignment explanation
Indices: 120011953--120012007 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
120011943 TCAAAAAAGG
*
120011953 AAAAAAAATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
120011969 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
120011987 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
120012004 AAAA
1 AAAA
120012008 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:120011990 original size:17 final size:17
Alignment explanation
Indices: 120011970--120012008 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
120011960 ATAAAAAATA
*
120011970 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
120011987 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
120012004 AAAAT
1 AAAAT
120012009 CACCTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:120012251 original size:21 final size:21
Alignment explanation
Indices: 120012225--120012280 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
120012215 GGTTTCTTGG
*
120012225 TTTTTTTGGGGGGGGTTAGGT
1 TTTTTTTTGGGGGGGTTAGGT
****
120012246 TTTTTTTTTTTTGGGTTAGGT
1 TTTTTTTTGGGGGGGTTAGGT
120012267 TTTTTTTTGGGGGG
1 TTTTTTTTGGGGGG
120012281 AGGGCTTAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.04, C:0.00, G:0.38, T:0.59
Consensus pattern (21 bp):
TTTTTTTTGGGGGGGTTAGGT
Found at i:120013087 original size:87 final size:89
Alignment explanation
Indices: 120012886--120013294 Score: 281
Period size: 87 Copynumber: 4.6 Consensus size: 89
120012876 TTATTCTTTA
* * * * * *
120012886 CTCGGCATGTGATCCTG-AGCTTAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAAC-TAG
1 CTCGACATGTGA-CCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTCAAAACATA-
* * *
120012948 ACATTAAAAACAGA--AATTGAAAATAG
63 A-ATTAAAAAAAAATCAATTGAAAATAC
* *
120012974 CTC-AGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-AAAACA-AA
1 CTCGA-CATGTGACCCGAA-GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTCAAAACATAA
* * * *
120013035 ATTTGTAAAATAGAT-TA-TGAAAATAC
64 A-TT-AAAAAAAAATCAATTGAAAATAC
* * * *
120013061 CTCGATATGTGACCCGAAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAGCATAAA
1 CTCGACATGTGACCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT-CAAAACATAAA
*
120013126 TTAAAAAAAAATCAATTGAAAATAT
65 TTAAAAAAAAATCAATTGAAAATAC
* * * * * * *
120013151 CTCGGCGTGTGGCCTGAGGCTCAACTTACTTCTCGCAATATGAGTTGATTTTTTTGACAAACATA
1 CTCGACATGTGACCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTCA-AAACATA
*
120013216 AATTGAAAAGAAAAA-AAATTGAAAATAC
63 AATT-AAAA-AAAAATCAATTGAAAATAC
* * * * *
120013244 CTC-AGC--GTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 CTCGA-CATGTGACCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
120013295 TTTTGGAAAA
Statistics
Matches: 260, Mismatches: 41, Indels: 39
0.76 0.12 0.11
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 70 0.27
88 47 0.18
89 13 0.05
90 50 0.19
91 37 0.14
92 15 0.06
93 19 0.07
94 5 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (89 bp):
CTCGACATGTGACCCGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTCAAAACATAAAT
TAAAAAAAAATCAATTGAAAATAC
Found at i:120013276 original size:91 final size:90
Alignment explanation
Indices: 120012961--120013496 Score: 431
Period size: 87 Copynumber: 5.9 Consensus size: 90
120012951 TTAAAAACAG
* * * *
120012961 AAATTGAAAATAGCTCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAGTTGA--T
1 AAATTGAAAATACCTCAG--CGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
120013023 TTTT-AAAACA-AAATTTGTAAAATAGA
64 TTTTGAAAACAGAAA-TTGAAAAAAAAA
** ** * * *
120013049 TTA-TGAAAATACCTC-GATATGTGACCCGAAGCTCAACTCACCTCTCGTAATATGAGTTGA--T
1 AAATTGAAAATACCTCAG-CGTGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
120013110 TTTTGCAAAGCATAAATT-AAAAAAAAA
64 TTTTG-AAAACAGAAATTGAAAAAAAAA
* * * * *
120013137 TCAATTGAAAATATCTCGGCGTGTGGCCTGAGGCTCAACTTACTTCTCGCAATATGAGTTGATTT
1 -AAATTGAAAATACCTCAGCGTGT-GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
120013202 TTTTGACAAACATAAATTGAAAAGAAAAA
64 TTTTGA-AAACAGAAATTGAAAA-AAAAA
*
120013231 AAATTGAAAATACCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
* *
120013295 TTTTGGAAAAACA-AAATTTG-AAAAACAG
64 TTTT-G-AAAACAGAAA-TTGAAAAAAAAA
* ** * * *
120013323 AATTTGAAAATACCTCAGCGTGTGAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAGCGTGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * *
120013388 TTTGAAACACAGAAATTG-AAGAACAG
65 TTTGAAA-ACAGAAATTGAAAAAAAAA
* * * * *
120013414 AAATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
120013476 TTGAAAGACGGAAATTGAAAA
66 TTGAAA-ACAGAAATTGAAAA
120013497 TGCCTTAACG
Statistics
Matches: 372, Mismatches: 52, Indels: 48
0.79 0.11 0.10
Matches are distributed among these distances:
85 4 0.01
86 3 0.01
87 95 0.26
88 10 0.03
89 10 0.03
90 51 0.14
91 66 0.18
92 51 0.14
93 38 0.10
94 43 0.12
95 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (90 bp):
AAATTGAAAATACCTCAGCGTGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
TTGAAAACAGAAATTGAAAAAAAAA
Found at i:120013332 original size:13 final size:14
Alignment explanation
Indices: 120013300--120013332 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
120013290 TTTTTTTTTG
120013300 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
120013314 GAAAAACAGAATTT
1 GAAAAACAAAATTT
120013328 GAAAA
1 GAAAA
120013333 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:120013476 original size:87 final size:86
Alignment explanation
Indices: 120013165--120014411 Score: 373
Period size: 91 Copynumber: 14.7 Consensus size: 86
120013155 GCGTGTGGCC
* * * * *
120013165 TGAGGCTCAACTTACTTCTCGCAATATGAGTTGATTTTTTTGACAAACATAAATTGAAAAGAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGA-AAACAGAAATTG--AAGAACA
* *
120013230 AAAATTGAAAATACCTCAGCGTGTCC
63 GAAATTGAAAATACCTCAGC--GTCT
* * *
120013256 TGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGGAAAAACA-AAATTTGAAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTTT-G-AAAACAGAAA-TTGAAGAA
* *
120013320 CAGAATTTGAAAATACCTCAGCGTGT
61 CAGAAATTGAAAATACCTCAGCGTCT
* *
120013346 GAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAA
1 ---T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAGAA
* *
120013411 CAGAAATGGAAAACACCTCAGCGTCT
61 CAGAAATTGAAAATACCTCAGCGTCT
* * *
120013437 TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACGGAAATTGAA-AA-TG-
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAGAACAGA
** *
120013499 CCTT----A-A---C-GTGTCT
65 AATTGAAAATACCTCAGCGTCT
* ** *
120013512 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAACTTAACTTGAA-AAGCAGA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAGAA-CAGA
