Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 155 of 297
Found at i:52961493 original size:5 final size:6
Alignment explanation
Indices: 52961476--52961501 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
52961466 TTAAACCCCC
52961476 TATTTT TATTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TA
52961502 GCATTTCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:52962339 original size:11 final size:11
Alignment explanation
Indices: 52962325--52962352 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
52962315 AGAATACAAG
52962325 AAGTTGTGCGC
1 AAGTTGTGCGC
52962336 AAGTTGTGCGC
1 AAGTTGTGCGC
52962347 AAGTTG
1 AAGTTG
52962353 CCCACAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (11 bp):
AAGTTGTGCGC
Found at i:52965303 original size:8 final size:8
Alignment explanation
Indices: 52965290--52965329 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
52965280 ACTACGTTTG
52965290 AAAAAAAT
1 AAAAAAAT
52965298 AAAAAAAT
1 AAAAAAAT
*
52965306 AAAACAAAA
1 AAAA-AAAT
52965315 AATAAAAAT
1 AA-AAAAAT
52965324 AAAAAA
1 AAAAAA
52965330 TGTATATAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 16 0.57
9 10 0.36
10 2 0.07
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:52965330 original size:13 final size:13
Alignment explanation
Indices: 52965292--52965330 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
52965282 TACGTTTGAA
52965292 AAAAATAAAAAA-
1 AAAAATAAAAAAT
*
52965304 ATAAAACAAAAAAT
1 A-AAAATAAAAAAT
52965318 AAAAATAAAAAAT
1 AAAAATAAAAAAT
52965331 GTATATAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:52965932 original size:13 final size:13
Alignment explanation
Indices: 52965914--52965968 Score: 71
Period size: 13 Copynumber: 4.5 Consensus size: 13
52965904 TATTTAGAAT
52965914 TATTTAGTGATAA
1 TATTTAGTGATAA
*
52965927 TATTTAGTAATAA
1 TATTTAGTGATAA
*
52965940 TATTTA--GA-AT
1 TATTTAGTGATAA
52965950 TATTTAGTGATAA
1 TATTTAGTGATAA
52965963 TATTTA
1 TATTTA
52965969 AGAAAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 2 0.06
13 25 0.71
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:52965978 original size:24 final size:23
Alignment explanation
Indices: 52965928--52965980 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
52965918 TAGTGATAAT
**
52965928 ATTTAGTAATAATATTTAGAATT
1 ATTTAGTAATAATATTTAGAAAA
*
52965951 ATTTAGTGATAATATTTAAGAAAA
1 ATTTAGTAATAATATTT-AGAAAA
52965975 ATTTAG
1 ATTTAG
52965981 CTAAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.43
Consensus pattern (23 bp):
ATTTAGTAATAATATTTAGAAAA
Found at i:52970383 original size:36 final size:36
Alignment explanation
Indices: 52970342--52970412 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
52970332 GAACAGGTAA
52970342 TAGTAGTTCATTCTTTATTTAAAAAAGAAAAAAAAG
1 TAGTAGTTCATTCTTTATTTAAAAAAGAAAAAAAAG
52970378 TAGTAGTTCATTCTTTATTTAAAAAAGAAAAAAAA
1 TAGTAGTTCATTCTTTATTTAAAAAAGAAAAAAAA
52970413 AAGCTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.34
Consensus pattern (36 bp):
TAGTAGTTCATTCTTTATTTAAAAAAGAAAAAAAAG
Found at i:52973852 original size:53 final size:53
Alignment explanation
Indices: 52973788--52973893 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
52973778 CATCAGATTT
*
52973788 TCCTAATAAATACTAATCTTTCGTACGAAATCAGTTAAAAATGTTTGATAATC
1 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
*
52973841 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAACAATGTTTGATAATC
1 TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
52973894 CTATCTTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (53 bp):
TCCTAATAAATACTAATCTTTCGTACGAAATCAGATAAAAATGTTTGATAATC
Found at i:52978784 original size:15 final size:14
Alignment explanation
Indices: 52978746--52978787 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
52978736 ATAATTAATT
*
52978746 TTTAATTAAATAAA
1 TTTAATTAATTAAA
52978760 TTTAATTAATTAAA
1 TTTAATTAATTAAA
*
52978774 TGTTGATTAATTAA
1 T-TTAATTAATTAA
52978788 GTCAATATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TTTAATTAATTAAA
Found at i:52979420 original size:34 final size:34
Alignment explanation
Indices: 52979381--52979563 Score: 158
Period size: 34 Copynumber: 5.4 Consensus size: 34
52979371 ACATATATGG
* *
52979381 ATATCATATCAGAATGACACAATACCACAAATAT
1 ATATCAAATCAGAATGACACAATGCCACAAATAT
* * * * **
52979415 ATATCAAATCAGAAT-ATCATATTTCCA-GAACGT
1 ATATCAAATCAGAATGA-CACAATGCCACAAATAT
*
52979448 ATATCATATCAGAATGACACAATGCCACAAATAT
1 ATATCAAATCAGAATGACACAATGCCACAAATAT
* * * * * **
52979482 ATATCAAATTAGAAT-ATCATATTTCCA-GAACGT
1 ATATCAAATCAGAATGA-CACAATGCCACAAATAT
*
52979515 ATATCATATCAGAATGACACAATGCCACAAATAT
1 ATATCAAATCAGAATGACACAATGCCACAAATAT
*
52979549 ATATCAAATTAGAAT
1 ATATCAAATCAGAAT
52979564 ATCATATTTC
Statistics
Matches: 111, Mismatches: 32, Indels: 12
0.72 0.21 0.08
Matches are distributed among these distances:
33 49 0.44
34 62 0.56
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (34 bp):
ATATCAAATCAGAATGACACAATGCCACAAATAT
Found at i:52979459 original size:33 final size:33
Alignment explanation
Indices: 52979414--52979592 Score: 155
Period size: 33 Copynumber: 5.4 Consensus size: 33
52979404 ACCACAAATA
52979414 TATATCAAATCAGAATATCATATTTCCAGAACG
1 TATATCAAATCAGAATATCATATTTCCAGAACG
* * * * * **
52979447 TATATCATATCAGAATGA-CACAATGCCACAAATA
1 TATATCAAATCAGAAT-ATCATATTTCCA-GAACG
*
52979481 TATATCAAATTAGAATATCATATTTCCAGAACG
1 TATATCAAATCAGAATATCATATTTCCAGAACG
* * * * * **
52979514 TATATCATATCAGAATGA-CACAATGCCACAAATA
1 TATATCAAATCAGAAT-ATCATATTTCCA-GAACG
*
52979548 TATATCAAATTAGAATATCATATTTCCAGAACG
1 TATATCAAATCAGAATATCATATTTCCAGAACG
*
52979581 TATATCATATCA
1 TATATCAAATCA
52979593 AAACAAATCC
Statistics
Matches: 107, Mismatches: 33, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
33 59 0.55
34 48 0.45
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (33 bp):
TATATCAAATCAGAATATCATATTTCCAGAACG
Found at i:52979489 original size:67 final size:67
Alignment explanation
Indices: 52979381--52979592 Score: 406
Period size: 67 Copynumber: 3.2 Consensus size: 67
52979371 ACATATATGG
* *
52979381 ATATCATATCAGAATGACACAATACCACAAATATATATCAAATCAGAATATCATATTTCCAGAAC
1 ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
52979446 GT
66 GT
52979448 ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
1 ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
52979513 GT
66 GT
52979515 ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
1 ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
52979580 GT
66 GT
52979582 ATATCATATCA
1 ATATCATATCA
52979593 AAACAAATCC
Statistics
Matches: 143, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 143 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.28
Consensus pattern (67 bp):
ATATCATATCAGAATGACACAATGCCACAAATATATATCAAATTAGAATATCATATTTCCAGAAC
GT
Found at i:52984491 original size:21 final size:20
Alignment explanation
Indices: 52984465--52984506 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
52984455 TTTATATTAT
52984465 TAAAATGGTAATAAAATAAAA
1 TAAAATGGTAATAAAA-AAAA
**
52984486 TAAAATTTTAATAAAAAAAA
1 TAAAATGGTAATAAAAAAAA
52984506 T
1 T
52984507 TATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
TAAAATGGTAATAAAAAAAA
Found at i:52984507 original size:15 final size:15
Alignment explanation
Indices: 52984479--52984516 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
52984469 ATGGTAATAA
*
52984479 AATAAAATAAAATTTT
1 AATAAAA-AAAATTAT
52984495 AATAAAAAAAATTAT
1 AATAAAAAAAATTAT
52984510 AA-AAAAA
1 AATAAAAA
52984517 TTTAGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAAAAAATTAT
Found at i:52989743 original size:12 final size:12
Alignment explanation
Indices: 52989726--52989751 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
52989716 AAAATAGGGC
52989726 TTTAGCGGCGTT
1 TTTAGCGGCGTT
52989738 TTTAGCGGCGTT
1 TTTAGCGGCGTT
52989750 TT
1 TT
52989752 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:52989882 original size:41 final size:41
Alignment explanation
Indices: 52989832--52990038 Score: 265
Period size: 41 Copynumber: 5.1 Consensus size: 41
52989822 AGAGCAATAG
52989832 AAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * * *** *
52989872 AAAGCTAGAGCATTAGCAGCG-TTTTACCAAAAACACCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGCTA
* * *
52989913 AAAACCATAGCATTAGCGGTGCTTTTGGTAAAACGCAGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
52989954 AAAACCAGAGCATTAGCGGCGCTTTTAGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
52989995 AAAACCAGAGCAGTAGCGGCGCTTTCGATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
52990036 AAA
1 AAA
52990039 GTCATATAAT
Statistics
Matches: 139, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
40 7 0.05
41 128 0.92
42 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:52990575 original size:14 final size:14
Alignment explanation
Indices: 52990531--52990588 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
52990521 TAAAGGTGGT
52990531 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
** *
52990544 TTTAAGATTTAGGTG
1 -TTAAGGGTTAGGGG
*
52990559 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
52990573 TTAAGGGTGAGGGG
1 TTAAGGGTTAGGGG
52990587 TT
1 TT
52990589 CATGGTTCAG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
14 31 0.91
15 3 0.09
ACGTcount: A:0.19, C:0.00, G:0.47, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:52990765 original size:14 final size:14
Alignment explanation
Indices: 52990746--52990772 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52990736 TATCATTATA
52990746 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
52990760 GTTTAGGGTTTAA
1 GTTTAGGGTTTAA
52990773 AGTGTATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:52990813 original size:15 final size:15
Alignment explanation
Indices: 52990795--52990837 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
52990785 ATTATTTTAA
52990795 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
52990810 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
52990824 GATTTATGG-TTATG
1 GGTTTATGGATTATG
52990838 TAAGAGATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.47
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:52990815 original size:22 final size:22
Alignment explanation
Indices: 52990790--52990832 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
52990780 GAGTTATTAT
*
52990790 TTTAAGGTTTATGGA-TTATGGG
1 TTTAAGGATTAT-GATTTATGGG
*
52990812 TTTAGGGATTATGATTTATGG
1 TTTAAGGATTATGATTTATGG
52990833 TTATGTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGATTATGATTTATGGG
Found at i:52991443 original size:8 final size:8
