Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 168 of 343
Found at i:55624209 original size:22 final size:22
Alignment explanation
Indices: 55624153--55624211 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
55624143 CATACTAATT
* *
55624153 TTTTTAAA--ATTTATATTATT
1 TTTTTAAATTATTTATTTTATA
** *
55624173 TTTTTATTTTTTTTATTTTATA
1 TTTTTAAATTATTTATTTTATA
55624195 TTTTTAAATTATTTATT
1 TTTTTAAATTATTTATT
55624212 AACATGACAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 6 0.21
22 23 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTAAATTATTTATTTTATA
Found at i:55639628 original size:39 final size:39
Alignment explanation
Indices: 55639584--55639662 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
55639574 TTCTATTTTT
55639584 GGTAACACTTAGGATATTTGTTTGAGTAATTTGGCTAAG
1 GGTAACACTTAGGATATTTGTTTGAGTAATTTGGCTAAG
55639623 GGTAACACTTAGGATATTTGTTTGAGTAATTTGGCTAAG
1 GGTAACACTTAGGATATTTGTTTGAGTAATTTGGCTAAG
55639662 G
1 G
55639663 TACTGAAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.08, G:0.27, T:0.38
Consensus pattern (39 bp):
GGTAACACTTAGGATATTTGTTTGAGTAATTTGGCTAAG
Found at i:55643301 original size:47 final size:47
Alignment explanation
Indices: 55643249--55643654 Score: 616
Period size: 47 Copynumber: 8.6 Consensus size: 47
55643239 GATAATTGTG
* *
55643249 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55643296 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55643343 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55643392 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
55643439 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
55643488 ATGTGAAAGTGTATATTTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
55643535 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
55643582 ATGTGAAAGTGTATATATGTGACAGGGCC-AGGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTA-ATGGCCGATGTGATGA
*
55643629 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
55643655 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 238 0.72
49 90 0.27
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:55643356 original size:96 final size:96
Alignment explanation
Indices: 55643249--55643654 Score: 664
Period size: 96 Copynumber: 4.3 Consensus size: 96
55643239 GATAATTGTG
55643249 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55643312 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
55643343 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
55643408 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
55643439 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
55643504 TTGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
*
55643535 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
55643598 ATGTGACAGGGCC-AGGTGGCCAACGTGATGG
66 ATGTGATAAGGCCGA-ATGGCCAATGTGATGA
55643629 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
55643655 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 14, Indels: 10
0.92 0.04 0.03
Matches are distributed among these distances:
93 1 0.00
94 97 0.33
95 3 0.01
96 192 0.66
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:55643396 original size:143 final size:142
Alignment explanation
Indices: 55643249--55643654 Score: 631
Period size: 143 Copynumber: 2.9 Consensus size: 142
55643239 GATAATTGTG
* *
55643249 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
55643314 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
66 GTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATA
55643379 GCCGATGTGATGA
130 GCCGATGTGATGA
* *
55643392 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
55643457 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-T-TGTGATAAGGCCTAA
64 ATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
55643520 TAGCCGATGTGATGA
128 TAGCCGATGTGATGA
*
55643535 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
55643600 GTGACAGGGCCAGGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GTGATAAGGCCA-ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
55643655 TCCCGAAGGG
Statistics
Matches: 242, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
140 1 0.00
141 52 0.21
143 138 0.57
144 1 0.00
145 50 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (142 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAG
CCGATGTGATGA
Found at i:55648807 original size:4 final size:4
Alignment explanation
Indices: 55648800--55648825 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
55648790 TGCTAGTGCT
55648800 GAAA GAAA GAAA GAAA GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GAAA GA
55648826 TAAAGGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:55650278 original size:20 final size:20
Alignment explanation
Indices: 55650253--55650295 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
55650243 TAGAGATTTT
55650253 AGCAATTAAGCCTCTTAAAG
1 AGCAATTAAGCCTCTTAAAG
55650273 AGCAATTAAGCCTCTTAAAG
1 AGCAATTAAGCCTCTTAAAG
55650293 AGC
1 AGC
55650296 CCTTGGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (20 bp):
AGCAATTAAGCCTCTTAAAG
Found at i:55652361 original size:40 final size:40
Alignment explanation
Indices: 55652306--55652521 Score: 301
Period size: 40 Copynumber: 5.4 Consensus size: 40
55652296 GATGATAACG
* * *
55652306 GGGCTAAGTCCCGAAGGCATTTGTGCTAATGACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
* * *
55652346 GGGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
*
55652386 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
*
55652426 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
* *
55652466 GGGCTAAGTCCCGAAGGCATTTGAGCG-AGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTA-CTATATCC
* *
55652506 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
55652522 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.11
40 144 0.89
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
Found at i:55662729 original size:54 final size:55
Alignment explanation
Indices: 55662626--55662734 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 55
55662616 CTAGCCGAAT
* *
55662626 TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCATAGTTTAACCATG
1 TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCACAATTTAACCATG
* * *
55662681 TTCAATTAGGTCTCTAGTAG-CCATATTTTTCACTT-ATTTCACAATTTAACCATG
1 TTCAATTAGGTCTCTAATAGCCCATATATTT-AATTGATTTCACAATTTAACCATG
55662735 AATTTTACAC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 26 0.54
55 22 0.46
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.42
Consensus pattern (55 bp):
TTCAATTAGGTCTCTAATAGCCCATATATTTAATTGATTTCACAATTTAACCATG
Found at i:55665901 original size:14 final size:14
Alignment explanation
Indices: 55665875--55665904 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
55665865 GTATTTGGCC
55665875 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
55665889 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
55665904 A
1 A
55665905 TTTTTTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:55675629 original size:29 final size:29
Alignment explanation
Indices: 55675597--55675673 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
55675587 CCATTAATTC
*
55675597 ATATGGCCCATTAGGCCTAAATCACCTAT
1 ATATGGCCCATTAGGCCTAAATCACATAT
* *
55675626 ATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCTAAATCACATAT
55675655 ATATGGCCCATTAGGCCTA
1 ATATGGCCCATTAGGCCTA
55675674 GTCACATTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCTAAATCACATAT
Found at i:55677310 original size:46 final size:47
Alignment explanation
Indices: 55677234--55677357 Score: 162
Period size: 46 Copynumber: 2.6 Consensus size: 47
55677224 ATGTCTTGAG
* *
55677234 ACGAGGGCTAGTGTAAGACATGTCTTGGACATGCATCAGCCAC-AT-T
1 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACGATAT
* *
55677280 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGTATAT
1 ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACG-ATAT
*
55677328 ACGAGAGCTAGTGTAATACCATGTCTGGGA
1 ACGAGAGCTAGTGTAAGA-CATGTCTGGGA
55677358 TATGGCGTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 3 0.04
46 36 0.53
47 2 0.03
48 16 0.24
49 11 0.16
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
ACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCACGATAT
Found at i:55682420 original size:18 final size:17
Alignment explanation
Indices: 55682392--55682426 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55682382 ATTATTAAGA
*
55682392 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55682409 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55682427 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55682564 original size:18 final size:17
Alignment explanation
Indices: 55682536--55682570 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55682526 ATTATTAACC
*
55682536 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55682553 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55682571 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55682781 original size:44 final size:45
Alignment explanation
Indices: 55682732--55682826 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
55682722 TTACACCTCT
* *
55682732 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
55682776 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
55682821 ATTACA
1 ATTACA
55682827 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:55682826 original size:16 final size:16
Alignment explanation
Indices: 55682805--55682837 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55682795 TTGATTTGCT
*
55682805 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
55682821 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
55682837 A
1 A
55682838 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:55682847 original size:21 final size:21
Alignment explanation
Indices: 55682818--55682860 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
