Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 177 of 356
Found at i:57652908 original size:45 final size:43
Alignment explanation
Indices: 57652859--57653245 Score: 214
Period size: 45 Copynumber: 8.7 Consensus size: 43
57652849 ATCGGCTATA
*
57652859 GAGCAGATCGAAAATGACAAGTCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGA-CTAAAAT-ACAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
57652904 GAGCAGACTGAAGATAGCAAGTCTTATATTCTTGAAGTTGCAG-G
1 GAGCAGACT-AAAATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
57652948 AAGCAGACTAAAAATTAC-AGATCTTATCTCCATGTA-TCAGCTA-TG
1 GAGCAGACT-AAAA-TACAAG-TCTTATCTCCCTGAAGT-TGC-AGTG
* * * * * *
57652993 GAGTAGATCTAAAATGGCGAGTTTTATCTCCATGTA-TTGACTA-TG
1 GAGCAGA-CTAAAAT-ACAAGTCTTATCTCCCTGAAGTTG-C-AGTG
* * * *** * *
57653038 GAACAGATTTCAGCCACCAGCCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAGA-CTAAAATACAAGTCTTATCTCCCTGAAGTTGCAGTG
* * * *
57653082 AAGCAGACTAAAGATAGTAAGTCTTGTCTCTCTGAAGTTGCAGTG
1 GAGCAGACTAAA-ATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* *
57653127 GAGCAGACTAAAGATAGTAAGTCTTATCTCCCTGAAGTTGTAGTG
1 GAGCAGACTAAA-ATA-CAAGTCTTATCTCCCTGAAGTTGCAGTG
* * *
57653172 GAGCAGACTAAAGATAACAAGTCTTATCTTCCTAAAGTTGCAG-A
1 GAGCAGACTAAA-AT-ACAAGTCTTATCTCCCTGAAGTTGCAGTG
*
57653216 AAGCAGACTGAAAATTAC-AGATCTTATCTC
1 GAGCAGACT-AAAA-TACAAG-TCTTATCTC
57653246 ATGTATCTGC
Statistics
Matches: 269, Mismatches: 54, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
43 8 0.03
44 72 0.27
45 184 0.68
46 5 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (43 bp):
GAGCAGACTAAAATACAAGTCTTATCTCCCTGAAGTTGCAGTG
Found at i:57655740 original size:127 final size:128
Alignment explanation
Indices: 57655506--57656070 Score: 569
Period size: 127 Copynumber: 4.4 Consensus size: 128
57655496 AATATAAGGA
* * * * * * *
57655506 AATATTTTGTGTTTGGGAGTTCGAG-GGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCGTTC-
1 AATATTTCGTATTTGGAAGTTTGAGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCG
* * **
57655569 AGCTAAAATACAAAATATCC-TTTGGAAATTTTGTCCATGTTTTTTTTAAAATTAAAACGAGGC
66 A-CTAAAATATAGAATATCCTTTTGGAAATTTCATCCATGTTTTTTTTAAAATTAAAACGAGGC
* * * * * *
57655632 AATACTTCCTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTAGGATTCAATTTTCCATTCG
1 AATATTTCGTATTTGGAAGTTTGAGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCG
* * * * *
57655697 GCTAAAATA-CGAAATAT-CTTTTGGAAATTTCGTCCATGTTTTTTTAAAAATTAAAATGAGGC
66 ACTAAAATATAG-AATATCCTTTTGGAAATTTCATCCATGTTTTTTTTAAAATTAAAACGAGGC
* * ** *
57655759 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTATTT-GGAAGTTTGAGAGGTCGTGCCCAATCGTGCTGGGTTTC-AATTTTCCATT
* *
57655823 CGACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACT-TTTTTCTTAAAA-TAAAACGA
64 CGACTAAAATATAGAATATCC--TTTTGGAAATTTCATCCA-TGTTTTTTTTAAAATTAAAACGA
57655886 GGC
126 GGC
* * * * * *
57655889 AATATTTCATGTTTGGAAGTTTCG-GAAGTCGTGCCCAATCGTGTTGGGCTTCAATCTTCCATTC
1 AATATTTCGTATTTGGAAGTTT-GAGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTC
* * * *
57655953 GACTAAAATATAGAATATCCTTTT-GAAATTTCATACATG--TTTTCTCAAATTAAAATGAGGC
65 GACTAAAATATAGAATATCCTTTTGGAAATTTCATCCATGTTTTTTTTAAAATTAAAACGAGGC
* * * * **
57656014 AATGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCAATTT
1 AATATTTCGTATTTGGAAGTTTGAGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTT
57656071 ACAGTTTGGG
Statistics
Matches: 362, Mismatches: 61, Indels: 33
0.79 0.13 0.07
Matches are distributed among these distances:
124 8 0.02
125 56 0.15
126 32 0.09
127 120 0.33
128 36 0.10
129 41 0.11
130 42 0.12
131 26 0.07
132 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (128 bp):
AATATTTCGTATTTGGAAGTTTGAGAGGTCGTGCCCAATCGTGCTGGGTTTCAATTTTCCATTCG
ACTAAAATATAGAATATCCTTTTGGAAATTTCATCCATGTTTTTTTTAAAATTAAAACGAGGC
Found at i:57655909 original size:257 final size:252
Alignment explanation
Indices: 57655506--57656070 Score: 694
Period size: 257 Copynumber: 2.2 Consensus size: 252
57655496 AATATAAGGA
* * * *
57655506 AATATTTTGTGTTTGGGAGTTCGAG-GGTCGTGCCCAATCGTGCTGGGTTTCGATTTTTCGTTCA
1 AATATTTCGTATTTGGGAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCA
** *
57655570 GCTAAAATACAAAATATCCTTTGGAAATTTTGTCCATGTTTTTTTTAAAATTAAAACGAGGCAAT
66 GCTAAAATACAAAATATCCTTTGGAAATTTCATCCATGTTTTTCTTAAAATTAAAACGAGGCAAT
* * * * *
57655635 ACTTCCTGTTTGGAAGTTTGGGAGGTCGTGCCCAATCGTGCTAGGATTCAATTTTCCATTCGGCT
131 ACTTCATGTTTGGAAGTTTCGGAAGTCGTGCCCAATCGTGCTAGGATTCAATCTTCCATTCGACT
* * *
57655700 AAAATACGA-AATAT-CTTTTGGAAATTTCGTCCATGTTTTTTTAAAAATTAAAATGAGGC
196 AAAATA-GAGAATATCCTTTT-GAAATTTCATACATG-TTTTCT-AAAATTAAAATGAGGC
* *
57655759 AATATTTCGTATTTGGGGAGTTTGAGAGATC-TGCCCAATCGTGCTGGGTTTCGTTTTTTTCATT
1 AATATTTCGTATTT-GGGAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTTCG-ATTTTTCATT
* * *
57655823 C-GACTAAAATATAGAATATCCTTTTTTTGAAATTTCATCCACT-TTTTTCTTAAAA-TAAAACG
64 CAG-CTAAAATACAAAATATCC---TTTGGAAATTTCATCCA-TGTTTTTCTTAAAATTAAAACG
* * * *
57655885 AGGCAATATTTCATGTTTGGAAGTTTCGGAAGTCGTGCCCAATCGTGTTGGGCTTCAATCTTCCA
124 AGGCAATACTTCATGTTTGGAAGTTTCGGAAGTCGTGCCCAATCGTGCTAGGATTCAATCTTCCA
* *
57655950 TTCGACTAAAATATAGAATATCCTTTTGAAATTTCATACATGTTTTCTCAAATTAAAATGAGGC
189 TTCGACTAAAATAGAGAATATCCTTTTGAAATTTCATACATGTTTTCTAAAATTAAAATGAGGC
* * * * * *
57656014 AATGTTTCGTATTTGGAAATTCGATAAATCGTGCCCAATCGTGCTGGGTTTCAATTT
1 AATATTTCGTATTTGGGAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
57656071 ACAGTTTGGG
Statistics
Matches: 267, Mismatches: 34, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
253 12 0.04
254 47 0.18
255 77 0.29
256 6 0.02
257 94 0.35
258 30 0.11
259 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (252 bp):
AATATTTCGTATTTGGGAGTTCGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTCATTCA
GCTAAAATACAAAATATCCTTTGGAAATTTCATCCATGTTTTTCTTAAAATTAAAACGAGGCAAT
ACTTCATGTTTGGAAGTTTCGGAAGTCGTGCCCAATCGTGCTAGGATTCAATCTTCCATTCGACT
AAAATAGAGAATATCCTTTTGAAATTTCATACATGTTTTCTAAAATTAAAATGAGGC
Found at i:57657146 original size:20 final size:18
Alignment explanation
Indices: 57657110--57657148 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
57657100 AATAGTTGTT
*
57657110 TTTTTTATATTATTATTA
1 TTTTTAATATTATTATTA
57657128 TTTTTAATATGTATATATTA
1 TTTTTAATAT-TAT-TATTA
57657148 T
1 T
57657149 GTATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTAATATTATTATTA
Found at i:57657191 original size:17 final size:18
Alignment explanation
Indices: 57657168--57657211 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
57657158 TTAATACTAC
*
57657168 ATTATATATATTT-TTAT
1 ATTATATATATTTCTAAT
*
57657185 GTTATATATATTTCTAAT
1 ATTATATATATTTCTAAT
57657203 ATTATATAT
1 ATTATATAT
57657212 TAAGTATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
ATTATATATATTTCTAAT
Found at i:57657192 original size:15 final size:17
Alignment explanation
Indices: 57657172--57657212 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
57657162 TACTACATTA
*
57657172 TATATATTTT-T-ATGT
1 TATATATTTTCTAATAT
57657187 TATATATATTTCTAATAT
1 TATATAT-TTTCTAATAT
57657205 TATATATT
1 TATATATT
57657213 AAGTATTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 7 0.32
16 3 0.14
17 2 0.09
18 10 0.45
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
TATATATTTTCTAATAT
Found at i:57657387 original size:23 final size:23
Alignment explanation
Indices: 57657322--57657387 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
57657312 TGTATATAGC
* *
57657322 GTATATGTTTTATAT-GTATTAT
1 GTATATTTTTTATATACTATTAT
* *
57657344 GTATATATTTTCA-ATATTATTA-
1 GTATAT-TTTTTATATACTATTAT
57657366 GTTATATTTTTTATATACTATT
1 G-TATATTTTTTATATACTATT
57657388 CCATGTACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (23 bp):
GTATATTTTTTATATACTATTAT
Found at i:57657576 original size:20 final size:19
Alignment explanation
Indices: 57657525--57657576 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
57657515 TTTATTATTA
*
57657525 ATATTAGTATATATATTTT
1 ATATTAGTATACATATTTT
*
57657544 ATTATTCTTGTATACATATTTT
1 A-TA-T-TAGTATACATATTTT
57657566 ATATATAGTAT
1 ATAT-TAGTAT
57657577 TATTTTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 3 0.12
22 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
ATATTAGTATACATATTTT
Found at i:57657728 original size:11 final size:11
Alignment explanation
Indices: 57657702--57657734 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
57657692 TTTTCGAAAT
57657702 TTAT-TATATA
1 TTATGTATATA
57657712 -TATGTATATA
1 TTATGTATATA
57657722 TTATGTATATA
1 TTATGTATATA
57657733 TT
1 TT
57657735 TTAACATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 6 0.29
11 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (11 bp):
TTATGTATATA
Found at i:57670037 original size:74 final size:74
Alignment explanation
Indices: 57669776--57670229 Score: 564
Period size: 74 Copynumber: 6.1 Consensus size: 74
57669766 TAATGTTTTT
* *
57669776 ATTTCTG-TTT-AAAAAAATCAACTCATATTTCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
57669839 GTATTTCCA
66 GTATTTTCA
* * * * *
57669848 TTTTTTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGACACAC-AA
1 ATTTCTGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
*
57669912 GGTAATTTCA
65 GGTATTTTCA
* *
57669922 ATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
1 ATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
57669985 GGTATTTTCA
65 GGTATTTTCA
* *
57669995 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAG
1 ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
57670060 GTAATTTCA
66 GTATTTTCA
* * *
57670069 ATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGG-CATGCTG
1 ATTTCTGCTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGACACGCTG
*
57670131 AGTTATTTTCA
64 AGGTATTTTCA
*
57670142 ATTTCTGCTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 A----T--TTCTGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
57670207 CGTTGAGGTGTTTTCA
59 CGCTGAGGTATTTTCA
57670223 ATTTCTG
1 ATTTCTG
57670230 TTTTTTCAAT
Statistics
Matches: 328, Mismatches: 35, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
72 51 0.16
73 73 0.22
74 87 0.27
75 52 0.16
77 2 0.01
79 7 0.02
80 6 0.02
81 50 0.15
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
ATTTCTGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCA
Found at i:57670062 original size:147 final size:148
Alignment explanation
Indices: 57669788--57670232 Score: 651
Period size: 147 Copynumber: 3.0 Consensus size: 148
57669778 TTCTGTTTAA
* * * * * *
57669788 AAAAATCAACTCATATTTCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTCCATTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* * *
57669853 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGACACAC-AAGGTAA
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
57669917 TTTCAATTTCTGTTTGTC
131 TTTCAATTTCTGTTTGTC
57669935 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
* *
57670000 TGC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGACACGCTGAGGTAA
66 TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
57670064 TTTCAATTTCTGTTTGTC
131 TTTCAATTTCTGTTTGTC
* * * *
57670082 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAAGGCATGCTGAGTTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAA----
* *
57670147 TGCTTCTGCTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTG
62 T--TTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
**
57670212 AGGTGTTTTCAATTTCTGTTT
125 AGGTAATTTCAATTTCTGTTT
57670233 TTTCAATTTA
Statistics
Matches: 269, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
146 49 0.18
147 143 0.53
151 1 0.00
153 6 0.02
154 70 0.26
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (148 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATTTC
TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAA
TTTCAATTTCTGTTTGTC
Found at i:57670932 original size:18 final size:18
Alignment explanation
Indices: 57670905--57670948 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
57670895 TACGTCCAAT
57670905 ACAA-CCAATTTAACCCA
1 ACAACCCAATTTAACCCA
57670922 ACAACCCAATTTAACCCA
1 ACAACCCAATTTAACCCA
57670940 ACAACCCAA
1 ACAACCCAA
57670949 GCTACCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.48, C:0.39, G:0.00, T:0.14
Consensus pattern (18 bp):
ACAACCCAATTTAACCCA
Found at i:57671386 original size:10 final size:10
Alignment explanation
Indices: 57671368--57671409 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
57671358 CTATATATAT
*
57671368 ATATTAAAAA
1 ATATAAAAAA
57671378 ATATAAAAAA
1 ATATAAAAAA
57671388 ATAATAAAAAA
1 AT-ATAAAAAA
57671399 ATA-AAAAAA
1 ATATAAAAAA
57671408 AT
1 AT
57671410 TACCTTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (10 bp):
ATATAAAAAA
Found at i:57671518 original size:10 final size:11
Alignment explanation
Indices: 57671489--57671521 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
57671479 TTCCCTCCCC
57671489 CTCTCCCTTTT
1 CTCTCCCTTTT
57671500 CTCTCCCTTTT
1 CTCTCCCTTTT
*
57671511 -TTTCCCTTTT
1 CTCTCCCTTTT
57671521 C
1 C
57671522 CCCATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (11 bp):
CTCTCCCTTTT
Found at i:57672511 original size:23 final size:21
Alignment explanation
Indices: 57672455--57672528 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 21
57672445 ATTTCTAATG
*
57672455 TATATGTATATAGCGTATATGTTT
1 TATATGTAT-TAG-TTATAT-TTT
57672479 TATATGTATTATGTATATATTTT
1 TATATGTATTA-GT-TATATTTT
57672502 TAATAT-TATTAGTTATATTTTT
1 T-ATATGTATTAGTTATA-TTTT
57672524 TATAT
1 TATAT
57672529 ACTATTCCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.18
22 7 0.16