Alignment explanation
Indices: 52991422--52991477 Score: 55
Period size: 7 Copynumber: 7.2 Consensus size: 8
52991412 AAAATCTTCA
52991422 AAAAAATT
1 AAAAAATT
**
52991430 TTAAAATT
1 AAAAAATT
52991438 AAAAAA-T
1 AAAAAATT
52991445 AAAAAA-T
1 AAAAAATT
52991452 AAAAAA-T
1 AAAAAATT
52991459 AAAAAACTT
1 AAAAAA-TT
*
52991468 AAAAATTT
1 AAAAAATT
52991476 AA
1 AA
52991478 TATTTAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 21 0.51
8 14 0.34
9 6 0.15
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAAATT
Found at i:52991448 original size:6 final size:7
Alignment explanation
Indices: 52991432--52991464 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
52991422 AAAAAATTTT
*
52991432 AAAATTA
1 AAAAATA
52991439 AAAAATA
1 AAAAATA
52991446 AAAAATA
1 AAAAATA
52991453 AAAAATA
1 AAAAATA
52991460 AAAAA
1 AAAAA
52991465 CTTAAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:52993354 original size:138 final size:138
Alignment explanation
Indices: 52993106--52993377 Score: 483
Period size: 138 Copynumber: 2.0 Consensus size: 138
52993096 TAATAATGTA
* * *
52993106 TGGATGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCA
1 TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
52993171 TTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
66 TTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
52993236 TTAACGTT
131 TTAACGTT
* *
52993244 TGGATGCTTT-TAGGAGTACTTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGC
1 TGGATGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGC
52993308 ATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
65 ATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
52993373 TTTAA
130 TTTAA
52993378 AATTTTAAAA
Statistics
Matches: 128, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
137 1 0.01
138 127 0.99
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (138 bp):
TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
TTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
TTAACGTT
Found at i:52994490 original size:43 final size:43
Alignment explanation
Indices: 52994421--52994503 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
52994411 AAATTTCATT
* *
52994421 ACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCTTG
1 ACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
52994464 ACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
52994504 GTTTTTTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (43 bp):
ACCTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTG
Found at i:52996434 original size:23 final size:23
Alignment explanation
Indices: 52996406--52996452 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
52996396 ACATCTGAAA
*
52996406 ATTATATATATATTGT-TTATTTT
1 ATTATACATAT-TTGTATTATTTT
52996429 ATTATACATATTTGTAATTATTTT
1 ATTATACATATTTGT-ATTATTTT
52996453 CTAATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (23 bp):
ATTATACATATTTGTATTATTTT
Found at i:52996653 original size:17 final size:17
Alignment explanation
Indices: 52996631--52996687 Score: 105
Period size: 17 Copynumber: 3.3 Consensus size: 17
52996621 AAGCCCCCTC
52996631 AAAAAACCTAACCCAAA
1 AAAAAACCTAACCCAAA
52996648 AAAAAACCTAACCCAAA
1 AAAAAACCTAACCCAAA
52996665 AAAAAACCTAACCCTAAA
1 AAAAAACCTAACCC-AAA
52996683 AAAAA
1 AAAAA
52996688 GAGAAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
17 31 0.79
18 8 0.21
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.07
Consensus pattern (17 bp):
AAAAAACCTAACCCAAA
Found at i:52996748 original size:8 final size:8
Alignment explanation
Indices: 52996737--52996761 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52996727 ACTAAGAAAC
52996737 CCTAGCCA
1 CCTAGCCA
52996745 CCTAGCCA
1 CCTAGCCA
52996753 CCTAGCCA
1 CCTAGCCA
52996761 C
1 C
52996762 TTTCCCACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.52, G:0.12, T:0.12
Consensus pattern (8 bp):
CCTAGCCA
Found at i:52997044 original size:22 final size:22
Alignment explanation
Indices: 52997019--52997072 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
52997009 TTTCGAATCT
52997019 TTTTTTTCTTTTTTTTGTGTTG
1 TTTTTTTCTTTTTTTTGTGTTG
52997041 TTTTTTTC-TTTTTTTGTGTTG
1 TTTTTTTCTTTTTTTTGTGTTG
52997062 TTTTTTTCTTT
1 TTTTTTTCTTT
52997073 CTTTATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (22 bp):
TTTTTTTCTTTTTTTTGTGTTG
Found at i:52999272 original size:12 final size:12
Alignment explanation
Indices: 52999255--52999290 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
52999245 ATTCATTTGA
52999255 CATTCATGCATT
1 CATTCATGCATT
52999267 CATTCATGCATT
1 CATTCATGCATT
*
52999279 CATTCATACATT
1 CATTCATGCATT
52999291 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:53007833 original size:72 final size:71
Alignment explanation
Indices: 53007735--53007972 Score: 361
Period size: 72 Copynumber: 3.3 Consensus size: 71
53007725 GAGTTAAGCC
** * * * * *
53007735 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACAC
1 TTTTCAATTTTTGTTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
53007799 TGAGGTA
65 TGAGGTA
53007806 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
53007871 TGAGGTA
65 TGAGGTA
53007878 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
1 TTTTCAATTTTTGT-TTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGC
53007943 TGAGGTA
65 TGAGGTA
* *
53007950 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTTAATTT
53007973 ACGTTGTTCA
Statistics
Matches: 156, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
71 12 0.08
72 140 0.90
73 4 0.03
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.42
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTTAGCCTCAGGTCACGCT
GAGGTA
Found at i:53008285 original size:126 final size:126
Alignment explanation
Indices: 53008103--53008759 Score: 1055
Period size: 126 Copynumber: 5.1 Consensus size: 126
53008093 TCAATTTCTG
* * *
53008103 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGGACCTTTTAATTTC
1 TTTTCAATTTATGTTGTTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
53008168 TACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
65 TACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
*
53008230 TTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
1 TTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
53008295 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
66 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
*
53008356 TTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
1 TTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
* *
53008421 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTTGACGTATTTT
66 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGA-G----GT
53008486 CAA
126 --A
53008489 TTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
1 ------TTTTCAATTTATGTTGTTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTT
*
53008554 AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
59 AATTTCTACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAG
53008619 GTA
124 GTA
53008622 TTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
1 TTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
* *
53008687 ACTTTTTCAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
66 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC--GCTGAGGTA
53008750 TTTTCAATTT
1 TTTTCAATTT
53008760 CTGTCTTTCA
Statistics
Matches: 502, Mismatches: 11, Indels: 33
0.92 0.02 0.06
Matches are distributed among these distances:
125 2 0.00
126 306 0.61
127 51 0.10
128 19 0.04
131 1 0.00
133 2 0.00
135 1 0.00
139 26 0.05
140 94 0.19
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (126 bp):
TTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTA
Found at i:53008439 original size:392 final size:394
Alignment explanation
Indices: 53007963--53008759 Score: 1411
Period size: 392 Copynumber: 2.0 Consensus size: 394
53007953 TCAATTTCTG
* *
53007963 TTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGGACCTTTTAATTTC
1 TTTTCAATTTACGTTGGTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTC
* *
53008028 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCATGCTAAGGTATTT
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAACGTATTT
*
53008093 TCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGGACC
131 TCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACC
*
53008158 TTTTAATTTCTACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
196 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
53008223 TGAGGTATTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTT
261 TGAGGTATTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTT
*
53008288 AATTTCTACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC-GCTG
326 AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAGCTG
53008351 AGGTA
390 AGGTA
* *
53008356 TTTTCAATTTATGTTGGTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTACGTTGGTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTC
* * *
53008420 TACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGTTGACGTATTT
66 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAACGTATTT
* *
53008485 TCAATTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
131 TCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACC
53008550 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
196 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
*
53008615 TGAGGTATTTTCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTT
261 TGAGGTATTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTT
*
53008680 AATTTCTACTTTTTCAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTG
326 AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA-GCTG
53008745 AGGTA
390 AGGTA
53008750 TTTTCAATTT
1 TTTTCAATTT
53008760 CTGTCTTTCA
Statistics
Matches: 385, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
391 2 0.01
392 340 0.88
393 24 0.06
394 19 0.05
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (394 bp):
TTTTCAATTTACGTTGGTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACCTTTTAATTTC
TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAACGTATTT
TCAATTTCTGTTTTCAATTTACGTTGTTCAAGAATCAACTCATATTGCGAGAAGTGGGTTGAACC
TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
TGAGGTATTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTT
AATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAGCTGA
GGTA
Found at i:53008500 original size:13 final size:13
Alignment explanation
Indices: 53008482--53008515 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
53008472 CGTTGACGTA
*
53008482 TTTTCAATTTCTG
1 TTTTCAATTTATG
