Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold179
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: 2991183
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.31
Warning! 65816 characters in sequence are not A, C, G, or T
File 13 of 18
Found at i:1715149 original size:18 final size:18
Alignment explanation
Indices: 1715110--1715167 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
1715100 GTTTTGTTTT
1715110 TTTTTGTTTTGTTTGTTT--
1 TTTTTGTTTT-TTT-TTTAC
1715128 TTTTTGTTTTTTTTTTAC
1 TTTTTGTTTTTTTTTTAC
* *
1715146 -TTTTGTTTGTGTGTTTAC
1 TTTTTGTTT-TTTTTTTAC
1715164 TTTT
1 TTTT
1715168 GACTGTTCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 11 0.32
18 17 0.50
19 3 0.09
ACGTcount: A:0.03, C:0.03, G:0.14, T:0.79
Consensus pattern (18 bp):
TTTTTGTTTTTTTTTTAC
Found at i:1722189 original size:52 final size:52
Alignment explanation
Indices: 1722041--1722169 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1722031 CGAAATATGT
*
1722041 AAATTTGCCTGCATGTATTGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1722093 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1722145 AAATTTGCCTCCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1722170 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1722279 original size:19 final size:19
Alignment explanation
Indices: 1722255--1722351 Score: 92
Period size: 19 Copynumber: 5.7 Consensus size: 19
1722245 AGCAATGCAT
1722255 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1722274 TGTATCGAT---AAA--T-
1 TGTATCGATACAAAACTTA
*
1722287 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1722306 TGTATCGAT---AAA--T-
1 TGTATCGATACAAAACTTA
*
1722319 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1722338 TGTATCGATACAAA
1 TGTATCGATACAAA
1722352 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
13 18 0.29
14 2 0.03
16 9 0.15
18 2 0.03
19 31 0.50
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1722292 original size:13 final size:13
Alignment explanation
Indices: 1722274--1722328 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
1722264 ACAAAACTTA
1722274 TGTATCGATAAAT
1 TGTATCGATAAAT
1722287 TGTATCGATACAACACTT
1 TGTATCGAT--AA-A--T
1722305 ATGTATCGATAAAT
1 -TGTATCGATAAAT
1722319 TGTATCGATA
1 TGTATCGATA
1722329 CAACACTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
14 1 0.03
15 2 0.06
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.25
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATAAAT
Found at i:1722294 original size:32 final size:32
Alignment explanation
Indices: 1722253--1722347 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
1722243 ATAGCAATGC
*
1722253 ATTGTATCGATACAAAACTTATGTATCGATAA
1 ATTGTATCGATACAACACTTATGTATCGATAA
1722285 ATTGTATCGATACAACACTTATGTATCGATAA
1 ATTGTATCGATACAACACTTATGTATCGATAA
1722317 ATTGTATCGATACAACACTTATGTATCGATA
1 ATTGTATCGATACAACACTTATGTATCGATA
1722348 CAAATCGTTG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAA
Found at i:1723963 original size:20 final size:19
Alignment explanation
Indices: 1723909--1723963 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
1723899 AAAACCCTTA
*
1723909 AAAGTATCGATACACAATTC
1 AAAGTATCGATACA-TATTC
1723929 AAAGTATCGATACATATTGC
1 AAAGTATCGATACATATT-C
*
1723949 AATGTATCGATACAT
1 AAAGTATCGATACAT
1723964 GAAAAAGATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATATTC
Found at i:1724053 original size:13 final size:13
Alignment explanation
Indices: 1724035--1724060 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1724025 ACACCAAAGT
1724035 ATGTATCGATACA
1 ATGTATCGATACA
1724048 ATGTATCGATACA
1 ATGTATCGATACA
1724061 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1724058 original size:33 final size:33
Alignment explanation
Indices: 1724016--1724080 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1724006 TAGCCAAACT
* *
1724016 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1724049 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1724081 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1730250 original size:13 final size:13
Alignment explanation
Indices: 1730232--1730270 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1730222 ACATTTTTCT
*
1730232 TTGTATCGATATA
1 TTGTATCGATACA
1730245 TTGTATCGATACA
1 TTGTATCGATACA
*
1730258 CTGTATCGATACA
1 TTGTATCGATACA
1730271 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1732673 original size:20 final size:21
Alignment explanation
Indices: 1732648--1732705 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 21
1732638 AAAACCCTTA
1732648 AAAGTATCGATACACAATT-C
1 AAAGTATCGATACACAATTGC
*
1732668 AAAGTATCGATACA-TATTGC
1 AAAGTATCGATACACAATTGC
* *
1732688 AATGTATCGATACGCAAT
1 AAAGTATCGATACACAAT
1732706 CCTAATTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.84
21 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (21 bp):
AAAGTATCGATACACAATTGC
Found at i:1733157 original size:21 final size:21
Alignment explanation
Indices: 1733124--1733168 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1733114 TTGCAAGATG
*
1733124 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1733146 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1733166 AAA
1 AAA
1733169 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1734990 original size:15 final size:15
