Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 206 of 332
Found at i:68511233 original size:92 final size:92
Alignment explanation
Indices: 68511076--68511245 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
68511066 GGATGATTGA
*
68511076 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
*
68511141 TGAGTCTGAGTTCGTGAATGTAACTAG
66 TGAGTCCGAGTTCGTGAATGTAACTAG
*
68511168 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
68511232 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68511246 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 2 0.03
92 72 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:68518184 original size:30 final size:30
Alignment explanation
Indices: 68518148--68518206 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
68518138 TCCCGAGCCT
68518148 AGGGGCAAAAATGTAATTATGCAAAAGTTA
1 AGGGGCAAAAATGTAATTATGCAAAAGTTA
* * *
68518178 AGGGGCAAAATTGTAATTTTGCCAAAGTT
1 AGGGGCAAAAATGTAATTATGCAAAAGTT
68518207 TGAGTTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (30 bp):
AGGGGCAAAAATGTAATTATGCAAAAGTTA
Found at i:68518681 original size:46 final size:46
Alignment explanation
Indices: 68518625--68518800 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
68518615 TGATTGAGCA
68518625 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
68518671 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68518716 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68518764 -CCCAAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68518801 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.06
46 59 0.54
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68518781 original size:93 final size:93
Alignment explanation
Indices: 68518622--68518792 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
68518612 GGATGATTGA
* * *
68518622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
68518687 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
68518715 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAA-CTCATTGAG
68518779 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68518793 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCCAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:68520774 original size:39 final size:38
Alignment explanation
Indices: 68520743--68520822 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
68520733 TATATGTCCA
*
68520743 GCACGTAGCCTGCGGACCTAAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACCTAAAGTCCGGATAT-ATTCTC
* *
68520782 GCATATAGCCTGCGGACCTGAAGTCCGGATATAATTCTC
1 GCACATAGCCTGCGGACCTAAAGTCCGGATAT-ATTCTC
68520821 GC
1 GC
68520823 GTATATATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (38 bp):
GCACATAGCCTGCGGACCTAAAGTCCGGATATATTCTC
Found at i:68524290 original size:28 final size:29
Alignment explanation
Indices: 68524259--68524320 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
68524249 CTATCAGAAG
* *
68524259 TAAATAA-AAAA-AAAATTAGTAATTAAAA
1 TAAATAACAAAATAAAATT-GCAATAAAAA
*
68524287 TAAA-AACAAAATTAAATTGCAATAAAAA
1 TAAATAACAAAATAAAATTGCAATAAAAA
68524315 TAAATA
1 TAAATA
68524321 TGGCTAAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.07
28 20 0.71
29 6 0.21
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (29 bp):
TAAATAACAAAATAAAATTGCAATAAAAA
Found at i:68524304 original size:22 final size:23
Alignment explanation
Indices: 68524260--68524314 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
68524250 TATCAGAAGT
68524260 AAATAAAAAAAAAATTAGTAATTA
1 AAATAAAAAAAAAATTAG-AATTA
* *
68524284 AAATAAAAACAAAATTA-AATTG
1 AAATAAAAAAAAAATTAGAATTA
*
68524306 CAATAAAAA
1 AAATAAAAA
68524315 TAAATATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 12 0.43
24 16 0.57
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATAAAAAAAAAATTAGAATTA
Found at i:68526291 original size:38 final size:38
Alignment explanation
Indices: 68526249--68526326 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
68526239 AATGATTCAA
68526249 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
1 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
68526287 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
1 TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
68526325 TT
1 TT
68526327 TAAGTTATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (38 bp):
TTACATAGAAACTGACATTCTTTAGATCTTATGCATGT
Found at i:68526310 original size:21 final size:21
Alignment explanation
Indices: 68526249--68526310 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
68526239 AATGATTCAA
68526249 TTACATAGAAACTGACATTCT
1 TTACATAGAAACTGACATTCT
* *** *
68526270 TTAGAT-CTTA-TG-CA-TGT
1 TTACATAGAAACTGACATTCT
68526287 TTACATAGAAACTGACATTCT
1 TTACATAGAAACTGACATTCT
68526308 TTA
1 TTA
68526311 GATCTTATGC
Statistics
Matches: 27, Mismatches: 10, Indels: 8
0.60 0.22 0.18
Matches are distributed among these distances:
17 7 0.26
18 3 0.11
19 4 0.15
20 3 0.11
21 10 0.37
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (21 bp):
TTACATAGAAACTGACATTCT
Found at i:68531330 original size:37 final size:37
Alignment explanation
Indices: 68531276--68531371 Score: 156
Period size: 37 Copynumber: 2.6 Consensus size: 37
68531266 CATGTGAAAC
** *
68531276 AGGTTTAGCCCAAATGAGTAACTTGGTGTCGTTTTAT
1 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
68531313 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
1 AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
*
68531350 AGGTTTAGCCCGGATGGGTAAC
1 AGGTTTAGCCCGGATGAGTAAC
68531372 CTTACATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (37 bp):
AGGTTTAGCCCGGATGAGTAACTTGGTGTCATTTTAT
Found at i:68534671 original size:49 final size:49
Alignment explanation
Indices: 68534587--68534770 Score: 242
Period size: 49 Copynumber: 3.7 Consensus size: 49
68534577 GGTCACGTGT
* * *
68534587 TAGTACTAAGTGCAGGCTACTACGTGTGCAGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATGTG
* * * * *
68534636 TAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTCTGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-T-TGGTCGCATGTG
*
68534687 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATGTG
* * *
68534736 CAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
68534771 GCCTTGTCTA
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 71 0.62
50 2 0.02
51 42 0.37
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATTGGTCGCATGTG
Found at i:68534760 original size:100 final size:99
Alignment explanation
Indices: 68534579--68534770 Score: 339
Period size: 100 Copynumber: 1.9 Consensus size: 99
68534569 TATTGTGAGG
* *
68534579 TCACGTGTTAGTACTAAGTGCAGGCTACTACGTGTGCAGGATAATTGGTCGCATGTGTAGTACTA
1 TCACGTGTTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGCAGTACTA
*
68534644 AGTGCAGGCTACTATGCGTACCCGATAACTCTGA
66 AGTGCAGGCTACTATGCGTACCAGATAACTCTGA
*
68534678 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGCAGTACT
1 TCACGTGT-TAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGCAGTACT
68534743 AAGTGCAGGCTACTATGCGTACCAGATA
65 AAGTGCAGGCTACTATGCGTACCAGATA
68534771 GCCTTGTCTA
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 8 0.09
100 80 0.91
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (99 bp):
TCACGTGTTAGTACTAAGTGCAGGCTACTACGTGTACAGGATAATTGGTCGCATGTGCAGTACTA
AGTGCAGGCTACTATGCGTACCAGATAACTCTGA
Found at i:68535678 original size:35 final size:35
Alignment explanation
Indices: 68535639--68535708 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
68535629 GGACTTACTA
68535639 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
1 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
*
68535674 AGCGTAAAGCTTACTCATCCTCTCCATTTCTTTAG
1 AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
68535709 TATTGGAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (35 bp):
AGCGTAAAGCTTACCCATCCTCTCCATTTCTTTAG
Found at i:68550261 original size:54 final size:54
Alignment explanation
Indices: 68550092--68550288 Score: 220
Period size: 55 Copynumber: 3.6 Consensus size: 54
68550082 AACTTACCAT
* *
68550092 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCA-CTAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AA
** * ** * * * *
68550145 TGCCATACCTTGGCATGGTCTTACATGGGACCCTTTCCATAGAGTAACTCATCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAG-AACTCATCAA
* * *
68550200 TGCCATGTCTTGACATGGTCTTACATAATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
68550254 TGCCATGTCTTGGA-ATGGTCTTACATGATATCCTT
1 TGCCATGTCTT-GACATGGTCTTACATGATATCCTT
68550289 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
53 33 0.28
54 40 0.34
55 43 0.37
56 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:68550321 original size:47 final size:47
Alignment explanation
Indices: 68550268--68550388 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
68550258 ATGTCTTGGA
* * * *
68550268 ATGGTCTTACATGATATCCTTATCTTACCAAATGTCAAGTTCCTAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
*
68550315 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
*
68550362 ATGGTCTTACATGGTATCATTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
68550389 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAAC
Found at i:68550522 original size:92 final size:94