** * * *
120013573 TTTTGAAAATGCCTCGATATGTGACT
65 AATTGAAAATACCTC---A-GCGTCT
** * * * *
120013599 CAAGGCTCAAGTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATT---GAA-A-A
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTG-AAAACAGAAATTGAAGAACAGA
* *
120013657 AA---AAAATACCTCAGTGTGTGAT
65 AATTGAAAATACCTCA--GCGT-CT
* * * *
120013679 CTGAAGCTCAACTCACCTCTCGCAATATGAG-TTAATTTTTTGAAAGACAGAAATTGAA-AATAG
1 -TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAGAACAG
* * *** * *
120013742 ---CT--CAGCGCGTGAGC--C-
64 AAATTGAAAATACCTCAGCGTCT
* * * *
120013757 -AAGGCTCAACTCACCTCTCGTAATATGAG-TCGATTTTTTTGAAAGGCAGAAATTGAAAAAC-G
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCT-GATTTTTTTGAAA-ACAGAAATTGAAGAACAG
* *
120013819 AAAATTGAAAATACCTCGGCATGTGAT
64 -AAATTGAAAATACCTCAGC--GT-CT
* * *
120013846 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAA-AATAG
1 -TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA-ACAGAAATTGAAGAACAG
* * *** * *
120013910 ---CT--CAGCGCGTGAGC--C-
64 AAATTGAAAATACCTCAGCGTCT
* * ** * *
120013925 -AAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAAATTGAAAAAC
1 TGAGGCTCAACTCACCTCTCGCAATATGAG-CTGA--TTTTTTTGAAA-ACAGAAATTGAAGAAC
* *
120013989 -GAAAATTGAAAATACCTCGGCGTGTGACC
62 AG-AAATTGAAAATACCTCAGC--GT--CT
* * * * * *
120014018 TGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTACAACAGAAATT-------A-A
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAAACAGAAATTGAAGAACAGA
** ** * *
120014075 AATT--ACCT-CAGC-GTGTCC
65 AATTGAAAATACCTCAGCGTCT
* * *
120014093 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTTGAAAAAC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTTTGAAA-ACAGAAA-TTGAAGAAC
* *
120014158 -GAAAATTGAAAATACCTCGACGTGTGACC
62 AG-AAATTGAAAATACCTC-A-GCGT--CT
* * *
120014187 TGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT-AACAACAGAAATT--------GA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAA-AACAGAAATTGAAGAACAGA
** ** * *
120014243 AATT--ACCT-CAGC-GTGTCC
65 AATTGAAAATACCTCAGCGTCT
* * * *
120014261 TGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGGCAGAAATTTGAAAAAC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTTTGAAA-ACAGAAA-TTGAAGAAC
* *
120014326 -GAAAATTGAAAATACCTCGACGTGTGACC
62 AG-AAATTGAAAATACCTC-A-GCGT--CT
** * * *
120014355 TGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAA
120014412 ATTACCTCAG
Statistics
Matches: 879, Mismatches: 155, Indels: 245
0.69 0.12 0.19
Matches are distributed among these distances:
71 11 0.01
72 2 0.00
73 7 0.01
74 35 0.04
75 70 0.08
76 50 0.06
77 67 0.08
78 9 0.01
79 8 0.01
80 32 0.04
81 43 0.05
82 20 0.02
83 11 0.01
84 9 0.01
85 9 0.01
86 17 0.02
87 97 0.11
88 5 0.01
89 12 0.01
90 14 0.02
91 139 0.16
92 71 0.08
93 12 0.01
94 128 0.15
95 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (86 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAACAGAAATTGAAGAACAGAA
ATTGAAAATACCTCAGCGTCT
Found at i:120013775 original size:76 final size:77
Alignment explanation
Indices: 120013593--120013986 Score: 235
Period size: 76 Copynumber: 4.9 Consensus size: 77
120013583 GCCTCGATAT
* * * * *
120013593 GTGA-CTCAAGGCTCAAGTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACAGAAATTG---
* *
120013656 AAAAAAATACCTCAGTGT
63 ---AAAATACCTCAGCGC
* *
120013674 GTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACAGAAATTGAAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACAGAAATTGAAA
*
120013738 ATAGCTCAGCGC
66 ATACCTCAGCGC
* * * *
120013750 GTGAGC-CAAGGCTCAACTCACCTCTCGTAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAA
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGT-TAATTTTTTGAAAGACAGAAATT---
** **
120013814 AAACGAAAATTGAAAATACCTCGGC
62 ----GAAAA-T--ACCT-CAGC-GC
* * * * * * *
120013839 ATGTGATC-CGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATT
1 GTGAGCTCAAG-GCTC-AA-CTCACCTCTCGCAATATGAGTT-AATTTTTTGAAAGACAGAAATT
*
120013902 GAAAATAGCTCAGCGC
62 GAAAATACCTCAGCGC
* * *
120013918 GTGAGC-CAAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAAATT
1 GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGT-TAA---TTTTTTGAAAGACAGAAATT
120013982 GAAAA
62 GAAAA
120013987 ACGAAAATTG
Statistics
Matches: 244, Mismatches: 42, Indels: 55
0.72 0.12 0.16
Matches are distributed among these distances:
75 2 0.01
76 43 0.18
77 42 0.17
78 3 0.01
79 6 0.02
80 26 0.11
81 34 0.14
82 21 0.09
83 1 0.00
84 10 0.04
85 1 0.00
87 2 0.01
88 2 0.01
89 7 0.03
90 3 0.01
91 41 0.17
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (77 bp):
GTGAGCTCAAGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACAGAAATTGAAA
ATACCTCAGCGC
Found at i:120013936 original size:77 final size:79
Alignment explanation
Indices: 120013820--120013986 Score: 221
Period size: 77 Copynumber: 2.1 Consensus size: 79
120013810 TGAAAAACGA
* * * * **
120013820 AAATTGAAAATACCTCGGCATGTGATCCGAGGCTCAACTCACCTCTCGCAATATGAGT-TGA-TT
1 AAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCAAATTT
120013883 TTTTTGAAAGACAG
66 TTTTTGAAAGACAG
* * *
120013897 AAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTT
1 AAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCAAA-TT
*
120013962 TTTTTTGAAAGGCAG
65 TTTTTTGAAAGACAG
120013977 AAATTGAAAA
1 AAATTGAAAA
120013987 ACGAAAATTG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 51 0.66
78 1 0.01
80 25 0.32
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (79 bp):
AAATTGAAAATACCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCAAATTT
TTTTTGAAAGACAG
Found at i:120013968 original size:248 final size:239
Alignment explanation
Indices: 120013443--120013986 Score: 555
Period size: 248 Copynumber: 2.2 Consensus size: 239
120013433 GTCTTGAGGT
* * * * *
120013443 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACGGAAATTGAAAAT-GCCTTA--A
1 TCAACTCACCTCTCGCAATATGAG-TAAATTTTTTGAAAGACAGAAATTGAAAATAG-CTCAGCG
* ** * ** * *
120013505 CGTG-TCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAG
64 CGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACAGAAATTGAAAAA
** * * *
120013569 CAGATTTTGAAAATGCCTCGATATGTGACTCAAGGCTCAAGTCACCTCTCGCAATATGAGTTGAT
128 CAGAAATTGAAAATACCTCGACATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * * *
120013634 TTTTGAAAAATATAAATTGAAAAAAAAAATACCTCAGTGTGTGATCTGAAGC
193 TTTTGAAAAACAGAAATTG-----AAAAATACCTCAGCGCGTGAGCTCAAGC
*
120013686 TCAACTCACCTCTCGCAATATGAGTTAATTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCG
1 TCAACTCACCTCTCGCAATATGAGTAAATTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCG
*
120013751 TGAGCCAAGGCTCAACTCACCTCTCGTAATATGAGTCGATTTTTTTGAAAGGCAGAAATTGAAAA