Alignment explanation
Indices: 1734970--1735001 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1734960 ATAAAAGTGT
*
1734970 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
1734985 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
1735000 TC
1 TC
1735002 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1739666 original size:13 final size:13
Alignment explanation
Indices: 1739648--1739673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1739638 TACACCAAGT
1739648 ATGTATCGATACA
1 ATGTATCGATACA
1739661 ATGTATCGATACA
1 ATGTATCGATACA
1739674 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1739671 original size:32 final size:33
Alignment explanation
Indices: 1739630--1739693 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1739620 TAGCCAAACT
* **
1739630 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1739662 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1739694 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1745012 original size:21 final size:20
Alignment explanation
Indices: 1744969--1745017 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
1744959 AGAAAAATTA
*
1744969 TATCGATACATTAACTTATG
1 TATCGATACATTAACTAATG
1744989 TATCGATACATGCTAAC-AATG
1 TATCGATACAT--TAACTAATG
1745010 TATCGATA
1 TATCGATA
1745018 TATCACTCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 11 0.42
21 11 0.42
22 4 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATTAACTAATG
Found at i:1746039 original size:130 final size:130
Alignment explanation
Indices: 1745696--1746046 Score: 363
Period size: 130 Copynumber: 2.7 Consensus size: 130
1745686 CTTCCAGCGA
* * **
1745696 ATACTCCAACCCCATTTTTACTTCCAAAATATCAAATTTTTCATTTTTGGGATACT-TCAACCCC
1 ATACTCCAACCCCATTTTTACTTCTAAAATATTAAATTTTTCATTTTAAGGATACTCT-AACCCC
* ** * * *** *
1745760 ACCATCTCTAAAGGGATACTCCAATCCCATTTTACTTTTGAAACGTCGAATTTTTCATCTCTATG
65 ACTATCTCCGAAGGGATACTCTAACCCCATTTTACTTCCAAAACGTCGAATGTTTCATCTCTATG
1745825 G
130 G
* * * * * * *
1745826 ATACTCCAACCTCGTTTTTACTT-TCAAAACACTGAATTTTTCATCTTTGGAGG-TACTCCAACC
1 ATACTCCAACCCCATTTTTACTTCT-AAAATATTAAATTTTTCAT-TTT-AAGGATACTCTAACC
* * *
1745889 CCACTATCTCCGAAGGGATACTCTAACCCCGTTTTTACTTCCAAAACATTC-AATGTTTCATCTT
63 CCACTATCTCCGAAGGGATACTCTAACCCC-ATTTTACTTCCAAAAC-GTCGAATGTTTCATCTC
1745953 TA-GG
126 TATGG
* *
1745957 ATACTCCAACCCCATTTTTTGCTTCTACAATATTAAATTTTT-ATTTTAAGGATACTCTAACCCC
1 ATACTCCAACCCCA-TTTTTACTTCTAAAATATTAAATTTTTCATTTTAAGGATACTCTAACCCC
*
1746021 ACTATTTCCGAAGGGATACTCTAACC
65 ACTATCTCCGAAGGGATACTCTAACC
1746047 TTGGTTTTCA
Statistics
Matches: 180, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
129 3 0.02
130 75 0.42
131 52 0.29
132 47 0.26
133 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.36
Consensus pattern (130 bp):
ATACTCCAACCCCATTTTTACTTCTAAAATATTAAATTTTTCATTTTAAGGATACTCTAACCCCA
CTATCTCCGAAGGGATACTCTAACCCCATTTTACTTCCAAAACGTCGAATGTTTCATCTCTATGG
Found at i:1752465 original size:15 final size:15
Alignment explanation
Indices: 1752445--1752476 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1752435 ATAAAAGTGT
*
1752445 TCAAAATGAGGAAGC
1 TCAAAATGAAGAAGC
1752460 TCAAAATGAAGAAGC
1 TCAAAATGAAGAAGC
1752475 TC
1 TC
1752477 CAAACGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.16
Consensus pattern (15 bp):
TCAAAATGAAGAAGC
Found at i:1754564 original size:13 final size:13
Alignment explanation
Indices: 1754546--1754570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1754536 CATTTTTCTT
1754546 TGTATCGATACAA
1 TGTATCGATACAA
1754559 TGTATCGATACA
1 TGTATCGATACA
1754571 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1754725 original size:20 final size:20
Alignment explanation
Indices: 1754682--1754727 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1754672 AAATATTTTG
1754682 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1754703 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1754723 CAAAA
1 CAAAA
1754728 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1756223 original size:23 final size:21
Alignment explanation
Indices: 1756181--1756224 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
1756171 GTTTAAAGTT
**
1756181 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
1756202 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
1756225 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:1757146 original size:13 final size:13
Alignment explanation
Indices: 1757128--1757153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1757118 TACACAAAGT
1757128 ATGTATCGATACA
1 ATGTATCGATACA
1757141 ATGTATCGATACA
1 ATGTATCGATACA
1757154 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1757151 original size:32 final size:33
Alignment explanation
Indices: 1757110--1757171 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
1757100 TAGCCAAACT
**
1757110 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1757142 TGTATCGATACACAAAAAATTGTATCGATA
1 TGTATCGATACACAAAAAATTGTATCGATA
1757172 TATTCACACG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1758046 original size:20 final size:21
Alignment explanation
Indices: 1758002--1758040 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1757992 ATTTGGATCG
1758002 ATACAATAAGTCAATGTATAC
1 ATACAATAAGTCAATGTATAC
*
1758023 ATAC-ATAAGTGAATGTAT
1 ATACAATAAGTCAATGTAT
