Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 181 of 226
Found at i:55071320 original size:33 final size:33
Alignment explanation
Indices: 55071264--55071361 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
55071254 ATTGATAGAT
*
55071264 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
55071296 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
55071329 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
55071362 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:55078735 original size:41 final size:41
Alignment explanation
Indices: 55078528--55078724 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
55078518 TTTATCGTTA
* * * *
55078528 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
55078569 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
55078610 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
55078651 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
55078692 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
55078725 AAGAGCCGGT
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 143 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:55078995 original size:33 final size:33
Alignment explanation
Indices: 55078939--55079036 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
55078929 ATAGATATGT
*
55078939 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
55078971 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
55079004 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
55079037 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:55082826 original size:46 final size:46
Alignment explanation
Indices: 55082755--55082905 Score: 243
Period size: 46 Copynumber: 3.3 Consensus size: 46
55082745 TATGATCACG
*
55082755 TATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTACCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
* *
55082799 TATCACTTTGTCACTTGATTAGATAAGTGTAGCTAAGACTACCACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
* *
55082845 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAACACT
1 TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
55082891 TATCACTTTGTCACT
1 TATCACTTTGTCACT
55082906 AATCAGAAGT
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
44 6 0.06
45 5 0.05
46 87 0.89
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (46 bp):
TATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTACCACT
Found at i:55090996 original size:22 final size:21
Alignment explanation
Indices: 55090955--55090996 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
55090945 TTCCCAAATA
* *
55090955 TTATTTATTTAATCAACTAAT
1 TTATTTATTAAACCAACTAAT
55090976 TTATTTAATTAAACCAACTAA
1 TTATTT-ATTAAACCAACTAA
55090997 ATTAATTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (21 bp):
TTATTTATTAAACCAACTAAT
Found at i:55097322 original size:26 final size:26
Alignment explanation
Indices: 55097291--55097341 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
55097281 GATAATTAAG
*
55097291 TGGTATTAAAACTATTTCTATATTAT
1 TGGTATTAAAACTACTTCTATATTAT
* * *
55097317 TGGTATTGAAATTACTTCTTTATTA
1 TGGTATTAAAACTACTTCTATATTA
55097342 CCGAATCTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (26 bp):
TGGTATTAAAACTACTTCTATATTAT
Found at i:55100186 original size:33 final size:33
Alignment explanation
Indices: 55100144--55100210 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
55100134 GAAAGTAAGA
55100144 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
1 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
55100177 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
1 GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
55100210 G
1 G
55100211 GCAGAGATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.24, G:0.28, T:0.36
Consensus pattern (33 bp):
GAGGTTGATCTTTATTCGTGCCTTGGCATCGCC
Found at i:55101672 original size:29 final size:29
Alignment explanation
Indices: 55101632--55101690 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
55101622 GAATAAAAAC
*
55101632 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
55101661 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
55101690 T
1 T
55101691 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:55104501 original size:44 final size:38
Alignment explanation
Indices: 55104416--55104491 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
55104406 TGTAATGTGT
55104416 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
1 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
55104454 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
1 ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
55104492 GTTGACACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.21
Consensus pattern (38 bp):
ACCATTGAAGAGTTAAATCCTAATAAATAAAAAAGGAC
Found at i:55109222 original size:24 final size:23
Alignment explanation
Indices: 55109143--55109219 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 23
55109133 ATTATTATTA
*
55109143 CTATTATAAC-TATTTATATATAT
1 CTATTATATCTTA-TTATATATAT
55109166 CT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
*
55109188 AT-TTATATCTTATTATATATAT
1 CTATTATATCTTATTATATATAT
55109210 CTA-TATATCT
1 CTATTATATCT
55109220 CTTTATAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
22 45 0.92
23 4 0.08
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (23 bp):
CTATTATATCTTATTATATATAT
Found at i:55109226 original size:10 final size:10
Alignment explanation
Indices: 55109153--55109217 Score: 51
Period size: 10 Copynumber: 6.1 Consensus size: 10
55109143 CTATTATAAC
55109153 TATTTATATA
1 TATTTATATA
*
55109163 TATCTTTATATCT
1 TA--TTTATAT-A
55109176 TATTATATATA
1 TATT-TATATA
*
55109187 TATTTATATC
1 TATTTATATA
55109197 T-TATTATATA
1 TAT-TTATATA
*
55109207 TATCTATATA
1 TATTTATATA
55109217 T
1 T
55109218 CTCTTTATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 1 0.02
10 22 0.50
11 7 0.16
12 12 0.27
13 2 0.05
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTATATA
Found at i:55109226 original size:22 final size:22
Alignment explanation
Indices: 55109156--55109219 Score: 110
Period size: 22 Copynumber: 2.9 Consensus size: 22
55109146 TTATAACTAT
55109156 TTATATATATCTTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
55109178 TTATATATATATTTATATCTTA
1 TTATATATATCTTTATATCTTA
*
55109200 TTATATATATCTATATATCT
1 TTATATATATCTTTATATCT
55109220 CTTTATAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATATATATCTTTATATCTTA
Found at i:55109417 original size:30 final size:30
Alignment explanation
Indices: 55109360--55109415 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
55109350 TTATATATAT
*
55109360 ATATACATACTTACATTGTTTTATTTTACA
1 ATATACATACTTACATTCTTTTATTTTACA
*
55109390 ATATACATACTTATA-TCTTTTATTTT
1 ATATACATACTTACATTCTTTTATTTT
55109416 TATGTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (30 bp):
ATATACATACTTACATTCTTTTATTTTACA
Found at i:55111408 original size:19 final size:19
Alignment explanation
Indices: 55111384--55111429 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
55111374 TCTATTTCTT
55111384 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
*
55111403 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
*
55111422 TATGCATT
1 TTTGCATT
55111430 AGATTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:55114303 original size:14 final size:14
Alignment explanation
Indices: 55114286--55114365 Score: 55
Period size: 14 Copynumber: 6.0 Consensus size: 14
55114276 AAAAATGTTT
55114286 AAAAAAAGAGAGAG
1 AAAAAAAGAGAGAG
55114300 AAAAAAA-AGA-AG
1 AAAAAAAGAGAGAG
* *
55114312 -GAAAAAGAAAGA-
1 AAAAAAAGAGAGAG
55114324 AAAATAAAGA-AGAAG
1 AAAA-AAAGAGAG-AG
* * *
55114339 AAGAAAAGAAAAAG
1 AAAAAAAGAGAGAG
55114353 AAAAAAA-AGAGAG
1 AAAAAAAGAGAGAG
55114366 GCCAATGTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 15
0.69 0.11 0.20
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 12 0.24
14 26 0.51
15 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (14 bp):
AAAAAAAGAGAGAG
Found at i:55114306 original size:15 final size:13
Alignment explanation
Indices: 55114286--55114362 Score: 54
Period size: 13 Copynumber: 5.7 Consensus size: 13
55114276 AAAAATGTTT
55114286 AAAAAAAGAGAGAGA
1 AAAAAAAGA-AG-GA
55114301 AAAAAAAGAAGGA
1 AAAAAAAGAAGGA
55114314 AAAAGAAAGAA--A
1 AAAA-AAAGAAGGA
55114326 AATAAAGAAGAA-GA
1 AA-AAA-AAGAAGGA
*
55114340 AGAAAAGAA-AAAGA
1 A-AAAA-AAGAAGGA
55114354 AAAAAAAGA
1 AAAAAAAGA
55114363 GAGGCCAATG
Statistics
Matches: 55, Mismatches: 0, Indels: 16
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.11
13 20 0.36
14 19 0.35
15 10 0.18
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (13 bp):
AAAAAAAGAAGGA
Found at i:55114316 original size:24 final size:24
Alignment explanation
Indices: 55114289--55114351 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
55114279 AATGTTTAAA
*
55114289 AAAAGAGAGAGAAAAA-AAAGAAGG
1 AAAAGAGAAAGAAAAATAAAGAA-G
55114313 AAAA-AGAAAGAAAAATAAAGAAG
1 AAAAGAGAAAGAAAAATAAAGAAG
55114336 AAGAAGA-AAAGAAAAA
1 AA-AAGAGAAAGAAAAA
55114352 GAAAAAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 13 0.37
24 21 0.60
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AAAAGAGAAAGAAAAATAAAGAAG
Found at i:55114318 original size:10 final size:10
Alignment explanation
Indices: 55114298--55114362 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
55114288 AAAAAGAGAG
55114298 AGAAA-AAAA
1 AGAAAGAAAA
*
55114307 AGAAGGAAAA
1 AGAAAGAAAA
55114317 AGAAAGAAAA
1 AGAAAGAAAA
* *
55114327 ATAAAGAAGA
1 AGAAAGAAAA
55114337 AG-AAGAAAA
1 AGAAAGAAAA
*
55114346 GAAAAAGAAAA
1 -AGAAAGAAAA
55114357 A-AAAGA
1 AGAAAGA
55114363 GAGGCCAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
9 15 0.33
10 24 0.52
11 7 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:55114353 original size:30 final size:29
Alignment explanation
Indices: 55114306--55114362 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
55114296 AGAGAAAAAA
*
55114306 AAGAAGGAAAAAGAAAGAAAAATAAAGAAG
1 AAGAAGGAAAAAAAAAGAAAAA-AAAGAAG
55114336 AAGAA-GAAAAGAAAAAGAAAAAAAAGA
1 AAGAAGGAAAA-AAAAAGAAAAAAAAGA