66 TGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA--TTTTTGAAA--CAGAAATTGAAAA
* *
120013816 AC-GAAAATTGAAAATACCTCGGCATGTGA-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
127 ACAG-AAATTGAAAATACCTCGACATGTGACT-CAAGGCTCAACTCACCTCTCGCAATATGAGTT
* *
120013879 GATTTTTTTGAAAGACAGAAATTG-AAAATAGCTCAGCGCGTGAGC-CAAGGC
190 GA--TTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGCGTGAGCTCAA-GC
* *
120013930 TTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGT-AAA---TTTTTTGAAAGACAGAAATTGAAAA
120013987 ACGAAAATTG
Statistics
Matches: 252, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
242 30 0.12
243 27 0.11
244 77 0.31
245 3 0.01
246 9 0.04
247 2 0.01
248 87 0.35
250 17 0.07
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (239 bp):
TCAACTCACCTCTCGCAATATGAGTAAATTTTTTGAAAGACAGAAATTGAAAATAGCTCAGCGCG
TGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAACAGAAATTGAAAAACAG
AAATTGAAAATACCTCGACATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAAACAGAAATTGAAAAATACCTCAGCGCGTGAGCTCAAGC
Found at i:120014146 original size:77 final size:76
Alignment explanation
Indices: 120013991--120014303 Score: 226
Period size: 75 Copynumber: 3.9 Consensus size: 76
120013981 TGAAAAACGA
* *
120013991 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
120014056 TTTTTACAACAG
65 TTTTTACAACAG
* *
120014068 AAATT-AAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAA-TACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTT
120014131 TTTTTGA-AAGGCAG
65 TTTTT-ACAA--CAG
** *** * *
120014145 AAATTTGAAAA-A-CGAAAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCG
1 AAA-TTGAAAATACCTCAGCGTG----TACCT-GA---G-G--CTCA-ACTC-AC-CG---CTCG
*
120014208 CAATACGAGTTGA-TTTTTTTAACAACAG
48 CAATACGAGTTGATTTTTTTTTACAACAG
* * * *
120014236 AAATTGAAATTACCTCAGCGTGT-CCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
120014300 TTTT
66 TTTT
120014304 GAAAGGCAGA
Statistics
Matches: 183, Mismatches: 25, Indels: 58
0.69 0.09 0.22
Matches are distributed among these distances:
74 16 0.09
75 51 0.28
76 9 0.05
77 25 0.14
78 4 0.02
79 7 0.04
80 4 0.02
81 3 0.02
82 3 0.02
83 1 0.01
85 1 0.01
86 3 0.02
87 3 0.02
88 4 0.02
89 3 0.02
90 8 0.04
91 8 0.04
92 5 0.03
93 9 0.05
94 16 0.09
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (76 bp):
AAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
TTTTACAACAG
Found at i:120014184 original size:169 final size:167
Alignment explanation
Indices: 120013659--120014470 Score: 1120
Period size: 168 Copynumber: 4.8 Consensus size: 167
120013649 ATTGAAAAAA
* * * * * *
120013659 AAAATACCTC-AGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGA
1 AAAATACCTCGA-CGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
* * * *
120013722 AAGACAGAAATTGAAAA-TAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGTAATATGA
65 CA-ACAGAAATT-AAAATTACCTCA--GCGTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGA
*
120013785 GTCGA--TTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
125 GTTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
* * * *
120013826 AAAATACCTCGGCATGTGATCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 AAAATACCTCGACGTGTGA-CCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
* * * *
120013890 AAGACAGAAATTGAAAA-TAGCTCAGCGCGTGAGCC-AAGGCTTAACTCACCTCTCGCAATATGA
65 CA-ACAGAAATT-AAAATTACCTCA--GCGTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGA
**
120013953 GTCAAATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
125 GT-TGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
* * *
120013997 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTA
1 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTGA
*
120014062 CAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 CAACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
120014127 TTTTTTTTTGAAAGGCAGAAATTTGAAAAACGAAAATTG
130 TTTTTTTTTGAAAGGCAGAAA-TTGAAAAACGAAAATTG
*
120014166 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTAAC
1 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* * *
120014231 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGAT
66 AACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
120014296 TTTTTTTTGAAAGGCAGAAATTTGAAAAACGAAAATTG
131 TTTTTTTTGAAAGGCAGAAA-TTGAAAAACGAAAATTG
*
120014334 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* * *
120014399 AACAGAAATTGAAATTACCTCAGCGTGTCCTTAGGCTCAACTCACCTCTCACAATATGAGTTGAT
66 AACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
120014464 TTTTTTT
131 TTTTTTT
120014471 AAAATACCTC
Statistics
Matches: 602, Mismatches: 32, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
167 45 0.07
168 339 0.56
169 104 0.17
170 6 0.01
171 99 0.16
172 9 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (167 bp):
AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTAAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTG
Found at i:120014303 original size:76 final size:75
Alignment explanation
Indices: 120014160--120014301 Score: 216
Period size: 74 Copynumber: 1.9 Consensus size: 75
120014150 TGAAAAACGA
*
120014160 AAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
120014225 TTTAACAACAG
65 TTTAACAACAG
* * *
120014236 AAATTGAAATTACCTC-AGCGTGT-CCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
120014299 TTT
65 TTT
120014302 TTGAAAGGCA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
74 40 0.66
75 1 0.02
76 20 0.33
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (75 bp):
AAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTT
TTAACAACAG
Found at i:120014454 original size:74 final size:75
Alignment explanation
Indices: 120014328--120014469 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 75
120014318 TGAAAAACGA
** *
120014328 AAATTGAAAATACCTCGACGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCGACGTGT-ACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTT
120014393 TTTGACAACAG
65 TTTGACAACAG
* * *
120014404 AAATTGAAATTACCTC-AGCGTGT-CCTTAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AAATTGAAAATACCTCGA-CGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTT
120014467 TTT
65 TTT
120014470 TAAAATACCT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
74 38 0.64
75 1 0.02
76 20 0.34
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (75 bp):
AAATTGAAAATACCTCGACGTGTACCTGAGGCTCAACTCACCTCTCACAATACGAGTTGATTTTT
TTGACAACAG
Found at i:120014470 original size:337 final size:337
Alignment explanation
Indices: 120013659--120014470 Score: 1169
Period size: 337 Copynumber: 2.4 Consensus size: 337
