Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 138 of 290
Found at i:43609383 original size:14 final size:14
Alignment explanation
Indices: 43609345--43609392 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
43609335 AGTTAAATAA
*
43609345 TTTTATAAAATATT
1 TTTTATAAATTATT
* *
43609359 TATTAT-TATTATT
1 TTTTATAAATTATT
*
43609372 TTTTATAAATTAGT
1 TTTTATAAATTATT
43609386 TTTTATA
1 TTTTATA
43609393 GATAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (14 bp):
TTTTATAAATTATT
Found at i:43610093 original size:8 final size:7
Alignment explanation
Indices: 43610073--43610159 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
43610063 TCATAAAACA
43610073 TAAACCC
1 TAAACCC
*
43610080 TTAACCCC
1 -TAAACCC
*
43610088 TAAACCT
1 TAAACCC
43610095 TAAACCC
1 TAAACCC
* *
43610102 CAACCCCTC
1 TAA-ACC-C
* *
43610111 TAAAACT
1 TAAACCC
43610118 TAAACCC
1 TAAACCC
43610125 T-AACCC
1 TAAACCC
*
43610131 TTAACCC
1 TAAACCC
*
43610138 ATAAACCA
1 -TAAACCC
*
43610146 TAATCCC
1 TAAACCC
43610153 TAAACCC
1 TAAACCC
43610160 ATAATCTATA
Statistics
Matches: 58, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
6 6 0.10
7 35 0.60
8 14 0.24
9 3 0.05
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:43610119 original size:23 final size:22
Alignment explanation
Indices: 43610066--43610130 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
43610056 CCTTAAATCA
*
43610066 TAAAACATAAACCCTTAA-CCCC
1 TAAAACTTAAACCC-TAACCCCC
* *
43610088 TAAACCTTAAACCCCAACCCCTC
1 TAAAACTTAAACCCTAACCCC-C
43610111 TAAAACTTAAACCCTAACCC
1 TAAAACTTAAACCCTAACCC
43610131 TTAACCCATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.06
22 15 0.42
23 19 0.53
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAAACTTAAACCCTAACCCCC
Found at i:43610170 original size:22 final size:22
Alignment explanation
Indices: 43610118--43610163 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
43610108 CTCTAAAACT
* *
43610118 TAAACCCTAA-CCCTTAACCCA
1 TAAACCATAATCCCTAAACCCA
43610139 TAAACCATAATCCCTAAACCCA
1 TAAACCATAATCCCTAAACCCA
43610161 TAA
1 TAA
43610164 TCTATAAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCATAATCCCTAAACCCA
Found at i:43610645 original size:41 final size:41
Alignment explanation
Indices: 43610600--43610829 Score: 327
Period size: 41 Copynumber: 5.6 Consensus size: 41
43610590 TTAATTTTTT
*
43610600 GCGGCGTTTTCCCAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* *
43610641 GCGGCGTTTTTTCAAAAGTGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* *
43610682 GCGGCGTTTTCCCAAAAACGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* * * * *
43610723 GTGGCGTTTTTCCAAAAGCGCTGCTAAAAACT-GAGCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* * *
43610763 GCGGCGTTTTTCAAAAAGCGCCGCTAAAAGCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
43610804 GCGGCGTTTTTTCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
43610830 TTGTTCAGTT
Statistics
Matches: 166, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 34 0.20
41 132 0.80
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
Found at i:43610790 original size:81 final size:82
Alignment explanation
Indices: 43610600--43610829 Score: 338
Period size: 81 Copynumber: 2.8 Consensus size: 82
43610590 TTAATTTTTT
* *
43610600 GCGGCGTTTTCCCAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTTCAAAAGTGCCGC
1 GCGGCGTTTTCCAAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCGC
* * *
43610665 TAAAACCTCGATCTATA
66 TAAAAACTCGAGCAATA
* * *
43610682 GCGGCGTTTTCCCAAAAA-CGCCGCTAAAACCTCGATCTATAGTGGCGTTTTTCCAAAAGCGCTG
1 GCGGCGTTTT-CCAAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCG
43610746 CTAAAAACT-GAGCAATA
65 CTAAAAACTCGAGCAATA
* * *
43610763 GCGGCGTTTTTCAAAAAGCGCCGCTAAAAGCTCGACCTATAGCGGCGTTTTTTCAAAAGCGCCGC
1 GCGGCGTTTTCCAAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCGC
43610828 TA
66 TA
43610830 TTGTTCAGTT
Statistics
Matches: 132, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
80 6 0.05
81 60 0.45
82 60 0.45
83 6 0.05
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (82 bp):
GCGGCGTTTTCCAAAAAGCGCCGCTAAAACCTCGATCTATAGCGGCGTTTTTTCAAAAGCGCCGC
TAAAAACTCGAGCAATA
Found at i:43610914 original size:42 final size:43
Alignment explanation
Indices: 43610815--43610935 Score: 126
Period size: 41 Copynumber: 2.9 Consensus size: 43
43610805 CGGCGTTTTT
* **
43610815 TCAAAAGCGCCGCTATTGTTC-AGTTTTTAGCGGCGTTTTTAC
1 TCAAAAGCGCCGCTATTGCTCTAGTTTTTAGCGGCGTTTGGAC
* * * *
43610857 TGAAAA-CACCACTATTACTCTA-TTTTTAGGCGGCGTTTGGA-
1 TCAAAAGCGCCGCTATTGCTCTAGTTTTTA-GCGGCGTTTGGAC
*
43610898 TCAAAAGCGCCGCTATTGCT-TAGTTTTTTGCGGCGTTT
1 TCAAAAGCGCCGCTATTGCTCTAGTTTTTAGCGGCGTTT
43610936 TATTGCAAAC
Statistics
Matches: 63, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
41 32 0.51
42 31 0.49
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (43 bp):
TCAAAAGCGCCGCTATTGCTCTAGTTTTTAGCGGCGTTTGGAC
Found at i:43617309 original size:20 final size:21
Alignment explanation
Indices: 43617284--43617328 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
43617274 CTCGTACCCT
43617284 AATTTTTGAATTTT-TTGATG
1 AATTTTTGAATTTTATTGATG
*
43617304 AATTTTTGAGTTTTCATTGATG
1 AATTTTTGAATTTT-ATTGATG
43617326 AAT
1 AAT
43617329 GATTGAGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.56
Consensus pattern (21 bp):
AATTTTTGAATTTTATTGATG
Found at i:43617334 original size:22 final size:23
Alignment explanation
Indices: 43617298--43617340 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
43617288 TTTGAATTTT
**
43617298 TTGATGAATTTTTGAG-TTTTCA
1 TTGATGAATGATTGAGCTTTTCA
43617320 TTGATGAATGATTGAGCTTTT
1 TTGATGAATGATTGAGCTTTT
43617341 GAATGTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.23, C:0.05, G:0.21, T:0.51
Consensus pattern (23 bp):
TTGATGAATGATTGAGCTTTTCA
Found at i:43635091 original size:24 final size:24
Alignment explanation
Indices: 43635064--43635110 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43635054 TGGAAGGTAT
*
43635064 GTATATATGTGTTTATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
*
43635088 GTATGTATGTGTTCATGTGTATA
1 GTATATATGTGTTCATGTGTATA
43635111 TGTCTATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.02, G:0.23, T:0.49
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:43635389 original size:20 final size:20
Alignment explanation
Indices: 43635342--43635379 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
43635332 GGGTCAGAAT
*
43635342 AATTATAAAAAATCATTAAA
1 AATTATAAAAAATAATTAAA
43635362 AATTATAAAAAATAATTA
1 AATTATAAAAAATAATTA
43635380 TGAGTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTATAAAAAATAATTAAA
Found at i:43639161 original size:28 final size:28
Alignment explanation
Indices: 43639130--43639230 Score: 96
Period size: 28 Copynumber: 3.4 Consensus size: 28
43639120 AAAGAAAATC
*
43639130 CTTTGTGGCAAACTTGCTAAAGCACAAT
1 CTTTGTGGCAAACTTGCTAAAGGACAAT
* * *
43639158 CTTTGTGGCAAAATT-CTATAAGAAAAGAAAAGC
1 CTTTGTGGCAAACTTGCTA-AAG----GACAA-T
*
43639191 CTTTGTGGCGAACTTGCTAAAGGACAAT
1 CTTTGTGGCAAACTTGCTAAAGGACAAT
43639219 CTTTGTGGCAAA
1 CTTTGTGGCAAA
43639231 ACTCTAGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
27 3 0.05
28 28 0.49
29 4 0.07
32 3 0.05
33 16 0.28
34 3 0.05
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (28 bp):
CTTTGTGGCAAACTTGCTAAAGGACAAT
Found at i:43639211 original size:61 final size:61
Alignment explanation
Indices: 43639118--43639236 Score: 202
Period size: 61 Copynumber: 2.0 Consensus size: 61
43639108 AAATCACTAG
* *
43639118 GAAAAGAAAATCCTTTGTGGCAAACTTGCTAAAGCACAATCTTTGTGGCAAAATTCTATAA
1 GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGCACAATCTTTGTGGCAAAACTCTATAA
* *
43639179 GAAAAGAAAAGCCTTTGTGGCGAACTTGCTAAAGGACAATCTTTGTGGCAAAACTCTA
1 GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGCACAATCTTTGTGGCAAAACTCTA
43639237 GAAAGGTAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (61 bp):
GAAAAGAAAAGCCTTTGTGGCAAACTTGCTAAAGCACAATCTTTGTGGCAAAACTCTATAA
Found at i:43639290 original size:58 final size:57
Alignment explanation
Indices: 43639129--43639320 Score: 188
Period size: 61 Copynumber: 3.3 Consensus size: 57
43639119 AAAAGAAAAT
* * * * * **
43639129 CCTTTGTGGCAAACTTGCTAAAGCACAATCTTTGTGGCAAAATTCTATAAGAAAAGAAAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATCTTTGTGGCAAAA--CAAT-AG-AAAGGTAAG
* * **
43639190 CCTTTGTGGCGAACTTGCTAAAGGACAATCTTTGTGGCAAAACTCTAGAAAGGTAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATCTTTGTGGCAAAACAATAGAAAGGTAAG
* *
43639247 CCTTTGTTGTGAACCTGCTAAAGGAAAA-CGTTTTGTGGCAAAACAATAGAAAGGTAAG
1 CCTTTGTGGCGAACCTGCTAAAGGAAAATC--TTTGTGGCAAAACAATAGAAAGGTAAG
* *
43639305 ACTTTATGGCGAACCT
1 CCTTTGTGGCGAACCT
43639321 CTCAAAGAAT
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 31 0.27
58 39 0.34
59 3 0.03
61 40 0.35
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.27
Consensus pattern (57 bp):
CCTTTGTGGCGAACCTGCTAAAGGAAAATCTTTGTGGCAAAACAATAGAAAGGTAAG
Found at i:43643927 original size:40 final size:40
Alignment explanation
Indices: 43643829--43644091 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
43643819 TCCTCGTTCA
* * * * *
43643829 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43643868 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
43643908 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43643948 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43643988 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
43644028 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43644068 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43644092 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43647598 original size:11 final size:11
Alignment explanation
Indices: 43647582--43647606 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43647572 AAAATTGTAA
43647582 AAACTAATATT
1 AAACTAATATT
43647593 AAACTAATATT
1 AAACTAATATT
43647604 AAA
1 AAA
43647607 GGAAAATGAA
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:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (11 bp):
AAACTAATATT
Found at i:43647667 original size:24 final size:25
Alignment explanation
Indices: 43647600--43647670 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