55114363 GAGGCCAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (29 bp):
AAGAAGGAAAAAAAAAGAAAAAAAAGAAG
Found at i:55114362 original size:23 final size:23
Alignment explanation
Indices: 55114286--55114362 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 23
55114276 AAAAATGTTT
55114286 AAAAAAAGAGAGAGAAA-AAAAAG-
1 AAAAAAAGA-AGA-AAAGAAAAAGA
** *
55114309 AAGGAAA-AAG-AAAGAAAAATA
1 AAAAAAAGAAGAAAAGAAAAAGA
*
55114330 AAGAAGAAGAAGAAAAGAAAAAGA
1 AA-AAAAAGAAGAAAAGAAAAAGA
55114354 AAAAAAAGA
1 AAAAAAAGA
55114363 GAGGCCAATG
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
19 3 0.07
20 5 0.12
21 4 0.10
22 3 0.07
23 14 0.34
24 12 0.29
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAGAAAAAGA
Found at i:55115758 original size:45 final size:45
Alignment explanation
Indices: 55115698--55115852 Score: 224
Period size: 45 Copynumber: 3.5 Consensus size: 45
55115688 AGATTCCAGC
* *
55115698 CTTGCCTCCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
* * * *
55115743 CATGCCTTCCTGTACTGACAGCGAAGCGGA-TCGAAGATACCA-AT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACT-GAAGATAGCAGAT
*
55115787 CTTGCCTTCTTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
1 CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
55115832 CTTGCCTTCCTGTACTGACAG
1 CTTGCCTTCCTGTACTGACAG
55115853 CGAAACAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 38 0.40
45 57 0.60
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (45 bp):
CTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGAT
Found at i:55115793 original size:89 final size:89
Alignment explanation
Indices: 55115684--55115856 Score: 283
Period size: 89 Copynumber: 1.9 Consensus size: 89
55115674 GTGGAGTAGG
* * *
55115684 TCGAAGATTCCAGCCTTGCCTCCCTGTACTGACAGTGGAGCAGACTGAAGATAGCAGATCATGCC
1 TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
55115749 TTCCTGTACTGACAGCGAAGCGGA
66 TTCCTGTACTGACAGCGAAGCGGA
* * * *
55115773 TCGAAGATACCAATCTTGCCTTCTTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCTTGCC
1 TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
55115838 TTCCTGTACTGACAGCGAA
66 TTCCTGTACTGACAGCGAA
55115857 ACAAATCGAA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (89 bp):
TCGAAGATACCAACCTTGCCTCCCTGTACTGACAGTGAAGCAGACTGAAGATAGCAGATCATGCC
TTCCTGTACTGACAGCGAAGCGGA
Found at i:55116179 original size:50 final size:50
Alignment explanation
Indices: 55116123--55116584 Score: 300
Period size: 50 Copynumber: 9.2 Consensus size: 50
55116113 GTGGTGGAAC
** * *
55116123 AAGATTGAAGCCGCAACGGCGAATCTTGCTTCCCCGACATTGCAGTCAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * **** *
55116173 AAGATTGAAG-TCGCAACGGCTAATCTTACCTTCCCTGGTGGTGCAGTGGAA
1 AAGATTGAAGCT-ACAACGGCGAATCTTA-CTTCCCCGACATTGCAGTGAAA
* * ** * **
55116224 CAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAATTTAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * ** *
55116274 AAGATTGAAGCCACAACGGTGAATCTTACTT-TCCTAGCGGTGCAGTGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGA-CATTGCAGTGAAA
* * * * * *
55116324 CAGATTGAAGCTACAACGACGAGTCTTGCTTCCCCGACATTGCAATTAAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGC-AGTGAAA
* * * ** * * * * *
55116375 AAGATTAAAGCCACAACGGTGAATCTTACTTTTCTGGCAATGTAG-CAGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGA-AA
* * * * *
55116425 CAGATTGAAGCTACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * * * * * *
55116475 TAGATTGAAGCTACAACAGCAAATCTTACTTTCCTGGCAGTGTAGTGGAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
* * * * *
55116525 TAGATTGAAGCTACGACGGTGAATCTTACTTCCCCGATATTGCAGTTAAA
1 AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
*
55116575 CAGATTGAAG
1 AAGATTGAAG
55116585 AAGCCAATCC
Statistics
Matches: 301, Mismatches: 103, Indels: 16
0.72 0.25 0.04
Matches are distributed among these distances:
49 4 0.01
50 222 0.74
51 74 0.25
52 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGCAGTGAAA
Found at i:55116359 original size:100 final size:100
Alignment explanation
Indices: 55116091--55116584 Score: 544
Period size: 100 Copynumber: 4.9 Consensus size: 100
55116081 ATCAACGACA
* * * **
55116091 GAATCTTACTTTTCTAGGCGATGTGGTGGAACAAGATTGAAGCCGCAACGGCGAATCTTGCTTCC
1 GAATCTTACTTTCCT-GGCGGTGTAGTGGAAC-AGATTGAAGCTACAACGGCGAATCTTGCTTCC
* ** * *
55116156 CCGACATTGCAGTCAAAAAGATTGAAGTCGCAACGGCT
64 CCGACATTGCAATTTAAAAGATTGAAGCCACAACGG-T
* * * * *
55116194 -AATCTTACCTTCCCTGGTGGTGCAGTGGAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCC
1 GAATCTTA-CTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCC
55116258 CGACATTGCAATTTAAAAGATTGAAGCCACAACGGT
65 CGACATTGCAATTTAAAAGATTGAAGCCACAACGGT
* * * *
55116294 GAATCTTACTTTCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAGTCTTGCTTCCCC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
55116359 GACATTGCAATTAAAAAAGATTAAAGCCACAACGGT
66 GACATTGCAATT-TAAAAGATTGAAGCCACAACGGT
* ** ** * *
55116395 GAATCTTACTTTTCTGGCAATGTAGCAGAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCTC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* * * *
55116460 GACATTGC-AGTTAAATAGATTGAAGCTACAACAGC
66 GACATTGCAATTTAAA-AGATTGAAGCCACAACGGT
* * * * * *
55116495 AAATCTTACTTTCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGTGAATCTTACTTCCCC
1 GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
55116560 GATATTGC-AGTTAAACAGATTGAAG
66 GACATTGCAATTTAAA-AGATTGAAG
55116585 AAGCCAATCC
Statistics
Matches: 335, Mismatches: 52, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
99 3 0.01
100 159 0.47
101 149 0.44
102 19 0.06
103 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
GAATCTTACTTTCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
GACATTGCAATTTAAAAGATTGAAGCCACAACGGT
Found at i:55116465 original size:201 final size:202
Alignment explanation
Indices: 55116091--55116574 Score: 562
Period size: 201 Copynumber: 2.4 Consensus size: 202
55116081 ATCAACGACA
* * * **
55116091 GAATCTTACTTTTCTAGGCGATGTGGTGGAACAAGATTGAAGCCGCAACGGCGAATCTTGCTTCC
1 GAATCTTACTTTCCTA-GCGGTGTAGTGGAAC-AGATTGAAGCTACAACGGCGAATCTTGCTTCC
* * * * * *** *
55116156 CCGACATTGC-AGTCAAAAAGATTGAAGTCGCAACGGCTAATCTTACCTTCCCTGGTGGTGCAGT
64 CCGACATTGCAATTAAAAAAGATTAAAGCCACAACGGCTAATCTTACCTTCCCTGGCAATGCAGC
* * *
55116220 GGAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAATTTAAA-AGATTGAAG
129 AGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGC-AGTTAAATAGATTGAAG
* *
55116284 CCACAACGGT
193 CCACAACAGC
* * *
55116294 GAATCTTACTTTCCTAGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAGTCTTGCTTCCCC
1 GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
** *
55116359 GACATTGCAATTAAAAAAGATTAAAGCCACAACGG-TGAATCTTA-CTTTTCTGGCAATGTAGCA
66 GACATTGCAATTAAAAAAGATTAAAGCCACAACGGCT-AATCTTACCTTCCCTGGCAATGCAGCA
* * * *
55116422 GAACAGATTGAAGCTACAACGGTGAATCTTGCTTCCTCGACATTGCAGTTAAATAGATTGAAGCT
130 GAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCC
55116487 ACAACAGC
195 ACAACAGC
* * * * * * *
55116495 AAATCTTACTTTCCTGGCAGTGTAGTGGAATAGATTGAAGCTACGACGGTGAATCTTACTTCCCC
1 GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
* *
55116560 GATATTGCAGTTAAA
66 GACATTGCAATTAAA
55116575 CAGATTGAAG
Statistics
Matches: 237, Mismatches: 41, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
200 6 0.03
201 176 0.74
202 40 0.17
203 15 0.06
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (202 bp):
GAATCTTACTTTCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGCTTCCCC
GACATTGCAATTAAAAAAGATTAAAGCCACAACGGCTAATCTTACCTTCCCTGGCAATGCAGCAG
AACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCCA
CAACAGC
Found at i:55116643 original size:44 final size:43
Alignment explanation
Indices: 55116589--55116796 Score: 172
Period size: 44 Copynumber: 4.8 Consensus size: 43
55116579 TTGAAGAAGC
* * **
55116589 CAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAACAA
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* * *** *
55116632 CAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATC--
1 CA-ATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
* *
55116674 CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA-AC
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-AACAA
* * * *
55116718 CAATCTTATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAATGAT
1 CAATCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAA-CAA
** *
55116762 GGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
55116797 CACATCAGAC
Statistics
Matches: 132, Mismatches: 24, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
41 30 0.23
42 4 0.03
43 5 0.04
44 92 0.70
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
CAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAACAA
Found at i:55116724 original size:85 final size:85
Alignment explanation
Indices: 55116588--55116743 Score: 201
Period size: 85 Copynumber: 1.8 Consensus size: 85
55116578 ATTGAAGAAG
* **
55116588 CCAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAACAACAGATCTTATC-TCTCTAAAG
1 CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTTC-CTAAAG
55116652 TTGCAGTAGAGCAGATCGCAT
65 TTGCAGTAGAGCAGATCGCAT
* * * *
55116673 CCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAA-ACCA-ATCTTATCTTCCTGAA
1 CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AA-AACAACAGATCTTATCTTCCTAAA
55116736 GTTGCAGT
64 GTTGCAGT
55116744 GAAGCGGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
85 52 0.85
86 7 0.11
87 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (85 bp):
CCAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACAACAGATCTTATCTTCCTAAAGT
TGCAGTAGAGCAGATCGCAT
Found at i:55116841 original size:129 final size:129
Alignment explanation
Indices: 55116565--55116842 Score: 305
Period size: 129 Copynumber: 2.2 Consensus size: 129
55116555 TCCCCGATAT
* * *
55116565 TGCAGTTAAA-CAGATTGAAGAAGCCAATCCTATCTCTCTAAAGTTGCAGTGGAGTGGATTAAAA
1 TGCAG-TAAACCAGATTGAAGAAACCAATCCTATCTCTCTAAAGTTGCAGTGAAGCGGATTAAAA
* * *
55116629 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTGAAGT
65 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTAAAGA
** * * *
55116694 TGCAGTGGAGCAGATTGAAGAAACCAATCTTATCT-TCCTGAAGTTGCAGTGAAGCGGATTAAAA