120013649 ATTGAAAAAA
* * * * * *
120013659 AAAATACCTC-AGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTGA
1 AAAATACCTCGA-CGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGA
* * * * *
120013722 AAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAGGCTCAACTCACCTCTCGTAATATGAG
65 CA-ACAGAAATTGAAATTACCTCA--GCGTG-TCCTAAGGCTCAACTCACCTCTCGCAATATGAG
* *
120013786 TCGA--TTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTGAAAATACCTCGGCATGTGATCCG
126 TTGATTTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTGAAAATACCTCGACATGTGATCCG
* *
120013849 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTCA
191 AGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCA
120013914 GCGCGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAA
256 -CGCGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAA
120013979 ATTGAAAAACGAAAATTG
320 ATTGAAAAACGAAAATTG
* * *
120013997 AAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGATTTTTTTTTA
1 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGA-TTTTTTTGA
* *
120014062 CAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
65 CAACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
120014127 TTTTTTTTTGAAAGGCAGAAATTTGAAAAACGAAAATTGAAAATACCTCGACGTGTGA-CCTGAG
130 TTTTTTTTTGAAAGGCAGAAA-TTGAAAAACGAAAATTGAAAATACCTCGACATGTGATCC-GAG
* *
120014191 GCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTT-AACA-ACAGAAATTGAAATTACCTCA-
193 GCTCAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAA-AGACAGAAATTGAAAATACCTCAC
* * **
120014253 GCGTG-TCCTGAGGCTTAACTCACCTCTCGCAATATGAGT-TGATTTTTTTTTGAAAGGCAGAAA
257 GCGTGAGCC-AAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAAA
120014316 TTTGAAAAACGAAAATTG
321 -TTGAAAAACGAAAATTG
*
120014334 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTGAC
1 AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
* *
120014399 AACAGAAATTGAAATTACCTCAGCGTGTCCTTAGGCTCAACTCACCTCTCACAATATGAGTTGAT
66 AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
120014464 TTTTTTT
131 TTTTTTT
120014471 AAAATACCTC
Statistics
Matches: 429, Mismatches: 34, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
336 104 0.24
337 138 0.32
338 45 0.10
339 61 0.14
340 81 0.19
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (337 bp):
AAAATACCTCGACGTGTGACCTGAGGCTCAACTCGCCTCTCGCAATACGAGTTGATTTTTTTGAC
AACAGAAATTGAAATTACCTCAGCGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAAGGCAGAAATTGAAAAACGAAAATTGAAAATACCTCGACATGTGATCCGAGGCT
CAACTCACCTCTCGCAATACGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCACGCGT
GAGCCAAGGCTTAACTCACCTCTCGCAATATGAGTCAAATTTTTTTTTGAAAGGCAGAAATTGAA
AAACGAAAATTG
Found at i:120014509 original size:61 final size:61
Alignment explanation
Indices: 120014414--120014528 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
120014404 AAATTGAAAT
* *
120014414 TACCTCAGCGTGTCCTTAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAA
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAA
*
120014475 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
120014529 GAAACATACG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (61 bp):
TACCTCAGCGCGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAA
Found at i:120014584 original size:137 final size:135
Alignment explanation
Indices: 120014353--120014604 Score: 353
Period size: 137 Copynumber: 1.9 Consensus size: 135
120014343 CGACGTGTGA
** *** *
120014353 CCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACC
1 CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTGAAACAACAAAAATTGAAATTACC
** * *
120014418 TCAGCGTGTCCTTAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAAAATACCTCAG
66 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTTTTTAAAATACCTCAG
120014483 CGCGT
131 CGCGT
*
120014488 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATACGAAAAATTGACAA-T
1 CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTGAAACA-AC-AAAAATTGA-AATT
* *
120014552 ACCTCAGCGTGTCCCGAGGCTCAACTCTCCTCTCGCAATATGAATTGAATTTT
63 ACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTT
120014605 GAAATAAAAC
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
135 41 0.41
136 2 0.02
137 56 0.55
138 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (135 bp):
CCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTTTGAAACAACAAAAATTGAAATTACC
TCAGCGTGTCCCGAGGCTCAACTCACCTCTCACAATATGAATTGAATTTTTTTAAAATACCTCAG
CGCGT
Found at i:120026391 original size:16 final size:15
Alignment explanation
Indices: 120026365--120026399 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
120026355 TGATGTGAAT
120026365 AATATAAAATATTAA
1 AATATAAAATATTAA
*
120026380 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
120026396 AATA
1 AATA
120026400 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:120026585 original size:20 final size:21
Alignment explanation
Indices: 120026543--120026585 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
120026533 CCTTTTTTAG
* *
120026543 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
120026564 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
120026584 AA
1 AA
120026586 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:120026802 original size:11 final size:11
Alignment explanation
Indices: 120026786--120026815 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
120026776 TAACATTAAG
120026786 AATATATATAT
1 AATATATATAT
*
120026797 AATATAAATAT
1 AATATATATAT
120026808 AATATATA
1 AATATATA
120026816 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:120027265 original size:13 final size:13
Alignment explanation
Indices: 120027222--120027271 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
120027212 CCACCTGTAA
120027222 TTTTT-TTATATT
1 TTTTTATTATATT
* *
120027234 TGTTTTGTATATATA
1 T-TTTTAT-TATATT
120027249 TTTTTATTATATT
1 TTTTTATTATATT
120027262 TTTTTATTAT
1 TTTTTATTAT
120027272 GATGTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 1 0.03
13 19 0.59
14 6 0.19
15 6 0.19
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTTTATTATATT
Found at i:120027342 original size:18 final size:18
Alignment explanation
Indices: 120027307--120027360 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
120027297 TCGAAAAAAG
120027307 AAAAA-AATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
120027322 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
120027340 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
120027357 AAAA
1 AAAA
120027361 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
15 8 0.25
16 4 0.12
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:120027345 original size:17 final size:17