1758041 CAATACTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (21 bp):
ATACAATAAGTCAATGTATAC
Found at i:1763424 original size:19 final size:20
Alignment explanation
Indices: 1763381--1763427 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1763371 CTGCCAGTTT
1763381 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
1763401 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
1763420 CATGTATC
1 CATGTATC
1763428 ATAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:1771564 original size:62 final size:62
Alignment explanation
Indices: 1771494--1771624 Score: 217
Period size: 62 Copynumber: 2.1 Consensus size: 62
1771484 GATGCTCTCT
1771494 CCTTTCACCCTTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGATGGCA
1 CCTTTCACCCTTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGATGGCA
* * ** *
1771556 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTGCACAAGTTGGTGGCA
1 CCTTTCACCCTTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGATGGCA
1771618 CCTTTCA
1 CCTTTCA
1771625 GTCCTCAAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (62 bp):
CCTTTCACCCTTTAGTCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGATGGCA
Found at i:1771711 original size:56 final size:55
Alignment explanation
Indices: 1771566--1771755 Score: 247
Period size: 55 Copynumber: 3.4 Consensus size: 55
1771556 CCTTTCACCC
*
1771566 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCT-GCACAAGTTGGTGGCACCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTAG-ACAAGTTGGTGGCACTT
* * * *
1771621 TTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCTAGACAAGTTGGTGGCATTTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTAGACAAGTTGGTGGCA-CTT
* * * * *
1771677 TTTAGTCGTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTAGACAAGTTGGTGGCACTT
**
1771732 CCTAGTCCTCAAAGAGCAGGACGC
1 TTTAGTCCTCAAAGAGCAGGACGC
1771756 TCTCTCCTTT
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
55 69 0.60
56 46 0.40
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (55 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTAGACAAGTTGGTGGCACTT
Found at i:1771849 original size:94 final size:94
Alignment explanation
Indices: 1771677--1771849 Score: 267
Period size: 94 Copynumber: 1.8 Consensus size: 94
1771667 GTGGCATTTT
* *
1771677 TTTAGTCGTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
*
1771742 AAAGAGCAGGACGCTCTCTCCTTTCACCC
66 AAAGAGCACGACGCTCTCTCCTTTCACCC
* * *
1771771 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAATGCCCACACAAGTTGGTGGCACCTTTC-AGTCCT
1 TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCT
*
1771835 CAAAGAGTACGACGC
65 CAAAGAGCACGACGC
1771850 CTTTCAAAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
94 67 0.94
95 4 0.06
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (94 bp):
TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTC
AAAGAGCACGACGCTCTCTCCTTTCACCC
Found at i:1771852 original size:55 final size:54
Alignment explanation
Indices: 1771770--1771950 Score: 247
Period size: 55 Copynumber: 3.3 Consensus size: 54
1771760 TCCTTTCACC
*
1771770 CTTT-AGTCCTCAAAGAGCAGGACGCCTTTCAATGCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1771823 CCTTTCAGTCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1771878 TTTTTAGTCCTTAAAGAGCAGGATGCCTTTTAAACCCCACACAAGTTGGTGGCA
1 CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1771932 CTTCCCAGTCCTCAAAGAG
1 CTT-TCAGTCCTCAAAGAG
1771951 TAGGGCGCTC
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
54 52 0.47
55 58 0.53
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (54 bp):
CTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1772012 original size:203 final size:203
Alignment explanation
Indices: 1771556--1772172 Score: 808
Period size: 203 Copynumber: 3.0 Consensus size: 203
1771546 GTTGATGGCA
**
1771556 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCTGCACAAGTTGGTGGCACCT
1 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * *
1771621 TTCAGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCTAGACAAGTTGGTGGCATTTTTTTAGTCGT
66 TTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTTAGTCCT
* *
1771686 CAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAG
129 CAAAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAG
*
1771751 GACGCTCTCT
194 GACGCTCCCT
*
1771761 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAATGCCCACACAAGTTGGTGGCACCT
1 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
1771826 TTCAGTCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTTA
66 TTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTCA
* * * *
1771891 AAGAGCAGGATGCCTTTTAAACCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGG
131 AAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
1771956 CGCTCCCT
196 CGCTCCCT
* * * * *
1771964 CCTTTCGCCCTTTATTCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACA-AAGTTGGTGGCACTT
1 CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* *
1772028 TTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCACAA-CCCACACAAGTTGGTGGCATTTTC
66 TTC-AGTCCTCAAAGAGTAGGA---C---GCCTTTCA-AAGCCCACACAAGTTGGTGGCATTTT-
* * * *
1772092 CAATCCTCAAAGAGCAAGATGCTTTCTCTTTGCAAAGCACACACAAGTTGGCGGCACCTT-CCAG
122 TAGTCCTCAAAGAGCAAGATGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCA-CTTCCCAG