Alignment explanation
Indices: 68550313--68550524 Score: 220
Period size: 95 Copynumber: 2.3 Consensus size: 94
68550303 CAAGTTCCTA
* * *
68550313 ACATGGTCTTACATGGTATCCTT-GTCTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGT
1 ACATGGTCTTACATGGTATCCTTAATCATACCAAATGCCATGTTCCAAACATGGTCTTACAAGGT
*
68550377 ATCATTGTCTTAGTGCCAATGCCACATCTTG
66 ATCATTGCCTTA--GCCAATGCCACATCTTG
** * * **
68550408 ATGTGGTCTTACATGG-AGTCCTTAATCAATGCC-GATGCCATG-TCTTAACATGGTCTTACACA
1 ACATGGTCTTACATGGTA-TCCTTAATC-ATACCAAATGCCATGTTCCAAACATGGTCTTACA-A
* **
68550470 GG-ATCCTTGCCTTA-CCAATGCCATGTCTTG
63 GGTATCATTGCCTTAGCCAATGCCACATCTTG
68550500 ACATGGTCTTACATGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
68550525 CTGTCAATTC
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
92 35 0.36
93 1 0.01
94 1 0.01
95 45 0.46
96 12 0.12
97 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (94 bp):
ACATGGTCTTACATGGTATCCTTAATCATACCAAATGCCATGTTCCAAACATGGTCTTACAAGGT
ATCATTGCCTTAGCCAATGCCACATCTTG
Found at i:68559342 original size:11 final size:11
Alignment explanation
Indices: 68559328--68559372 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
68559318 AGATAAATAT
68559328 TATTTTATTAA
1 TATTTTATTAA
*
68559339 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
68559352 TATTTTATTAT
1 TATTTTATTAA
68559363 TATTTTATTA
1 TATTTTATTA
68559373 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:68561510 original size:46 final size:46
Alignment explanation
Indices: 68561443--68561670 Score: 341
Period size: 46 Copynumber: 5.0 Consensus size: 46
68561433 AGTGTGCTCT
*
68561443 CTGATATGAAATGTGCAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
68561489 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
68561535 CTAATATGAAATGTGTAAGACCATGGTTGGAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
68561581 CTGATATGAGATGTGTAAGACCATGGTTGAAACATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
68561627 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
68561671 TCACGTCAAA
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 164 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:68567586 original size:14 final size:15
Alignment explanation
Indices: 68567559--68567587 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68567549 TTTACCGGTC
68567559 AACCAACACATCACA
1 AACCAACACATCACA
68567574 AACCAAC-CATCACA
1 AACCAACACATCACA
68567588 CTAATCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.52, C:0.41, G:0.00, T:0.07
Consensus pattern (15 bp):
AACCAACACATCACA
Found at i:68568977 original size:69 final size:69
Alignment explanation
Indices: 68568866--68569004 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
68568856 AATCGTGGTG
68568866 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
1 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
68568931 ATAT
66 ATAT
68568935 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
1 AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
68569000 ATAT
66 ATAT
68569004 A
1 A
68569005 ACATATTACA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (69 bp):
AGCAATCAAGCATAATTCATAGCATTTACTTTGATATGTTGGCACAATATGATTATGAAGCATAT
ATAT
Found at i:68569126 original size:22 final size:22
Alignment explanation
Indices: 68569098--68569145 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
68569088 TATACTCTCT
* *
68569098 AACACAACCATTATAGCCACTA
1 AACACAACCAATATACCCACTA
* *
68569120 AACACAACTAATATACCCTCTA
1 AACACAACCAATATACCCACTA
68569142 AACA
1 AACA
68569146 TATCCACTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (22 bp):
AACACAACCAATATACCCACTA
Found at i:68570744 original size:11 final size:11
Alignment explanation
Indices: 68570708--68570748 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
68570698 TATTAGTTTA
*
68570708 TTATTATTATT
1 TTATTTTTATT
* *
68570719 TTAATTATATT
1 TTATTTTTATT
68570730 TTATTTTTATT
1 TTATTTTTATT
68570741 TTATTTTT
1 TTATTTTT
68570749 TCATGCTCTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:68571630 original size:21 final size:21
Alignment explanation
Indices: 68571573--68571641 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
68571563 TCCATATGAC
* *
68571573 CGTGTGTCTCCTTTCACACGGG
1 CGTGTGCCTCC-TTCACATGGG
* * **
68571595 CATGTGCATTTTTCACATGGG
1 CGTGTGCCTCCTTCACATGGG
*
68571616 CGTGTGCCTCCTTCACATGGT
1 CGTGTGCCTCCTTCACATGGG
68571637 CGTGT
1 CGTGT
68571642 AGACCTCCAC
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
21 30 0.83
22 6 0.17
ACGTcount: A:0.12, C:0.28, G:0.26, T:0.35
Consensus pattern (21 bp):
CGTGTGCCTCCTTCACATGGG
Found at i:68584597 original size:47 final size:48
Alignment explanation
Indices: 68584531--68584655 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 48
68584521 ATTATGTGCT
*
68584531 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATT-AT-GA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG--AC-TTAATGGATGAGCC
68584577 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTAATGGATGAGCC
*
68584624 AGTGTAAGACCATGTCTGGAACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
68584656 TATTCTACCC
Statistics
Matches: 71, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
44 2 0.03
45 4 0.06
46 11 0.15
47 48 0.68
48 6 0.08
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGACTTAATGGATGAGCC
Found at i:68595544 original size:41 final size:41
Alignment explanation
Indices: 68595487--68595569 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
68595477 TTTAAACATC
* **
68595487 TTAAATGTGTGTCTTAAATACTGTAATTTAATTATGTGTCT
1 TTAAATGCGTGTCTTAAATACTACAATTTAATTATGTGTCT
* *
68595528 TTAAATGCGTGTCTTAAATACTACACTTTAATTATGTTTCT
1 TTAAATGCGTGTCTTAAATACTACAATTTAATTATGTGTCT
68595569 T
1 T
68595570 AGTTTTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.12, T:0.48
Consensus pattern (41 bp):
TTAAATGCGTGTCTTAAATACTACAATTTAATTATGTGTCT
Found at i:68596541 original size:33 final size:33
Alignment explanation
Indices: 68596504--68596569 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
68596494 CCCTTCCTTC
68596504 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
1 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
68596537 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
1 TTCCTTTATTATCCATCAAACCACTTTTTCAAA
68596570 GCCTCTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (33 bp):
TTCCTTTATTATCCATCAAACCACTTTTTCAAA
Found at i:68598872 original size:46 final size:46
Alignment explanation
Indices: 68598805--68598978 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
68598795 TGTAACCCGC
68598805 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
68598851 CCATAAGTGAACTCGGACTCAACTCAACGA-CTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGC-TCGG--G-C--GTTCGCAT
* * * * *
68598901 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
68598944 CCATAAGTG-ACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
68598979 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 28 0.27
46 34 0.32
47 25 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:68598920 original size:93 final size:92
Alignment explanation
Indices: 68598812--68598982 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
68598802 CGCCCATAAG
* * *
68598812 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTG-ACTCGGACTCAACTCA
68598877 ACGACTTCGGATGCCTAGTTACATCTCA
65 ACGACTTCGGATGCCTAGTTACATCTCA
*
68598905 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGACTCGGACTCAACTCAA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGACTCGGACTCAACTCAA
*
68598970 CGAGTTCGGATGC
66 CGACTTCGGATGC
68598983 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 29 0.40
93 44 0.60
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGACTCGGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATCTCA
Found at i:68598998 original size:45 final size:45
Alignment explanation
Indices: 68598815--68598999 Score: 107
Period size: 45 Copynumber: 4.0 Consensus size: 45
68598805 CCATAAGCGA
* ** * *
68598815 ACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGTG
1 ACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TAAGTG
* * *
68598860 AACTCGGACTCAACTCAACGACTTCGGATGC-CTAGTTA-CATCTCACG-A
1 -ACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AAGTG
* * * *
68598908 ACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA--TAAGTG
1 ACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAAGTG
68598953 ACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT-AGTG
1 ACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAAGTG
68598998 AC
1 AC
68599000 ATGTCACTTG
Statistics
Matches: 107, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
43 8 0.07
44 2 0.02
45 33 0.31
46 26 0.24
47 26 0.24
48 1 0.01
49 7 0.07
50 4 0.04
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (45 bp):
ACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAAGTG
Found at i:68606883 original size:23 final size:23
Alignment explanation
Indices: 68606857--68606901 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
68606847 TTTTAAAATT
68606857 ATAAA-TTAATAATTATTATTATC
1 ATAAATTTAATAA-TATTATTATC
*
68606880 ATAAATTTATTAATATTATTAT
1 ATAAATTTAATAATATTATTAT