Alignment explanation
Indices: 120027304--120027361 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
120027294 GATTCGAAAA
120027304 AAGA-AAAA-AATAAA-
1 AAGATAAAATAATAAAG
*
120027318 AA-ATAAAAATAA-AAAT
1 AAGAT-AAAATAATAAAG
120027334 AAGAGTAAAATAATAAAG
1 AAGA-TAAAATAATAAAG
120027352 AAGATAAAAT
1 AAGATAAAAT
120027362 CACCTTTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 7 0.19
16 4 0.11
17 14 0.39
18 8 0.22
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.16
Consensus pattern (17 bp):
AAGATAAAATAATAAAG
Found at i:120028837 original size:46 final size:46
Alignment explanation
Indices: 120028787--120028962 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
120028777 TATTTGGGCA
120028787 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
120028833 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
120028880 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
120028926 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120028963 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:120028942 original size:93 final size:93
Alignment explanation
Indices: 120028783--120028954 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
120028773 TGGATATTTG
* *
120028783 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120028848 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
120028876 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120028941 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
120028955 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:120031897 original size:15 final size:15
Alignment explanation
Indices: 120031877--120031945 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
120031867 GTATCTTGGG
120031877 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
120031892 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
120031907 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
120031922 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
120031937 TTTCTTTAT
1 TTTCTTTAT
120031946 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:120031946 original size:30 final size:30
Alignment explanation
Indices: 120031868--120031955 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
120031858 CATAGTATCG
* * * *
120031868 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
120031898 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
120031928 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
120031956 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:120034393 original size:46 final size:46
Alignment explanation
Indices: 120034340--120034515 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
120034330 TATTTGGGCA
120034340 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
120034386 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
120034433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
120034479 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
120034516 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:120034495 original size:93 final size:93
Alignment explanation
Indices: 120034336--120034507 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
120034326 GGGATATTTG
* *
120034336 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120034401 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
120034429 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
120034494 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
120034508 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:120035962 original size:23 final size:23
Alignment explanation
Indices: 120035915--120035979 Score: 103
Period size: 23 Copynumber: 2.7 Consensus size: 23
120035905 TTTTTTTGGG
120035915 GGGTTAGGTTTTTCTTCTTTTTTTTT
1 GGGTTAGG-TTTT-TT-TTTTTTTTT
120035941 GGGTTAGGTTTTTTTTTTTTTTT
1 GGGTTAGGTTTTTTTTTTTTTTT
120035964 GGGTTAGGTTTTTTTT
1 GGGTTAGGTTTTTTTT
120035980 GGGAGGGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
23 25 0.64
24 2 0.05
25 4 0.10
26 8 0.21
ACGTcount: A:0.05, C:0.03, G:0.23, T:0.69
Consensus pattern (23 bp):
GGGTTAGGTTTTTTTTTTTTTTT
Found at i:120039070 original size:2 final size:2
Alignment explanation
Indices: 120039065--120039101 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
120039055 CTACTATCTA
120039065 AT AT AT AT 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 AT AT AT AT A
120039102 CTATTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:120039464 original size:21 final size:20
Alignment explanation
Indices: 120039438--120039478 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
120039428 TTAAATAATG
*
120039438 TAAAAGTATAATTTAATTTTT
1 TAAAAGAATAA-TTAATTTTT
*
120039459 TAAAAGAATGATTAATTTTT
1 TAAAAGAATAATTAATTTTT
120039479 GTTTGTGGTT
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:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
TAAAAGAATAATTAATTTTT
Found at i:120040012 original size:91 final size:92
Alignment explanation
Indices: 120039834--120040018 Score: 363
Period size: 91 Copynumber: 2.0 Consensus size: 92
120039824 AAAAAAAAAG
120039834 CTCATGAGGAGAAATCTCCAAAGCAACTTGTAAAAATTCAACAAAATCCACCTTCACCAAAATCA
1 CTCATGAGGAGAAATCTCCAAAGCAACTTGTAAAAATTCAACAAAATCCACCTTCACCAAAATCA
120039899 TGCTTTGAAAGACACATCCAAGAGAAA
66 TGCTTTGAAAGACACATCCAAGAGAAA
120039926 CTCATGAGGAGAAATCTCCAAAGCAACTTGTAAAAATTCAAC-AAATCCACCTTCACCAAAATCA
1 CTCATGAGGAGAAATCTCCAAAGCAACTTGTAAAAATTCAACAAAATCCACCTTCACCAAAATCA
120039990 TGCTTTGAAAGACACATCCAAGAGAAA
66 TGCTTTGAAAGACACATCCAAGAGAAA
120040017 CT
1 CT
120040019 TCCCCAAATC
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 51 0.55
92 42 0.45
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.20
Consensus pattern (92 bp):
CTCATGAGGAGAAATCTCCAAAGCAACTTGTAAAAATTCAACAAAATCCACCTTCACCAAAATCA
TGCTTTGAAAGACACATCCAAGAGAAA
Found at i:120057106 original size:30 final size:30
Alignment explanation
Indices: 120057057--120057115 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
120057047 GTTTTCAGGA
* *
120057057 TCCACACAGGCTGGGCACACGCCCATGTGT
1 TCCACACAGGCAGGACACACGCCCATGTGT
*
120057087 TCCATACAGGCAGGACACACGCCCATGTG
1 TCCACACAGGCAGGACACACGCCCATGTG
120057116 CCAGCCCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.24, C:0.36, G:0.25, T:0.15
Consensus pattern (30 bp):
TCCACACAGGCAGGACACACGCCCATGTGT
Found at i:120062636 original size:24 final size:24
Alignment explanation
Indices: 120062605--120062650 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
120062595 GAGCTAATGG
120062605 ACAGTAAGCTCATACGAGCTGAGA
1 ACAGTAAGCTCATACGAGCTGAGA
* *