1 TGCAGTAAACCAGATTGAAGAAACCAATCCTATCTCT-CTAAAGTTGCAGTGAAGCGGATTAAAA
** ** * * * *
55116758 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACAT-CAGA-CTTTATTTTCTTAAA
65 CAACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCA-ATC-TTATCTCCCTAAA
55116821 GA
128 GA
55116823 TGCAGTAAACCA-AGTTGAAG
1 TGCAGTAAACCAGA-TTGAAG
55116843 TTATAGATCT
Statistics
Matches: 123, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
128 7 0.06
129 116 0.94
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (129 bp):
TGCAGTAAACCAGATTGAAGAAACCAATCCTATCTCTCTAAAGTTGCAGTGAAGCGGATTAAAAC
AACAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTAAAGA
Found at i:55117180 original size:44 final size:43
Alignment explanation
Indices: 55116998--55117333 Score: 215
Period size: 44 Copynumber: 7.8 Consensus size: 43
55116988 CAGAAGAAAT
* * * *
55116998 CAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAACCA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
55117041 CAGATCTTATC-TCTCTGAAGTTGCAGTAGAGCAGA-TCACATCA
1 CA-ATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * ** ** *
55117084 -AGTCTTATCTCCCT-AAGCAGCAGTGGAGCAGACAGAAGAAAC-
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATCA
* *
55117126 CAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
55117169 CGAATCTTATC-TCTTTGAAGTTGCAGTAGAGTAGATCT--AATC-
1 C-AATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT-TAAAATCA
* ***
55117211 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAAAAGT
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATT-AAAATCA
* * * ** * *
55117255 CAATCCTATCTTCTTGAAGTTGCAGTGAAGTGGGTTAAAATGA
1 CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
* * *
55117298 TGAATCTTATC-TCTCTAAAGTTGCAGTAGAGCAGAT
1 -CAATCTTATCTTC-CTGAAGTTGCAGTGGAGCAGAT
55117334 CACATCAGAT
Statistics
Matches: 220, Mismatches: 54, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
40 16 0.07
41 36 0.16
42 9 0.04
43 39 0.18
44 119 0.54
45 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
CAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAATCA
Found at i:55117265 original size:85 final size:85
Alignment explanation
Indices: 55117125--55117280 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
55117115 ACAGAAGAAA
** * *
55117125 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGAATCTTATC-TCTTTGAAG
1 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATTAAAAACACGAATCCTATCTTC-TTGAAG
55117189 TTGCAGTAGAGTAGATCTAAT
65 TTGCAGTAGAGTAGATCTAAT
* **
55117210 CCAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAAAAGTC-AATCCTATCTTCTTGAAG
1 CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATT-AAAAACACGAATCCTATCTTCTTGAAG
55117274 TTGCAGT
65 TTGCAGT
55117281 GAAGTGGGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 55 0.89
86 7 0.11
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (85 bp):
CCAATCCTATCTTCCTGAAGTTGCAGTGGAGCAAATTAAAAACACGAATCCTATCTTCTTGAAGT
TGCAGTAGAGTAGATCTAAT
Found at i:55117293 original size:129 final size:128
Alignment explanation
Indices: 55116916--55117340 Score: 552
Period size: 128 Copynumber: 3.3 Consensus size: 128
55116906 AGAGCCACAG
* * * * * *
55116916 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATCGCATCAAGTCTTATCTCCTTAGGCAGTAGCG
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGTG
* * *
55116981 GAGCAGACAGAAGAAATCAATCCTATCTACCTGAAGTTGCAGTGGAGCGGATTAAAACCAC-A
66 GAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
55117043 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGT
1 -ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGT
* *
55117108 GGAGCAGACAGAAGAAACCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
65 GGAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
* * * **
55117172 ATCTTATCTCTTTGAAGTTGCAGTAGAGTAGATCTA-ATCCAA-TCTTATCTTCCTGAAGTTGCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-ACAT-CAAGTCTTATCTCCCT-AAGCAGCA
** * * * * * *
55117235 GTGGAGCAAATTGAA-AAAGTCAATCCTATCTTCTTGAAGTTGCAGTGAAGTGGGTTAAAATGAT
63 GTGGAGCAAACAGAAGAAA-TCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCAC
55117299 GA
127 GA
*
55117301 ATCTTATCTCTCTAAAGTTGCAGTAGAGCAGATCACATCA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCA
55117341 GATTTTATTA
Statistics
Matches: 264, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
128 168 0.64
129 96 0.36
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (128 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGCAGTG
GAGCAAACAGAAGAAATCAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAATCACGA
Found at i:55119163 original size:10 final size:10
Alignment explanation
Indices: 55119092--55119154 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
55119082 CTATTATAAC
55119092 TATTTATATA
1 TATTTATATA
* *
55119102 TCTTTATATCT
1 TATTTATAT-A
55119113 TATTATATATA
1 TATT-TATATA
*
55119124 TATTTATATC
1 TATTTATATA
55119134 T-TATTATATA
1 TAT-TTATATA
*
55119144 TATCTATATA
1 TATTTATATA
55119154 T
1 T
55119155 CTCTTTATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 1 0.02
10 28 0.67
11 8 0.19
12 5 0.12
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (10 bp):
TATTTATATA
Found at i:55119163 original size:22 final size:22
Alignment explanation
Indices: 55119092--55119156 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
55119082 CTATTATAAC
55119092 TATT-TATATATCTTTATATCT
1 TATTATATATATCTTTATATCT
*
55119113 TATTATATATATATTTATATCT
1 TATTATATATATCTTTATATCT
*
55119135 TATTATATATATCTATATATCT
1 TATTATATATATCTTTATATCT
55119157 CTTTATAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 4 0.10
22 36 0.90
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATATATATCTTTATATCT
Found at i:55119192 original size:24 final size:23
Alignment explanation
Indices: 55119165--55119218 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
55119155 CTCTTTATAA
*
55119165 ACATATTTTTTAGCTTAT-ATACAT
1 ACATATGTTTT-G-TTATAATACAT
*
55119189 ACATACGTTTTGTTATACATACAT
1 ACATATGTTTTGTTATA-ATACAT
55119213 ACATAT
1 ACATAT
55119219 ACATCTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 4 0.16
23 1 0.04
24 20 0.80
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (23 bp):
ACATATGTTTTGTTATAATACAT
Found at i:55119308 original size:44 final size:42
Alignment explanation
Indices: 55119259--55119346 Score: 115
Period size: 42 Copynumber: 2.0 Consensus size: 42
55119249 ATATATGTAT
* *
55119259 ATACTTCTATAATTTTATTTATTTAT-TTATATATATATATACAC
1 ATACTTATAT-ATTTTA-TT-TTTATGTAATATATATATATACAC
*
55119303 ATACTTATATCTTTTATTTTTATGTAATATATATATATACAC
1 ATACTTATATATTTTATTTTTATGTAATATATATATATACAC
55119345 AT
1 AT
55119347 GCGAATTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 5 0.12
42 21 0.52
43 5 0.12
44 9 0.22
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.53
Consensus pattern (42 bp):
ATACTTATATATTTTATTTTTATGTAATATATATATATACAC
Found at i:55121368 original size:22 final size:22
Alignment explanation
Indices: 55121302--55121369 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 22
55121292 TATGCACAAA
* * *
55121302 TAAAAGGAGAGCACTTAGGTGC
1 TAAACGGAGAGCACTAACGTGC
* * *
55121324 TATACAGAGAGCAC-AAGCATGC
1 TAAACGGAGAGCACTAA-CGTGC
*
55121346 TAAACGGAGAGCACTGACGTGC
1 TAAACGGAGAGCACTAACGTGC
55121368 TA
1 TA
55121370 GAAAATAGAC
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.16
Consensus pattern (22 bp):
TAAACGGAGAGCACTAACGTGC
Found at i:55123383 original size:20 final size:21
Alignment explanation
Indices: 55123360--55123407 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
55123350 AATATATATT
*
55123360 TAAAATTTAAGAAAATAA-TA
1 TAAAATTTAAGAAAAGAATTA
*
55123380 T-AAATTT-ATAAAAGAATTA
1 TAAAATTTAAGAAAAGAATTA
55123399 TAAAATTTA
1 TAAAATTTA
55123408 TTTCATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 7 0.30
19 9 0.39
20 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAAATTTAAGAAAAGAATTA
Found at i:55123408 original size:20 final size:19
Alignment explanation
Indices: 55123360--55123408 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
55123350 AATATATATT
*
55123360 TAAAATTTA-AGAAAATAA
1 TAAAATTTATAAAAAATAA
*
55123378 TATAAATTTATAAAAGAATTA
1 TA-AAATTTATAAAA-AATAA
55123399 TAAAATTTAT
1 TAAAATTTAT
55123409 TTCATGTACG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 7 0.27
20 11 0.42
21 6 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (19 bp):
TAAAATTTATAAAAAATAA
Found at i:55126113 original size:24 final size:24
Alignment explanation
Indices: 55126086--55126137 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55126076 TTAGTAAGTC
*
55126086 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55126110 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55126134 AAAT
1 AAAT
55126138 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55128083 original size:24 final size:24
Alignment explanation
Indices: 55128056--55128106 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
55128046 TTAGTAAGTC
*
55128056 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
55128080 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
55128104 AAA
1 AAA
55128107 GCTTCTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:55128921 original size:20 final size:19
Alignment explanation
Indices: 55128885--55128924 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
55128875 CCTTGTGGTT
*
55128885 AACCTACACACCTGTGTGC
1 AACCTACACACCCGTGTGC
*
55128904 AACCTCACACGCCCGTGTGC
1 AACCT-ACACACCCGTGTGC
55128924 A
1 A
55128925 TGGACAGTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.25, C:0.40, G:0.17, T:0.17
Consensus pattern (19 bp):
AACCTACACACCCGTGTGC
Found at i:55129964 original size:30 final size:31
Alignment explanation
Indices: 55129910--55129969 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
55129900 AAACATTTTA
*
55129910 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
55129940 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
55129970 TTCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:55130088 original size:17 final size:16
Alignment explanation