23 11 0.24
24 19 0.42
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (21 bp):
TATATGTATTAGTTATATTTT
Found at i:57672534 original size:23 final size:23
Alignment explanation
Indices: 57672469--57672534 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
57672459 TGTATATAGC
* *
57672469 GTATATGTTTTATAT-GTATTAT
1 GTATATTTTTTATATACTATTAT
*
57672491 GTATATATTTTTA-ATATTATTA-
1 GTATAT-TTTTTATATACTATTAT
57672513 GTTATATTTTTTATATACTATT
1 G-TATATTTTTTATATACTATT
57672535 CCATGTACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 15 0.41
23 22 0.59
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (23 bp):
GTATATTTTTTATATACTATTAT
Found at i:57674264 original size:126 final size:125
Alignment explanation
Indices: 57674104--57674346 Score: 432
Period size: 126 Copynumber: 1.9 Consensus size: 125
57674094 GTTTTAGCCT
*
57674104 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCATGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGATT
* *
57674169 CTTCGAATTCTTTAAATACCGAACATTGCCTTTGTTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATT-CCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
57674230 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGATT
*
57674295 CTTCGAATTCTTTGAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAG
57674347 AAGATCAATG
Statistics
Matches: 112, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
125 23 0.21
126 89 0.79
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:57675182 original size:11 final size:11
Alignment explanation
Indices: 57675144--57675182 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
57675134 TATGTGTATT
57675144 CTCTAAAAAATTC
1 CTCT-AAAAA-TC
*
57675157 CTCCAAAAATC
1 CTCTAAAAATC
57675168 CTCTAAAAATC
1 CTCTAAAAATC
57675179 CTCT
1 CTCT
57675183 CCGAAATCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 16 0.67
12 5 0.21
13 3 0.12
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (11 bp):
CTCTAAAAATC
Found at i:57675184 original size:24 final size:23
Alignment explanation
Indices: 57675144--57675193 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
57675134 TATGTGTATT
*
57675144 CTCTAAAAAATTCCTCCAAAAATC
1 CTCTAAAAAATCCCTCC-AAAATC
*
57675168 CTCT-AAAAATCCTCTCCGAAATC
1 CTCTAAAAAATCC-CTCCAAAATC
57675191 CTC
1 CTC
57675194 CCCAAAATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.38, C:0.34, G:0.02, T:0.26
Consensus pattern (23 bp):
CTCTAAAAAATCCCTCCAAAATC
Found at i:57675282 original size:17 final size:18
Alignment explanation
Indices: 57675260--57675297 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
57675250 AATTATAACA
57675260 AGTA-GGGTGATGGAGGT
1 AGTAGGGGTGATGGAGGT
57675277 AGTAGGGGTGATGGAGGT
1 AGTAGGGGTGATGGAGGT
57675295 AGT
1 AGT
57675298 GGACGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.24, C:0.00, G:0.53, T:0.24
Consensus pattern (18 bp):
AGTAGGGGTGATGGAGGT
Found at i:57675328 original size:37 final size:37
Alignment explanation
Indices: 57675278--57675352 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
57675268 GATGGAGGTA
*
57675278 GTAGGGGTGATGGAGGTAGTGGACGGTTTAGTAGGGT
1 GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
*
57675315 GTAGGGGCGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
57675352 G
1 G
57675353 ATGGAGTTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.03, G:0.52, T:0.27
Consensus pattern (37 bp):
GTAGGGGCGATGGAGGTAGTGGACGGTTTAGTAGGGT
Found at i:57675373 original size:29 final size:29
Alignment explanation
Indices: 57675323--57675381 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
57675313 GTGTAGGGGC
*
57675323 GATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GATGGAGGTAGTGGATGATTTAGTAGGGT
* *
57675352 GATGGAGTTAGTGG-TCGATTTAGTGGGGT
1 GATGGAGGTAGTGGAT-GATTTAGTAGGGT
57675381 G
1 G
57675382 TTTAATTTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.19, C:0.02, G:0.47, T:0.32
Consensus pattern (29 bp):
GATGGAGGTAGTGGATGATTTAGTAGGGT
Found at i:57675834 original size:133 final size:133
Alignment explanation
Indices: 57675594--57676702 Score: 1698
Period size: 133 Copynumber: 8.3 Consensus size: 133
57675584 GATCTACTGT
*** * ** *
57675594 AATTTGATCTGCTTTACTCCTACTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
* ** * *
57675659 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGTAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
*
57675724 ATCAA
129 ACCAA
** * *
57675729 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGTATGTAGCCTGTTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
57675794 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
57675859 CAA
131 CAA
*
57675862 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
** *
57675927 CTCAGTGAAGATAATACTGGTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
57675992 CAA
131 CAA
*
57675995 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAACCTGCTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* *
57676060 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
57676125 CAA
131 CAA
* * *
57676128 AATTTGATCTGCTCCACTCTTGCTCAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * *
57676193 CTCAGTGAAGGTAAGGCTGGTGGCTGAAACCTGCTTCATTGCCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
57676258 CAA
131 CAA
*
57676261 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
57676326 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGACTT-G
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTCA
57676390 CCAA
130 CCAA
* * * * * * *
57676394 AATTTGATCTGCTTCACTCCTACTTAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
57676459 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
57676524 ACCAA
129 ACCAA
* * * * * *
57676529 AATTTAATCTGCTTCGCTCCTACTTAGTGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTA
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
* * * *
57676594 CTCAGTGAAGATAAAGCTTGTGGCTGAAATCTGCTCTAATGCCGATACATGGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
57676659 CAA
131 CAA
*
57676662 AATTTGATCTGCTCCGCTTCTGCTCAGCGAAGATAAGATCT
1 AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCT
57676703 GTCGAAATTT
Statistics
Matches: 899, Mismatches: 71, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
133 731 0.81
134 4 0.00
135 164 0.18
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (133 bp):
AATTTGATCTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCAC
CAA
Found at i:57676058 original size:43 final size:43
Alignment explanation
Indices: 57675870--57676340 Score: 181
Period size: 43 Copynumber: 10.7 Consensus size: 43
57675860 AAAATTTGAT
* * *
57675870 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAAC
* * * * ** *
57675913 CTGCTTCACTCCTGCTCAGTGAAGATAATA-CTGGTGGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAAC
* * * ** * *
57675957 CTGCTCCATTGCC-GATACA-TGAAGATAAGATTCACCAAAATTTGAT
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGA-T--CTAGTATTTAAC
* *
57676003 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAAC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAAC
* * * ** *
57676046 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAAC
** * * ** * *
57676090 CTGCTCCA-TTGTCGATACA-T-AGAGATAAGATTCACCAAAATTTGAT
1 CTGCTCCACTCCT-GCT-CAGTGA-AGATAAGA-T--CTAGTATTTAAC
* *
57676136 CTGCTCCACTCTTGCTCAGTGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAAC
* * * * **
57676179 CTGCTCCACTCCTGCTCAGTGAAGGTAAG-GCTGGTGGCTGAAAC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGT--ATTTAAC
* * * * ** * *
57676223 CTGCTTCATTGCC-GATACA-T-AGAGATAAGATTCACCAAAATTTGAT
1 CTGCTCCACT-CCTGCT-CAGTGA-AGATAAGA-T--CTAGTATTTAAC
* * *
57676269 CTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAAC
*
57676312 CTGCTCCACTCCTACTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
57676341 GCTGGTGGCT
Statistics
Matches: 298, Mismatches: 96, Indels: 68
0.65 0.21 0.15
Matches are distributed among these distances:
42 12 0.04
43 129 0.43
44 63 0.21
45 23 0.08
46 64 0.21
47 4 0.01
48 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATTTAAC
Found at i:57678239 original size:40 final size:39
Alignment explanation
Indices: 57678141--57678323 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
57678131 TCCTCGTTCA
* * *
57678141 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
57678180 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
57678219 GAATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
57678259 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
57678300 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
57678324 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
39 38 0.32
40 74 0.62
41 8 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:57678332 original size:41 final size:41
Alignment explanation
Indices: 57678255--57678332 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57678245 TTAGTATCTC
* * *
57678255 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57678296 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57678333 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57685658 original size:39 final size:40
Alignment explanation
Indices: 57685613--57685744 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
57685603 GCTCCTCGTT
* * *
57685613 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
57685653 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
57685692 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
57685732 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
57685745 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 35 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:57685758 original size:40 final size:39
Alignment explanation
Indices: 57685613--57685790 Score: 128
Period size: 40 Copynumber: 4.5 Consensus size: 39
57685603 GCTCCTCGTT
* * * * * *
57685613 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTA-ACCGGATTTAATAACTCGCA
* *
57685653 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAA-CCGGATTTAATAACTCGCA
* * * *
57685692 CGAATGCCTTCGGGACTTAACTCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAAC-CGGATTTAATAACTCGCA
* * * * *
57685732 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAAGGCCTTCGGGA-CTTA-ACCGGATTTAATAAC-TCGCA
57685773 CAAA-GCCTTCGGGACTTA
1 CAAAGGCCTTCGGGACTTA
57685791 GCCCGGACAG
Statistics
Matches: 116, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
39 38 0.33
40 66 0.57
41 12 0.10
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAAGGCCTTCGGGACTTAACCGGATTTAATAACTCGCA
Found at i:57685806 original size:41 final size:41
Alignment explanation
Indices: 57685729--57685806 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57685719 TTAGTATCTC
* * *
57685729 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57685770 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57685807 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57688640 original size:25 final size:25
Alignment explanation
Indices: 57688607--57688687 Score: 83
Period size: 25 Copynumber: 3.1 Consensus size: 25
57688597 TGGCCTCTCC
* *
57688607 TTTGCTTTTCTTTTCTTTCTCTTTT
1 TTTGTTTTTCTTTTCTTTTTCTTTT
*
57688632 TTTGTTTTTCTCTTCTTTTTCCTTTT
1 TTTGTTTTTCTTTTCTTTTT-CTTTT
*
57688658 CTTT-TTTTCTCTTTGCTTTTTCTATTT
1 -TTTGTTTT-TCTTTTCTTTTTCT-TTT
57688685 TTT
1 TTT
57688688 TTGAAAGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 17 0.36
26 14 0.30
27 16 0.34
ACGTcount: A:0.01, C:0.19, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTGTTTTTCTTTTCTTTTTCTTTT
Found at i:57688657 original size:6 final size:5
Alignment explanation
Indices: 57688606--57688677 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
57688596 TTGGCCTCTC
* *
57688606 CTTTG CTTTT CTTTT CTTTCT CTTTT -TTTGT -TTTT CTCTT CTTTTT
1 CTTTT CTTTT CTTTT CTTT-T CTTTT CTTT-T CTTTT CTTTT C-TTTT
*
57688652 CCTTTT CTTTT -TTTCT CTTTG CTTTT
1 -CTTTT CTTTT CTTT-T CTTTT CTTTT
57688678 TCTATTTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
4 7 0.13
5 32 0.58
6 15 0.27
7 1 0.02
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (5 bp):
CTTTT
Found at i:57688657 original size:17 final size:16
Alignment explanation
Indices: 57688622--57688665 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
57688612 TTTTCTTTTC
**
57688622 TTTCTCTTTTTTTGTT
1 TTTCTCTTTTTTTCCT
57688638 TTTCTCTTCTTTTTCCT
1 TTTCTCTT-TTTTTCCT
57688655 TTTCT-TTTTTT
1 TTTCTCTTTTTT
57688666 CTCTTTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 10 0.40
17 11 0.44
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTCTCTTTTTTTCCT
Found at i:57688657 original size:18 final size:16
Alignment explanation
Indices: 57688622--57688671 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
57688612 TTTTCTTTTC
*
57688622 TTTCTCTTTTTTTGTT
1 TTTCTCTTTTTTTCTT
*
57688638 TTTCTCTTCTTTTTCCT
1 TTTCTCTT-TTTTTCTT
57688655 TTTCT-TTTTTTCTCTT
1 TTTCTCTTTTTT-TCTT
57688671 T
1 T
57688672 GCTTTTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 4 0.14
16 14 0.48
17 11 0.38
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (16 bp):
TTTCTCTTTTTTTCTT
Found at i:57688667 original size:20 final size:22
Alignment explanation
Indices: 57688644--57688687 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
57688634 TGTTTTTCTC
*
57688644 TTCT-TTTTCCTTTTCT-TTTT
1 TTCTCTTTGCCTTTTCTATTTT
*
57688664 TTCTCTTTGCTTTTTCTATTTT
1 TTCTCTTTGCCTTTTCTATTTT
57688686 TT
1 TT
57688688 TTGAAAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (22 bp):
TTCTCTTTGCCTTTTCTATTTT