120062629 ACAGTAAGCTCTTGCGAGCTGA
1 ACAGTAAGCTCATACGAGCTGA
120062651 TATATCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.20
Consensus pattern (24 bp):
ACAGTAAGCTCATACGAGCTGAGA
Found at i:120068059 original size:30 final size:30
Alignment explanation
Indices: 120068001--120068059 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
120067991 ATTTTCGAGC
* **
120068001 CTAGGGGCAAAATGGTCATTTTGTCAAAGT
1 CTAGAGGCAAAATGGTCATTTTACCAAAGT
*
120068031 CTAGAGGCAAAATGGTCGTTTTACCAAAG
1 CTAGAGGCAAAATGGTCATTTTACCAAAG
120068060 AAATGAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGAGGCAAAATGGTCATTTTACCAAAGT
Found at i:120068458 original size:46 final size:45
Alignment explanation
Indices: 120068398--120068624 Score: 178
Period size: 46 Copynumber: 5.0 Consensus size: 45
120068388 TCACTTGTGT
* * *
120068398 GAGCTAGTGTAAGACATGCCTGGGACATGCATCGGCTACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACA-GATGA
* * ** *
120068444 GAGCCAGCGTAAGACCATATCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACAGATGA
* * *
120068492 GTGCTAGTGTAAGACAT-TCTGGGATATGCATCGGCCT-CGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTAC-AGATG-A
*
120068538 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTAC-GA-GA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGATGA
* ** *
120068580 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACAGAT
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAT
120068625 ATGCTAGAAC
Statistics
Matches: 144, Mismatches: 23, Indels: 27
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.08
45 44 0.31
46 47 0.33
47 15 0.10
48 22 0.15
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGATGA
Found at i:120069247 original size:56 final size:56
Alignment explanation
Indices: 120069180--120069291 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
120069170 GTTCGACTAA
*
120069180 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGATTACCTGCAATAAGT
1 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
120069236 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
1 ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
120069292 TTTTGAATCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.17
Consensus pattern (56 bp):
ATCATTGAACCACCCAACAAGGACTACAAACAACACTAGGACTACCTGCAATAAGT
Found at i:120072797 original size:12 final size:12
Alignment explanation
Indices: 120072780--120072818 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
120072770 GAGAAATTTA
120072780 TTATTATAATAT
1 TTATTATAATAT
120072792 TTATTATAATAT
1 TTATTATAATAT
*
120072804 TTATGAATAATAT
1 TTAT-TATAATAT
120072817 TT
1 TT
120072819 TGGATAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
TTATTATAATAT
Found at i:120073344 original size:10 final size:10
Alignment explanation
Indices: 120073331--120073363 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
120073321 CTTTGGGTAG
120073331 AAAGAAAAGC
1 AAAGAAAAGC
120073341 AAAGAAAAGC
1 AAAGAAAAGC
*
120073351 AAAGAAATGC
1 AAAGAAAAGC
120073361 AAA
1 AAA
120073364 AGATCAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.70, C:0.09, G:0.18, T:0.03
Consensus pattern (10 bp):
AAAGAAAAGC
Found at i:120073618 original size:22 final size:20
Alignment explanation
Indices: 120073570--120073619 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
120073560 TATAAAGCGC
*
120073570 AATTTAATTTATTTAAAAAA
1 AATTTAATTTACTTAAAAAA
*
120073590 AAGTTTAATTTGACTTAAAATAT
1 AA-TTTAATTT-ACTTAAAA-AA
120073613 AATTTAA
1 AATTTAA
120073620 AATTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 12 0.48
23 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (20 bp):
AATTTAATTTACTTAAAAAA
Found at i:120073742 original size:23 final size:23
Alignment explanation
Indices: 120073699--120073743 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
120073689 TTTAATTTAA
*
120073699 TATTTATTAATTTTATATATTTT
1 TATTTATTAAATTTATATATTTT
120073722 TATTTATTAAAATTT-TATATTT
1 TATTTATT-AAATTTATATATTT
120073744 CGTCATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TATTTATTAAATTTATATATTTT
Found at i:120083681 original size:15 final size:15
Alignment explanation
Indices: 120083661--120083711 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
120083651 ACAACATAAT
120083661 AACGTAAGCGACTAA
1 AACGTAAGCGACTAA
** *
120083676 AACGTAA-CGTTTCA
1 AACGTAAGCGACTAA
*
120083690 AACATAAGCGACTAA
1 AACGTAAGCGACTAA
*
120083705 AATGTAA
1 AACGTAA
120083712 TCTAAGACAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
14 10 0.38
15 16 0.62
ACGTcount: A:0.47, C:0.18, G:0.16, T:0.20
Consensus pattern (15 bp):
AACGTAAGCGACTAA
Found at i:120087410 original size:21 final size:19
Alignment explanation
Indices: 120087382--120087422 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
120087372 TAAATTCTAG
120087382 AATTATTTAAATAATATAAA
1 AATTATTTAAATAATA-AAA
*
120087402 AATTGATTTAAATGATAAAA
1 AATT-ATTTAAATAATAAAA
120087422 A
1 A
120087423 TCTTTATCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AATTATTTAAATAATAAAA
Found at i:120091182 original size:83 final size:83
Alignment explanation
Indices: 120091035--120091191 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 83
120091025 GGTGGATATT
* * * * *
120091035 TGAGAAAATATAGACAAAAATAATATTTTTGAGAAATTGGCTTAAAGCAAAAAATACATCTCTTT
1 TGAGAAAATATAGACAAAAATAATATTTTTGAAAAAATGGCTTAAAGAAAAAAAAACATATCTTT
120091100 ACGAAACTTGTTGTGTGA
66 ACGAAACTTGTTGTGTGA
*
120091118 TGAGAAAATATAGACAAAAATAATATTTTT-AAAAAATGAGCTT-AAGAAAAAAAAAATATATCT
1 TGAGAAAATATAGACAAAAATAATATTTTTGAAAAAATG-GCTTAAAG-AAAAAAAAACATATCT
120091181 TTACGAAACTT
64 TTACGAAACTT
120091192 ATTAAGTGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
82 9 0.14
83 57 0.86
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (83 bp):
TGAGAAAATATAGACAAAAATAATATTTTTGAAAAAATGGCTTAAAGAAAAAAAAACATATCTTT
ACGAAACTTGTTGTGTGA
Found at i:120097520 original size:34 final size:33
Alignment explanation
Indices: 120097452--120097521 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
120097442 AATTTTTAAT
* *
120097452 AAAAATAATTAATTTATTCTTTAATTTAACATA
1 AAAAATAATTAATTTATTCTTTAATTAAAAATA
*
120097485 AAAAATTAATTTATTTATTCTTTGAA-TAAAAATA
1 AAAAA-TAATTAATTTATTCTTT-AATTAAAAATA
120097519 AAA
1 AAA
120097522 TGTAATCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 5 0.16
34 25 0.78
35 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (33 bp):
AAAAATAATTAATTTATTCTTTAATTAAAAATA
Found at i:120110604 original size:35 final size:35
Alignment explanation
Indices: 120110560--120110727 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
120110550 TTCTCATTGA