55682808 ACACCTCTAT
*
55682818 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
55682839 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
55682860 T
1 T
55682861 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:55684800 original size:46 final size:46
Alignment explanation
Indices: 55684727--55684902 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
55684717 TATTTGGGAA
*
55684727 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
55684773 TCTGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
55684818 CATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55684866 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55684903 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55684885 original size:93 final size:93
Alignment explanation
Indices: 55684726--55684895 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
55684716 ATATTTGGGA
* * *
55684726 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAGCTCGTTGAGTTG
1 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
55684791 AGTCCGAGTTCGTGAGATGTAACTAGGC
66 AGTCCGAGTTCGTGAGATGTAACTAGGC
*
55684819 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGTTG
1 ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
55684884 AGTCCGAGTTCG
66 AGTCCGAGTTCG
55684896 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (93 bp):
ATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
AGTCCGAGTTCGTGAGATGTAACTAGGC
Found at i:55690496 original size:27 final size:26
Alignment explanation
Indices: 55690421--55690535 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 26
55690411 TAGAGTAAGC
*
55690421 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
*
55690448 GTTTCTGGTGGCTAC-GCTACAAATATCT
1 G-TTCTGGTGGCT-CTGCCAC-AATATCT
55690476 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* *
55690502 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
55690529 GTTCTGG
1 GTTCTGG
55690536 AAGCCATGCT
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 15 0.19
27 40 0.51
28 24 0.30
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:55697991 original size:27 final size:26
Alignment explanation
Indices: 55697961--55698018 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
55697951 ACTAAAATGT
* *
55697961 CCCTAAGAATGAAAATTACCATTATAC
1 CCCTAAGAA-CAAAATGACCATTATAC
* *
55697988 CCCTAGGTACAAAATGACCATTATAC
1 CCCTAAGAACAAAATGACCATTATAC
55698014 CCCTA
1 CCCTA
55698019 GGGTTAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.24
Consensus pattern (26 bp):
CCCTAAGAACAAAATGACCATTATAC
Found at i:55698167 original size:28 final size:28
Alignment explanation
Indices: 55698123--55698212 Score: 123
Period size: 28 Copynumber: 3.3 Consensus size: 28
55698113 GGAGGAAGCG
* *
55698123 TTCTGATGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTACGCCACAAATATCTGT
55698151 TTCTGGTGGCTACGCCACAAATATCTGT
1 TTCTGGTGGCTACGCCACAAATATCTGT
55698179 TT-TGGTGGCT-CTGCCAC-AATATCTGT
1 TTCTGGTGGCTAC-GCCACAAATATCTGT
*
55698205 ATCTGGTG
1 TTCTGGTG
55698213 ACTCTGTCTC
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
26 11 0.19
27 18 0.32
28 28 0.49
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTACGCCACAAATATCTGT
Found at i:55698194 original size:27 final size:26
Alignment explanation
Indices: 55698129--55698232 Score: 111
Period size: 27 Copynumber: 3.8 Consensus size: 26
55698119 AGCGTTCTGA
*
55698129 TGGCTATGCCACAAATATCTGTTTCTGG
1 TGGCTCTGCCAC-AATATCTGTTT-TGG
55698157 TGGCTAC-GCCACAAATATCTGTTTTGG
1 TGGCT-CTGCCAC-AATATCTGTTTTGG
*
55698184 TGGCTCTGCCACAATATCTGTATCTGG
1 TGGCTCTGCCACAATATCTGT-TTTGG
* * *
55698211 TGACTCTGTCTCAATATCTGTT
1 TGGCTCTGCCACAATATCTGTT
55698233 CTGGCAGCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 11 0.16
27 35 0.51
28 22 0.32
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TGGCTCTGCCACAATATCTGTTTTGG
Found at i:55701750 original size:12 final size:13
Alignment explanation
Indices: 55701733--55701765 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
55701723 GTTTCGCACG
55701733 TTTAAATAGTT-T
1 TTTAAATAGTTGT
*
55701745 TTTAAATTGTTGT
1 TTTAAATAGTTGT
55701758 TTTAAATA
1 TTTAAATA
55701766 CTATCATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (13 bp):
TTTAAATAGTTGT
Found at i:55701884 original size:29 final size:29
Alignment explanation
Indices: 55701837--55701904 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
55701827 ATCGATTAAA
** * **
55701837 GAAAAGGGATAGTTTCGACTATTGACTAT
1 GAAAAGGGATAGTGACGACCATCAACTAT
*
55701866 GAAAAGGGATGGTGACGACCATCAACTAT
1 GAAAAGGGATAGTGACGACCATCAACTAT
55701895 GAAAAGGGAT
1 GAAAAGGGAT
55701905 TGTAACACCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (29 bp):
GAAAAGGGATAGTGACGACCATCAACTAT
Found at i:55703746 original size:63 final size:63
Alignment explanation
Indices: 55703645--55703764 Score: 188
Period size: 63 Copynumber: 1.9 Consensus size: 63
55703635 TTACCTATCT
*
55703645 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATTACTCAAGGAACACCCATTC
1 GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
* * *
55703708 GGGCTAGAA-CCTTAATGCACACATATTCTTCGAGAGGCTCGATCACTCAAGGAACAC
1 GGGCTA-AATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACAC
55703765 TCGCCTGAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (63 bp):
GGGCTAAATCCTTAATGCACACATATTCATCAAAAGGCTCGATCACTCAAGGAACACCCATTC
Found at i:55705106 original size:29 final size:29
Alignment explanation
Indices: 55705072--55705270 Score: 154
Period size: 29 Copynumber: 6.9 Consensus size: 29
55705062 TGCCATCAAG
*
55705072 TATGAAAATGGATGGTTTCGACCATCGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * *
55705101 TATGAAAAGGGA-AGTTTTGACCATTGAT
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * * * *
55705129 TATGAAAAGGGTTAGTTTTGACTATTGAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
** * *
55705158 TATG-AAAGGGATGGTGACAACCATCAAC
1 TATGAAAAGGGATGGTTTCGACCATCGAC
* * *
55705186 TATGAAAAGGGATGATGAT-GACCATCAACC
1 TATGAAAAGGGATGGT-TTCGACCATCGA-C
* * * *
55705216 AATGAAAATGGATGGTTTTGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATCGAC
*
55705245 TATGAAAAGGGAT-GTTACGACCATCG
1 TATGAAAAGGGATGGTTTCGACCATCG
55705271 TTTAGCACAC
Statistics
Matches: 134, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
28 53 0.40
29 59 0.44
30 22 0.16
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.27
Consensus pattern (29 bp):
TATGAAAAGGGATGGTTTCGACCATCGAC
Found at i:55705132 original size:28 final size:28
Alignment explanation
Indices: 55705072--55705168 Score: 106
Period size: 28 Copynumber: 3.4 Consensus size: 28
55705062 TGCCATCAAG
* * * *
55705072 TATGAAAATGGATGGTTTCGACCATCGAC
1 TATGAAAAGGGA-AGTTTTGACCATTGAC
*
55705101 TATGAAAAGGGAAGTTTTGACCATTGAT
1 TATGAAAAGGGAAGTTTTGACCATTGAC
* *
55705129 TATGAAAAGGGTTAGTTTTGACTATTGAC
1 TATGAAAAGGG-AAGTTTTGACCATTGAC
55705158 TATG-AAAGGGA
1 TATGAAAAGGGA
55705169 TGGTGACAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
28 29 0.50
29 29 0.50
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (28 bp):
TATGAAAAGGGAAGTTTTGACCATTGAC
Found at i:55712120 original size:44 final size:42
Alignment explanation
Indices: 55712055--55712150 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
55712045 ATGTGTTTTC
* * *
55712055 GTGTAAGACCACGTCTAGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACCACATCTAGGACGTAGGCATAGTAC-T-TGA-TTAT
* *
55712099 GTGTAAGAGCACATCTGGGACGTAGGCATAGTACTTGATTAT
1 GTGTAAGACCACATCTAGGACGTAGGCATAGTACTTGATTAT
55712141 GTGTAAGACC
1 GTGTAAGACC
55712151 TTATACCTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 13 0.29
43 3 0.07
44 27 0.60
45 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACGTAGGCATAGTACTTGATTAT
Found at i:55717331 original size:39 final size:40
Alignment explanation
Indices: 55717190--55717331 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
55717180 TATTCGGATG
55717190 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
55717230 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
55717270 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
55717310 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
55717332 TACTTGGTTG
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.17
40 77 0.83
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:55725434 original size:15 final size:15
Alignment explanation
Indices: 55725404--55725446 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
55725394 TTAATTTTAT
55725404 ATTATCTTTTTAATATA
1 ATTAT-TTTTT-ATATA
55725421 ATTATTTTTTATATA
1 ATTATTTTTTATATA
*
55725436 ATTATTCTTTA
1 ATTATTTTTTA
55725447 ATTCATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.60
16 5 0.20
17 5 0.20
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTTTTATATA
Found at i:55726679 original size:23 final size:23
Alignment explanation
Indices: 55726648--55726716 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
55726638 TGTTTAGGGC
*
55726648 TGTCAAATTTGGGGATTTTGGGT
1 TGTCGAATTTGGGGATTTTGGGT
55726671 TGTCGAATTTGGGGATTTTGGGT
1 TGTCGAATTTGGGGATTTTGGGT
* *
55726694 GGTTGAATTTGGGGATTTTGGGT
1 TGTCGAATTTGGGGATTTTGGGT
55726717 AAGGGTTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.14, C:0.03, G:0.39, T:0.43
Consensus pattern (23 bp):
TGTCGAATTTGGGGATTTTGGGT
Found at i:55726732 original size:28 final size:28
Alignment explanation
Indices: 55726675--55726772 Score: 80
Period size: 29 Copynumber: 3.6 Consensus size: 28
55726665 TTGGGTTGTC
55726675 GAATTTGGGGATTTTGGGT---GG--TT
1 GAATTTGGGGATTTTGGGTAAGGGTTTT
55726698 GAATTTGGGGATTTTGGGTAAGGGTTTT
1 GAATTTGGGGATTTTGGGTAAGGGTTTT
* * ** *
55726726 GACTTTGGGAATTTTTGTTTAAGGTTTTT
1 GAATTTGGGGA-TTTTGGGTAAGGGTTTT
* * *
55726755 GATTTTTGAGATTTTGGG
1 GAATTTGGGGATTTTGGG
55726773 GATTGCTCAC
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
23 19 0.33
26 2 0.03
28 16 0.28
29 21 0.36