53008495 TTTTCAATTTATG
1 TTTTCAATTTATG
53008508 TTGTTCAA
1 TT-TTCAA
53008516 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:53008528 original size:266 final size:266
Alignment explanation
Indices: 53008230--53008770 Score: 969
Period size: 266 Copynumber: 2.0 Consensus size: 266
53008220 CGCTGAGGTA
53008230 TTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
1 TTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
*
53008295 ACTTTTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
66 ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
53008360 CAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
131 CAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
* *
53008425 TTTCAAACTCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCAC-GTTGACGTATTTTCA
196 TTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACAGCTGACGTATTTTCA
53008488 ATTTCTG
260 ATTTCTG
*
53008495 TTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
1 TTTTCAATTTATGTTGGTCAAGAATC-ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTC
53008560 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTT
65 TACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTT
*
53008625 TCAATTTATGTTGTTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
130 TCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
* *
53008690 TTTTCAAAATTAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTC
195 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA-GCTGACGTATTTTC
53008755 AATTTCTG
259 AATTTCTG
53008763 TCTTTCAA
1 T-TTTCAA
53008771 AAAAAAAATT
Statistics
Matches: 264, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
265 27 0.10
266 210 0.80
268 21 0.08
269 6 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (266 bp):
TTTTCAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCT
ACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTT
CAATTTATGTTGGTCAAGAATCACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTT
TTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACAGCTGACGTATTTTCAA
TTTCTG
Found at i:53008804 original size:81 final size:72
Alignment explanation
Indices: 53008690--53008915 Score: 267
Period size: 72 Copynumber: 3.0 Consensus size: 72
53008680 AATTTCTACT
* ** * * *
53008690 TTTTCAAAATT-AGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAGGTAATT
53008753 TCAATTTCTG
63 TCAATTTCTG
* *
53008763 TCTTTCAAAAAAAAAATTCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
53008828 AATTTCAATTTCTG
59 AATTTCAATTTCTG
*
53008842 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
53008907 ATTTCTG
66 ATTTCTG
53008914 TT
1 TT
53008916 CAAAATGAGT
Statistics
Matches: 135, Mismatches: 9, Indels: 19
0.83 0.06 0.12
Matches are distributed among these distances:
72 68 0.50
73 1 0.01
74 4 0.03
78 4 0.03
79 24 0.18
80 6 0.04
81 27 0.20
82 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
ATTTCTG
Found at i:53008860 original size:72 final size:72
Alignment explanation
Indices: 53008775--53008915 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
53008765 TTTCAAAAAA
53008775 AAAATTCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
53008840 TGTTTTC
66 TGTTTTC
*
53008847 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
53008912 TGTT
66 TGTT
53008916 CAAAATGAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGAGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:53008926 original size:49 final size:49
Alignment explanation
Indices: 53008869--53008964 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
53008859 ATATTGCGAG
*
53008869 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
53008918 AAATGAGTTGAGCCTCAAGATACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
53008965 TTCAAAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:53009011 original size:121 final size:121
Alignment explanation
Indices: 53008797--53009036 Score: 426
Period size: 121 Copynumber: 2.0 Consensus size: 121
53008787 ATATTGAGAG
*
53008797 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
*
53008862 TTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
*
53008918 AAATGAGTTGAGCCTCAAGATACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
* * *
53008983 TTGCGAGAAATTAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTT
66 TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
53009037 TTTCAAAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 113 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (121 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATA
TTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:53009081 original size:77 final size:76
Alignment explanation
Indices: 53009013--53010186 Score: 1175
Period size: 77 Copynumber: 14.9 Consensus size: 76
53009003 CTCAAGACAT
* * * * **
53009013 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGA
1 GCTGAGCTATTTTCAATTTCTGTCTTT--AAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
** **
53009078 GCC-T-CAAGACAT
64 GCCTTGC-TCACGC
* * * *
53009090 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009155 CTTGGCTCACGC
66 CTT-GCTCACGC
53009167 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009232 CTTGGCTCACGC
66 CTT-GCTCACGC
53009244 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009309 CTTGGCTCACGC
66 CTT-GCTCACGC
53009321 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009386 CTTGGCTCACGC
66 CTT-GCTCACGC
53009398 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009463 CTTGGCTCACGC
66 CTT-GCTCACGC
53009475 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009540 CTTGGCTCACGC
66 CTT-GCTCACGC
53009552 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009617 CTTGGCTCACGC
66 CTT-GCTCACGC
53009629 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
** *
53009693 CTT-CAGGACAC
66 CTTGC-TCACGC
* * * * * * *
53009704 GCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACT-AGTATTGTGAGAGGCGAGTTGAG
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCA-TATTGCGAGAGGTGAGTTGAG
* * *
53009767 CCTCAGGTCACAC
65 CCT-TGCTCACGC
* * * * ** * * *
53009780 GCCGAGGTATTTTCAATTT-TCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAATCA-ACT-C-AT
1 GCTGAGCTATTTTCAATTTCT-GTCTTT-AA-----------AAAAAATTAACTCATATTGCGAG
* *
53009841 ATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
53 A--G-GTGAGTTGAG-----CCTT-GCTCACGC
53009874 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
* *
53009938 CTTCAGATCACAC
66 CTT--GCTCACGC
* * * * * * * * *
53009951 ACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
1 GCTGAGCTA--TTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* * **
53010016 GCCTAGGGTCACAT
64 GCCT-TGCTCACGC
* ** * * *
53010030 G-TCGAGGTATTTTCAAAATCTGTTTTTCAGATTTTGTTTTCAAAAATCAACTCATATTGCGAGA
1 GCT-GAGCTATTTTCAATTTCTGTCTTT-A-A---------AAAAAATTAACTCATATTGCGAGA
* * *
53010094 AGTGAGTTGAGTCTTGGCTCACGT
54 GGTGAGTTGAGCCTT-GCTCACGC
* *
53010118 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTCTG---TCTTTAAAAAAAATT-AACTCATATTGCGAGAGGTGAGTT
53010183 GAGC
62 GAGC
53010187 TTTTTAATTT
Statistics
Matches: 949, Mismatches: 89, Indels: 114
0.82 0.08 0.10
Matches are distributed among these distances:
73 1 0.00
74 34 0.04
75 62 0.07
76 30 0.03
77 580 0.61
78 3 0.00
79 61 0.06
80 8 0.01
81 26 0.03
82 18 0.02
83 3 0.00
84 1 0.00
85 2 0.00
86 2 0.00
88 60 0.06
89 18 0.02
90 1 0.00
91 5 0.01
93 2 0.00
94 31 0.03
95 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (76 bp):
GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
CTTGCTCACGC
Found at i:53009287 original size:154 final size:154
Alignment explanation
Indices: 53009013--53010186 Score: 1382
Period size: 154 Copynumber: 7.4 Consensus size: 154
53009003 CTCAAGACAT
* * * * **
53009013 GCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATTGTGAGAAATGAGTTGA
1 GCTGAGCTATTTTCAATTTCTGTCTTT--AAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
** ** * * * *
53009078 GCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCG
64 GCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCG
53009140 AGAGGTGAGTTGAGCCTTGGCTCACGC
128 AGAGGTGAGTTGAGCCTTGGCTCACGC
53009167 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009232 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
66 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
53009297 GGTGAGTTGAGCCTTGGCTCACGC
131 GGTGAGTTGAGCCTTGGCTCACGC
53009321 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009386 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
66 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
53009451 GGTGAGTTGAGCCTTGGCTCACGC
131 GGTGAGTTGAGCCTTGGCTCACGC
53009475 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
53009540 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
66 CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
53009605 GGTGAGTTGAGCCTTGGCTCACGC
131 GGTGAGTTGAGCCTTGGCTCACGC
53009629 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-
1 GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
* * * * * * *
53009693 CTTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACT-AGTATTGTG
66 CTT--GGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCA-TATTGCG
* * *
53009753 AGAGGCGAGTTGAGCCTCAGG-TCACAC
128 AGAGGTGAGTTGAGCCT-TGGCTCACGC
* * * *
53009780 GCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTG
1 GCTGA-G------C-----T--ATTTTCAATTTCTGTCTTT---AAAAAAAATTAACTCATATTG
53009845 CGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAAT
49 CGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAAT
* * *
53009910 TAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACAC
114 TAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGC
* * * * * * * * *
53009951 ACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
1 GCTGAGCTA--TTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
* * ** * ** * * *
53010016 GCCTAGGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAGATTTTGTTTTCAAAAATCAA
64 GCCTTGGCTCACGCGCT-GAGCTATTTTCAATTTCTGTCTTT-A-A---------AAAAAATTAA
* * *
53010080 CTCATATTGCGAGAAGTGAGTTGAGTCTTGGCTCACGT
117 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGC
* *
53010118 GCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTT
1 GCTGAGCTATTTTCAATTTCTG---TCTTTAAAAAAAATT-AACTCATATTGCGAGAGGTGAGTT
53010183 GAGC
62 GAGC
53010187 TTTTTAATTT
Statistics
Matches: 898, Mismatches: 71, Indels: 87
0.85 0.07 0.08
Matches are distributed among these distances:
150 1 0.00
151 45 0.05
152 62 0.07
153 4 0.00
154 472 0.53
155 4 0.00
156 64 0.07
157 1 0.00
158 2 0.00
159 15 0.02
163 1 0.00
165 28 0.03
167 46 0.05
168 53 0.06
169 29 0.03