1772156 TCCTCAAAGAGCAGGAC
180 TCCTCAAAGAGCAGGAC
1772173 ACACTTTATT
Statistics
Matches: 362, Mismatches: 34, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
202 17 0.05
203 137 0.38
205 110 0.30
206 1 0.00
209 30 0.08
210 20 0.06
213 2 0.01
214 3 0.01
216 39 0.11
217 3 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (203 bp):
CCTTTCACCCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
TTCAGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTCA
AAGAGCAAGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
CGCTCCCT
Found at i:1772099 original size:61 final size:61
Alignment explanation
Indices: 1772003--1772171 Score: 211
Period size: 61 Copynumber: 2.8 Consensus size: 61
1771993 GACGCCTTTT
*
1772003 AAAGCCCACA-AAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTT-C
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG-CTTTCT-CTTTGC
* *
1772064 ACAA-CCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAAGATGCTTTCTCTTTGC
1 A-AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGC
* * **
1772125 AAAGCACACACAAGTTGGCGGCACCTTCCAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
1772172 CACACTTTAT
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
60 10 0.11
61 70 0.74
62 14 0.15
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTGC
Found at i:1772117 original size:148 final size:143
Alignment explanation
Indices: 1771831--1772107 Score: 333
Period size: 155 Copynumber: 1.9 Consensus size: 143
1771821 CACCTTTCAG
*
1771831 TCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTTAAAGAG
1 TCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTCAAAGAG
* * *
1771896 CAGGATGCCTTTTAAACCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGTAGGGCGCTC
66 CAGGATGCCTTTTAAACCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCA--GAG---
*
1771961 CCTCCTTTCGCCCTTTAT
126 CATCCTTTCGCCCTTTAT
* *
1771979 TCCTCAAAGAGTAGGACGCCTTTTAAAGCCCACA-AAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 TCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT-TAGTCCTCAAAG
* *
1772043 AGCAGGATGCCTTTTCCTTTCACAA-CCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGC
64 AGCAGGATGCC---T--TTT-A-AACCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGC
1772107 A
122 A
1772108 AGATGCTTTC
Statistics
Matches: 113, Mismatches: 7, Indels: 11
0.86 0.05 0.08
Matches are distributed among these distances:
147 12 0.11
148 36 0.32
149 22 0.19
152 1 0.01
154 3 0.03
155 37 0.33
156 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (143 bp):
TCCTCAAAGAGTACGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTAGTCCTCAAAGAG
CAGGATGCCTTTTAAACCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGAGCATCC
TTTCGCCCTTTAT
Found at i:1772208 original size:42 final size:43
Alignment explanation
Indices: 1772157--1772326 Score: 166
Period size: 42 Copynumber: 4.0 Consensus size: 43
1772147 ACCTTCCAGT
1772157 CCTCAAAGAGCAGGACACACTTTATTTTCC-TCTTTCCTTTGA
1 CCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTTGA
* * * * *
1772199 CCTTAAAGAGTAGGACACACTTCA-TTCCCTTCTTTTCTCTTTTA
1 CCTCAAAGAGCAGGACACACTTTATTTTCCTTC-TTTC-CTTTGA
* * *
1772243 TCCTCAAAGAGCAGGACACACTTTATTTTTC-TCTTTCTTTTGT
1 -CCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTTGA
* * * * * *
1772286 CCTCAAAGAACAAGACGCATTTTTTTTTCCTTTTTTCCTTT
1 CCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTT
1772327 ATCCTCGAAA
Statistics
Matches: 101, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
41 4 0.04
42 47 0.47
43 15 0.15
44 9 0.09
45 23 0.23
46 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (43 bp):
CCTCAAAGAGCAGGACACACTTTATTTTCCTTCTTTCCTTTGA
Found at i:1772322 original size:87 final size:85
Alignment explanation
Indices: 1772156--1772332 Score: 212
Period size: 87 Copynumber: 2.1 Consensus size: 85
1772146 CACCTTCCAG
* ** *
1772156 TCCTCAAAGAGCAGGACACACTTTATTTTCCTCTTTCCTTTGACCTTAAAGAGTAGGACACACTT
1 TCCTCAAAGAGCAGGACACACTTTATTTTCCTCTTTCCTTTGACCTCAAAGAACAAGACACACTT
1772221 CATTCCCTTCTTTTCTCTTTTA
66 CATTCCCTTCTTTTC-C-TTTA
* * * * *
1772243 TCCTCAAAGAGCAGGACACACTTTATTTTTCTCTTTCTTTTGTCCTCAAAGAACAAGACGCATTT
1 TCCTCAAAGAGCAGGACACACTTTATTTTCCTCTTTCCTTTGACCTCAAAGAACAAGACACA-CT
** *
1772308 TTTTTTCCTT-TTTTCCTTTA
65 TCATTCCCTTCTTTTCCTTTA
1772328 TCCTC
1 TCCTC
1772333 GAAAAGGAGG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
85 9 0.12
86 1 0.01
87 59 0.77
88 8 0.10
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.42
Consensus pattern (85 bp):
TCCTCAAAGAGCAGGACACACTTTATTTTCCTCTTTCCTTTGACCTCAAAGAACAAGACACACTT
CATTCCCTTCTTTTCCTTTA
Found at i:1772437 original size:43 final size:43
Alignment explanation
Indices: 1772351--1772438 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 43
1772341 GGACGTACTC
* * *
1772351 TTTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTT
1 TTTTTCACTTTGTCCTCAAGAAGCAAGACACTTTCATTCTCTT
*
1772394 TTTTTC-CTTTGTCCTCAAGGAGCAAGAC-CTATTTCATTCTCTT
1 TTTTTCACTTTGTCCTCAAGAAGCAAGACAC--TTTCATTCTCTT
1772437 TT
1 TT
1772439 CTTTTGTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 20 0.51
43 18 0.46
ACGTcount: A:0.18, C:0.25, G:0.11, T:0.45
Consensus pattern (43 bp):
TTTTTCACTTTGTCCTCAAGAAGCAAGACACTTTCATTCTCTT
Found at i:1773081 original size:20 final size:20
Alignment explanation