Found at i:57688676 original size:27 final size:27
Alignment explanation
Indices: 57688622--57688685 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
57688612 TTTTCTTTTC
*
57688622 TTTCTCTTTTTTTGTTTTTCTCTTCTT
1 TTTCTCTTTTCTTGTTTTTCTCTTCTT
57688649 TTTC-CTTTTCTT-TTTTTCTCTTTGCTT
1 TTTCTCTTTTCTTGTTTTTCTC-TT-CTT
*
57688676 TTTCTATTTT
1 TTTCTCTTTT
57688686 TTTTGAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 8 0.25
26 9 0.28
27 11 0.34
28 4 0.12
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.77
Consensus pattern (27 bp):
TTTCTCTTTTCTTGTTTTTCTCTTCTT
Found at i:57688688 original size:37 final size:36
Alignment explanation
Indices: 57688612--57688689 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 36
57688602 TCTCCTTTGC
*
57688612 TTTTCTTTTCTTTCTCTTTTTTTGTTTTTCTCTTCT
1 TTTTCTTTTCTTTCTCTTTTTTTGTTTTTCTATTCT
*
57688648 TTTTCCTTTTCTTT-T-TTTCTCTTTGCTTTTTCTATTTT
1 TTTT-CTTTTCTTTCTCTTT-T-TTTG-TTTTTCTATTCT
57688686 TTTT
1 TTTT
57688690 GAAAGTGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
35 3 0.08
36 6 0.17
37 13 0.36
38 14 0.39
ACGTcount: A:0.01, C:0.18, G:0.03, T:0.78
Consensus pattern (36 bp):
TTTTCTTTTCTTTCTCTTTTTTTGTTTTTCTATTCT
Found at i:57691231 original size:21 final size:21
Alignment explanation
Indices: 57691205--57691249 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57691195 GCTGGCTCAT
*
57691205 CATGTTGT-TCTATGACTCCAG
1 CATGTT-TCTCTAGGACTCCAG
*
57691226 CATGTTTCTCTAGGACTCTAG
1 CATGTTTCTCTAGGACTCCAG
57691247 CAT
1 CAT
57691250 TTGATCCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
CATGTTTCTCTAGGACTCCAG
Found at i:57694979 original size:126 final size:125
Alignment explanation
Indices: 57694745--57694987 Score: 416
Period size: 126 Copynumber: 1.9 Consensus size: 125
57694735 GTTTTAGCCT
* *
57694745 TAAGAGGATATTCGAATATTTAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGACT
57694810 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAA-TTTTGAGAGTGAACTGG
* *
57694871 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCTAGTACGTTAGGGCACGACT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGACT
*
57694936 CTTCGAATTCTTTGAATACCGAACATT-CCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTG-AAAATTTTGAGAG
57694988 AAGATCAATG
Statistics
Matches: 111, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
125 20 0.18
126 91 0.82
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGACT
CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTGAGAGTGAACTGG
Found at i:57695467 original size:14 final size:14
Alignment explanation
Indices: 57695448--57695478 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57695438 ATATATTTAC
*
57695448 ATAATAAATATATA
1 ATAATAAATAAATA
57695462 ATAATAAATAAATA
1 ATAATAAATAAATA
57695476 ATA
1 ATA
57695479 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:57695479 original size:19 final size:18
Alignment explanation
Indices: 57695450--57695486 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
57695440 ATATTTACAT
57695450 AATAAATATATAATAATA
1 AATAAATATATAATAATA
57695468 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
57695487 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:57695823 original size:11 final size:11
Alignment explanation
Indices: 57695803--57695848 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
57695793 GTATTCTCTA
57695803 AAAAATTCCTCC
1 AAAAA-TCCTCC
*
57695815 AAAAATCCTCT
1 AAAAATCCTCC
57695826 AAAAATCCTCTC
1 AAAAATCCTC-C
*
57695838 CAAAATCCTCC
1 AAAAATCCTCC
57695849 CCAAAATCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATCCTCC
Found at i:57695825 original size:24 final size:23
Alignment explanation
Indices: 57695798--57695847 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
57695788 TATGTGTATT
57695798 CTCTAAAAAATTCCTC-CAAAAATC
1 CTCT-AAAAA-TCCTCTCAAAAATC
*
57695822 CTCTAAAAATCCTCTCCAAAATC
1 CTCTAAAAATCCTCTCAAAAATC
57695845 CTC
1 CTC
57695848 CCCAAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (23 bp):
CTCTAAAAATCCTCTCAAAAATC
Found at i:57695843 original size:12 final size:12
Alignment explanation
Indices: 57695811--57695868 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
57695801 TAAAAAATTC
57695811 CTCCAAAAATCCT
1 CTCC-AAAATCCT
*
57695824 CT-AAAAATCCT
1 CTCCAAAATCCT
57695835 CTCCAAAATCCT
1 CTCCAAAATCCT
* *
57695847 CCCCAAAATCTT
1 CTCCAAAATCCT
*
57695859 CCCCAAAATC
1 CTCCAAAATC
57695869 TCCCCCCATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
11 10 0.25
12 28 0.70
13 2 0.05
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (12 bp):
CTCCAAAATCCT
Found at i:57695869 original size:12 final size:12
Alignment explanation
Indices: 57695827--57695873 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
57695817 AAATCCTCTA
*
57695827 AAAATCCTCTCC
1 AAAATCCTCCCC
57695839 AAAATCCTCCCC
1 AAAATCCTCCCC
*
57695851 AAAATCTTCCCC
1 AAAATCCTCCCC
57695863 AAAAT-CTCCCC
1 AAAATCCTCCCC
57695874 CCATACAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
11 5 0.16
12 27 0.84
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAATCCTCCCC
Found at i:57695954 original size:18 final size:18
Alignment explanation
Indices: 57695931--57695966 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57695921 ATAACAAGTA
57695931 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
57695949 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
57695967 ATGGTTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.61, T:0.22
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:57699729 original size:43 final size:42
Alignment explanation
Indices: 57699655--57699902 Score: 273
Period size: 43 Copynumber: 5.8 Consensus size: 42
57699645 GCGTCGCTAA
* ** *
57699655 CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
* *
57699697 CTTTAGCGGCGCTTATCGCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGACCAAGAC
* * * ***
57699740 TTTTAGCAGCGCTTTTCCAGAAACGCCGCTAAAGACTTGGAC
1 CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
* *
57699782 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGACCAAGAC
* * * *
57699825 ATTTAGCGACGCTTTTCC-CTAAAATGCCGCTAAAGAACAAGAC
1 CTTTAGCGGCGCTTTTCCAC--AAACGCCGCTAAAGACCAAGAC
*
57699868 CTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
1 CTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAG
57699903 GTCTACTAAA
Statistics
Matches: 175, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
42 52 0.30
43 122 0.70
45 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGACCAAGAC
Found at i:57699783 original size:85 final size:84
Alignment explanation
Indices: 57699674--57699902 Score: 284
Period size: 85 Copynumber: 2.7 Consensus size: 84
57699664 CGCCTTTAAA
* * *
57699674 AAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCGCACAAACGCCGCTAAAGACCAGGA
1 AAAACGCCGCTAAAGA-CAAGACCTTTAGCGGCGCTTTTC-CACAAACGCCGCTAAAGAACAAGA
*
57699739 CTTTTAGC-AGCGCTTTT-CC-
64 CATTTAGCGA-CGCTTTTCCCT
** *
57699758 AGAAACGCCGCTAAAGACTTGGACCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAG
1 A-AAACGCCGCTAAAGAC-AAGACCTTTAGCGGCGCTTTT-CCACAAACGCCGCTAAAGAACAAG
57699823 ACATTTAGCGACGCTTTTCCCT
63 ACATTTAGCGACGCTTTTCCCT
* *
57699845 AAAATGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG-ACAAGACCTTTAGCGGCGCTTTTCC-ACAAACGCCGCTAAAG
57699903 GTCTACTAAA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
84 2 0.02
85 70 0.56
86 50 0.40
87 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (84 bp):
AAAACGCCGCTAAAGACAAGACCTTTAGCGGCGCTTTTCCACAAACGCCGCTAAAGAACAAGACA
TTTAGCGACGCTTTTCCCT
Found at i:57699830 original size:128 final size:128
Alignment explanation
Indices: 57699655--57699902 Score: 331
Period size: 128 Copynumber: 1.9 Consensus size: 128
57699645 GCGTCGCTAA
* * * *
57699655 CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTATCGC-ACA
1 CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCTA-A
* * * *
57699719 AACGCCGCTAAAGACCAGGACTTTTAGC-AGCGCTTTTCC-AGAAACGCCGCTAAAGACTTGGAC
65 AACGCCGCTAAAGAACAAGACCTTTAGCGA-CGCTTTTCCTACAAACGCCGCTAAAGACTTGGAC
* ** *
57699782 CTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTTTCCCTAA
1 CTTTAGCGGCGCCTTT-AAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCTAA
*
57699847 AATGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
65 AACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAG
57699903 GTCTACTAAA
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
127 15 0.14
128 72 0.69
129 17 0.16
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (128 bp):
CTTTAGCGGCGCCTTTAAAAAAACGCCGCTAAAGAACAAGACATTTAGCGACGCTTATCCCTAAA
ACGCCGCTAAAGAACAAGACCTTTAGCGACGCTTTTCCTACAAACGCCGCTAAAGACTTGGAC
Found at i:57701908 original size:63 final size:61
Alignment explanation
Indices: 57701834--57701971 Score: 197
Period size: 61 Copynumber: 2.2 Consensus size: 61
57701824 ACCTCTAACC
* *
57701834 TCTAACCCCT-AACTACTAACCCCTAAACCTTATTTAATATGTAAATTAAAAAACACTAATTAA
1 TCTAAACCCTAAAC-ACTAACCCATAAACCTTATTTAATA--TAAATTAAAAAACACTAATTAA
* *
57701897 TCTAAACCCTAAACCCTAACCCATAAACCTTATTTAATATAAATTAAAATACACTAATTAA
1 TCTAAACCCTAAACACTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTAA
*
57701958 TCTAAACCATAAAC
1 TCTAAACCCTAAAC
57701972 CTTAACCTAA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
61 34 0.49
63 32 0.46
64 3 0.04
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.29
Consensus pattern (61 bp):
TCTAAACCCTAAACACTAACCCATAAACCTTATTTAATATAAATTAAAAAACACTAATTAA
Found at i:57701971 original size:61 final size:62
Alignment explanation
Indices: 57701849--57701978 Score: 208
Period size: 61 Copynumber: 2.1 Consensus size: 62
57701839 CCCCTAACTA
* *
57701849 CTAACCCCTAAACCTTATTTAATATGTAAATTAAAAAACACTAATTAATCTAAACCCTAAACC
1 CTAACCCATAAACCTTATTTAATA-GTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
57701912 CTAACCCATAAACCTTATTTAATA-TAAATTAAAATACACTAATTAATCTAAACCATAAACC
1 CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
*
57701973 TTAACC
1 CTAACC
57701979 TAACACCGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
61 40 0.63
63 23 0.37
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.29
Consensus pattern (62 bp):
CTAACCCATAAACCTTATTTAATAGTAAATTAAAAAACACTAATTAATCTAAACCATAAACC
Found at i:57702158 original size:14 final size:14
Alignment explanation
Indices: 57702139--57702175 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
57702129 ATCCTAAATT
57702139 AACCATATACCCCA
1 AACCATATACCCCA
*
57702153 AACCATATACCCTA
1 AACCATATACCCCA
57702167 AACCATATA
1 AACCATATA
57702176 TATTAAACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
AACCATATACCCCA
Found at i:57702362 original size:21 final size:21
Alignment explanation
Indices: 57702337--57702402 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
57702327 GTATTTTAAT
57702337 TTTTTCCATTTTTAACAAATA
1 TTTTTCCATTTTTAACAAATA
* *
57702358 TTTTTCTATTTTTTATTTC-AA-A
1 TTTTTCCA-TTTTTA--ACAAATA
*
57702380 TTTATCCATTTTTAACAAATA
1 TTTTTCCATTTTTAACAAATA
57702401 TT
1 TT
57702403 CAATTAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 16 0.46
22 13 0.37
23 2 0.06
24 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTTTCCATTTTTAACAAATA
Found at i:57702471 original size:20 final size:19
Alignment explanation
Indices: 57702430--57702473 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
57702420 AATTTTAATT
* *
57702430 AATATAAATAAACATATTA
1 AATATAAATAAACAGATAA
*
57702449 AATAGTAAATAGACAGATAA
1 AATA-TAAATAAACAGATAA
57702469 AATAT
1 AATAT
57702474 TTTTGTGGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (19 bp):
AATATAAATAAACAGATAA
Found at i:57702552 original size:41 final size:41
Alignment explanation
Indices: 57702496--57702711 Score: 279
Period size: 41 Copynumber: 5.3 Consensus size: 41
57702486 TTTTTAAAAA
*
57702496 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGT
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
* * **
57702537 TGCTAAAGCCTTGAGCATTAGCGGCGCTTTTCCAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
* **
57702578 CGCTAAAGACCTGAGCATTAGCGGCGCTTTTCCAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
* * *
57702619 CGCTAAAGCCCTGAGCATTAGCGGCACTTCCACAAAAACGT
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
* ****
57702660 CGCTAAAGCCCTGAGCATTAGCAGCGCTTTTTTAAAAACGC
1 CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
*
57702701 CACTAAAGCCC
1 CGCTAAAGCCC
57702712 CGAAAGGTCT
Statistics
Matches: 153, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 153 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (41 bp):
CGCTAAAGCCCTGAGCATTAGCGGCGCTTCCCCAAAAACGC
Found at i:57708194 original size:93 final size:93
Alignment explanation
Indices: 57708082--57708253 Score: 319
Period size: 93 Copynumber: 1.8 Consensus size: 93
57708072 CGCCCATAAG
57708082 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
57708146 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
57708175 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57708240 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57708254 TCAATCATCC
Statistics
Matches: 77, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57708250 original size:46 final size:46
Alignment explanation
Indices: 57708075--57708250 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
57708065 TGTAACCCGC
*
57708075 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
57708121 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57708171 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57708214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57708251 TGCTCAATCA