Indices: 55130054--55130084 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55130044 CCTATTTACT
*
55130054 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
55130070 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
55130085 TATTTTCCCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:55130646 original size:29 final size:27
Alignment explanation
Indices: 55130613--55130695 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 27
55130603 TTTTTTAAAA
55130613 TTTTAAAAATTAAAAAAAGTTATAAAATT
1 TTTTAAAAATT-AAAAAA-TTATAAAATT
* *
55130642 TTTTAAAAAATT-AAAATTTATTAAATT
1 TTTT-AAAAATTAAAAAATTATAAAATT
*
55130669 TATTTAAAAAGTATAAAAATTATAAAA
1 T-TTTAAAAATTA-AAAAATTATAAAA
55130696 AATACTTCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
27 16 0.36
28 7 0.16
29 15 0.33
30 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
TTTTAAAAATTAAAAAATTATAAAATT
Found at i:55130698 original size:10 final size:9
Alignment explanation
Indices: 55130609--55130696 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 9
55130599 ATAGTTTTTT
*
55130609 AAAATTTTA
1 AAAATTATA
*
55130618 AAAATTAAA
1 AAAATTATA
55130627 AAAAGTTATA
1 AAAA-TTATA
* *
55130637 AAATTTTTTA
1 AAA-ATTATA
*
55130647 AAAAAT-TA
1 AAAATTATA
* *
55130655 AAATTTATT
1 AAAATTATA
*
55130664 AAATTTATTTA
1 AAAATTA--TA
*
55130675 AAAAGTATA
1 AAAATTATA
55130684 AAAATTATA
1 AAAATTATA
55130693 AAAA
1 AAAA
55130697 ATACTTCTTT
Statistics
Matches: 60, Mismatches: 14, Indels: 10
0.71 0.17 0.12
Matches are distributed among these distances:
8 6 0.10
9 34 0.57
10 14 0.23
11 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
AAAATTATA
Found at i:55132884 original size:33 final size:34
Alignment explanation
Indices: 55132838--55132911 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
55132828 ATAATATCAT
*
55132838 ATAATAT-TCTATTAGGAATCAAATTGCTAAGAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
*
55132871 ATAATATCT-TATTATGAATCAAATTGCTAAAAG
1 ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
55132904 ATAATATC
1 ATAATATC
55132912 CCATAATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (34 bp):
ATAATATCTCTATTAGGAATCAAATTGCTAAAAG
Found at i:55134771 original size:5 final size:5
Alignment explanation
Indices: 55134761--55134785 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
55134751 AAATTGAGGA
55134761 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
55134786 ATAAACACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:55143870 original size:15 final size:15
Alignment explanation
Indices: 55143850--55143883 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
55143840 TTTTACGTGT
55143850 AAAAGCCTTATCGAG
1 AAAAGCCTTATCGAG
55143865 AAAAGCCTTATCGAG
1 AAAAGCCTTATCGAG
55143880 AAAA
1 AAAA
55143884 ACCACGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (15 bp):
AAAAGCCTTATCGAG
Found at i:55151662 original size:5 final size:5
Alignment explanation
Indices: 55151652--55151685 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
55151642 CTTTTAAAAA
55151652 TTATT TTATT TTATT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTAT
55151686 CTTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:55152736 original size:19 final size:19
Alignment explanation
Indices: 55152708--55152748 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
55152698 ACAATTAATT
55152708 TTTAA-TTTTTTTAAAAAA
1 TTTAATTTTTTTTAAAAAA
*
55152726 TTTATATTTTTTTTACAAAA
1 TTTA-ATTTTTTTTAAAAAA
55152746 TTT
1 TTT
55152749 TTAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 1 0.05
20 15 0.75
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATTTTTTTTAAAAAA
Found at i:55152787 original size:20 final size:20
Alignment explanation
Indices: 55152706--55152788 Score: 55
Period size: 20 Copynumber: 4.1 Consensus size: 20
55152696 CAACAATTAA
*
55152706 TTTTTAATTTTTTTAAAAAAT
1 TTTTTAA-TTTTTTATAAAAT
*
55152727 TTATATT--TTTTTTACAAAAT
1 TT-T-TTAATTTTTTATAAAAT
* * * *
55152747 TTTTAAATAATTTTCT-TAAT
1 TTTTTAAT-TTTTTATAAAAT
55152767 TTTTTAATTTTTTATAAAAT
1 TTTTTAATTTTTTATAAAAT
55152787 TT
1 TT
55152789 AATTAATTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 13
0.67 0.14 0.19
Matches are distributed among these distances:
18 1 0.02
19 6 0.13
20 30 0.65
21 6 0.13
22 1 0.02
23 2 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAATTTTTTATAAAAT
Found at i:55156612 original size:43 final size:43
Alignment explanation
Indices: 55156539--55156682 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
55156529 AACCACAGTA
* * **
55156539 CATCATCGAATAAACCGAATAAAGTGTACTGGCATGCATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
** * *
55156582 CATCATCGAATAAATTGAAGAATGTATACTGGTACACATAGTG
1 CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
* * ** * * * *
55156625 CATCA-CTGAACAAGCCGAATCAATTATATTAGCACGCATAGTG
1 CATCATC-GAATAAACCGAAGAAAGTATACTGGCACACATAGTG
*
55156668 CATCATCGGATAAAC
1 CATCATCGAATAAAC
55156683 AGAAACAATC
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
42 1 0.01
43 74 0.97
44 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (43 bp):
CATCATCGAATAAACCGAAGAAAGTATACTGGCACACATAGTG
Found at i:55161829 original size:176 final size:176
Alignment explanation
Indices: 55161535--55161886 Score: 623
Period size: 176 Copynumber: 2.0 Consensus size: 176
55161525 ATCCATTTTT
* *
55161535 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTGTTCCATAACAGAACG
1 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
* *
55161600 ACCAGCAACCATTTGATAATTATTGAAATGGCTGACAAGAAATTTCTTACTTGTAACATCTTTGG
66 ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
*
55161665 TCATGTATCTTGTCTCCAATTTGTCCCATAACTCTTTAACGGTGAC
131 TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
* *
55161711 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGGAATTATTCCATAATAGAACA
1 ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
*
55161776 ACCAGCAACTATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
66 ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
*
55161841 TCATGTATCTTGTCTCAAATTTGTCCTATAACTCTTTAACGGTGAC
131 TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
55161887 CTCGTTTTGG
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
176 167 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (176 bp):
ATATCATATTGCTTGAATTGATTCAGCATCTTTTCAATATCACGAAATTATTCCATAACAGAACA
ACCAGCAACCATTTGATAATTATTGAAATGACTGACAAGAAATTTCTTACTTGTAACATCTTCGG
TCATGTATCTTGTCTCAAATTTGTCCCATAACTCTTTAACGGTGAC
Found at i:55170146 original size:4 final size:4
Alignment explanation
Indices: 55170124--55170165 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
55170114 GAAAAAGAAT
* *
55170124 AATA AACA AATA CATA AATA AATA AATA AA-A CAATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA -AATA AATA AA
55170166 ACAGTTTGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 1 0.03
4 30 0.94
5 1 0.03
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:55170159 original size:12 final size:12
Alignment explanation
Indices: 55170144--55170168 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55170134 TACATAAATA
55170144 AATAAATAAAAC
1 AATAAATAAAAC
55170156 AATAAATAAAAC
1 AATAAATAAAAC
55170168 A
1 A
55170169 GTTTGTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAATAAAAC
Found at i:55174037 original size:13 final size:13
Alignment explanation
Indices: 55174019--55174084 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
55174009 AGTTTAGCAT
*
55174019 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
55174032 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
55174045 TG-TTGTGGAAAAA
1 TGCTT-TTGAAAAG
* *
55174058 TGATTTTGAGAAG
1 TGCTTTTGAAAAG
*
55174071 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
55174084 T
1 T
55174085 TTGGTTTAAG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:55177750 original size:21 final size:22
Alignment explanation
Indices: 55177721--55177768 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
55177711 AAAGAGAATA
* *
55177721 AAAATAAAA-TTATAACTTTTT
1 AAAAGAAAATTTAAAACTTTTT
55177742 AAAAGAAAATTTTAAAACTTTTT
1 AAAAGAAAA-TTTAAAACTTTTT
55177765 AAAA
1 AAAA
55177769 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
23 15 0.65
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAAGAAAATTTAAAACTTTTT
Found at i:55179393 original size:13 final size:13
Alignment explanation
Indices: 55179362--55179401 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
55179352 TAAAATCTAA
55179362 ATATTAA-ATAATT
1 ATATTAATA-AATT
55179375 -TATTAATAAATT
1 ATATTAATAAATT
55179387 ATATTAATAAATT
1 ATATTAATAAATT
55179400 AT
1 AT
55179402 TATATGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTAATAAATT
Found at i:55182056 original size:24 final size:24
Alignment explanation
Indices: 55181988--55182057 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 24
55181978 TATAACCATA
*
55181988 GCTGAAAGATGCTATCGCATCATG
1 GCTGAAAGATGCTATAGCATCATG
* * *
55182012 AC-GAAA-ATGAGTA-AG-ACCATG
1 GCTGAAAGATG-CTATAGCATCATG
*
55182033 GCTGAAAGATGCTATGGCATCATG
1 GCTGAAAGATGCTATAGCATCATG
55182057 G
1 G
55182058 TAAATGGGAT
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
21 6 0.18
22 10 0.30
23 10 0.30
24 7 0.21
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.21
Consensus pattern (24 bp):
GCTGAAAGATGCTATAGCATCATG
Found at i:55182297 original size:57 final size:56
Alignment explanation
Indices: 55182204--55182316 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 56
55182194 AACACAAGGT
* * * *
55182204 TATATTGAGTAAGACCATAGTTGAAAGATGTTATGACATCAAAGGATAATTTGATGG
1 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAA-GATAATTCGATGG
*
55182261 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATAGATAATTCGATGG
1 TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAAGATAATTCGATGG
55182317 GACATTAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 12 0.24
57 39 0.76
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (56 bp):
TATAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAAAGATAATTCGATGG
Found at i:55183884 original size:448 final size:445