68606902 TATTTCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAATTTAATAATATTATTATC
Found at i:68607422 original size:24 final size:24
Alignment explanation
Indices: 68607375--68607423 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
68607365 TATCATAAAT
* *
68607375 AATATATTATAATAAGAAATTATA
1 AATATATTATAATAAAAAAATATA
68607399 AATATATTA-AATCAAAAAAATATA
1 AATATATTATAAT-AAAAAAATATA
68607423 A
1 A
68607424 TAACCTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 19 0.86
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATATTATAATAAAAAAATATA
Found at i:68608332 original size:19 final size:19
Alignment explanation
Indices: 68608287--68608338 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
68608277 TAATAAATCA
* *
68608287 TATAAAAAAT-AAAATTAT
1 TATAAAATATAAAAATAAT
*
68608305 TAATTAAATATAAAAATAAT
1 T-ATAAAATATAAAAATAAT
*
68608325 TATAAAATTTAAAA
1 TATAAAATATAAAA
68608339 TGATTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.04
19 18 0.67
20 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TATAAAATATAAAAATAAT
Found at i:68609128 original size:3 final size:3
Alignment explanation
Indices: 68609120--68609188 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
68609110 GTTAGCTAGC
68609120 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
68609168 TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT
68609189 AAGAATCTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:68610193 original size:14 final size:15
Alignment explanation
Indices: 68610176--68610204 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
68610166 GAAATTAATC
68610176 AAATTAAAT-TATAA
1 AAATTAAATATATAA
68610190 AAATTAAATATATAA
1 AAATTAAATATATAA
68610205 CTTTTCGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTAAATATATAA
Found at i:68610579 original size:30 final size:31
Alignment explanation
Indices: 68610541--68610621 Score: 114
Period size: 29 Copynumber: 2.7 Consensus size: 31
68610531 GTAATTAATT
68610541 AATTTTTTAAAAATTTAAAAATATTTTTA-A
1 AATTTTTTAAAAATTTAAAAATATTTTTATA
* *
68610571 ACTTTTTTAATAATTT--AAATATTTTTATA
1 AATTTTTTAAAAATTTAAAAATATTTTTATA
*
68610600 AATTTTTTAAAATTTTAAAAAT
1 AATTTTTTAAAAATTTAAAAAT
68610622 TAATTAATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 11 0.26
29 14 0.33
30 14 0.33
31 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
AATTTTTTAAAAATTTAAAAATATTTTTATA
Found at i:68611280 original size:28 final size:28
Alignment explanation
Indices: 68611240--68611305 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
68611230 ATCTTTATCT
*
68611240 TCAACATTTTACTTTTATTTATATAAAA
1 TCAATATTTTACTTTTATTTATATAAAA
68611268 TCAATATTTTACTTTTATTTATATAAAA
1 TCAATATTTTACTTTTATTTATATAAAA
68611296 TCAAT-TTTTA
1 TCAATATTTTA
68611306 TTACATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (28 bp):
TCAATATTTTACTTTTATTTATATAAAA
Found at i:68611768 original size:79 final size:78
Alignment explanation
Indices: 68611637--68611795 Score: 309
Period size: 79 Copynumber: 2.0 Consensus size: 78
68611627 TTATTCATCA
68611637 TACTTCTTTGAAGTAAATCGAGGATATATTTTCTTTGATTAAGAAAAAGACCTTTTAGAGTGTAG
1 TACTTCTTTGAAGTAAATCGAGGATATATTTTCTTTGATTAAGAAAAAGACCTTTTAGAGTGTAG
68611702 GTTACCTCAATTCC
66 G-TACCTCAATTCC
68611716 TACTTCTTTGAAGTAAATCGAGGATATATTTTCTTTGATTAAGAAAAAGACCTTTTAGAGTGTAG
1 TACTTCTTTGAAGTAAATCGAGGATATATTTTCTTTGATTAAGAAAAAGACCTTTTAGAGTGTAG
68611781 GTACCTCAATTCC
66 GTACCTCAATTCC
68611794 TA
1 TA
68611796 GAAAGTAGCT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 14 0.17
79 66 0.82
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (78 bp):
TACTTCTTTGAAGTAAATCGAGGATATATTTTCTTTGATTAAGAAAAAGACCTTTTAGAGTGTAG
GTACCTCAATTCC
Found at i:68616657 original size:18 final size:18
Alignment explanation
Indices: 68616617--68616650 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
68616607 CATGTTGTCA
68616617 GCCCATGTGGGCCCACAC
1 GCCCATGTGGGCCCACAC
*
68616635 ACCCATGT-GGCCCACA
1 GCCCATGTGGGCCCACA
68616651 TGGCCCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (18 bp):
GCCCATGTGGGCCCACAC
Found at i:68628712 original size:19 final size:20
Alignment explanation
Indices: 68628683--68628721 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
68628673 TAGATTTGCA
68628683 ATTCTTAGAAAATAAAATTT
1 ATTCTTAGAAAATAAAATTT
68628703 ATTC-TAGAAAATAAAATTT
1 ATTCTTAGAAAATAAAATTT
68628722 CACTACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTCTTAGAAAATAAAATTT
Found at i:68635092 original size:17 final size:17
Alignment explanation
Indices: 68635070--68635102 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
68635060 TTAGAGCCTC
68635070 GGCCAAATATCGCCTAG
1 GGCCAAATATCGCCTAG
68635087 GGCCAAATATCGCCTA
1 GGCCAAATATCGCCTA
68635103 AGATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.18
Consensus pattern (17 bp):
GGCCAAATATCGCCTAG
Found at i:68635294 original size:20 final size:20
Alignment explanation
Indices: 68635265--68635305 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
68635255 ATGTTTTTCA
68635265 CATTCGTCTACTCTT-CTTCC
1 CATTCGTCTACT-TTGCTTCC
*
68635285 CATTCTTCTACTTTGCTTCC
1 CATTCGTCTACTTTGCTTCC
68635305 C
1 C
68635306 GTTCCCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.10, C:0.39, G:0.05, T:0.46
Consensus pattern (20 bp):
CATTCGTCTACTTTGCTTCC
Found at i:68643185 original size:46 final size:46
Alignment explanation
Indices: 68643135--68643310 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
68643125 TGATTGAGCA
68643135 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
68643181 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
68643226 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
68643274 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68643311 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:68643291 original size:93 final size:93
Alignment explanation
Indices: 68643132--68643303 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
68643122 GGATGATTGA
*
68643132 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
68643197 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
68643225 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
68643289 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
68643304 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:68650204 original size:15 final size:15
Alignment explanation
Indices: 68650184--68650216 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
68650174 GTGATTTTTG
68650184 ATGAATTTGCTTATT
1 ATGAATTTGCTTATT
68650199 ATGAATTTGCTTATT
1 ATGAATTTGCTTATT
68650214 ATG
1 ATG
68650217 GACTAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.15, T:0.52
Consensus pattern (15 bp):
ATGAATTTGCTTATT
Found at i:68651850 original size:26 final size:26
Alignment explanation
Indices: 68651821--68651876 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
68651811 TGATACAAAT
68651821 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
68651847 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
68651873 TGAT
1 TGAT
68651877 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:68661521 original size:6 final size:6
Alignment explanation
Indices: 68661503--68661586 Score: 84
Period size: 6 Copynumber: 13.7 Consensus size: 6
68661493 AAGAAACATT
68661503 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGGTA A-CAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
68661552 ATCAGA ATCAGT ATCAAGTA A-CAGA ATCAAA ATCA
1 ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCA
68661587 TAATGTGAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
5 5 0.07
6 52 0.78
7 7 0.10
8 3 0.04
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:68661545 original size:37 final size:37
Alignment explanation
Indices: 68661503--68661586 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
68661493 AAGAAACATT
*
68661503 ATCAGAA-CTAGAATCAGAATCAGAATCAGGTAACAGA
1 ATCAGAATC-AGAATCAGAATCAGAATCAAGTAACAGA
*
68661540 ATCAGAATCAGAATCAGAATCAGTATCAAGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAAGTAACAGA
*
68661577 ATCAAAATCA
1 ATCAGAATCA
68661587 TAATGTGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 42 0.98
38 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (37 bp):
ATCAGAATCAGAATCAGAATCAGAATCAAGTAACAGA
Found at i:68661577 original size:31 final size:29
Alignment explanation
Indices: 68661487--68661586 Score: 110
Period size: 31 Copynumber: 3.3 Consensus size: 29
68661477 TAACCCATTA
* * *
68661487 CAGAATAAGAAACATTATCAGAACTAGAAT
1 CAGAATCAGAATCAGTATCAGAAC-AGAAT
*
68661517 CAGAATCAGAATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCA-GTATCAGAA-CAGAAT
68661548 CAGAATCAGAATCAGTATCAAGTAACAGAAT
1 CAGAATCAGAATCAGTATC-AG-AACAGAAT
*
68661579 CAAAATCA
1 CAGAATCA
68661587 TAATGTGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
30 16 0.27
31 41 0.68
32 3 0.05
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (29 bp):
CAGAATCAGAATCAGTATCAGAACAGAAT
Found at i:68662106 original size:54 final size:54
Alignment explanation
Indices: 68662031--68662135 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
68662021 GGTAAAATGG
* * **
68662031 TAATTTTACCCTATAAAGGTATCTCGATAATTCTACCTTACAGGGGTATTTTAA
1 TAATTCTACCCTATAAAGGTATCTCGATAATTCTACCCTACAAAGGTATTTTAA
