Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 362 of 410
Found at i:111357732 original size:75 final size:73
Alignment explanation
Indices: 111357644--111357815 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
111357634 GGTTTTCCTC
** * * **
111357644 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
111357708 TCAGTATGG
65 TCAGTATGG
*
111357717 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
111357782 CTCAGTATGG
64 CTCAGTATGG
111357792 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
111357816 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:111360569 original size:3 final size:3
Alignment explanation
Indices: 111360563--111360605 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
111360553 TAATATGTCA
* * *
111360563 AAT AAT AAA AATT AAT AAT AAT AAT AAT AAT AGT AAC AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
111360606 TTTGAAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 31 0.94
4 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:111360806 original size:3 final size:3
Alignment explanation
Indices: 111360798--111360830 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
111360788 GATTGCTATG
111360798 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111360831 TAAACAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:111362324 original size:16 final size:16
Alignment explanation
Indices: 111362303--111362335 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
111362293 TGCTTGATTC
111362303 TCTTATGTCTTAAAGT
1 TCTTATGTCTTAAAGT
111362319 TCTTATGTCTTAAAGT
1 TCTTATGTCTTAAAGT
111362335 T
1 T
111362336 TAAACCATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.52
Consensus pattern (16 bp):
TCTTATGTCTTAAAGT
Found at i:111362692 original size:6 final size:6
Alignment explanation
Indices: 111362670--111362716 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
111362660 AATATAGTTC
*
111362670 AAAATAT AAAAA- CAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
111362717 CAAATGGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 4 0.11
6 29 0.78
7 4 0.11
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:111364367 original size:3 final size:3
Alignment explanation
Indices: 111364361--111364388 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
111364351 GATGATGATG
111364361 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
111364389 GAGAAGGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111366288 original size:46 final size:46
Alignment explanation
Indices: 111366162--111366289 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
111366152 ATTTGGGCAT
* * * *
111366162 CCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
111366208 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
111366254 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111366290 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:111369578 original size:8 final size:8
Alignment explanation
Indices: 111369565--111369596 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
111369555 CTAGATCGGC
111369565 AAAAGCCG
1 AAAAGCCG
111369573 AAAAGCCG
1 AAAAGCCG
*
111369581 AAATGCCG
1 AAAAGCCG
111369589 AAAAGCCG
1 AAAAGCCG
111369597 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:111369928 original size:28 final size:28
Alignment explanation
Indices: 111369843--111369931 Score: 151
Period size: 28 Copynumber: 3.2 Consensus size: 28
111369833 ATTTACTAGA
*
111369843 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATTACCATT
111369871 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
111369899 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
111369927 ATACC
1 ATACC
111369932 TCTAGGGTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:111370141 original size:29 final size:28
Alignment explanation
Indices: 111370051--111370141 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
111370041 CTGGTCGCTA
* * * *
111370051 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
111370079 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
111370106 TGCCACAAAATATTTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
111370135 TGTCACA
1 TGCCACA
111370142 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:111371243 original size:11 final size:10
Alignment explanation
Indices: 111371215--111371248 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
111371205 AGCCTGTAAG
111371215 TATTCTGAAT
1 TATTCTGAAT
*
111371225 TTTTCTGAAT
1 TATTCTGAAT
111371235 ATATTCTGAAT
1 -TATTCTGAAT
111371246 TAT
1 TAT
111371249 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:111378553 original size:15 final size:15
Alignment explanation
Indices: 111378533--111378601 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
111378523 GTATCTTGGG
111378533 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
111378548 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
111378563 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
111378578 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
111378593 TTTCTTTAT
1 TTTCTTTAT
111378602 TCGATTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:111378602 original size:30 final size:30
Alignment explanation
Indices: 111378524--111378603 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
111378514 CATAATATCG
* * *
111378524 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
111378554 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
111378584 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
111378604 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:111381051 original size:46 final size:45
Alignment explanation
Indices: 111380995--111381170 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
111380985 TATTTGGGCA
*
111380995 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA-G
* *** * *
111381041 TCCGACCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACT-AGGCA-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGA-GAAG
*
111381088 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAA-G
* *
111381134 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111381171 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 67 0.62
47 32 0.30
48 2 0.02
49 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAAG
Found at i:111381150 original size:93 final size:93
Alignment explanation
Indices: 111380991--111381162 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
111380981 AGGATATTTG
* * *
111380991 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAATGTCCGACCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGACCTCATTGAG
111381056 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
111381084 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGACCTCATTGAG
111381149 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111381163 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAGAACGCCCGACCTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:111385131 original size:24 final size:24
Alignment explanation
Indices: 111385104--111385188 Score: 89
Period size: 24 Copynumber: 3.5 Consensus size: 24
111385094 CGTTTCCTCA
*
111385104 CACACATAGTGCTATATAATCTCG
1 CACACATAGTGCCATATAATCTCG
* * * *
111385128 CACACATAGTGCCATGTAGTTTTTG
1 CACACATAGTGCCATATA-ATCTCG
** *
111385153 CACACATAGTGCCGCATAACCTCG
1 CACACATAGTGCCATATAATCTCG
111385177 CACACATAGTGC
1 CACACATAGTGC
111385189 TGAAATTTCT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
24 30 0.62
25 18 0.38
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (24 bp):
CACACATAGTGCCATATAATCTCG
Found at i:111388152 original size:20 final size:20
Alignment explanation
Indices: 111388129--111388187 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
111388119 ATTTATTCCT
*
111388129 ATTCGTATAAATTGTAATTC
1 ATTCGTATAAATAGTAATTC
* ** *
111388149 ATTCATATAACCAGTAGTTC
1 ATTCGTATAAATAGTAATTC
*
111388169 ATCCGTATAAATAGTAATT
1 ATTCGTATAAATAGTAATT
111388188 TATCAGTAAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (20 bp):
ATTCGTATAAATAGTAATTC
Found at i:111388187 original size:40 final size:39
Alignment explanation
Indices: 111388132--111388238 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
111388122 TATTCCTATT
* * *
111388132 CGTATAAATTGTAATTCATTCATATAACCAGTAGTTCATC
1 CGTATAAATAGTAATTCATTCATATAA-CAATAATTCATC
*
111388172 CGTATAAATAGTAATTTA-TCAGTAATAACAATAATTCATC
1 CGTATAAATAGTAATTCATTCA-T-ATAACAATAATTCATC
* * * *
111388212 TGTATCAACAGTAATTCATCCATATAA
1 CGTATAAATAGTAATTCATTCATATAA
111388239 ACACATATCT
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 7 0.13
40 42 0.76
41 6 0.11
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (39 bp):
CGTATAAATAGTAATTCATTCATATAACAATAATTCATC
Found at i:111388241 original size:20 final size:20
Alignment explanation
Indices: 111388142--111388241 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
111388132 CGTATAAATT
* *
111388142 GTAATTCATTCATATAACCA
1 GTAATTCATCCATATAAACA
* * *
111388162 GTAGTTCATCCGTATAAATA
1 GTAATTCATCCATATAAACA
*
111388182 GTAATTTAT-CAGTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* ** *
111388202 ATAATTCATCTGTATCAACA
1 GTAATTCATCCATATAAACA
111388222 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
111388242 CATATCTTAT
Statistics
Matches: 58, Mismatches: 18, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
19 2 0.03
20 56 0.97
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:111388416 original size:26 final size:25
Alignment explanation
Indices: 111388387--111388471 Score: 102
Period size: 25 Copynumber: 3.4 Consensus size: 25
111388377 GCCATGATTG
*