ACGTcount: A:0.16, C:0.01, G:0.35, T:0.48
Consensus pattern (28 bp):
GAATTTGGGGATTTTGGGTAAGGGTTTT
Found at i:55727384 original size:11 final size:11
Alignment explanation
Indices: 55727370--55727436 Score: 72
Period size: 11 Copynumber: 6.5 Consensus size: 11
55727360 TTTAGGCTTT
55727370 TTTTAAAATAA
1 TTTTAAAATAA
*
55727381 TTTT--AATTA
1 TTTTAAAATAA
*
55727390 TTTTAAAATCA
1 TTTTAAAATAA
55727401 TTTT--AATAA
1 TTTTAAAATAA
*
55727410 TTTT-AAATTA
1 TTTTAAAATAA
55727420 TTTTAAAATAA
1 TTTTAAAATAA
55727431 TTTTAA
1 TTTTAA
55727437 TAATTTCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
9 16 0.34
10 8 0.17
11 23 0.49
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAA
Found at i:55727395 original size:20 final size:20
Alignment explanation
Indices: 55727370--55727436 Score: 82
Period size: 20 Copynumber: 3.3 Consensus size: 20
55727360 TTTAGGCTTT
*
55727370 TTTTAAAATAATTTTAATTA
1 TTTTAAAATAATTTTAATAA
*
55727390 TTTTAAAATCATTTTAATAA
1 TTTTAAAATAATTTTAATAA
*
55727410 TTTT-AAATTATTTTAAAATAA
1 TTTTAAAATAATTTT--AATAA
55727431 TTTTAA
1 TTTTAA
55727437 TAATTTCAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
19 9 0.22
20 22 0.54
21 9 0.22
22 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTAAAATAATTTTAATAA
Found at i:55727421 original size:30 final size:30
Alignment explanation
Indices: 55727376--55727453 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
55727366 CTTTTTTTAA
*
55727376 AATAATTTT-AATTATTTTAAAATCATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
55727405 AATAATTTTAAATTATTTTAAAATAATTTT
1 AATAATTTTAAATTATTTTAAAATAATTTT
*
55727435 AATAATTTCAAATTCATTT
1 AATAATTTTAAATT-ATTT
55727454 GTTGATGTGG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 9 0.20
30 32 0.71
31 4 0.09
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
AATAATTTTAAATTATTTTAAAATAATTTT
Found at i:55727440 original size:9 final size:10
Alignment explanation
Indices: 55727370--55727447 Score: 72
Period size: 9 Copynumber: 7.8 Consensus size: 10
55727360 TTTAGGCTTT
55727370 TTTTAAAATAA
1 TTTT-AAATAA
*
55727381 TTTT-AATTA
1 TTTTAAATAA
*
55727390 TTTTAAAATCA
1 TTTT-AAATAA
55727401 TTTT-AATAA
1 TTTTAAATAA
*
55727410 TTTTAAATTA
1 TTTTAAATAA
55727420 TTTTAAAATAA
1 TTTT-AAATAA
55727431 TTTT-AATAA
1 TTTTAAATAA
*
55727440 TTTCAAAT
1 TTTTAAAT
55727448 TCATTTGTTG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.43
10 11 0.20
11 21 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (10 bp):
TTTTAAATAA
Found at i:55729489 original size:29 final size:30
Alignment explanation
Indices: 55729468--55729524 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
55729458 ATTAGGGGTT
*
55729468 TAAAT-TGAGAAA-AATGAAAATTATGTGG
1 TAAATGTGAGAAATAATGAAAATTATGGGG
*
55729496 TAAATGTGTGAAATAATGAAAATTATGGG
1 TAAATGTGAGAAATAATGAAAATTATGGG
55729525 CTGCTATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 6 0.24
30 14 0.56
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (30 bp):
TAAATGTGAGAAATAATGAAAATTATGGGG
Found at i:55730360 original size:31 final size:31
Alignment explanation
Indices: 55730325--55730386 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
55730315 ATATGTGTTA
*
55730325 GGCTTTTGGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
55730356 GGCTTTTAGATTCAAATTGAGTTGCATTATG
1 GGCTTTTAGATTCAAATTGAGTTGCATTATG
55730387 CTATGTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (31 bp):
GGCTTTTAGATTCAAATTGAGTTGCATTATG
Found at i:55733511 original size:29 final size:29
Alignment explanation
Indices: 55733474--55733534 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
55733464 TATAAAAGAT
*
55733474 ATTGAGCCTAATGGGCCATATGAATGTGA
1 ATTGAGCCTAATGGGCCATATGAACGTGA
* *
55733503 ATTGGGCCTGATGGGCCATATGAACGTGA
1 ATTGAGCCTAATGGGCCATATGAACGTGA
55733532 ATT
1 ATT
55733535 AGGCGGATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (29 bp):
ATTGAGCCTAATGGGCCATATGAACGTGA
Found at i:55741295 original size:29 final size:29
Alignment explanation
Indices: 55741221--55741367 Score: 124
Period size: 29 Copynumber: 5.2 Consensus size: 29
55741211 GTGAGCATGA
* *
55741221 ATAT-AATGTGATTTGGGCC-AGATAGGCC
1 ATATGAATGTGAATTGGGCCTA-ATGGGCC
*
55741249 ATAT-AAAG-GAGATTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATTGGGCCTAATGGGCC
* *
55741277 ATAGGAATGTGAATTGGGCCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * **
55741306 ATATGAACGTGAATTCGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* * * *
55741335 ATATAAATGAG-ATTAGGCCTAGTGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
55741363 ATATG
1 ATATG
55741368 CATGGATGTA
Statistics
Matches: 97, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
27 2 0.02
28 40 0.41
29 53 0.55
30 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.24
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:55742500 original size:245 final size:245
Alignment explanation
Indices: 55742063--55742555 Score: 950
Period size: 245 Copynumber: 2.0 Consensus size: 245
55742053 TTTTGCGAAA
*
55742063 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTTA
1 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
55742128 CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
66 CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
*
55742193 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACTTTTGAAATG
131 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACGTTTGAAATG
*
55742258 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTGG
196 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
55742308 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
1 ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
55742373 CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
66 CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
55742438 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACGTTTGAAATG
131 GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACGTTTGAAATG
*
55742503 TGATAGGTTAATTTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
196 TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
55742553 ACT
1 ACT
55742556 TGCATGTCAA
Statistics
Matches: 244, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 244 1.00
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (245 bp):
ACTCATGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAACCGAGTCA
CCAAATTATTTGAATATGATATTTATTGTCTAAAATATGTGATTATGAATGTGTGAAAGTTTTAA
GCTTCGATTTAGTAAATTGCATGTGAATTTAGTCAATAGGACTTATGTGTGACACGTTTGAAATG
TGATAGGTTAATCTATAAGGATCTATTAGTGCATGTAATCAAAGGGGTAG
Found at i:55745051 original size:48 final size:48
Alignment explanation
Indices: 55744982--55745413 Score: 693
Period size: 48 Copynumber: 9.0 Consensus size: 48
55744972 CAAGATAAAT
* * *
55744982 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
55745030 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
55745078 ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
55745126 ATATATATGAGATATGTATATGTGGTAAAGCCGAATTGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
55745174 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
55745222 ATATGTATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
55745270 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
55745318 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
55745366 ATATGTATGAGATATGAATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
55745414 TGTTGTAACA
Statistics
Matches: 355, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 355 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:55745242 original size:144 final size:144
Alignment explanation
Indices: 55744982--55745413 Score: 801
Period size: 144 Copynumber: 3.0 Consensus size: 144
55744972 CAAGATAAAT
* * *
55744982 ATATATGTGTGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
55745047 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
55745112 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
*
55745126 ATATATATGAGATATGTATATGTGGTAAAGCCGAATTGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
* *
55745191 ATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAACCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
55745256 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
55745270 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
*
55745335 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGAATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
55745400 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
55745414 TGTTGTAACA
Statistics
Matches: 278, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
144 278 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (144 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGT
ATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAA
Found at i:55745516 original size:37 final size:37
Alignment explanation
Indices: 55745458--55745565 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
55745448 GGAAATATAT
*
55745458 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55745495 TCTGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
55745532 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
55745566 TCGTCTGAGC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:55748313 original size:15 final size:16
Alignment explanation
Indices: 55748295--55748324 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
55748285 ACAAGCCAGA
55748295 AATAAGAA-AACAAAT
1 AATAAGAATAACAAAT
55748310 AATAAGAATAACAAA
1 AATAAGAATAACAAA
55748325 CTAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.13
Consensus pattern (16 bp):
AATAAGAATAACAAAT
Found at i:55748397 original size:3 final size:3
Alignment explanation
Indices: 55748391--55748450 Score: 52
Period size: 3 Copynumber: 20.7 Consensus size: 3
55748381 AAAATTTAAG
* * * * **