Alignment explanation
Indices: 55183076--55183972 Score: 1713
Period size: 448 Copynumber: 2.0 Consensus size: 445
55183066 TAGTCCGCCA
*
55183076 GGGTGGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
1 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
55183141 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
66 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
* *
55183206 GGCTATTAGTAGGGTAGATTATATGATTACCCTTTTAAAACATGGTGGAAAGAAGATTCCCCTCT
131 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
*
55183271 CTAAAAAAGAAGAAGGAATACGGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
196 CTAAAAAAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
55183336 AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
261 AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
*
55183401 CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACTCGC
326 CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACCCGC
55183466 ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
391 ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
55183521 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
1 GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
55183586 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
66 ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
55183651 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
131 GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
*
55183716 CTAAAAAAGAAGAAGAAGGAATACATGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAA
196 CT--AAAA-AAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAA
55183781 CCAAAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATC
258 CCAAAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATC
55183846 TATCCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACC
323 TATCCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACC
55183911 CGCACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
388 CGCACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
55183969 GGGT
1 GGGT
55183973 TAAATTTCAA
Statistics
Matches: 443, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
445 194 0.44
447 4 0.01
448 245 0.55
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.23
Consensus pattern (445 bp):
GGGTAGAATGGGACCATGTTAGTTATGCCAATGAATGGAAGGTGAGTAAGTCATATGAGATTATG
ATAAGGAAAAAGTCTGTCATGGACTAAATTGATATGGAAAGATAGCCAAAAGGAAAATACCCATG
GGCTATTAGTAGGGTAGATTATAGGATTACCCTTTAAAAACATGGTGGAAAGAAGATTCCCCTCT
CTAAAAAAGAAGAAGGAATACAGGTAAAGGTAAGGATGGGGTTCGCGAAAATGGCGAGACAACCA
AAGGAACAGTCAAGGCTGATTGAAGGCCGATAGGATGGCCGAAAGCCAATCACTCAACGATCTAT
CCACTAGTGGATAAGACTGGGAATAAGAAAAGTCCACTATGATGAGTTTAAGATAAGTTACCCGC
ACAAGCAGAGAGTTATATGTTTCTAGTTTCTTTAAATTTAAACCCCTAAAAGACG
Found at i:55188689 original size:14 final size:14
Alignment explanation
Indices: 55188571--55188696 Score: 67
Period size: 15 Copynumber: 8.4 Consensus size: 14
55188561 AAGAGCATAT
55188571 GGTTTAAGGG-TTATG
1 GGTTT-AGGGTTTA-G
* *
55188586 GGCTTAGGGTCTAG
1 GGTTTAGGGTTTAG
** *
55188600 GGGGTAGTGGCTTAG
1 GGTTTAG-GGTTTAG
*
55188615 GGTTTTGGGTTTAAG
1 GGTTTAGGGTTT-AG
*
55188630 GGTTTATAGG-TTAGG
1 GGTTTA-GGGTTTA-G
*
55188645 GGTTTATGGGGTTTTG
1 GGTTTA--GGGTTTAG
*
55188661 TGGTTTTGTGGTTTAG
1 -GGTTTAG-GGTTTAG
55188677 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAG
55188691 GGTTTA
1 GGTTTA
55188697 AGATTTATGA
Statistics
Matches: 84, Mismatches: 18, Indels: 19
0.69 0.15 0.16
Matches are distributed among these distances:
14 28 0.33
15 38 0.45
16 11 0.13
17 7 0.08
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (14 bp):
GGTTTAGGGTTTAG
Found at i:55188696 original size:7 final size:7
Alignment explanation
Indices: 55188571--55188696 Score: 67
Period size: 7 Copynumber: 16.9 Consensus size: 7
55188561 AAGAGCATAT
55188571 GGTTTAAG
1 GGTTT-AG
55188579 GG-TTATG
1 GGTTTA-G
*
55188586 GGCTTAG
1 GGTTTAG
*
55188593 GGTCTAG
1 GGTTTAG
**
55188600 GGGGTAG
1 GGTTTAG
*
55188607 TGGCTTAG
1 -GGTTTAG
*
55188615 GGTTTTG
1 GGTTTAG
55188622 GGTTTAAG
1 GGTTT-AG
*
55188630 GGTTTATA
1 GGTTTA-G
55188638 GG-TTAGG
1 GGTTTA-G
55188645 GGTTTATGG
1 GGTTTA--G
*
55188654 GGTTTTG
1 GGTTTAG
*
55188661 TGGTTTTG
1 -GGTTTAG
55188669 TGGTTTAG
1 -GGTTTAG
55188677 GGTTTAG
1 GGTTTAG
55188684 GGTTTAG
1 GGTTTAG
55188691 GGTTTA
1 GGTTTA
55188697 AGATTTATGA
Statistics
Matches: 96, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
6 1 0.01
7 53 0.55
8 35 0.36
9 7 0.07
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:55188725 original size:29 final size:29
Alignment explanation
Indices: 55188679--55188741 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
55188669 TGGTTTAGGG
** *
55188679 TTTAGGGTTTAGGGTTTAAGATTTATGAT
1 TTTAGGGTTTAGAATTTAAGATTTACGAT
* * *
55188708 TTTAGGGTTTATAATTTATGATTTACGGT
1 TTTAGGGTTTAGAATTTAAGATTTACGAT
55188737 TTTAG
1 TTTAG
55188742 AGTTAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTAGAATTTAAGATTTACGAT
Found at i:55188740 original size:22 final size:22
Alignment explanation
Indices: 55188686--55188731 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
55188676 GGGTTTAGGG
55188686 TTTAGGGTTTA-AGATTTATGAT
1 TTTAGGGTTTATA-ATTTATGAT
55188708 TTTAGGGTTTATAATTTATGAT
1 TTTAGGGTTTATAATTTATGAT
55188730 TT
1 TT
55188732 ACGGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (22 bp):
TTTAGGGTTTATAATTTATGAT
Found at i:55188994 original size:23 final size:21
Alignment explanation
Indices: 55188968--55189009 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
55188958 ATTTAAGGGT
55188968 TATGCTAAAAACATAGAAAAATA
1 TATG-TAAAAA-ATAGAAAAATA
*
55188991 TATGTTAAAAATAGAAAAA
1 TATGTAAAAAATAGAAAAA
55189010 AATAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.24
Consensus pattern (21 bp):
TATGTAAAAAATAGAAAAATA
Found at i:55189335 original size:114 final size:113
Alignment explanation
Indices: 55189176--55189591 Score: 374
Period size: 115 Copynumber: 3.6 Consensus size: 113
55189166 ATGAGTTATA
* * * * * * *
55189176 TTAGTGGCGTTTCTACGAAAAACGCCGCAATTATGTTTTTTGTCTTTGTTAAACGTTGTCATTTT
1 TTAGTGGCGTTTTTA-TAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTT
* * * * *
55189241 TATCTATGTTTTCAGTGGTGTTTTTTCCAAAACGCCGCAATATGATATGTG
65 TATCTAAGTTTT-AGTGGAGTTTTTACAAAAACGCCGCAA-AGGATATGTG
* **
55189292 TTAGTGGCGTTTTCA-GGTAACGCCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCGTTTT
1 TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTC-TTTGCTAAACGTTGTCGTTTT
* *
55189355 TATCTACA-TTATTAGTGGAATTTTTACAAAAACGCCGCAAAAGGTTATGTG
65 TATCTA-AGTT-TTAGTGGAGTTTTTACAAAAACGCCGC-AAAGGATATGTG
* * * * ** * * * *
55189406 GTAGTGGCGTTTTTATAAAAATGTCTTAATTATGTTATAAGTGTTCGCTAAACGTTGTTGTTTTT
1 TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTTT
** * * *
55189471 ATCTAAGTTTTTAGTGCCGTTTGTACTAAAACGCCGGTAAAGGATATG-G
66 ATCTAAG-TTTTAGTGGAGTTTTTACAAAAACGCC-GCAAAGGATATGTG
* *
55189520 TTTAGTGGCGTTTTTATTATAAACGCCGCAATTATGTT-TTAAGTGTTTGCTAAACGTTGTCGTT
1 -TTAGTGGCGTTTTTATAAT-AACGCCGCAATTATGTTATT-AGTCTTTGCTAAACGTTGTCGTT
55189584 TTCTATCT
63 TT-TATCT
55189592 GGGATTTTTT
Statistics
Matches: 242, Mismatches: 45, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
114 92 0.38
115 93 0.38
116 52 0.21
117 5 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (113 bp):
TTAGTGGCGTTTTTATAATAACGCCGCAATTATGTTATTAGTCTTTGCTAAACGTTGTCGTTTTT
ATCTAAGTTTTAGTGGAGTTTTTACAAAAACGCCGCAAAGGATATGTG
Found at i:55189486 original size:115 final size:116
Alignment explanation
Indices: 55189177--55189591 Score: 317
Period size: 114 Copynumber: 3.6 Consensus size: 116
55189167 TGAGTTATAT
* ** * ** * * * *
55189177 TAGTGGCGTTTCTACGAAAAACGCCGCAATTATGTTTTTTGTCTTTGTTAAACGTTGTCATTTTT
1 TAGTGGCGTTTTTATTAAAAACGCCGCAATTATGTTATAAGTGTTCGCTAAACGTTGTCGTTTTT
** *** * * * * *
55189242 ATCTATGTT-TTCAGTGGTGTTTTTTCCAAAACGCCGCAATATGATAT-GTG
66 ATCTACATTATT-AGTGCAATTTGTACAAAAACGCCGCAAAAGGATATGGTG
* * * * *
55189292 TTAGTGGCGTTTTCAGGT---AACGCCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTCGTT
1 -TAGTGGCGTTTTTA-TTAAAAACGCCGCAATTATGTTATAAGT-GTTCGCTAAACGTTGTCGTT
* * *
55189353 TTTATCTACATTATTAGTGGAATTTTTACAAAAACGCCGCAAAAGGTTAT-GTGG
63 TTTATCTACATTATTAGTGCAATTTGTACAAAAACGCCGCAAAAGGATATGGT-G
* * ** *
55189407 TAGTGGCGTTTTTA-TAAAAATGTCTTAATTATGTTATAAGTGTTCGCTAAACGTTGTTGTTTTT
1 TAGTGGCGTTTTTATTAAAAACGCCGCAATTATGTTATAAGTGTTCGCTAAACGTTGTCGTTTTT
* ** * ** *
55189471 ATCTA-AGTTTTTAGTGCCGTTTGTACTAAAACGCCGGTAAAGGATATGGTT
66 ATCTACA-TTATTAGTGCAATTTGTACAAAAACGCCGCAAAAGGATATGGTG
* * *
55189522 TAGTGGCGTTTTTATTATAAACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGTTTTC
1 TAGTGGCGTTTTTATTAAAAACGCCGCAATTATGTTATAAGTGTTCGCTAAACGTTGTCGTTTT-
55189587 TATCT
65 TATCT
55189592 GGGATTTTTT
Statistics
Matches: 243, Mismatches: 44, Indels: 23
0.78 0.14 0.07
Matches are distributed among these distances:
112 1 0.00
114 91 0.37
115 91 0.37
116 55 0.23
117 5 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.42
Consensus pattern (116 bp):
TAGTGGCGTTTTTATTAAAAACGCCGCAATTATGTTATAAGTGTTCGCTAAACGTTGTCGTTTTT
ATCTACATTATTAGTGCAATTTGTACAAAAACGCCGCAAAAGGATATGGTG
Found at i:55189797 original size:16 final size:16
Alignment explanation
Indices: 55189756--55189797 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
55189746 CCCCCAACTT
* *
55189756 CCCCGATTTCATTTAC
1 CCCCAATTTCCTTTAC
*
55189772 CCCCAA-TTCCTTTTC
1 CCCCAATTTCCTTTAC
55189787 CCCCAATTTCC
1 CCCCAATTTCC
55189798 CCAATTTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.17, C:0.45, G:0.02, T:0.36
Consensus pattern (16 bp):
CCCCAATTTCCTTTAC
Found at i:55189822 original size:8 final size:8
Alignment explanation
Indices: 55189809--55189846 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
55189799 CAATTTCATT
55189809 TCCCCAAA
1 TCCCCAAA
55189817 TCCCCAAA
1 TCCCCAAA
55189825 TCCCCAAA
1 TCCCCAAA
*
55189833 TTCCCAAA
1 TCCCCAAA
55189841 TTCCCC
1 -TCCCC
55189847 CTGTCATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 23 0.85
9 4 0.15
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (8 bp):
TCCCCAAA
Found at i:55193733 original size:17 final size:16
Alignment explanation