43647590 ATTAAACTAA
*
43647600 TATTAAAGGAAAATGAAATAAAAAT
1 TATTAAAGGAAAATGAAATAAAAAG
43647625 TATTAAAGGAAAATGAAATAAAAAG
1 TATTAAAGGAAAATGAAATAAAAAG
*
43647650 TACTTAAA-GAAGAT-AAATAAA
1 TA-TTAAAGGAAAATGAAATAAA
43647671 GATAAAAGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 7 0.16
25 31 0.72
26 5 0.12
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (25 bp):
TATTAAAGGAAAATGAAATAAAAAG
Found at i:43655039 original size:6 final size:6
Alignment explanation
Indices: 43655021--43655114 Score: 77
Period size: 6 Copynumber: 15.3 Consensus size: 6
43655011 AAGAAACATT
* *
43655021 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGT ATCAGGTA A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
43655070 ATCAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
43655115 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.07
6 56 0.80
7 7 0.10
8 2 0.03
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:43655073 original size:31 final size:31
Alignment explanation
Indices: 43655035--43655114 Score: 142
Period size: 31 Copynumber: 2.6 Consensus size: 31
43655025 GAACTAGAAT
* *
43655035 CAGAATCAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
43655066 CAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGTATCAGGTAA
43655097 CAGAATCAAAATCAGAAT
1 CAGAATCAAAATCAGAAT
43655115 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:43655288 original size:27 final size:26
Alignment explanation
Indices: 43655246--43655347 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
43655236 GCTTAGTTAT
* *
43655246 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
43655273 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* * *
43655299 TAGATATTTGTAGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
43655327 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
43655348 TTAACAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.80
28 7 0.11
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:43655534 original size:22 final size:22
Alignment explanation
Indices: 43655506--43655569 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
43655496 GCAAATATGT
*
43655506 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
43655528 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
43655550 TTGACACAAAGCCATAATCA
1 TTGGCACAAAGCCATAATCA
43655570 AAAGGCTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:43656055 original size:27 final size:27
Alignment explanation
Indices: 43655997--43656459 Score: 626
Period size: 27 Copynumber: 17.3 Consensus size: 27
43655987 AGGGCAAAAT
* * * *
43655997 GGTAATTTTACCCAACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656023 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656050 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656077 GGTAATTCTACCCTACAGGGATATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656104 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656131 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
43656158 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
43656185 GATAATTCTACCCTACAGGGGTGTTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
43656212 GATAATTCTACCCTGCAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43656239 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
43656266 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43656293 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43656320 GGTAATTTTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
43656346 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43656373 GGTAATTCTACCCTATAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
43656399 GATAATTCTACTCTATAGGGGTGTTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43656426 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
43656453 GGTAATT
1 GGTAATT
43656460 TTATAAATCG
Statistics
Matches: 385, Mismatches: 49, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
26 61 0.16
27 324 0.84
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:43656474 original size:27 final size:27
Alignment explanation
Indices: 43656444--43656784 Score: 258
Period size: 27 Copynumber: 12.6 Consensus size: 27
43656434 TACCCTACAG
* *
43656444 GGGTATTTTGGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
**** * ** *
43656471 GGGTAAAACGGTAATTCTGTAAATTAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * * *
43656498 GGGTACTTGGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *** **
43656525 GGGTGTTTCAATAATTTTACAGGTCGAA
1 GGGTATTTTGGTAATTTTACAAATC-AA
* ** *
43656553 -GATATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCAA
*
43656578 GGGATATTTTGGTAATTTTACAAA-CTAG
1 GGG-TATTTTGGTAATTTTACAAATC-AA
* * *
43656606 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
*
43656633 GGGTATTTTGGTAATTTTATAAA-CAAA
1 GGGTATTTTGGTAATTTTACAAATC-AA
* *
43656660 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
43656687 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
43656714 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
43656741 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
*
43656768 GGGTATTTTAGTAATTT
1 GGGTATTTTGGTAATTT
43656785 GGTAAACTAA
Statistics
Matches: 253, Mismatches: 53, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
25 1 0.00
26 3 0.01
27 243 0.96
28 6 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:43656613 original size:54 final size:54
Alignment explanation
Indices: 43656555--43656784 Score: 336
Period size: 54 Copynumber: 4.3 Consensus size: 54
43656545 AGGTCGAAGA
* * * * * * *
43656555 TATTTCAGTAATTTCACAAATCAGGGATATTTTGGTAATTTTACAAACTAGGGG
1 TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGG
*
43656609 TATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAAGGG
1 TATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGG
* *
43656663 TATTTTAGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGG
1 TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGG
* *
43656717 TATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGG
1 TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGG
43656771 TATTTTAGTAATTT
1 TATTTTAGTAATTT
43656785 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 157 0.99
55 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
TATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCAAGGG
Found at i:43656791 original size:27 final size:27
Alignment explanation
Indices: 43656577--43656784 Score: 281
Period size: 27 Copynumber: 7.7 Consensus size: 27
43656567 TTCACAAATC
* *
43656577 AGGGATATTTTGGTAATTTTACAAACTA
1 AGGG-TATTTTGGTAATTTTATAAACCA
* * *
43656605 GGGGTATTTTGATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
43656632 GGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
43656659 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
43656686 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
43656713 AGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
43656740 GGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
43656767 AGGGTATTTTAGTAATTT
1 AGGGTATTTTGGTAATTT
43656785 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
27 156 0.98
28 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:43659092 original size:93 final size:93
Alignment explanation
Indices: 43658979--43659150 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
43658969 TGCCCATAAG
* *
43658979 CGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
43659043 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
*
43659072 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43659137 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
43659151 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:43659145 original size:46 final size:46
Alignment explanation
Indices: 43658972--43659147 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
43658962 TGTAACCTGC
* * *
43658972 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
43659018 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43659068 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43659111 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43659148 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43659166 original size:46 final size:44
Alignment explanation
Indices: 43659023--43659166 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
43659013 CGCATCCATA
43659023 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
43659070 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
43659116 AGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
43659162 AGTGA
1 AGTGA
43659167 CATGTCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 32 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:43663032 original size:40 final size:40
Alignment explanation
Indices: 43662988--43663277 Score: 286
Period size: 40 Copynumber: 7.3 Consensus size: 40
43662978 ATTTGAATGA
* * *
43662988 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
43663028 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
43663068 TACCCGGGTTAAGTCCCGAAGGC-TTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
43663107 TATCCGGGTTAAGA-CCGAAGGCATTTGTGCTAGTGATTTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-TTT
* *
43663147 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
43663187 TATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * * *
43663227 TACCCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
43663267 TATCC-GGCTAA
1 TATCCGGGCTAA
43663278 TTCCGAAGAC
Statistics
Matches: 212, Mismatches: 30, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
38 10 0.05
39 40 0.19
40 140 0.66
41 19 0.09
42 3 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:43663276 original size:119 final size:119
Alignment explanation
Indices: 43662991--43663277 Score: 364
Period size: 119 Copynumber: 2.4 Consensus size: 119
43662981 TGAATGATAT
* * *
43662991 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
* * * * * * *
43663056 TGCGAGTTGCTATACCCGGGTTAAGTCCCGAAGGCTTTATGCTAGTGATTTTAT
66 TGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCTTTATGCGAGTGACTATAC
*