170 28 0.03
171 42 0.05
172 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (154 bp):
GCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGC
CTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGA
GGTGAGTTGAGCCTTGGCTCACGC
Found at i:53009368 original size:231 final size:232
Alignment explanation
Indices: 53008940--53010186 Score: 1422
Period size: 231 Copynumber: 5.3 Consensus size: 232
53008930 CCTCAAGATA
* * * ** *
53008940 CGCTGAGGTAATTTCAATTTCTGT-TTT---CAAAATTCAACTCATATTGCGAGAAATTAGTTGA
1 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATT-AACTCATATTGCGAGAGGTGAGTTGA
* * *
53009001 GCC-TCAAG---ACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAATCAACTCATATT
65 GCCTTC-GGCTCACACGCTGAGGTATTTTCAATTTCTGTCTTT--AAAAAAAATCAACTCATATT
* ** ** * * * *
53009062 GTGAGAAATGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAA
127 GCGAGAGGTGAGTTGAGCCTTGGC-TCACACGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAA
53009124 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
191 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
53009166 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
* * *
53009231 CCTT-GGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGA
66 CCTTCGGCTCACACGCTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTGCGA
* *
53009295 GAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAA
131 GAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATCAA
53009360 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
196 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
53009397 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
* * *
53009462 CCTT-GGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGA
66 CCTTCGGCTCACACGCTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTGCGA
* *
53009526 GAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAA
131 GAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATCAA
53009591 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
196 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
53009628 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
* * * *
53009693 -CTTCAGG---ACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACT-AGTATTGT
66 CCTTC-GGCTCACACGCTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCA-TATTGC
* * * *
53009752 GAGAGGCGAGTTGAGCCTCAGG-TCACACGCCGAGGTATTTTCAATTTTCGTTTTTCAATTTCTG
129 GAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGA-G------C-----T--ATTTTCAATTTCTG
*
53009816 CCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
179 TCTTT---AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
53009873 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
1 CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
* * * * * * * *
53009938 -CTTCAGATCACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGC
66 CCTTCGGCTCACACGCTGAGGTA--TTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTGC
* * * * * ** *
53010002 GAGATGTGAGTTGAGCCTAGGGTCACATG-TCGAGGTATTTTCAAAATCTGTTTTTCAGATTTTG
129 GAGAGGTGAGTTGAGCCTTGGCTCACACGCT-GAGCTATTTTCAATTTCTGTCTTT-A-A-----
* * *
53010066 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTTGGCTCACG
186 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
* * *
53010117 TGCTGAGCTATTTTCAATTTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGT
1 CGCTGAGCTATTTTCAATTTCTG---TCTTTAAAAAAAATT-AACTCATATTGCGAGAGGTGAGT
53010182 TGAGC
62 TGAGC
53010187 TTTTTAATTT
Statistics
Matches: 903, Mismatches: 62, Indels: 89
0.86 0.06 0.08
Matches are distributed among these distances:
226 22 0.02
227 4 0.00
228 46 0.05
229 88 0.10
230 11 0.01
231 397 0.44
232 3 0.00
234 1 0.00
235 2 0.00
236 14 0.02
238 1 0.00
240 1 0.00
242 17 0.02
244 67 0.07
245 117 0.13
247 25 0.03
248 27 0.03
249 15 0.02
250 44 0.05
251 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (232 bp):
CGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG
CCTTCGGCTCACACGCTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAATTTCTGTCTTTAAAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
Found at i:53010028 original size:79 final size:77
Alignment explanation
Indices: 53009824--53010028 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 77
53009814 TGCCTTTCAA
* * * *
53009824 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACACTGAGCTATTTTCA
* *
53009889 ATTTCTGTCTTT
66 ATTTATATCTTT
* * *
53009901 AAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GATCACACACTGAGGTATTTTT
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGATCACACACTGAGCTA--TTT
*
53009965 TCAATTTATATTTTT
63 TCAATTTATATCTTT
* * * *
53009980 CAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTAGGGTCACA
1 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACA
53010029 TGTCGAGGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
77 51 0.47
78 1 0.01
79 56 0.52
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (77 bp):
AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGATCACACACTGAGCTATTTTCA
ATTTATATCTTT
Found at i:53010132 original size:88 final size:88
Alignment explanation
Indices: 53009983--53010144 Score: 227
Period size: 88 Copynumber: 1.8 Consensus size: 88
53009973 TATTTTTCAA
* * *
53009983 AAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTAGGGTCACATGTCGAGGTATTTTCAAAA
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTAGGCTCACATGTCGAGCTATTTTCAAAA
53010048 TCTGTTTTTCAGATTTTGTTTTC
66 TCTGTTTTTCAGATTTTGTTTTC
* * * * *
53010071 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTTGGCTCACGTG-CTGAGCTATTTTCAAT
1 AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTAGGCTCACATGTC-GAGCTATTTTCAAA
*
53010135 TTCTGTTTTT
65 ATCTGTTTTT
53010145 TTTCAAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
87 1 0.02
88 63 0.98
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCACATTGCGAGAAGTGAGTTGAGCCTAGGCTCACATGTCGAGCTATTTTCAAAA
TCTGTTTTTCAGATTTTGTTTTC
Found at i:53010333 original size:253 final size:243
Alignment explanation
Indices: 53009581--53010399 Score: 937
Period size: 253 Copynumber: 3.3 Consensus size: 243
53009571 CTGTCTTTAA
*
53009581 AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
* *
53009646 TTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCA---GGACACGCTG
66 TTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTAATTCGGA-AAGCTG
* * * *
53009708 AGGTA-ATTTCAATTTCTG-TTGTCAAAAAAATCAACT-AGTATTGTGAGAGGCGAGTTGAGCCT
130 AGGTATATTTTAATTTCTGTTTTTC-AAAAAATCAACTCA-TATTGCGAGAGGTGAGTTGAGCCT
* * * * * * *
53009770 CAGGTCACACGCCGAGGTATTTTC-AATTTTCGTTTTTCAATTTCTGCCTTTC
193 TAGGTCACATGTCGAGGTATTTTCAAAATCT-GTTTTTCAAGTTATG-CTTTC
53009822 AAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
1 ----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
** *
53009887 CAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA-TCACAC
62 CAATTTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTT-A-ATTCGGAA
* * * * *
53009951 A-CTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTG
125 AGCTGAGGTATATTTT-AATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
53010015 AGCC-TAGGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTC-AGATTTTGTTTTC
188 AGCCTTA-GGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAG-TTATGCTTTC
* * *
53010071 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGTCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
* *
53010135 TTCTGTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTG
66 TTCTG---TCTTTAAAAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGC---TTAA-TTC-G
* * * *
53010200 TGAAAGTTGAGTTGAGTCTTTTAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAAAGGTGA
122 -GAAAGCTGAGGT-A-TATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGA
* * * * *
53010264 GTTGAACCTTAAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTTAAG-TTTC
184 GTTGAGCCTTAGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTATGCTTTC
*
53010323 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
*
53010388 TTCTGTTTTTAA
66 TTCTGTCTTTAA
53010400 TGTCTGTTTT
Statistics
Matches: 498, Mismatches: 48, Indels: 51
0.83 0.08 0.09
Matches are distributed among these distances:
244 66 0.13
245 114 0.23
247 22 0.04
248 31 0.06
249 14 0.03
250 74 0.15
251 9 0.02
252 4 0.01
253 137 0.28
254 9 0.02
255 13 0.03
256 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (243 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
TTCTGTCTTTAAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTAATTCGGAAAGCTGA
GGTATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG
GTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAGTTATGCTTTC
Found at i:53011091 original size:29 final size:30
Alignment explanation
Indices: 53011053--53011119 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 30
53011043 TAAGCCCCCC
53011053 AAAAAAACCTAACCC-AAAAAAAA-AAAAGA
1 AAAAAAACCTAACCCTAAAAAAAAGAAAA-A
53011082 AAAAAAACCTAACCCTAAAAAAAAGAAAAA
1 AAAAAAACCTAACCCTAAAAAAAAGAAAAA
53011112 AGAAAAAA
1 A-AAAAAA
53011120 GAAAAACCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.43
30 10 0.29
31 10 0.29
ACGTcount: A:0.76, C:0.15, G:0.04, T:0.04
Consensus pattern (30 bp):
AAAAAAACCTAACCCTAAAAAAAAGAAAAA
Found at i:53011112 original size:7 final size:7
Alignment explanation
Indices: 53011100--53011125 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
53011090 CTAACCCTAA
53011100 AAAAAAG
1 AAAAAAG
53011107 AAAAAAG
1 AAAAAAG
53011114 AAAAAAG
1 AAAAAAG
53011121 AAAAA
1 AAAAA
53011126 CCTAACTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:53013105 original size:15 final size:15
Alignment explanation
Indices: 53013085--53013134 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
53013075 AAAATATAAA
53013085 AAAAATTAAAATTAT
1 AAAAATTAAAATTAT
53013100 AAAAATTATAAATTAT
1 AAAAATTA-AAATTAT
*
53013116 -AAATTATAAAATTAT
1 AAAAAT-TAAAATTAT
53013131 AAAA
1 AAAA
53013135 TTATAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 19 0.61
16 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAAAATTAAAATTAT
Found at i:53013122 original size:23 final size:23
Alignment explanation
Indices: 53012997--53013141 Score: 101
Period size: 23 Copynumber: 6.2 Consensus size: 23
53012987 TTCCACATTA
53012997 ATAAATTATAAAA-TATAAAAATT
1 ATAAATTATAAAATTAT-AAAATT
**
53013020 ATTAAATTATATAAA-TATATTATT
1 A-TAAATTATA-AAATTATAAAATT
53013044 A-AAAGTTATGAAAATTTTATAAAAATT
1 ATAAA-TTAT-AAAA--TTAT-AAAATT
*
53013071 ATTAAA-AATATAAA--A-AAAATT
1 A-TAAATTATA-AAATTATAAAATT
53013092 A-AAATTATAAAAATTAT-AAATT
1 ATAAATTAT-AAAATTATAAAATT
53013114 ATAAATTATAAAATTATAAAATT
1 ATAAATTATAAAATTATAAAATT