Statistics
Matches: 112, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.54
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57715267 original size:46 final size:46
Alignment explanation
Indices: 57715122--57715267 Score: 122
Period size: 46 Copynumber: 3.2 Consensus size: 46
57715112 AACCCGCCCA
* *
57715122 TAAGCGAACTCGGACTCAACTCAACGAGTTCAGATGC-CTAGTTACAT-C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--T-CATCC
* * * *** *
57715170 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCATCC
57715214 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ATCATCC
57715262 T-AGTGA
1 TAAGTGA
57715268 CATGTCACTT
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.03
46 35 0.45
47 29 0.37
48 8 0.10
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCATCC
Found at i:57721535 original size:18 final size:18
Alignment explanation
Indices: 57721512--57721556 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
57721502 TAGTGTAGAA
57721512 AACCCTAGTGTGCAACCC
1 AACCCTAGTGTGCAACCC
* *
57721530 AACCCTAGTGTGCCACCT
1 AACCCTAGTGTGCAACCC
57721548 AACCCTAGT
1 AACCCTAGT
57721557 ATATAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.38, G:0.16, T:0.20
Consensus pattern (18 bp):
AACCCTAGTGTGCAACCC
Found at i:57729041 original size:50 final size:52
Alignment explanation
Indices: 57728981--57729114 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 52
57728971 TGAGATGTGT
* ** *
57728981 CAGTGTAAGACCATGTCTAGGACATGGCATCGGTAGGGTC-ATG-TGAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
* *
57729031 TAGTGTAAGACCATGTCTGGGACATGGCATC---AGCCTCGAAGATGATAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
*
57729080 CAGTGTAAGACCATGTTTGGGACATGGCATCGGTA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTA
57729115 CTTTACCCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
47 4 0.06
48 2 0.03
49 35 0.49
50 29 0.41
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (52 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGTAGCCTCGAAGATGAGAGC
Found at i:57736583 original size:46 final size:45
Alignment explanation
Indices: 57736525--57736697 Score: 136
Period size: 46 Copynumber: 3.7 Consensus size: 45
57736515 TCATTTGTGT
* *
57736525 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGCCATATTATGA-
1 GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACAT-TGA-GAC
* * *
57736571 GAGCCAGTGTAAGACCATGTCTGGAACATGGCATC-GACATTGAGAC
1 GAGCTAGTGTAAGA-TATGTCTGGGACAT-GCATCAGACATTGAGAC
* * * *
57736617 GAGTGCTAGTGTAAGATATATCTGGGACATGCATCA-ACCTCGGGAC
1 GA--GCTAGTGTAAGATATGTCTGGGACATGCATCAGACATTGAGAC
* * * *
57736663 GTAAGCCAGTATAAGACATGCCTGGGACATGCATC
1 G--AGCTAGTGTAAGATATGTCTGGGACATGCATC
57736698 GGCTACGAGA
Statistics
Matches: 102, Mismatches: 17, Indels: 16
0.76 0.13 0.12
Matches are distributed among these distances:
45 2 0.02
46 56 0.55
47 27 0.26
48 17 0.17
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGATATGTCTGGGACATGCATCAGACATTGAGAC
Found at i:57736757 original size:46 final size:48
Alignment explanation
Indices: 57736570--57736844 Score: 155
Period size: 46 Copynumber: 5.8 Consensus size: 48
57736560 CCATATTATG
* * * *
57736570 AGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGAC-ATTGAGACG-
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGT
* * * ** * *
57736618 AGTGCTAGTGTAAGA-TATATCTGGGACAT-GCATCAACCT-CGGGACGT
1 AGAGC-AGTGTAAGACCATGTCTGGGACATGGCATC-GGCTACGAGATGT
* *
57736665 A-AGCCAGTATAAGA-CATGCCTGGGACAT-GCATCGGCTACGAGATGT
1 AGAG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGT
* *
57736711 -G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-GGGTTATGT
1 AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAG--ATGT
* * * *
57736757 GAGAGCTAGCGTAAGACCATGTTTGGGACATGGCACCAGCCT-CGAAGATGAT
1 -AGAGC-AGTGTAAGACCATGTCTGGGACATGGCATC-GGCTACG-AGATG-T
* *
57736809 A-ACCAGTGTAAGACCATGTTTGGGACATGGCATCGG
1 AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGG
57736845 TACTTTACCC
Statistics
Matches: 176, Mismatches: 31, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 53 0.30
47 15 0.09
48 14 0.08
49 29 0.16
50 29 0.16
51 6 0.03
52 2 0.01
53 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (48 bp):
AGAGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGT
Found at i:57738392 original size:30 final size:30
Alignment explanation
Indices: 57738325--57738392 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
57738315 TAAAAATTGA
* * *
57738325 TTTAAAGCCTAGGGGTAAAATTGTAAATTT
1 TTTAAAGTCTAGGGGCAAAATGGTAAATTT
* * * *
57738355 GTGAAAGTCTAGGGGCAAAATGGTCATTTT
1 TTTAAAGTCTAGGGGCAAAATGGTAAATTT
57738385 TTTAAAGT
1 TTTAAAGT
57738393 ATAAATTATG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (30 bp):
TTTAAAGTCTAGGGGCAAAATGGTAAATTT
Found at i:57741800 original size:28 final size:29
Alignment explanation
Indices: 57741767--57741835 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
57741757 ATGTGATTGA
* * *
57741767 GAGAAAATGAGAGAAG-AAAATATGTTTG
1 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
57741795 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
1 GAGAAAATGAGAGAAGAAAAAGAGGTTGG
57741824 GAGAAAATGAGA
1 GAGAAAATGAGA
57741836 AAACAAGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.14
Consensus pattern (29 bp):
GAGAAAATGAGAGAAGAAAAAGAGGTTGG
Found at i:57742449 original size:14 final size:14
Alignment explanation
Indices: 57742438--57742468 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57742428 TTGAAAATAG
*
57742438 TTTCTGGAAAATGA
1 TTTCTAGAAAATGA
57742452 TTTCTAGAAAATGA
1 TTTCTAGAAAATGA
57742466 TTT
1 TTT
57742469 TTTTTTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTCTAGAAAATGA
Found at i:57761838 original size:17 final size:18
Alignment explanation
Indices: 57761811--57761852 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
57761801 GATCGACTAC
57761811 CTTTA-TTTTTT-TTGAA
1 CTTTATTTTTTTGTTGAA
*
57761827 CTTTATTTTTTTGTTGTA
1 CTTTATTTTTTTGTTGAA
57761845 C-TTATTTT
1 CTTTATTTT
57761853 CCTCTTCTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 13 0.57
18 5 0.22
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (18 bp):
CTTTATTTTTTTGTTGAA
Found at i:57763680 original size:40 final size:40
Alignment explanation
Indices: 57763643--57763814 Score: 267
Period size: 40 Copynumber: 4.3 Consensus size: 40
57763633 GCTACTCGTT
* *
57763643 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
57763683 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57763723 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
57763763 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57763802 CAAATGCCTTCGG
1 CAAATGCCTTCGG
57763815 ATCTTAGTCC
Statistics
Matches: 124, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 34 0.27
40 88 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57763860 original size:79 final size:79
Alignment explanation
Indices: 57763643--57763871 Score: 257
Period size: 79 Copynumber: 2.9 Consensus size: 79
57763633 GCTACTCGTT
* * * * *
57763643 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
57763708 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * *
57763723 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
*
57763787 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
** * * *
57763802 CAAATGCCTTC-GGATCTTAGTCC-TATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCG
57763865 GACATTA
64 GA-ATTA
57763872 TTCGAATAAC
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
78 22 0.17
79 54 0.42
80 49 0.38
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:57765061 original size:56 final size:56
Alignment explanation
Indices: 57764994--57765113 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
57764984 TATTAGTTTA
57764994 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57765050 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57765106 TTGCCCAT
1 TTGCCCAT
57765114 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57771608 original size:40 final size:40
Alignment explanation
Indices: 57771571--57771795 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
57771561 GCTACTCGTT
* *
57771571 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
57771611 CAAATGCCGTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57771651 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
57771691 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
57771730 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57771771 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57771796 CATCATTCGA
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 116 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57771755 original size:119 final size:120
Alignment explanation
Indices: 57771573--57771795 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
57771563 TACTCGTTCA
*
57771573 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCGTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCGTCGGGACTTAACCCGGAT
* *
57771638 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
57771693 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCGTCGGGA-CTTAACCCGG
* * *
57771755 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
57771796 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCGTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:57772991 original size:56 final size:56
Alignment explanation
Indices: 57772924--57773043 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
57772914 TATTAGTTTA
57772924 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
57772980 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57773036 TTGCCCAT
1 TTGCCCAT
57773044 CATCCATTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57775275 original size:94 final size:91
Alignment explanation
Indices: 57775176--57775804 Score: 459
Period size: 94 Copynumber: 6.7 Consensus size: 91
57775166 ATTCCAACCT
* * *
57775176 ACTGCAACTTCAAGGGTATAGGATTTGTAGCTTCATTTTGCTCTACTGCAACTTCATGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* * * * *
57775241 GATTCACTATGGTAGCTTCGATACAATCC
64 GATTGA-TATTGTAACTTCGATCCGATCC
* * ** * * * * *
57775270 ACTGCATCTTCAAGGTTATAATATTTGTAGCTTCATCTTACTCTAATACAACTTTAGGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* * *
57775335 TATTTGATATTATAGCATT-GATCCGATCC
64 GA-TTGATATTGTAAC-TTCGATCCGATCC
* * * *
57775364 ACTGTATCTT-TAGAGATATAGGA-TTTACGACTTCATCTTGCTCCATTGCAACTTCAAGGAGAT
1 ACTGCAACTTCAAG-GATATAGGATTTTA-G-CTTCATCTTGCTCCACTGCAACTTC-AGGAGAT
* *
57775427 AAGATTTGGTA--CTAACTTCGATCCGATCC
62 AAGA-TTGATATTGTAACTTCGATCCGATCC
* * * *
57775456 ACTGCATCTTCAGGGATATAGGA-TTTAGCTTCATCTTGCTCCGCTACAACTTCAGAGAGATAAG
1 ACTGCAACTTCAAGGATATAGGATTTTAGCTTCATCTTGCTCCACTGCAACTTCAG-GAGATAAG
* *
57775520 ATTTGATATTTTAACTTTGATCCGATCC
65 A-TTGATATTGTAACTTCGATCCGATCC
* * * *
57775548 A-TTCAATCTTCAAGGATATAGGATTCATAGCTTTATCTTGCTCCACTGCAACTTTAGTGAGATA
1 ACTGCAA-CTTCAAGGATATAGGATT-TTAGCTTCATCTTGCTCCACTGCAACTTCAG-GAGATA
* * * * *
57775612 AGATTTGCTATAGTAATTTC-ATTCTGACCC
63 AGA-TTGATATTGTAACTTCGA-TCCGATCC
* * * *
57775642 ACTTCAACCTCAAAGATATAGGATTTATAGCTTCATCTTGCTCCACTGTAACTTCAGGGAGATAA
1 ACTGCAACTTCAAGGATATAGGATTT-TAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
* ** * *
57775707 GATTTGCA-ATAGTAA-TTTTATTCTGACCC
64 GA-TTG-ATATTGTAACTTCGA-TCCGATCC
* * * * *
57775736 ACTGCAACTTCAGGGAGATAGGATTTTTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATTA
1 ACTGCAACTTCAAGGATATAGGA-TTTTAGCTTCATCTTGCTCCACTGCAACTTCA-GGAGATAA
57775801 GATT
64 GATT
57775805 TGCCATTTCA
Statistics
Matches: 442, Mismatches: 72, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
89 2 0.00
90 37 0.08
91 6 0.01
92 69 0.16
93 12 0.03
94 301 0.68
95 15 0.03
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.35
Consensus pattern (91 bp):
ACTGCAACTTCAAGGATATAGGATTTTAGCTTCATCTTGCTCCACTGCAACTTCAGGAGATAAGA
TTGATATTGTAACTTCGATCCGATCC
Found at i:57775526 original size:184 final size:185
Alignment explanation
Indices: 57775183--57775806 Score: 541
Period size: 188 Copynumber: 3.3 Consensus size: 185
57775173 CCTACTGCAA
* * * * *
57775183 CTTCAAGGGTATAGGATTTGTAGCTTCATTTTGCTCTACTGCAACTTCATGGAGATAAGATTCAC
1 CTTCAAGGATATAGGA-TTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATT---
* * * * * ** * *
57775248 T-ATGGTAGCTTCGATACAATCCACTGCATCTTCAAGGTTATAATATTTGTAGCTTCATCTTACT
62 TGATAGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCT
* * * * * **
57775312 CTAATACAACTTTAGGGAGATAATATTTGATATTATAGCATTGATCCGATCCACTGTAT
127 CCACTACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
* *
57775371 CTT-TAGAGATATAGGATT-TACGACTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTT
1 CTTCAAG-GATATAGGATTATA-G-CTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTT
* * *
57775434 GGTACTAACTTCGATCCGATCCACTGCATCTTCAGGGATATAGGA-TT-TAGCTTCATCTTGCTC
63 GATAGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCTC
* * * * *
57775497 CGCTACAACTTCAGAGAGATAAGATTTGATATTTTAACTTTGATCCGATCCATTCAAT
128 CACTACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
* *
57775555 CTTCAAGGATATAGGATTCATAGCTTTATCTTGCTCCACTGCAACTT-TAGTGAGATAAGATTTG
1 CTTCAAGGATATAGGATT-ATAGCTTCATCTTGCTCCACTGCAACTTCAAG-GAGATAAGATTTG
* * * * * * *
57775619 CTATAGTAATTTC-ATTCTGACCCACTTCAACCTCAAAGATATAGGATTTATAGCTTCATCTTGC
64 --ATAGTAACTTCGA-TCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGC
** * * * *
57775683 TCCACTGTAACTTCAGGGAGATAAGATTTGCA-A-TAGTAA-TTTTATTCTGACCCACTGCAA-