** *
120110560 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* ***
120110595 AATGCCATACCTACATTTTTTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACA-TTTCACAACTCAGTAT-G----GAT
*
120110636 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
120110671 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
120110706 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
120110728 CTTTTCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
35 72 0.62
36 16 0.14
39 1 0.01
40 14 0.12
41 14 0.12
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:120110650 original size:76 final size:73
Alignment explanation
Indices: 120110555--120110727 Score: 210
Period size: 76 Copynumber: 2.4 Consensus size: 73
120110545 GGTTTTTCTC
** * * ***
120110555 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTTTTTAA
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACA-TTTCACAA
120110619 CTCAGTATGG
64 CTCAGTATGG
*
120110629 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
120110694 CTCAGTATGG
64 CTCAGTATGG
120110704 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
120110728 CTTTTCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 1 0.01
75 23 0.26
76 41 0.47
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:120113211 original size:16 final size:16
Alignment explanation
Indices: 120113190--120113223 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
120113180 AAAAACTTAA
120113190 AAACAATATATTTATT
1 AAACAATATATTTATT
120113206 AAACAATATATTTATT
1 AAACAATATATTTATT
120113222 AA
1 AA
120113224 TTATATACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAACAATATATTTATT
Found at i:120114311 original size:21 final size:19
Alignment explanation
Indices: 120114275--120114317 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
120114265 TTATTTATAT
*
120114275 ATTTTTTATCACATCTGAA
1 ATTTTTTATCACATCTAAA
*
120114294 ATTTTTTATACAATATCTAAA
1 ATTTTTTAT-C-ACATCTAAA
120114315 ATT
1 ATT
120114318 AACTATACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 1 0.05
21 10 0.50
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTTTTTATCACATCTAAA
Found at i:120117370 original size:23 final size:22
Alignment explanation
Indices: 120117340--120117387 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
120117330 CTTTTTAAGT
120117340 AAATTTTACTATTTTAAAT-ATA
1 AAATTTTA-TATTTTAAATCATA
* *
120117362 AAATATTTATTTTTTACATCATA
1 AAAT-TTTATATTTTAAATCATA
120117385 AAA
1 AAA
120117388 ATTAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATTTTATATTTTAAATCATA
Found at i:120119180 original size:454 final size:449
Alignment explanation
Indices: 120118155--120119238 Score: 1281
Period size: 451 Copynumber: 2.4 Consensus size: 449
120118145 TAATGGGCAA
* * *
120118155 CATAATGTTGTC-GAAGTGACCGAAGCTGGTTACGATG-CTTGCAACGCTGCAAAT-CCTGTATC
1 CATAATGTTG-CAGAGGTGACCGAAGATGGTTACGATGAC-TGCAACGCTGCAAATGCC-ATATC
** * * * * * ** * **
120118217 TACGGTGAGCACTGGACCGGCGAGGATTACGCTTAACAGGACAGGGGAGTACTACTTTATTTGTG
63 TACTTTGACCACCGGACCGGCGAGGATTACCCTTAACA-GACCGGTGACCACTACTTCATTTGCA
* * * * * * * *
120118282 GTATCCCTGGTCACTGTTCTGCCGGCCAGAAGCTAAACGTGGAAGTACGAAATGGTAACACCACC
127 GTATCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACC
* * *
120118347 GGCGGTGTTACTCCGTCGACGCCTATAACTCCAACCACCTCCACTTATACGGTGGGTGACTCCAC
192 GGCGGCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCAC
*
120118412 TGGTTGGCGAGTCCCTACTAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCG
257 TGGTTGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCG
* * ** *
120118477 TCGTCAGAGATGTTTTGGGTCAGTTTCTTAAGTCGAACATTTGAGTCGAAATTTGATGCTTTTTT
322 TCGTCAGAGATGTTTTAGGTCAGCTTCTTAAGTAAAAAATTTGAGTCGAAATTTGATGCTTTTTT
* * *
120118542 GATCCAACTGTTTGATTTGTTTTTTTCGTTTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
387 GATCCAACTCTTTGAGTTGTTTTCTTCG-TTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
* * * * *
120118606 CATAATGTCGCAGAGGTGACGGAAGATGCTTACGATGACTGCAACACTGCGAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
* * * *
120118671 TTTGACCACCGGTCCGGCGAGGATTACCCTTAACAAGACCGGTGATCATTACTTCATTTGCAGTG
66 TTTGACCACCGGACCGGCGAGGATTACCCTTAAC-AGACCGGTGACCACTACTTCATTTGCAGTA
* * * *
120118736 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTTGAAGTTCGAACCGGTAACACCACCGGT
130 TCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACCGGC
* * * * * * *
120118801 GGCGTTGCTCCGTCGCCGTCTGTAACTCCAAGCACCACCACTTTTACAGTGGGTGACTCTACTGG
195 GGCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCACTGG
* * * *
120118866 TTGGCGTGTCCCTACCACTAATGATGATTTTTATGAGGATTGGGCTGATAATAAACACTTCGTTG
260 TTGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCGTCG
** * * **
120118931 TTGGGGATGTTTTAGGTCAGCTT-TTACATTTAAAAAATTTGA-TATTAATTATGATATGTAAAT
325 TCAGAGATGTTTTAGGTCAGCTTCTTA-A-GTAAAAAATTTGAGT-CGAA--AT--T-TG---AT
*
120118994 G-TTTTTTGATCTAACTCTTTG-GTT-TTTTCTTC-TT-TTTTTGCAGTGTTTAATTTTACGACC
379 GCTTTTTTGATCCAACTCTTTGAGTTGTTTTCTTCGTTCTTTTTGCAGTGTTTAATTTTACGACC
120119054 GGACAG
444 GGACAG
* * *
120119060 CATAATGTTGCAGAGGTGACTGAAGATGGTTATGACGACTGCAACGCTGCAAATGCCATATCTAC
1 CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
*
120119125 TTTGACCACCGGACCGGCAATGG-TTACCCTTAACAGCACCGGTGACCACTACTTCATTTGCAGT
66 TTTGACCACCGGACCGGCGA-GGATTACCCTTAACAG-ACCGGTGACCACTACTTCATTTGCAGT
*
120119189 ATCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTCCGAAA
129 ATCCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAA
120119239 TGGCAACCGC
Statistics
Matches: 537, Mismatches: 79, Indels: 31
0.83 0.12 0.05
Matches are distributed among these distances:
450 4 0.01
451 287 0.53
452 15 0.03
453 2 0.00
454 192 0.36
455 4 0.01
456 1 0.00
457 9 0.02
458 2 0.00
459 18 0.03
460 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (449 bp):
CATAATGTTGCAGAGGTGACCGAAGATGGTTACGATGACTGCAACGCTGCAAATGCCATATCTAC
TTTGACCACCGGACCGGCGAGGATTACCCTTAACAGACCGGTGACCACTACTTCATTTGCAGTAT
CCCCGGTCATTGTTCCGCCGGCCAAAAGCTCAAGGTCGAAGTACGAAACGGTAACACCACCGGCG
GCGTTACTCCGTCGACGCCTATAACTCCAACCACCACCACTTATACAGTGGGTGACTCCACTGGT
TGGCGAGTCCCTACCAATAATGATGATTTTTACGAGGATTGGGCTGATAATAAACACTTCGTCGT
CAGAGATGTTTTAGGTCAGCTTCTTAAGTAAAAAATTTGAGTCGAAATTTGATGCTTTTTTGATC
CAACTCTTTGAGTTGTTTTCTTCGTTCTTTTTGCAGTGTTTAATTTTACGACCGGACAG
Found at i:120120525 original size:34 final size:34
Alignment explanation
Indices: 120120482--120120600 Score: 138
Period size: 34 Copynumber: 3.5 Consensus size: 34
120120472 TTTGAATAGT
120120482 TTATATTTTTATAATTTTTAAATGATTAAATTAA
1 TTATATTTTTATAATTTTTAAATGATTAAATTAA
*
120120516 TTATATTTTTATAATTTTTAAATGATTAAATCAA
1 TTATATTTTTATAATTTTTAAATGATTAAATTAA
* *
120120550 --A-A-TTTTATTATTTTTAAAAGACTTAAAATATAA