Indices: 55193698--55193739 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
55193688 ATAAATAAAT
* *
55193698 AATTAAATCAATTGGA
1 AATTAAATTAATTGAA
55193714 AATTAAATTACATTGAA
1 AATTAAATTA-ATTGAA
55193731 AATTAAATT
1 AATTAAATT
55193740 CGAATATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.36
Consensus pattern (16 bp):
AATTAAATTAATTGAA
Found at i:55214031 original size:18 final size:18
Alignment explanation
Indices: 55214008--55214200 Score: 226
Period size: 18 Copynumber: 10.7 Consensus size: 18
55213998 GCATGATTTG
*
55214008 AACTTGGAGCACAGTGCA
1 AACTTGGAGCACAATGCA
* * *
55214026 AACTTGGAACAAAATGCG
1 AACTTGGAGCACAATGCA
*
55214044 AACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCA
55214062 AACTTGGAGCAC-ATGGCA
1 AACTTGGAGCACAAT-GCA
55214080 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* *
55214098 AACTTGGAGCATATTGCA
1 AACTTGGAGCACAATGCA
** * *
55214116 AACTTACAGCAGATTGCA
1 AACTTGGAGCACAATGCA
55214134 AACTTGGAGCACAATGCA
1 AACTTGGAGCACAATGCA
* * *
55214152 AACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCA
*
55214170 AACTTGGAGCACAATGCT
1 AACTTGGAGCACAATGCA
*
55214188 AACTTAGAGCACA
1 AACTTGGAGCACA
55214201 GTGTGGACTC
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
17 1 0.01
18 146 0.98
19 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (18 bp):
AACTTGGAGCACAATGCA
Found at i:55214216 original size:54 final size:54
Alignment explanation
Indices: 55214008--55214200 Score: 253
Period size: 54 Copynumber: 3.6 Consensus size: 54
55213998 GCATGATTTG
* * * *
55214008 AACTTGGAGCACAGTGCAAACTTGGAACAAAATGCGAACTTGGAGCACATTGCA
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
*
55214062 AACTTGGAGCAC-ATGGCAAACTTGGAGCACAATGCAAACTTGGAGCATATTGCA
1 AACTTGGAGCACAAT-GCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
** * * * *
55214116 AACTTACAGCAGATTGCAAACTTGGAGCACAATGCAAACTTAGAGCACATTGCT
1 AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
* *
55214170 AACTTGGAGCACAATGCTAACTTAGAGCACA
1 AACTTGGAGCACAATGCAAACTTGGAGCACA
55214201 GTGTGGACTC
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 117 0.98
55 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (54 bp):
AACTTGGAGCACAATGCAAACTTGGAGCACAATGCAAACTTGGAGCACATTGCA
Found at i:55227876 original size:25 final size:25
Alignment explanation
Indices: 55227839--55227904 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
55227829 GTATTTTTTT
* * *
55227839 TCCAAATTTTATACTTTGTTTTAGA
1 TCCAAAATGTATACTTTGTTTTACA
* *
55227864 TTCTAAATGTATACTTTGTTTTACA
1 TCCAAAATGTATACTTTGTTTTACA
*
55227889 TCCAAAATGTACACTT
1 TCCAAAATGTATACTT
55227905 ATTTACAATC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.08, T:0.47
Consensus pattern (25 bp):
TCCAAAATGTATACTTTGTTTTACA
Found at i:55232390 original size:26 final size:26
Alignment explanation
Indices: 55232354--55232429 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
55232344 ACATATTTTC
55232354 TCAAAATTTTACCA-AGGGCAAAATCG
1 TCAAAATTTTACCAGA-GGCAAAATCG
* * *
55232380 TCAAAATTTTATCGGAGGTAAAATCG
1 TCAAAATTTTACCAGAGGCAAAATCG
* * *
55232406 TTAAAATTTTACTAGAGGTAAAAT
1 TCAAAATTTTACCAGAGGCAAAAT
55232430 AAAGATGAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (26 bp):
TCAAAATTTTACCAGAGGCAAAATCG
Found at i:55233640 original size:24 final size:25
Alignment explanation
Indices: 55233594--55233640 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
55233584 AGGAATTTGG
*
55233594 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
55233619 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
55233641 TCGGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:55234784 original size:54 final size:53
Alignment explanation
Indices: 55234716--55234844 Score: 129
Period size: 50 Copynumber: 2.5 Consensus size: 53
55234706 GAACAATGAA
* * * *
55234716 TTACTTAATGCATGACTTCATTAAAAAAAATGCAAACTTTAACTAACATGGGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAAC-TTAACTAACACGAGAG
* * ** *
55234770 TTACATAATGCATGACATAATT---TATGATGCAATCTTAACTAACACGAGAG
1 TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACACGAGAG
* *
55234820 TAACATAATGCATGACTTTATTAAA
1 TTACATAATGCATGACTTAATTAAA
55234845 TGTAGAACAC
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
50 33 0.55
51 8 0.13
54 19 0.32
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (53 bp):
TTACATAATGCATGACTTAATTAAAAAAAATGCAAACTTAACTAACACGAGAG
Found at i:55234895 original size:33 final size:35
Alignment explanation
Indices: 55234844--55234909 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
55234834 ACTTTATTAA
* *
55234844 ATGTAGAACACATAATGCATGTCA-TAATTAAAAG
1 ATGTAGAACACATAATGCAAGACATTAATTAAAAG
*
55234878 ATGTAGATCA-ATAATGCAAGACATTAATTAAA
1 ATGTAGAACACATAATGCAAGACATTAATTAAA
55234910 GATTCATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (35 bp):
ATGTAGAACACATAATGCAAGACATTAATTAAAAG
Found at i:55234911 original size:33 final size:34
Alignment explanation
Indices: 55234822--55234912 Score: 102
Period size: 33 Copynumber: 2.8 Consensus size: 34
55234812 CACGAGAGTA
*
55234822 ACATAATGCATGAC-TTTATT-AA-ATGTAGAAC
1 ACATAATGCATGACATTAATTAAAGATGTAGAAC
* *
55234853 ACATAATGCATGTCA-TAATTAAAAGATGTAGATC
1 ACATAATGCATGACATTAATT-AAAGATGTAGAAC
*
55234887 A-ATAATGCAAGACATTAATTAAAGAT
1 ACATAATGCATGACATTAATTAAAGAT
55234913 TCATTTAATA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
31 17 0.34
33 19 0.38
34 14 0.28
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (34 bp):
ACATAATGCATGACATTAATTAAAGATGTAGAAC
Found at i:55238743 original size:14 final size:13
Alignment explanation
Indices: 55238720--55238759 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
55238710 ACAGAAAAGT
*
55238720 AAAATATTTTCCA
1 AAAATATTTTACA
55238733 AAAATTATTTTACAA
1 AAAA-TATTTTAC-A
55238748 AAAATATTTTAC
1 AAAATATTTTAC
55238760 TGACAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 15 0.62
15 5 0.21
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTTTACA
Found at i:55238743 original size:34 final size:35
Alignment explanation
Indices: 55238685--55238751 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
55238675 CAAACACCAG
* *
55238685 AAAATATTTTTCAATAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAATAAATCATTTTACAAAAAAGT
*
55238720 AAAATATTTTCCAA-AAATTATTTTACAAAAAA
1 AAAATATTTTCCAATAAATCATTTTACAAAAAA
55238752 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAATAAATCATTTTACAAAAAAGT
Found at i:55242599 original size:18 final size:18
Alignment explanation
Indices: 55242557--55242607 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
55242547 TGATGAGTGA
*
55242557 TGTAAGTCCTAGGATCGC
1 TGTAAGTCCAAGGATCGC
* * * *
55242575 TGCAAGTCCGAGGATTGT
1 TGTAAGTCCAAGGATCGC
55242593 TGTAAGTCCAAGGAT
1 TGTAAGTCCAAGGAT
55242608 ATCTATAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (18 bp):
TGTAAGTCCAAGGATCGC
Found at i:55245597 original size:24 final size:24
Alignment explanation
Indices: 55245564--55245609 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
55245554 GGTCAACTAA
*
55245564 ATTATGCTAATAAATACTAAATAT
1 ATTATACTAATAAATACTAAATAT
*
55245588 ATTATACTAATGAATACTAAAT
1 ATTATACTAATAAATACTAAAT
55245610 CTTCTAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.04, T:0.37
Consensus pattern (24 bp):
ATTATACTAATAAATACTAAATAT
Found at i:55247526 original size:24 final size:24
Alignment explanation
Indices: 55247498--55247549 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
55247488 TTCGTAGGTC
* *
55247498 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
55247522 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
55247546 AAAT
1 AAAT
55247550 CTTCTAGAAA
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:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:55258357 original size:20 final size:20
Alignment explanation
Indices: 55258332--55258370 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
55258322 TTGCTTCTTC
55258332 TTTACTTACTCT-CTTATTTG
1 TTTACTTACT-TGCTTATTTG
55258352 TTTACTTACTTGCTTATTT
1 TTTACTTACTTGCTTATTT
55258371 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.18, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTACTTACTTGCTTATTTG
Found at i:55258682 original size:50 final size:50
Alignment explanation
Indices: 55258617--55258715 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
55258607 GAGTTCAATA
* *
55258617 TCGGTGCCCATGCCATG-CCTCAAACATGGTCTTACGGGGGACCTCTCATC
1 TCGGTGCCAACGCCATGTCC-CAAACATGGTCTTACGGGGGACCTCTCATC
* *
55258667 TCGGTGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT
1 TCGGTGCCAACGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCAT
55258716 AACCTCAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.18, C:0.33, G:0.24, T:0.24
Consensus pattern (50 bp):
TCGGTGCCAACGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATC
Found at i:55259821 original size:74 final size:75
Alignment explanation
Indices: 55259720--55259887 Score: 191
Period size: 74 Copynumber: 2.3 Consensus size: 75
55259710 TGTTGCACTC
* * * * * *
55259720 ATTTACAATCTA-AAAAAAAATT-TAAAAATATTTTTGTTGTATTCTATTGTATTTCATATCAAT
1 ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATT-TATTCTATTATATTTCACATCAAT
*
55259783 AATATAT-ACTT
65 AATATATCA-AT
* *
55259794 ATTTACAATCTACGAGAAAAA-TAAAAAAATATTTATATTTATTCTATTATATTTTACATCAATA
1 ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATA
55259858 ATATATCAAT
66 ATATATCAAT
* *
55259868 ATTTACAATTTACCAGAAAA
1 ATTTACAATCTACAAGAAAA
55259888 TGAGAAGTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
74 60 0.75
75 20 0.25
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.42
Consensus pattern (75 bp):
ATTTACAATCTACAAGAAAAATTAAAAAAATATTTATATTTATTCTATTATATTTCACATCAATA
ATATATCAAT
Found at i:55262666 original size:15 final size:15
Alignment explanation
Indices: 55262643--55262687 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
55262633 TTTCTCCCTC
*
55262643 TTTTGTTTTGTTTTGA
1 TTTT-TTTTATTTTGA
*
55262659 TTTTTTTTATTTTTA
1 TTTTTTTTATTTTGA
55262674 TTTTTTTTTATTTT
1 -TTTTTTTTATTTT
55262688 TTTCCATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.09, C:0.00, G:0.07, T:0.84