111388387 GTAAGCTCTTTATGAGATGATGAACA
1 GTAAGCTCTAT-TGAGATGATGAACA
*
111388413 GTAAGCTCTATTGAGCTGATGAACA
1 GTAAGCTCTATTGAGATGATGAACA
* * *
111388438 GTAAGCTCTATTAAGCT-A-AAACA
1 GTAAGCTCTATTGAGATGATGAACA
111388461 GTAAGCTCTAT
1 GTAAGCTCTAT
111388472 CGAGCTGAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
23 15 0.27
24 1 0.02
25 29 0.53
26 10 0.18
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (25 bp):
GTAAGCTCTATTGAGATGATGAACA
Found at i:111388464 original size:23 final size:24
Alignment explanation
Indices: 111388409--111388516 Score: 130
Period size: 23 Copynumber: 4.5 Consensus size: 24
111388399 TGAGATGATG
*
111388409 AACAGTAAGCTCTATTGAGCTGATG
1 AACAGTAAGCTCTATTGAGCTGA-A
*
111388434 AACAGTAAGCTCTATTAAGCT-AA
1 AACAGTAAGCTCTATTGAGCTGAA
*
111388457 AACAGTAAGCTCTATCGAGCTG-A
1 AACAGTAAGCTCTATTGAGCTGAA
** * *
111388480 AATGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTATTGAGCTGAA
111388504 AACAGTAAGCTCT
1 AACAGTAAGCTCT
111388517 TACGAGCTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
23 37 0.54
24 12 0.17
25 20 0.29
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCTATTGAGCTGAA
Found at i:111388465 original size:48 final size:47
Alignment explanation
Indices: 111388409--111388524 Score: 137
Period size: 48 Copynumber: 2.4 Consensus size: 47
111388399 TGAGATGATG
* * *
111388409 AACAGTAAGCTCTATTGAGCTGATGAACAGTAAGCTCTATTAAGCT-AA
1 AACAGTAAGCTCTATCGAGCTGA--AACAGTAAGCTCCAATAAGCTGAA
** *
111388457 AACAGTAAGCTCTATCGAGCTGAAATGGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTATCGAGCTGAAACAGTAAGCTCCAATAAGCTGAA
111388504 AACAGTAAGCTCT-TACGAGCT
1 AACAGTAAGCTCTAT-CGAGCT
111388525 AATATATCAG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
46 17 0.28
47 21 0.35
48 22 0.37
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (47 bp):
AACAGTAAGCTCTATCGAGCTGAAACAGTAAGCTCCAATAAGCTGAA
Found at i:111391403 original size:44 final size:45
Alignment explanation
Indices: 111391313--111391440 Score: 150
Period size: 44 Copynumber: 2.8 Consensus size: 45
111391303 GACAGAACGA
*
111391313 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
111391359 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
111391403 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTG
111391441 CCAGGATATT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.52
45 1 0.01
46 32 0.46
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:111393339 original size:18 final size:18
Alignment explanation
Indices: 111393310--111393367 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
111393300 TATAGTTGCA
*
111393310 AGCTCACCTGAAGCTGCG
1 AGCTCACTTGAAGCTGCG
* ** *
111393328 AGCTCATTTGAATATGTG
1 AGCTCACTTGAAGCTGCG
* *
111393346 AGCTTACTTAAAGCTGCG
1 AGCTCACTTGAAGCTGCG
111393364 AGCT
1 AGCT
111393368 TATCCAAAGA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (18 bp):
AGCTCACTTGAAGCTGCG
Found at i:111393376 original size:18 final size:17
Alignment explanation
Indices: 111393345--111393403 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
111393335 TTGAATATGT
*
111393345 GAGCTTACTTAAAGCTGC
1 GAGCTTA-TCAAAGCTGC
111393363 GAGCTTATCCAAAGAC-GC
1 GAGCTTAT-CAAAG-CTGC
* *
111393381 AAGCTCATCAAAGCTGC
1 GAGCTTATCAAAGCTGC
111393398 GAGCTT
1 GAGCTT
111393404 GACTTAAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
16 1 0.03
17 12 0.36
18 19 0.58
19 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (17 bp):
GAGCTTATCAAAGCTGC
Found at i:111395706 original size:17 final size:17
Alignment explanation
Indices: 111395684--111395745 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
111395674 ACTTCACAGC
111395684 TTTGGTGAGCTCGCACA
1 TTTGGTGAGCTCGCACA
* *
111395701 TTTGGTGTGTTCGCACA
1 TTTGGTGAGCTCGCACA
* * * *
111395718 TTTGATGAACTTGCACT
1 TTTGGTGAGCTCGCACA
*
111395735 TTTAGTGAGCT
1 TTTGGTGAGCT
111395746 TTTGGATTTG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.39
Consensus pattern (17 bp):
TTTGGTGAGCTCGCACA
Found at i:111400003 original size:22 final size:20
Alignment explanation
Indices: 111399969--111400011 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
111399959 TACCGAATCG
*
111399969 TAAACAATTAAAATTTTAAT
1 TAAACAATTAAAATTATAAT
111399989 TAAACATATTTAAAATTATAAT
1 TAAACA-A-TTAAAATTATAAT
111400011 T
1 T
111400012 CTAAATGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAACAATTAAAATTATAAT
Found at i:111417318 original size:23 final size:23
Alignment explanation
Indices: 111417291--111417336 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
111417281 GGTTTAAAAT
*
111417291 TAAAACAAAGTAAAA-AGAAATCA
1 TAAAACAAAGGAAAATA-AAATCA
*
111417314 TAAAATAAAGGAAAATAAAATCA
1 TAAAACAAAGGAAAATAAAATCA
111417337 ATGAGAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.15
Consensus pattern (23 bp):
TAAAACAAAGGAAAATAAAATCA
Found at i:111418368 original size:21 final size:20
Alignment explanation
Indices: 111418321--111418379 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
111418311 CAACTTATTC
*
111418321 CATAAATCAATAATAAATAAAA
1 CATAAAT-AAT-ATAATTAAAA
*
111418343 TATAAATAATATAATTAACAA
1 CATAAATAATATAATTAA-AA
*
111418364 CATAAATAGTATAATT
1 CATAAATAATATAATT
111418380 CAATGGGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 7 0.22
21 19 0.59
22 6 0.19
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.31
Consensus pattern (20 bp):
CATAAATAATATAATTAAAA
Found at i:111422770 original size:28 final size:28
Alignment explanation
Indices: 111422730--111422804 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
111422720 AGGTTTCTAT
*
111422730 ACATTCATATGGCCCATCAAGCCCAATC
1 ACATTTATATGGCCCATCAAGCCCAATC
* * *
111422758 ACATTTATATGGCCCATTATGCTCAATC
1 ACATTTATATGGCCCATCAAGCCCAATC
*
111422786 ACACTTATATGGCCCATCA
1 ACATTTATATGGCCCATCA
111422805 GTCCCGAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.28
Consensus pattern (28 bp):
ACATTTATATGGCCCATCAAGCCCAATC
Found at i:111426646 original size:38 final size:40
Alignment explanation
Indices: 111426592--111426712 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 40
111426582 TCTGATATGA
111426592 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
111426632 -A-GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
111426670 ATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 ------AATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
111426713 ATGACAGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
38 37 0.51
39 1 0.01
45 1 0.01
46 34 0.47
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:111426700 original size:46 final size:46
Alignment explanation
Indices: 111426633--111426756 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 46
111426623 GGCAACCTGA
* * *
111426633 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
111426679 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
* * * *
111426725 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
111426757 TTATGTCAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
Found at i:111433610 original size:6 final size:6
Alignment explanation
Indices: 111433599--111433625 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
111433589 ACAATCAACC
111433599 CATCTT CATCTT CATCTT CATCTT CAT
1 CATCTT CATCTT CATCTT CATCTT CAT
111433626 TCTGTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:111440615 original size:46 final size:45
Alignment explanation
Indices: 111440563--111440766 Score: 188
Period size: 46 Copynumber: 4.5 Consensus size: 45
111440553 GTCGATGCCG
* * *
111440563 TGTCCCAGACAGGTCTTACACTGA-CACATGTAACCGT-GCTGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCT---CGTAGCCGACGCA
*
111440609 TGTCCCATACATGTCTTACACT-AGCACATCTCGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
* *
111440653 TGTCCCAGACATGTCTGACACTG-GCTATCATCTCG-AGGCCGATGCA
1 TGTCCCAGACATGTCTTACACTGAGC-A-CATCTCGTA-GCCGACGCA
* * * *
111440699 TGTCCCAGACATGTCTTACACTG-GCTC-TCATACTGTGGCTGATGCA
1 TGTCCCAGACATGTCTTACACTGAGCACATC-T-C-GTAGCCGACGCA
111440745 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
111440767 AGCCCTCGTC
Statistics
Matches: 137, Mismatches: 11, Indels: 20
0.82 0.07 0.12
Matches are distributed among these distances:
43 5 0.04
44 32 0.23
45 4 0.03
46 96 0.70
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
TGTCCCAGACATGTCTTACACTGAGCACATCTCGTAGCCGACGCA
Found at i:111440766 original size:92 final size:91
Alignment explanation
Indices: 111440606--111440822 Score: 249
Period size: 92 Copynumber: 2.4 Consensus size: 91
111440596 CCGTGCTGAC
*
111440606 GCATGTCCCATACATGTCTTACACTAG-CACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
1 GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
* * *
111440670 ACACTGGCTATCATCTCGAGGCCGAT
66 ACACTAGCCATCATCTCAAGGCCGAT
* * * * *
111440696 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAGACATGTC
1 GCATGTCCCATACATGTCTTACACTGGC-CACAT-CTCGTAGCCGACGCATGTCCCAGACATGTC
* * * *
111440760 TTACACTAGCCCTCGTCTCAATGCCGAT
64 TGACACTAGCCATCATCTCAAGGCCGAT
*
111440788 GCCATGTCTCATACATGGTCTTACACTGGCACACA
1 G-CATGTCCCATACAT-GTCTTACACTGGC-CACA
111440823 AATCTCATGT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
90 25 0.24
92 50 0.48
93 14 0.13
94 16 0.15
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (91 bp):
GCATGTCCCATACATGTCTTACACTGGCCACATCTCGTAGCCGACGCATGTCCCAGACATGTCTG
ACACTAGCCATCATCTCAAGGCCGAT
Found at i:111440789 original size:46 final size:44
Alignment explanation
Indices: 111440606--111440814 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 44
111440596 CCGTGCTGAC
* *
111440606 GCATGTCCCATACATGTCTTACACTAGCACATC-TCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCATC-TATGCCGAT