53013137 ATAAA
1 ATAAA
53013142 AAAATTATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 36
0.70 0.04 0.26
Matches are distributed among these distances:
19 3 0.03
20 5 0.05
21 8 0.08
22 18 0.18
23 26 0.27
24 15 0.15
25 6 0.06
26 4 0.04
27 10 0.10
29 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (23 bp):
ATAAATTATAAAATTATAAAATT
Found at i:53013145 original size:77 final size:78
Alignment explanation
Indices: 53013014--53013157 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 78
53013004 ATAAAATATA
* * * * *
53013014 AAAATTATTAAATTATATAAATATATTATTAAAAGTTATGAAAATTTTATAAAAATTATTAAAAA
1 AAAATTATAAAATTATATAAATAAATTATTAAAAGTTATGAAAATTATAAAAAAATTATAAAAAA
53013079 TATAAAAAAAATT
66 TATAAAAAAAATT
53013092 AAAATTATAAAAATTATA-AATTATAAATTA-TAAAA-TTAT-AAAATTATAAAAAAATTATAAA
1 AAAATTAT-AAAATTATATAA--ATAAATTATTAAAAGTTATGAAAATTATAAAAAAATTATAAA
53013153 AAATA
63 AAATA
53013158 GGTAAAAGTT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
77 24 0.41
78 14 0.24
79 13 0.22
80 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (78 bp):
AAAATTATAAAATTATATAAATAAATTATTAAAAGTTATGAAAATTATAAAAAAATTATAAAAAA
TATAAAAAAAATT
Found at i:53013147 original size:11 final size:11
Alignment explanation
Indices: 53013131--53013155 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53013121 ATAAAATTAT
53013131 AAAATTATAAA
1 AAAATTATAAA
53013142 AAAATTATAAA
1 AAAATTATAAA
53013153 AAA
1 AAA
53013156 TAGGTAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:53013153 original size:8 final size:8
Alignment explanation
Indices: 53012999--53013142 Score: 100
Period size: 8 Copynumber: 17.4 Consensus size: 8
53012989 CCACATTAAT
53012999 AAATTATA
1 AAATTATA
53013007 AAA-TATAA
1 AAATTAT-A
*
53013015 AAATTATT
1 AAATTATA
53013023 AAATTATA
1 AAATTATA
53013031 TAAA-TATA
1 -AAATTATA
**
53013039 TTATTA-A
1 AAATTATA
*
53013046 AAGTTATGA
1 AAATTAT-A
53013055 AAATTTTATAA
1 AAA--TTAT-A
53013066 AAATTATTA
1 AAATTA-TA
*
53013075 AAAATATAA
1 AAATTAT-A
**
53013084 AAAAAATTA
1 AAATTA-TA
53013093 AAATTATAA
1 AAATTAT-A
53013102 AAATTAT-
1 AAATTATA
53013109 AAATTAT-
1 AAATTATA
53013116 AAATTATA
1 AAATTATA
53013124 AAATTATA
1 AAATTATA
53013132 AAATTATA
1 AAATTATA
53013140 AAA
1 AAA
53013143 AAATTATAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
7 22 0.20
8 41 0.37
9 37 0.34
10 2 0.02
11 8 0.07
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (8 bp):
AAATTATA
Found at i:53013153 original size:9 final size:9
Alignment explanation
Indices: 53012999--53013154 Score: 105
Period size: 9 Copynumber: 17.3 Consensus size: 9
53012989 CCACATTAAT
53012999 AAATTAT-A
1 AAATTATAA
53013007 AAA-TATAA
1 AAATTATAA
*
53013015 AAATTATTA
1 AAATTATAA
*
53013024 AATTATATAA
1 AAAT-TATAA
53013034 ATATATTATTAA
1 A-A-ATTA-TAA
*
53013046 AAGTTATGAA
1 AAATTAT-AA
*
53013056 AATTTTATAA
1 AA-ATTATAA
53013066 AAATTATTAA
1 AAATTA-TAA
53013076 AAA-TATAA
1 AAATTATAA
** *
53013084 AAAAAATTA
1 AAATTATAA
53013093 AAATTATAA
1 AAATTATAA
53013102 AAATTAT--
1 AAATTATAA
53013109 AAATTAT--
1 AAATTATAA
53013116 AAATTAT-A
1 AAATTATAA
53013124 AAATTAT-A
1 AAATTATAA
53013132 AAATTATAAAA
1 AAATTAT--AA
53013143 AAATTATAA
1 AAATTATAA
53013152 AAA
1 AAA
53013155 ATAGGTAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 27
0.76 0.07 0.17
Matches are distributed among these distances:
7 17 0.14
8 28 0.23
9 34 0.28
10 22 0.18
11 16 0.13
12 5 0.04
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:53022532 original size:31 final size:29
Alignment explanation
Indices: 53022472--53022532 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
53022462 TTCATTTGTA
*
53022472 TATTTTTATATTTTATTATATAACATATT
1 TATTTTTAAATTTTATTATATAACATATT
* *
53022501 TATTTTTAAATTTTCTTTTATAA-ATA-T
1 TATTTTTAAATTTTATTATATAACATATT
53022528 TATTT
1 TATTT
53022533 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 3 0.10
29 20 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTAAATTTTATTATATAACATATT
Found at i:53022979 original size:13 final size:13
Alignment explanation
Indices: 53022961--53022985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53022951 TTTTTATCAT
53022961 TGTTATTTCATGA
1 TGTTATTTCATGA
53022974 TGTTATTTCATG
1 TGTTATTTCATG
53022986 CTCAATACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (13 bp):
TGTTATTTCATGA
Found at i:53028122 original size:11 final size:10
Alignment explanation
Indices: 53028104--53028164 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 10
53028094 TAATAAATAA
53028104 AAATAAAATC
1 AAATAAAATC
53028114 AAATCAAAAATC
1 AAAT--AAAATC
*
53028126 AAAAAAAAATC
1 -AAATAAAATC
53028137 AAA-AAAATC
1 AAATAAAATC
53028146 -AA-AAAATC
1 AAATAAAATC
53028154 -AA-AAAATC
1 AAATAAAATC
53028162 AAA
1 AAA
53028165 AAGAGAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
8 16 0.35
9 8 0.17
10 7 0.15
11 6 0.13
12 6 0.13
13 3 0.07
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.13
Consensus pattern (10 bp):
AAATAAAATC
Found at i:53028123 original size:18 final size:17
Alignment explanation
Indices: 53028114--53028166 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
53028104 AAATAAAATC
53028114 AAATC-AAAAATCAAAAAA
1 AAATCAAAAAATC--AAAA
53028132 AAATCAAAAAAATC-AAA
1 AAATC-AAAAAATCAAAA
53028149 AAATCAAAAAATCAAAA
1 AAATCAAAAAATCAAAA
53028166 A
1 A
53028167 GAGAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.25
17 12 0.38
18 5 0.16
20 7 0.22
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAATCAAAAAATCAAAA
Found at i:53028140 original size:8 final size:8
Alignment explanation
Indices: 53028129--53028166 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
53028119 AAAAATCAAA
53028129 AAAAAATC
1 AAAAAATC
53028137 AAAAAAATC
1 -AAAAAATC
53028146 AAAAAATC
1 AAAAAATC
53028154 AAAAAATC
1 AAAAAATC
53028162 AAAAA
1 AAAAA
53028167 GAGAAGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:53028141 original size:12 final size:12
Alignment explanation
Indices: 53028098--53028143 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
53028088 AAAAAATAAT
*
53028098 AAAT-AAAAATA
1 AAATCAAAAAAA
**
53028109 AAATCAAATCAA
1 AAATCAAAAAAA
53028121 AAATC-AAAAAA
1 AAATCAAAAAAA
53028132 AAATCAAAAAAA
1 AAATCAAAAAAA
53028144 TCAAAAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (12 bp):
AAATCAAAAAAA
Found at i:53029481 original size:44 final size:45
Alignment explanation
Indices: 53029393--53029496 Score: 104
Period size: 44 Copynumber: 2.3 Consensus size: 45
53029383 ATCAATGAAT
* ** * *
53029393 TCATAGATTTTATCCCCGTGAGGTAGCAAGAGAGCAGGCCGAAGA
1 TCATAGATCTTATCTTCTTGAGGTAGCAAGAGAGCAGACCGAAGA
** * *
53029438 TTGTAG-TCTTATCTTCTTGAGGTAGCAA-AGAAGCATACTGAAGA
1 TCATAGATCTTATCTTCTTGAGGTAGCAAGAG-AGCAGACCGAAGA
53029482 TCATAGATCTTATCT
1 TCATAGATCTTATCT
53029497 CCCTAAACAG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.04
44 32 0.70
45 12 0.26
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
TCATAGATCTTATCTTCTTGAGGTAGCAAGAGAGCAGACCGAAGA
Found at i:53030010 original size:44 final size:44
Alignment explanation
Indices: 53029928--53030033 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
53029918 TTTAGCCACC
*** *
53029928 AGTCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
* *
53029972 AGTCTTATCTTTCTAAGGTAGCAAG-GAAGCACACTGAAGATTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAG-AGCACACTGAAGATTGT
* *
53030016 AGATTTTATCTCCCTAAG
1 AG-TCTTATCTCTCTAAG
53030034 CAGTAGTGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.75
45 12 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
Found at i:53030144 original size:177 final size:177
Alignment explanation
Indices: 53029413--53030115 Score: 931
Period size: 177 Copynumber: 4.0 Consensus size: 177
53029403 TATCCCCGTG
** * * * * *
53029413 AGGTAGCAAGAGAGCAGGCCGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAAGAAGCATACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
** * * *
53029478 AAGATCATAGATCTTATCTCCCTAAACAGTAGAGGAGTAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * *
53029543 TCGAGGTAGCA-GGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
53029589 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGAAGCAAGAAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * * *
53029654 AAGATTGTAGATCTTATTTCCCTAAGCAGTGGTGGAACTGATCGAAGATGACGAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * *
53029719 CCGATGTAGTAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * * * *
53029766 ATGTGGTAAGAGAGTAAGTTGAAGTTTGAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* ** *
53029831 AAGATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * *
53029896 CCGAGGTAGTAGAGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * *
53029943 AGGTAACAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTTCTAAGGTAGCAAGGAAGCACACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
53030008 AAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * * *
53030073 TCGAGGTAGCAGGGGAACAAATTTTAGCTACTAGTCTTATCTC
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTC
53030116 CCTGAAGTTG
Statistics
Matches: 455, Mismatches: 71, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
176 118 0.26
177 337 0.74
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:53031602 original size:31 final size:29
Alignment explanation
Indices: 53031542--53031602 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
53031532 TTCATTTGTA
*
53031542 TATTTTTATATTTTATTATATAACATATT
1 TATTTTTAAATTTTATTATATAACATATT
* *
53031571 TATTTTTAAATTTTCTTTTATAA-ATA-T
1 TATTTTTAAATTTTATTATATAACATATT
53031598 TATTT
1 TATTT
53031603 GTTTTAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 3 0.10
29 20 0.69
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (29 bp):
TATTTTTAAATTTTATTATATAACATATT
Found at i:53031815 original size:40 final size:40
Alignment explanation
Indices: 53031760--53031840 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
53031750 TACATTCATT
*
53031760 ACTTACTTTAAATCTCTTAGTACATATAATTTATTCTTAA
1 ACTTACTTTAAATCTCTTAGTACATATAATTGATTCTTAA
*
53031800 ACTTACTTTAAATCTCTTGGTACATATAATTGATTCTTAA
1 ACTTACTTTAAATCTCTTAGTACATATAATTGATTCTTAA
53031840 A
1 A
53031841 TTGTTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.15, G:0.05, T:0.46
Consensus pattern (40 bp):
ACTTACTTTAAATCTCTTAGTACATATAATTGATTCTTAA
Found at i:53037343 original size:11 final size:10
Alignment explanation
Indices: 53037325--53037385 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 10
53037315 TAATAAATAA
53037325 AAATAAAATC
1 AAATAAAATC
53037335 AAATCAAAAATC
1 AAAT--AAAATC
*
53037347 AAAAAAAAATC
1 -AAATAAAATC