126 TCCACTACAACTTCAGGGAGATAAGATTTG-ATATTA-TAACATTGA-TCCGATCCACT-CAAT
* * * * * * *
57775743 CTTCAGGGAGATAGGATTTTTAGCTTCATCTTGCTCCACTACAACTTTAGGGAGATTAGATTTG
1 CTTCAAGGATATAGGA-TTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTG
57775807 CCATTTCAAC
Statistics
Matches: 357, Mismatches: 60, Indels: 38
0.78 0.13 0.08
Matches are distributed among these distances:
183 2 0.01
184 110 0.31
185 7 0.02
186 70 0.20
187 12 0.03
188 149 0.42
189 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (185 bp):
CTTCAAGGATATAGGATTATAGCTTCATCTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGAT
AGTAACTTCGATCCGATCCACTGCATCTTCAAGGATATAGGATTTATAGCTTCATCTTGCTCCAC
TACAACTTCAGGGAGATAAGATTTGATATTATAACATTGATCCGATCCACTCAAT
Found at i:57775711 original size:44 final size:44
Alignment explanation
Indices: 57775394--57775805 Score: 174
Period size: 50 Copynumber: 8.9 Consensus size: 44
57775384 GGATTTACGA
* * *
57775394 CTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGGTACTAA
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA-TT--TA-TAG
* * * * *
57775442 CTTCGATC-CGATCCACTGCATCTTCAGGGATATAGGA-TT-TAG
1 CTTC-ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAG
* * *
57775484 CTTCATCTTGCTCCGCTACAACTTCAGAGAGATAAGATTTGATA-
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAG
* * * * * * * * *
57775528 TTTTAACTTTGATCCGATCCATTCAATCTTCAAGGATATAGGATTCATAG
1 CTTCATC-TTGCTCC-A--C-TGCAA-CTTCAGGGAGATAAGATTTATAG
* * *
57775578 CTTTATCTTGCTCCACTGCAACTTTAGTGAGATAAGATTTGCTATAG
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA-TT--TATAG
* * * ** * *
57775625 TAATTTCAT-TCTGAC-CCACTTCAACCTCAAAGATATAGGATTTATAG
1 ---CTTCATCT-TG-CTCCACTGCAACTTCAGGGAGATAAGATTTATAG
*
57775672 CTTCATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCAATAG
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT---ATAG
* * * *
57775719 TAATTTTAT-TCTGAC-CCACTGCAACTTCAGGGAGATAGGATTTTTAG
1 ---CTTCATCT-TG-CTCCACTGCAACTTCAGGGAGATAAGATTTATAG
* * *
57775766 CTTCATCTTGCTCCACTACAACTTTAGGGAGATTAGATTT
1 CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTT
57775806 GCCATTTCAA
Statistics
Matches: 267, Mismatches: 65, Indels: 68
0.67 0.16 0.17
Matches are distributed among these distances:
41 3 0.01
42 27 0.10
43 4 0.01
44 74 0.28
45 16 0.06
46 2 0.01
47 16 0.06
48 28 0.10
49 20 0.07
50 75 0.28
51 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (44 bp):
CTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAG
Found at i:57776081 original size:13 final size:13
Alignment explanation
Indices: 57776063--57776089 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57776053 AATCCTATTG
57776063 AGTCTATTTTTAC
1 AGTCTATTTTTAC
57776076 AGTCTATTTTTAC
1 AGTCTATTTTTAC
57776089 A
1 A
57776090 TATAAGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (13 bp):
AGTCTATTTTTAC
Found at i:57777298 original size:64 final size:64
Alignment explanation
Indices: 57777171--57777299 Score: 159
Period size: 64 Copynumber: 2.0 Consensus size: 64
57777161 CGAGCATCTC
* * * * * * *
57777171 GATTGGTATTGATCCTGCATGTGTTGCGGACATACCGCAGCTCTTTGTGAGCATCCTGTTATAT
1 GATTGGTATTGATCCTGCATATATTGCGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
* * * *
57777235 GATTTGTATTGATCTTGCATATATTGTGGACATACCACAGCTCTTTATAAGCGTCCCGATATAT
1 GATTGGTATTGATCCTGCATATATTGCGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
57777299 G
1 G
57777300 GCTCTTCATG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (64 bp):
GATTGGTATTGATCCTGCATATATTGCGGACATACCACAGCTCTTTATAAGCATCCCGATATAT
Found at i:57789231 original size:29 final size:29
Alignment explanation
Indices: 57789168--57789235 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
57789158 TAATCAACCA
57789168 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
57789197 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
57789226 CGCACACTTA
1 CGCACACTTA
57789236 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:57789376 original size:29 final size:30
Alignment explanation
Indices: 57789337--57789415 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
57789327 CTTAATAATC
57789337 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
57789367 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
57789396 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
57789416 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:57797716 original size:24 final size:23
Alignment explanation
Indices: 57797683--57797740 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
57797673 AGTTGAAAAG
57797683 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
57797707 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
57797729 TATATATAATAA
1 TATA-ATAATAA
57797741 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:57798093 original size:49 final size:47
Alignment explanation
Indices: 57798011--57798119 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
57798001 CTTACTTTGA
57798011 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
57798058 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
57798107 GAATGTGATAAGT
1 GAATGTGA-AAGT
57798120 CCCGAAGGGC
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 13 0.22
49 41 0.71
50 4 0.07
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.30
Consensus pattern (47 bp):
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
Found at i:57798293 original size:37 final size:37
Alignment explanation
Indices: 57798237--57798315 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57798227 CCGAGCTCTA
* * *
57798237 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
57798274 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
57798311 AAGAC
1 AAGAC
57798316 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:57813970 original size:79 final size:78
Alignment explanation
Indices: 57813870--57814092 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 78
57813860 GCTCCTCGTT
* *
57813870 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
57813935 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
57813950 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTC-GGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
57814012 GAATTAGTATCTCGCA
63 GAATTAGTAACTCGCA
* * * *
57814028 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
57814091 GA
63 GA
57814093 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
77 2 0.02
78 45 0.36
79 57 0.46
80 19 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:57813987 original size:39 final size:40
Alignment explanation
Indices: 57813870--57814092 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
57813860 GCTCCTCGTT
* *
57813870 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57813910 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
57813950 CAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57813989 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
57814028 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57814069 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57814093 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57818133 original size:40 final size:41
Alignment explanation
Indices: 57817988--57818138 Score: 137
Period size: 41 Copynumber: 3.7 Consensus size: 41
57817978 GTTGCTAACG
* * *
57817988 GAAAAACGCCACAATAGGTAAAGCAATAGTGGCGTTTATGA
1 GAAAAACGCCACAAAAGGTAAAGCAATAGCGACGTTTATGA
* * * * * *
57818029 GAAAATCGCCGCAAAAGGTCAAGTAGTAGC-AGTGTTTATGA
1 GAAAAACGCCACAAAAGGTAAAGCAATAGCGA-CGTTTATGA
* * * * *
57818070 GCAAAATGCCACAAAA-GAAAAGCATTAGCGACATTTATGA
1 GAAAAACGCCACAAAAGGTAAAGCAATAGCGACGTTTATGA
*
57818110 GAAAAACGCCGCAAAAGGT-AAGCAATAGC
1 GAAAAACGCCACAAAAGGTAAAGCAATAGC
57818139 TTATTGATAA
Statistics
Matches: 83, Mismatches: 24, Indels: 7
0.73 0.21 0.06
Matches are distributed among these distances:
40 38 0.46
41 45 0.54
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (41 bp):
GAAAAACGCCACAAAAGGTAAAGCAATAGCGACGTTTATGA
Found at i:57818287 original size:37 final size:34
Alignment explanation
Indices: 57818205--57818295 Score: 96
Period size: 37 Copynumber: 2.6 Consensus size: 34
57818195 TGCACAGCTA
*
57818205 AAAATCCCTTA-TTTTCCCCTAAACAATAACCCC
1 AAAATCCCTTATTTTTCCCCTAAAAAATAACCCC
* *
57818238 AAAATCCTTTATTTTTCCCCCTAAAAATCATAATCTCC
1 AAAATCCCTTATTTTT-CCCCTAAAAA--ATAA-CCCC
57818276 -AAATCCCTTATTTTTTCCCC
1 AAAATCCCTTA-TTTTTCCCC
57818296 AAATCGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
33 10 0.21
34 4 0.08
35 9 0.19
37 17 0.35
38 8 0.17
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (34 bp):
AAAATCCCTTATTTTTCCCCTAAAAAATAACCCC
Found at i:57818328 original size:14 final size:14
Alignment explanation
Indices: 57818291--57818321 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57818281 CCTTATTTTT
57818291 TCCCCAAATCGAAA
1 TCCCCAAATCGAAA
*
57818305 TCCCCTAATCGAAA
1 TCCCCAAATCGAAA
57818319 TCC
1 TCC
57818322 TGAAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.39, G:0.06, T:0.19
Consensus pattern (14 bp):
TCCCCAAATCGAAA
Found at i:57818495 original size:27 final size:27
Alignment explanation
Indices: 57818465--57818520 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
57818455 GCTACAAGAT
57818465 TTAATGGATGCTTAGCCCTAAAATTGC
1 TTAATGGATGCTTAGCCCTAAAATTGC
* *
57818492 TTAATGGATGTTTAGCCTTAAAATTGC
1 TTAATGGATGCTTAGCCCTAAAATTGC
57818519 TT
1 TT
57818521 GTTCTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (27 bp):
TTAATGGATGCTTAGCCCTAAAATTGC
Found at i:57819077 original size:29 final size:29
Alignment explanation
Indices: 57819044--57819102 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
57819034 ATTTTGGTAC
57819044 TTGCATTTAACTTGGAAAATATAAAAATT
1 TTGCATTTAACTTGGAAAATATAAAAATT
57819073 TTGCATTTAACTTGGAAAATATAAAAATT
1 TTGCATTTAACTTGGAAAATATAAAAATT
57819102 T
1 T
57819103 GGAGATTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (29 bp):
TTGCATTTAACTTGGAAAATATAAAAATT
Found at i:57822456 original size:9 final size:9
Alignment explanation
Indices: 57822442--57822476 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
57822432 TTTATTTTTA
*
57822442 ATTATTGAT
1 ATTATTAAT
57822451 ATTATTAAT
1 ATTATTAAT
57822460 ATTATTAAT
1 ATTATTAAT
57822469 ATTATTAA
1 ATTATTAA
57822477 GTGATTATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
ATTATTAAT
Found at i:57830786 original size:42 final size:42
Alignment explanation
Indices: 57830668--57830778 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
57830658 TGAAACTTTG
* **
57830668 TGTAAGACCATATTTGCGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCCCA
** * *
57830710 TGT-AGACCATAGCTGGGCTATTGCCATCGATATGAGATCCCA
1 TGTAAGACCATATTTGGGATA-TGGCATCGATATGAGATCCCA
57830752 TGTAAGACCATATTTGGGATATGGCAT
1 TGTAAGACCATATTTGGGATATGGCAT
57830779 TGCTATGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 13 0.23
42 29 0.52
43 14 0.25
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATTTGGGATATGGCATCGATATGAGATCCCA
Found at i:57835684 original size:42 final size:41
Alignment explanation
Indices: 57835581--57835686 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 41
57835571 CACATCGATG
* * * * **
57835581 CCATATCCCAGATATGGTCTTATACGAATTCTTGCTCGATT
1 CCATATCCCAGATATGGTCTTACACGAATTCATGATCAACA
* * *
57835622 CCATGTCTCAGACATGGTCTTACACGAAATCTCAT-ATCAACA
1 CCATATCCCAGATATGGTCTTACACG-AAT-TCATGATCAACA
57835664 CCATATCCCAGATATGGTCTTAC
1 CCATATCCCAGATATGGTCTTAC
57835687 TTAATAACTC
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 22 0.43
42 26 0.51
43 3 0.06
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.31
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACACGAATTCATGATCAACA
Found at i:57841190 original size:42 final size:42
Alignment explanation
Indices: 57841102--57841256 Score: 166
Period size: 42 Copynumber: 3.7 Consensus size: 42
57841092 CTGAAACTAT
* * * * * *
57841102 GTGTAAGACCATATTTGGGATATGGCATCAATTTAAAACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
*
57841144 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * * **
57841186 GTGTAAAACCATAGCTGGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
* *
57841229 ATGTAACACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
57841257 TGGTATGATA
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 60 0.64
43 34 0.36
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:57841234 original size:43 final size:42
Alignment explanation
Indices: 57841145--57841256 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 42
57841135 TAAAACTTCG
* * ****
57841145 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTTG
1 TGTAAAACCATATCTGGGATATGGCATCGATACGAGATCCCA
* *
57841187 TGTAAAACCATAGCTGGGCTATTGGCATCGATACGAGATCCCA
1 TGTAAAACCATATCTGGGATA-TGGCATCGATACGAGATCCCA
*
57841230 TGTAACACCATATCTGGGATATGGCAT
1 TGTAAAACCATATCTGGGATATGGCAT
57841257 TGGTATGATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAAACCATATCTGGGATATGGCATCGATACGAGATCCCA
Found at i:57843794 original size:44 final size:44
Alignment explanation
Indices: 57843731--57844309 Score: 188
Period size: 44 Copynumber: 12.7 Consensus size: 44
57843721 ATTACAGCAG
* *
57843731 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * *
57843775 CAAATCCTATATCCCTGAAGATGCAGTGGATC-AGATCAAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * *
57843822 GCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGATGAAG-TAA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCT-A
* * * * * * *
57843867 TAAATCCTATATCCCTGAAGATATAGTAGACGGATCGAAG-TTAA--TA