55748391 AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT TTT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
55748439 -AT AAT AA- AAT AA
1 AAT AAT AAT AAT AA
55748451 GATAAATGTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 4 0.08
3 44 0.92
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:55749335 original size:17 final size:18
Alignment explanation
Indices: 55749307--55749342 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
55749297 TTTTTGAAAT
55749307 GAAAACAAAAATAAAAAA
1 GAAAACAAAAATAAAAAA
55749325 GAAAA-AAAAATAAAAAA
1 GAAAACAAAAATAAAAAA
55749342 G
1 G
55749343 CTACCTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (18 bp):
GAAAACAAAAATAAAAAA
Found at i:55750033 original size:26 final size:26
Alignment explanation
Indices: 55750004--55750111 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
55749994 TGGTACAAAT
55750004 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
55750030 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55750056 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55750082 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
55750108 TGAT
1 TGAT
55750112 GGGCATTTCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:55752811 original size:29 final size:29
Alignment explanation
Indices: 55752766--55752824 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
55752756 TTACACTTAC
55752766 AGTTGATATTTACAATAAATAATTGAATT
1 AGTTGATATTTACAATAAATAATTGAATT
*
55752795 AGTTGATA-TTAGGAATAAATAATTGAATT
1 AGTTGATATTTA-CAATAAATAATTGAATT
55752824 A
1 A
55752825 AATTATAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 3 0.11
29 25 0.89
ACGTcount: A:0.46, C:0.02, G:0.14, T:0.39
Consensus pattern (29 bp):
AGTTGATATTTACAATAAATAATTGAATT
Found at i:55757936 original size:46 final size:45
Alignment explanation
Indices: 55757792--55757960 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 45
55757782 TTTGTGTGCT
* * **
55757792 AGTGTAAGACATGTCTAGGACATCCATCAACCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-C-TTGATGAGAGCC
* *
55757838 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCTTGAT--GAGAGCC
* *
55757886 AGTGTAAGACATGTTTGGGACATGCATCGGCCTCTTGATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CTTGATGAGAGCC
55757932 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
55757961 ACTACATGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 51 0.49
47 28 0.27
48 24 0.23
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCTTGATGAGAGCC
Found at i:55757971 original size:46 final size:48
Alignment explanation
Indices: 55757792--55758104 Score: 249
Period size: 47 Copynumber: 6.7 Consensus size: 48
55757782 TTTGTGTGCT
* * * * *
55757792 AGTGTAAGA-CATGTCTAGGACAT-CCATCAACCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
* * *
55757838 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-A-TTGATACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGAT--GAGAGCC
* * * *
55757886 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCT-CTTGATGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTACATGATGAGAGCC
* *
55757932 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACTACATGAT--GTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
* * * * * *
55757976 AGTATAAGACCATGTCTGGGACATGGCGTCAGAACGGATACG-TGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TACATGATGAGAGCC
* *
55758026 AGTGTAAGACCATGTCTAGGACATGGCATCGACTTA-ACG-TGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TACATGATGAGAGCC
* *
55758073 AGTGCAAGACCATGTCTGGGATATGGCATCGA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA
55758105 TATTATACCC
Statistics
Matches: 220, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
44 10 0.05
45 17 0.08
46 58 0.26
47 69 0.31
48 31 0.14
49 4 0.02
50 31 0.14
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTACATGATGAGAGCC
Found at i:55758023 original size:140 final size:141
Alignment explanation
Indices: 55757792--55758056 Score: 331
Period size: 140 Copynumber: 1.9 Consensus size: 141
55757782 TTTGTGTGCT
* *
55757792 AGTGTAAGACATGTCTAGGACATCCATCAACCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATCCATCAACCACATGAT-AGAGCCAGTATAAGACCATGTCTGG
* * ** * *
55757857 GACATGGCATCGGCATTGATACGAGAG-CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCT
65 GACATGGCATCAGAACGGATACGAGAGTC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCCT
55757919 CTTGATGAAAGCC
129 CTTGATGAAAGCC
* * * * * *
55757932 AGTGTAAGACATGTCTGGGACATGCATCGACTACATGAT-GTGTCAGTATAAGACCATGTCTGGG
1 AGTGTAAGACATGTCTAGGACATCCATCAACCACATGATAGAGCCAGTATAAGACCATGTCTGGG
*
55757996 ACATGGCGTCAGAACGGATACGTGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCG
66 ACATGGCATCAGAACGGATAC--GAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCG
55758057 ACTTAACGTG
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
138 38 0.36
140 48 0.46
141 13 0.12
142 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACATCCATCAACCACATGATAGAGCCAGTATAAGACCATGTCTGGG
ACATGGCATCAGAACGGATACGAGAGTCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCT
TGATGAAAGCC
Found at i:55768027 original size:11 final size:11
Alignment explanation
Indices: 55768011--55768035 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55768001 AAGAACTTCC
55768011 GAAAATTCTAA
1 GAAAATTCTAA
55768022 GAAAATTCTAA
1 GAAAATTCTAA
55768033 GAA
1 GAA
55768036 CTTACGCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (11 bp):
GAAAATTCTAA
Found at i:55768464 original size:30 final size:30
Alignment explanation
Indices: 55768430--55768500 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
55768420 CCGTATGGCT
**
55768430 GCCCGTGTGTCACACACGGTTTAGACACAC
1 GCCCGTGTGTCACACACGGTCCAGACACAC
55768460 GCCCGTGTGTCACACACGGTCCAGACACAC
1 GCCCGTGTGTCACACACGGTCCAGACACAC
55768490 GCCCGTGTGTC
1 GCCCGTGTGTC
55768501 TACCCGTGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.37, G:0.25, T:0.18
Consensus pattern (30 bp):
GCCCGTGTGTCACACACGGTCCAGACACAC
Found at i:55769873 original size:26 final size:26
Alignment explanation
Indices: 55769844--55769896 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55769834 CTTGATCTAT
55769844 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
55769870 AATACTGAATCTAGCTCATTTAATAC
1 AATACTGAATCTAGCTCATTTAATAC
55769896 A
1 A
55769897 TACATTACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
AATACTGAATCTAGCTCATTTAATAC
Found at i:55771387 original size:54 final size:55
Alignment explanation
Indices: 55771323--55771437 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 55
55771313 GCACACGGGT
* *
55771323 GTGTGACCCTA-CTCAAGGAGTTACACGGGT-GAAGACATGGGC-TGAGACATGGTC
1 GTGTGACCCTAGCTCAAAG-GTTACAC-GGTCGAAGACATGGGCATGAGACATAGTC
* * * * *
55771377 GTGTGTCCCTAGTTCAAAGGTTACACGGTCTAAGACATGGGCATGTGACTTAGTC
1 GTGTGACCCTAGCTCAAAGGTTACACGGTCGAAGACATGGGCATGAGACATAGTC
55771432 GTGTGA
1 GTGTGA
55771438 GTCATACGGC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
53 3 0.06
54 28 0.56
55 19 0.38
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (55 bp):
GTGTGACCCTAGCTCAAAGGTTACACGGTCGAAGACATGGGCATGAGACATAGTC
Found at i:55772871 original size:38 final size:38
Alignment explanation
Indices: 55772820--55772894 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
55772810 AAATAAAAGA
* * *
55772820 AAAGAAACAAAGAA-GGAAGAAACAGAATAGCAAACGGG
1 AAAGAAACAAAGAACGG-AGAAAAAGAAAAGAAAACGGG
*
55772858 AAAGAAAGAAAGAACGGAGAAAAAGAAAAGAAAACGG
1 AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGG
55772895 AAAAACTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 30 0.94
39 2 0.06
ACGTcount: A:0.64, C:0.08, G:0.27, T:0.01
Consensus pattern (38 bp):
AAAGAAACAAAGAACGGAGAAAAAGAAAAGAAAACGGG
Found at i:55780978 original size:22 final size:22
Alignment explanation
Indices: 55780940--55780987 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
55780930 AGAAATTAAG
55780940 TAGAAAAGAAGTATGAATTCAGT
1 TAGAAAAGAAG-ATGAATTCAGT
*
55780963 TAGAAAAGTAAG-TGAATTTAGT
1 TAGAAAAG-AAGATGAATTCAGT
55780985 TAG
1 TAG
55780988 GATTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 12 0.52
23 8 0.35
24 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.23, T:0.29
Consensus pattern (22 bp):
TAGAAAAGAAGATGAATTCAGT
Found at i:55781908 original size:4 final size:4
Alignment explanation
Indices: 55781899--55781928 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
55781889 GAATTGGTTT
55781899 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
55781929 GTTATATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:55782755 original size:30 final size:30
Alignment explanation
Indices: 55782719--55782778 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
55782709 AAACAAAGGG
55782719 AAGTAGCCAAACCATTCTATGAGATGCGCT
1 AAGTAGCCAAACCATTCTATGAGATGCGCT
*
55782749 AAGTAGCCAAACCATTTTATGAGATGCGCT
1 AAGTAGCCAAACCATTCTATGAGATGCGCT
55782779 CCTTTGTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (30 bp):
AAGTAGCCAAACCATTCTATGAGATGCGCT
Found at i:55789256 original size:30 final size:34
Alignment explanation
Indices: 55789215--55789275 Score: 85
Period size: 30 Copynumber: 1.9 Consensus size: 34
55789205 TTAGCTTAGA
55789215 TTCTCTCTTTAA-GTTT-A-AGTTTT-GTTTCCT
1 TTCTCTCTTTAAGGTTTCATAGTTTTAGTTTCCT
*
55789245 TTCTTTCTTTAAGGTTTCATAGTTTTAGTTT
1 TTCTCTCTTTAAGGTTTCATAGTTTTAGTTT
55789276 ATTTGTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 11 0.42
31 4 0.15
32 1 0.04
33 6 0.23
34 4 0.15
ACGTcount: A:0.15, C:0.13, G:0.11, T:0.61
Consensus pattern (34 bp):
TTCTCTCTTTAAGGTTTCATAGTTTTAGTTTCCT
Found at i:55789424 original size:30 final size:34
Alignment explanation
Indices: 55789388--55789464 Score: 117
Period size: 35 Copynumber: 2.4 Consensus size: 34
55789378 TGTTGGTTGG
55789388 TGAAAACCATGATCTCTT-A-A-C-TATTGTATA
1 TGAAAACCATGATCTCTTAACACCATATTGTATA
55789418 TGAAAACCATGATCTCTTAACAGCCATATTGTATA
1 TGAAAACCATGATCTCTTAACA-CCATATTGTATA