** * * *
68662085 TAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAAGGTATTT
1 TAATTCTACCCTATAAAGGTATCTCGATAATTCTACCCTACAAAGGTATTT
68662136 CGGTATTTCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (54 bp):
TAATTCTACCCTATAAAGGTATCTCGATAATTCTACCCTACAAAGGTATTTTAA
Found at i:68662167 original size:27 final size:27
Alignment explanation
Indices: 68662033--68662167 Score: 110
Period size: 27 Copynumber: 5.0 Consensus size: 27
68662023 TAAAATGGTA
* * * *
68662033 ATTT-TACCCTATAAAGGTATCTCGAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * * ***
68662059 AATTCTACCTTACAGGGGTATTTTAAT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
68662086 AATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
*
68662113 ATTTCTACCCTACAAAGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
* * *
68662140 ATTTCTACCTTACAATGGTATTTTGGT
1 ATTTCTACCCTACAAGGGTATTTCGGT
68662167 A
1 A
68662168 ATTTTGTAAA
Statistics
Matches: 88, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
26 3 0.03
27 85 0.97
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTCTACCCTACAAGGGTATTTCGGT
Found at i:68662242 original size:27 final size:27
Alignment explanation
Indices: 68662212--68662468 Score: 189
Period size: 27 Copynumber: 9.5 Consensus size: 27
68662202 AAATTAGGGG
* *** *
68662212 TATTTTGGTAATTTTACATGTCGAGGA
1 TATTTTAGTAATTTTACAAACCAAGGA
* * *** *
68662239 TATTTCAATAATTTTACAGGTCGAGGA
1 TATTTTAGTAATTTTACAAACCAAGGA
* * *
68662266 TATTTTAATAATTTCACAAACCAAGGG
1 TATTTTAGTAATTTTACAAACCAAGGA
* *
68662293 TATTTTGGTAATTTTACAAACCAAGGG
1 TATTTTAGTAATTTTACAAACCAAGGA
* * *
68662320 TATTTTAGTAATTTTACAAATCAGGGG
1 TATTTTAGTAATTTTACAAACCAAGGA
* *
68662347 TATTTT-GATAATTTTATAAA-CAAAGA
1 TATTTTAG-TAATTTTACAAACCAAGGA
*
68662373 GTGTTTTAGTAATTTTACAAACC-AGGA
1 -TATTTTAGTAATTTTACAAACCAAGGA
* ** *
68662400 GTATTTTGGTAATTTTGTAAACCAAGGG
1 -TATTTTAGTAATTTTACAAACCAAGGA
* *
68662428 TATTTTGGTAATTTTACAAACTAAAGG-
1 TATTTTAGTAATTTTACAAAC-CAAGGA
*
68662455 TATTTTGGTAATTT
1 TATTTTAGTAATTT
68662469 GGTAAACTAA
Statistics
Matches: 192, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 4 0.02
27 179 0.93
28 9 0.05
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
TATTTTAGTAATTTTACAAACCAAGGA
Found at i:68662324 original size:81 final size:80
Alignment explanation
Indices: 68662209--68662468 Score: 220
Period size: 81 Copynumber: 3.2 Consensus size: 80
68662199 TGTAAATTAG
** * * **
68662209 GGGTATTTTGGTAATTTTACATGTCGAGGATATTTCAATAATTTTACAGGTC-GAGGATATTTTA
1 GGGTATTTTGGTAATTTTACA-AACCAGGGTATTTCAATAATTTTACAAATCAG-GGATATTTTA
*
68662273 ATAATTTCACAAACCAA
64 ATAATTTCACAAACAAA
* * * *
68662290 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCAGGGGTATTTTGA
1 GGGTATTTTGGTAATTTTACAAACC-AGGGTATTTCAATAATTTTACAAATCAGGGATATTTTAA
* *
68662355 TAATTTTATAAACAAA
65 TAATTTCACAAACAAA
* * * *** ** * *
68662371 GAGTGTTTTAGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTGTAAACCAAGGG-TATTTTG
1 GGGTATTTTGGTAATTTTACAAACCAGG-GTATTTCAATAATTTTACAAATC-AGGGATATTTTA
* *
68662435 GTAATTTTACAAACTAAA
64 ATAATTTCACAAAC-AAA
68662453 -GGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
68662469 GGTAAACTAA
Statistics
Matches: 149, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.03
81 137 0.92
82 8 0.05
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAACCAGGGTATTTCAATAATTTTACAAATCAGGGATATTTTAAT
AATTTCACAAACAAA
Found at i:68662475 original size:54 final size:54
Alignment explanation
Indices: 68662266--68662468 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
68662256 AGGTCGAGGA
* * * *
68662266 TATTTTAATAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAACCAAGGG
1 TATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAAGGG
* * * *
68662320 TATTTTAGTAATTTTACAAA-TCAGGGGTATTTTGATAATTTTATAAACAAAGAG
1 TATTTTAGTAATTTTACAAACT-AAGGGTATTTTGGTAATTTTATAAACCAAGGG
* * *
68662374 TGTTTTAGTAATTTTACAAAC-CAGGAGTATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTAGTAATTTTACAAACTAAGG-GTATTTTGGTAATTTTATAAACCAAGGG
* *
68662428 TATTTTGGTAATTTTACAAACTAAAGGTATTTTGGTAATTT
1 TATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTT
68662469 GGTAAACTAA
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 122 0.97
55 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.40
Consensus pattern (54 bp):
TATTTTAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTATAAACCAAGGG
Found at i:68669346 original size:146 final size:150
Alignment explanation
Indices: 68669063--68669362 Score: 482
Period size: 146 Copynumber: 2.0 Consensus size: 150
68669053 GAATCATCCC
* *
68669063 CATTCTGCAGAATATAAGATAAAATAAAAACTACACAACACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTACACAACACAGAATGCTACCAAAAGTATCAATG
*
68669128 TCCGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAATTTTTTCTTTGAAGAACGTAAAATT
66 T-C-CTACCATAT--AATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
68669193 CAAGCCTAAAATCAGTGAAATCAA
127 CAAGCCTAAAATCAGTGAAATCAA
* *
68669217 CATTCTGCAGAATATAAGATAAAATAAAAACTATACACCACAGAATGCTACCAAAAGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTACACAACACAGAATGCTACCAAAAGTATCAATG
*
68669282 T-CT-GC-TAT-ATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAG
66 TCCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAG
68669343 CCTAAAATCAGTGAAATCAA
131 CCTAAAATCAGTGAAATCAA
68669363 TCTATCTTAC
Statistics
Matches: 140, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
146 72 0.51
149 3 0.02
150 1 0.01
151 2 0.01
154 62 0.44
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.25
Consensus pattern (150 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTACACAACACAGAATGCTACCAAAAGTATCAATG
TCCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAAG
CCTAAAATCAGTGAAATCAA
Found at i:68670408 original size:8 final size:8
Alignment explanation
Indices: 68670397--68670431 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
68670387 ATATTAAATA
68670397 TTAAATTT
1 TTAAATTT
*
68670405 TT-AAGTT
1 TTAAATTT
68670412 TTAAATTT
1 TTAAATTT
68670420 TTAAATTT
1 TTAAATTT
68670428 TTAA
1 TTAA
68670432 CATATAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (8 bp):
TTAAATTT
Found at i:68670428 original size:15 final size:15
Alignment explanation
Indices: 68670390--68670428 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
68670380 AACTAAAATA
*
68670390 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
*
68670405 TTAAGTTTTAAATTT
1 TTAAATTTTAAATTT
68670420 TTAAATTTT
1 TTAAATTTT
68670429 TAACATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:68670611 original size:28 final size:28
Alignment explanation
Indices: 68670574--68670627 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
68670564 AAATTTATTT
*
68670574 TTATATTTTAGAGTTTATGATTTATGGG
1 TTATAGTTTAGAGTTTATGATTTATGGG
* *
68670602 TTATAGTTTAGGGTTTGTGATTTATG
1 TTATAGTTTAGAGTTTATGATTTATG
68670628 ATCTACAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (28 bp):
TTATAGTTTAGAGTTTATGATTTATGGG
Found at i:68670637 original size:28 final size:28
Alignment explanation
Indices: 68670580--68670639 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
68670570 ATTTTTATAT
* *
68670580 TTTAGAGTTTATGATTTATGGGTTATAG
1 TTTAGAGTTTATGATTTATGGATTACAG
* *
68670608 TTTAGGGTTTGTGATTTAT-GATCTACAG
1 TTTAGAGTTTATGATTTATGGAT-TACAG
68670636 TTTA
1 TTTA
68670640 TGGGGTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.07
28 25 0.93
ACGTcount: A:0.23, C:0.03, G:0.23, T:0.50
Consensus pattern (28 bp):
TTTAGAGTTTATGATTTATGGATTACAG
Found at i:68670683 original size:14 final size:14
Alignment explanation
Indices: 68670666--68670704 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
68670656 GTTTTAGGGC
68670666 TTGGGGTTTAAGAA
1 TTGGGGTTTAAGAA
** *
68670680 TTGGGGTTTGGGAT
1 TTGGGGTTTAAGAA
68670694 TTGGGGTTTAA
1 TTGGGGTTTAA
68670705 AGATTAAAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (14 bp):
TTGGGGTTTAAGAA
Found at i:68670740 original size:22 final size:22
Alignment explanation
Indices: 68670715--68670808 Score: 88
Period size: 22 Copynumber: 4.3 Consensus size: 22
68670705 AGATTAAAGT
68670715 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
68670737 TTTAA-GGTTTAAGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
68670759 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
68670780 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
68670802 TTTAAGG
1 TTTAAGG
68670809 TCTAGTGTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
20 2 0.04
21 20 0.35
22 25 0.44
23 10 0.18
ACGTcount: A:0.26, C:0.01, G:0.28, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:68670870 original size:66 final size:66
Alignment explanation
Indices: 68670771--68670899 Score: 213
Period size: 66 Copynumber: 2.0 Consensus size: 66
68670761 AAGGTTTATC
* * *
68670771 GTTTATAGTTTTAAGGGTTTATGATTTGAGATTTAAGGTCTAGTGTTTAAAGAGTTATCAATTAG
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTATCAATTAG
68670836 T
66 T
* *
68670837 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTGGGGGTTAAAGAGTTATTAATT
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTATCAATT
68670900 TAAGAGGTTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.29, C:0.02, G:0.25, T:0.44