53037358 AAA-AAAATC
1 AAATAAAATC
53037367 -AA-AAAATC
1 AAATAAAATC
53037375 -AA-AAAATC
1 AAATAAAATC
53037383 AAA
1 AAA
53037386 AAGAGAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
8 16 0.35
9 8 0.17
10 7 0.15
11 6 0.13
12 6 0.13
13 3 0.07
ACGTcount: A:0.75, C:0.11, G:0.00, T:0.13
Consensus pattern (10 bp):
AAATAAAATC
Found at i:53037344 original size:18 final size:17
Alignment explanation
Indices: 53037335--53037387 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
53037325 AAATAAAATC
53037335 AAATC-AAAAATCAAAAAA
1 AAATCAAAAAATC--AAAA
53037353 AAATCAAAAAAATC-AAA
1 AAATC-AAAAAATCAAAA
53037370 AAATCAAAAAATCAAAA
1 AAATCAAAAAATCAAAA
53037387 A
1 A
53037388 GAGAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 8 0.25
17 12 0.38
18 5 0.16
20 7 0.22
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAATCAAAAAATCAAAA
Found at i:53037361 original size:8 final size:8
Alignment explanation
Indices: 53037350--53037387 Score: 67
Period size: 8 Copynumber: 4.6 Consensus size: 8
53037340 AAAAATCAAA
53037350 AAAAAATC
1 AAAAAATC
53037358 AAAAAAATC
1 -AAAAAATC
53037367 AAAAAATC
1 AAAAAATC
53037375 AAAAAATC
1 AAAAAATC
53037383 AAAAA
1 AAAAA
53037388 GAGAAGAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 21 0.72
9 8 0.28
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:53037362 original size:12 final size:12
Alignment explanation
Indices: 53037319--53037364 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
53037309 AAAAAATAAT
*
53037319 AAAT-AAAAATA
1 AAATCAAAAAAA
**
53037330 AAATCAAATCAA
1 AAATCAAAAAAA
53037342 AAATC-AAAAAA
1 AAATCAAAAAAA
53037353 AAATCAAAAAAA
1 AAATCAAAAAAA
53037365 TCAAAAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
11 13 0.46
12 15 0.54
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (12 bp):
AAATCAAAAAAA
Found at i:53038702 original size:44 final size:45
Alignment explanation
Indices: 53038614--53038717 Score: 104
Period size: 44 Copynumber: 2.3 Consensus size: 45
53038604 ATCAATGAAT
* ** * *
53038614 TCATAGATTTTATCCCCGTGAGGTAGCAAGAGAGCAGGCCGAAGA
1 TCATAGATCTTATCTTCTTGAGGTAGCAAGAGAGCAGACCGAAGA
** * *
53038659 TTGTAG-TCTTATCTTCTTGAGGTAGCAA-AGAAGCATACTGAAGA
1 TCATAGATCTTATCTTCTTGAGGTAGCAAGAG-AGCAGACCGAAGA
53038703 TCATAGATCTTATCT
1 TCATAGATCTTATCT
53038718 CCCTAAACAG
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
43 2 0.04
44 32 0.70
45 12 0.26
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
TCATAGATCTTATCTTCTTGAGGTAGCAAGAGAGCAGACCGAAGA
Found at i:53039231 original size:44 final size:44
Alignment explanation
Indices: 53039149--53039254 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 44
53039139 TTTAGCCACC
*** *
53039149 AGTCTTATCTCTCTAAGGTAACAAGAGAGCAGGTTGAAGTTTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
* *
53039193 AGTCTTATCTTTCTAAGGTAGCAAG-GAAGCACACTGAAGATTGT
1 AGTCTTATCTCTCTAAGGTAACAAGAG-AGCACACTGAAGATTGT
* *
53039237 AGATTTTATCTCCCTAAG
1 AG-TCTTATCTCTCTAAG
53039255 CAGTAGTGGA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 38 0.75
45 12 0.24
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (44 bp):
AGTCTTATCTCTCTAAGGTAACAAGAGAGCACACTGAAGATTGT
Found at i:53039365 original size:177 final size:177
Alignment explanation
Indices: 53038634--53039336 Score: 931
Period size: 177 Copynumber: 4.0 Consensus size: 177
53038624 TATCCCCGTG
** * * * * *
53038634 AGGTAGCAAGAGAGCAGGCCGAAGATTGTAGTCTTATCTTCTTGAGGTAGCAAAGAAGCATACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
** * * *
53038699 AAGATCATAGATCTTATCTCCCTAAACAGTAGAGGAGTAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * *
53038764 TCGAGGTAGCA-GGGAGCAGATTTTAGCCATCAGCCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* *
53038810 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGAAGCAAGAAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* * * * * *
53038875 AAGATTGTAGATCTTATTTCCCTAAGCAGTGGTGGAACTGATCGAAGATGACGAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * *
53038940 CCGATGTAGTAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTG
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * * * *
53038987 ATGTGGTAAGAGAGTAAGTTGAAGTTTGAAGTCTTATCTTCCTTAGGTAGCAAGGAAGCAGACTA
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
* ** *
53039052 AAGATTGTAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATTTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * *
53039117 CCGAGGTAGTAGAGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTA
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
* * * * *
53039164 AGGTAACAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTTCTAAGGTAGCAAGGAAGCACACTG
1 AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
*
53039229 AAGATTGTAGATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
66 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
* * * * *
53039294 TCGAGGTAGCAGGGGAACAAATTTTAGCTACTAGTCTTATCTC
131 CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTC
53039337 CCTGAAGTTG
Statistics
Matches: 455, Mismatches: 71, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
176 118 0.26
177 337 0.74
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (177 bp):
AGGTAGCAAGAGAGCAGGTTGAAGTTTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTA
AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCTTATCTTC
CCGAGGTAGCAGGGGAGCAAATTTTAGCCACCAGCCTTATCTCTCTA
Found at i:53040989 original size:15 final size:15
Alignment explanation
Indices: 53040966--53041000 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
53040956 TTATTCTAAA
*
53040966 ATTAATTTATATATT
1 ATTAATTTACATATT
*
53040981 ATTATTTTACATATT
1 ATTAATTTACATATT
53040996 ATTAA
1 ATTAA
53041001 CTTTTGATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTAATTTACATATT
Found at i:53043491 original size:25 final size:24
Alignment explanation
Indices: 53043382--53043551 Score: 116
Period size: 25 Copynumber: 6.9 Consensus size: 24
53043372 TTTAATATTG
* *
53043382 TATTTTT-ATATATGTCATGTATA
1 TATTTTTAATATATATTATGTATA
* * *
53043405 TATTTCTAATA-CTA-TAT-TACA
1 TATTTTTAATATATATTATGTATA
*
53043426 T-TTTTTACATATTATCTTATGTATA
1 TATTTTTA-ATA-TATATTATGTATA
* *
53043451 TATTTTTTAAAAACTATATTATGTATG
1 TA-TTTTT-AATA-TATATTATGTATA
* * *
53043478 TATTTTTAACACTATATTACGTACA
1 TATTTTTAATA-TATATTATGTATA
*
53043503 TACTTTTAATATCATTATTATGTATA
1 TATTTTTAATAT-A-TATTATGTATA
53043529 TATTTTTAATATATATTTATGTA
1 TATTTTTAATATATA-TTATGTA
53043552 GTATTATTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.04
21 7 0.06
22 2 0.02
23 8 0.07
24 9 0.08
25 36 0.32
26 25 0.22
27 20 0.18
28 1 0.01
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (24 bp):
TATTTTTAATATATATTATGTATA
Found at i:53043538 original size:26 final size:26
Alignment explanation
Indices: 53043427--53043688 Score: 123
Period size: 26 Copynumber: 10.0 Consensus size: 26
53043417 TATATTACAT
*
53043427 TTTTTACATAT-TATCTTATGTATATA
1 TTTTTA-ATATCTATATTATGTATATA
* * *
53043453 TTTTTTAAAAACTATATTATGTATGTA
1 -TTTTTAATATCTATATTATGTATATA
* * *
53043480 TTTTTAACA-CTATATTACGTACATA
1 TTTTTAATATCTATATTATGTATATA
*
53043505 CTTTTAATATC-ATTATTATGTATATA
1 TTTTTAATATCTA-TATTATGTATATA
*
53043531 TTTTTAATATATAT-TTATGTAGTATTA
1 TTTTTAATATCTATATTATGTA-TA-TA
* * *
53043558 TTAATAGTT-GTTTTTAATATTAT-TAT-TA
1 TT--T--TTAATATCT-ATATTATGTATATA
* *
53043586 TTTCTAATATGTATA-TAT-TATATA
1 TTTTTAATATCTATATTATGTATATA
* * * * * *
53043610 TATATATTTTCAATACTATGTATATA
1 TTTTTAATATCTATATTATGTATATA
*
53043636 CTTTTTAATA-CTATTATTATGTTTATA
1 -TTTTTAATATCTA-TATTATGTATATA
* *
53043663 -TTTTAATATATATACGTATGTATATA
1 TTTTTAATATCTATA-TTATGTATATA
53043689 GGTAACATTA
Statistics
Matches: 178, Mismatches: 37, Indels: 41
0.70 0.14 0.16
Matches are distributed among these distances:
23 6 0.03
24 15 0.08
25 44 0.25
26 54 0.30
27 40 0.22
28 4 0.02
29 1 0.01
30 4 0.02
31 6 0.03
32 4 0.02
ACGTcount: A:0.35, C:0.06, G:0.05, T:0.54
Consensus pattern (26 bp):
TTTTTAATATCTATATTATGTATATA
Found at i:53043635 original size:20 final size:21
Alignment explanation
Indices: 53043610--53043649 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
53043600 ATATTATATA
53043610 TATATA-TTTTCAATACTATG
1 TATATACTTTTCAATACTATG
*
53043630 TATATACTTTTTAATACTAT
1 TATATACTTTTCAATACTAT
53043650 TATTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TATATACTTTTCAATACTATG
Found at i:53048653 original size:22 final size:23
Alignment explanation
Indices: 53048624--53048677 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
53048614 CCATGACTAA
*
53048624 CATTCATTCGTCATTTATTCAAT
1 CATTCATTCGTCATTCATTCAAT
* *
53048647 -ATTCATTTGTCATTCATTCATT
1 CATTCATTCGTCATTCATTCAAT
53048669 CATTCATTC
1 CATTCATTC
53048678 ATTGCATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (23 bp):
CATTCATTCGTCATTCATTCAAT
Found at i:53048665 original size:4 final size:4
Alignment explanation
Indices: 53048656--53048680 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
53048646 TATTCATTTG
53048656 TCAT TCAT TCAT TCAT TCAT TCAT T
1 TCAT TCAT TCAT TCAT TCAT TCAT T
53048681 GCATGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (4 bp):
TCAT
Found at i:53052201 original size:50 final size:50
Alignment explanation
Indices: 53052093--53052278 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
53052083 ACATGTCAAA
** * * *
53052093 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
* * *
53052144 GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
53052194 GCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
53052244 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
53052279 TTACCCAAAT
Statistics
Matches: 121, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 93 0.77
51 28 0.23
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:53052394 original size:13 final size:13
Alignment explanation
Indices: 53052373--53052403 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
53052363 GCTTAGATCA
*
53052373 TCATCAAATAAAT
1 TCATAAAATAAAT
53052386 TCATAAAATAAAT
1 TCATAAAATAAAT
53052399 TCATA
1 TCATA
53052404 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:53059680 original size:74 final size:75
Alignment explanation
Indices: 53059585--53059974 Score: 416
Period size: 73 Copynumber: 5.1 Consensus size: 75
53059575 TGATGTTTTT
* * *
53059585 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC-TTAA
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
53059648 GGTATTTTCA
66 GGTATTTTCA
53059658 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTG
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTG
*
53059722 AGGTAATGTT-A
65 AGGT-ATTTTCA
* * *