55789453 TGAAAACCATGA
1 TGAAAACCATGA
55789465 AGGACTAATC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
30 18 0.43
31 1 0.02
32 1 0.02
34 1 0.02
35 21 0.50
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (34 bp):
TGAAAACCATGATCTCTTAACACCATATTGTATA
Found at i:55790195 original size:22 final size:22
Alignment explanation
Indices: 55790141--55790197 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
55790131 TTACAGGGTC
*
55790141 ACACGCCCGTATGGCCCAAAGG
1 ACACGCCCGTGTGGCCCAAAGG
* * *
55790163 ACACACCCGTGTGGCCTAAGGG
1 ACACGCCCGTGTGGCCCAAAGG
55790185 ACACGCCCGTGTG
1 ACACGCCCGTGTG
55790198 ACCCTGGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.23, C:0.35, G:0.30, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGCCCAAAGG
Found at i:55804551 original size:33 final size:32
Alignment explanation
Indices: 55804500--55804563 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
55804490 ACGAAGTCAC
* *
55804500 CAGATACAAATATTGTGGCTAGGCCACCAGAA
1 CAGATACAAATATTGTGGCGAAGCCACCAGAA
* *
55804532 CAGATATATATATGTGTGGCGAAGCCACCAGA
1 CAGATACAAATAT-TGTGGCGAAGCCACCAGA
55804564 TATTGTGACG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAAATATTGTGGCGAAGCCACCAGAA
Found at i:55804570 original size:21 final size:22
Alignment explanation
Indices: 55804541--55804582 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
55804531 ACAGATATAT
*
55804541 ATATGTGTGGCGAAGCCACCAG
1 ATATGTGTGACGAAGCCACCAG
*
55804563 ATAT-TGTGACGAAGTCACCA
1 ATATGTGTGACGAAGCCACCA
55804583 TAATAGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.21
Consensus pattern (22 bp):
ATATGTGTGACGAAGCCACCAG
Found at i:55807166 original size:18 final size:18
Alignment explanation
Indices: 55807143--55807178 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55807133 TAAAAGAGAT
55807143 GGGCTAAAAGTGCAAATA
1 GGGCTAAAAGTGCAAATA
55807161 GGGCTAAAAGTGCAAATA
1 GGGCTAAAAGTGCAAATA
55807179 AACCTAAGAT
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:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (18 bp):
GGGCTAAAAGTGCAAATA
Found at i:55807185 original size:18 final size:18
Alignment explanation
Indices: 55807146--55807185 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55807136 AAGAGATGGG
***
55807146 CTAAAAGTGCAAATAGGG
1 CTAAAAGTGCAAATAAAC
55807164 CTAAAAGTGCAAATAAAC
1 CTAAAAGTGCAAATAAAC
55807182 CTAA
1 CTAA
55807186 GATACAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (18 bp):
CTAAAAGTGCAAATAAAC
Found at i:55809647 original size:48 final size:48
Alignment explanation
Indices: 55809496--55809908 Score: 400
Period size: 48 Copynumber: 8.6 Consensus size: 48
55809486 GGTAAAATGT
* * *
55809496 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-AT-GAG-GC
* * * ** * * ** * *
55809546 TGATGACATGTCCTAGACATGGTCTTACACTAACACATATAACAATGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
* * * *
55809594 TGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
* * * *
55809642 CGATGCCATATCCCAGACATGGTCTTACACTGGTTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
* * * * * *
55809690 CGAGGCCATGTCCCAGACATGGTCTTACACTAGCACACAT-ATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GAGGC
* *
55809738 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
* * * * * **
55809786 CGATGCCATGTCCCAAACATGGTCTTACAATAGCACACAT-ATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAAT-GAGGC
* * *
55809834 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
55809882 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
55809909 TGCTAGCACA
Statistics
Matches: 288, Mismatches: 70, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
47 4 0.01
48 246 0.85
49 5 0.02
50 33 0.11
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATGAGGC
Found at i:55809710 original size:96 final size:96
Alignment explanation
Indices: 55809595--55809927 Score: 513
Period size: 96 Copynumber: 3.5 Consensus size: 96
55809585 TAACAATGTT
* * * ** * *
55809595 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCCGATGCCATATCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
*
55809660 ATGGTCTTACACTGGTTCTCATAATGTGGCC
66 ATGGTCTTACACTGGCTCTCATAATGTGGCC
* * *
55809691 GAGGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
55809756 ATGGTCTTACACTGGCTCTCATAATGTGGCC
66 ATGGTCTTACACTGGCTCTCATAATGTGGCC
* *
55809787 GATGCCATGTCCCAAACATGGTCTTACAATAGCACACATATCAACACCGATGCCATGTCCCAGAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
*
55809852 ATGGTCTTACACTGGCTCTCATAATGTGGTC
66 ATGGTCTTACACTGGCTCTCATAATGTGGCC
* **
55809883 GATGCCATGTCCCAGACATGGTCTTATGCTAGCACACATATCAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAAC
55809928 CAAATGTCTT
Statistics
Matches: 216, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 216 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGGCTCTCATAATGTGGCC
Found at i:55809758 original size:144 final size:144
Alignment explanation
Indices: 55809496--55809908 Score: 481
Period size: 144 Copynumber: 2.9 Consensus size: 144
55809486 GGTAAAATGT
* * * *
55809496 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCTCATACATCGGTGCTGATGACATGTCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATA-ATCGG-GCCGATGCCATGTCCCA
* * * * * * *
55809561 GACATGGTCTTACACTAACACATATAACAATGTTGATGCCATGTTCCAAACATGGTCTTACACTG
64 GACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTG
*
55809626 GCTCACATATTGAGGC
129 GCTCACATAATGAGGC
* * * *
55809642 CGATGCCATATCCCAGACATGGTCTTACACTGGTTCTCATAAT-GTGGCCGAGGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCG-GGCCGATGCCATGTCCCAG
55809706 ACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTGG
65 ACATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTGG
* *
55809771 CTCTCATAATGTGGC
130 CTCACATAATGAGGC
* * * * ***
55809786 CGATGCCATGTCCCAAACATGGTCTTACAATAGCACACAT-ATCAACACCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATC-GGGCCGATGCCATGTCCCAG
* * * ***
55809850 ACATGGTCTTACACTGGCTCTCATAAT-GTGGTCGATGCCATGTCCCAGACATGGTCTTA
65 ACATGGTCTTACACTAGCACACAT-ATCAACGTCGATGCCATGTCCCAGACATGGTCTTA
55809909 TGCTAGCACA
Statistics
Matches: 228, Mismatches: 35, Indels: 10
0.84 0.13 0.04
Matches are distributed among these distances:
143 2 0.01
144 184 0.81
145 5 0.02
146 37 0.16
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATCGGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGCACACATATCAACGTCGATGCCATGTCCCAGACATGGTCTTACACTGGC
TCACATAATGAGGC
Found at i:55813704 original size:9 final size:9
Alignment explanation
Indices: 55813690--55813714 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55813680 AAAGAAGAGG
55813690 GTGGTGGTT
1 GTGGTGGTT
55813699 GTGGTGGTT
1 GTGGTGGTT
55813708 GTGGTGG
1 GTGGTGG
55813715 CCAAAAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.60, T:0.40
Consensus pattern (9 bp):
GTGGTGGTT
Found at i:55819005 original size:52 final size:52
Alignment explanation
Indices: 55818927--55819031 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
55818917 ACAGACTTAG
*
55818927 TACGTCAATGGTGTACCACATAGGTGAATACTATATGTCAAATCAACATAAC
1 TACGTCAATGGTGTACCACATAGGTGAATACTATACGTCAAATCAACATAAC
55818979 TACGTCAATGGTGTACCACATAGGTGAATACTATACGTCAAATCAACATAAC
1 TACGTCAATGGTGTACCACATAGGTGAATACTATACGTCAAATCAACATAAC
55819031 T
1 T
55819032 CAAAAATTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (52 bp):
TACGTCAATGGTGTACCACATAGGTGAATACTATACGTCAAATCAACATAAC
Found at i:55820889 original size:17 final size:17
Alignment explanation
Indices: 55820867--55820899 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55820857 ACTTGTCATA
55820867 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
55820884 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
55820900 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:55824154 original size:137 final size:138
Alignment explanation
Indices: 55823835--55824526 Score: 1003
Period size: 138 Copynumber: 5.0 Consensus size: 138
55823825 GGGTCGTTAC
* *
55823835 AATTAATATATGAATTTGATTCATACAATATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * *
55823900 AAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACATATGGAAATTAACATTATTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
55823965 AAGAATAT
131 AAGAATAT
*
55823973 AATTAATATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * *
55824038 TAAACAGTTATATTAATTAATTTCGGTCAAAATAT-AAAGCCTTGGAAATTAATAATCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
* *
55824102 AGGAATAA
131 AAGAATAT
* * *
55824110 AATTAATATCTTAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAATTTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * **
55824175 TAAACAGTTATATTCATTAATTTCGTTCAAAATATAAAAGACATGGAAATTAATATTA-TTTCAA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
55824239 AAGAATAT
131 AAGAATAT
* * * * *
55824247 AACTAAAATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * *
55824312 TAAATAGTTATATTAA-TAGGTTTCGATCAAAATATAAAAGACATAGAAATTAATATTATTTTGG
66 TAAACAGTTATATTAATTA-ATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGG
**
55824376 AAATTATAT
130 AAAGAATAT
* **
55824385 AATTAATATATGAATATGATTCATACAAAATATTAATTGTATATATTTTAATAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * * *
55824450 TAAATAGCTATATTAATTAATTTCGGTCAAAATATAAAATACATGAAAATTAATATTCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
55824515 AAGAATAT
131 AAGAATAT
55824523 AATT
1 AATT
55824527 TATTTTTCTA
Statistics
Matches: 492, Mismatches: 58, Indels: 8
0.88 0.10 0.01
Matches are distributed among these distances:
136 2 0.00
137 241 0.49
138 247 0.50
139 2 0.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTATTTTGGA
AAGAATAT
Found at i:55824363 original size:275 final size:273
Alignment explanation
Indices: 55823835--55824524 Score: 977
Period size: 275 Copynumber: 2.5 Consensus size: 273
55823825 GGGTCGTTAC
*