43663110 CCGGGTTAAGA-CCGAAGGCATTTGTGCTAGTGATTTTTATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGA-TTTTATCCGGGCTAAGACCCGAAGGCATTT
* * *
43663174 GTGCGAGTTGATATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTG-CTATAC
65 GTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGC-TTTATGCGAG-TGACTATAC
* * * *
43663230 CCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
43663278 TTCCGAAGAC
Statistics
Matches: 145, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
118 20 0.14
119 76 0.52
120 29 0.20
121 20 0.14
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (119 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCTTTATGCGAGTGACTATAC
Found at i:43663285 original size:159 final size:159
Alignment explanation
Indices: 43662988--43663277 Score: 422
Period size: 159 Copynumber: 1.8 Consensus size: 159
43662978 ATTTGAATGA
* * *
43662988 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCGATTTTATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGCGATTATATCCGGGCTAAGACCCGAAGGCAT
* * * * *
43663053 TTGTGCGAGTTGCTATACCCGGGTTAAGTCCCGAAGGCTTTATGCTAGTGATTTTATCCGGGTTA
66 TTGTGCGAGTTGCTATACCCGGGTTAAGACCCAAAGGCATTATGCTAGTGATTATATCCGGGCTA
43663118 AGACCGAAGGCATTTGTGCTAGTGATTTT
131 AGACCGAAGGCATTTGTGCTAGTGATTTT
* * *
43663147 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCTGAAGGCA
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAG-CGATTATATCCGGGCTAAGACCCGAAGGCA
* * *
43663211 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTATATCC-GGC
65 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCAAAGGC-ATTATGCTAGTGATTATATCCGGGC
43663275 TAA
129 TAA
43663278 TTCCGAAGAC
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
159 97 0.84
160 18 0.16
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (159 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGCGATTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCTATACCCGGGTTAAGACCCAAAGGCATTATGCTAGTGATTATATCCGGGCTA
AGACCGAAGGCATTTGTGCTAGTGATTTT
Found at i:43671450 original size:40 final size:40
Alignment explanation
Indices: 43671406--43671694 Score: 302
Period size: 40 Copynumber: 7.3 Consensus size: 40
43671396 ATTTGAATGA
* * **
43671406 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCAATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
43671446 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
43671486 TACCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
43671526 TATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
43671566 TATCCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* *
43671606 TATCCGGGCTAAGACCCGAAGGCATTTGTG--AGTTG-CTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * * * *
43671644 TACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
43671684 TATCC-GGCTAA
1 TATCCGGGCTAA
43671695 ATTCCGAAGA
Statistics
Matches: 213, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
38 34 0.16
39 9 0.04
40 167 0.78
41 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:43671542 original size:80 final size:80
Alignment explanation
Indices: 43671409--43671694 Score: 339
Period size: 80 Copynumber: 3.6 Consensus size: 80
43671399 TGAATGATAT
* ** *
43671409 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCAATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
43671474 TGCGAGTTGCTATAC
66 TGCGAGTTGCTATAC
* * * * * *
43671489 CCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGTTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
* * * *
43671554 TGCTAG-TGATTTTAT
66 TGCGAGTTG-CTATAC
* * *
43671569 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTT
43671633 GT--GAGTTGCTATAC
65 GTGCGAGTTGCTATAC
* * *
43671647 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAA
43671695 ATTCCGAAGA
Statistics
Matches: 175, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
77 8 0.05
78 38 0.22
79 4 0.02
80 122 0.70
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTATAC
Found at i:43671624 original size:120 final size:117
Alignment explanation
Indices: 43671405--43671694 Score: 384
Period size: 120 Copynumber: 2.4 Consensus size: 117
43671395 CATTTGAATG
* * **
43671405 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGCAATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGACCCGAAGGCA
* * * *
43671470 TTTGTGCGAGTTGCTATACCCGGGTTAAGTCCCGAAGGCATTTATGCTAG-TGATT
65 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCATTTATG--AGTTG-CT
* *
43671525 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATTTTATCCAGGCTAAGACCCGAAGGCA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGACCCGAAGGCA
* *
43671590 TTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGAGTTGCT
65 TTTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCATTTATGAGTTGCT
* * * *
43671643 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAA
43671695 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
117 6 0.04
118 43 0.29
119 2 0.01
120 99 0.66
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (117 bp):
ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGATATACCCGGGCTAAGACCCGAAGGCATTTATGAGTTGCT
Found at i:43679524 original size:5 final size:5
Alignment explanation
Indices: 43679516--43679562 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
43679506 TATGAAATCA
* *
43679516 AAAAT AAAAT AATAA- ATAAT AAAAT AAAAT AAAAT AAAAC AAAAT AA
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
43679563 TATCTTCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.06
5 32 0.89
6 2 0.06
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43686745 original size:18 final size:18
Alignment explanation
Indices: 43686722--43686757 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
43686712 CATCTTGACC
43686722 AGTGTCGTTGGC-GCGACT
1 AGTGTCG-TGGCTGCGACT
43686740 AGTGTCGTGGCTGCGACT
1 AGTGTCGTGGCTGCGACT
43686758 CATGCCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.22, G:0.39, T:0.28
Consensus pattern (18 bp):
AGTGTCGTGGCTGCGACT
Found at i:43689330 original size:5 final size:5
Alignment explanation
Indices: 43689322--43689369 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
43689312 TATAAAATCA
* *
43689322 AAAAT AAAAT AAAAT -AAAT AAATAAT AAAAT AAAAT GAAAC AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT -AA-AAT AAAAT AAAAT AAAAT AAAAT AA
43689370 TATCTTCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 26 0.72
6 3 0.08
7 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:43689335 original size:17 final size:18
Alignment explanation
Indices: 43689313--43689369 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
43689303 CTAATTTAAT
*
43689313 ATAAAATCAA-AAATAAA
1 ATAAAATAAATAAATAAA
43689330 ATAAAATAAATAAAT--A
1 ATAAAATAAATAAATAAA
*
43689346 ATAAAATAAAATGAAACAAA
1 ATAAAAT-AAAT-AAATAAA
43689366 ATAA
1 ATAA
43689370 TATCTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 8 0.24
17 13 0.39
18 7 0.21
20 5 0.15
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (18 bp):
ATAAAATAAATAAATAAA
Found at i:43689348 original size:21 final size:22
Alignment explanation
Indices: 43689316--43689371 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
43689306 ATTTAATATA
43689316 AAATCAAA-AATAAAATAAAAT-
1 AAAT-AAATAATAAAATAAAATG
43689337 AAATAAATAATAAAATAAAATG
1 AAATAAATAATAAAATAAAATG
*
43689359 AAACAAAATAATA
1 AAA-TAAATAATA
43689372 TCTTCCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.10
21 17 0.55
22 3 0.10
23 8 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.20
Consensus pattern (22 bp):
AAATAAATAATAAAATAAAATG
Found at i:43692685 original size:41 final size:41
Alignment explanation
Indices: 43692633--43692882 Score: 333
Period size: 41 Copynumber: 6.1 Consensus size: 41
43692623 CAAAAATTGT
* *
43692633 AAAACACAGAGCAATAGCGGCG-TTTTAGTAAAAAGCGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTTGGT-AAAA-CGCCGCTA
* * * *
43692676 AAAA-TAGAGCATTAGCAGCACTTTTGGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
43692716 AAAACCAGAGCATTAGCGACGCTTTTGCTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* *
43692757 AAAACCAGAGCATTAGCAGCGCTTTTGGTAAAATGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
* * *
43692798 AAAACAAGAACATTAGCGGTGCTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
*
43692839 AAAACCAGAGCATTAGCGGCGTTTTTGGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
43692880 AAA
1 AAA
43692883 GTCATATAAC
Statistics
Matches: 180, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 11 0.06
41 159 0.88
42 6 0.03
43 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTA
Found at i:43693060 original size:7 final size:7
Alignment explanation
Indices: 43693044--43693138 Score: 55
Period size: 7 Copynumber: 13.0 Consensus size: 7
43693034 TATCATTGTA
43693044 GTTTAAG
1 GTTTAAG
*
43693051 GTTTATG
1 GTTTAAG
43693058 GTTTAAG
1 GTTTAAG
* * *
43693065 ATATATG
1 GTTTAAG
*
43693072 GTTTAGG
1 GTTTAAG
43693079 GTTTAAG
1 GTTTAAG
43693086 GTTTATGAG
1 GTTTA--AG
* *
43693095 TTAATTATG
1 GT--TTAAG
43693104 GTTTAAG
1 GTTTAAG
* * *
43693111 ATATATG
1 GTTTAAG
*
43693118 GTTTAGG
1 GTTTAAG
43693125 GTTTAAG
1 GTTTAAG
43693132 GTTTAAG
1 GTTTAAG
43693139 AGTTAACTAG
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
7 56 0.88
9 5 0.08
11 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (7 bp):
GTTTAAG
Found at i:43693063 original size:14 final size:14
Alignment explanation
Indices: 43693044--43693138 Score: 73
Period size: 14 Copynumber: 6.5 Consensus size: 14
43693034 TATCATTGTA
43693044 GTTTAAGGTTTATG
1 GTTTAAGGTTTATG
* *
43693058 GTTTAAGATATATG
1 GTTTAAGGTTTATG
* *
43693072 GTTTAGGGTTTAAG
1 GTTTAAGGTTTATG
*
43693086 GTTTATGAGTTAATTATG
1 GTTTA--AGGT--TTATG
* *
43693104 GTTTAAGATATATG
1 GTTTAAGGTTTATG
* *
43693118 GTTTAGGGTTTAAG
1 GTTTAAGGTTTATG
43693132 GTTTAAG
1 GTTTAAG
43693139 AGTTAACTAG
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 47 0.77
16 5 0.08
18 9 0.15
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (14 bp):
GTTTAAGGTTTATG
Found at i:43693074 original size:21 final size:21
Alignment explanation
Indices: 43693050--43693131 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
43693040 TGTAGTTTAA
*
43693050 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
* *