Consensus pattern (66 bp):
GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAAGGTCTAGGGGTTAAAGAGTTATCAATTAG
T
Found at i:68670874 original size:22 final size:22
Alignment explanation
Indices: 68670697--68670874 Score: 69
Period size: 22 Copynumber: 8.1 Consensus size: 22
68670687 TTGGGATTTG
* * *
68670697 GGGTTTAAAGATTAAAGTTTTAA
1 GGGTTT-ATGATTAGAGATTTAA
*
68670720 GGGTTTATGATTTGAGATTTAA
1 GGGTTTATGATTAGAGATTTAA
* * * *
68670742 -GGTTTAAGGTGTTGGGA-TTAA
1 GGGTTTATGAT-TAGAGATTTAA
* * *
68670763 -GGTTTATCGTTTATAGTTTTAA
1 GGGTTTAT-GATTAGAGATTTAA
*
68670785 GGGTTTATGATTTGAGATTTAA
1 GGGTTTATGATTAGAGATTTAA
* * * *
68670807 -GGTCTAGTGTTTAAAGAGTT-A
1 GGGTTTA-TGATTAGAGATTTAA
**** * * *
68670828 TCAATTAGTGTTTATAGTTTTAA
1 GGGTTTA-TGATTAGAGATTTAA
68670851 GGGTTTATGATTAGAGATTTAA
1 GGGTTTATGATTAGAGATTTAA
68670873 GG
1 GG
68670875 TCTGGGGGTT
Statistics
Matches: 112, Mismatches: 36, Indels: 15
0.69 0.22 0.09
Matches are distributed among these distances:
21 26 0.23
22 69 0.62
23 17 0.15
ACGTcount: A:0.29, C:0.02, G:0.26, T:0.44
Consensus pattern (22 bp):
GGGTTTATGATTAGAGATTTAA
Found at i:68671472 original size:40 final size:40
Alignment explanation
Indices: 68671442--68671534 Score: 186
Period size: 40 Copynumber: 2.3 Consensus size: 40
68671432 CATTTTTAAA
68671442 AAAGCGCCGCTAAAACTCAAGCTATTGTGGCGTTTTCCAC
1 AAAGCGCCGCTAAAACTCAAGCTATTGTGGCGTTTTCCAC
68671482 AAAGCGCCGCTAAAACTCAAGCTATTGTGGCGTTTTCCAC
1 AAAGCGCCGCTAAAACTCAAGCTATTGTGGCGTTTTCCAC
68671522 AAAGCGCCGCTAA
1 AAAGCGCCGCTAA
68671535 TGCCTTTGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAGCGCCGCTAAAACTCAAGCTATTGTGGCGTTTTCCAC
Found at i:68671624 original size:41 final size:40
Alignment explanation
Indices: 68671568--68671656 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 40
68671558 CGGCGCTTTT
* *
68671568 TGCTCAATCTTTAGCGGCACTTTCTTAAAGACGTCGCTAA
1 TGCTCAATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
*
68671608 TGCTCAGATCTTTAGCGGCGCTTTCTTAAAAACGCCGCTAA
1 TGCTCA-ATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
*
68671649 TACTCAAT
1 TGCTCAAT
68671657 ATATTCAATT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 8 0.18
41 36 0.82
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (40 bp):
TGCTCAATCTTTAGCGGCACTTTCTTAAAAACGCCGCTAA
Found at i:68672674 original size:56 final size:56
Alignment explanation
Indices: 68672588--68672700 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
68672578 TAAAATGTTG
68672588 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
1 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
68672644 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
1 AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
68672700 A
1 A
68672701 CCCACATCAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (56 bp):
AATAAGATGCTTTTAATAAAAACTAAGTGTAGACTGCAGATGTCCCCAGAACAATC
Found at i:68674610 original size:14 final size:14
Alignment explanation
Indices: 68674591--68674633 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
68674581 TCAAAGGGAT
68674591 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
*
68674605 GGAGATTTAGAGAT
1 GGAGATTTAGAGAA
68674619 GGAGATTTAGAGAA
1 GGAGATTTAGAGAA
68674633 G
1 G
68674634 CAGGAAATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.37, T:0.23
Consensus pattern (14 bp):
GGAGATTTAGAGAA
Found at i:68675428 original size:8 final size:8
Alignment explanation
Indices: 68675415--68675440 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
68675405 TAAATCTAAC
68675415 ATTTAAAT
1 ATTTAAAT
68675423 ATTTAAAT
1 ATTTAAAT
68675431 ATTTAAAT
1 ATTTAAAT
68675439 AT
1 AT
68675441 ATCAAATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTAAAT
Found at i:68675768 original size:21 final size:23
Alignment explanation
Indices: 68675727--68675776 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 23
68675717 GATTTAGGCC
*
68675727 TAAACCCCTAACCTTTTGAACCA
1 TAAACCCCTAACCTCTTGAACCA
68675750 TAAACCCC-AACC-CTTGAACCA
1 TAAACCCCTAACCTCTTGAACCA
68675771 TAAACC
1 TAAACC
68675777 ATAATCTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.54
22 4 0.15
23 8 0.31
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.20
Consensus pattern (23 bp):
TAAACCCCTAACCTCTTGAACCA
Found at i:68676100 original size:40 final size:40
Alignment explanation
Indices: 68676050--68676173 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
68676040 TTTTGTAGCG
* * * *
68676050 TTTTCTAAAAAGCGCAGCTAATGCTCGATCTATAGCG-GCGT
1 TTTTC-AAAAAGCGCCGCTAATGGTCGACCCATAGCGAGC-T
*
68676091 TTTTCAAAAAGCACCGCTAATGGTCGACCCATAGCGATGCT
1 TTTTCAAAAAGCGCCGCTAATGGTCGACCCATAGCGA-GCT
*
68676132 TTTT-AAAAAGCGCCGCTAATGGTCGACCCATAGC-AACT
1 TTTTCAAAAAGCGCCGCTAATGGTCGACCCATAGCGAGCT
68676170 TTTT
1 TTTT
68676174 TTGTCCAAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
38 6 0.08
39 1 0.01
40 55 0.74
41 10 0.14
42 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (40 bp):
TTTTCAAAAAGCGCCGCTAATGGTCGACCCATAGCGAGCT
Found at i:68676861 original size:66 final size:67
Alignment explanation
Indices: 68676738--68676873 Score: 238
Period size: 66 Copynumber: 2.0 Consensus size: 67
68676728 GTATTAGTTA
*
68676738 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTTATCTTACTTTTTGTGCAAAAACCAAAA
1 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
68676803 AG
66 AG
* *
68676805 AATCTTAAGTAATGAATGATTCAATA-TTACTTTGTTCATCTTACTTTTTGTGCAAAAACCAAAA
1 AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
68676869 AG
66 AG
68676871 AAT
1 AAT
68676874 AATTATACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
66 41 0.62
67 25 0.38
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (67 bp):
AATCTTAAGTAATGAATGACTCAATACTTACTATGTTCATCTTACTTTTTGTGCAAAAACCAAAA
AG
Found at i:68681144 original size:70 final size:70
Alignment explanation
Indices: 68681012--68681143 Score: 171
Period size: 70 Copynumber: 1.9 Consensus size: 70
68681002 TTGAATAAGA
* * *
68681012 AAAGGTAAAATTATGTCGTTTTGATAAATGTTTATCTTTTCTAACGATAAAAATTAAAATTATTA
1 AAAGGTAAAATTATATCGTTTTGATAAATGTTTATCTTGTCTAACGATAAAAATAAAAATTATTA
68681077 AGTTT
66 AGTTT
* * * * *
68681082 AAAGGTAAAATTATATTGTTTTGATAATTGTTTAT-TTGT-TAA-GTTAAAAGTCAAAATTATTA
1 AAAGGTAAAATTATATCGTTTTGATAAATGTTTATCTTGTCTAACGATAAAAATAAAAATTATTA
68681144 TATTATTTAT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 17 0.31
68 3 0.05
69 3 0.05
70 32 0.58
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.44
Consensus pattern (70 bp):
AAAGGTAAAATTATATCGTTTTGATAAATGTTTATCTTGTCTAACGATAAAAATAAAAATTATTA
AGTTT
Found at i:68681529 original size:33 final size:33
Alignment explanation
Indices: 68681487--68681554 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
68681477 TAGTTAAGTA
68681487 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
68681520 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
1 TGATTGAGAGGCATGATGATTGGCTTATTTCAG
68681553 TG
1 TG
68681555 GCAGCTGCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.09, G:0.31, T:0.37
Consensus pattern (33 bp):
TGATTGAGAGGCATGATGATTGGCTTATTTCAG
Found at i:68692332 original size:18 final size:18
Alignment explanation
Indices: 68692292--68692334 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
68692282 GAATATTGTA
*
68692292 ATAATAATAATCATCATT
1 ATAATAATAATCATCAAT
*
68692310 ATAATAATAA-CATTAAT
1 ATAATAATAATCATCAAT
68692327 ATTAATAA
1 A-TAATAA
68692335 CCATATCATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATAATAATCATCAAT
Found at i:68692455 original size:18 final size:17
Alignment explanation
Indices: 68692428--68692469 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
68692418 ACATGAAAAT
68692428 ATAAAAAATAATAAGAA
1 ATAAAAAATAATAAGAA
*
68692445 ATAATAAAATAATGAGAA
1 ATAA-AAAATAATAAGAA
*
68692463 AGAAAAA
1 ATAAAAA
68692470 TAACGATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.17
Consensus pattern (17 bp):
ATAAAAAATAATAAGAA
Found at i:68692716 original size:15 final size:16
Alignment explanation
Indices: 68692696--68692728 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
68692686 AAATAAATAC
68692696 AATAATACATA-AAAA
1 AATAATACATATAAAA
*
68692711 AATAATATATATAAAA
1 AATAATACATATAAAA
68692727 AA
1 AA
68692729 ATCTACACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (16 bp):
AATAATACATATAAAA
Found at i:68694487 original size:45 final size:44
Alignment explanation
Indices: 68694378--68694500 Score: 95
Period size: 45 Copynumber: 2.8 Consensus size: 44
68694368 GCTTCGATCC
* * * * ** * *
68694378 ACTCCATTGCCACTTCAAGGAGATAAGATTCGTAGCTTCAATCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTTTAACCT
* * *
68694422 GCTCCGCTACAACTTCAGGGAGATAAGATTTGTGATTTTTAACCT
1 ACTCCACTGCAACTTCAGGGAGATAAGATTTGT-ATTTTTAACCT
** *
68694467 GTTTCACTGCAACTTCAGGGAGATAA-AGTTTGTA
1 ACTCCACTGCAACTTCAGGGAGATAAGA-TTTGTA
68694501 GCTAAATTTT
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
44 28 0.45
45 34 0.55
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTCCACTGCAACTTCAGGGAGATAAGATTTGTATTTTTAACCT
Found at i:68694583 original size:45 final size:44
Alignment explanation
Indices: 68694508--68695149 Score: 288
Period size: 45 Copynumber: 14.0 Consensus size: 44