55823835 AATTAATATATGAATTTGATTCATACAATATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACC-AATTTATTAATA
* * *
55823900 AAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACATATGGAAATTAACATTATTTTGGA
65 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACACATGGAAATTAATATTA-TTTGGA
* *
55823965 AAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATT
129 AAGAATATAACTAAAATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATT
* * * * *
55824030 TATTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAGCCTTGGAAATTAATAATC
194 TATTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAGACATAGAAATTAATAATA
*
55824095 TTTTGGAAGGAATAA
259 TTTTGGAAAGAATAA
* *
55824110 AATTAATATCTTAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAATTTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAA-TTTATTAATA
* * * **
55824175 TAAACAGTTATATTCATTAATTTCGTTCAAAATATAAAAGACATGGAAATTAATATTATTTCAAA
65 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACACATGGAAATTAATATTATTTGGAA
* * * *
55824240 AGAATATAACTAAAATATTAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTT
130 AGAATATAACTAAAATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATTT
* * *
55824305 ATTAATATAAATAGTTATATTAA-TAGGTTTCGATCAAAATATAAAAGACATAGAAATTAATATT
195 ATTAATATAAACAGTTATATTAATTA-ATTTCGATCAAAATAT-AAAGACATAGAAATTAATAAT
** *
55824369 ATTTTGGAAATTATAT
258 ATTTTGGAAAGAATAA
* **
55824385 AATTAATATATGAATATGATTCATACAAAATATTAATTGTATATATTTTAATAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTT-ACCAATTTATTAATA
* * * * *
55824450 TAAATAGCTATATTAATTAATTTCGGTCAAAATATAAAATACATGAAAATTAATATTCTTTTGGA
65 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACACATGGAAATTAATATT-ATTTGGA
55824515 AAGAATATAA
129 AAGAATATAA
55824525 TTTATTTTTC
Statistics
Matches: 367, Mismatches: 43, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
273 2 0.01
274 102 0.28
275 246 0.67
276 17 0.05
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (273 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAATTTATTAATAT
AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAACACATGGAAATTAATATTATTTGGAAA
GAATATAACTAAAATATGAATTTGATTCATACAAAATATTAATTGCATATATTTTACCAAATTTA
TTAATATAAACAGTTATATTAATTAATTTCGATCAAAATATAAAGACATAGAAATTAATAATATT
TTGGAAAGAATAA
Found at i:55836813 original size:138 final size:138
Alignment explanation
Indices: 55836280--55836840 Score: 804
Period size: 138 Copynumber: 4.0 Consensus size: 138
55836270 ACGTAGATAA
55836280 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * * *
55836345 TAAACAGTTATATTAATTAATTTTGGCCAAAATATAAAAGACATGGAAATTAATAATCTTTTGGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
55836410 AAGAATAT
131 AAGAATAT
* * *
55836418 AATTAATATTTGAATTTGATTCATATAAAATACAAATATTAATTTTATATATTTTACCAAATTTA
1 AATTAATATATGAATTTGATTC--AT---ACA-AAATATTAATTGTATATATTTTACCAAATTTA
* *
55836483 TTAATATAAACAGTTATATTCATTAATTTCGTTC-AAA-ATAAAAGACATGAAAATTAATATTCT
60 TTAATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
55836546 TTTGGAAAGAATAT
125 TTTGGAAAGAATAT
* * * *
55836560 AATTAAAATATTAACTTGATTCATACAAAATATTAATTGTATATATTTTTACTAAATTTATTAAT
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATA-TTTTACCAAATTTATTAAT
* * * *
55836625 ATAAACAGTTATATTAA-TAGATTTCGGTCAAAATATAAAAGAGATAAAAATTAATATTATTTTT
65 ATAAACAGTTATATTAATTA-ATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTG
*
55836689 GAAATAATAT
129 GAAAGAATAT
* ***
55836699 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTACATATTTTATTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
* * *
55836764 TAGACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTCGA
66 TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
55836829 AAGAATAT
131 AAGAATAT
55836837 AATT
1 AATT
55836841 CATTTTTCTA
Statistics
Matches: 376, Mismatches: 36, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
136 19 0.05
137 44 0.12
138 109 0.29
139 78 0.21
140 4 0.01
142 56 0.15
143 5 0.01
144 61 0.16
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATTAATA
TAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:55836951 original size:74 final size:75
Alignment explanation
Indices: 55836816--55836964 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
55836806 ATGAAAATTA
* * *
55836816 ATATTCTTTTCGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTTTCGAAAGAACATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTACTAATAAGG
55836881 GAATAATCAT
66 GAATAATCAT
* ** * *
55836891 ATATTCTTTTGGAAA-AACATAATTCATTTTTCTAACTTTTTATTTGCCTTTTCTACTAATAATG
1 ATATTCTTTTCGAAAGAACATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTACTAATAAGG
55836955 GAATAATCAT
66 GAATAATCAT
55836965 GATTTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
74 52 0.79
75 14 0.21
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (75 bp):
ATATTCTTTTCGAAAGAACATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTACTAATAAGG
GAATAATCAT
Found at i:55838044 original size:42 final size:42
Alignment explanation
Indices: 55837956--55838108 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 42
55837946 TAACTGACAT
* * * * * * *
55837956 AATATATTTGGCACCTTAGTACATTATCGAAAAG-TCTGAAGT
1 AATATATCTGGCACCTCAGTGCATCATCCAAAAGTTC-AAAGA
* ** * *
55837998 AATATATCTGGCACCTCAATGCATCATCGGAAATTTTAAAGA
1 AATATATCTGGCACCTCAGTGCATCATCCAAAAGTTCAAAGA
* *
55838040 AATATATCTGACACTTCAGTGCATCATCCAAAAGTTCAAAGA
1 AATATATCTGGCACCTCAGTGCATCATCCAAAAGTTCAAAGA
* * *
55838082 AATATATTTGGAACCTCAGTGAATCAT
1 AATATATCTGGCACCTCAGTGCATCAT
55838109 ATCTAACTGG
Statistics
Matches: 88, Mismatches: 22, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
42 87 0.99
43 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (42 bp):
AATATATCTGGCACCTCAGTGCATCATCCAAAAGTTCAAAGA
Found at i:55838936 original size:19 final size:19
Alignment explanation
Indices: 55838912--55838949 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
55838902 CCACTTAGGT
55838912 TACAAATTAAGCTGGTTAG
1 TACAAATTAAGCTGGTTAG
55838931 TACAAATTAAGCTGGTTAG
1 TACAAATTAAGCTGGTTAG
55838950 GAACTAACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (19 bp):
TACAAATTAAGCTGGTTAG
Found at i:55841265 original size:26 final size:26
Alignment explanation
Indices: 55841236--55841345 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
55841226 TGGTACAAAT
55841236 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
55841262 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
55841288 TGATAATGGGTCAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
55841314 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
55841340 TGATAA
1 TGATAA
55841346 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:55842972 original size:27 final size:27
Alignment explanation
Indices: 55842931--55843046 Score: 160
Period size: 27 Copynumber: 4.3 Consensus size: 27
55842921 GAGGAAGCAT
*
55842931 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
55842958 TCTGGTGGCTCTGCCACAAATATCTAA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
55842985 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
55843012 TCTGGTGGCTCTGCCACGATTATATGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
55843040 TCTGGTG
1 TCTGGTG
55843047 ACTTTGTCAC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 71 0.91
28 7 0.09
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:55843016 original size:54 final size:55
Alignment explanation
Indices: 55842931--55843070 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 55
55842921 GAGGAAGCAT
* *
55842931 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-A-AATATCTAA
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACGATAATATCT-A
* * *
55842985 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATATGTA
1 TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACGATAATATCTA
* * *
55843040 TCTGGTGACTTTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTATGCCACATATATCTGTTCTGG
55843071 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 53 0.70
55 18 0.24
56 5 0.07
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTATGCCACATATATCTGTTCTGGTGGCTCTGCCACGATAATATCTA
Found at i:55846687 original size:26 final size:26
Alignment explanation
Indices: 55846658--55846767 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
55846648 TGGTACAAAT
55846658 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
55846684 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
55846710 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
55846736 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
55846762 TGATAA
1 TGATAA
55846768 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:55848421 original size:27 final size:27
Alignment explanation
Indices: 55848380--55848495 Score: 178
Period size: 27 Copynumber: 4.3 Consensus size: 27
55848370 GAGGAAGCGT
*
55848380 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
55848407 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
55848434 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
55848461 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
55848489 TCTGGTG
1 TCTGGTG
55848496 ACTTGTCACA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 74 0.91
28 7 0.09
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:55848465 original size:54 final size:54
Alignment explanation
Indices: 55848380--55848518 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
55848370 GAGGAAGCGT
* *
55848380 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCT-TGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
55848434 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCT-TGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
55848489 TCTGGTGACTTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTTGCCACATATATCTGTTCTGG
55848519 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 12 0.16
54 55 0.71
55 10 0.13