* * * *
111440650 GCATGTCCCAGACATGTCTGACACTGGCTATCATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* * *
111440696 GCATGTCCCAGACATGTCTTACACTGGCTC-TCATACTGTGGCTGAT
1 GCATGTCCCAGACATGTCTTACACTAGC-CATCAT-CTAT-GCCGAT
* *
111440742 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGAT
1 GCATGTCCCAGACATGTCTTACACTAGCCATCATCT--ATGCCGAT
* *
111440788 GCCATGTCTCATACATGGTCTTACACT
1 G-CATGTCCCAGACAT-GTCTTACACT
111440815 GGCACACAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 27 0.20
45 4 0.03
46 77 0.56
47 15 0.11
48 10 0.07
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.27
Consensus pattern (44 bp):
GCATGTCCCAGACATGTCTTACACTAGCCATCATCTATGCCGAT
Found at i:111450122 original size:19 final size:19
Alignment explanation
Indices: 111450095--111450169 Score: 105
Period size: 19 Copynumber: 3.9 Consensus size: 19
111450085 ATATAGGCCT
*
111450095 ACACCGGCATATGGGCCCC
1 ACACGGGCATATGGGCCCC
*
111450114 ACACAGGCATATGGGCCCC
1 ACACGGGCATATGGGCCCC
*
111450133 ACACGGGCATATAGGCCCC
1 ACACGGGCATATGGGCCCC
* *
111450152 ACATGGGCATTTGGGCCC
1 ACACGGGCATATGGGCCC
111450170 AATTATCTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.23, C:0.36, G:0.28, T:0.13
Consensus pattern (19 bp):
ACACGGGCATATGGGCCCC
Found at i:111450124 original size:37 final size:38
Alignment explanation
Indices: 111450075--111450154 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 38
111450065 ACCGTGTGGG
* *
111450075 CCACACTAGCATATAGG-CCTACACCGGCATATGGGCC
1 CCACACTAGCATATAGGCCCCACACCGGCATATAGGCC
* *
111450112 CCACAC-AGGCATATGGGCCCCACACGGGCATATAGGCC
1 CCACACTA-GCATATAGGCCCCACACCGGCATATAGGCC
111450150 CCACA
1 CCACA
111450155 TGGGCATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.03
37 14 0.38
38 22 0.59
ACGTcount: A:0.28, C:0.38, G:0.23, T:0.12
Consensus pattern (38 bp):
CCACACTAGCATATAGGCCCCACACCGGCATATAGGCC
Found at i:111450395 original size:34 final size:34
Alignment explanation
Indices: 111450300--111450397 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
111450290 TAATGCATGT
* *
111450300 CTGATACTGAAACTGAAATGGGCTAAAGCCCAAA
1 CTGATACTAAAACTGAAATGGGCTAAGGCCCAAA
*
111450334 CTGCTACTAAAACTGAAATGGGCTAAGGCCCAAA
1 CTGATACTAAAACTGAAATGGGCTAAGGCCCAAA
* * **
111450368 TTGATACTAAAATTGAAATGGATTAAGGCC
1 CTGATACTAAAACTGAAATGGGCTAAGGCC
111450398 TGAACTGCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.21
Consensus pattern (34 bp):
CTGATACTAAAACTGAAATGGGCTAAGGCCCAAA
Found at i:111452716 original size:30 final size:30
Alignment explanation
Indices: 111452680--111452740 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
111452670 TTAGTTGATG
*
111452680 GATTATGGAAGCTTGATGTTGGGTTTACAT
1 GATTATGGAAGCTTGATATTGGGTTTACAT
111452710 GATTATGGAAGCTTGATATTGGGTTTACAT
1 GATTATGGAAGCTTGATATTGGGTTTACAT
111452740 G
1 G
111452741 TTTTGTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.07, G:0.30, T:0.39
Consensus pattern (30 bp):
GATTATGGAAGCTTGATATTGGGTTTACAT
Found at i:111457612 original size:18 final size:18
Alignment explanation
Indices: 111457589--111457626 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
111457579 AGATTAAGAT
*
111457589 AAACCACGTATGGACCTA
1 AAACCACATATGGACCTA
111457607 AAACCACATATGGACCTA
1 AAACCACATATGGACCTA
111457625 AA
1 AA
111457627 TCGAGGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.26, G:0.13, T:0.16
Consensus pattern (18 bp):
AAACCACATATGGACCTA
Found at i:111468225 original size:27 final size:27
Alignment explanation
Indices: 111468173--111468227 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
111468163 GAAATTAGAG
* *
111468173 TTAACTGGGCCTTAGCCCATATCAATA
1 TTAACTGGGCCATAACCCATATCAATA
*
111468200 TTAATCTGGGCCATAACCCTTA-CAATA
1 TTAA-CTGGGCCATAACCCATATCAATA
111468227 T
1 T
111468228 CAGAGTATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (27 bp):
TTAACTGGGCCATAACCCATATCAATA
Found at i:111468240 original size:60 final size:60
Alignment explanation
Indices: 111468176--111468313 Score: 158
Period size: 59 Copynumber: 2.3 Consensus size: 60
111468166 ATTAGAGTTA
* *
111468176 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAACCC-TTACAATATC-AGAGTAT
1 ACTGGGCCTTAGCCCATATCAATATCAAACTGGGCCATAACCCATTACAA-ATCGAGA-TAT
* * * *
111468236 ACTGGGCC-TAGCCCATATCAGTATCAAACTGGGCCGTAGCCCTATTACAAGTCGAGATAT
1 ACTGGGCCTTAGCCCATATCAATATCAAACTGGGCCATAACCC-ATTACAAATCGAGATAT
*
111468296 ATTGGGCCTT-GCCCATAT
1 ACTGGGCCTTAGCCCATAT
111468314 TAACACAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
59 29 0.43
60 28 0.42
61 10 0.15
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (60 bp):
ACTGGGCCTTAGCCCATATCAATATCAAACTGGGCCATAACCCATTACAAATCGAGATAT
Found at i:111468331 original size:20 final size:20
Alignment explanation
Indices: 111468306--111468351 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
111468296 ATTGGGCCTT
111468306 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
111468326 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
111468345 GCCCATA
1 GCCCATA
111468352 ACAAAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:111470753 original size:19 final size:18
Alignment explanation
Indices: 111470716--111470759 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
111470706 ATACATACAG
111470716 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
111470733 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
111470752 TACTAATT
1 TAATAATT
111470760 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:111478014 original size:2 final size:2
Alignment explanation
Indices: 111478009--111478035 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111477999 TCATATATTT
111478009 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
111478036 TTAAAAGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111479591 original size:21 final size:21
Alignment explanation
Indices: 111479545--111479590 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
111479535 TATAAAATAT
111479545 AAAAAGTTCAATAAAAATTAC
1 AAAAAGTTCAATAAAAATTAC
111479566 AAAAATGTTC-ATAAAAATT-C
1 AAAAA-GTTCAATAAAAATTAC
111479586 AAAAA
1 AAAAA
111479591 AATAGCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAAGTTCAATAAAAATTAC
Found at i:111479761 original size:25 final size:25
Alignment explanation
Indices: 111479709--111479761 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
111479699 GACTCTTTTT
* * *
111479709 AAAAAAATTAAGTCAAATTTAACCA
1 AAAAAAATAAAGACAAATTTAACAA
111479734 AAAAAAATAAAGACTAAATTTAA-AA
1 AAAAAAATAAAGAC-AAATTTAACAA
111479759 AAA
1 AAA
111479762 TGTAAACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.21
Consensus pattern (25 bp):
AAAAAAATAAAGACAAATTTAACAA
Found at i:111484863 original size:17 final size:17
Alignment explanation
Indices: 111484841--111484874 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
111484831 TCCTTAAAGT
111484841 AAAATATATTCCAAATA
1 AAAATATATTCCAAATA
111484858 AAAATATATTCCAAATA
1 AAAATATATTCCAAATA
111484875 TGGATTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATATTCCAAATA
Found at i:111486825 original size:17 final size:18
Alignment explanation
Indices: 111486800--111486834 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
111486790 CTGCTATTAC
111486800 TTTCGTTTTT-CTTTTTT
1 TTTCGTTTTTACTTTTTT
*
111486817 TTTCTTTTTTACTTTTTT
1 TTTCGTTTTTACTTTTTT
111486835 GACTTCCGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTCGTTTTTACTTTTTT
Found at i:111486897 original size:11 final size:11
Alignment explanation
Indices: 111486877--111486909 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
111486867 TGTTTTGTCT
111486877 TTTA-TTTTTA
1 TTTATTTTTTA
111486887 TTTATTTTTTA
1 TTTATTTTTTA
111486898 TTTATTTTTTA
1 TTTATTTTTTA
111486909 T
1 T
111486910 GATTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:111486991 original size:20 final size:20
Alignment explanation
Indices: 111486930--111487075 Score: 80
Period size: 20 Copynumber: 6.8 Consensus size: 20
111486920 AAAAAACTTA
*
111486930 AAATATATATTTGAAAGGTTTT
1 AAATATATATTTTAAA--TTTT
*
111486952 ATAATATATATTTTTTAATTTT
1 A-AATATATA-TTTTAAATTTT
111486974 AAATATATATTTTAAA--TT
1 AAATATATATTTTAAATTTT
* *
111486992 AATTTTCTATATTTTAAATTATT
1 AA--ATATATATTTTAAATT-TT
* *
111487015 ATTATTTTAATATTTTTAAAATTTT
1 A--AATAT-ATA-TTTT-AAATTTT
* *
111487040 AAATATTATTTTTTAAATATT
1 AAATA-TATATTTTAAATTTT
*
111487061 AAATATATTTTTTAA
1 AAATATATATTTTAA
111487076 TAATATAAAA
Statistics
Matches: 101, Mismatches: 10, Indels: 28
0.73 0.07 0.20
Matches are distributed among these distances:
18 4 0.04
20 28 0.28
21 19 0.19
22 10 0.10
23 18 0.18
24 9 0.09
25 8 0.08
26 5 0.05
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (20 bp):
AAATATATATTTTAAATTTT
Found at i:111487051 original size:21 final size:20
Alignment explanation
Indices: 111487024--111487088 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 20
111487014 TATTATTTTA
*
111487024 ATATTTTTAAAATTTTAAAT
1 ATATTTTTAAAATATTAAAT
*
111487044 ATTATTTTTTAAATATTAAAT
1 A-TATTTTTAAAATATTAAAT
*
111487065 ATATTTTTTAATAATATAAAAT
1 ATA-TTTTTAA-AATATTAAAT
111487087 AT
1 AT
111487089 TTAAATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.08
21 24 0.63
22 11 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATATTTTTAAAATATTAAAT
Found at i:111487055 original size:22 final size:22
Alignment explanation
Indices: 111487027--111487089 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
111487017 TATTTTAATA
*
111487027 TTTTTAAAATTTTAAATATTAT
1 TTTTTAAAATATTAAATATTAT
111487049 TTTTT-AAATATTAAATA-TAT
1 TTTTTAAAATATTAAATATTAT
*
111487069 TTTTTAATAATATAAAATATT