Consensus pattern (15 bp):
TTTTTTTTATTTTGA
Found at i:55264517 original size:19 final size:18
Alignment explanation
Indices: 55264476--55264518 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
55264466 AGCATTGACA
55264476 ATAAT-AATAAAAATAAT
1 ATAATAAATAAAAATAAT
55264493 ATTAATAAATAAAAATAAT
1 A-TAATAAATAAAAATAAT
55264512 GATAATA
1 -ATAATA
55264519 GCAAGGACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 17 0.74
20 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATAATAAATAAAAATAAT
Found at i:55266789 original size:35 final size:33
Alignment explanation
Indices: 55266758--55266876 Score: 134
Period size: 34 Copynumber: 3.5 Consensus size: 33
55266748 GATTTAGAAT
*
55266758 TTTTTAAAAAAAATAATTAAATTAGGTTTTAGGG
1 TTTTTAAAAAAAATAATTAAATTAGG-TTTAGAG
* * *
55266792 GTTTTAAATAAAATTAATTAAACTAGGGTTTAGAG
1 TTTTTAAA-AAAAATAATTAAATTA-GGTTTAGAG
* *
55266827 TTTTTAAGAAAATTAATTAAATTATGGTTT--AG
1 TTTTTAAAAAAAATAATTAAATTA-GGTTTAGAG
55266859 TTTTTAAAAAAAATAATT
1 TTTTTAAAAAAAATAATT
55266877 TTGTGTTTAG
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
32 18 0.25
34 27 0.37
35 26 0.36
36 2 0.03
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.42
Consensus pattern (33 bp):
TTTTTAAAAAAAATAATTAAATTAGGTTTAGAG
Found at i:55267077 original size:126 final size:126
Alignment explanation
Indices: 55266934--55267199 Score: 315
Period size: 126 Copynumber: 2.1 Consensus size: 126
55266924 TTTTGTTTTT
* * * *
55266934 TTTTTCTACAATGGTTCCTGAAAAAATAATTTTGAGAAGACGA-TTTTGAAA-AGATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-GAGTTCT-AAACAAATAATGTAAA
* * * *
55266997 AAACGCTTCAAGT-AGGATGCACTGTCAGCAAAATTATTAAAAAAAGCTCCCACGTG-GACACTC
64 AAACGCTCCAA-TCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAG-CACTC
* * *
55267060 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGATAGTTCTAAACAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGAGTTCTAAACAAATAATGTAAAAA
* * * * **
55267125 ATGCTCCAATCAGGATGTATTGTCAGCAAAAATACTGAAAAAAGCTCCCACATGAGTGCTC
66 ACGCTCCAATCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAGCACTC
55267186 TTTTTCTACAGTAG
1 TTTTTCTACAGTAG
55267200 CTCTTGTTTG
Statistics
Matches: 119, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
125 5 0.04
126 113 0.95
127 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGAGAGTTCTAAACAAATAATGTAAAAA
ACGCTCCAATCAGGATGCACTGTCAGCAAAAATACTAAAAAAAGCTCCCACATGAGCACTC
Found at i:55268815 original size:26 final size:24
Alignment explanation
Indices: 55268786--55268842 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
55268776 GAAAGAAAAG
*
55268786 ATATAAATAAGTA-AATAATAATATT
1 ATATAAAT-AGTAGAATAACAA-ATT
*
55268811 AATATTAATAGTAGAATAACAAATT
1 -ATATAAATAGTAGAATAACAAATT
55268836 ATATAAA
1 ATATAAA
55268843 GTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 6 0.22
25 7 0.26
26 14 0.52
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (24 bp):
ATATAAATAGTAGAATAACAAATT
Found at i:55268881 original size:14 final size:13
Alignment explanation
Indices: 55268859--55268898 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 13
55268849 AAAAGAAAAG
55268859 ATATATATATAAATA
1 ATATATA-AT-AATA
55268874 ATTATATAATAATA
1 A-TATATAATAATA
55268888 ATATATAATAA
1 ATATATAATAA
55268899 GAAAAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 5 0.21
15 3 0.12
16 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATATAATAATA
Found at i:55271495 original size:126 final size:126
Alignment explanation
Indices: 55271270--55271655 Score: 562
Period size: 126 Copynumber: 3.1 Consensus size: 126
55271260 TAAGGCCAAA
* * * *
55271270 CAGGAACTACTGCAGAAAAAAAAGCGTTCACGTGGGAGC-TTTTTCA-TCAATTTTGCTGATAGT
1 CAGGAACTACTGTAG-AAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGT
* *
55271333 GCATCTTGCTTGAAGAGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
64 GCATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
55271396 CAGGAACTACAGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGTTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
55271461 ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
55271522 AAAGAACTATTGTAGAAAAAGAGTGTCCACATGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
55271587 ATCCTGCTTGAAACGTTTTTGACATTATCTT-TTCAGAACCGTATTCTCAAAATTATTTTTT
66 ATCTTGCTTGAAGCGTTTTTGACACTAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
55271648 CAGGAACT
1 CAGGAACT
55271656 GTAAAAACAA
Statistics
Matches: 235, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
125 21 0.09
126 211 0.90
127 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCTTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:55271779 original size:34 final size:34
Alignment explanation
Indices: 55271722--55271850 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 34
55271712 CACAAAATTA
*
55271722 TTTTTAAAAAA--CTAAACCATAATTTAATTAAT
1 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
55271754 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
1 TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
* * * * * *
55271788 TTTATTTAAAACCCCTAAAACCTAATTTAATAAAG
1 TTT-TTAAAAAACTCTAAACCCTAATTTAATTAAT
*
55271823 TTTTAAAAAAACTCTAAACCCTAATTTA
1 TTTTTAAAAAACTCTAAACCCTAATTTA
55271851 TTCCCTAAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
32 11 0.13
34 43 0.52
35 28 0.34
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.38
Consensus pattern (34 bp):
TTTTTAAAAAACTCTAAACCCTAATTTAATTAAT
Found at i:55277753 original size:3 final size:3
Alignment explanation
Indices: 55277745--55277775 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
55277735 AGTCCTTTCA
55277745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
55277776 CGAGCTTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:55278578 original size:7 final size:7
Alignment explanation
Indices: 55278562--55278601 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
55278552 ACACACATCT
55278562 ATTTCCC
1 ATTTCCC
*
55278569 ATTTCTC
1 ATTTCCC
55278576 ATTTCCC
1 ATTTCCC
55278583 ATTTCCC
1 ATTTCCC
55278590 ATTTCCC
1 ATTTCCC
55278597 ATTTC
1 ATTTC
55278602 ATGTATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.47
Consensus pattern (7 bp):
ATTTCCC
Found at i:55281264 original size:5 final size:5
Alignment explanation
Indices: 55281254--55281280 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
55281244 ATGATAATGA
55281254 AGCGG AGCGG AGCGG AGCGG AGCGG AG
1 AGCGG AGCGG AGCGG AGCGG AGCGG AG
55281281 ATGAATGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.59, T:0.00
Consensus pattern (5 bp):
AGCGG
Found at i:55281964 original size:22 final size:21
Alignment explanation
Indices: 55281938--55282009 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
55281928 AATTTATTAA
55281938 GTTTAGGGTTTAAAGG-TTTTAG
1 GTTTAGGGTTT--AGGATTTTAG
* * * *
55281960 GTTTAGAGTTTGTGGTTTTTAA
1 GTTTAGGGTTT-AGGATTTTAG
55281982 GTTTAGGG-TTAGGATTTTAG
1 GTTTAGGGTTTAGGATTTTAG
55282002 GTTTAGGG
1 GTTTAGGG
55282010 CTTGGGGTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 15 0.37
21 4 0.10
22 22 0.54
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAGGATTTTAG
Found at i:55282019 original size:42 final size:43
Alignment explanation
Indices: 55281934--55282034 Score: 134
Period size: 42 Copynumber: 2.3 Consensus size: 43
55281924 TTAAAATTTA
* *
55281934 TTAAGTTTAGGGTTTAAAGGTTTTAGGTTTAGAGTTTGTGGTTT
1 TTAAGTTTAGGGTTT-AAGGTTTTAGGTTTAGAGCTTGGGGTTT
*
55281978 TTAAGTTTAGGG-TT-AGGATTTTAGGTTTAGGGCTTGGGGTTT
1 TTAAGTTTAGGGTTTAAGG-TTTTAGGTTTAGAGCTTGGGGTTT
*
55282020 TTAAGTTTAGAGTTT
1 TTAAGTTTAGGGTTT
55282035 GGGGTTTGGG
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
41 3 0.06
42 32 0.63
43 4 0.08
44 12 0.24
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.49
Consensus pattern (43 bp):
TTAAGTTTAGGGTTTAAGGTTTTAGGTTTAGAGCTTGGGGTTT
Found at i:55282027 original size:22 final size:22
Alignment explanation
Indices: 55281954--55282041 Score: 90
Period size: 22 Copynumber: 4.1 Consensus size: 22
55281944 GGTTTAAAGG
* *
55281954 TTTTAGGTTTAGAGTTTGTGGT
1 TTTTAAGTTTAGAGTTTGGGGT
* * *
55281976 TTTTAAGTTTAG-GGTT-AGGA
1 TTTTAAGTTTAGAGTTTGGGGT
* * *
55281996 TTTTAGGTTTAGGGCTTGGGGT
1 TTTTAAGTTTAGAGTTTGGGGT
55282018 TTTTAAGTTTAGAGTTTGGGGT
1 TTTTAAGTTTAGAGTTTGGGGT
55282040 TT
1 TT
55282042 GGGTTTTTAA
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
20 13 0.25
21 6 0.11
22 34 0.64
ACGTcount: A:0.16, C:0.01, G:0.33, T:0.50
Consensus pattern (22 bp):
TTTTAAGTTTAGAGTTTGGGGT
Found at i:55282047 original size:42 final size:42
Alignment explanation
Indices: 55281955--55282047 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
55281945 GTTTAAAGGT
* * * *
55281955 TTTAGGTTTAGAGTTTGTGGTTTTTAAGTTTAGGGTTAGGAT
1 TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
* * *
55281997 TTTAGGTTTAGGGCTTGGGGTTTTTAAGTTTAGAGTTTGGGG
1 TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
*
55282039 TTTGGGTTT
1 TTTAGGTTT
55282048 TTAAGTTTAG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.15, C:0.01, G:0.34, T:0.49
Consensus pattern (42 bp):
TTTAGGTTTAGAGCTTGGGGTTTTTAAGTTTAGAGTTAGGAG
Found at i:55282060 original size:21 final size:21
Alignment explanation
Indices: 55282025--55282083 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
55282015 GGTTTTTAAG
*
55282025 TTTAGAGTTTGGGGTTT-GGGTT
1 TTTA-AGTTTAGGGTTTAGGG-T
55282047 TTTAAGTTTAGGGTTTAGGGT
1 TTTAAGTTTAGGGTTTAGGGT
*
55282068 TTTAGGTTTAGGGTTT
1 TTTAAGTTTAGGGTTT
55282084 TTAAGTTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 27 0.79
22 7 0.21
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.51
Consensus pattern (21 bp):
TTTAAGTTTAGGGTTTAGGGT
Found at i:55282067 original size:28 final size:28
Alignment explanation
Indices: 55281997--55282069 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
55281987 GGGTTAGGAT
*
55281997 TTTA-GGTTTAGGGCTTGGGGTTTTTAAG
1 TTTAGGGTTTAGGG-TTTGGGTTTTTAAG
* *
55282025 TTTAGAGTTTGGGGTTTGGGTTTTTAAG
1 TTTAGGGTTTAGGGTTTGGGTTTTTAAG
55282053 TTTAGGGTTTAGGGTTT
1 TTTAGGGTTTAGGGTTT
55282070 TAGGTTTAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 32 0.82