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (54 bp):
TCTGGTGGCTTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:55858553 original size:30 final size:30
Alignment explanation
Indices: 55858519--55858579 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
55858509 TCCTTAACTC
55858519 AAACTTTTGCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* * * *
55858549 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
55858579 A
1 A
55858580 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:55866821 original size:30 final size:30
Alignment explanation
Indices: 55866787--55866846 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
55866777 ACTTAACAAG
55866787 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
55866817 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
55866847 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:55868645 original size:18 final size:18
Alignment explanation
Indices: 55868622--55868656 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
55868612 GATTTTTTCC
55868622 AAGGTTAAAACAGAGGAT
1 AAGGTTAAAACAGAGGAT
55868640 AAGGTTAAAACAGAGGA
1 AAGGTTAAAACAGAGGA
55868657 GACAAGAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.06, G:0.29, T:0.14
Consensus pattern (18 bp):
AAGGTTAAAACAGAGGAT
Found at i:55877111 original size:40 final size:40
Alignment explanation
Indices: 55877051--55877156 Score: 176
Period size: 40 Copynumber: 2.6 Consensus size: 40
55877041 CATGGCTGAA
* *
55877051 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
1 ACTG-TACTGAGATGGGCTAAGGCCCTACTGCATATTCGAT
*
55877092 ATTGTACTGAGATGGGCTAAGGCCCTACTGCATATTCGAT
1 ACTGTACTGAGATGGGCTAAGGCCCTACTGCATATTCGAT
55877132 ACTGTACTGAGATGGGCTAAGGCCC
1 ACTGTACTGAGATGGGCTAAGGCCC
55877157 AAACTATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 58 0.95
41 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ACTGTACTGAGATGGGCTAAGGCCCTACTGCATATTCGAT
Found at i:55881689 original size:93 final size:93
Alignment explanation
Indices: 55881577--55881748 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
55881567 CGCCCATAAG
*
55881577 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
55881641 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
55881670 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55881735 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55881749 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55881743 original size:46 final size:46
Alignment explanation
Indices: 55881570--55881745 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
55881560 TGTAACCCGC
* *
55881570 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
55881616 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
55881666 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
55881709 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
55881746 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 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 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
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:55889199 original size:46 final size:46
Alignment explanation
Indices: 55889132--55889309 Score: 211
Period size: 46 Copynumber: 3.8 Consensus size: 46
55889122 TGTAACCCGC
*
55889132 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* **
55889178 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* **
55889228 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
55889271 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
55889310 CTCAACCATC
Statistics
Matches: 110, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 5 0.05
46 63 0.57
47 29 0.26
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:55889251 original size:93 final size:93
Alignment explanation
Indices: 55889139--55889310 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
55889129 CGCCCATAAG
**
55889139 CGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
55889203 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
55889232 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
55889297 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
55889311 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:55896360 original size:46 final size:46
Alignment explanation
Indices: 55896216--55896431 Score: 240
Period size: 46 Copynumber: 4.6 Consensus size: 46
55896206 ATTGTAGGCT
* * *
55896216 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GACGAGAGCC
* * * *
55896262 AGTGTAAGACCATGTCTGGGACATGGCATCAACATCGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGAGACGAGAGCC
*
55896310 AGTGTAAGACATGTCTGGGACATGCATCAGCCTTGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACG-AGAGCC
* * * *
55896356 AGTGTAAGATATGTCTGGGACATGCATC-GGCTACGAGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGAGAGCC
55896402 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
55896432 GGCACCTTAC
Statistics
Matches: 145, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
45 4 0.03
46 70 0.48
47 42 0.29
48 28 0.19
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGAGAGCC
Found at i:55896431 original size:94 final size:94
Alignment explanation
Indices: 55896216--55896431 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
55896206 ATTGTAGGCT
55896216 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
*
55896281 GACATGGCATCAACATCGAGACGAGTGCT
66 GACATGGCATCAACATCGAGACGAGTGCC
*
55896310 AGTGTAAGACATGTCTGGGACATGCATCAG-C-C-TTGA-GACGTAAGCCAGTGTAAGA-TATGT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGA-G--AGCCAGTGTAAGACCATGT
** *
55896370 CTGGGACAT-GCATCGGC-TACGAGATGA-TAGCC
62 CTGGGACATGGCATCAACAT-CGAGACGAGT-GCC
55896402 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
55896432 GGCACCTTAC
Statistics
Matches: 109, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
91 6 0.06
92 27 0.25
93 28 0.26
94 48 0.44
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCAACATCGAGACGAGTGCC
Found at i:55903375 original size:16 final size:18
Alignment explanation
Indices: 55903339--55903376 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55903329 ATCATTATTT
*
55903339 AAATAAAATACAGTGGTA
1 AAATAAAATACAATGGTA
55903357 AAATAAAATA-AAT-GTA
1 AAATAAAATACAATGGTA
55903373 AAAT
1 AAAT
55903377 CCATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 2 0.11
18 10 0.53
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.24
Consensus pattern (18 bp):
AAATAAAATACAATGGTA
Found at i:55908645 original size:116 final size:115
Alignment explanation
Indices: 55908442--55908675 Score: 459
Period size: 116 Copynumber: 2.0 Consensus size: 115
55908432 CACCATAACA
55908442 AAGTGGTCCATCATACGGACTGAGTTCTTGTTTGCTTATATCCTGTTTAAAATCTTTTAGGTGAG
1 AAGTGGTCCATCATACGGACTGAGTTCTTGTTTGCTTATATCCTGTTTAAAATCTTTTAGGTGAG
55908507 ATTTTTAAGTTGTTCTTCTGAATCTTCAACTGGCTTATACGTTAGCTGAT
66 ATTTTTAAGTTGTTCTTCTGAATCTTCAACTGGCTTATACGTTAGCTGAT
55908557 AAGTGGTCCATCATACGGACTGAGTTCTTGTTTGCTTTATATCCTGTTTAAAATCTTTTAGGTGA
1 AAGTGGTCCATCATACGGACTGAGTTCTTGTTTGC-TTATATCCTGTTTAAAATCTTTTAGGTGA
55908622 GATTTTTAAGTTGTTCTTCTGAATCTTCAACTGGCTTATACGTTAGCTGAT
65 GATTTTTAAGTTGTTCTTCTGAATCTTCAACTGGCTTATACGTTAGCTGAT
55908673 AAG
1 AAG
55908676 ATTGTTGAAG
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 35 0.30
116 83 0.70
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (115 bp):
AAGTGGTCCATCATACGGACTGAGTTCTTGTTTGCTTATATCCTGTTTAAAATCTTTTAGGTGAG
ATTTTTAAGTTGTTCTTCTGAATCTTCAACTGGCTTATACGTTAGCTGAT
Found at i:55909325 original size:21 final size:22
Alignment explanation
Indices: 55909295--55909338 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
55909285 TTTATGAACT
**
55909295 TTTTATATTTTTTTTTTTTGAA
1 TTTTATATTTTTAATTTTTGAA
55909317 TTTTA-ATTTTTAATTTTTGAA
1 TTTTATATTTTTAATTTTTGAA
55909338 T
1 T
55909339 ATTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (22 bp):
TTTTATATTTTTAATTTTTGAA
Found at i:55912430 original size:19 final size:19
Alignment explanation
Indices: 55912384--55912436 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
55912374 TTGAAATCAA
**
55912384 ATATATTTGTAATATTATAT
1 ATATATTTAAAAT-TTATAT
55912404 ATGATATTATAAAATTTATAT
1 AT-ATATT-TAAAATTTATAT
55912425 AT-TATTTAAAAT
1 ATATATTTAAAAT
55912437 GCCTTTCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 6 0.21
19 4 0.14
20 2 0.07
21 13 0.45
22 4 0.14
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (19 bp):
ATATATTTAAAATTTATAT
Found at i:55913084 original size:12 final size:12
Alignment explanation
Indices: 55913067--55913099 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
55913057 TTATAAATTG
55913067 ATAATATAT-AGT
1 ATAATATATCA-T
55913079 ATAATATATCAT
1 ATAATATATCAT
55913091 ATAATATAT
1 ATAATATAT
55913100 GGTTTCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (12 bp):
ATAATATATCAT
Found at i:55915533 original size:25 final size:25
Alignment explanation
Indices: 55915499--55915546 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
55915489 TCATATTAAC
55915499 AATTAATTAAATTTTAAAAAATATT
1 AATTAATTAAATTTTAAAAAATATT
55915524 AATTAATTAAATTTTAAAAAATA
1 AATTAATTAAATTTTAAAAAATA
55915547 AAAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AATTAATTAAATTTTAAAAAATATT
Found at i:55915592 original size:17 final size:18
Alignment explanation
Indices: 55915555--55915603 Score: 73
Period size: 17 Copynumber: 2.8 Consensus size: 18
55915545 TAAAAATATT
55915555 TTTTAAAATTTTTATACA
1 TTTTAAAATTTTTATACA
* *
55915573 TTTTAATATTTTT-TATA
1 TTTTAAAATTTTTATACA
55915590 TTTTAAAATTTTTA
1 TTTTAAAATTTTTA
55915604 AATTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 15 0.56
18 12 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTAAAATTTTTATACA
Found at i:55922797 original size:17 final size:16
Alignment explanation
Indices: 55922772--55922814 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