43693071 GGTTTAGGGTTTAAGGTTTAT
1 GGTTTAGGGTTTAAGATATAT
*
43693092 GAGTTAATTATGGTTTAAGATATAT
1 G-G-T--TTAGGGTTTAAGATATAT
43693117 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
43693132 GTTTAAGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
21 30 0.60
22 1 0.02
23 2 0.04
24 1 0.02
25 16 0.32
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:43693103 original size:46 final size:46
Alignment explanation
Indices: 43693053--43693144 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
43693043 AGTTTAAGGT
*
43693053 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTATGAGTTAA
1 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAA
43693099 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAA
1 TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAA
43693145 CTAGTATTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (46 bp):
TTATGGTTTAAGATATATGGTTTAGGGTTTAAGGTTTAAGAGTTAA
Found at i:43694791 original size:25 final size:25
Alignment explanation
Indices: 43694763--43694839 Score: 145
Period size: 25 Copynumber: 3.1 Consensus size: 25
43694753 GCCATAACAG
*
43694763 TTTGCTACTTTCATTTTTTGTCTAT
1 TTTGCTACTTTCATTTTCTGTCTAT
43694788 TTTGCTACTTTCATTTTCTGTCTAT
1 TTTGCTACTTTCATTTTCTGTCTAT
43694813 TTTGCTACTTTCATTTTCTGTCTAT
1 TTTGCTACTTTCATTTTCTGTCTAT
43694838 TT
1 TT
43694840 ATCTGTGTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.12, C:0.18, G:0.08, T:0.62
Consensus pattern (25 bp):
TTTGCTACTTTCATTTTCTGTCTAT
Found at i:43698315 original size:19 final size:19
Alignment explanation
Indices: 43698292--43698338 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
43698282 ATTTAATCTA
*
43698292 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
43698310 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
43698330 ATTTTTATT
1 ATTTTTATT
43698339 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:43698332 original size:6 final size:6
Alignment explanation
Indices: 43698261--43698340 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
43698251 AAAGACTTGC
* * * * * *
43698261 TATTTT TATTTA TATCTT TATATT TAATCT AATTTT TATTATT TA-TTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TATTTT
* *
43698309 TAGTTTT GATTCTA TATTTT TATTTT TATTTT
1 TA-TTTT TATT-TT TATTTT TATTTT TATTTT
43698341 AATATTTAAT
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
5 4 0.07
6 39 0.71
7 12 0.22
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.70
Consensus pattern (6 bp):
TATTTT
Found at i:43698665 original size:43 final size:43
Alignment explanation
Indices: 43698601--43698793 Score: 260
Period size: 43 Copynumber: 4.5 Consensus size: 43
43698591 TTTTTAAATT
*
43698601 TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGG
1 TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * * *
43698644 TCACGGCTTTTAACGGTGTTTGTGGGAAAAACGCTGCTAAAGG
1 TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
*
43698687 TCACGGCTTTTAGCGGCGTTTGTGGGAATAGCGCCGCTAAAGG
1 TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * * *
43698730 CCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * * *
43698773 TCATGACGTTTAGCGCCGTTT
1 TCACGGCTTTTAGCGGCGTTT
43698794 TTAAAAAATA
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
TCACGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:43702045 original size:46 final size:46
Alignment explanation
Indices: 43701978--43702246 Score: 215
Period size: 46 Copynumber: 5.8 Consensus size: 46
43701968 TGTAACCCGC
*
43701978 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGTAT
* ** * *
43702024 CCATAAGTGAACTTAGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTAGTAT
* * * * * * *
43702070 ACATCTCA-CGAACTTGGACTCGACTCAACGAGTTCGTACGTTCA-CAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTT-AGTAT
* * *
43702117 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGT-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTAGTAT
* * * * * *
43702163 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTAGGACGTTGGAAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGTAT
** *
43702210 CCATAATTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
43702247 TGCCCAAATA
Statistics
Matches: 172, Mismatches: 39, Indels: 24
0.73 0.17 0.10
Matches are distributed among these distances:
45 4 0.02
46 99 0.58
47 65 0.38
48 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTAGTAT
Found at i:43702097 original size:93 final size:93
Alignment explanation
Indices: 43701985--43702250 Score: 408
Period size: 93 Copynumber: 2.9 Consensus size: 93
43701975 CGCCCATAAG
* * **
43701985 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGTATCCATAAGTGAACTTAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCA
43702050 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * * *
43702078 CGAACTTGGACTCGACTCAACGAGTTCGTACGTTC-ACATCCATAAGAGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGA-ATCCATAAGTGAACTCGGACTCAACTC
43702142 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* * *
43702171 CGAACTCGGACTCAACTCAACGAGTTAGGACGTTGGAATCCATAATTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCA
*
43702236 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
43702251 CAAATATCCG
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
93 154 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGAATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:43702101 original size:47 final size:47
Alignment explanation
Indices: 43702039--43702194 Score: 187
Period size: 47 Copynumber: 3.3 Consensus size: 47
43702029 AGTGAACTTA
*
43702039 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTTG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCG
* * * * *
43702086 GACTCGACTCAACGAGTTC-G-T-AC--GTTCACATCCATAAGAGAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-CGAACTCG
43702132 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCG
1 GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCG
43702179 GACTCAACTCAACGAG
1 GACTCAACTCAACGAG
43702195 TTAGGACGTT
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 3 0.03
46 24 0.27
47 41 0.46
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.21
Consensus pattern (47 bp):
GACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACGAACTCG
Found at i:43704708 original size:30 final size:30
Alignment explanation
Indices: 43704665--43704733 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
43704655 TAAATATAAC
*
43704665 AAGAAAACC-GAATAAAGAAATTCA-AGATA
1 AAGAAACCCAGAATAAAGAAATTCAGA-ATA
*
43704694 GAGAAACCCAGAATAAAGAAATTCAGAATA
1 AAGAAACCCAGAATAAAGAAATTCAGAATA
43704724 AAGAAACCCA
1 AAGAAACCCA
43704734 AGATACGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.12
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATTCAGAATA
Found at i:43704713 original size:15 final size:15
Alignment explanation
Indices: 43704665--43704733 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
43704655 TAAATATAAC
*
43704665 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
**
43704679 AAGAAATTCA-AGATA
1 AAGAAACCCAGA-ATA
*
43704694 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
**
43704709 AAGAAATTCAGAATA
1 AAGAAACCCAGAATA
43704724 AAGAAACCCA
1 AAGAAACCCA
43704734 AGATACGATA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
14 8 0.19
15 33 0.79
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.12
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:43707678 original size:46 final size:46
Alignment explanation
Indices: 43707610--43707878 Score: 253
Period size: 46 Copynumber: 5.8 Consensus size: 46
43707600 TGTAAACCGC
* *
43707610 CCATAAGCGAACTCGGAATCAACTCAATGAGCTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
43707656 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATACCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCG--GA-C--GTTCGCAT
* * *
43707706 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * *
43707749 ACATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGC-T
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* * * *
43707795 ACATCTCA-CGAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
43707842 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
43707879 TGCCCAAATA
Statistics
Matches: 180, Mismatches: 29, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
42 3 0.02
43 3 0.02
44 2 0.01
45 5 0.03
46 95 0.53
47 59 0.33
48 5 0.03
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:43707832 original size:47 final size:47
Alignment explanation
Indices: 43707664--43707832 Score: 175
Period size: 47 Copynumber: 3.6 Consensus size: 47
43707654 ATCCATAAGT
* * * *
43707664 GAACTCGGACTCAACTCAACGAGCTCGAATACCTAGTTACATCTCAC
1 GAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGCTACATCTCAC
* * * * * *
43707711 GAACTC-AGACTCAACTCAACGAGTTCGGACG-TTCGCATACA--TAAGT
1 GAACTCGA-ACTCAACTCAACGAGCTCGGATGCCTAGC-TACATCTCA-C
*
43707757 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGCTACATCTCAC
1 GAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGCTACATCTCAC
*
43707804 GAACTCGAACTCAACTCAACGAGTTCGGA
1 GAACTCGAACTCAACTCAACGAGCTCGGA
43707833 CGTTCGCATC
Statistics
Matches: 96, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
45 2 0.02
46 33 0.34
47 59 0.61
48 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.20
Consensus pattern (47 bp):
GAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGCTACATCTCAC
Found at i:43707878 original size:93 final size:93
Alignment explanation
Indices: 43707617--43707882 Score: 437
Period size: 93 Copynumber: 2.9 Consensus size: 93
43707607 CGCCCATAAG
* *
43707617 CGAACTCGGAA-TCAACTCAATGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTC-GAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
* * *
43707681 AACGAGCTCGAATACCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGCTACATCTCA
*
43707710 CGAACTC-AGACTCAACTCAACGAGTTCGGACGTTCGCATACATAAGTGAACTCGGACTCAACTC
1 CGAACTCGA-ACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTC
43707774 AACGAGCTCGGATGCCTAGCTACATCTCA
65 AACGAGCTCGGATGCCTAGCTACATCTCA
43707803 CGAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
43707868 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