68694498 GTAGCTAAAT
* *
68694508 TTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * * *
68694552 TTTGCTATCTTCAATCTACTCCATTGCAACTTTAGGGAGATAAAA
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * ** *
68694597 TTTGTTATTTTTAACCTGTTCCACTACAACTTCA-AGGAGATAA-A
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGA-GAGATAAGA
* * * * ** *
68694641 GTTTGTAGCTTTAATATGCTCTACTGCTGCTTCAGAGAGACAAGA
1 -TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * *
68694686 TTTGCTAT-TTTCAATCTACTCCACTGCAAATTCAGGGAGATAATA
1 TTTG-TATCTTT-AATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
68694731 TTTGTTATTTTTAACCTGCTCCACTGCAACTTCAG-GAAGATAAGG
1 TTTG-TATCTTTAATCTACTCCACTGCAACTTCAGAG-AGATAAGA
** *
68694776 TTTGTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
68694820 TTTGTAGCCTGTAGCTTTAGTCTATTCCACTGCAACTTCAGGGAGATAAAA
1 TTTGTA-----T--CTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
** * * *
68694871 CTTGCTATGGTAGATTTGATCTGAC-CTACTGCAACTTCAGAG-GTATAGGA
1 --T--T-T-GTATCTTTAATCT-ACTCCACTGCAACTTCAGAGAG-ATAAGA
* * *
68694921 -CT-TATCATTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TTTGTATC-TTT-AATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * * **
68694965 TTCGCCATTATAACTTCAATC--CGTCCCATTGCAGCTTCAGAG-GTATGGGA
1 TTTG----TAT--CTTTAATCTAC-T-CCACTGCAACTTCAGAGAG-ATAAGA
* * *
68695015 TTTGTA-ATTCAATCTACTCTACTGCAACTTCACG-GAGATAAGA
1 TTTGTATCTTTAATCTACTCCACTGCAACTTCA-GAGAGATAAGA
* * * * * *
68695058 TTTGTTATTTTTTTAACCTGCTCCACTGCAATTTCAGGGAGATAAGG
1 TTTG-TA--TCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
* * * *
68695105 TTTGTGA-CTTCAATCTGCTCCACTACAACTTTAG-GAGATAAGA
1 TTTGT-ATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
68695148 TT
1 TT
68695150 CGCCATAATG
Statistics
Matches: 448, Mismatches: 100, Indels: 101
0.69 0.15 0.16
Matches are distributed among these distances:
42 2 0.00
43 41 0.09
44 127 0.28
45 137 0.31
46 7 0.02
47 33 0.07
48 1 0.00
49 3 0.01
50 53 0.12
51 37 0.08
52 1 0.00
53 1 0.00
55 1 0.00
56 1 0.00
57 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
TTTGTATCTTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
Found at i:68694709 original size:89 final size:88
Alignment explanation
Indices: 68694515--68694827 Score: 233
Period size: 89 Copynumber: 3.5 Consensus size: 88
68694505 AATTTTGTAG
* * * * * *
68694515 CTTTAATCTACTCTACTGCAACTTCAGAGAGAT-AAGATTTGCTATCTTCAATC-TACTCCATTG
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAAG-TTTG-TAGCTTTAA-CATGCTCCACTG
* * * * *
68694578 CAACTTTAGGGAGATAAAATTTGTTA
63 CAACTTCAGGAAGACAAGATTTGTGA
* * ** * * * * *
68694604 TTTTTAACCTGTTCCACTACAACTTCAAGGAGATAAAGTTTGTAGCTTTAATATGCTCTACTGCT
1 -CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAAGTTTGTAGCTTTAACATGCTCCACTGCA
*
68694669 GCTTCA-GAGAGACAAGATTTGCT-A
65 ACTTCAGGA-AGACAAGATTTG-TGA
* * ** *
68694693 TTTTCAATCTACTCCACTGCAAATTCAGGGAGATAATA-TTTGTTATTTTTAACCTGCTCCACTG
1 CTTT-AATCTACTCCACTGCAACTTCAGGGAGATAA-AGTTTG-TAGCTTTAACATGCTCCACTG
* * *
68694757 CAACTTCAGGAAGATAAGGTTTGTGG
63 CAACTTCAGGAAGACAAGATTTGTGA
68694783 CTTTAATCTACTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGC
1 CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAAG-TTTGTAGC
68694828 CTGTAGCTTT
Statistics
Matches: 172, Mismatches: 40, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
87 1 0.01
88 8 0.05
89 92 0.53
90 66 0.38
91 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (88 bp):
CTTTAATCTACTCCACTGCAACTTCAGGGAGATAAAGTTTGTAGCTTTAACATGCTCCACTGCAA
CTTCAGGAAGACAAGATTTGTGA
Found at i:68694748 original size:134 final size:134
Alignment explanation
Indices: 68694503--68694823 Score: 473
Period size: 134 Copynumber: 2.4 Consensus size: 134
68694493 AGTTTGTAGC
*
68694503 TAAATTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATC
1 TAAAGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATC
* * * *
68694568 TACTCCATTGCAACTTTAGGGAGATAAAATTTGTTATTTTTAACCTGTTCCACTACAACTTCAAG
66 TACTCCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTC-AG
68694633 G-AGA
130 GAAGA
* * ** * *
68694637 TAAAGTTTGTAGCTTTAATATGCTCTACTGCTGCTTCAGAGAGACAAGATTTGCTATTTTCAATC
1 TAAAGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATC
* *
68694702 TACTCCACTGCAAATTCAGGGAGATAATATTTGTTATTTTTAACCTGCTCCACTGCAACTTCAGG
66 TACTCCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTCAGG
68694767 AAGA
131 AAGA
* * * *
68694771 TAAGGTTTGTGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTG
1 TAAAGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTG
68694824 TAGCCTGTAG
Statistics
Matches: 164, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
133 3 0.02
134 161 0.98
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (134 bp):
TAAAGTTTGTAGCTTTAATCTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATC
TACTCCACTGCAAATTCAGGGAGATAAAATTTGTTATTTTTAACCTGCTCCACTACAACTTCAGG
AAGA
Found at i:68695060 original size:43 final size:42
Alignment explanation
Indices: 68695013--68695149 Score: 121
Period size: 47 Copynumber: 3.1 Consensus size: 42
68695003 AGAGGTATGG
* *
68695013 GATTTGTAATTCAATCTACTCTACTGCAACTTCACGGAGATAA
1 GATTTGTAATTCAATCTGCTCCACTGCAACTTCA-GGAGATAA
* * * *
68695056 GATTTGTTATTTTTTTAACCTGCTCCACTGCAATTTCAGGGAGATAA
1 GATTTG-TA---ATTCAATCTGCTCCACTGCAACTTCA-GGAGATAA
* * * *
68695103 GGTTTGTGACTTCAATCTGCTCCACTACAACTTTAGGAGATAA
1 GATTTGT-AATTCAATCTGCTCCACTGCAACTTCAGGAGATAA
68695146 GATT
1 GATT
68695150 CGCCATAATG
Statistics
Matches: 74, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
43 17 0.23
44 22 0.30
46 1 0.01
47 34 0.46
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (42 bp):
GATTTGTAATTCAATCTGCTCCACTGCAACTTCAGGAGATAA
Found at i:68700249 original size:44 final size:41
Alignment explanation
Indices: 68700159--68700254 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 41
68700149 CTAGAGAAGG
*
68700159 TCTTACACGAAATCAAATAAGATGCCAACGTCCCAAATGTAG
1 TCTTACACGAAATCAAATAAGATGCCAACGTCCCAAATG-AC
*
68700201 TCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACATG-C
1 TCTTACACG-AAATCA-AA-TAAGATGCCAACGTCCCA-A-ATGAC
68700245 TCTTACACGA
1 TCTTACACGA
68700255 TAACACATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
42 9 0.19
43 7 0.15
44 26 0.55
45 2 0.04
46 3 0.06
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (41 bp):
TCTTACACGAAATCAAATAAGATGCCAACGTCCCAAATGAC
Found at i:68702968 original size:20 final size:20
Alignment explanation
Indices: 68702943--68703014 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 20
68702933 CCCAAAATCT
68702943 GTGCT-AACTGAAGCACATAA
1 GTGCTAAACTGAAGC-CATAA
* **
68702963 GTGCTAAACGGAAGCCCGAA
1 GTGCTAAACTGAAGCCATAA
*
68702983 G-GCT-AACTGAAGCTCATCA
1 GTGCTAAACTGAAGC-CATAA
* *
68703002 GAGCTGAACTGAA
1 GTGCTAAACTGAA
68703015 ACCCCAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
18 8 0.20
19 6 0.15
20 12 0.29
21 15 0.37
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (20 bp):
GTGCTAAACTGAAGCCATAA
Found at i:68721671 original size:20 final size:21
Alignment explanation
Indices: 68721623--68721664 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
68721613 ATCAAAAATA
*
68721623 ATAAGAAATAATAAAATAACG
1 ATAATAAATAATAAAATAACG
*
68721644 ATAATAAATAA-AAAATTACG
1 ATAATAAATAATAAAATAACG
68721664 A
1 A
68721665 AAGTAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (21 bp):
ATAATAAATAATAAAATAACG
Found at i:68721756 original size:14 final size:15
Alignment explanation
Indices: 68721703--68721755 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 15
68721693 TTAAATATGT
*
68721703 ATAAAAGAAGTAATA
1 ATAAAAGAAATAATA
*
68721718 CATAAATATAAATAGATA
1 -ATAAA-AGAAATA-ATA
68721736 ATAAAA-AAATAATA
1 ATAAAAGAAATAATA
68721750 ATAAAA
1 ATAAAA
68721756 ACAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 9 0.27
15 5 0.15
16 6 0.18
17 10 0.30
18 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (15 bp):
ATAAAAGAAATAATA
Found at i:68721768 original size:14 final size:14
Alignment explanation
Indices: 68721703--68721756 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
68721693 TTAAATATGT
*
68721703 ATAAAAGAAGTAATA
1 ATAAAA-AAATAATA
68721718 CATAAATATAAATAGATA
1 -ATAAA-A-AAATA-ATA
68721736 ATAAAAAAATAATA
1 ATAAAAAAATAATA
68721750 ATAAAAA
1 ATAAAAA
68721757 CAAATAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 10 0.29
15 5 0.15
16 6 0.18
17 10 0.29
18 3 0.09
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (14 bp):
ATAAAAAAATAATA
Found at i:68721855 original size:14 final size:14
Alignment explanation
Indices: 68721836--68721865 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
68721826 AAATAAATAC
68721836 AATAATACATAAAA
1 AATAATACATAAAA
*
68721850 AATAATATATAAAA
1 AATAATACATAAAA
68721864 AA
1 AA
68721866 AATCTACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAATACATAAAA
Found at i:68723372 original size:29 final size:28
Alignment explanation
Indices: 68723338--68723397 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
68723328 TTTTTAGCCA
* * *
68723338 TTTGGGCCCTGTAGGTTTTTATTTTTATT
1 TTTGGGCCCTGT-GATTTGTACTTTTATT
*
68723367 TTTGGGCCTTGTGATTTGTACTTTTATT
1 TTTGGGCCCTGTGATTTGTACTTTTATT
68723395 TTT
1 TTT