53059733 ATTTCTGTTCTTCAGTTTGTGTTTCAAAAAATCAATTCATATTGCGAGAGATGAGTTGAGTCTCA
1 ATTTCTGTT-TTCA-----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
53059798 GGTCACACACTGAGGTATTTTCA
54 GG-CACACGCTGAGGTATTTTCA
* *
53059821 ATTTATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCTG
*
53059883 AGGTATTTTTA
65 AGGTATTTTCA
* * * * *
53059894 ATTTCTGTTTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTTACACACT
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGCT
*
53059959 TAGGTATTTTCA
64 GAGGTATTTTCA
53059971 ATTT
1 ATTT
53059975 TTACTTTTTC
Statistics
Matches: 270, Mismatches: 25, Indels: 40
0.81 0.07 0.12
Matches are distributed among these distances:
73 70 0.26
74 51 0.19
75 22 0.08
76 4 0.01
77 58 0.21
86 42 0.16
87 5 0.02
88 18 0.07
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGCTGA
GGTATTTTCA
Found at i:53059939 original size:77 final size:75
Alignment explanation
Indices: 53059754--53060017 Score: 316
Period size: 73 Copynumber: 3.5 Consensus size: 75
53059744 TCAGTTTGTG
*
53059754 TTTCAAAAAATCAATTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTT
1 TTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTT
53059819 CAATTTATG--
65 CAATTTATGTT
* * * * *
53059828 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTTC
*
53059893 AATTTCTGTT
66 AATTTATGTT
* * * * *
53059903 TTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTTAGGTTACACACTTAGGTATTT
1 TTTC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTT
* *
53059968 TCAATTTTTACTT
64 TCAATTTAT-GTT
* * * *
53059981 TTTCAAAAGTTAACTCATAATCCGAGAGATGAGTTGA
1 TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGA
53060018 ACTTCAATTC
Statistics
Matches: 164, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
73 62 0.38
74 4 0.02
75 4 0.02
76 29 0.18
77 59 0.36
78 6 0.04
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGTCTCAGGTCACACACTGAGGTATTTTC
AATTTATGTT
Found at i:53067182 original size:16 final size:15
Alignment explanation
Indices: 53067149--53067222 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 15
53067139 TAAAATTCTA
* *
53067149 AAAATATCAAAAGAT
1 AAAATATTAAAAAAT
53067164 AAAATATTAAAAAATT
1 AAAATATTAAAAAA-T
*
53067180 AAAACT-TGTCCTAAAAAT
1 AAAA-TAT-T--AAAAAAT
*
53067198 AAAATATTAGAAAATT
1 AAAATATTA-AAAAAT
53067214 AAAATATTA
1 AAAATATTA
53067223 TCATAATGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 12 0.26
16 20 0.43
17 4 0.09
18 6 0.13
19 5 0.11
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.28
Consensus pattern (15 bp):
AAAATATTAAAAAAT
Found at i:53068144 original size:22 final size:22
Alignment explanation
Indices: 53068114--53068155 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
53068104 TTTTGAACAC
* *
53068114 AAGATAAAACAAAAGTTCATTT
1 AAGACAAAAAAAAAGTTCATTT
*
53068136 AAGACAAAAAAAAATTTCAT
1 AAGACAAAAAAAAAGTTCAT
53068156 GCAACTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (22 bp):
AAGACAAAAAAAAAGTTCATTT
Found at i:53073297 original size:29 final size:29
Alignment explanation
Indices: 53073253--53073311 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
53073243 AATTTTAAAT
* *
53073253 TTTTACCTAAAGGTATATATTAACGTTAA
1 TTTTACCTAAACGTATATATTAACATTAA
*
53073282 TTTTACCTAAACGTATATATTTACATTAA
1 TTTTACCTAAACGTATATATTAACATTAA
53073311 T
1 T
53073312 CTTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (29 bp):
TTTTACCTAAACGTATATATTAACATTAA
Found at i:53077317 original size:14 final size:14
Alignment explanation
Indices: 53077293--53077326 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
53077283 TGAAACATCG
53077293 TAATATTTATTATTT
1 TAAT-TTTATTATTT
53077308 TAATTTTATTATTT
1 TAATTTTATTATTT
53077322 TAATT
1 TAATT
53077327 AAAATATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TAATTTTATTATTT
Found at i:53082653 original size:13 final size:13
Alignment explanation
Indices: 53082637--53082702 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
53082627 TTTAAACCAA
*
53082637 ACTTTTTAAGAGC
1 ACTTTTTAAAAGC
* *
53082650 ACTTCTCAAAAGC
1 ACTTTTTAAAAGC
* *
53082663 ACTTTTTCACAGC
1 ACTTTTTAAAAGC
53082676 ACTTTTTAAAAGC
1 ACTTTTTAAAAGC
*
53082689 ACTTTTCAAAAGC
1 ACTTTTTAAAAGC
53082702 A
1 A
53082703 TTGCCAAACT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (13 bp):
ACTTTTTAAAAGC
Found at i:53090341 original size:16 final size:16
Alignment explanation
Indices: 53090320--53090351 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53090310 ACGTATAAGA
53090320 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
53090336 GTTTTGTTATTTATAT
1 GTTTTGTTATTTATAT
53090352 ATAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.69
Consensus pattern (16 bp):
GTTTTGTTATTTATAT
Found at i:53090777 original size:36 final size:36
Alignment explanation
Indices: 53090730--53090811 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
53090720 TTGTGAACCA
* *
53090730 TGTTAACTTGGTGAAT-TATATTATTATGGCGAACTG
1 TGTTAATTTGGTG-ATCTATATTAATATGGCGAACTG
* * *
53090766 TGTTAATTTGGTGATCTGTATTAATCTGGTGAACTG
1 TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
*
53090802 TATTAATTTG
1 TGTTAATTTG
53090812 CCAAATTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.45
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATATGGCGAACTG
Found at i:53090789 original size:18 final size:18
Alignment explanation
Indices: 53090732--53090811 Score: 81
Period size: 18 Copynumber: 4.4 Consensus size: 18
53090722 GTGAACCATG
* * *
53090732 TTAACTTGGTGAATTATA
1 TTAATTTGGTGAACTGTA
* *
53090750 TT-ATTATGGCGAACTGTG
1 TTAATT-TGGTGAACTGTA
*
53090768 TTAATTTGGTGATCTGTA
1 TTAATTTGGTGAACTGTA
*
53090786 TTAATCTGGTGAACTGTA
1 TTAATTTGGTGAACTGTA
53090804 TTAATTTG
1 TTAATTTG
53090812 CCAAATTGTG
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.04
18 44 0.90
19 3 0.06
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.45
Consensus pattern (18 bp):
TTAATTTGGTGAACTGTA
Found at i:53091468 original size:17 final size:17
Alignment explanation
Indices: 53091446--53091519 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 17
53091436 TTATGATGGA
53091446 GCATGAACTGTTATTTT
1 GCATGAACTGTTATTTT
* **
53091463 GCATGAATTGTTATTCG
1 GCATGAACTGTTATTTT
* * *
53091480 GTATGAACTGATATTTC
1 GCATGAACTGTTATTTT
** *
53091497 ATATGAACTATTATTTT
1 GCATGAACTGTTATTTT
53091514 GCATGA
1 GCATGA
53091520 GTTGTAAATT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 43 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (17 bp):
GCATGAACTGTTATTTT
Found at i:53091511 original size:51 final size:51
Alignment explanation
Indices: 53091448--53091556 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
53091438 ATGATGGAGC
* * *
53091448 ATGAACTGTTATTTTGCATGAATTGT-TATTCGGTATGAACTGATATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAAATT-GGTAAGAACTGATATTTCAT
* *
53091499 ATGAACTATTATTTTGCATGAGTTGTAAATTGGTAAGAACTGTTATTTCAT
1 ATGAACTATTATTTTGCATGAATTGTAAATTGGTAAGAACTGATATTTCAT
*
53091550 ATAAACT
1 ATGAACT
53091557 GATGTTTGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 48 0.94
52 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (51 bp):
ATGAACTATTATTTTGCATGAATTGTAAATTGGTAAGAACTGATATTTCAT
Found at i:53093716 original size:31 final size:31
Alignment explanation
Indices: 53093678--53093742 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
53093668 GCTAAAAAGA
*
53093678 TAATAAAGATGGCTCTTTTTTTGTTTGGCAT
1 TAATAAAGATAGCTCTTTTTTTGTTTGGCAT
53093709 TAATAAAGATAGCTCTTTTTTTGTTTGGCAT
1 TAATAAAGATAGCTCTTTTTTTGTTTGGCAT
53093740 TAA
1 TAA
53093743 GTATGCTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (31 bp):
TAATAAAGATAGCTCTTTTTTTGTTTGGCAT
Found at i:53100749 original size:15 final size:14
Alignment explanation
Indices: 53100717--53100782 Score: 80
Period size: 14 Copynumber: 4.6 Consensus size: 14
53100707 TATTTGAATA
*
53100717 TATTCTTTTTCAAT
1 TATTATTTTTCAAT
*
53100731 TATTATTTTTGAAT
1 TATTATTTTTCAAT
53100745 ATATTATATTTTCAAT
1 -TATTAT-TTTTCAAT
53100761 TATTATTTTTCTAAT
1 TATTATTTTTC-AAT
53100776 T-TTATTT
1 TATTATTT
53100783 ATATTATTTG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 23 0.50
15 16 0.35
16 7 0.15
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (14 bp):
TATTATTTTTCAAT
Found at i:53100759 original size:30 final size:29
Alignment explanation
Indices: 53100709--53100770 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
53100699 AATTTAATTA
*
53100709 TTTGAATATATTCTTTTTCAATTATTATT
1 TTTGAATATATTATTTTTCAATTATTATT
53100738 TTTGAATATATTATATTTTCAATTATTATT
1 TTTGAATATATTAT-TTTTCAATTATTATT
53100768 TTT
1 TTT
53100771 CTAATTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 13 0.42
30 18 0.58
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTGAATATATTATTTTTCAATTATTATT
Found at i:53100769 original size:29 final size:28
Alignment explanation
Indices: 53100705--53100769 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 28
53100695 AATTAATTTA
*
53100705 ATTA-TTTGAATATATTCTTTTTCAATT
1 ATTATTTTGAATATATTATTTTTCAATT
53100732 ATTATTTTTGAATATATTATATTTTCAATT
1 ATTA-TTTTGAATATATTAT-TTTTCAATT
53100762 ATTATTTT
1 ATTATTTT
53100770 TCTAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 4 0.12
29 17 0.50
30 13 0.38
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (28 bp):
ATTATTTTGAATATATTATTTTTCAATT
Found at i:53100905 original size:16 final size:16
Alignment explanation
Indices: 53100884--53100914 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53100874 AACTAGTTCA
*
53100884 TATATATCTATATAAC
1 TATATATATATATAAC
53100900 TATATATATATATAA
1 TATATATATATATAA
53100915 GGTACTAGTG
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATATATATATAAC
Found at i:53111532 original size:17 final size:18
Alignment explanation
Indices: 53111506--53111546 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
53111496 ATTAAATCTA
*
53111506 TATAAGATATTAT-TTAT
1 TATAAAATATTATCTTAT
53111523 TATAAAATATTATCTTAT
1 TATAAAATATTATCTTAT
53111541 TATAAA
1 TATAAA
53111547 CCAAAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATAAAATATTATCTTAT
Found at i:53112958 original size:21 final size:20
Alignment explanation
Indices: 53112919--53112958 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53112909 CTCGTGTTTC
*
53112919 AATACATAAGATTTTATAAA
1 AATACATAAGATCTTATAAA
*
53112939 AATACATACCGATCTTATAA
1 AATACATA-AGATCTTATAA
53112959 GGTGTAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (20 bp):
AATACATAAGATCTTATAAA
Found at i:53116094 original size:40 final size:39
Alignment explanation
Indices: 53116036--53116117 Score: 146
Period size: 40 Copynumber: 2.1 Consensus size: 39
53116026 GAAACTTCAA