43707883 CAAATATAAG
Statistics
Matches: 162, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
91 1 0.01
92 1 0.01
93 159 0.98
94 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGCTACATCTCA
Found at i:43710054 original size:203 final size:203
Alignment explanation
Indices: 43709705--43710087 Score: 563
Period size: 203 Copynumber: 1.9 Consensus size: 203
43709695 AATTGAGTCA
* * * * * *
43709705 TAAGAACTAATATTTATAGAAGTATTTTTAAATGAACAAGTTAGCTCAATTATATACAGGTAAAC
1 TAAGAACAAAAATTTATAGAAGTATTGTTAAATGAACAAATTAGCTCAATTATACACAGCTAAAC
* * * *
43709770 ATGTTAATTAAGGTAGTGTGGACGAAAAACACCCTCAGCTTATAATTGGGCCATGTCGGACGAGT
66 ATGTTAACTAAGGTAGTATGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGACGAGT
* *
43709835 GTCGCAACACCCTATAGTTTTGTGTCACGACATTGAACGTCAAATACTCTCATTATTGGTTCTGA
131 GTCGCAACACCCTATAGTTTTGTGTCACAACATTGAACATCAAATACTCTCATTATTGGTTCTGA
43709900 TTCGGTCC
196 TTCGGTCC
*
43709908 TAAGAACAAAAATTTATAGAAGTATTGTTAAATGACCAAATTAGCTCAATTATACACTA-CTAAA
1 TAAGAACAAAAATTTATAGAAGTATTGTTAAATGAACAAATTAGCTCAATTATACAC-AGCTAAA
* * * *
43709972 CATGTTAACTAAGGCT-GTATGGACGAAAAACACCTTCAGCTGATAATTGGGCCTTTTTAGACGA
65 CATGTTAACTAAGG-TAGTATGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGACGA
* *
43710036 GTTTCGCGACACCCTATAGTTTTGTGTCACAACATTGAACATCAAATACTCT
129 GTGTCGCAACACCCTATAGTTTTGTGTCACAACATTGAACATCAAATACTCT
43710088 TATTTTTTTG
Statistics
Matches: 159, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
203 157 0.99
204 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (203 bp):
TAAGAACAAAAATTTATAGAAGTATTGTTAAATGAACAAATTAGCTCAATTATACACAGCTAAAC
ATGTTAACTAAGGTAGTATGGACGAAAAACACCCTCAGCTGATAATTGGGCCATGTCAGACGAGT
GTCGCAACACCCTATAGTTTTGTGTCACAACATTGAACATCAAATACTCTCATTATTGGTTCTGA
TTCGGTCC
Found at i:43713339 original size:93 final size:93
Alignment explanation
Indices: 43713227--43713398 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43713217 CGCCCATAAG
* *
43713227 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43713292 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43713320 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43713385 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43713399 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43713395 original size:46 final size:46
Alignment explanation
Indices: 43713220--43713395 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
43713210 TGTAACCCGC
* * *
43713220 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
43713266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43713316 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43713359 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43713396 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43720245 original size:46 final size:46
Alignment explanation
Indices: 43720178--43720306 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
43720168 TGTAACCCGC
* *
43720178 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
*
43720224 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
43720270 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43720307 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
45 2 0.03
46 77 0.97
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:43720325 original size:46 final size:45
Alignment explanation
Indices: 43720186--43720325 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 45
43720176 GCCCATAAGC
* * * *
43720186 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGATGCTCACCATCC-T-AGT
*** *
43720232 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
43720278 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
43720324 GA
1 GA
43720326 CATGTCACTT
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
45 2 0.02
46 77 0.91
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:43730302 original size:4 final size:4
Alignment explanation
Indices: 43730293--43730327 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
43730283 TTCAAACTTC
43730293 AATT AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT AATT
43730328 CGAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
AATT
Found at i:43731991 original size:10 final size:10
Alignment explanation
Indices: 43731978--43732003 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
43731968 ATTTTAAATT
43731978 TTTTTTACAA
1 TTTTTTACAA
43731988 TTTTTTACAA
1 TTTTTTACAA
43731998 TTTTTT
1 TTTTTT
43732004 GTAATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:43732545 original size:38 final size:38
Alignment explanation
Indices: 43732469--43732546 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
43732459 TTTGTCTTTA
**
43732469 ACAGAATTTTGAACATGTAAAAATTAGGAGAACTTTTT
1 ACAGAATTTTGAACATGTAAAAATTAGGAGAAAATTTT
*
43732507 ACAGAATTTTGAACATGTACAAATTAGGAGAAAATTTT
1 ACAGAATTTTGAACATGTAAAAATTAGGAGAAAATTTT
43732545 AC
1 AC
43732547 TTTATTATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (38 bp):
ACAGAATTTTGAACATGTAAAAATTAGGAGAAAATTTT
Found at i:43735081 original size:46 final size:45
Alignment explanation
Indices: 43734986--43735156 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 45
43734976 TCTTGTAGCG
* * * * *
43734986 GATGCATGTCCTAGACATGTCTTAAACTAGCT-TACATCGCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-C-TCTCAATGCC
* *
43735032 GATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGCC
* * * *
43735078 GATGCCATGTCCCAGACATGGTCTTACATTGGCTCTC-ATAATATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCA-AT-GCC
*
43735126 GATGCATGTTCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
43735157 ACACAAATAA
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
46 53 0.51
47 29 0.28
48 21 0.20
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGCC
Found at i:43740973 original size:6 final size:6
Alignment explanation
Indices: 43740964--43741022 Score: 84
Period size: 6 Copynumber: 10.0 Consensus size: 6
43740954 AATAAAATTG
* * *
43740964 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
43741011 AAATAA AAATAA
1 AAATAA AAATAA
43741023 GAGTAAATAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.11
6 42 0.89
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:43741019 original size:17 final size:17
Alignment explanation
Indices: 43740944--43741022 Score: 88
Period size: 17 Copynumber: 4.4 Consensus size: 17
43740934 TATGTCTTTC
*
43740944 AAAATAAAATAATAAAATT
1 AAAATAAAAT-A-AAAATA
*
43740963 GAAATGAAAATAAAAATCA
1 AAAAT-AAAATAAAAAT-A
43740982 AAAGA-AAAATAAAAATA
1 AAA-ATAAAATAAAAATA
43740999 AAAATAAAATAAAAATA
1 AAAATAAAATAAAAATA
43741016 AAAATAA
1 AAAATAA
43741023 GAGTAAATAA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
16 1 0.02
17 23 0.43
18 16 0.30
19 7 0.13
20 6 0.11
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:43741036 original size:23 final size:23
Alignment explanation
Indices: 43740944--43741035 Score: 96
Period size: 23 Copynumber: 3.9 Consensus size: 23
43740934 TATGTCTTTC
** *
43740944 AAAATAAAATAATAAAATTGAAATG
1 AAAAT-AAA-AATAAAATAAAAATA
*
43740969 AAAATAAAAATCAAAAGAAAAATA
1 AAAATAAAAAT-AAAATAAAAATA
43740993 AAAATAAAAATAAAATAAAAATA
1 AAAATAAAAATAAAATAAAAATA
* *
43741016 AAAATAAGAGT-AAATAAAAA
1 AAAATAAAAATAAAATAAAAA
43741036 AAGGAGGATT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
22 9 0.15
23 23 0.39
24 22 0.37
25 5 0.08
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.17
Consensus pattern (23 bp):
AAAATAAAAATAAAATAAAAATA
Found at i:43746380 original size:13 final size:13
Alignment explanation
Indices: 43746358--43746390 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
43746348 AAGGGTTTGT
43746358 TTAT-TAAACTAA
1 TTATCTAAACTAA
43746370 TTATCTAAACTAA
1 TTATCTAAACTAA
*
43746383 TTAACTAA
1 TTATCTAA
43746391 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:43752370 original size:49 final size:50
Alignment explanation
Indices: 43752298--43752426 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 50
43752288 TGATGTCGAT
* *
43752298 GCCATGTCCCAGACATGGTCTTACACTGACTATCGAAAT-TGAG-GCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATATCAGTGCCAAC
* * * *
43752347 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCAAATATCAGTGCCAAC
*
43752397 GCCATGTCCCAGATATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
43752427 ACATCTCGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
48 4 0.06
49 33 0.48
50 31 0.45
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCAAATATCAGTGCCAAC
Found at i:43752491 original size:46 final size:48
Alignment explanation
Indices: 43752296--43752567 Score: 210
Period size: 46 Copynumber: 5.7 Consensus size: 48
43752286 TATGATGTCG
* * * *
43752296 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGAAATTGA-G-GCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-C--TCTACA-TCACGTGCCA
*
43752345 ACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAT-ATCCGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATCA--CGTGCCA
* * * *
43752395 ATGCCATGTCCCAGATATGGTCTTACACT-G-AC-ACATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCACGT-GCCA
* *
43752441 ATG-CAAGTCCCAGAGAT-GTCTTACACTAGCT-TACATCACGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCACG-TGCCA
* * * *
43752487 ATG-CATGTCCCAAACAT-GTCTTACACTAGCTCT-CATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCAC-GTGCCA
* *
43752533 ATGCCATGTCCCTGACATGGTCTTACACTGGCTCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT
43752568 CATAATGTGG
Statistics
Matches: 184, Mismatches: 23, Indels: 33
0.77 0.10 0.14
Matches are distributed among these distances:
44 10 0.05
45 16 0.09
46 61 0.33
47 17 0.09
48 18 0.10
49 31 0.17
50 31 0.17
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATCACGTGCCA
Found at i:43752560 original size:94 final size:93
Alignment explanation
Indices: 43752341--43752615 Score: 276
Period size: 94 Copynumber: 2.9 Consensus size: 93
43752331 CGAAATTGAG
*
43752341 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCAATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-ACATA--CGTGCCAATG-CATGTCC
* * *
43752406 CAGATATGGTCTTACACT-G-ACACATCTCGTA
62 CAAACAT-GTCTTACACTAGCACACATCTCATA
* *