Indices: 1773056--1773129 Score: 123
Period size: 20 Copynumber: 3.7 Consensus size: 20
1773046 TCAAAATTTA
1773056 TATCGATACATTGTTCATTG
1 TATCGATACATTGTTCATTG
1773076 TATCGATACATT-TTGCATTG
1 TATCGATACATTGTT-CATTG
*
1773096 TATCGATACATTGCTCATTG
1 TATCGATACATTGTTCATTG
1773116 TATCGATACATTGT
1 TATCGATACATTGT
1773130 ATCGATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.04
20 47 0.94
21 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (20 bp):
TATCGATACATTGTTCATTG
Found at i:1773127 original size:13 final size:13
Alignment explanation
Indices: 1773111--1773136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1773101 ATACATTGCT
1773111 CATTGTATCGATA
1 CATTGTATCGATA
1773124 CATTGTATCGATA
1 CATTGTATCGATA
1773137 TATATCTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1773128 original size:33 final size:33
Alignment explanation
Indices: 1773091--1773160 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
1773081 ATACATTTTG
1773091 CATTGTATCGATACAT-TGCTCATTGTATCGATA
1 CATTGTATCGATACATAT-CTCATTGTATCGATA
*
1773124 CATTGTATCGATATATATCTCATTGTATCGATA
1 CATTGTATCGATACATATCTCATTGTATCGATA
1773157 CATT
1 CATT
1773161 TTACAACGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 34 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (33 bp):
CATTGTATCGATACATATCTCATTGTATCGATA
Found at i:1773172 original size:53 final size:53
Alignment explanation
Indices: 1773071--1773180 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 53
1773061 ATACATTGTT
* **
1773071 CATTGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTCTGCATTGTATCGATACATTGCTCAACGTATCGATA
* *
1773124 CATTGTATCGATATATATCT-CATTGTATCGATACATT-TTACAACGTATCGATA
1 CATTGTATCGATACAT-TCTGCATTGTATCGATACATTGCT-CAACGTATCGATA
1773177 CATT
1 CATT
1773181 CAAGCATTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 1 0.02
53 47 0.94
54 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (53 bp):
CATTGTATCGATACATTCTGCATTGTATCGATACATTGCTCAACGTATCGATA
Found at i:1775556 original size:51 final size:51
Alignment explanation
Indices: 1775501--1775640 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 51
1775491 TCCCGGTTCC
**
1775501 ATTTCCAAAACATCAATTTTTCTTAATCGGGGATACTCCAACT-TCGATTTT
1 ATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCT-GATTTT
* * * * ** * *
1775552 ATTTCTAAAGCATCGACTTACCGCAATCAGGGATACTCCAACTCTGATTTT
1 ATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
*** *
1775603 ATTTCCAAAATGCCAATTTTTCACAATTGGGGATACTC
1 ATTTCCAAAACATCAATTTTTCACAATCGGGGATACTC
1775641 AAACCCCGTT
Statistics
Matches: 67, Mismatches: 21, Indels: 2
0.74 0.23 0.02
Matches are distributed among these distances:
51 66 0.99
52 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (51 bp):
ATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAACTCTGATTTT
Found at i:1775664 original size:28 final size:28
Alignment explanation
Indices: 1775631--1775704 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
1775621 TTTCACAATT
* *
1775631 GGGGATACTCAAACCCCGTTATTTCAT-C
1 GGGGATACTCCAACCCCGTTATTTC-TGA
**
1775659 GGGGATACTCCAACCCAATTATTTCTGA
1 GGGGATACTCCAACCCCGTTATTTCTGA
1775687 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1775705 ACTTTATATC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTGA
Found at i:1775720 original size:107 final size:107
Alignment explanation
Indices: 1775581--1775854 Score: 381
Period size: 107 Copynumber: 2.6 Consensus size: 107
1775571 ACCGCAATCA
* * *
1775581 GGGATACTCCAACTCTGATTTTATTTCCAAAATGCCAATTTTTCACAATTGGGGATACTCAAACC
1 GGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTCAAACC
* *
1775646 CCGTTATTTCATCGGGGATACTCCAA-CCCAATTAT-TTCTGAG
66 ACGTTATGTCATCGGGGATACTCCAATCCC-ATTATGTT-TGAG
* * * ** * * * *
1775688 GGGATACTCCAACCCCGACTTTATATCTAAAATATTAATTTTTCATAATCGGGGCTACTCCAACC
1 GGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTCAAACC
*
1775753 ACGTTATGTCATCGGGGATACTCCAATCCCGTTATGTTTGAG
66 ACGTTATGTCATCGGGGATACTCCAATCCCATTATGTTTGAG
1775795 GGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTC
1 GGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTC
1775855 GAACTTCGAT
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
107 137 0.96
108 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (107 bp):
GGGATACTCCAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATTGGGGATACTCAAACC
ACGTTATGTCATCGGGGATACTCCAATCCCATTATGTTTGAG
Found at i:1775775 original size:28 final size:26
Alignment explanation
Indices: 1775735--1775809 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 26
1775725 ATTTTTCATA
*
1775735 ATCGGGGCTACTCCAACCACGTTATGT
1 ATCGGGGATACTCCAACC-CGTTATGT
1775762 CATCGGGGATACTCCAATCCCGTTATGT
1 -ATCGGGGATACTCCAA-CCCGTTATGT
* *
1775790 TTGAGGGGATACTCCAACCC
1 AT-CGGGGATACTCCAACCC
1775810 TGATTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.10
28 36 0.86
29 2 0.05
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (26 bp):
ATCGGGGATACTCCAACCCGTTATGT
Found at i:1775854 original size:51 final size:51
Alignment explanation
Indices: 1775794--1775913 Score: 129
Period size: 51 Copynumber: 2.4 Consensus size: 51
1775784 TTATGTTTGA
* * *
1775794 GGGGATACTCCAACCCTGATTTTA-TTTCTAAAATACCAATTTT-TCACAATT
1 GGGGATACTCCAACCCTGATTTTATTTTC-AAAACACCAGTTTTCT-ACAATC
* * *
1775845 GGGGATACTCGAA-CTTCGATTTTATTTTCAAAACACCAGTTTTCTATAATC