1 TTTTTAA-AATATTAAATATT
111487090 TAAATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 12 0.33
22 15 0.42
23 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTAAAATATTAAATATTAT
Found at i:111487059 original size:32 final size:31
Alignment explanation
Indices: 111486959--111487060 Score: 109
Period size: 33 Copynumber: 3.2 Consensus size: 31
111486949 TTTATAATAT
* *
111486959 ATATTTTTTAATTTTAAATA-TATATTTTAA
1 ATATTTTTAAATTTTAAATATTATTTTTTAA
*
111486989 ATTAATTTTCTATATTTTAAATTATTATTATTTT-A
1 A-T-ATTTT-TAAATTTTAAA-TATTATT-TTTTAA
111487024 ATATTTTTAAAATTTTAAATATTATTTTTTAA
1 ATATTTTT-AAATTTTAAATATTATTTTTTAA
111487056 ATATT
1 ATATT
111487061 AAATATATTT
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
30 1 0.02
31 5 0.08
32 19 0.32
33 23 0.38
34 3 0.05
35 5 0.08
36 4 0.07
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (31 bp):
ATATTTTTAAATTTTAAATATTATTTTTTAA
Found at i:111487071 original size:32 final size:35
Alignment explanation
Indices: 111486999--111487071 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 35
111486989 ATTAATTTTC
* *
111486999 TATATTTTAAATTATTATTATTTTAATATTTTTAA
1 TATATTTTAAATTATTATTATTTTAATATATTAAA
111487034 -A-ATTTTAAA-TATTATT-TTTTAA-ATATTAAA
1 TATATTTTAAATTATTATTATTTTAATATATTAAA
111487064 TATATTTT
1 TATATTTT
111487072 TTAATAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
30 6 0.18
31 7 0.21
32 12 0.35
33 8 0.24
34 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (35 bp):
TATATTTTAAATTATTATTATTTTAATATATTAAA
Found at i:111487090 original size:20 final size:20
Alignment explanation
Indices: 111487024--111487075 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
111487014 TATTATTTTA
* *
111487024 ATATTTTTAAAATTTTAAAT
1 ATATTTTTTAAATATTAAAT
111487044 ATTATTTTTTAAATATTAAAT
1 A-TATTTTTTAAATATTAAAT
111487065 ATATTTTTTAA
1 ATATTTTTTAA
111487076 TAATATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
ATATTTTTTAAATATTAAAT
Found at i:111487155 original size:21 final size:22
Alignment explanation
Indices: 111487025--111487154 Score: 66
Period size: 21 Copynumber: 6.2 Consensus size: 22
111487015 ATTATTTTAA
*
111487025 TATTTT-TAAAATTTTAAATAT
1 TATTTTATAATATTTTAAATAT
* *
111487046 TATTTTTTAA-ATATTAAATA-
1 TATTTTATAATATTTTAAATAT
* * *
111487066 TATTTTTTAATAATATAAA-A-
1 TATTTTATAATATTTTAAATAT
111487086 TA-TTTA-AATATTTTAAAAATAT
1 TATTTTATAATATTTT--AAATAT
* * *
111487108 GACCTTT-TAA-A-TTT-ATTAT
1 TA-TTTTATAATATTTTAAATAT
111487127 TAGTTTTATAATATTTTAAATAT
1 TA-TTTTATAATATTTTAAATAT
111487150 TATTT
1 TATTT
111487155 AAGTTGTTTT
Statistics
Matches: 83, Mismatches: 13, Indels: 25
0.69 0.11 0.21
Matches are distributed among these distances:
18 6 0.07
19 11 0.13
20 19 0.23
21 22 0.27
22 13 0.16
23 7 0.08
24 5 0.06
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTATAATATTTTAAATAT
Found at i:111487196 original size:24 final size:24
Alignment explanation
Indices: 111487161--111487216 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
111487151 ATTTAAGTTG
*
111487161 TTTTATAATATTTTAAAT-TATGAT
1 TTTTA-AATATTTAAAATATATGAT
*
111487185 TTTTAAATTATTTAAAATATATTAT
1 TTTTAAA-TATTTAAAATATATGAT
111487210 TTTTAAA
1 TTTTAAA
111487217 GATATGATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.50
25 12 0.43
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAAATATTTAAAATATATGAT
Found at i:111487289 original size:18 final size:21
Alignment explanation
Indices: 111487266--111487315 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
111487256 TTAATAATAT
111487266 AATTTTAA-AT-ATTTTT-TA
1 AATTTTAATATAATTTTTATA
111487284 AATTTTGAATATAATTTTTATA
1 AATTTT-AATATAATTTTTATA
111487306 AATTATTAAT
1 AATT-TTAAT
111487316 TTTAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 6 0.22
19 2 0.07
20 2 0.07
21 6 0.22
22 9 0.33
23 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTTAATATAATTTTTATA
Found at i:111487301 original size:114 final size:111
Alignment explanation
Indices: 111487046--111487312 Score: 297
Period size: 114 Copynumber: 2.3 Consensus size: 111
111487036 TTTTAAATAT
* * * *
111487046 TATTTTTTAAATATTAAATATATTTTTTAATAATATAAAATATTTAAATATTTTAAAAATATGAC
1 TATTTTTTAAATTTTAAATATATTTTTAAATTATTTAAAATATTT-AATATTTTAAAAATATGAC
* * *
111487111 CTTTTAAATTTATTATTAGTTTTATAATATTTTAAATATTATTTAAG
65 CTTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAATTTAAA
*
111487158 T-TGTTTTATAATATTTTAAATTATGATTTTTAAATTATTTAAAATATATT-AT-TTTTAAAGAT
1 TAT-TTTT-TAA-ATTTTAAA-TAT-ATTTTTAAATTATTTAAAATAT-TTAATATTTTAAAAAT
* *
111487220 ATGATCTTTCAAATTTATTATTTGTTTTATAATATTTTAATAATATAATTTTAAA
60 ATGACCTTTCAAATTTATTATTAGTTTTATAATATTTT-A-AATATAA-TTTAAA
*
111487275 TATTTTTTAAATTTTGAATATAATTTTTATAAATTATT
1 TATTTTTTAAATTTTAAATAT-A-TTTT-TAAATTATT
111487313 AATTTTAAAA
Statistics
Matches: 131, Mismatches: 12, Indels: 20
0.80 0.07 0.12
Matches are distributed among these distances:
111 1 0.01
112 5 0.04
113 3 0.02
114 55 0.42
115 17 0.13
116 37 0.28
117 12 0.09
118 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (111 bp):
TATTTTTTAAATTTTAAATATATTTTTAAATTATTTAAAATATTTAATATTTTAAAAATATGACC
TTTCAAATTTATTATTAGTTTTATAATATTTTAAATATAATTTAAA
Found at i:111490768 original size:30 final size:30
Alignment explanation
Indices: 111490720--111490792 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
111490710 GGTTGCTCTA
* * * *
111490720 GGTGAAATAAACTCGAACCGCCTATTTCCG
1 GGTGATATGAACTCGAACCGCCAATGTCCG
* *
111490750 GGTGATATGAACTTGAACCGCCAATGTCTG
1 GGTGATATGAACTCGAACCGCCAATGTCCG
*
111490780 AGTGATATGAACT
1 GGTGATATGAACT
111490793 ACTCCGCGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCGCCAATGTCCG
Found at i:111498059 original size:41 final size:40
Alignment explanation
Indices: 111498014--111498096 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
111498004 AAAAATATAT
111498014 ATTAAGTACATAAATTTATG-AATGTGTACTAAAATTAAAAA
1 ATTAA-TACATAAATTT-TGAAATGTGTACTAAAATTAAAAA
*
111498055 ATTAATATATAAATTTTGTAAATGTGTACTAAAATTAAAAA
1 ATTAATACATAAATTTTG-AAATGTGTACTAAAATTAAAAA
111498096 A
1 A
111498097 CTATAACTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 2 0.05
40 10 0.26
41 27 0.69
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (40 bp):
ATTAATACATAAATTTTGAAATGTGTACTAAAATTAAAAA
Found at i:111498575 original size:20 final size:20
Alignment explanation
Indices: 111498552--111498607 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
111498542 TGATCAGTTA
111498552 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
111498572 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
111498592 TAATATATATTTTTAA
1 TAATATATATTTTTAA
111498608 ATAAATTCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:111498635 original size:14 final size:14
Alignment explanation
Indices: 111498588--111498636 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
111498578 AAATTTTTAC
*
111498588 TTTTTAATATATAT
1 TTTTTAATAAATAT
*
111498602 TTTTAAATAAATTCAT
1 TTTTTAATAAA-T-AT
*
111498618 TTTTTAACAAATAT
1 TTTTTAATAAATAT
111498632 TTTTT
1 TTTTT
111498637 TATTTTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 11 0.38
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTAATAAATAT
Found at i:111498776 original size:22 final size:24
Alignment explanation
Indices: 111498724--111498782 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 24
111498714 ATATCTTTAA
111498724 AAATAAT-TTA-AAAATCATAATT
1 AAATAATATTATAAAATCATAATT
*
111498746 TAA-AATATTATAAAA-CA-AATT
1 AAATAATATTATAAAATCATAATT
111498767 AAATAATATT-TAAAAT
1 AAATAATATTATAAAAT
111498783 ATTATAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 14 0.45
22 13 0.42
23 4 0.13
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATAATATTATAAAATCATAATT
Found at i:111498849 original size:17 final size:19
Alignment explanation
Indices: 111498814--111498870 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
111498804 TTGAAAGGTC
111498814 ATATATTTAAATTATTTAA
1 ATATATTTAAATTATTTAA
* *
111498833 ATAT-TTTATATTATTAAAAA
1 ATATATTTAAATTATT--TAA
111498853 ATATATTT-AA-TATTTAA
1 ATATATTTAAATTATTTAA
111498870 A
1 A
111498871 AAAGAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.10
18 10 0.32
19 8 0.26
20 7 0.23
21 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATATTTAAATTATTTAA
Found at i:111498861 original size:21 final size:21
Alignment explanation
Indices: 111498814--111498964 Score: 75
Period size: 22 Copynumber: 7.3 Consensus size: 21
111498804 TTGAAAGGTC
*
111498814 ATATATTTAAATTATT--TAA
1 ATATATTTAAATTATTAAAAA
*
111498833 ATAT-TTTATATTATTAAAAA
1 ATATATTTAAATTATTAAAAA
111498853 ATATATTT-AA-TATTTAAAAA
1 ATATATTTAAATTA-TTAAAAA
* *
111498873 AGAATATTTAAAAT-TTAAAAA
1 A-TATATTTAAATTATTAAAAA
* * *
111498894 ATAT-TTAAAATAATATATAAA
1 ATATATTTAAATTAT-TAAAAA
* *** *
111498915 ATTTAGAAAAATAATTTAAAAA
1 ATATATTTAAATTA-TTAAAAA
*
111498937 ATATATATTCAAAAT-TTAAAAA
1 ATATAT-TT-AAATTATTAAAAA
111498959 ATATAT
1 ATATAT
111498965 ATTATAAAAT
Statistics
Matches: 100, Mismatches: 19, Indels: 23
0.70 0.13 0.16
Matches are distributed among these distances:
18 10 0.10
19 11 0.11
20 18 0.18
21 25 0.25
22 31 0.31
23 2 0.02
24 3 0.03
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
ATATATTTAAATTATTAAAAA
Found at i:111498897 original size:32 final size:32
Alignment explanation
Indices: 111498861--111498962 Score: 136
Period size: 30 Copynumber: 3.2 Consensus size: 32
111498851 AAATATATTT
*
111498861 AATATTTAAAAAAGAATATTTAAAATTTAAAA
1 AATATTTAAAAAATAATATTTAAAATTTAAAA
*
111498893 AATATTT--AAAATAATATATAAAATTTAGAAA
1 AATATTTAAAAAATAATATTTAAAATTTA-AAA
*
111498924 AATAATTTAAAAAATATATATTCAAAATTTAAAA
1 AAT-ATTTAAAAAATA-ATATTTAAAATTTAAAA