43752437 GCCGATG-CAAGTCCCAGAGAT-GTCTTACACTAGCT-TACATCACGATGCCAATGCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-ACG-TGCCAATGCATGTCCCA
* *
43752499 AACATGTCTTACACTAGCTCTCATCTCA-A
64 AACATGTCTTACACTAGCACACATCTCATA
* * * * * *
43752528 TGCCGATGCCATGTCCCTGACATGGTCTTACACTGGCTCT-CATAATGTGGTCGATGCACGTCCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACAT-ACGT-GCCAATGCATGTCCC
*
43752592 AAACATGTCTTACATTAGCACACA
63 AAACATGTCTTACACTAGCACACA
43752616 AATAACTTGA
Statistics
Matches: 150, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
90 10 0.07
91 16 0.11
92 26 0.17
93 14 0.09
94 65 0.43
95 13 0.09
96 6 0.04
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.26
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTACATACGTGCCAATGCATGTCCCAAA
CATGTCTTACACTAGCACACATCTCATA
Found at i:43763277 original size:30 final size:30
Alignment explanation
Indices: 43763233--43763321 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
43763223 CAAAGATAAC
*
43763233 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
43763262 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
43763292 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
43763322 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:43763281 original size:15 final size:14
Alignment explanation
Indices: 43763233--43763315 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
43763223 CAAAGATAAC
*
43763233 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
43763247 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
43763262 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
43763277 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
43763292 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
43763307 AAGAAACCC
1 AAGAAACCC
43763316 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:43763321 original size:15 final size:15
Alignment explanation
Indices: 43763244--43763321 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
43763234 AGAAAACCGA
43763244 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
43763259 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
43763273 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
43763288 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
43763304 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
43763319 ATA
1 ATA
43763322 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:43773737 original size:47 final size:46
Alignment explanation
Indices: 43773615--43773738 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
43773605 TGTAACCCGC
* *
43773615 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCCTTTACAT
* * *
43773661 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTATAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--GCCT--TTACAT
*
43773711 -C-TCA-CGAACTCGGACTCAACTCAACGAG
1 CCATAAGCGAACTCGGACTCAACTCAACGAG
43773739 TTCGAAACTC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
46 35 0.51
47 22 0.32
48 5 0.07
49 1 0.01
50 5 0.07
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCCTTTACAT
Found at i:43782189 original size:43 final size:43
Alignment explanation
Indices: 43782038--43782190 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
43782028 TCGACTTATG
* * *
43782038 AGACCACATCTGGGACGTTGACATCGACT-TATGATTTACATGTA
1 AGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACATGTA
* * *
43782082 AGACCACGTTTGGGACGTTGGCATCG-TACTTGATTTCATGTA
1 AGACCACGTCTGGGACGTTGGCATCGATATTTGATTACATGTA
* *
43782124 AGATCC-TGTCTAGGACAG-TGGCATCGATATTTGATTACATGTA
1 AGA-CCACGTCTGGGAC-GTTGGCATCGATATTTGATTACATGTA
43782167 AGACCACGTCTGGGACGTTGGCAT
1 AGACCACGTCTGGGACGTTGGCAT
43782191 TGTACAAGCT
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
42 30 0.33
43 37 0.41
44 23 0.26
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
AGACCACGTCTGGGACGTTGGCATCGATATTTGATTACATGTA
Found at i:43785970 original size:27 final size:28
Alignment explanation
Indices: 43785910--43786008 Score: 146
Period size: 28 Copynumber: 3.6 Consensus size: 28
43785900 GGCTATATAC
*
43785910 GGCACTTAGTGTGCGAGACATTGAGTAT
1 GGCACTTAGTGTGCGAGACATTGAGCAT
*
43785938 GGCACTTAGTGTGC-AAACATTGAGCAT
1 GGCACTTAGTGTGCGAGACATTGAGCAT
* * *
43785965 GTCACTTAGTGTGCGTGATATTGAGCAT
1 GGCACTTAGTGTGCGAGACATTGAGCAT
43785993 GGCACTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
43786009 AATATCGAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 24 0.39
28 38 0.61
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (28 bp):
GGCACTTAGTGTGCGAGACATTGAGCAT
Found at i:43791026 original size:24 final size:24
Alignment explanation
Indices: 43790994--43791045 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
43790984 GAGACCTTAG
43790994 CCTTACCTTTCTTAGTGCGCTTTC
1 CCTTACCTTTCTTAGTGCGCTTTC
43791018 CCTTACCTTTCTTAGTGCGCTTTC
1 CCTTACCTTTCTTAGTGCGCTTTC
43791042 CCTT
1 CCTT
43791046 CACTTCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.08, C:0.35, G:0.12, T:0.46
Consensus pattern (24 bp):
CCTTACCTTTCTTAGTGCGCTTTC
Found at i:43795326 original size:7 final size:7
Alignment explanation
Indices: 43795314--43795354 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
43795304 AAAATACAAG
43795314 ACAAAAC
1 ACAAAAC
43795321 ACAAAAC
1 ACAAAAC
*
43795328 CCAAAATC
1 ACAAAA-C
43795336 -CAAAAC
1 ACAAAAC
43795342 ACAAAAC
1 ACAAAAC
43795349 ACAAAA
1 ACAAAA
43795355 ATTCAAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 1 0.03
7 29 0.94
8 1 0.03
ACGTcount: A:0.68, C:0.29, G:0.00, T:0.02
Consensus pattern (7 bp):
ACAAAAC
Found at i:43795339 original size:21 final size:21
Alignment explanation
Indices: 43795315--43795354 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
43795305 AAATACAAGA
*
43795315 CAAAACACAAAACCCAAAATC
1 CAAAACACAAAACACAAAATC
43795336 CAAAACACAAAACACAAAA
1 CAAAACACAAAACACAAAA
43795355 ATTCAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.03
Consensus pattern (21 bp):
CAAAACACAAAACACAAAATC
Found at i:43796250 original size:24 final size:24
Alignment explanation
Indices: 43796223--43796270 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
43796213 ATATAGATTA
*
43796223 GAATTTTAATAGTTATT-ATTAAAT
1 GAATTTTAATA-TAATTAATTAAAT
43796247 GAATTTTAATATAATTAATTAAAT
1 GAATTTTAATATAATTAATTAAAT
43796271 TCTATTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
GAATTTTAATATAATTAATTAAAT
Found at i:43796575 original size:6 final size:6
Alignment explanation
Indices: 43796566--43796590 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
43796556 CCAAACCCAA
43796566 TTTAAT TTTAAT TTTAAT TTTAAT T
1 TTTAAT TTTAAT TTTAAT TTTAAT T
43796591 ATATTATGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTAAT
Found at i:43798975 original size:46 final size:46
Alignment explanation
Indices: 43798903--43799168 Score: 266
Period size: 46 Copynumber: 5.8 Consensus size: 46
43798893 CTACATGTTG
* *
43798903 TGTAGGTTCAACCCTGACGGGTGACCAGGCATTATTATTCGATTCA
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTCGATTCA
* * * * *
43798949 TATATGTTCAACTCTAACAGGTGACCAAGCACTATTATTCGATTCA
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTCGATTCA
* * *
43798995 TGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTC-
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTCGATTCA
* * * * *
43799040 TGTAGGTTCAACCTTAACAGTTGACCAGACACTATTA-TCTGATTCG
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTC-GATTCA
* * * * * *
43799086 TGTAAGTTTAATCCAAACGGGTAACCAGGCACTATTATTCGATTCG
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTCGATTCA
* * * * **
43799132 TGTAGGTTTAACCCAAACGAGTAACCAAACACTATTA
1 TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTA
43799169 CTTTCATTTG
Statistics
Matches: 181, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.01
45 36 0.20
46 142 0.78
47 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (46 bp):
TGTAGGTTCAACCCTAACGGGTGACCAGGCACTATTATTCGATTCA
Found at i:43799105 original size:91 final size:93
Alignment explanation
Indices: 43798903--43799144 Score: 269
Period size: 91 Copynumber: 2.6 Consensus size: 93
43798893 CTACATGTTG
* ** * * *
43798903 TGTAGGTTCAACCCTGACGGGTGACCAGGCATTATTATTCGATTCATATATGTTCAA-CTCTAAC
1 TGTAAGTTCAACCCAAACGGGTGACCAGGCACTATTATTCGATTCATGTAGGTTCAACCTCTAAC
43798967 AGGTGACCAAGCACTATTATTCGATTCA
66 AGGTGACCAAGCACTATTATTCGATTCA
** * * *
43798995 TGTGGGTTCAACCCTAACGGGTGACTAGGCACTATTATTTGATTC-TGTAGGTTCAACCT-TAAC
1 TGTAAGTTCAACCCAAACGGGTGACCAGGCACTATTATTCGATTCATGTAGGTTCAACCTCTAAC
* *
43799058 AGTTGACC-AGACACTATTA-TCTGATTCG
66 AGGTGACCAAG-CACTATTATTC-GATTCA
* * * * *
43799086 TGTAAGTTTAATCCAAACGGGTAACCAGGCACTATTATTCGATTCGTGTAGGTTTAACC
1 TGTAAGTTCAACCCAAACGGGTGACCAGGCACTATTATTCGATTCATGTAGGTTCAACC
43799145 CAAACGAGTA
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
90 4 0.03
91 70 0.55
92 54 0.42
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (93 bp):
TGTAAGTTCAACCCAAACGGGTGACCAGGCACTATTATTCGATTCATGTAGGTTCAACCTCTAAC
AGGTGACCAAGCACTATTATTCGATTCA
Found at i:43800636 original size:48 final size:48
Alignment explanation
Indices: 43800562--43800929 Score: 432
Period size: 48 Copynumber: 7.7 Consensus size: 48
43800552 ATAAGGTCTC
* * *
43800562 GTGTAAGACCATATCTGGGACGTGGCATCGGCGTTGATATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * *
43800610 GTGTAAGACCATGTCTGGGACATGGCATCGACATGGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * * * *
43800658 ATATAAGGCCACGTCTAGGACATGGGATCGGCATTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* *
43800706 GTGTAAGACCATGTTTGGGACATGGCATTGGCGTTGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * * * *
43800754 ATGTAAGACCATGTTTGGGTCTTGGCATCGGTGCTGATATTTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
43800802 GTGTAAGACCTTGTCTGGGACATGGCATTGGCATAGATATGTGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
43800850 GTGTAAGACCATGTCTGGAACATGGCATCCGCGCTGATATGTGTA-CTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTG-AGCCA
* *
43800898 CTGTAAGACCATGTCTGGGACATGACATCGGC
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC
43800930 ACTGACATGA
Statistics
Matches: 266, Mismatches: 53, Indels: 2
0.83 0.17 0.01
Matches are distributed among these distances:
48 265 1.00
49 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:43802964 original size:20 final size:20