1 CAAATCTTATATCCCTAAAG-T-T-GCAG-TGGAGC-AAGATGAAGCTA
* * *
57843913 GCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * * *** *
57843958 TAAATCCTATATCCATGAAGATACACTGGA-TTGGATCGAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * * * *
57844005 GCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATAAAACTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * *
57844050 TAAATCCTATATCCCTAAAGATGCAATGGA-CAAGATCGAAGTTAATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGAT-GAAG---CTA
* * * *
57844097 GCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * * *
57844142 TAAATCCTATATCCCTAAAGATACAATGGATCGAATCAAAATTATA-ATA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGA--G---CAAGATGA-AGCTA
* * * * * *
57844191 TCAAATATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTA
1 -CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
* * ***
57844236 CAAATCTTGTA-CCTCTGAAGTTGCAGTGG-GTTGGAATGAAGCTA
1 CAAATCTTATATCC-CTAAAGTTGCAGTGGAGCAAG-ATGAAGCTA
* *
57844280 CAAATCCTATATCCCTAAAGTTGTAGTGGA
1 CAAATCTTATATCCCTAAAGTTGCAGTGGA
57844310 ATGGATTGAA
Statistics
Matches: 385, Mismatches: 110, Indels: 79
0.67 0.19 0.14
Matches are distributed among these distances:
42 3 0.01
43 23 0.06
44 176 0.46
45 19 0.05
46 4 0.01
47 25 0.06
48 87 0.23
49 25 0.06
50 23 0.06
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (44 bp):
CAAATCTTATATCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTA
Found at i:57843858 original size:92 final size:92
Alignment explanation
Indices: 57843633--57844241 Score: 618
Period size: 92 Copynumber: 6.6 Consensus size: 92
57843623 TGAAGCTATT
* * * * * * *
57843633 ATAGCAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAAGACAAAGCTACAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTG
** ** *
57843698 AATTTGCAATATAAT-AGATTGAAA-TTA
66 AAGATGCAAT-GGATCAGA-TCAAAGTTA
* * * *
57843725 CAGCAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCC
1 -A-TAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCC
*
57843790 TGAAGATGCAGTGGATCAGATCAAAGTTA
64 TGAAGATGCAATGGATCAGATCAAAGTTA
* * * *
57843819 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGATGAAG-TAATAAATCCTATATCCCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCT-ATAAATCCTATATCCCT
** * * * *
57843883 GAAGATATAGTAGA-CGGATCGAAGTTA
65 GAAGATGCAATGGATCAGATCAAAGTTA
* * * *
57843910 ATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTATAAATCCTATATCCATG
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTG
* * ** *
57843975 AAGATACACTGGATTGGATCGAAGTTA
66 AAGATGCAATGGATCAGATCAAAGTTA
* * * * *
57844002 ATAGCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATAAAACTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTG
*
57844067 AAGATGCAATGGA-CAAGATCGAAGTTA
66 AAGATGCAATGGATC-AGATCAAAGTTA
* * *
57844094 ATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTG
* *
57844159 AAGATACAATGGATC-GAATCAAAATTATA
66 AAGATGCAATGGATCAG-ATC-AAAGT-TA
* * * * * *
57844188 ATATCAAATATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATC
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATC
57844242 TTGTACCTCT
Statistics
Matches: 445, Mismatches: 60, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
91 82 0.18
92 233 0.52
93 12 0.03
94 118 0.27
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (92 bp):
ATAGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTATAAATCCTATATCCCTG
AAGATGCAATGGATCAGATCAAAGTTA
Found at i:57843965 original size:183 final size:183
Alignment explanation
Indices: 57843633--57844241 Score: 666
Period size: 183 Copynumber: 3.3 Consensus size: 183
57843623 TGAAGCTATT
* * * * * * *
57843633 ATAGCAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAAGACAAAGCTACAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATAAAACTATAAATCCTATATCCCTA
** * * * * * * * *
57843698 AATTTGCAATATA-ATAGATTGAAATTACAGCAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAG
66 AAGATACAATAGACA-AGATCGAAGTTA-A-TAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAG
* * *
57843762 CAAGATGAAGCTACAAATCCTATATCCCTGAAGATGCAGTGGATCAGATCAAAGTTA
128 CAAGATGAAGCTATAAATCCTATATCCCTGAAGATACAATGGATC-GATCAAAGTTA
* * * * *
57843819 ATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGACCAAGAT-GAAGTAATAAATCCTATATCCCT
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATAAAACT-ATAAATCCTATATCCCT
* * * *
57843883 GAAGATATAGTAGAC-GGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
65 AAAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
* * * *
57843947 AGATGAAGCTATAAATCCTATATCCATGAAGATACACTGGATTGGATCGAAGTTA
130 AGATGAAGCTATAAATCCTATATCCCTGAAGATACAATGGA-TCGATCAAAGTTA
* **
57844002 ATAGCAAATCTTATCTCTCTAAAGTTGCAATGGAGTAAGATAAAACTATAAATCCTATATCCCTA
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATAAAACTATAAATCCTATATCCCTA
* *
57844067 AAGATGCAATGGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
66 AAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
* * *
57844132 GATAAAGCTATAAATCCTATATCCCTAAAGATACAATGGATCGAATCAAAATTATA
131 GATGAAGCTATAAATCCTATATCCCTGAAGATACAATGGATCG-ATC-AAAGT-TA
* * * * * * * * *
57844188 ATATCAAATATTTTCTCCCTAAAGTTACAGTGAAGCAAGATAAAGCTACAAATC
1 ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATAAAACTATAAATC
57844242 TTGTACCTCT
Statistics
Matches: 354, Mismatches: 61, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
183 143 0.40
184 93 0.26
185 14 0.04
186 104 0.29
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (183 bp):
ATAGCAAATCTTATCTCCCTAAAGTTGCAATGGACCAAGATAAAACTATAAATCCTATATCCCTA
AAGATACAATAGACAAGATCGAAGTTAATAGCGAATCTTATCTCCCTAAAGTTGTAGTGGAGCAA
GATGAAGCTATAAATCCTATATCCCTGAAGATACAATGGATCGATCAAAGTTA
Found at i:57849356 original size:25 final size:25
Alignment explanation
Indices: 57849335--57849393 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
57849325 CAGCTCGTAT
*
57849335 GAGCTTACTATTATTCAACTCGGAG
1 GAGCTTACCATTATTCAACTCGGAG
*
57849360 GAGCTTACCATTATTCAGCTCGGAG
1 GAGCTTACCATTATTCAACTCGGAG
*
57849385 GAGTTTACC
1 GAGCTTACC
57849394 GTTTATAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAACTCGGAG
Found at i:57855804 original size:11 final size:11
Alignment explanation
Indices: 57855788--57855813 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
57855778 TATCTTCCAC
57855788 AAAAAAAAAGA
1 AAAAAAAAAGA
57855799 AAAAAAAAAGA
1 AAAAAAAAAGA
57855810 AAAA
1 AAAA
57855814 GGGAAAACCT
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:57858321 original size:42 final size:42
Alignment explanation
Indices: 57858275--57858365 Score: 182
Period size: 42 Copynumber: 2.2 Consensus size: 42
57858265 GGTCCAATTG
57858275 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
1 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
57858317 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
1 TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
57858359 TATTTTT
1 TATTTTT
57858366 TTATTATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.10, C:0.22, G:0.07, T:0.62
Consensus pattern (42 bp):
TATTTTTGGTCCTTTCGTTTTTTCCCCTTTTTAATTTCATCC
Found at i:57860746 original size:79 final size:79
Alignment explanation
Indices: 57860610--57860760 Score: 189
Period size: 79 Copynumber: 1.9 Consensus size: 79
57860600 TTTTGTAAAC
* * * * * * * * *
57860610 AGAAATCCATTGAACAAATTCTGTTTCAGGATTTTATTTCTGTTGTTCAGCAGAATTTGTTCGAT
1 AGAAATCAATTAAACAAATTCTGTTTCAAGATTCTATTCCTGTTGTTCAACAAAATTTATTC-AA
57860675 TTTCTATTTCCAAAT
65 TTTCTATTTCCAAAT
57860690 AGAAATCAATTAAAC-AATTCTGTTTCAAGATTCTATTCCT-TTCGTTCAACAAAATTTATTCAA
1 AGAAATCAATTAAACAAATTCTGTTTCAAGATTCTATTCCTGTT-GTTCAACAAAATTTATTCAA
57860753 TTTCTATT
65 TTTCTATT
57860761 GTTAACAGTA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
78 11 0.18
79 37 0.61
80 13 0.21
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (79 bp):
AGAAATCAATTAAACAAATTCTGTTTCAAGATTCTATTCCTGTTGTTCAACAAAATTTATTCAAT
TTCTATTTCCAAAT
Found at i:57868688 original size:87 final size:87
Alignment explanation
Indices: 57868585--57868760 Score: 334
Period size: 87 Copynumber: 2.0 Consensus size: 87
57868575 TAAAATCAAT
*
57868585 GGCGCTTCTGATGATGCCATTCGCCTTCGGTTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
1 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
57868650 GTGGTTGAACTCGTTACCACAA
66 GTGGTTGAACTCGTTACCACAA
*
57868672 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAGGCTAAAAA
1 GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
57868737 GTGGTTGAACTCGTTACCACAA
66 GTGGTTGAACTCGTTACCACAA
57868759 GG
1 GG
57868761 GTCAATCACT
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 87 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (87 bp):
GGCGCTTCTGATGATGCCATTCGCCTTCGGCTATTCCCCTTTTCATTAAGGAATAAAGCTAAAAA
GTGGTTGAACTCGTTACCACAA
Found at i:57874358 original size:4 final size:4
Alignment explanation
Indices: 57874351--57874387 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
57874341 ACAAAAAAAA
57874351 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
57874388 TTGATAGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:57875167 original size:28 final size:28
Alignment explanation
Indices: 57875122--57875176 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
57875112 TAGGCACTTC
*
57875122 CACACGGGTGATCCACACGCCCGTGTGA
1 CACACGGGTGATCCACACACCCGTGTGA
*
57875150 CACACGGGTAGA-CTACACACCCGTGTG
1 CACACGGGT-GATCCACACACCCGTGTG
57875177 TCATGGCCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.24, C:0.35, G:0.27, T:0.15
Consensus pattern (28 bp):
CACACGGGTGATCCACACACCCGTGTGA
Found at i:57885958 original size:124 final size:125
Alignment explanation
Indices: 57885803--57886051 Score: 455
Period size: 125 Copynumber: 2.0 Consensus size: 125
57885793 TGGTTTCCAA
**
57885803 ATTCATGAAAGAACGAGTTGTCGTGGAATA-TTTTTCCGAATGTTATTAAGCATGTCGATAATAA
1 ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
*
57885867 ATTGAGTTTAGTTAAAGCAATTGTCTAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
*
57885927 ATTCATGAAAGATCGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
1 ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
57885992 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
57886052 TTTAATTTGC
Statistics
Matches: 120, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
124 27 0.22
125 93 0.77
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (125 bp):
ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
Found at i:57891016 original size:15 final size:17
Alignment explanation
Indices: 57890996--57891027 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
57890986 ATTAGAAACG
57890996 TACATAA-A-AAATATA
1 TACATAATATAAATATA
57891011 TACATAATATAAATATA
1 TACATAATATAAATATA
57891028 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:57892781 original size:89 final size:90
Alignment explanation
Indices: 57892634--57892797 Score: 235
Period size: 89 Copynumber: 1.8 Consensus size: 90
57892624 AATAGACAAT
* *
57892634 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATACGAG
57892699 TCGATTTTTTGAAAGGCAAAAATTG
66 TCGATTTTTTGAAAGGCAAAAATTG
* **
57892724 AAAAACAGAAATTGAAAATACCTC-G-GCTGTGA-CCTGAGGCTCAACTCGTCTCTCGCAATACG
1 AAAAACAGAAATTGAAAATACCTCAGCGC-GTGAGCC-AAGGCTCAACTCACCTCTCGCAATACG
*
57892786 AGTTGATTTTTT
64 AGTCGATTTTTT
57892798 TTATTTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 4 0.06
89 39 0.59
90 23 0.35
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (90 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATACGAG
TCGATTTTTTGAAAGGCAAAAATTG
Found at i:57892913 original size:89 final size:85
Alignment explanation
Indices: 57892671--57893206 Score: 341
Period size: 89 Copynumber: 6.5 Consensus size: 85
57892661 GCGTGAGCCA
* * * *
57892671 AGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTTGAAAGGCAAAAATTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA--TATAAATT-TAAAACAGAAA
* *
57892735 TTGAAAATACCTCGGCTGTGACCTG
63 TTGAAATTACCTCAGCTGT--CCTG
** * *** *
57892760 AGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTT----TATTTTTTTACAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAATATAAATTTAAAACAGAAATTG
57892821 AAATTACCTCAGCATGTCCTG
66 AAATTACCTCAGC-TGTCCTG
57892842 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAATATAAATTTAAAAGCAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG-AAATATAAATTTAAAA-CAGAAA
* *
57892907 TTGAAATTAACTCAAC-GTGCCTTG
63 TTGAAATTACCTCAGCTGT-CC-TG
* * * * *
57892931 AGGCTCAACTTACCTCTCGCAGTATGAGTTGA--TTTTTGAAA-ACAAAATT------GAAAAT-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAATATAAATTTAAAACAGAAATTG
** ** *
57892986 -ACCT-CAGCA--TGTCTTG
66 AAATTACCTCAGCTGTCCTG
** * * *
57893002 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAACAGAAA-TT------GAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AATATAAATTTAAAACAGAAATT
** **
57893060 --ACCT-CAGC-G-TGTCCTG
65 GAAATTACCTCAGCTGTCCTG
*
57893076 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCA-AA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG--AAATATAAATTTAAAA-CAGAA
*
57893140 ATTGAAATTACCTCAAC-GTGCCTTG
62 ATTGAAATTACCTCAGCTGT-CC-TG
57893165 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
57893207 GACAAAAATT
Statistics
Matches: 360, Mismatches: 52, Indels: 74
0.74 0.11 0.15
Matches are distributed among these distances:
71 30 0.08
72 1 0.00
73 8 0.02
74 54 0.15
75 14 0.04
76 6 0.02
77 7 0.02
82 32 0.09
83 36 0.10
84 12 0.03
85 8 0.02
86 8 0.02
87 11 0.03
88 15 0.04
89 112 0.31