1 GGGGATACTCCAACCCT-GATTTTATTTTCAAAACACCAGTTTTCTACAATC
*
1775896 AGGGATACTCCAACCCTG
1 GGGGATACTCCAACCCTG
1775914 TTATTTTCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
50 2 0.04
51 47 0.84
52 7 0.12
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAGTTTTCTACAATC
Found at i:1776076 original size:79 final size:79
Alignment explanation
Indices: 1775845--1776062 Score: 314
Period size: 79 Copynumber: 2.8 Consensus size: 79
1775835 TTTCACAATT
* * *
1775845 GGGGATACTCGAACTTCGATTTTATTTTCAAAACACCAGTTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
1775910 CCTGTTATTTTCGA
66 CCTGTTATTTTCGA
* * * *
1775924 GGGGATACTCTAACCCCGATTTTATTTTCAAAATACCGATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
1775989 CCTGTTATTTTCGA
66 CCTGTTATTTTCGA
* * *
1776003 GGGGATACTCCAACCTC-ATTTTTACTTCCAAAACACCAATTTTAC-ATAATCGGGGATACT
1 GGGGATACTCCAACCTCGA-TTTTATTTTCAAAACACCAATTTT-CTATAATCAGGGATACT
1776063 TCGGCCCCAT
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
78 1 0.01
79 122 0.98
80 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTTTCTATAATCAGGGATACTCCAAC
CCTGTTATTTTCGA
Found at i:1778740 original size:13 final size:13
Alignment explanation
Indices: 1778722--1778748 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1778712 ATAGTAACCC
1778722 ATGTATCGATACA
1 ATGTATCGATACA
1778735 ATGTATCGATACA
1 ATGTATCGATACA
1778748 A
1 A
1778749 AGAACATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1783283 original size:22 final size:21
Alignment explanation
Indices: 1783253--1783304 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
1783243 ATGAGAAATA
*
1783253 TATCAATACAATTGTAAGCA-TG
1 TATCGATACAATT-TAA-CACTG
*
1783275 TATCGATAC-ATTTAATACTG
1 TATCGATACAATTTAACACTG
1783295 TATCGATACA
1 TATCGATACA
1783305 TTTCCTTGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 14 0.54
21 3 0.12
22 8 0.31
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (21 bp):
TATCGATACAATTTAACACTG
Found at i:1783404 original size:21 final size:20
Alignment explanation
Indices: 1783360--1783404 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
1783350 GCATGGATCG
*
1783360 ATACATTCACTTATGTATCG
1 ATACATTCACTTATGTATCA
* *
1783380 ATACATTTACTATTTGTATCA
1 ATACATTCACT-TATGTATCA
1783401 ATAC
1 ATAC
1783405 TAATTGTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (20 bp):
ATACATTCACTTATGTATCA
Found at i:1784539 original size:158 final size:159
Alignment explanation
Indices: 1784252--1784541 Score: 372
Period size: 157 Copynumber: 1.8 Consensus size: 159
1784242 ATAAATATGG
* * * * * *
1784252 ATTCTCACAATAATCTCCCTTTTTTTTCATGATTGAGCGCCATAAACACCTTTTCCTCATTAGGA
1 ATTCTCACAATAATCTCCCATTCTTTTCATGATTGAGCACCATAAACACCTTCTCCTAATTAAGA
* * ** *
1784317 TACATGATATTGATGCTTTGATTTCATAAGAAAAGCTTTTCTTTCTTCCATTTCCTTATAATCAA
66 AACATGATATTGATGCTTTGATTTCATAAGAAAAGATTTTCTTTCCACCATTTCCTTAAAATCAA
1784382 AGCTCATTCATCAAATGAGATAAACACAA
131 AGCTCATTCATCAAATGAGATAAACACAA
* *
1784411 ATTCTCATAATAATCT-CCATTCTTTTCATGATTGGGCACCAT-AAC-CCATTCTCCTAATTAAG
1 ATTCTCACAATAATCTCCCATTCTTTTCATGATTGAGCACCATAAACACC-TTCTCCTAATTAAG
* * * *
1784473 AAATATGATATTGATGCTTTGGTTTTATAGGAAAAGA-TTTCTTTTCCACCATTTTCCTTAAAAT
65 AAACATGATATTGATGCTTTGATTTCATAAGAAAAGATTTTC-TTTCCACCA-TTTCCTTAAAAT
1784537 CAAAG
128 CAAAG
1784542 TTTGTTCGTC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
156 6 0.05
157 52 0.47
158 38 0.34
159 15 0.14
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.38
Consensus pattern (159 bp):
ATTCTCACAATAATCTCCCATTCTTTTCATGATTGAGCACCATAAACACCTTCTCCTAATTAAGA
AACATGATATTGATGCTTTGATTTCATAAGAAAAGATTTTCTTTCCACCATTTCCTTAAAATCAA
AGCTCATTCATCAAATGAGATAAACACAA
Found at i:1784672 original size:158 final size:156
Alignment explanation
Indices: 1784273--1784676 Score: 390
Period size: 158 Copynumber: 2.6 Consensus size: 156
1784263 AATCTCCCTT
* * *
1784273 TTTTTTCATGATT-GAGCGCCATAAACACCTTTTCCTCATTAGGATACATGATATTGATGCTTTG
1 TTTTTTCATGATTGGA-CACCATAAACACATTTTCCTAATTAGGATACATGATATTGATGCTTTG
** *
1784337 ATTTCATAAGAAAAGCTTTTC-TTTCTTCCATTTCCTTATAATCAAAGCTCATTCATCAAATGAG
65 ATTTC--AAGAAAAGCTTTTCTTTTCCACCATTTCCTTAAAATCAAAGCTCATTCATCAAATGAG
* *
1784401 ATAAACACAAATTCTCATAATAATCTCCA
128 AAAAACACAAATTCTCATAATAAACTCCA
* * * * * *
1784430 TTCTTTTCATGATTGGGCACCAT-AACCCATTCTCCTAATTAAGAAATATGATATTGATGCTTTG
1 TT-TTTTCATGATTGGACACCATAAACACATTTTCCTAATTAGGATACATGATATTGATGCTTTG
* * * * ** *
1784494 GTTTTATAGGAAAAG-ATTTCTTTTCCACCATTTTCCTTAAAATCAAAGTTTGTTCGTC-AATCG
65 ATTTCA-A-GAAAAGCTTTTCTTTTCCACCA-TTTCCTTAAAATCAAAGCTCATTCATCAAAT-G
*** * *
1784557 AGAAAAACATGGATTTTCATAATAAACTCTA
126 AGAAAAACACAAATTCTCATAATAAACTCCA
* * * *
1784588 CTTTTTTCACGATTGGACACCATAAACACATTTTCAT-ATTAGGATACATGATGTTGATGCTTTA
1 -TTTTTTCATGATTGGACACCATAAACACATTTTCCTAATTAGGATACATGATATTGATGCTTTG
1784652 ATTGTGCAAG-AAAGCTTTTCTTTTC
65 ATT-T-CAAGAAAAGCTTTTCTTTTC
1784677 ACGCTTTTTT
Statistics
Matches: 196, Mismatches: 39, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
155 1 0.01
156 5 0.03
157 59 0.30
158 115 0.59
159 15 0.08
160 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.38
Consensus pattern (156 bp):
TTTTTTCATGATTGGACACCATAAACACATTTTCCTAATTAGGATACATGATATTGATGCTTTGA
TTTCAAGAAAAGCTTTTCTTTTCCACCATTTCCTTAAAATCAAAGCTCATTCATCAAATGAGAAA
AACACAAATTCTCATAATAAACTCCA