55922762 AATACTAATG
*
55922772 TATTAAATAATTTTTAT
1 TATT-AATAATTTTTAC
55922789 TATTCAATAATTTTTAC
1 TATT-AATAATTTTTAC
55922806 TATTAATAA
1 TATTAATAA
55922815 ATATTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAATAATTTTTAC
Found at i:55924656 original size:23 final size:24
Alignment explanation
Indices: 55924628--55924680 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 24
55924618 CCTCTTAGTG
*
55924628 AAAAAAATAATTTAATATATTATTT
1 AAAAAACTAATTTAATATATT-TTT
55924653 AAAAAACTTAATTTAATATATTTTT
1 AAAAAAC-TAATTTAATATATTTTT
55924678 AAA
1 AAA
55924681 GACATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAAACTAATTTAATATATTTTT
Found at i:55925405 original size:16 final size:16
Alignment explanation
Indices: 55925384--55925416 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55925374 AAGTTGCACA
55925384 GGAGGTGCAACAAATG
1 GGAGGTGCAACAAATG
*
55925400 GGAGGTGCAACATATG
1 GGAGGTGCAACAAATG
55925416 G
1 G
55925417 ATTAGGAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.39, T:0.15
Consensus pattern (16 bp):
GGAGGTGCAACAAATG
Found at i:55929381 original size:45 final size:45
Alignment explanation
Indices: 55929317--55929493 Score: 259
Period size: 45 Copynumber: 4.0 Consensus size: 45
55929307 TATCACACAG
* *
55929317 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAACGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAAA
*
55929362 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAAA
* *
55929407 TACTACTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAAA
* * * *
55929452 TACTATTCAGG-CTTCGAGCCTAGCAGGC-AAAATGCTGGTGAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAA
55929494 TGAGTTCGGG
Statistics
Matches: 121, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
43 11 0.09
44 16 0.13
45 94 0.78
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGGTGAAA
Found at i:55932535 original size:15 final size:15
Alignment explanation
Indices: 55932515--55932547 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
55932505 TCTCGCAATG
55932515 TTCACCATGCCCTTT
1 TTCACCATGCCCTTT
55932530 TTCACCATGCCCTTT
1 TTCACCATGCCCTTT
55932545 TTC
1 TTC
55932548 TCCAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.12, C:0.39, G:0.06, T:0.42
Consensus pattern (15 bp):
TTCACCATGCCCTTT
Found at i:55949505 original size:3 final size:3
Alignment explanation
Indices: 55949497--55949527 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
55949487 CTATTCAGGA
55949497 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
55949528 TACATTTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:55950329 original size:8 final size:8
Alignment explanation
Indices: 55950318--55950362 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
55950308 TCAATTTGCA
*
55950318 TAAAATAT
1 TAAAAAAT
*
55950326 TAAAATAT
1 TAAAAAAT
*
55950334 TAATAAATT
1 TAA-AAAAT
55950343 TAAAAAAT
1 TAAAAAAT
55950351 TAAAAAAT
1 TAAAAAAT
55950359 TAAA
1 TAAA
55950363 TAAAAATGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 27 0.82
9 6 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAAAAAAT
Found at i:55950346 original size:25 final size:26
Alignment explanation
Indices: 55950318--55950366 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
55950308 TCAATTTGCA
* *
55950318 TAAAATATTAAAATATT-AATAAATT
1 TAAAAAATTAAAAAATTAAATAAATT
55950343 TAAAAAATTAAAAAATTAAATAAA
1 TAAAAAATTAAAAAATTAAATAAA
55950367 AATGAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAAAAATTAAAAAATTAAATAAATT
Found at i:55950347 original size:17 final size:17
Alignment explanation
Indices: 55950319--55950359 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
55950309 CAATTTGCAT
*
55950319 AAAATATTAAAATATTAA
1 AAAAT-TTAAAAAATTAA
*
55950337 TAAATTTAAAAAATTAA
1 AAAATTTAAAAAATTAA
55950354 AAAATT
1 AAAATT
55950360 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTTAAAAAATTAA
Found at i:55953693 original size:43 final size:43
Alignment explanation
Indices: 55953605--55953707 Score: 129
Period size: 43 Copynumber: 2.4 Consensus size: 43
55953595 TACCAAGATG
* * *
55953605 TGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATTA
1 TGATTACGTATAAGACCATGTCTAGGACATTGGCATCGTATTA
*
55953648 TGATTACGTCTAAGACCATGTCT-GAGACATTGGCATCGT-TATA
1 TGATTACGTATAAGACCATGTCTAG-GACATTGGCATCGTAT-TA
*
55953691 TGATTTCGTATAAGACC
1 TGATTACGTATAAGACC
55953708 CTGTTTGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
42 2 0.04
43 51 0.96
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (43 bp):
TGATTACGTATAAGACCATGTCTAGGACATTGGCATCGTATTA
Found at i:55962482 original size:19 final size:19
Alignment explanation
Indices: 55962458--55962495 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
55962448 GGAACACATC
55962458 ATGAATCCAGTCCAACTCT
1 ATGAATCCAGTCCAACTCT
55962477 ATGAATCCAGTCCAACTCT
1 ATGAATCCAGTCCAACTCT
55962496 GGAGGTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.11, T:0.26
Consensus pattern (19 bp):
ATGAATCCAGTCCAACTCT
Found at i:55971605 original size:14 final size:14
Alignment explanation
Indices: 55971586--55971616 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
55971576 CCAAACCTTA
55971586 AATAATTCTACCTC
1 AATAATTCTACCTC
55971600 AATAATTCTACCTC
1 AATAATTCTACCTC
55971614 AAT
1 AAT
55971617 GTTGGTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (14 bp):
AATAATTCTACCTC
Found at i:55975105 original size:42 final size:42
Alignment explanation
Indices: 55974988--55975113 Score: 137
Period size: 43 Copynumber: 3.0 Consensus size: 42
55974978 CACACAGTAT
* * *
55974988 CATACCAATGCCGTATCCCAGATATGGTCTTACATGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGTAATCC
* * * * * *
55975030 CGTATCGATACCAATAGCCCAGCTATGGCCTTACATG-AAGTCC
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCC
*
55975073 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATC
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGTAATC
55975114 TTAGTAACCC
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 32 0.49
43 33 0.51
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGTAATCC
Found at i:55984294 original size:39 final size:39
Alignment explanation
Indices: 55984240--55984318 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
55984230 AAAATACAGG
55984240 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
1 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
55984279 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
1 TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
55984318 T
1 T
55984319 TCGAGAACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (39 bp):
TATGGCATGTATAGCTAGACTTTTACTCACACTAACTGT
Found at i:55987715 original size:94 final size:91
Alignment explanation
Indices: 55987595--55987813 Score: 235
Period size: 94 Copynumber: 2.4 Consensus size: 91
55987585 TGAGACGAGG
* * *
55987595 GCTAGTGTAAAACGTGTCTGGGACATGCATCAGCCGC-ATCATGATAGCCCGTGTAAGACCACAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGA-CACAT
* ** *
55987659 CTGGGACATGGTATCAGTGTAGAG-GTGAGT
65 CTGGGACAT-GCATC-GACTA-AGTGTCA-T
** * * * * **
55987689 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAATGATGTTAGCTAGTGTAAGACATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGACACATC
*
55987754 TGGGACATGCATCGACTAAGTTTCAT
66 TGGGACATGCATCGACTAAGTGTCAT
55987780 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGC
55987814 ACATGTACAC
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
91 35 0.33
92 5 0.05
93 4 0.04
94 44 0.42
95 17 0.16
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCGCAATCATGATAGCCAGTGTAAGACACATC
TGGGACATGCATCGACTAAGTGTCAT
Found at i:55987799 original size:44 final size:47
Alignment explanation
Indices: 55987688--55987810 Score: 175
Period size: 44 Copynumber: 2.7 Consensus size: 47
55987678 TAGAGGTGAG
* *
55987688 TGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAATGATGTTA
1 TGCTAGTGTAAGACATGTCTGGGACATGCA-TCGACTCAATGATGTTA
55987736 -GCTAGTGTAAGACATGTCTGGGACATGCATCGACT-AA-G-T-TTCA
1 TGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCAATGATGTT-A
55987779 TGCTAGTGTAAGACATGTCTGGGACATGCATC
1 TGCTAGTGTAAGACATGTCTGGGACATGCATC
55987811 AGCACATGTA
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 32 0.45
45 2 0.03
46 4 0.06
47 29 0.41
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (47 bp):
TGCTAGTGTAAGACATGTCTGGGACATGCATCGACTCAATGATGTTA
Found at i:55995137 original size:47 final size:46
Alignment explanation
Indices: 55995075--55995424 Score: 180
Period size: 47 Copynumber: 7.4 Consensus size: 46
55995065 AGAGCCAATA
* * * *
55995075 TAAGACCATGTCTGGGACATGGCATCGACATTGAGATGATGGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGAGATGATAGCCAGTG
* * *
55995123 TAAGACGTGTCTGGGACATGCATC-A-GTCGCGTCATGATAGCCCGTG
1 TAAGACATGTCTGGGACATGCATCGACGTCGAG--ATGATAGCCAGTG
* * * * * *
55995169 TAAGACCACGTCTGGGACATGGCATCGGCGTAGAGGTGAGT-GCTAGAG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGAGATGA-TAGCCAGTG
* * * *
55995217 TAAGACATGTCTGGGACATGCATCGGCCTCAATGATGTTAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGACGTCGA-GATGATAGCCAGTG
* * * *
55995264 TAAGACGTGTCTGGGACATGCATC-A-G-CTAAGTTTCG-T-GCTAGTG
1 TAAGACATGTCTGGGACATGCATCGACGTC-GAG-AT-GATAGCCAGTG
* * * * * *
55995308 TAAGACATGTCTAGGACATGCATCAACACGT-GTACACGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATC--GACGTCG-AGATGATAGCCAGTG
* * * *
55995356 TAAGACCATGTCTAGGACATGGCATCGGCCTCGATGGA-GCTAGCCAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGACGTCGA--GATGATAGCCAGTG
55995405 TAAGACCATGTCTGGGACAT
1 TAAGA-CATGTCTGGGACAT
55995425 AGCAGTGACA
Statistics
Matches: 233, Mismatches: 44, Indels: 49
0.71 0.13 0.15
Matches are distributed among these distances:
44 33 0.14
45 5 0.02
46 33 0.14
47 70 0.30
48 39 0.17
49 43 0.18
50 10 0.04
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGACGTCGAGATGATAGCCAGTG
Done.