1 TTATATTTTTATAATTTTTAAATGA-TT-AAAT-TAA
*
120120583 TTTTATTTTTATTAATTT
1 TTATATTTTTA-TAATTT
120120601 AAAATTTTAA
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
30 17 0.24
31 3 0.04
32 5 0.07
33 2 0.03
34 33 0.46
36 1 0.01
37 5 0.07
38 5 0.07
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (34 bp):
TTATATTTTTATAATTTTTAAATGATTAAATTAA
Found at i:120121012 original size:30 final size:32
Alignment explanation
Indices: 120120978--120121047 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 32
120120968 TTATTTACAC
*
120120978 TTAATAATA-TAGTTAATATTAT-CTATTATT
1 TTAATAATATTAGTTAATATTATAATATTATT
* *
120121008 TTAATAA-ATTATTTAATATTATAATTTTATT
1 TTAATAATATTAGTTAATATTATAATATTATT
120121039 TTAATAATA
1 TTAATAATA
120121048 AATTTAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.03
30 19 0.56
31 13 0.38
32 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (32 bp):
TTAATAATATTAGTTAATATTATAATATTATT
Found at i:120121051 original size:18 final size:18
Alignment explanation
Indices: 120121019--120121071 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
120121009 TAATAAATTA
* *
120121019 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAC
*
120121038 TTTAATAATAAATTTAAC
1 TTTAATAATAAATTTTAC
*
120121056 ATTAATAAT-AATTTTA
1 TTTAATAATAAATTTTA
120121072 AATTTCAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 6 0.21
18 14 0.48
19 9 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAATAATAAATTTTAC
Found at i:120129275 original size:39 final size:39
Alignment explanation
Indices: 120129221--120129361 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
120129211 CGCCGCCACG
* * *
120129221 CCGAGCCCCACCCCGCATGGAACTTCAAGTCCTCCTCGT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
*
120129260 CCGAGCGCCACCCCGCGTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
* *
120129299 CCAAGCGCTACCCCGCCTGGAACTTCAAGTCCTCCTCCT
1 CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
* *
120129338 CCGAGCGCCGCCACGCCTGGAACT
1 CCGAGCGCCACCCCGCCTGGAACT
120129362 CCGAGCGCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.17
Consensus pattern (39 bp):
CCGAGCGCCACCCCGCCTGGAACTTCAAGTCCTCCTCCT
Found at i:120132195 original size:17 final size:18
Alignment explanation
Indices: 120132159--120132199 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
120132149 TCAATAGAAT
*
120132159 AATTAAAAATTATTAAAA
1 AATTAAAAAATATTAAAA
*
120132177 AATTAAAAAATA-TATAA
1 AATTAAAAAATATTAAAA
120132194 AATTAA
1 AATTAA
120132200 TTTAACCGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAAAAAATATTAAAA
Found at i:120137741 original size:29 final size:29
Alignment explanation
Indices: 120137695--120137750 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
120137685 TTTGATTATT
*
120137695 CTTAATAATATAAAGACTAAATTGATCTA
1 CTTAATAATAGAAAGACTAAATTGATCTA
* *
120137724 CTTAATAATGGAATGACTAAATTGATC
1 CTTAATAATAGAAAGACTAAATTGATC
120137751 CCATCCCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (29 bp):
CTTAATAATAGAAAGACTAAATTGATCTA
Found at i:120139332 original size:40 final size:40
Alignment explanation
Indices: 120139288--120139365 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
120139278 TTTAATTTTT
*
120139288 TTATAAATAACATACATAAATTTAGAC-GAATTTAAATTAA
1 TTATAAATAA-ATACATAAATTTAGACAAAATTTAAATTAA
* * *
120139328 TTATATATAAATAGATAAATTTATACAAAATTTAAATT
1 TTATAAATAAATACATAAATTTAGACAAAATTTAAATT
120139366 CATATTTCGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (40 bp):
TTATAAATAAATACATAAATTTAGACAAAATTTAAATTAA
Found at i:120142363 original size:6 final size:6
Alignment explanation
Indices: 120142317--120142360 Score: 70
Period size: 6 Copynumber: 7.3 Consensus size: 6
120142307 ATCTTCCTCC
* *
120142317 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCATCA CCATCA CC
1 CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CCTTCA CC
120142361 ATCGACGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.52, G:0.00, T:0.27
Consensus pattern (6 bp):
CCTTCA
Found at i:120143880 original size:17 final size:16
Alignment explanation
Indices: 120143851--120143892 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
120143841 TATAAATTTA
120143851 ATATA-TTTTA-TTTT
1 ATATATTTTTATTTTT
120143865 ATGATATTTTTAATTTTT
1 AT-ATATTTTT-ATTTTT
120143883 ATATATTTTT
1 ATATATTTTT
120143893 TACAAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 3 0.12
16 4 0.17
17 9 0.38
18 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATATATTTTTATTTTT
Found at i:120144768 original size:25 final size:25
Alignment explanation
Indices: 120144740--120144790 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
120144730 AATTGATAAT
120144740 TACTTGATAATTTTTGAGTTTACAG
1 TACTTGATAATTTTTGAGTTTACAG
120144765 TACTTGATAATTTTTGAGTTTACAG
1 TACTTGATAATTTTTGAGTTTACAG
120144790 T
1 T
120144791 CCGAATAGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (25 bp):
TACTTGATAATTTTTGAGTTTACAG
Found at i:120150960 original size:20 final size:20
Alignment explanation
Indices: 120150907--120150946 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
120150897 ATTTAAGTAT
*
120150907 TAAAAGATATTTATTAATTA
1 TAAAATATATTTATTAATTA
120150927 TAAAATATATTTATTAATTA
1 TAAAATATATTTATTAATTA
120150947 AATAATTATA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAAAATATATTTATTAATTA
Found at i:120151206 original size:19 final size:20
Alignment explanation
Indices: 120151160--120151200 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
120151150 AAAAGCAGGG
120151160 AAAGAAAGAAAGAAAGGAGA
1 AAAGAAAGAAAGAAAGGAGA
120151180 AAAGAAAG-AAGAAAGG-GA
1 AAAGAAAGAAAGAAAGGAGA
120151198 AAA
1 AAA
120151201 TTAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAGAAAGGAGA
Found at i:120162157 original size:11 final size:11
Alignment explanation
Indices: 120162143--120162168 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
120162133 ATTTTTTATT
120162143 AAAATAATATA
1 AAAATAATATA
120162154 AAAATAATATA
1 AAAATAATATA
120162165 AAAA
1 AAAA
120162169 CAGGAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAATATA
Found at i:120170197 original size:34 final size:34
Alignment explanation
Indices: 120170154--120170222 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
120170144 AGTTTACTTT
* *
120170154 TTATCTTACACTATAGAATCGTTATAGTATATAA
1 TTATCTTACACTATAAAATCGTTATAATATATAA
120170188 TTATCTTACACTATAAAATCGTTATAATATATAA
1 TTATCTTACACTATAAAATCGTTATAATATATAA
120170222 T
1 T
120170223 CTCACCACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.42
Consensus pattern (34 bp):
TTATCTTACACTATAAAATCGTTATAATATATAA
Done.