68723398 TTATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.10, C:0.10, G:0.20, T:0.60
Consensus pattern (28 bp):
TTTGGGCCCTGTGATTTGTACTTTTATT
Found at i:68724602 original size:31 final size:31
Alignment explanation
Indices: 68724566--68724625 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
68724556 TATTTTATTG
* *
68724566 TTAATTTTGTTATTATTTTAAAGATATTTTT
1 TTAATTTTGTTACTATTTTAAAGACATTTTT
*
68724597 TTAATTTTGTTACTATTTTAGAGACATTT
1 TTAATTTTGTTACTATTTTAAAGACATTT
68724626 ACTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.60
Consensus pattern (31 bp):
TTAATTTTGTTACTATTTTAAAGACATTTTT
Found at i:68724815 original size:19 final size:18
Alignment explanation
Indices: 68724793--68724833 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
68724783 TAAAAACAAA
*
68724793 TATTGGTTTTATTTTTTGT
1 TATTGATTTTATTTTTT-T
68724812 TATTGATTTTATTTTTTT
1 TATTGATTTTATTTTTTT
68724830 TATT
1 TATT
68724834 TGCGGTAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.15, C:0.00, G:0.10, T:0.76
Consensus pattern (18 bp):
TATTGATTTTATTTTTTT
Found at i:68739731 original size:23 final size:24
Alignment explanation
Indices: 68739687--68739742 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
68739677 TGAGTATTTA
*
68739687 AATGTATAT-ATTTAATTGAATTG
1 AATGTATATGATTTAATTAAATTG
*
68739710 AATGTATATGATTTGA-TAAATTG
1 AATGTATATGATTTAATTAAATTG
68739733 AAT-TAT-TGAT
1 AATGTATATGAT
68739743 CATTAAATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.60
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.46
Consensus pattern (24 bp):
AATGTATATGATTTAATTAAATTG
Found at i:68739961 original size:23 final size:24
Alignment explanation
Indices: 68739910--68739965 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
68739900 TCAGCTCGTA
* *
68739910 AGAGCTTACTGATTTCAGCTCATT
1 AGAGCTTACCGATTTCAGCTCAAT
* *
68739934 GGAGCTTACCG-TTTCAGCTTAAT
1 AGAGCTTACCGATTTCAGCTCAAT
68739957 AGAGCTTAC
1 AGAGCTTAC
68739966 TGCTCATTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (24 bp):
AGAGCTTACCGATTTCAGCTCAAT
Found at i:68740169 original size:20 final size:20
Alignment explanation
Indices: 68740146--68740236 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
68740136 GTGTTTATAT
68740146 GGATGAATTACTGTTAATAC
1 GGATGAATTACTGTTAATAC
*
68740166 GGATGAATTACTGTTATTAC
1 GGATGAATTACTGTTAATAC
* * * * *
68740186 TGATAAACTACTATTTATAC
1 GGATGAATTACTGTTAATAC
* *
68740206 GGATGAACTACTGGTT-ATAT
1 GGATGAATTACT-GTTAATAC
*
68740226 GAATGAATTAC
1 GGATGAATTAC
68740237 AATTTATACG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 55 0.96
21 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (20 bp):
GGATGAATTACTGTTAATAC
Found at i:68740242 original size:40 final size:38
Alignment explanation
Indices: 68740140--68740246 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 38
68740130 AGATATGTGT
* * *
68740140 TTATATGGATGAATTACTGTTAATACGGATGAATTACTG
1 TTATAT-GATGAATTACTATTTATACGGATGAACTACTG
* *
68740179 TTATTACTGATAAACTACTATTTATACGGATGAACTACTGG
1 TTA-TA-TGATGAATTACTATTTATACGGATGAACTACT-G
*
68740220 TTATATGAATGAATTACAATTTATACG
1 TTATATG-ATGAATTACTATTTATACG
68740247 AATAGAAATG
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.09
40 46 0.82
41 5 0.09
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (38 bp):
TTATATGATGAATTACTATTTATACGGATGAACTACTG
Found at i:68742284 original size:21 final size:22
Alignment explanation
Indices: 68742244--68742285 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
68742234 TTATTAATAT
*
68742244 AATAAATATAATTTATTATTTA
1 AATAAATATAATTTAATATTTA
*
68742266 AATAAAT-TTATTTAATATTT
1 AATAAATATAATTTAATATTT
68742286 CAATTTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATAAATATAATTTAATATTTA
Found at i:68742310 original size:12 final size:12
Alignment explanation
Indices: 68742293--68742331 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
68742283 TTTCAATTTT
68742293 ATTTTAATAATA
1 ATTTTAATAATA
68742305 ATTTTAAAAATAATA
1 ATTTT---AATAATA
68742320 ATTTTAATAATA
1 ATTTTAATAATA
68742332 TATTCACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 12 0.50
15 12 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
ATTTTAATAATA
Found at i:68742318 original size:15 final size:15
Alignment explanation
Indices: 68742298--68742331 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
68742288 ATTTTATTTT
68742298 AATAATAATTTTAAA
1 AATAATAATTTTAAA
*
68742313 AATAATAATTTTAAT
1 AATAATAATTTTAAA
68742328 AATA
1 AATA
68742332 TATTCACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATAATAATTTTAAA
Found at i:68742780 original size:31 final size:31
Alignment explanation
Indices: 68742745--68742808 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
68742735 AAAATAAAAT
68742745 CTCAAATATATGTTTGTTTAATTGAAAACAA
1 CTCAAATATATGTTTGTTTAATTGAAAACAA
68742776 CTCAAATATATGTTTGTTTAATTGAAAACAA
1 CTCAAATATATGTTTGTTTAATTGAAAACAA
68742807 CT
1 CT
68742809 TTTATGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (31 bp):
CTCAAATATATGTTTGTTTAATTGAAAACAA
Found at i:68742923 original size:14 final size:13
Alignment explanation
Indices: 68742904--68742942 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 13
68742894 CTAGAAAAGT
68742904 AAATCATTTTCCAG
1 AAATCATTTTCC-G
68742918 AAATCATTTTCCG
1 AAATCATTTTCCG
68742931 AAAGTCATTTTC
1 AAA-TCATTTTC
68742943 AGTGAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (13 bp):
AAATCATTTTCCG
Found at i:68746804 original size:2 final size:2
Alignment explanation
Indices: 68746797--68746866 Score: 113
Period size: 2 Copynumber: 35.0 Consensus size: 2
68746787 TTTTCTTATA
68746797 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * *
68746839 AC AC AC AC AT GC AC AC AC AA AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
68746867 TCTAAAGCAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.47, G:0.01, T:0.01
Consensus pattern (2 bp):
AC
Found at i:68751052 original size:9 final size:10
Alignment explanation
Indices: 68751029--68751058 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
68751019 TTCACATCTT
68751029 TCTCTCAAGC
1 TCTCTCAAGC
68751039 TCTCTCAA-C
1 TCTCTCAAGC
68751048 TCTCTCAAGC
1 TCTCTCAAGC
68751058 T
1 T
68751059 TTTTATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.20, C:0.40, G:0.07, T:0.33
Consensus pattern (10 bp):
TCTCTCAAGC
Found at i:68753425 original size:36 final size:36
Alignment explanation
Indices: 68753385--68753457 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
68753375 GTTAAACACA
68753385 GAAATCCTCCACACGACCGTTGTTCACCGCCTTGCG
1 GAAATCCTCCACACGACCGTTGTTCACCGCCTTGCG
*
68753421 GAAATCCTCCACACGACCGTTGTTCACCGCTTTGCG
1 GAAATCCTCCACACGACCGTTGTTCACCGCCTTGCG
68753457 G
1 G
68753458 CACACATTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.37, G:0.21, T:0.23
Consensus pattern (36 bp):
GAAATCCTCCACACGACCGTTGTTCACCGCCTTGCG
Found at i:68760344 original size:36 final size:36
Alignment explanation
Indices: 68760290--68760455 Score: 208
Period size: 36 Copynumber: 4.6 Consensus size: 36
68760280 GTACATCAAC
* * * * *
68760290 AATCCAACCAAAATACACCAGATGCTCATTAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
68760326 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
* * * *
68760362 CATCCATCTGACACACACCAAATGCTTATAAGAGCT
1 AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
**
68760398 AATCCATCCGAAACACACC-AATGGCTCCGAAGAGCT
1 AATCCATCCGAAACACACCAAAT-GCTCATAAGAGCT
*
68760434 AATCCAACCGAAACACACCAAA
1 AATCCATCCGAAACACACCAAA
68760456 ACAGAAAGTA
Statistics
Matches: 112, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
35 3 0.03
36 107 0.96
37 2 0.02
ACGTcount: A:0.41, C:0.31, G:0.11, T:0.16
Consensus pattern (36 bp):
AATCCATCCGAAACACACCAAATGCTCATAAGAGCT
Found at i:68762811 original size:17 final size:18
Alignment explanation
Indices: 68762779--68762819 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
68762769 GGAACAGTTG
68762779 ATAA-CAATTTATATTCA
1 ATAATCAATTTATATTCA
*
68762796 ATAATCAATTTA-ATTCC
1 ATAATCAATTTATATTCA
68762813 ATAATCA
1 ATAATCA
68762820 TAAGTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATCAATTTATATTCA
Found at i:68763033 original size:19 final size:19
Alignment explanation
Indices: 68762983--68763033 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
68762973 GGCTGTTTGT
* **
68762983 CCAGGCCGTGTGACAGAGC
1 CCAGCCCGTGTGGTAGAGC
68763002 CCAGCCCGTGTGGTAGAGC
1 CCAGCCCGTGTGGTAGAGC
* *
68763021 CTAGCCCTTGTGG
1 CCAGCCCGTGTGG
68763034 CTCTAACATG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (19 bp):
CCAGCCCGTGTGGTAGAGC
Found at i:68763993 original size:37 final size:37
Alignment explanation
Indices: 68763952--68764042 Score: 103
Period size: 37 Copynumber: 2.5 Consensus size: 37
68763942 CAGTATATTT
* *
68763952 GTAGATTTTACTCGTTTGAGCTCCATTCAGTATAACA
1 GTAGATTTTACTCGTTTAAGCTCCACTCAGTATAACA
* * *
68763989 GTAGAATTTT-CTCATTTAAGCTTCACTCAGTATAATA
1 GTAG-ATTTTACTCGTTTAAGCTCCACTCAGTATAACA
* *
68764026 GTAAAATTTACTCGTTT
1 GTAGATTTTACTCGTTT
68764043 TAGTAGAATC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 4 0.09
37 35 0.80
38 5 0.11
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (37 bp):
GTAGATTTTACTCGTTTAAGCTCCACTCAGTATAACA