Found at i:1785362 original size:14 final size:15
Alignment explanation
Indices: 1785327--1785364 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1785317 AAAAAAAGAT
*
1785327 AAAGTCAACTATAGC
1 AAAGTCAACTATAGA
*
1785342 TAAGTCAACTATA-A
1 AAAGTCAACTATAGA
1785356 AAAGTCAAC
1 AAAGTCAAC
1785365 CTTTTAGCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.50, C:0.18, G:0.11, T:0.21
Consensus pattern (15 bp):
AAAGTCAACTATAGA
Found at i:1789487 original size:20 final size:20
Alignment explanation
Indices: 1789462--1789515 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1789452 GTTAGGCACA
** * *
1789462 ATGTATCGATACGTTTTACT
1 ATGTATCGATACAATGTACC
1789482 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
1789502 ATGTATCGATACAA
1 ATGTATCGATACAA
1789516 ATAGTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:1790258 original size:22 final size:19
Alignment explanation
Indices: 1790232--1790275 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
1790222 TTTATAACTT
1790232 CCCCTTAATTAAAATTTTTCTC
1 CCCCTTAA-T-AAATTTTT-TC
1790254 CCCCTTAATAAATTTTTTC
1 CCCCTTAATAAATTTTTTC
1790273 CCC
1 CCC
1790276 ATTTTGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 1 0.05
22 8 0.36
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
CCCCTTAATAAATTTTTTC
Found at i:1797705 original size:20 final size:20
Alignment explanation
Indices: 1797680--1797732 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1797670 GTTAGGCATA
* *
1797680 ATGTATCGATATAAT-TCGTC
1 ATGTATCGATACAATGTC-CC
1797700 ATGTATCGATACAATGTCCC
1 ATGTATCGATACAATGTCCC
1797720 ATGTATCGATACA
1 ATGTATCGATACA
1797733 TTTAACTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATGTCCC
Found at i:1797807 original size:19 final size:20
Alignment explanation
Indices: 1797760--1797812 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1797750 CTGCCAGTTT
* *
1797760 CATGTATCGATATAATTGGG
1 CATGTATCGATACAATTGAG
*
1797780 CAAGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
1797799 CATGTATCGATACA
1 CATGTATCGATACA
1797813 CAGCATAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:1799455 original size:20 final size:21
Alignment explanation
Indices: 1799430--1799469 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1799420 TTTGAGTTAT
1799430 TTTAAT-TTGAAAACATATGA
1 TTTAATCTTGAAAACATATGA
1799450 TTTAATGCTTGAAAACATAT
1 TTTAAT-CTTGAAAACATAT
1799470 ATACTTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTAATCTTGAAAACATATGA
Found at i:1802857 original size:20 final size:20
Alignment explanation
Indices: 1802810--1802857 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1802800 TGTTAAGAAT
* *
1802810 ATTTATTCATTTTTAATTTA
1 ATTTATTTAATTTTAATTTA
*
1802830 ATTTATTTAATTTTACTTTA
1 ATTTATTTAATTTTAATTTA
*
1802850 GTTTATTT
1 ATTTATTT
1802858 TTGAAAGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTATTTAATTTTAATTTA
Found at i:1803767 original size:16 final size:16
Alignment explanation
Indices: 1803746--1803781 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
1803736 TCACCACATA
1803746 GGCAAACAAGCTTGAT
1 GGCAAACAAGCTTGAT
1803762 GGCAAACAAGCTTGAT
1 GGCAAACAAGCTTGAT
1803778 GGCA
1 GGCA
1803782 CATCAAATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (16 bp):
GGCAAACAAGCTTGAT
Found at i:1803927 original size:22 final size:22
Alignment explanation
Indices: 1803902--1803953 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
1803892 TGTATTCTAA
*
1803902 TTTTCTCTCTATTTTCTTCT-TT
1 TTTTCTCTCT-TTTCCTTCTCTT
*
1803924 TTTTCTTTCTTTTCCTTCTCTT
1 TTTTCTCTCTTTTCCTTCTCTT
1803946 TTTTCTCT
1 TTTTCTCT
1803954 TTTCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCTCTCTTTTCCTTCTCTT
Found at i:1804619 original size:164 final size:154
Alignment explanation
Indices: 1804427--1804833 Score: 537
Period size: 164 Copynumber: 2.6 Consensus size: 154
1804417 TAAAGTGAGT
* * * *
1804427 TTAATAACAAAATTAGATGAATTTTAAAAATTAAAAACTAAGAAAAATTCCCCAAAAAGCATTTA
1 TTAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCAAAAA-CATTTA
*
1804492 TGAAGTAAAAAATCTT-GTATTTCGAAAATAGAAGAATTTCAAGAAAAAATGAAAAATGAATGAA
65 TGAAGTAGAAAA-CTTCGTATTTCGAAAATAGAAGAATTTCAAG----AA--AAAAATG-A--AA
*
1804556 AATGAATGAATTTTTGAAAACTAACTTAATATGAA
120 AATGAATGAATTTTTGAAAAATAACTTAATATGAA
*
1804591 TTAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAAACATTTA
1 TTAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAAT-CCCCCAAAAACATTTA
* * * *
1804656 CGAAGTAGAAAACTTCGCATTTCGAAAATAGGAGAATTTCAAGGAAAAAATGAAAAATGAATGAA
65 TGAAGTAGAAAACTTCGTATTTCGAAAATAGAAGAATTTCAAGAAAAAAATGAAAAATGAATGAA
* *
1804721 TTTTTGAAAAATGATTTAATATGAA
130 TTTTTGAAAAATAACTTAATATGAA
* * *
1804746 TTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTGAGAAAAATCCTCCCGAAAATATTT
1 TT-AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCC-CCCAAAAACATTT
1804811 ATGAAGTAGAAAACTTCGTATTT
64 ATGAAGTAGAAAACTTCGTATTT
1804834 TATATAATAG
Statistics
Matches: 220, Mismatches: 19, Indels: 16
0.86 0.07 0.06
Matches are distributed among these distances:
155 38 0.17
156 76 0.35
157 1 0.00
158 7 0.03
160 1 0.00
163 3 0.01
164 85 0.39
165 9 0.04
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (154 bp):
TTAATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCCCAAAAACATTTAT
GAAGTAGAAAACTTCGTATTTCGAAAATAGAAGAATTTCAAGAAAAAAATGAAAAATGAATGAAT