111498958 AATAT
1 AATAT
111498963 ATATTATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
30 18 0.30
31 6 0.10
32 11 0.18
33 2 0.03
34 12 0.20
35 12 0.20
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (32 bp):
AATATTTAAAAAATAATATTTAAAATTTAAAA
Found at i:111498898 original size:18 final size:19
Alignment explanation
Indices: 111498846--111498904 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 19
111498836 TTTTATATTA
*
111498846 TTAAAAAATATATTTAATAT
1 TTAAAAAA-ATATTTAAAAT
111498866 TTAAAAAAGAATATTTAAAAT
1 TT-AAAAA-AATATTTAAAAT
111498887 TT-AAAAAATATTTAAAAT
1 TTAAAAAAATATTTAAAAT
111498905 AATATATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 12 0.33
19 4 0.11
20 2 0.06
21 17 0.47
22 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TTAAAAAAATATTTAAAAT
Found at i:111498951 original size:25 final size:26
Alignment explanation
Indices: 111498922--111498989 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 26
111498912 AAAATTTAGA
111498922 AAAATAATTTAAAAAATATATATT-C
1 AAAATAATTTAAAAAATATATATTAC
*
111498947 --AA-AATTTAAAAAATATATATTAT
1 AAAATAATTTAAAAAATATATATTAC
* *
111498970 AAAAT-ATTTCAAATATATAT
1 AAAATAATTTAAAAAATATAT
111498990 TTTAAGTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 19 0.53
23 2 0.06
25 15 0.42
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (26 bp):
AAAATAATTTAAAAAATATATATTAC
Found at i:111498965 original size:22 final size:22
Alignment explanation
Indices: 111498846--111498974 Score: 99
Period size: 22 Copynumber: 6.0 Consensus size: 22
111498836 TTTTATATTA
*
111498846 TTAAAAAATATAT-TT-AATAT
1 TTAAAAAATATATATTAAAAAT
* *
111498866 TTAAAAAAGA-ATATTTAAAAT
1 TTAAAAAATATATATTAAAAAT
*
111498887 TTAAAAAATAT-T-TAAAATAAT
1 TTAAAAAATATATATTAAA-AAT
* * * * *
111498908 ATATAAAATTTAGA-AAAATAAT
1 TTAAAAAATATATATTAAA-AAT
*
111498930 TTAAAAAATATATATTCAAAAT
1 TTAAAAAATATATATTAAAAAT
111498952 TTAAAAAATATATATTATAAAAT
1 TTAAAAAATATATATTA-AAAAT
111498975 ATTTCAAATA
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.02
20 14 0.16
21 25 0.29
22 37 0.44
23 7 0.08
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAAAATATATATTAAAAAT
Found at i:111499032 original size:14 final size:14
Alignment explanation
Indices: 111499015--111499079 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
111499005 TTAATCATAA
111499015 AAAATAAATAAAAT
1 AAAATAAATAAAAT
111499029 AAAATAAATAAAGAT
1 AAAATAAATAAA-AT
* *
111499044 AAAAGACAA-AATAT
1 AAAATA-AATAAAAT
* *
111499058 AAAAAAAAGTAAAAA
1 AAAATAAA-TAAAAT
111499073 AAAATAA
1 AAAATAA
111499080 TTATACAGAG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.05
14 19 0.46
15 18 0.44
16 2 0.05
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:111501834 original size:16 final size:18
Alignment explanation
Indices: 111501803--111501835 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111501793 ATACTGGTAT
111501803 AAAAAATATGAGTATTTA
1 AAAAAATATGAGTATTTA
111501821 AAAAAAT-TGA-TATTT
1 AAAAAATATGAGTATTT
111501836 TTTAAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 3 0.20
18 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (18 bp):
AAAAAATATGAGTATTTA
Found at i:111502330 original size:56 final size:55
Alignment explanation
Indices: 111502268--111502374 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 55
111502258 TATCAAATAC
* * *
111502268 GAAAATCAATGTTAAGAACAGTGTAGTCAAGTTCTTGAAGAGACAATAATTGCTGA
1 GAAAATCAATGTTAAGAACAGTGTAGTCAAATTCTTG-AGAAACAACAATTGCTGA
111502324 GAAAATCAATGTTAAGAACAGTGTAGTCAAATTCTTGAGAAACAACAATTG
1 GAAAATCAATGTTAAGAACAGTGTAGTCAAATTCTTGAGAAACAACAATTG
111502375 GTGGCAATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 12 0.25
56 36 0.75
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (55 bp):
GAAAATCAATGTTAAGAACAGTGTAGTCAAATTCTTGAGAAACAACAATTGCTGA
Found at i:111504897 original size:16 final size:16
Alignment explanation
Indices: 111504876--111504925 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
111504866 TGTGAGCTTG
111504876 AAATATTTGATATATA
1 AAATATTTGATATATA
111504892 AAATATTT-A-ATACT-
1 AAATATTTGATATA-TA
*
111504906 AAATATATAGATATATA
1 AAATAT-TTGATATATA
111504923 AAA
1 AAA
111504926 AAGAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
14 9 0.32
15 3 0.11
16 10 0.36
17 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (16 bp):
AAATATTTGATATATA
Found at i:111506161 original size:2 final size:2
Alignment explanation
Indices: 111506150--111506184 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
111506140 TAGATAATTT
111506150 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111506185 TTTGAAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:111511278 original size:11 final size:11
Alignment explanation
Indices: 111511263--111511300 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
111511253 TCACAAAACG
*
111511263 AAATTTCTGGG
1 AAATTTCTGGA
111511274 AAATTTCTGGA
1 AAATTTCTGGA
111511285 AAATTTCTGGA
1 AAATTTCTGGA
111511296 AAATT
1 AAATT
111511301 AGTTCCTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (11 bp):
AAATTTCTGGA
Found at i:111511973 original size:12 final size:13
Alignment explanation
Indices: 111511951--111511979 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
111511941 TTGTTAGTAA
111511951 AAATAAAATAAAT
1 AAATAAAATAAAT
111511964 AAAT-AAATAAAT
1 AAATAAAATAAAT
111511976 AAAT
1 AAAT
111511980 TTTGAATCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:111517366 original size:2 final size:2
Alignment explanation
Indices: 111517359--111517400 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
111517349 ACAATGGATA
111517359 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111517401 GATAAAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111520861 original size:24 final size:24
Alignment explanation
Indices: 111520604--111520846 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
111520594 GAATGTGACT
* *
111520604 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
111520628 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520652 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520676 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111520700 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111520724 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520748 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111520772 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520796 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520820 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111520844 ATA
1 ATA
111520847 TGTCTTTGCA
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:111528590 original size:24 final size:24
Alignment explanation
Indices: 111528560--111528802 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
111528550 GAATGTGACT
* *
111528560 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
111528584 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528608 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528632 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111528656 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111528680 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528704 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
111528728 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528752 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528776 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
111528800 ATA
1 ATA
111528803 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:111533669 original size:12 final size:12
Alignment explanation
Indices: 111533654--111533683 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
111533644 GTACTACCTT
111533654 GGCCTCGACCAC
1 GGCCTCGACCAC
111533666 GGCCTCGACCAC
1 GGCCTCGACCAC
111533678 GGCCTC
1 GGCCTC
111533684 TTCCCCGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.50, G:0.27, T:0.10
Consensus pattern (12 bp):
GGCCTCGACCAC
Found at i:111536908 original size:26 final size:26
Alignment explanation
Indices: 111536872--111537006 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
111536862 CATGAAATTC
111536872 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
111536898 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
111536924 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
111536950 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
111536976 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
111537001 TTATCA
1 TTATCA
111537007 ATTTGTATCA
Statistics
Matches: 100, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 21 0.21
26 79 0.79
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:111537606 original size:24 final size:24
Alignment explanation
Indices: 111537579--111537646 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
111537569 ATTATTATTG
*
111537579 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
111537603 AAATATTATTC-TCCGTTTTATCAC
1 AAATATTA-TCGTCCGTTTTATCAC
*
111537627 AAATATTATCGTCTGTTTTA
1 AAATATTATCGTCCGTTTTA
111537647 CCGTTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:111537785 original size:9 final size:9
Alignment explanation
Indices: 111537773--111538016 Score: 161
Period size: 9 Copynumber: 26.6 Consensus size: 9
111537763 TATTTGATAT
*
111537773 CATAATTTA
1 CATAACTTA
111537782 CATAACTTA
1 CATAACTTA
* *
111537791 TATAACATA
1 CATAACTTA
*
111537800 TATAACTTA
1 CATAACTTA
111537809 CATAACTTA
1 CATAACTTA
* *
111537818 TATAACATA
1 CATAACTTA
111537827 CATAACTTA
1 CATAACTTA
* *
111537836 TATAACATA
1 CATAACTTA
111537845 CATAACTTA
1 CATAACTTA
*