Found at i:68764111 original size:15 final size:14
Alignment explanation
Indices: 68764091--68764141 Score: 61
Period size: 13 Copynumber: 3.7 Consensus size: 14
68764081 TTAGTATATA
68764091 AATATTCAATAAGAG
1 AATATT-AATAAGAG
68764106 AATATTAATAA-AG
1 AATATTAATAAGAG
*
68764119 AATATTAA-CAGAG
1 AATATTAATAAGAG
*
68764132 AATATAAATA
1 AATATTAATA
68764142 CTATTAGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
12 1 0.03
13 19 0.61
14 5 0.16
15 6 0.19
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (14 bp):
AATATTAATAAGAG
Found at i:68764160 original size:34 final size:34
Alignment explanation
Indices: 68764122--68764190 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
68764112 AATAAAGAAT
68764122 ATTAACAGAGAATATAAATACTATTAGAAGCATA
1 ATTAACAGAGAATATAAATACTATTAGAAGCATA
*
68764156 ATTAACAGAGAATATAAATACTATTAGAAGTATA
1 ATTAACAGAGAATATAAATACTATTAGAAGCATA
68764190 A
1 A
68764191 ATAAATGTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.28
Consensus pattern (34 bp):
ATTAACAGAGAATATAAATACTATTAGAAGCATA
Found at i:68764184 original size:17 final size:18
Alignment explanation
Indices: 68764130--68764193 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
68764120 ATATTAACAG
68764130 AGAA-TATAAATACTATT
1 AGAAGTATAAATACTATT
* * *
68764147 AGAAGCATAATTAAC-A-G
1 AGAAGTATAAAT-ACTATT
68764164 AGAA-TATAAATACTATT
1 AGAAGTATAAATACTATT
68764181 AGAAGTATAAATA
1 AGAAGTATAAATA
68764194 AATGTACGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 12 0.33
18 14 0.39
19 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (18 bp):
AGAAGTATAAATACTATT
Found at i:68766161 original size:19 final size:19
Alignment explanation
Indices: 68766126--68766163 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
68766116 AAGAAACACT
**
68766126 AGAAATAAAAATCAACAAA
1 AGAAATAAAAAAAAACAAA
68766145 AGAAATAAAAAAAAACAAA
1 AGAAATAAAAAAAAACAAA
68766164 TCCTGGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (19 bp):
AGAAATAAAAAAAAACAAA
Found at i:68771002 original size:35 final size:35
Alignment explanation
Indices: 68770956--68771025 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
68770946 CATGGTATAA
68770956 AACCATTTTCAGTGGAAAGAACTAAAGAATTCTCT
1 AACCATTTTCAGTGGAAAGAACTAAAGAATTCTCT
68770991 AACCATTTTCAGTGGAAAGAACTAAAGAATTCTCT
1 AACCATTTTCAGTGGAAAGAACTAAAGAATTCTCT
68771026 TCTTTTCCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (35 bp):
AACCATTTTCAGTGGAAAGAACTAAAGAATTCTCT
Found at i:68776493 original size:43 final size:43
Alignment explanation
Indices: 68776422--68776582 Score: 259
Period size: 43 Copynumber: 3.7 Consensus size: 43
68776412 TAAAAAAAAT
*
68776422 GCCGCTAAAAGTCATGGCTTTTAGCGGCGTTTGTTGGAAAAGC
1 GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGTTGGAAAAGC
* *
68776465 GCCGCTAAAAGTCATGGCCTTTAACGGCGTTTGTTGAAAAAGC
1 GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGTTGGAAAAGC
* *
68776508 GCCGTTAAAAGTCATGGCCTTTAGTGGCGTTTGTTGGAAAAGC
1 GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGTTGGAAAAGC
* *
68776551 GCCGCTAAAAGTCACGGCTTTTAGCGGCGTTT
1 GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
68776583 TTCTGGCAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGTTGGAAAAGC
Found at i:68777013 original size:15 final size:16
Alignment explanation
Indices: 68776980--68777025 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
68776970 GCTGCTGCCT
68776980 CTGCCTCCCTCGCTGCTG
1 CTGCCTCCCT--CTGCTG
68776998 CTGCCTCCCTCT-CTG
1 CTGCCTCCCTCTGCTG
68777013 CTGCCTCCGCTCT
1 CTGCCTCC-CTCT
68777026 AAGTTGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 11 0.41
16 6 0.22
18 10 0.37
ACGTcount: A:0.00, C:0.52, G:0.17, T:0.30
Consensus pattern (16 bp):
CTGCCTCCCTCTGCTG
Found at i:68777014 original size:18 final size:18
Alignment explanation
Indices: 68776959--68777016 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
68776949 TTGCTCTGCT
*
68776959 CTGCTGCCATCGCT-GCTG
1 CTGCTGCC-TCCCTCGCTG
68776977 CCT-CTGCCTCCCTCGCTG
1 -CTGCTGCCTCCCTCGCTG
*
68776995 CTGCTGCCTCCCTCTCTG
1 CTGCTGCCTCCCTCGCTG
68777013 CTGC
1 CTGC
68777017 CTCCGCTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
17 6 0.17
18 27 0.77
19 2 0.06
ACGTcount: A:0.02, C:0.48, G:0.21, T:0.29
Consensus pattern (18 bp):
CTGCTGCCTCCCTCGCTG
Found at i:68779113 original size:114 final size:115
Alignment explanation
Indices: 68778993--68779235 Score: 336
Period size: 114 Copynumber: 2.1 Consensus size: 115
68778983 GTTTTACCCT
* *
68778993 AAAACGCCACTAATAATCGA-AT-AAAACTACATCGTTTTGATATAAACAAATTAA-CCATTAGT
1 AAAACGCCACTAA-AATCGACATAAAAACTACACCGTTTTGATATAAACAAAATAATCC-TTAGT
*
68779055 GGCGTTTAT-ACCTTAGCGCCGCTAAATCAAA-CCTATTGTGGCGTTTGAACCA
64 GGCGTTTATAACCTT-GCGCCGCCAAAT-AAACCCTATTGTGGCGTTTGAACCA
* *
68779107 AAAACGCCACTAAAA-CTACATAAAAACTACACCGTTTTGATCTAAACAAAATAATCCTTAGTGG
1 AAAACGCCACTAAAATCGACATAAAAACTACACCGTTTTGATATAAACAAAATAATCCTTAGTGG
* * *
68779171 CGTTTATAACCTTGCGCCGCCAAATAAACCCTATTGTGGTGTTTTAACCT
66 CGTTTATAACCTTGCGCCGCCAAATAAACCCTATTGTGGCGTTTGAACCA
68779221 AAAACGCCACTAAAA
1 AAAACGCCACTAAAA
68779236 ATCCAAAGAA
Statistics
Matches: 116, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
112 2 0.02
113 7 0.06
114 100 0.86
115 7 0.06
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (115 bp):
AAAACGCCACTAAAATCGACATAAAAACTACACCGTTTTGATATAAACAAAATAATCCTTAGTGG
CGTTTATAACCTTGCGCCGCCAAATAAACCCTATTGTGGCGTTTGAACCA
Found at i:68780135 original size:16 final size:17
Alignment explanation
Indices: 68780114--68780146 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
68780104 AAAGGTTATA
68780114 GTTTAGTG-TTTAGGGG
1 GTTTAGTGTTTTAGGGG
68780130 GTTTAGTGTTTTAGGGG
1 GTTTAGTGTTTTAGGGG
68780147 TTATAGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.45
Consensus pattern (17 bp):
GTTTAGTGTTTTAGGGG
Found at i:68780264 original size:41 final size:41
Alignment explanation
Indices: 68780207--68780345 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
68780197 GGTTAAATGA
* *
68780207 TTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGG
1 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* * *
68780248 TTTTTAGTAGCGTTTTA-CACAAAGCGCCGCTAATTCTTTGG
1 TTTTTAGTGGCGTTTTACCA-AAAGCGCCGCTAATGCTCTGG
*
68780289 TTTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTGG
1 TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
* **
68780330 CTTTTAACGGCGTTTT
1 TTTTTAGTGGCGTTTT
68780346 TGGTAAAACG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.02
41 80 0.95
42 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTTAGTGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGG
Found at i:68780358 original size:41 final size:41
Alignment explanation
Indices: 68780308--68780398 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
68780298 GCGTTTTACC
*
68780308 AAAAGCGCCACTAATGCTCTGGCTTTTAACGGCGTTTT-TGGT
1 AAAA-CGCCACTAATGCTATGGCTTTTAACGGCGTTTTCT-GT
* ** **
68780350 AAAACGCCACTATTGCTATGTTTTTTGGCGGCGTTTTCTGT
1 AAAACGCCACTAATGCTATGGCTTTTAACGGCGTTTTCTGT
68780391 AAAACGCC
1 AAAACGCC
68780399 GCTATTTCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
AAAACGCCACTAATGCTATGGCTTTTAACGGCGTTTTCTGT
Found at i:68780375 original size:82 final size:82
Alignment explanation
Indices: 68780207--68780386 Score: 200
Period size: 82 Copynumber: 2.2 Consensus size: 82
68780197 GGTTAAATGA
* * ** *
68780207 TTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGGTTTTTAGTAGCGTTTTACACAAAG
1 TTTTTAGCGGCGTTTTACCAAAAACGCCACTAATGCTCTGGCTTTTAACAGCGTTTTACACAAAA
* *
68780272 CGCCGCTAATTCTTTGG
66 CGCCACTAATTCTATGG
* * * ****
68780289 TTTTTAGTGGCGTTTTACCAAAAGCGCCACTAATGCTCTGGCTTTTAACGGCGTTTTTGGTAAAA
1 TTTTTAGCGGCGTTTTACCAAAAACGCCACTAATGCTCTGGCTTTTAACAGCGTTTTACACAAAA
*
68780354 CGCCACT-ATTGCTATGT
66 CGCCACTAATT-CTATGG
*
68780371 TTTTTGGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
68780387 CTGTAAAACG
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 3 0.04
82 77 0.96
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.38
Consensus pattern (82 bp):
TTTTTAGCGGCGTTTTACCAAAAACGCCACTAATGCTCTGGCTTTTAACAGCGTTTTACACAAAA
CGCCACTAATTCTATGG
Found at i:68780404 original size:41 final size:41
Alignment explanation
Indices: 68780331--68780449 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
68780321 ATGCTCTGGC
* * **
68780331 TTTTAACGGCGTTTT-TGGTAAAACGCCACTATTGCTATGTT
1 TTTTAGCGGCGTTTTCT-GTAAAACGCCGCTATTGCTATAAT
* *
68780372 TTTTGGCGGCGTTTTCTGTAAAACGCCGCTATTTCTATAAT
1 TTTTAGCGGCGTTTTCTGTAAAACGCCGCTATTGCTATAAT
* *
68780413 TTTTAGCGTCGTTTTAACT-AAAAACGCCGCTATTGCT
1 TTTTAGCGGCGTTTT--CTGTAAAACGCCGCTATTGCT
68780450 TTGCGTTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
41 46 0.71
42 17 0.26
43 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTCTGTAAAACGCCGCTATTGCTATAAT
Found at i:68781462 original size:19 final size:19
Alignment explanation
Indices: 68781422--68781463 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
68781412 AATTTTGTAA
**
68781422 TAATTAAAAGATTTTTTGT
1 TAATTAAAAGATTTTTCAT
68781441 TAATTAAAAGATTTTTCAT
1 TAATTAAAAGATTTTTCAT
68781460 TAAT
1 TAAT
68781464 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.50
Consensus pattern (19 bp):
TAATTAAAAGATTTTTCAT
Done.