Alignment explanation
Indices: 43802936--43802973 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43802926 GACCACATGG
43802936 CCTACCCACACGGGCGTGCC
1 CCTACCCACACGGGCGTGCC
* *
43802956 CCTATCCACATGGGCGTG
1 CCTACCCACACGGGCGTG
43802974 TGGCCTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.42, G:0.26, T:0.16
Consensus pattern (20 bp):
CCTACCCACACGGGCGTGCC
Found at i:43803370 original size:22 final size:23
Alignment explanation
Indices: 43803345--43803390 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
43803335 CAACCAAATC
43803345 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
43803367 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
43803390 A
1 A
43803391 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:43803396 original size:23 final size:23
Alignment explanation
Indices: 43803352--43803396 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
43803342 ATCAATTCAA
*
43803352 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
43803375 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
43803397 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:43812657 original size:21 final size:21
Alignment explanation
Indices: 43812628--43812688 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
43812618 TAAGATAAGC
* *
43812628 CAACTTTGAAAATGACTTCTT
1 CAACATTGAAAATGGCTTCTT
43812649 CAACATTGAAAATGGCTTCTT
1 CAACATTGAAAATGGCTTCTT
43812670 CAACATTGAAAATGGCTTC
1 CAACATTGAAAATGGCTTC
43812689 GGTTCTCCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (21 bp):
CAACATTGAAAATGGCTTCTT
Found at i:43813300 original size:43 final size:43
Alignment explanation
Indices: 43813250--43813358 Score: 141
Period size: 43 Copynumber: 2.5 Consensus size: 43
43813240 GTTTATTTGA
* * *
43813250 AAAAACGCCGCTAAAGGTCATGACTTTTAGC-GACACTTTTC-C
1 AAAAACGCCGCTAAATGTCATGACCTTTAACTG-CACTTTTCTC
* *
43813292 TACAAACGCCGCTAAATGTCATGACCTTTAACTGCGCTTTTCTC
1 -AAAAACGCCGCTAAATGTCATGACCTTTAACTGCACTTTTCTC
43813336 AAAAACGCCGCTAAATGTCATGA
1 AAAAACGCCGCTAAATGTCATGA
43813359 AAGTCAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
AAAAACGCCGCTAAATGTCATGACCTTTAACTGCACTTTTCTC
Found at i:43813624 original size:19 final size:18
Alignment explanation
Indices: 43813602--43813642 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
43813592 ATTTAGAATC
43813602 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAAT-ATA
*
43813621 AAAACTAAATTAAATATA
1 AAAACTAAAATAAATATA
43813639 AAAA
1 AAAA
43813643 TATCAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAACTAAAATAAATATA
Found at i:43817002 original size:17 final size:17
Alignment explanation
Indices: 43816980--43817012 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43816970 AAAATAAAGA
43816980 GTCTAAATAACATAATG
1 GTCTAAATAACATAATG
43816997 GTCTAAATAACATAAT
1 GTCTAAATAACATAAT
43817013 TGTTTAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (17 bp):
GTCTAAATAACATAATG
Found at i:43818521 original size:14 final size:14
Alignment explanation
Indices: 43818502--43818528 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43818492 ATATTGAGAT
43818502 CCTGTCAAGCAGAA
1 CCTGTCAAGCAGAA
43818516 CCTGTCAAGCAGA
1 CCTGTCAAGCAGA
43818529 CATCCTGAGA
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:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (14 bp):
CCTGTCAAGCAGAA
Found at i:43820375 original size:10 final size:10
Alignment explanation
Indices: 43820360--43820386 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
43820350 GAGGAAAGGG
43820360 GGAGGGATTT
1 GGAGGGATTT
43820370 GGAGGGATTT
1 GGAGGGATTT
43820380 GGAGGGA
1 GGAGGGA
43820387 GAGGAGAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.56, T:0.22
Consensus pattern (10 bp):
GGAGGGATTT
Found at i:43821346 original size:43 final size:41
Alignment explanation
Indices: 43821265--43821346 Score: 94
Period size: 41 Copynumber: 2.0 Consensus size: 41
43821255 TTAGATTAAA
* * *
43821265 TCTTAAACCATTTAATATATATATAAAGTTTATCTATTCTC
1 TCTTAAACAATTTAAAATATATATAAAGTTTATATATTCTC
*
43821306 TCTTAAATAATTTAAAATATA-ATCATAAGTTTAATATATTC
1 TCTTAAACAATTTAAAATATATAT-A-AAGTTT-ATATATTC
43821347 AAATTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
40 2 0.06
41 19 0.56
42 6 0.18
43 7 0.21
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (41 bp):
TCTTAAACAATTTAAAATATATATAAAGTTTATATATTCTC
Found at i:43821430 original size:7 final size:7
Alignment explanation
Indices: 43821418--43821546 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
43821408 ACTAATTAAT
43821418 CTAAACC
1 CTAAACC
43821425 CTAAACC
1 CTAAACC
*
43821432 TCTTAACCC
1 -C-TAAACC
*
43821441 CT-ATCC
1 CTAAACC
* *
43821447 TATAAACA
1 -CTAAACC
43821455 CTAAACC
1 CTAAACC
43821462 CTAAACC
1 CTAAACC
* *
43821469 CTTAACT
1 CTAAACC
*
43821476 CTTAACC
1 CTAAACC
*
43821483 CCAAACC
1 CTAAACC
*
43821490 CTTACACC
1 C-TAAACC
* *
43821498 TTAAACT
1 CTAAACC
43821505 CT-AACC
1 CTAAACC
43821511 CT-AACC
1 CTAAACC
43821517 TCTAAACC
1 -CTAAACC
*
43821525 CTAAATC
1 CTAAACC
* *
43821532 ATAATCC
1 CTAAACC
43821539 CTAAACC
1 CTAAACC
43821546 C
1 C
43821547 ATAATTCATC
Statistics
Matches: 90, Mismatches: 25, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
6 12 0.13
7 61 0.68
8 12 0.13
9 5 0.06
ACGTcount: A:0.37, C:0.40, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:43821626 original size:46 final size:47
Alignment explanation
Indices: 43821556--43821651 Score: 151
Period size: 46 Copynumber: 2.1 Consensus size: 47
43821546 CATAATTCAT
*
43821556 CATAAATCTTCAAATACTAGTTAACTCCTAAACCTTAAACCCTAAAC
1 CATAAATCTTCAAATACTAGTTAACTCATAAACCTTAAACCCTAAAC
*
43821603 CATATATCTT-AAAT-CATAGTTAACTCATAAACCTTAAACCCTAAAC
1 CATAAATCTTCAAATAC-TAGTTAACTCATAAACCTTAAACCCTAAAC
43821649 CAT
1 CAT
43821652 CTTAAACCAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
45 1 0.02
46 36 0.78
47 9 0.20
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (47 bp):
CATAAATCTTCAAATACTAGTTAACTCATAAACCTTAAACCCTAAAC
Found at i:43821879 original size:41 final size:40
Alignment explanation
Indices: 43821834--43821952 Score: 141
Period size: 41 Copynumber: 3.0 Consensus size: 40
43821824 TTTATATGAC
* * *
43821834 TTTTAGTGGCGTTTTACCAACAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCT-AT
*
43821875 TTTTAACGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
*** *
43821915 TTTTAGCGGCGCTTTTGGTAAAA-CGCCGCTATTGCTCT
1 TTTTAGCGGCG-TTTTACCAAAAGCGCCGCTAATGCTCT
43821953 GTGTTTTACA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 25 0.37
41 43 0.63
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTAT
Found at i:43825325 original size:80 final size:79
Alignment explanation
Indices: 43825189--43825433 Score: 333
Period size: 80 Copynumber: 3.1 Consensus size: 79
43825179 CCTTTGGGGT
* *
43825189 TTAG-CCGGATATAGCTACTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACA
1 TTAGCCCGGATATAGCTACTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
43825253 AATGCCTTCGGGAC
66 AATGCCTTCGGGAC
43825267 TTAGCCCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 TTAGCCCGGATATAGCTAC-T-GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
43825331 CAAATGCCTTCGGGAC
64 CAAATGCCTTCGGGAC
* * * *
43825347 TT-GCCCGGA-ACTAGTTACTAGCGCAAATGCCTTCGGGACTT-GCCCGGA-ACTAGTCACTAG-
1 TTAGCCCGGATA-TAGCTACT-GCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGC
43825407 AGCAAATGCCTTCGGGAC
63 A-CAAATGCCTTCGGGAC
43825425 TTAGCCCGG
1 TTAGCCCGG
43825434 TTATCATCCA
Statistics
Matches: 153, Mismatches: 6, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
77 2 0.01
78 41 0.27
79 48 0.31
80 62 0.41
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAGCTACTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:43825374 original size:39 final size:39
Alignment explanation
Indices: 43825211--43825433 Score: 301
Period size: 40 Copynumber: 5.6 Consensus size: 39
43825201 AGCTACTGCT
*
43825211 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-AATAGTAACTCGCA
43825251 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAAC-TCGCA
43825291 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATAGTAACTCGCA
* * *
43825331 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTTACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
* *
43825370 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAG-A
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TAGTAACTCGCA
43825408 GCAAATGCCTTCGGGACTTAGCCCGG
1 -CAAATGCCTTCGGGACTTAGCCCGG
43825434 TTATCATCCA
Statistics
Matches: 171, Mismatches: 6, Indels: 12
0.90 0.03 0.06
Matches are distributed among these distances:
38 1 0.01
39 72 0.42
40 96 0.56
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATAGTAACTCGCA
Found at i:43832514 original size:39 final size:40
Alignment explanation
Indices: 43832469--43832677 Score: 125
Period size: 41 Copynumber: 5.2 Consensus size: 40
43832459 CGGGGTTTAG
* * *
43832469 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
43832508 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
**** * * **
43832548 CCGGATATAGTTGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* * * * * *
43832588 CCGGATGTAGCCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
43832629 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
43832670 CCGGATAT
1 CCGGATAT
43832678 CATTCGAGTA
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 18 0.12
40 58 0.40
41 67 0.46
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:43832619 original size:41 final size:41
Alignment explanation
Indices: 43832492--43832677 Score: 243
Period size: 41 Copynumber: 4.6 Consensus size: 41
43832482 CTCGCACAAG
* * * * * *
43832492 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
43832532 GCCTTCGGGACTTAGCCCGGATATAGTTGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* * *
43832572 GCCTTC-GGATCTTAGTCCGGATGTAGCCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
43832613 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
43832654 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
43832678 CATTCGAGTA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
39 3 0.02
40 56 0.43
41 67 0.52