111537854 TATAACTTA
1 CATAACTTA
*
111537863 TATAACTTA
1 CATAACTTA
* *
111537872 GATAA-ATA
1 CATAACTTA
*
111537880 TATAACTTA
1 CATAACTTA
111537889 CATAACTTA
1 CATAACTTA
111537898 CATAATACTTA
1 CAT-A-ACTTA
* *
111537909 AATATATTTTATA
1 CATA-A--CT-TA
*
111537922 TCATAATTTA
1 -CATAACTTA
111537932 CATAACTTA
1 CATAACTTA
111537941 CATAACTTA
1 CATAACTTA
*
111537950 TATAACTTA
1 CATAACTTA
* *
111537959 GATAA-ATA
1 CATAACTTA
* *
111537967 TATAATTTA
1 CATAACTTA
*
111537976 CATAA-ATA
1 CATAACTTA
* * *
111537984 TATATCATA
1 CATAACTTA
*
111537993 TCATAAATTA
1 -CATAACTTA
111538003 CATAACTTA
1 CATAACTTA
111538012 CATAA
1 CATAA
111538017 TACTTAAATA
Statistics
Matches: 188, Mismatches: 37, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
8 17 0.09
9 144 0.77
10 11 0.06
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:111537795 original size:18 final size:18
Alignment explanation
Indices: 111537773--111538016 Score: 188
Period size: 18 Copynumber: 13.3 Consensus size: 18
111537763 TATTTGATAT
* *
111537773 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
111537791 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
111537809 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
*
111537827 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
111537845 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
111537863 TATAACTTAGATAA-ATA
1 CATAACTTATATAACTTA
* *
111537880 TATAACTTACATAACTTA
1 CATAACTTATATAACTTA
**
111537898 CATAATACTTAAATATATTTTATA
1 CAT-A-ACTT--ATATA-ACT-TA
* *
111537922 TCATAATTTACATAACTTA
1 -CATAACTTATATAACTTA
111537941 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
111537959 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
111537976 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
111537993 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
111538012 CATAA
1 CATAA
111538017 TACTTAAATA
Statistics
Matches: 182, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
17 38 0.21
18 110 0.60
19 11 0.06
20 5 0.03
21 4 0.02
22 4 0.02
23 4 0.02
24 3 0.02
25 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:111537804 original size:27 final size:27
Alignment explanation
Indices: 111537769--111538016 Score: 196
Period size: 27 Copynumber: 9.0 Consensus size: 27
111537759 AATATATTTG
* *
111537769 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAACTTACATAAC
*
111537797 ATATATAACTTACATAACTTATATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
111537824 ATACATAACTTATATAACATACATAAC
1 ATATATAACTTACATAACTTACATAAC
* * *
111537851 TTATATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTACATAAC
111537877 ATATATAACTTACATAACTTACATAATAC
1 ATATATAACTTACATAACTTACAT-A-AC
* ** *
111537906 TTAAATATATTTTATATCATAATTTACATAAC
1 --ATATATA-ACT-TA-CATAACTTACATAAC
* * * *
111537938 TTACATAACTTATATAACTTAGATAA-
1 ATATATAACTTACATAACTTACATAAC
* * * *
111537964 ATATATAATTTACATAA-ATATATATC
1 ATATATAACTTACATAACTTACATAAC
*
111537990 ATATCATAAATTACATAACTTACATAA
1 ATAT-ATAACTTACATAACTTACATAA
111538017 TACTTAAATA
Statistics
Matches: 174, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
25 5 0.03
26 38 0.22
27 91 0.52
28 12 0.07
29 1 0.01
30 4 0.02
31 6 0.03
32 3 0.02
33 3 0.02
34 11 0.06
ACGTcount: A:0.48, C:0.13, G:0.01, T:0.38
Consensus pattern (27 bp):
ATATATAACTTACATAACTTACATAAC
Found at i:111543233 original size:13 final size:13
Alignment explanation
Indices: 111543217--111543258 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
111543207 CTTTAATTAT
111543217 AATTGTTTAATTC
1 AATTGTTTAATTC
*
111543230 AATTATTT-ATTC
1 AATTGTTTAATTC
*
111543242 AATTGTTTAAATC
1 AATTGTTTAATTC
111543255 AATT
1 AATT
111543259 ATAATTAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.52
Consensus pattern (13 bp):
AATTGTTTAATTC
Found at i:111543643 original size:21 final size:21
Alignment explanation
Indices: 111543587--111543644 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
111543577 ACAACTTAGA
* *
111543587 GCAGAGGCA-GCAGAGAGGGAG
1 GCAGAGGCACG-AGCGAGAGAG
*
111543608 GCAGCGGCTAC-AGCGAGAGAG
1 GCAGAGGC-ACGAGCGAGAGAG
111543629 GCAGAGGCACGAGCGA
1 GCAGAGGCACGAGCGA
111543645 TGGTAGCAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.47, T:0.02
Consensus pattern (21 bp):
GCAGAGGCACGAGCGAGAGAG
Found at i:111543938 original size:31 final size:31
Alignment explanation
Indices: 111543892--111543958 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
111543882 TGGTTGTATT
* *
111543892 TTTTATGTTAAATTTGCTGTTTTTGGATGCA
1 TTTTATATTAAATTTGCTGTATTTGGATGCA
* * * *
111543923 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGATGCA
111543954 TTTTA
1 TTTTA
111543959 ATGCAGGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.19, C:0.03, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGATGCA
Found at i:111544188 original size:44 final size:43
Alignment explanation
Indices: 111544027--111544327 Score: 507
Period size: 44 Copynumber: 6.9 Consensus size: 43
111544017 GCGTTTGTAA
* *
111544027 ACAAAGCGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTCT-CC
1 ACAAA-CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
111544070 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
* *
111544113 ACAAATGTCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
111544156 ACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTT-CC
1 ACAAACGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
111544199 ATCAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 A-CAAACGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
111544244 ACAAACGCCGCTAAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCT-AAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
111544288 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
1 ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
111544328 TTCCAATAAA
Statistics
Matches: 248, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
42 33 0.13
43 89 0.36
44 123 0.50
45 3 0.01
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCC
Found at i:111546297 original size:25 final size:25
Alignment explanation
Indices: 111546263--111546312 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
111546253 GAATCAATCG
111546263 GCTTCCTTGGAGTAATTCCATACTC
1 GCTTCCTTGGAGTAATTCCATACTC
*
111546288 GCTTCCTTGGAGTAATTCCTTACTC
1 GCTTCCTTGGAGTAATTCCATACTC
111546313 CCTATTCTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.28, G:0.16, T:0.38
Consensus pattern (25 bp):
GCTTCCTTGGAGTAATTCCATACTC
Found at i:111546457 original size:15 final size:13
Alignment explanation
Indices: 111546428--111546454 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
111546418 GCTCGGCAGG
111546428 GACACGCCCGTGT
1 GACACGCCCGTGT
111546441 GACACGCCCGTGT
1 GACACGCCCGTGT
111546454 G
1 G
111546455 TGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:111555521 original size:33 final size:32
Alignment explanation
Indices: 111555484--111555562 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
111555474 TGTAGCTTGA
*
111555484 CCGTATGGGCCCACACGCCCAGATTGGCCTTAC
1 CCGTAT-GGCCCACACGCCCAGATTAGCCTTAC
* * *
111555517 CCGTATGGCCCATATGCCCGGATTAGCCTTAC
1 CCGTATGGCCCACACGCCCAGATTAGCCTTAC
** *
111555549 TTGTGTGGCCCACA
1 CCGTATGGCCCACA
111555563 TGACCTGGCC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
32 32 0.84
33 6 0.16
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.23
Consensus pattern (32 bp):
CCGTATGGCCCACACGCCCAGATTAGCCTTAC
Found at i:111555546 original size:32 final size:33
Alignment explanation
Indices: 111555484--111555548 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
111555474 TGTAGCTTGA
*
111555484 CCGTATGGGCCCACACGCCCAGATTGGCCTTAC
1 CCGTATGGGCCCACACGCCCAGATTAGCCTTAC
* * *
111555517 CCGTAT-GGCCCATATGCCCGGATTAGCCTTAC
1 CCGTATGGGCCCACACGCCCAGATTAGCCTTAC
111555549 TTGTGTGGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.18, C:0.37, G:0.23, T:0.22
Consensus pattern (33 bp):
CCGTATGGGCCCACACGCCCAGATTAGCCTTAC
Found at i:111564329 original size:24 final size:24
Alignment explanation
Indices: 111564297--111564344 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
111564287 CTAGATCAAT
* * *
111564297 CAAAGTTTAAGTGAGAAATTAAAA
1 CAAAATTTAACTGAGAAAATAAAA
111564321 CAAAATTTAACTGAGAAAATAAAA
1 CAAAATTTAACTGAGAAAATAAAA
111564345 TTGAGAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.23
Consensus pattern (24 bp):
CAAAATTTAACTGAGAAAATAAAA
Found at i:111569486 original size:24 final size:24
Alignment explanation
Indices: 111569471--111569522 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111569461 AATTAAATTC
111569471 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
111569495 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
111569519 AAAT
1 AAAT
111569523 CTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:111572538 original size:20 final size:18
Alignment explanation
Indices: 111572513--111572549 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
111572503 ATTGCTAAGT
111572513 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
111572533 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
111572550 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:111573158 original size:46 final size:46
Alignment explanation
Indices: 111573107--111573234 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
111573097 GGTTGAGCAT
***
111573107 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCC
* *
111573153 TCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACCC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCC
* *
111573199 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111573235 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACCC
Found at i:111577327 original size:24 final size:24
Alignment explanation
Indices: 111577300--111577349 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
111577290 AAAAAATCTA
*
111577300 ATTCTAATCAAAGTTAAATATATT
1 ATTCTAATCAAAGCTAAATATATT
* *
111577324 ATTCTAATGAATGCTAAATATATT
1 ATTCTAATCAAAGCTAAATATATT
111577348 AT
1 AT
111577350 ACTCATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTCTAATCAAAGCTAAATATATT
Found at i:111579922 original size:24 final size:26
Alignment explanation
Indices: 111579893--111579940 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
111579883 AATAAATAAT
*
111579893 TAAAAA-CTT-TAAAATAAAAACATA
1 TAAAAATCTTGTAAAAAAAAAACATA
*
111579917 TAAAAATTTTGTAAAAAAAAAACA
1 TAAAAATCTTGTAAAAAAAAAACA
111579941 CAAGCATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 2 0.10
26 12 0.60
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (26 bp):
TAAAAATCTTGTAAAAAAAAAACATA
Found at i:111583089 original size:131 final size:130
Alignment explanation
Indices: 111582743--111583134 Score: 511
Period size: 132 Copynumber: 3.0 Consensus size: 130
111582733 TAATTATTCA
* ** *
111582743 TTTAAAAACTCTTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTCGTGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * *
111582808 GTGTTAGGTTGCAATTTCTCATTTGTTCAAAATAATCGAAAATTCTTTTAGAATTTCACTCATGT
66 GTGCT-GGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGC
*
111582873 T
130 C
* * *
111582874 TTCTAAAAACTT-TTTAAAACGAAGGAAATTTTCGATGTTTTGCAA-TCCGGGAAGTCGTGCCCT
1 TT-TAAAAA-TTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAA-TCGTGCCCT
*
111582937 ATCGTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCA
63 ATCGTGCT-GGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCA
111583002 TGCC
127 TGCC
* * *
111583006 TTTAAAAATTCTTCAAAATGAAGGTAATG-TCTGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 TTTAAAAATTCTTTAAAACGAAGGAAATGTTC-GATGTTTGGCAATTCGGGGAATCGTGCCCTAT
** *
111583070 CGTGCTGCGTTGTGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG
65 CGTGCTG-GTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG
111583135 TTCTCTAAAT
Statistics
Matches: 228, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
130 5 0.02
131 109 0.48
132 113 0.50
133 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGCC
Found at i:111584663 original size:92 final size:92
Alignment explanation
Indices: 111584506--111584689 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
111584496 ATTGCGAGGA
111584506 TAGTAATTCGTGGCCTGGATCAAGCAAAAAGGAGCTAGTAAAGGCATGTATTGGAAGCTTGCGAG
1 TAGTAATTCGTGGCCTGGATCAAGCAAAAAGGAGCTAGTAAAGGCATGTATTGGAAGCTTGCGAG
111584571 ATTTGACTTTCACGAAGAAAGGGGATC
66 ATTTGACTTTCACGAAGAAAGGGGATC
* * *
111584598 TAGTAATTCGTGGCTTGGATCAAGTAAAAAGGAGCTAGTAGAGGCATGTATTGGAAGCTTGCGAG
1 TAGTAATTCGTGGCCTGGATCAAGCAAAAAGGAGCTAGTAAAGGCATGTATTGGAAGCTTGCGAG
111584663 ATTTGACTTTCACGAAGAAAGGGGATC
66 ATTTGACTTTCACGAAGAAAGGGGATC
111584690 AATGCCTTCG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (92 bp):
TAGTAATTCGTGGCCTGGATCAAGCAAAAAGGAGCTAGTAAAGGCATGTATTGGAAGCTTGCGAG
ATTTGACTTTCACGAAGAAAGGGGATC
Found at i:111587444 original size:16 final size:16
Alignment explanation
Indices: 111587425--111587469 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
111587415 CCTTCAAAAA
*
111587425 AAAAGAAAGAAAGAGG
1 AAAAGAAAGAAAGAAG
111587441 AAAAGGAAA-AAAGAAG
1 AAAA-GAAAGAAAGAAG
111587457 AAAAGAAAAGAAA
1 AAAAG-AAAGAAA
111587470 ATGAGAGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 1 0.04
16 17 0.68
17 7 0.28
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAGAAG
Found at i:111587450 original size:24 final size:20
Alignment explanation
Indices: 111587423--111587470 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 20
111587413 GACCTTCAAA
111587423 AAAAAAGAAAGAAAGAGGAAAAGG
1 AAAAAAG-AAGAAA-A-GAAAA-G
111587447 AAAAAAGAAGAAAAGAAAAG
1 AAAAAAGAAGAAAAGAAAAG
111587467 AAAA
1 AAAA
111587471 TGAGAGGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.21
21 5 0.21
22 1 0.04
23 6 0.25
24 7 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAGAAAAGAAAAG
Found at i:111587835 original size:52 final size:53
Alignment explanation
Indices: 111587747--111587881 Score: 236
Period size: 52 Copynumber: 2.6 Consensus size: 53
111587737 TCTTACCCAC
* *
111587747 ATTGAATTTACTATCTTTGATTAACTTATTCATGTTGAGTTAATTGCCTTCTT
1 ATTGCATTTGCTATCTTTGATTAACTTATTCATGTTGAGTTAATTGCCTTCTT
111587800 ATTGCA-TTGCTATCTTTGATTAACTTATTCATGTTGAGTTAATTGCCTTCTT
1 ATTGCATTTGCTATCTTTGATTAACTTATTCATGTTGAGTTAATTGCCTTCTT
*
111587852 ATTGCATTTGCAATCTTTGATTAACTTATT
1 ATTGCATTTGCTATCTTTGATTAACTTATT
111587882 TGTTTCGAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
52 51 0.65
53 27 0.35
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.50
Consensus pattern (53 bp):
ATTGCATTTGCTATCTTTGATTAACTTATTCATGTTGAGTTAATTGCCTTCTT
Found at i:111587852 original size:26 final size:26
Alignment explanation
Indices: 111587771--111587854 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
111587761 CTTTGATTAA
111587771 CTTATTCATGTTGAGTTAATTGCCTT
1 CTTATTCATGTTGAGTTAATTGCCTT
* *
111587797 CTTATTGCATTGCT-A-TCT--TTG-ATT
1 CTTATT-CA-TGTTGAGT-TAATTGCCTT
111587821 AACTTATTCATGTTGAGTTAATTGCCTT
1 --CTTATTCATGTTGAGTTAATTGCCTT
111587849 CTTATT
1 CTTATT
111587855 GCATTTGCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 20
0.65 0.06 0.29
Matches are distributed among these distances:
24 5 0.11
25 7 0.16
26 20 0.45
27 7 0.16
28 5 0.11
ACGTcount: A:0.20, C:0.15, G:0.13, T:0.51
Consensus pattern (26 bp):
CTTATTCATGTTGAGTTAATTGCCTT
Found at i:111588643 original size:64 final size:64
Alignment explanation
Indices: 111588566--111588693 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
111588556 TCATTCATAA
* * *
111588566 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTACTTAGGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
111588630 CACATCTACTTAGGAACTTTTGATTCATGTCGATCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTACTTAGGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
111588694 AGGCCTATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (64 bp):
CACATCTACTTAGGAACATTTGATTCATGTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:111588788 original size:45 final size:44
Alignment explanation
Indices: 111588727--111589187 Score: 149
Period size: 45 Copynumber: 10.4 Consensus size: 44
111588717 TGTTGCCCTG
* * *
111588727 AAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTAGTCTTCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACAGT-AATCTAGTCTTCCTA
** * * * *
111588772 AAGTTGCAGTGAAGCAGATTTAAGCCACT-GTCCTAG-CTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACAGTAAT-CTAGTCTTCCTA
* * * * * ** * *
111588815 AAGTTGTAGTGGAGTAG-GCTGAACATTGTAGATCTTGT-TTCCCTG
1 AAGTTGCAGTGAAGCAGATC-GAAGACAGTA-ATCTAGTCTT-CCTA
* * * * *
111588860 AAGTTACAGTGAAGCAGATTGAAGACGGCAAATCTAGTTTTCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACAG-TAATCTAGTCTTCCTA
** * * *
111588905 AAGTTGCAGTGAAGCAGATTTAAGCCACT-ATCCTAG-CTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACAGTAAT-CTAGTCTTCCTA
* * * * * ** * *
111588948 AAGTTGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGT-TTCCCTG
1 AAGTTGCAGTGAAGCAGATCGAAGACAGTA-ATCTAGTCTT-CCTA
* * * *
111588993 AAGCTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGTCTTCCTG
1 AAGTTGCAGTGAAGCAGATCGAAGACAG-TAATCTAGTCTTCCTA
* * ** * ** *
111589038 AAGTTGTAGTGAAGCAAATTTAAGCCA-CCATCCTAG-CTCCCTA
1 AAGTTGCAGTGAAGCAGATCGAAGACAGTAAT-CTAGTCTTCCTA
* * * ** * *
111589081 AAGTTGTAGT-AGAGTAG-GCTGAAGATTGTAGATCTTGTC--CCTG
1 AAGTTGCAGTGA-AGCAGATC-GAAGACAGTA-ATCTAGTCTTCCTA
* *
111589124 AAGTTGCAGTGGAGCAGATCGAAGAC-GTTGAATCTAGTCTTCCTG
1 AAGTTGCAGTGAAGCAGATCGAAGACAG-T-AATCTAGTCTTCCTA
*
111589169 AAGTTACAGTGAAGCAGAT
1 AAGTTGCAGTGAAGCAGAT
111589188 TTAAGCCACT
Statistics
Matches: 292, Mismatches: 96, Indels: 56
0.66 0.22 0.13
Matches are distributed among these distances:
42 2 0.01
43 103 0.35
44 25 0.09
45 156 0.53
46 6 0.02
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
AAGTTGCAGTGAAGCAGATCGAAGACAGTAATCTAGTCTTCCTA
Found at i:111588944 original size:133 final size:133
Alignment explanation
Indices: 111588701--111589412 Score: 1020
Period size: 133 Copynumber: 5.4 Consensus size: 133
111588691 CATAGGCCTA
* *
111588701 TGAAGATTGTAGATCTTGTTGCCCTGAAGTTGTAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
*
111588766 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTGTCCTAGCTCCCTAAAGTTGTAGTGGAGTA
66 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
111588831 GGC
131 GGC
* * * * ** *
111588834 TGAACATTGTAGATCTTGTTTCCCTGAAGTTACAGTGAAGCAGATTGAAGACGGCAAATCTAGTT
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
111588899 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
66 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
*
111588964 GGT
131 GGC
* * *
111588967 TGAAGATTGTAGATCTTGTTTCCCTGAAGCTGCAGTGGAGCAGATCGAAGACAGCGAATCTAGTC
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
* * * * *
111589032 TTCCTGAAGTTGTAGTGAAGCAAATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAGTAGAGTA
66 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
111589097 GGC
131 GGC
*
111589100 TGAAGATTGTAGATCTTG--TCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGTTGAATCTAGTC
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
* * *
111589163 TTCCTGAAGTTACAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAATTGTAGTGGAGTA
66 TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