53116036 TTTGCAAACTATGTACTACACTCTTTATTACTTGCATCC
1 TTTGCAAACTATGTACTACACTCTTTATTACTTGCATCC
*
53116075 TTTNGCAAACTATGTACTACACTCTTTCTTACTTGCATCC
1 TTT-GCAAACTATGTACTACACTCTTTATTACTTGCATCC
53116115 TTT
1 TTT
53116118 ATTAATGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 3 0.07
40 38 0.93
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.43
Consensus pattern (39 bp):
TTTGCAAACTATGTACTACACTCTTTATTACTTGCATCC
Found at i:53120890 original size:14 final size:14
Alignment explanation
Indices: 53120850--53120894 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
53120840 TTCCTTTTAC
53120850 TAAAA-AACTAAAA
1 TAAAATAACTAAAA
53120863 TTAAATATAA--AAAA
1 -TAAA-ATAACTAAAA
53120877 TAAAATAACTAAAA
1 TAAAATAACTAAAA
53120891 TAAA
1 TAAA
53120895 TTAAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 16 0.59
15 1 0.04
16 2 0.07
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAAATAACTAAAA
Found at i:53120894 original size:27 final size:26
Alignment explanation
Indices: 53120850--53120901 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
53120840 TTCCTTTTAC
53120850 TAAAAAACTAAAATTAAATATAAAAAA
1 TAAAAAACTAAAATTAAAT-TAAAAAA
53120877 TAAAATAACTAAAA-TAAATTAAAAA
1 TAAAA-AACTAAAATTAAATTAAAAA
53120902 GATAGAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
28 8 0.33
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (26 bp):
TAAAAAACTAAAATTAAATTAAAAAA
Found at i:53120956 original size:21 final size:22
Alignment explanation
Indices: 53120924--53120964 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
53120914 TTCCTTGTAA
*
53120924 AAATCTTAAGTTTTTTCATTCT
1 AAATCTTAAGTTTTTCCATTCT
53120946 AAATC-TAAGTTTTTCCATT
1 AAATCTTAAGTTTTTCCATT
53120965 ATAAGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.15, G:0.05, T:0.51
Consensus pattern (22 bp):
AAATCTTAAGTTTTTCCATTCT
Found at i:53123603 original size:35 final size:35
Alignment explanation
Indices: 53123547--53123631 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 35
53123537 ATATCTATAA
*
53123547 CTGTATCTGTATCTGAAATGGGCTTAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
* *
53123582 CTGTTTCTGTATCTGACATGGGCTCAGGCCCGAAT
1 CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
53123617 CTGTATCTGTATCTG
1 CTGTATCTGTATCTG
53123632 GATTGATGCG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (35 bp):
CTGTATCTGTATCTGAAATGGGCTCAGGCCCGAAT
Found at i:53128310 original size:5 final size:5
Alignment explanation
Indices: 53128300--53128326 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
53128290 ATAAGAATAT
53128300 TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TA
53128327 ACTAAACTAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:53133126 original size:22 final size:22
Alignment explanation
Indices: 53133098--53133140 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
53133088 CAAGTCTATG
53133098 CATGATACTAGCACACTTTATA
1 CATGATACTAGCACACTTTATA
53133120 CATGATACTAGCACACTTTAT
1 CATGATACTAGCACACTTTAT
53133141 GCTTGTCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (22 bp):
CATGATACTAGCACACTTTATA
Found at i:53136447 original size:11 final size:11
Alignment explanation
Indices: 53136431--53136480 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
53136421 ATTTAAAAAT
53136431 ATTTTTATATA
1 ATTTTTATATA
*
53136442 ATTTTTATCTA
1 ATTTTTATATA
*
53136453 ATATTTA-ATA
1 ATTTTTATATA
53136463 ATTTTT-TATA
1 ATTTTTATATA
*
53136473 TTTTTTAT
1 ATTTTTAT
53136481 TTATTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:53140108 original size:29 final size:30
Alignment explanation
Indices: 53140065--53140144 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
53140055 GAAGTGAATC
53140065 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATCAAAA-TTCATATATAAAATTACACAT
* *
53140095 AAATCAAAATTCATATATATAATTACATATT
1 AAATCAAAATTCATATATAAAATTACACA-T
* *
53140126 AAATCATAATTCATGTATA
1 AAATCAAAATTCATATATA
53140145 GTTTTAAGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 18 0.41
30 9 0.20
31 17 0.39
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (30 bp):
AAATCAAAATTCATATATAAAATTACACAT
Found at i:53143045 original size:39 final size:39
Alignment explanation
Indices: 53142987--53143084 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 39
53142977 TCGTGATCTG
* * *
53142987 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
53143026 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
1 AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
* *
53143065 AAGCGCAAAGGCTAACTGAA
1 AAGCCCGAAGGCTAACTGAA
53143085 ACTCATCAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACAA
Found at i:53146832 original size:23 final size:23
Alignment explanation
Indices: 53146806--53146849 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
53146796 ATTTATTTTA
*
53146806 ATTTTTTATTATAAAA-AGTAAGT
1 ATTTTATATT-TAAAATAGTAAGT
53146829 ATTTTATATTTAAAATAGTAA
1 ATTTTATATTTAAAATAGTAA
53146850 AAATAATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (23 bp):
ATTTTATATTTAAAATAGTAAGT
Found at i:53151018 original size:15 final size:15
Alignment explanation
Indices: 53150998--53151054 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
53150988 CGATGAATTT
53150998 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
53151013 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
53151028 ATTGAATTTATATTG
1 ATTGAATTTATATTG
53151043 ATTGAA-TTATAT
1 ATTGAATTTATAT
53151055 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:53151446 original size:23 final size:23
Alignment explanation
Indices: 53151420--53151494 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
53151410 AGGCACTTTA
53151420 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
53151443 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
53151464 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
53151485 TGTGTCGTAT
1 TGTGTCGTAT
53151495 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:53155155 original size:23 final size:22
Alignment explanation
Indices: 53155125--53155172 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
53155115 TATATATATG
53155125 TATTAAAAATAAATACATAATAA
1 TATTAAAAATAAATACATAA-AA
* **
53155148 TATTAAAAGTATGTACATAAAA
1 TATTAAAAATAAATACATAAAA
53155170 TAT
1 TAT
53155173 ATACATATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
TATTAAAAATAAATACATAAAA
Found at i:53155255 original size:36 final size:38
Alignment explanation
Indices: 53155217--53155289 Score: 116
Period size: 36 Copynumber: 2.0 Consensus size: 38
53155207 AATACATGTA
53155217 AAAAT-ATATACATAATAT-ATA-AAATATATATATAT
1 AAAATAATATACATAATATAATATAAATATATATATAT
*
53155252 AAAATAATATACATAATATAATATTAATATATATATAT
1 AAAATAATATACATAATATAATATAAATATATATATAT
53155290 GCGTAATATG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 5 0.15
36 13 0.38
37 3 0.09
38 13 0.38
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (38 bp):
AAAATAATATACATAATATAATATAAATATATATATAT
Found at i:53155267 original size:14 final size:14
Alignment explanation
Indices: 53155235--53155275 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
53155225 TACATAATAT
*
53155235 ATAAAATATATATAT
1 ATAAAATA-ATATAC
53155250 ATAAAATAATATAC
1 ATAAAATAATATAC
*
53155264 ATAATATAATAT
1 ATAAAATAATAT
53155276 TAATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 16 0.67
15 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAATAATATAC
Found at i:53155281 original size:20 final size:19
Alignment explanation
Indices: 53155222--53155282 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 19
53155212 ATGTAAAAAT
*
53155222 ATATACATAATAT-ATAAA
1 ATATACATAATATAATATA
* *
53155240 ATATATAT-ATATAAAATA
1 ATATACATAATATAATATA
53155258 ATATACATAATATAATATTA
1 ATATACATAATATAATA-TA
53155278 ATATA
1 ATATA
53155283 TATATATGCG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.11
18 17 0.49
19 7 0.20
20 7 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
ATATACATAATATAATATA
Found at i:53155289 original size:14 final size:12
Alignment explanation
Indices: 53155220--53155286 Score: 68
Period size: 13 Copynumber: 5.6 Consensus size: 12
53155210 ACATGTAAAA
53155220 ATATATACATAAT
1 ATATATA-ATAAT
*
53155233 ATATAAAATATAT
1 ATATATAATA-AT
53155246 ATATATAA-AAT
1 ATATATAATAAT
53155257 A-ATATACATAAT
1 ATATATA-ATAAT
*
53155269 ATA-ATATTAAT
1 ATATATAATAAT
53155280 ATATATA
1 ATATATA
53155287 TATGCGTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
10 5 0.11
11 11 0.24
12 14 0.30
13 16 0.35
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:53155449 original size:16 final size:17
Alignment explanation
Indices: 53155430--53155467 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
53155420 AATAATGCTA
53155430 ATAATAAAT-ATAAAAT
1 ATAATAAATAATAAAAT
*
53155446 ATAAT-AGTAATAAAAT
1 ATAATAAATAATAAAAT
53155462 ATAATA
1 ATAATA
53155468 GTATACATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAATAAATAATAAAAT
Found at i:53155468 original size:16 final size:16
Alignment explanation
Indices: 53155439--53155470 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
53155429 AATAATAAAT
53155439 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
53155455 ATAAAATATAATAGTA
1 ATAAAATATAATAGTA
53155471 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAAATATAATAGTA
Found at i:53158242 original size:6 final size:6
Alignment explanation
Indices: 53158226--53158273 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
53158216 TAGTTTTCTC
* * *
53158226 AAAATA AAAATG GAAATG GAAATG AAAATG AAAATG AAAATG AGAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG A-AAAT
53158274 AATTCATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:53165054 original size:30 final size:31
Alignment explanation
Indices: 53164987--53165064 Score: 97
Period size: 30 Copynumber: 2.5 Consensus size: 31
53164977 TTGGGATGAA
53164987 ATTAAATTATATATTTTTATAATTTTTAAATG
1 ATTAAATTATA-ATTTTTATAATTTTTAAATG
*
53165019 ATTAAATTA-AATTTTTATTATTTTTAGAA-G
1 ATTAAATTATAATTTTTATAATTTTTA-AATG
* *
53165049 GTTAAAATATAATTTT
1 ATTAAATTATAATTTT
53165065 ACTATTACTA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 23 0.56
31 9 0.22
32 9 0.22
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (31 bp):
ATTAAATTATAATTTTTATAATTTTTAAATG
Found at i:53165875 original size:13 final size:13
Alignment explanation
Indices: 53165857--53165882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53165847 TGAACCAAGA
53165857 TTTTTATTTTTAT
1 TTTTTATTTTTAT
53165870 TTTTTATTTTTAT
1 TTTTTATTTTTAT
53165883 GAATTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTAT
Done.