90 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAATATAAATTTAAAACAGAAATTG
AAATTACCTCAGCTGTCCTG
Found at i:57893082 original size:74 final size:73
Alignment explanation
Indices: 57892893--57893120 Score: 291
Period size: 74 Copynumber: 3.1 Consensus size: 73
57892883 AAAATATAAA
* * * *
57892893 TTTAAAAGCAGAAATTGAAATTAACTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATG
1 TTTAAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
57892957 AGTTGA-TTT
64 AGTTGATTTT
* * * * **
57892966 TTGAAAACA-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57893030 TTGATTTTT
66 TTGA-TTTT
*
57893039 TTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57893104 TTGAATTTT
66 TTG-ATTTT
57893113 TTTGAAAA
1 TTT-AAAA
57893121 ATATAAATTG
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
71 48 0.37
72 3 0.02
73 16 0.12
74 60 0.46
75 4 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (73 bp):
TTTAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:57893182 original size:234 final size:231
Alignment explanation
Indices: 57892725--57894698 Score: 1755
Period size: 234 Copynumber: 8.6 Consensus size: 231
57892715 CAAAAATTGA
* * * * *
57892725 AAAACAGAAATTGAAAATACCTCGGCTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTT
1 AAAACAGAAATTGAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* *
57892790 GATTTTTTTTATTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCAC
65 GATTTTTTTTA-------A-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
* * *
57892855 CTCTCGCAATATGAGTTGAATTTTTTTGAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTC
122 CTCTCGCAATATGAGTTG-A-TTTTTTGAAAA-ATAAATTGAACAG-A-AAATTGAAATTACCTC
* *
57892920 AACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTTG
182 AACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* *
57892969 AAAACA-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
57893033 ATTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
66 ATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
57893098 TATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAAAATTGAAATTACCTCAACGTGCCT
131 TATGAGTTG-A-TTTTTTG-AAAA-ATAAATTGAACAG-AAAATTGAAATTACCTCAACGTGCCT
57893163 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
191 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * *
57893204 AAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * *
57893269 GATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCA
65 GATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
57893333 ATATGAGTTGAATTTTTTGAAAAATATAATTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CT
130 ATATGAGTTG-ATTTTTTGAAAAATA-AATTGAACAG-A-AAATTGAAATTACCTCAACGTGCCT
57893397 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
191 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* *
57893437 ACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTT
1 A-AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTT
* * * * *
57893502 GATTTTGAAAATAGATTAAAACAAAAATTGACAATACCTCAGCG-GCCCCGAGGCTCAACTCACC
65 GATTTT-----T--TTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACC
* * *
57893566 TCTCGCAATATGAGTTGA-TTTTTG------AAA---AACAG-AAATTGAAAATACCTCAGCATG
123 TCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAACAGAAAATTGAAATTACCTCAACGTG
* *
57893620 TCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACATA
188 -CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-------TTG
* * *
57893671 AATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 AA---AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
* * * **
57893736 TTGA--TTTTTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTC
63 TTGATTTTTTTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
* * * *
57893799 GCAATATGAGTTGATTTTTT------TGAAA--G-ACA-AAAATTGAAAATACCTCAGCATG-TT
127 GCAATATGAGTTGATTTTTTGAAAAAT-AAATTGAACAGAAAATTGAAATTACCTCAACGTGCCT
* *
57893853 TGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTTT
191 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * **
57893893 ACAACAGAAATTGAAATTA-CTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
57893956 AATTTTTGAAAATATAAATGAAAAGCAGAAATTG-AAATACCTCAACGTG-CCTGAGGCTCAACT
66 -ATTTTT-----T-T---T-AAAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
* *
57894019 CACCTCTCGCAATATGAGTTGA--TTTTG------ACA---AACAG-AAATTGAAATTACCTCAG
119 CACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAACAGAAAATTGAAATTACCTCAA
* *
57894072 CGTGTCC-TGAGGCTCAACTCA-TTCTCGTAATATGAGTTGATTTTTGAAAATAG
184 CGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-----T-G
* * * **
57894125 ATGAAACACAAAATTGACAATA-CTCAGCGTG-CCCGAGGCTC-ACTCACCTCTCGCAATATGAG
1 A--AAACA-GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
**
57894187 TTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
63 TTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
* *
57894251 CAATATGAGTTGA--TTTTGAAAAACATAAATTGAACAG-AAATTGAAACTACCTCAACGTGTCT
128 CAATATGAGTTGATTTTTTG-AAAA-ATAAATTGAACAGAAAATTGAAATTACCTCAACGTGCCT
57894313 TGAGGCTCAACTCA--TCTCGC-ATATGAGTTGATTTTTTTG
191 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
*
57894352 AAAGCA-AAATTG-AAATA-CTCAGC-TGT-CTGAGGCTC-ACTCA-TTCT-GCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
57894409 A-TTTTTTGAAAGACA-AAATTGAAAATACCTCAGC-AGT-CTGA-GCTCAACTCA--TCTCGCA
66 ATTTTTTTTAAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCA
*
57894467 ATATGAG-TGA-TTTTTG--------A--CAAC--AAAATTGAAA-TA-CTC-A-GTGTCC-TGA
130 ATATGAGTTGATTTTTTGAAAAATAAATTGAACAGAAAATTGAAATTACCTCAACGTG-CCTTGA
*
57894513 GGCTCAACTCACCTCTCGCAATATGA--TGAATTTTTG
194 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
* * **
57894549 AAAA-ATAAATTAAAAGAAAATGAAATACCTCAACGTG-CCTGA-GCTCAACT-ACCTCTCGC-A
1 AAAACAGAAATT----G---A--AAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAA
** * *
57894609 TATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCA--ATGT-CTGAAGCTCAACTCAC
57 TATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCAC
57894671 CTCTCGCAATATGAGTTGA-TTTTTGAAA
122 CTCTCGCAATATGAGTTGATTTTTTGAAA
57894699 CAGAAATAAA
Statistics
Matches: 1519, Mismatches: 96, Indels: 258
0.81 0.05 0.14
Matches are distributed among these distances:
196 1 0.00
197 31 0.02
198 5 0.00
199 9 0.01
200 8 0.01
201 10 0.01
202 3 0.00
204 1 0.00
207 5 0.00
208 10 0.01
209 32 0.02
210 37 0.02
212 14 0.01
213 12 0.01
214 19 0.01
216 10 0.01
217 35 0.02
218 12 0.01
219 57 0.04
220 9 0.01
221 24 0.02
222 30 0.02
223 47 0.03
225 49 0.03
226 76 0.05
227 12 0.01
228 60 0.04
229 71 0.05
230 30 0.02
231 33 0.02
232 17 0.01
233 85 0.06
234 253 0.17
235 84 0.06
236 99 0.07
237 96 0.06
238 7 0.00
239 2 0.00
240 57 0.04
242 43 0.03
243 18 0.01
244 6 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (231 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
ATTTTTTTTAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTGAAAAATAAATTGAACAGAAAATTGAAATTACCTCAACGTGCCTTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
Found at i:57893331 original size:73 final size:72
Alignment explanation
Indices: 57893128--57893368 Score: 315
Period size: 74 Copynumber: 3.3 Consensus size: 72
57893118 AAAATATAAA
* * *
57893128 TTGAAAAGCA-AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA
57893192 GTTGATTTT
64 GTTGATTTT
* * **
57893201 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTC-TGAGGCTCAACTCACCTCTCGCAATATGA
57893266 GTTGATTTTT
64 GTTGA-TTTT
* *
57893276 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGT
57893341 TGAATTTT
66 TG-ATTTT
*
57893349 TTGAAAA-ATATAATTGAAAA
1 TTGAAAACAGA-AATTGAAAA
57893369 GCAGAAATTG
Statistics
Matches: 148, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
72 2 0.01
73 57 0.39
74 80 0.54
75 9 0.06
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTT
Found at i:57893496 original size:73 final size:72
Alignment explanation
Indices: 57893362--57894705 Score: 1113
Period size: 73 Copynumber: 18.2 Consensus size: 72
57893352 AAAAATATAA
* *
57893362 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57893426 GTTGATTT
65 GTTGATTT
** *
57893434 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57893499 GTTGATTT
65 GTTGATTT
* * *
57893507 TGAAAATAGATTAAAACAAAAATTGACAA-TACCTCAGCG-GCCCCGAGGCTCAACTCACCTCTC
1 T-----T-G---AAAACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
57893570 GCAATATGAGTTGATTT
56 GCAATATGAGTTGATTT
* *
57893587 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57893652 GTTGATTT
65 GTTGATTT
* * * * **
57893660 TGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
1 T--------TGAA---AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
57893725 CGCAATATGAGTTGATTT
55 CGCAATATGAGTTGATTT
* * * * * **
57893743 TTTAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57893808 GTTGATTTTT
65 GTTGA--TTT
* * * * *
57893818 TTGAAAGACAAAAATTGAAAATACCTCAGCATGT-TTGAGGCTCAACTCA-TTCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57893881 GTTGATTTT
65 GTTGA-TTT
* *
57893890 TTTACAACAGAAATTGAAATTA-CTCAGCGTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57893953 TTGAATTT
66 TTG-ATTT
* ** ** ** **
57893961 TTGAAAATATAAATGAAAAGCAGAAATTGAAATACCTCAACGTGCCTGAGGCTCAACTCACCTCT
1 TTG--AA-A-ACA-G-AAA-TTGAAATT-ACCT-CAGC-GTGT-CCTGAGGCTCAACTCACCTCT
57894026 CGCAATATGAGTTGA-TT
55 CGCAATATGAGTTGATTT
* *
57894043 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTCTCGTAATATGA
1 TTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57894107 GTTGATTT
65 GTTGATTT
* *** *
57894115 TTGAAAATAGATGAAACACAAAATTGACAATACTCAGCGTG-CCCGAGGCTC-ACTCACCTCTCG
1 TTG-AAA-ACA-GAAA-TTGAAATT-AC----CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
57894178 CAATATGAGTTGATTT
57 CAATATGAGTTGATTT
*
57894194 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57894259 GTTGATTT
65 GTTGATTT
* * * *
57894267 TGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCA--TCT
1 T--------TGAA---AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
57894330 CGC-ATATGAGTTGATTTTT
55 CGCAATATGAGTTGA--TTT
* *
57894349 TTGAAAGCA-AAATTGAAA-TA-CTCAGC-TGT-CTGAGGCTC-ACTCA-TTCT-GCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57894406 TTGATTTT
66 TTGA-TTT
* *
57894414 TTGAAAGACA-AAATTGAAAATACCTCAGC-AGT-CTGA-GCTCAACTCA--TCTCGCAATATGA
1 TTGAAA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57894473 G-TGATTT
65 GTTGATTT
*
57894480 TTGACAACA-AAATTGAAA-TA-CTCA--GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA-
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
57894539 -TGAATTT
66 TTG-ATTT
* *
57894546 TTGAAAA-ATAAATTAAAAGAAAATGAAATACCTCAACGTG-CCTGA-GCTCAACT-ACCTCTCG
1 TTGAAAACAGAAATT----G-AAAT----TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
57894607 C-ATATGAGTTGATTTT
57 CAATATGAGTTGA-TTT
* * *
57894623 TTGAAAAACAGAAATTGAAAATACCTCA--ATGT-CTGAAGCTCAACTCACCTCTCGCAATATGA
1 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
57894685 GTTGATTT
65 GTTGATTT
57894693 TTG-AAACAGAAAT
1 TTGAAAACAGAAAT
57894706 AAAAACATCA
Statistics
Matches: 1080, Mismatches: 86, Indels: 216
0.78 0.06 0.16
Matches are distributed among these distances:
62 2 0.00
63 8 0.01
64 12 0.01
65 32 0.03
66 69 0.06
67 15 0.01
68 48 0.04
69 10 0.01
70 55 0.05
71 81 0.08
72 92 0.09
73 192 0.18
74 29 0.03
75 58 0.05
76 25 0.02
77 30 0.03
78 24 0.02
79 49 0.05
80 64 0.06
81 33 0.03
82 14 0.01
83 104 0.10
84 34 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (72 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTT
Found at i:57894038 original size:84 final size:80
Alignment explanation
Indices: 57893895--57894348 Score: 455
Period size: 84 Copynumber: 5.8 Consensus size: 80
57893885 ATTTTTTTAC
*
57893895 AACAGAAATTGAAATTA-CTCAGCGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 AACAGAAATTGAAA-TACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AT
57893959 TTTTGAAAATATAAATGAA
64 TTTTG-AAA-ATAAATGAA
*
57893978 AAGCAGAAATTGAAATACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
1 AA-CAGAAATTGAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
57894042 TTTG-------A--CA
65 TTTGAAAATAAATGAA
* * *
57894049 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTCTCGTAATATGAGTTGAT
1 AACAGAAATTG-AAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
57894113 TTTTGAAAATAGATGAA
64 TTTTGAAAATAAATGAA
*
57894130 ACACA-AAATTGACAATA-CTCAGCGTGCCCGAGGCTC-ACTCACCTCTCGCAATATGAGTTGAT
1 A-ACAGAAATTGA-AATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
57894192 TTTTG-------A--AA
64 TTTTGAAAATAAATGAA
57894200 AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 AACAGAAATTG-AAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
57894264 TTTTGAAAAACATAAATTG--
64 TTTTG--AAA-ATAAA-TGAA
* *
57894283 AACAGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCA--TCTCGC-ATATGAGTTGAT
1 AACAGAAATTGAAA-TACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
57894345 TTTT
64 TTTT
57894349 TTGAAAGCAA
Statistics
Matches: 319, Mismatches: 15, Indels: 76
0.78 0.04 0.19
Matches are distributed among these distances:
69 3 0.01
70 22 0.07
71 43 0.13
72 36 0.11
73 26 0.08
78 5 0.02
79 33 0.10
80 21 0.07
81 21 0.07
82 12 0.04
83 43 0.13
84 54 0.17
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (80 bp):
AACAGAAATTGAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTGAAAATAAATGAA
Found at i:57894248 original size:607 final size:605
Alignment explanation
Indices: 57892671--57894698 Score: 2678
Period size: 607 Copynumber: 3.3 Consensus size: 605
57892661 GCGTGAGCCA
* * ** * *