111589228 GGC
131 GGC
* * * *
111589231 TGAAGATTGTAGATCTTG--TCCCTGAAGTTACAGTGGAGCAAATCAAATACGGTGAATCTTA-T
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATC-TAGT
* * ** * *
111589293 CTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCGCCATCCTATATCCCTAAAGTTGCAGCGGAGT
65 CTTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGT
111589358 AGGC
130 AGGC
** * * ** *
111589362 TGAAGATTACAGATCTTGTCTCCCTAAAGTTGCAACGGAGCAAATCGAAGA
1 TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGA
111589413 AGTGAGCCTT
Statistics
Matches: 519, Mismatches: 57, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
131 233 0.45
132 2 0.00
133 284 0.55
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (133 bp):
TGAAGATTGTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTAGTC
TTCCTAAAGTTGCAGTGAAGCAGATTTAAGCCACTATCCTAGCTCCCTAAAGTTGTAGTGGAGTA
GGC
Found at i:111589452 original size:88 final size:90
Alignment explanation
Indices: 111589360--111589561 Score: 268
Period size: 88 Copynumber: 2.3 Consensus size: 90
111589350 AGCGGAGTAG
* * * **
111589360 GCTGAAGATTACAGATCTTGTCTCCCTAAAGTTGCAACGGAGCAAATCGAAG-AAGTGAGCCTTA
1 GCTGAAGATTGCAGATCTTGTCTCCCTAAAGCTGCAACGGAACAAATCGAAGAAAGCAAGCCTTA
111589424 A-ACCCC-TAAGTAGTAGGGTAACAA
66 ACACCCCTTAA-TAGTAGGGTAACAA
* * * *
111589448 GCTGAAGATGGCAGATCTTGTCTCCCTGAAGCTGCAGCGGAACAGATCGAAGAAAGCAAGCCTTA
1 GCTGAAGATTGCAGATCTTGTCTCCCTAAAGCTGCAACGGAACAAATCGAAGAAAGCAAGCCTTA
*
111589513 ACACCCCTTAATAGTAGGGTAACAG
66 ACACCCCTTAATAGTAGGGTAACAA
111589538 GCTGAAGATTGCA-ATCCTTGTCTC
1 GCTGAAGATTGCAGAT-CTTGTCTC
111589562 TTTGAAGTTA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
88 45 0.45
89 13 0.13
90 38 0.38
91 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (90 bp):
GCTGAAGATTGCAGATCTTGTCTCCCTAAAGCTGCAACGGAACAAATCGAAGAAAGCAAGCCTTA
ACACCCCTTAATAGTAGGGTAACAA
Found at i:111589584 original size:90 final size:88
Alignment explanation
Indices: 111589360--111589584 Score: 229
Period size: 90 Copynumber: 2.5 Consensus size: 88
111589350 AGCGGAGTAG
** * * * * * * **
111589360 GCTGAAGATTACAGATCTTGTCTCCCTAAAGTTGCAACGGAGCAAATCGAAGAAGTGAGCCTTAA
1 GCTGAAGATGGCAGATCTTGTCTCCCTGAAGCTACAGCAGAGCAGATCGAAGAAGCAAGCCTTAA
111589425 ACCCCTAAGTAGTAGGGTAACAA
66 ACCCCTAAGTAGTAGGGTAACAA
* * *
111589448 GCTGAAGATGGCAGATCTTGTCTCCCTGAAGCTGCAGCGGAACAGATCGAAGAAAGCAAGCCTTA
1 GCTGAAGATGGCAGATCTTGTCTCCCTGAAGCTACAGCAGAGCAGATCGAAG-AAGCAAGCCTTA
*
111589513 ACACCCCTTAA-TAGTAGGGTAACAG
65 A-ACCCC-TAAGTAGTAGGGTAACAA
* ** * *
111589538 GCTGAAGATTGCA-ATCCTTGTCTCTTTGAAGTTACAGTAGAGCAGAT
1 GCTGAAGATGGCAGAT-CTTGTCTCCCTGAAGCTACAGCAGAGCAGAT
111589585 TAAAAGCTAC
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
88 45 0.39
89 13 0.11
90 54 0.47
91 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (88 bp):
GCTGAAGATGGCAGATCTTGTCTCCCTGAAGCTACAGCAGAGCAGATCGAAGAAGCAAGCCTTAA
ACCCCTAAGTAGTAGGGTAACAA
Found at i:111592450 original size:132 final size:132
Alignment explanation
Indices: 111592213--111592611 Score: 602
Period size: 132 Copynumber: 3.0 Consensus size: 132
111592203 ATTATTCATT
** * *
111592213 TAAAAACTCTTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTCGCGGAATCGTGCCCTTTCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
*
111592278 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
111592343 TC
131 TC
* * *
111592345 TAAAAACTCTTTAAAACGAAGGAAATGTTCAATGTTTGGCAATCCGGGGAGTCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* **
111592410 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGCCT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
111592475 T-
131 TC
* * * * *
111592476 TAAAAATTCTTCAAAATGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* ** * *
111592541 GCTGCGTTGTGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTC
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
111592606 TC
131 TC
111592608 TAAA
1 TAAA
111592612 TTCTAAAATA
Statistics
Matches: 239, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
131 115 0.48
132 124 0.52
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (132 bp):
TAAAAACTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
TC
Found at i:111592557 original size:131 final size:130
Alignment explanation
Indices: 111592213--111592675 Score: 585
Period size: 132 Copynumber: 3.6 Consensus size: 130
111592203 ATTATTCATT
** * * *
111592213 TAAAAACTCTTTAAAACGAAGGCGATGTTCGATGTTTGGCAATTCGCGGAATCGTGCCCTTTCGT
1 TAAAAACTCTTTAAAACGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
*
111592278 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG--T
111592343 TC
129 TC
* * * * *
111592345 TAAAAACTCTTTAAAACGAAGGAAATGTTCAATGTTTGGCAATCCGGGGAGTCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
*
111592410 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATCCCTTTAGAATTTCACTCATGCCT
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATG--T
111592475 T-
129 TC
* * *
111592476 TAAAAATTCTTCAAAATGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
* ** *
111592541 GCTGCGTTGTGATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTC
66 GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTC
** * * * * * * * *
111592606 TCTAAA-T-TCTAAAA-TAAGCTAATGTCCGATGTCTAGAAATTCGAGGAGTCGTGCCCTA-CTG
1 TAAAAACTCTTTAAAACGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC-G
111592667 TGCTGGGTT
65 TGCTGGGTT
111592676 TCGATTTTCT
Statistics
Matches: 293, Mismatches: 36, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
126 1 0.00
127 46 0.16
128 5 0.02
129 3 0.01
130 4 0.01
131 114 0.39
132 120 0.41
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (130 bp):
TAAAAACTCTTTAAAACGAAGGTAATGTCCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTC
Found at i:111593286 original size:16 final size:15
Alignment explanation
Indices: 111593239--111593295 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
111593229 TAGTTTCATG
**
111593239 TTCTTTCTTTTCTCC
1 TTCTTTCTTTTCTTT
**
111593254 TTCTCCCTTTTCTTT
1 TTCTTTCTTTTCTTT
111593269 TT-TGTTCTTTTCCTTT
1 TTCT-TTCTTTT-CTTT
111593285 TTCTTTCTTTT
1 TTCTTTCTTTT
111593296 ACATCTTGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
14 1 0.03
15 18 0.55
16 13 0.39
17 1 0.03
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.72
Consensus pattern (15 bp):
TTCTTTCTTTTCTTT
Found at i:111597664 original size:26 final size:26
Alignment explanation
Indices: 111597628--111597789 Score: 227
Period size: 26 Copynumber: 6.2 Consensus size: 26
111597618 CATGAAATTC
111597628 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
*
111597654 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
111597680 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* * **
111597706 TTATCATTAAGCATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCTA
* *
111597732 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
111597758 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
111597784 TTATCA
1 TTATCA
111597790 ATTTGTATCA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 119 0.99
27 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:111597761 original size:78 final size:78
Alignment explanation
Indices: 111597628--111597789 Score: 261
Period size: 78 Copynumber: 2.1 Consensus size: 78
111597618 CATGAAATTC
*
111597628 TTATCATGAAACATTTACCTAACTCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
111597693 TTTACCTAACCTA
66 TTTACCTAACCTA
* * * * * *
111597706 TTATCATTAAGCATTTACCTAACCCGTTATCATGGAATATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
111597771 TTTACCTAACCTA
66 TTTACCTAACCTA
111597784 TTATCA
1 TTATCA
111597790 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:111600084 original size:42 final size:43
Alignment explanation
Indices: 111599922--111600103 Score: 235
Period size: 43 Copynumber: 4.3 Consensus size: 43
111599912 AGGTCATATT
* * * *
111599922 TTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAA--ACGTGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* *
111599963 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTACAGGTCATGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* * *
111600006 TTTAGCAGCGTTTGTGGGAAAAGCGCCGTTACAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* **
111600049 TTTAGCGGCGTTTGTGGG-AAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
111600091 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
111600104 TTTTCTAAAA
Statistics
Matches: 124, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 30 0.24
42 32 0.26
43 62 0.50
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
Found at i:111600102 original size:85 final size:84
Alignment explanation
Indices: 111599910--111600103 Score: 241
Period size: 85 Copynumber: 2.3 Consensus size: 84
111599900 TAATTTTTTA
* * *
111599910 AAAGGTCAT-ATTTTTAGCGGCGTTTTTAGGAAAAGCGCCGCTAAAACGTGACCTTTAGCGGCGT
1 AAAGGTCATGACTTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAACATGACCTTTAGCGGCGT
111599974 TTGTGGGAAAAGCGCCGCT
66 TTGTGGGAAAAGCGCCGCT
* * * * **
111599993 ACAGGTCATGACTTTTAGCAGCGTTTGTGGGAAAAGCGCCGTTACAGGTCATGACCTTTAGCGGC
1 AAAGGTCATGACTTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTA-A-AACATGACCTTTAGCGGC
111600058 GTTTGTGGG-AAAGCGCCGCT
64 GTTTGTGGGAAAAGCGCCGCT
* *
111600078 AAAGGTCCTG-GTCTTTAGCGGCGTTT
1 AAAGGTCATGACT-TTTAGCGGCGTTT
111600104 TTTTCTAAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
83 8 0.09
84 30 0.32
85 32 0.34
86 24 0.26
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.27
Consensus pattern (84 bp):
AAAGGTCATGACTTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAACATGACCTTTAGCGGCGT
TTGTGGGAAAAGCGCCGCT
Done.