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:43832626 original size:81 final size:82
Alignment explanation
Indices: 43832522--43832675 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 82
43832512 ATATGGTCAC
* * * *
43832522 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTTGC-TAGCACAAATGCCTTC-GGATCTT
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGA-CTT
*
43832585 AGTCCGGATGTAGCCGCT
65 AGCCCGGATGTAGCCGCT
43832603 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
1 TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
43832668 GCCCGGAT
66 GCCCGGAT
43832676 ATCATTCGAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 37 0.56
82 26 0.39
83 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (82 bp):
TAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTA
GCCCGGATGTAGCCGCT
Found at i:43844307 original size:12 final size:12
Alignment explanation
Indices: 43844290--43844324 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
43844280 TGGTCTACCC
43844290 ATTTTGAGCTAT
1 ATTTTGAGCTAT
43844302 ATTTTGAGCTAT
1 ATTTTGAGCTAT
43844314 ATTTTGAGCTA
1 ATTTTGAGCTA
43844325 GTGTTCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (12 bp):
ATTTTGAGCTAT
Found at i:43855695 original size:51 final size:51
Alignment explanation
Indices: 43855596--43855695 Score: 128
Period size: 51 Copynumber: 2.0 Consensus size: 51
43855586 TGGATGCAAG
** * *
43855596 CATCCGAGCTCATTGAGAGGTTTGAGTTCATGGTGGATGCGATTCATGTAA
1 CATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCGATACATGTAA
* * * *
43855647 CATCCGAGTTCATTGAGAGGTCCGAGTTCATTATGGATGTGGTACATGT
1 CATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCGATACATGT
43855696 TATGTGGTAG
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (51 bp):
CATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCGATACATGTAA
Found at i:43857421 original size:43 final size:42
Alignment explanation
Indices: 43857374--43857481 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 42
43857364 TCCCTAACGT
* *
43857374 GGTCTTACATGTAATCACATATCGATGCCACTATTCCAAACAG
1 GGTCTTAC-TGTAATCACATATCGATGCCACTATCCCAAACAA
*
43857417 GGTCTTACTTGTAATCACATATCGATGCCACTGTCCCAAACAA
1 GGTCTTAC-TGTAATCACATATCGATGCCACTATCCCAAACAA
*
43857460 GGTCTTACTCCTAATCACATAT
1 GGTCTTACT-GTAATCACATAT
43857482 TGCACACATA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.02
43 58 0.98
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
GGTCTTACTGTAATCACATATCGATGCCACTATCCCAAACAA
Found at i:43858700 original size:14 final size:14
Alignment explanation
Indices: 43858683--43858709 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43858673 AAATTACAAA
43858683 AATTTCACACATAT
1 AATTTCACACATAT
43858697 AATTTCACACATA
1 AATTTCACACATA
43858710 ATAAAAATAG
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:43861094 original size:27 final size:27
Alignment explanation
Indices: 43860927--43861104 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
43860917 TAAATTGTAC
*
43860927 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
43860954 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
43860980 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
43861008 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
43861036 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
43861063 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
43861090 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43861105 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:43861095 original size:82 final size:81
Alignment explanation
Indices: 43860924--43861104 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
43860914 GATTAAATTG
* * * *
43860924 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43860989 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
43861005 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43861069 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
43861087 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43861105 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:43869101 original size:27 final size:27
Alignment explanation
Indices: 43868934--43869111 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
43868924 TAAATTGTAC
*
43868934 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
43868961 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
43868987 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
43869015 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
43869043 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
43869070 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
43869097 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43869112 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:43869102 original size:82 final size:81
Alignment explanation
Indices: 43868931--43869111 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
43868921 GATTAAATTG
* * * *
43868931 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43868996 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
43869012 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43869076 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
43869094 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43869112 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:43878664 original size:32 final size:32
Alignment explanation
Indices: 43878628--43878691 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
43878618 GAGAAGAAGA
43878628 AAGAAAAAAGAAGAAGAAAAGAATGAAACTAT
1 AAGAAAAAAGAAGAAGAAAAGAATGAAACTAT
43878660 AAGAAAAAAGAAGAAGAAAAGAATGAAACTAT
1 AAGAAAAAAGAAGAAGAAAAGAATGAAACTAT
43878692 GGTTTACAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.69, C:0.03, G:0.19, T:0.09
Consensus pattern (32 bp):
AAGAAAAAAGAAGAAGAAAAGAATGAAACTAT
Found at i:43887402 original size:85 final size:84
Alignment explanation
Indices: 43887272--43887426 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
43887262 TACCATACCA
* * *
43887272 ATGCCATATTCCAGATATGGTCCTACATGTAATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATTCCAGATATGGTCCTACACGTAATCTCAAATCGATGCC-ATAGCCCAGATATGGTC
43887337 TTACACGAAATCTCACATTG
65 TTACACGAAATCTCACATTG
* * *
43887357 ATGCCATA-TCCTAGATATGGTCTTACACG-AAGTCTCAAATTGATGCCATATCCCAGATATGGT
1 ATGCCATATTCC-AGATATGGTCCTACACGTAA-TCTCAAATCGATGCCATAGCCCAGATATGGT
43887420 CTTACAC
64 CTTACAC
43887427 ATGGTCTCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
84 26 0.42
85 36 0.58
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (84 bp):
ATGCCATATTCCAGATATGGTCCTACACGTAATCTCAAATCGATGCCATAGCCCAGATATGGTCT
TACACGAAATCTCACATTG
Found at i:43887435 original size:42 final size:42
Alignment explanation
Indices: 43887272--43887426 Score: 202
Period size: 42 Copynumber: 3.7 Consensus size: 42
43887262 TACCATACCA
* * * * * *
43887272 ATGCCATATTCCAGATATGGTCCTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATTG
* * *
43887314 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCACATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAAATTG
* *
43887357 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCAAATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATTG
43887399 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
43887427 ATGGTCTCAG
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 64 0.65
43 34 0.35
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATTG
Found at i:43901192 original size:24 final size:24
Alignment explanation
Indices: 43901160--43901206 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
43901150 ATGAGATACT
43901160 GACCTTTTCATTG-TGATCCTTTTC
1 GACCTTTTCATTGAT-ATCCTTTTC
43901184 GACCTTTTCATTGATATCCTTTT
1 GACCTTTTCATTGATATCCTTTT
43901207 TGGATAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.23, G:0.11, T:0.51
Consensus pattern (24 bp):
GACCTTTTCATTGATATCCTTTTC
Found at i:43901220 original size:40 final size:40
Alignment explanation
Indices: 43901175--43901279 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 40
43901165 TTTCATTGTG
* ** *
43901175 ATCCTTTTCGACCTTTTCATTGATATCCTTTTTGGATAGC
1 ATCCTTTTCAACCTTTTCATTGATATCCTTTCCGGATAAC
43901215 ATCCTTTTCAACCTTTTCATTTGATATCCTTTCCGGATAAC
1 ATCCTTTTCAACCTTTTCA-TTGATATCCTTTCCGGATAAC
*
43901256 ATCCTTTTCAACTTTTTCATTGAT
1 ATCCTTTTCAACCTTTTCATTGAT
43901280 TTGGAAATAC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 23 0.39
41 36 0.61
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.48
Consensus pattern (40 bp):
ATCCTTTTCAACCTTTTCATTGATATCCTTTCCGGATAAC
Found at i:43903836 original size:31 final size:29
Alignment explanation
Indices: 43903775--43903836 Score: 70
Period size: 31 Copynumber: 2.1 Consensus size: 29
43903765 TGAAAATCGA
*
43903775 TTTACGAACCTAGGGTTAAAATCATAATT
1 TTTACGAACCTAGGGGTAAAATCATAATT
* * *
43903804 TTTACGAAAGCCTAGGGGTGAAATGATCATT
1 TTTACG-AA-CCTAGGGGTAAAATCATAATT
43903835 TT
1 TT
43903837 GCCAAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 6 0.22
30 2 0.07
31 19 0.70
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (29 bp):
TTTACGAACCTAGGGGTAAAATCATAATT
Found at i:43916829 original size:40 final size:40
Alignment explanation
Indices: 43916736--43916953 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
43916726 AAGCCAAGTA
* * *
43916736 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43916774 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43916814 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43916854 CCTTCAGGACTTAGCCCGGATATAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43916894 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
43916935 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43916954 TTATCATCCA
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 104 0.65
41 24 0.15
42 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43926095 original size:27 final size:26
Alignment explanation
Indices: 43926051--43926102 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
43926041 CTCGTTGCAA
*
43926051 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
43926078 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
43926103 GCAGCTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Done.