57892671 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTGAAAGGCAAAAATTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAA-ATATAAA-TGAAAAGCAGAAAT
** ** * *
57892736 TGAAAATACCTCGGCTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTTTTTTA
64 TG-AAATACCTCAAC-GTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
* * * *
57892801 TTTTTTTACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATA
124 ------CA-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGTAATA
* * * * * **
57892866 TGAGTTGAATTTTTTTGAAAATATAAATTTAAAAGCAGAAATTGA-AATTAACTCAACGTGCCTT
182 TGAGTTG-A--TTTTTG-AAA-ATAGA-TGAAAA-CAAAAATTGACAA-TACCTCAGCG-GCCCC
* *
57892930 GAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTG-AAAACA-AAATTGAAAATACCTCAG
238 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAG
* ** * *
57892993 CATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT--------T--TTTACAACA
303 CATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACATAAATT-GAACA
* * *
57893048 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
367 GAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCA--TCTCGC-ATATGAGTTG-A----
* * *
57893113 TTTGAAAAATATAAATTGAAAAGCAAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCAC
424 TTT------T-T---TTG-AAAGCAAAATTGAAAATACCTCAGC-TGTCTTGAGGCTCAACTCA-
*
57893178 CTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGC
476 TTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT-TTGAGGC
57893243 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
540 TCAACTCA-TTCTCGCAATATGAGTTGATTTTTTT-ACAACAGAAATTGAAATTA-CTCAGCGTG
57893308 TCTG
602 TCTG
*
57893312 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTGAAAAATATAATTGAAAAGCAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAA-TTTTTG-AAAATATAAATGAAAAGCAGAAAT
*
57893377 TGAAATTACCTCAACGTGCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA
64 TGAAA-TACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA
*
57893442 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGA-TT
128 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTT
*
57893506 TTGAAAATAGATTAAAACAAAAATTGACAATACCTCAGCGGCCCCGAGGCTCAACTCACCTCTCG
193 TTGAAAATAGATGAAAACAAAAATTGACAATACCTCAGCGGCCCCGAGGCTCAACTCACCTCTCG
57893571 CAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTC
258 CAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTC
57893636 ACCTCTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACG
323 ACCTCTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACG
57893701 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTTT-AAAGACAAAAATTGAAAA
388 TGTCTTGAGGCTCAACTCA--TCTCGC-ATATGAGTTGATTTTTTTGAAAG-C-AAAATTGAAAA
57893764 TACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAGACAA
448 TACCTCAGC-TGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA-TTTTTTGAAAGACAA
57893829 AAATTGAAAATACCTCAGCATGTTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTA
510 AAATTGAAAATACCTCAGCATGTTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTA
57893894 CAACAGAAATTGAAATTACTCAGCGTGTCTG
575 CAACAGAAATTGAAATTACTCAGCGTGTCTG
57893925 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAATATAAATGAAAAGCAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAATATAAATGAAAAGCAGAAATTG
57893990 AAATACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAG
66 AAATACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAG
57894054 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA-TTCTCGTAATATGAGTTGATTTTTG
131 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTG
57894118 AAAATAGATG-AAACACAAAATTGACAATA-CTCAGCGTG-CCCGAGGCTC-ACTCACCTCTCGC
196 AAAATAGATGAAAACA-AAAATTGACAATACCTCAGCG-GCCCCGAGGCTCAACTCACCTCTCGC
*
57894179 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCA
259 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCA
57894244 CCTCTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGT
324 CCTCTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGT
57894309 GTCTTGAGGCTCAACTCATCTCGCATATGAGTTGATTTTTTTGAAAGCAAAATTG-AAATA-CTC
389 GTCTTGAGGCTCAACTCATCTCGCATATGAGTTGATTTTTTTGAAAGCAAAATTGAAAATACCTC
57894372 AGCTGTC-TGAGGCTC-ACTCATTCT-GCAATATGAGTTGATTTTTTGAAAGAC-AAAATTGAAA
454 AGCTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAA
* *
57894433 ATACCTCAGCA-GTCTGA-GCTCAACTCA-TCTCGCAATATGAG-TGA-TTTTTGACAACA-AAA
519 ATACCTCAGCATGTTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTACAACAGAAA
57894492 TTGAAA-TACTCA--GTGTCCTG
584 TTGAAATTACTCAGCGTGT-CTG
*
57894512 AGGCTCAACTCACCTCTCGCAATATGA--TGAATTTTTGAAAA-ATAAATTAAAAG-A-AAA-TG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAATATAAATGAAAAGCAGAAATTG
*
57894571 AAATACCTCAACGTGCCTGA-GCTCAACT-ACCTCTCGC-ATATGAGTTGATTTTTTGAAAAACA
66 AAATACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACA
* * * * *
57894633 GAAATTGAAAATACCTCA--ATGT-CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
130 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTT
57894695 GAAA
195 GAAA
57894699 CAGAAATAAA
Statistics
Matches: 1303, Mismatches: 56, Indels: 119
0.88 0.04 0.08
Matches are distributed among these distances:
577 14 0.01
578 40 0.03
579 9 0.01
580 36 0.03
581 22 0.02
582 3 0.00
583 1 0.00
584 11 0.01
585 14 0.01
586 4 0.00
587 30 0.02
588 6 0.00
589 9 0.01
590 11 0.01
591 3 0.00
592 14 0.01
593 10 0.01
594 5 0.00
595 21 0.02
596 13 0.01
597 14 0.01
598 4 0.00
599 5 0.00
600 8 0.01
601 4 0.00
602 6 0.00
603 5 0.00
604 18 0.01
605 13 0.01
606 4 0.00
607 160 0.12
608 41 0.03
609 80 0.06
610 47 0.04
611 28 0.02
612 6 0.00
613 46 0.04
614 23 0.02
615 27 0.02
616 71 0.05
617 38 0.03
619 1 0.00
620 1 0.00
621 40 0.03
622 23 0.02
623 68 0.05
624 4 0.00
625 3 0.00
626 7 0.01
629 1 0.00
630 59 0.05
631 3 0.00
632 58 0.04
633 2 0.00
637 6 0.00
639 32 0.02
640 6 0.00
641 53 0.04
642 9 0.01
643 3 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (605 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAATATAAATGAAAAGCAGAAATTG
AAATACCTCAACGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAG
AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTG
AAAATAGATGAAAACAAAAATTGACAATACCTCAGCGGCCCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACC
TCTCGCAATATGAGTTGATTTTGAAAAACATAAATTGAACAGAAATTGAAACTACCTCAACGTGT
CTTGAGGCTCAACTCATCTCGCATATGAGTTGATTTTTTTGAAAGCAAAATTGAAAATACCTCAG
CTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAAT
ACCTCAGCATGTTTGAGGCTCAACTCATTCTCGCAATATGAGTTGATTTTTTTACAACAGAAATT
GAAATTACTCAGCGTGTCTG
Found at i:57894403 original size:66 final size:67
Alignment explanation
Indices: 57894288--57894698 Score: 352
Period size: 66 Copynumber: 6.0 Consensus size: 67
57894278 AATTGAACAG
*
57894288 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATCTCGC-ATATGAGTTGATTTTTTTG
1 AAATTGAAA-TACCTCAGC-TGTC-TGAGGCTCAACTCATCTCGCAATATGAGTTGA-TTTTTTG
57894352 AAAGCA
62 AAAGCA
57894358 AAATTGAAATA-CTCAGCTGTCTGAGGCTC-ACTCAT-TCTGCAATATGAGTTGATTTTTTGAAA
1 AAATTGAAATACCTCAGCTGTCTGAGGCTCAACTCATCTC-GCAATATGAGTTGATTTTTTGAAA
57894420 GACA
65 G-CA
*
57894424 AAATTGAAAATACCTCAGCAGTCTGA-GCTCAACTCATCTCGCAATATGAG-TGA-TTTTTGACA
1 AAATTG-AAATACCTCAGCTGTCTGAGGCTCAACTCATCTCGCAATATGAGTTGATTTTTTGA-A
57894486 A-CA
64 AGCA
*
57894489 AAATTGAAATA-CTCAG-TGTCCTGAGGCTCAACTCACCTCTCGCAATATGA--TGAATTTTTGA
1 AAATTGAAATACCTCAGCTGT-CTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTGA
*
57894550 AA-AA
63 AAGCA
* * *
57894554 TAAATTAAAAGAAAATGAAATACCTCAACGTGCCTGA-GCTCAACTACCTCTCGC-ATATGAGTT
1 -AAA-T---------TGAAATACCTCAGC-TGTCTGAGGCTCAACT-CATCTCGCAATATGAGTT
*
57894617 GATTTTTTGAAAAACA
53 GATTTTTTG-AAAGCA
* *
57894633 GAAATTGAAAATACCTCA-ATGTCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG
1 -AAATTG-AAATACCTCAGCTGTCTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTG
57894696 AAA
62 AAA
57894699 CAGAAATAAA
Statistics
Matches: 291, Mismatches: 13, Indels: 75
0.77 0.03 0.20
Matches are distributed among these distances:
62 2 0.01
63 9 0.03
64 17 0.06
65 33 0.11
66 57 0.20
67 19 0.07
68 40 0.14
69 17 0.06
70 31 0.11
71 11 0.04
75 6 0.02
76 13 0.04
77 21 0.07
78 9 0.03
79 6 0.02
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (67 bp):
AAATTGAAATACCTCAGCTGTCTGAGGCTCAACTCATCTCGCAATATGAGTTGATTTTTTGAAAG
CA
Found at i:57894622 original size:76 final size:74
Alignment explanation
Indices: 57894488--57894698 Score: 212
Period size: 76 Copynumber: 2.9 Consensus size: 74
57894478 TTTTGACAAC
57894488 AAAATTGAAATA-CTC-AGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA--TGAATTTTTG
1 AAAA-TGAAATACCTCAAGTG-CCTGA-GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTG
57894549 AAAAAT-AAATTAAAAG
62 --AAATGAAA--AAAAG
57894565 AAAATGAAATACCTCAACGTGCCTGAGCTCAACT-ACCTCTCGC-ATATGAGTTGATTTTT----
1 AAAATGAAATACCTCAA-GTGCCTGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
57894624 TGAAAAACAG
65 TGAAAAAAAG
* *
57894634 AAATTGAAAATACCTCAA-TGTCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
1 AAAATG-AAATACCTCAAGTGCCTG-AGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
57894698 A
64 A
57894699 CAGAAATAAA
Statistics
Matches: 117, Mismatches: 3, Indels: 30
0.78 0.02 0.20
Matches are distributed among these distances:
68 5 0.04
69 18 0.15
70 21 0.18
71 19 0.16
75 6 0.05
76 22 0.19
77 17 0.15
78 6 0.05
79 3 0.03
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (74 bp):
AAAATGAAATACCTCAAGTGCCTGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAT
GAAAAAAAG
Found at i:57894630 original size:77 final size:77
Alignment explanation
Indices: 57894488--57894630 Score: 197
Period size: 77 Copynumber: 1.9 Consensus size: 77
57894478 TTTTGACAAC
57894488 AAAATTGAAATACTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGATGAATTTTTGAAAA
1 AAAATTGAAATACTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGATGAATTTTTGAAAA
57894553 ATAAATTAAAAG
66 ATAAATTAAAAG
*
57894565 AAAA-TGAAATACCTCAACGTG-CCTGA-GCTCAACT-ACCTCTCGC-ATATGAGTTGATTTTTT
1 AAAATTGAAATA-CTC-A-GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA--TGAATTTTT
57894625 GAAAAA
61 GAAAAA
57894631 CAGAAATTGA
Statistics
Matches: 60, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
75 6 0.10
76 16 0.27
77 29 0.48
78 6 0.10
79 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (77 bp):
AAAATTGAAATACTCAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGATGAATTTTTGAAAA
ATAAATTAAAAG
Found at i:57913007 original size:125 final size:125
Alignment explanation
Indices: 57912851--57913100 Score: 464
Period size: 125 Copynumber: 2.0 Consensus size: 125
57912841 TGGTTTCCAA
**
57912851 ATTCATGAAAGAACGAGTTGTCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
1 ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
*
57912916 ATTGAGTTTAGTTAAAGCAATTGTCTAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
*
57912976 ATTCATGAAAGATCGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
1 ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
57913041 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
66 ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
57913101 TTTAATTTTG
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 121 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (125 bp):
ATTCATGAAAGAACGAGTTACCGTGGAATATTTTTTCCGAATGTTATTAAGCATGTCGATAATAA
ATTGAGTTTAGTTAAAGCAATTGTCCAAGTTTATTTATGTTATAATTATTGCAAATTGTG
Found at i:57918084 original size:16 final size:17
Alignment explanation
Indices: 57918063--57918095 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57918053 TTAGGAAACG
57918063 TACATAA-AAAAATATA
1 TACATAATAAAAATATA
*
57918079 TACATAATATAAATATA
1 TACATAATAAAAATATA
57918096 ATATATACAA
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:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (17 bp):
TACATAATAAAAATATA
Found at i:57918797 original size:15 final size:15
Alignment explanation
Indices: 57918776--57918829 Score: 90
Period size: 15 Copynumber: 3.6 Consensus size: 15
57918766 TATAAAGAAA
*
57918776 GAAAGAAAAAATTTC
1 GAAAGAAGAAATTTC
*
57918791 AAAAGAAGAAATTTC
1 GAAAGAAGAAATTTC
57918806 GAAAGAAGAAATTTC
1 GAAAGAAGAAATTTC
57918821 GAAAGAAGA
1 GAAAGAAGA
57918830 GGAAAAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.59, C:0.06, G:0.19, T:0.17
Consensus pattern (15 bp):
GAAAGAAGAAATTTC
Found at i:57920063 original size:90 final size:88
Alignment explanation
Indices: 57919792--57920098 Score: 295
Period size: 90 Copynumber: 3.5 Consensus size: 88
57919782 GTGTGAGCCA
* *** * *
57919792 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAGGCAAAAATTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATT-TAAAACAGAAA
* *
57919857 TTGAAAAT-ACTTCGACGTGTGACCTG
65 TTGAAATTAAC-TCAAC--GTGACCTG
** ** * * *** *
57919883 AGGCTCAACTCGTCTCTCGCAATACAAGTTGATTTTTTT----TATTTTTTTTTACAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTTAAAACAGAAAT
* * *
57919944 TGAAATTACCTCAACATGTCCTG
66 TGAAATTAACTCAACGTGACCTG
57919967 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTGAAAAATATAAATTTAAAA-CAGAA
57920032 ATTGAAATTAACTCAACGTG-CCTTG
64 ATTGAAATTAACTCAACGTGACC-TG
* *
57920057 AGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTTTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
57920099 GACAAAAATT
Statistics
Matches: 174, Mismatches: 34, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
84 33 0.19
85 8 0.05
86 20 0.11
87 3 0.02
88 10 0.06
89 12 0.07
90 54 0.31
91 34 0.20
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATATAAATTTAAAACAGAAAT
TGAAATTAACTCAACGTGACCTG
Done.