29 7 0.18
ACGTcount: A:0.14, C:0.01, G:0.36, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTAGGGTTTGGGTTTTTAAG
Found at i:55282086 original size:15 final size:15
Alignment explanation
Indices: 55282053--55282084 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
55282043 GGTTTTTAAG
55282053 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
55282068 TTTA-GGTTTAGGGT
1 TTTAGGGTTTAGGGT
55282082 TTT
1 TTT
55282085 TAAGTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:55282099 original size:21 final size:21
Alignment explanation
Indices: 55282075--55282142 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
55282065 GGTTTTAGGT
*
55282075 TTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTTTAAGTTAAGGG
** *
55282096 TTAGCATTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
55282117 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
55282138 TTAGG
1 TTAGG
55282143 ATTAGGGTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGG
Found at i:55282743 original size:18 final size:18
Alignment explanation
Indices: 55282720--55282759 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
55282710 GACTCGGAAA
* *
55282720 AGGATACATATAAGGGTT
1 AGGATACATAAAAGGGCT
55282738 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
55282756 AGGA
1 AGGA
55282760 AATGAACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:55283420 original size:7 final size:7
Alignment explanation
Indices: 55283410--55283438 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
55283400 TTATATACAT
55283410 AATACTA
1 AATACTA
55283417 AATACTA
1 AATACTA
55283424 AATACTA
1 AATACTA
55283431 AATACTA
1 AATACTA
55283438 A
1 A
55283439 TTACCAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:55284663 original size:11 final size:12
Alignment explanation
Indices: 55284647--55284690 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
55284637 ATTAAATATG
55284647 AATTTGAGA-GA
1 AATTTGAGAGGA
55284658 AATTTG-GAAGGA
1 AATTTGAG-AGGA
55284670 AA-TTGAGAGGA
1 AATTTGAGAGGA
55284681 AATTTGAGAG
1 AATTTGAGAG
55284691 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:55285952 original size:40 final size:40
Alignment explanation
Indices: 55285900--55285988 Score: 124
Period size: 40 Copynumber: 2.2 Consensus size: 40
55285890 CGTTTGGATA
* * * *
55285900 AAAAACGTCACTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
* *
55285940 AAAAACGCCACTATAGGTTAACCATTAGCGGCGCTTTTTG
1 AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
55285980 AAAAACGCC
1 AAAAACGCC
55285989 GCAAAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (40 bp):
AAAAACGCCACTATAGATCAACCATTAGCGGCGCTTTTTG
Found at i:55286372 original size:7 final size:7
Alignment explanation
Indices: 55286362--55286410 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
55286352 TATCTTTATA
55286362 GTTTAGG
1 GTTTAGG
*
55286369 GTTTATG
1 GTTTAGG
*
55286376 GTTTAAG
1 GTTTAGG
** *
55286383 GTACATG
1 GTTTAGG
55286390 GTTTAGG
1 GTTTAGG
55286397 GTTTAGG
1 GTTTAGG
55286404 GTTTAGG
1 GTTTAGG
55286411 AGTTACTATT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:55286379 original size:14 final size:14
Alignment explanation
Indices: 55286356--55286509 Score: 73
Period size: 14 Copynumber: 10.8 Consensus size: 14
55286346 ATTAATTATC
*
55286356 TTTATAGTTTAGGG
1 TTTATGGTTTAGGG
*
55286370 TTTATGGTTTAAGG
1 TTTATGGTTTAGGG
**
55286384 TACATGGTTTAGGG
1 TTTATGGTTTAGGG
*
55286398 TTTAGGGTTTAGGAG
1 TTTATGGTTTAGG-G
*
55286413 TTACTAT--TTTAAGG
1 TT--TATGGTTTAGGG
*
55286427 TTTATGGATTATGGG
1 TTTATGGTTTA-GGG
* * *
55286442 TTTA-GAGATTATGA
1 TTTATG-GTTTAGGG
* * * *
55286456 ATTATAGATTATGG
1 TTTATGGTTTAGGG
55286470 TTTATGGTTTAAGGG
1 TTTATGGTTT-AGGG
* *
55286485 -TTAGGGGCTTAGGG
1 TTTA-TGGTTTAGGG
55286499 TTTATGGTTTA
1 TTTATGGTTTA
55286510 TGTTTTATGA
Statistics
Matches: 104, Mismatches: 25, Indels: 22
0.69 0.17 0.15
Matches are distributed among these distances:
12 3 0.03
14 70 0.67
15 29 0.28
17 2 0.02
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:55286511 original size:43 final size:43
Alignment explanation
Indices: 55286464--55286545 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
55286454 GAATTATAGA
* *
55286464 TTATGGTTTATGGTTTAAGGGTTAGGGGCTTAGGGTTTATGGT
1 TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTATGGT
* *
55286507 TTATGTTTTATGATTCAGGGGTTAGGGGCTTAGGGTTTA
1 TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTA
55286546 GATTAATTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.17, C:0.04, G:0.35, T:0.44
Consensus pattern (43 bp):
TTATGGTTTATGATTCAAGGGTTAGGGGCTTAGGGTTTATGGT
Found at i:55288677 original size:115 final size:115
Alignment explanation
Indices: 55288475--55288691 Score: 310
Period size: 115 Copynumber: 1.9 Consensus size: 115
55288465 ACGCCGCAAA
* * * * *
55288475 AGCGCCGCAAAATATTTGAACCAAAATGCATCGTTTTGGTATTGATGTATACTAGAATTAGTGGC
1 AGCGCCACAAAATATCTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGGC
* * * *
55288540 GTTTATGGTAAAACGCCGCTAAAGCATAGTATTAGCGACGATTCTTTGCT
66 GCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCGACGATTCTTTGCT
* *
55288590 AGCGCCACAAAATATCCT-AACTAAAAGGCAGCGTTTTGGTCTTGATGTATACTAAAATTAGTGG
1 AGCGCCACAAAATAT-CTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGG
*
55288654 CGCTTACGGGAAACCGCCGCTAAAGAATAGTATTAGCG
65 CGCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCG
55288692 GCGCTTTCAT
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
115 88 0.99
116 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (115 bp):
AGCGCCACAAAATATCTGAACCAAAAGGCAGCGTTTTGGTATTGATGTATACTAAAATTAGTGGC
GCTTACGGGAAAACGCCGCTAAAGAATAGTATTAGCGACGATTCTTTGCT
Found at i:55288994 original size:114 final size:114
Alignment explanation
Indices: 55288700--55288996 Score: 320
Period size: 113 Copynumber: 2.6 Consensus size: 114
55288690 CGGCGCTTTC
** *
55288700 ATCTTAACCAAAACGCATAGTTTT-AACTTGATGTATACTAGAATTAGTGGCGCTTACTAGAAAA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTACTAGAAAA
* * *
55288764 CGCCGTTAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGTCGCAACAT
66 CGCCG-CAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
** * *
55288814 ATCTTAA-CAAAACGCGGAG-TTTGGTCTTGAGGTAT-GTTAGAATTAGTGGCGCTTA-TAGGAA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTT-GAATTAGTGGCGCTTACTA-GAA
* * ***
55288875 AACGCCGCAACTGGATAGTATTAGCGGCGCTTTG-CGGAAGCGCCGCAAAAT
64 AACGCCGCAA-AGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
* * * * *
55288926 ATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTTACGTTG-AA
1 ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTAC-TAGAAA
55288990 ACGCCGC
65 ACGCCGC
55288997 CAAAACGCAA
Statistics
Matches: 150, Mismatches: 24, Indels: 18
0.78 0.12 0.09
Matches are distributed among these distances:
112 26 0.17
113 75 0.50
114 45 0.30
115 3 0.02
116 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
ATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTTGAATTAGTGGCGCTTACTAGAAAA
CGCCGCAAAGCATAGTATTAGCGGCGCTTTGTAAAAAGCGCCGCAAAAT
Found at i:55289079 original size:84 final size:84
Alignment explanation
Indices: 55288918--55289080 Score: 222
Period size: 84 Copynumber: 1.9 Consensus size: 84
55288908 GCGGAAGCGC
* * ** *
55288918 CGCAAAATATCTGAACCAAAACGCATCGTTTTGGTCTCGATGTATACTTCAATTAGTGGCGCTTA
1 CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCACTTA
*
55288983 CGTTGAAACGCCGCCAAAA
66 CGGTGAAACGCCGCCAAAA
*
55289002 CGCAAAATACCTTAACCAAAACGCAGCGTTTTGGTCGT-GATGTATACTAAAATTAGTGGCACTT
1 CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTC-TCGATGTATACTAAAATTAGTGGCACTT
*
55289066 AGGGT-AAACCGCCGC
65 ACGGTGAAA-CGCCGC
55289081 GAAAGCATAT
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 3 0.04
84 65 0.94
85 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (84 bp):
CGCAAAATACCTGAACCAAAACGCAGCGTTTTGGTCTCGATGTATACTAAAATTAGTGGCACTTA
CGGTGAAACGCCGCCAAAA
Found at i:55289473 original size:15 final size:14
Alignment explanation
Indices: 55289427--55289490 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
55289417 AGAGTTTTGA
55289427 GTTTAGGGTTTA-T
1 GTTTAGGGTTTAGT
* * *
55289440 GATGTAGGTTTTGGT
1 G-TTTAGGGTTTAGT
55289455 GTTTAGGGTTTAGT
1 GTTTAGGGTTTAGT
*
55289469 AGTTTGGGGTTTAAG-
1 -GTTTAGGGTTT-AGT
55289484 GTTTAGG
1 GTTTAGG
55289491 CTCTGGGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
13 1 0.03
14 24 0.62
15 12 0.31
16 2 0.05
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTAGT
Found at i:55290459 original size:23 final size:23
Alignment explanation
Indices: 55290431--55290498 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
55290421 CCCCACTCTG
*
55290431 ATTTCCCCAATTTCATTTCCCTA
1 ATTTCCCCAATTTCATTTCCCCA
*
55290454 ATTT-CCC-ATTTCCTATTCCCCCA
1 ATTTCCCCAATTT-C-ATTTCCCCA
*
55290477 ACTTCCCCAATTTCATTTCCCC
1 ATTTCCCCAATTTCATTTCCCC
55290499 CCAATTCCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
23 21 0.57
24 4 0.11
25 4 0.11
ACGTcount: A:0.19, C:0.41, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTTCCCCAATTTCATTTCCCCA
Found at i:55290496 original size:24 final size:23
Alignment explanation
Indices: 55290433--55290507 Score: 82
Period size: 25 Copynumber: 3.2 Consensus size: 23
55290423 CCACTCTGAT
*
55290433 TTCCCCAATTTCATTT-CCCTAA
1 TTCCCCAATTTCATTTCCCCCAA
* *
55290455 TTTCCC-ATTTCCTATTCCCCCAA
1 TTCCCCAATTTCAT-TTCCCCCAA
55290478 CTTCCCCAATTTCATTTCCCCCCAA
1 -TTCCCCAATTTCATTT-CCCCCAA
55290503 TTCCC
1 TTCCC
55290508 TTTCCCCCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 6 0.14
22 7 0.16
23 5 0.12
24 12 0.28
25 13 0.30
ACGTcount: A:0.19, C:0.44, G:0.00, T:0.37
Consensus pattern (23 bp):
TTCCCCAATTTCATTTCCCCCAA
Found at i:55290522 original size:16 final size:17
Alignment explanation
Indices: 55290481--55290523 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
55290471 CCCCCAACTT
*
55290481 CCCCAATTT-CATTTCC
1 CCCCAATTTCCCTTTCC
55290497 CCCCAA-TTCCCTTT-C
1 CCCCAATTTCCCTTTCC
55290512 CCCCAATTTCCC
1 CCCCAATTTCCC
55290524 CGATTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (17 bp):
CCCCAATTTCCCTTTCC
Done.