TTTTGAAAAATAACTTAATATGAA
Found at i:1805416 original size:15 final size:15
Alignment explanation
Indices: 1805396--1805424 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1805386 TTTTTAGCAT
1805396 TTATTAAGAAAATTC
1 TTATTAAGAAAATTC
1805411 TTATTAAGAAAATT
1 TTATTAAGAAAATT
1805425 TTTCTTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.41
Consensus pattern (15 bp):
TTATTAAGAAAATTC
Found at i:1806128 original size:83 final size:83
Alignment explanation
Indices: 1805866--1806134 Score: 258
Period size: 83 Copynumber: 3.2 Consensus size: 83
1805856 GTAAGCCGAC
* * * * * *
1805866 AAGTAAACAAGGGATGAAAGGTTAGCCAGGGCTTAACCGATAAGTCAACATAA-GGTAAGGGAGT
1 AAGTAAA-TAGGGATGAAAAGTTAACCAGGGCTAAACTGATAAGTCAACA-AAGGGTAAAGGAGT
*
1805930 TTACCAAGGACTGAGTCGAC
64 TTACCAAGGACTGAGTCGAT
* * * * * *
1805950 AAGTAAACAGAGATGAAAAGTTGACCATGGTTAAA-TCGATAAGTCAACAAAGGATAAAGGAGTT
1 AAGTAAATAGGGATGAAAAGTTAACCAGGGCTAAACT-GATAAGTCAACAAAGGGTAAAGGAGTT
* *
1806014 AACC-AGGGCTGAGTCGAT
65 TACCAAGGACTGAGTCGAT
* ** *
1806032 ACGTATGTAAGGGAT-AAATAGTTAACTAGGGCTAAACTGATAAGTCAACAAAGGGTAAAGGAGT
1 AAGTAAAT-AGGGATGAAA-AGTTAACCAGGGCTAAACTGATAAGTCAACAAAGGGTAAAGGAGT
*
1806096 TTACCAAGGACCGAGTCGAT
64 TTACCAAGGACTGAGTCGAT
* *
1806116 AGGCAAATAGGGAATGAAA
1 AAGTAAATAGGG-ATGAAA
1806135 GGTATAAGAT
Statistics
Matches: 146, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
82 21 0.14
83 96 0.66
84 26 0.18
85 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (83 bp):
AAGTAAATAGGGATGAAAAGTTAACCAGGGCTAAACTGATAAGTCAACAAAGGGTAAAGGAGTTT
ACCAAGGACTGAGTCGAT
Found at i:1806409 original size:44 final size:43
Alignment explanation
Indices: 1806361--1806456 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
1806351 GGTAATTATG
* * * *
1806361 CGTCAAATGGGAATGAAAAGAG-CTTGACCAAGGTGGTAACCACA
1 CGTCAAATAGGAATAAAAAAAGTC-TAACCAAGGTGGT-ACCACA
* * *
1806405 CGTCAAGTAGGAATAAAAAAAGTCTAACCAAGGTGGTATCATA
1 CGTCAAATAGGAATAAAAAAAGTCTAACCAAGGTGGTACCACA
1806448 CGTCAAATA
1 CGTCAAATA
1806457 AACTTCAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
43 12 0.28
44 30 0.70
45 1 0.02
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.19
Consensus pattern (43 bp):
CGTCAAATAGGAATAAAAAAAGTCTAACCAAGGTGGTACCACA
Found at i:1806697 original size:132 final size:132
Alignment explanation
Indices: 1806561--1806914 Score: 405
Period size: 132 Copynumber: 2.7 Consensus size: 132
1806551 AAAGAATCTA
* * * **
1806561 ACCAGGGTGGTAACTATATGTCAAATTAGAGTGAAAAGAATCTGACCAAGGTGATAACCATATAT
1 ACCAGGGTGGTAACCATATGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATACGT
* * *
1806626 CAGACTAAAATGAGAAA-AGTTTGACGA-GGATGGTAACCATACATCAAACAAGAAA-GAGACAG
66 CAGACCAAAATGA-AAAGAGTTTGACCATGG-TGGTAACCATACATCAAACAAGAAAGGAG-CAA
1806688 ATTTG
128 ATTTG
* * * *
1806693 ACCAGGGTGGTAACCATGCAT-T-AAATCAAAATGAAAAGAATCTGACTAGGGTGCTAACCATAC
1 ACCAGGGTGGTAACCAT--ATGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATAC
* * ** * * *
1806756 GTTAGACCAAAATGAAAAGAGTTTGACCATGGTGGTAACCCTATGTTAAATAGGAAAGGAGCAAA
64 GTCAGACCAAAATGAAAAGAGTTTGACCATGGTGGTAACCATACATCAAACAAGAAAGGAGCAAA
1806821 TTTG
129 TTTG
* * *
1806825 ACTAAGGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGT-AGTAACCATACG
1 ACCAGGGTGGTAACCATATGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGA-TAACCATACG
*
1806889 TCAAACCAAAATGAAAAGAGTTTGAC
65 TCAGACCAAAATGAAAAGAGTTTGAC
1806915 TAGGGTGTTA
Statistics
Matches: 186, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
130 1 0.01
131 4 0.02
132 173 0.93
133 6 0.03
134 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (132 bp):
ACCAGGGTGGTAACCATATGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATACGT
CAGACCAAAATGAAAAGAGTTTGACCATGGTGGTAACCATACATCAAACAAGAAAGGAGCAAATT
TG
Found at i:1806744 original size:44 final size:44
Alignment explanation
Indices: 1806513--1806921 Score: 236
Period size: 44 Copynumber: 9.3 Consensus size: 44
1806503 AAGGAGGTAG
* * * * * * *
1806513 TTTGACTAGGGTGCTAATCATACGTCAAATTAGAATAAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
* * * * * * * *
1806557 TCTAACCAGGGTGGTAACTATATGTCAAATTAGAGTGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
* * * ** * * *
1806601 TCTGACCAAGGTGATAACCATATATCAGA-CTAAAATGAGAAA-AG
1 TTTGACCAGGGTGGTAACCATACGTTAAATC-AAAATGA-AAAGAA
* * * * * *
1806645 TTTGACGAGGATGGTAACCATACATCAAA-CAAGAAAGAGACAG-A
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAA-AATGA-AAAGAA
* *
1806689 TTTGACCAGGGTGGTAACCATGCATTAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
* * * * * *
1806733 TCTGACTAGGGTGCTAACCATACGTTAGACCAAAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
* * * * **
1806777 TTTGACCATGGTGGTAACCCTATGTTAAAT-AGGAAAGGAGCA-AA
1 TTTGACCAGGGTGGTAACCATACGTTAAATCA--AAATGAAAAGAA
* * * * *
1806821 TTTGACTAAGGTGGTAACCATACGTCAAATTAGAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
* * * * *
1806865 TCTGACCAGGGTAGTAACCATACGTCAAACCAAAATGAAAAGAG
1 TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
*
1806909 TTTGACTAGGGTG
1 TTTGACCAGGGTG
1806922 TTACCAATAC
Statistics
Matches: 280, Mismatches: 75, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
43 11 0.04
44 256 0.91
45 13 0.05
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (44 bp):
TTTGACCAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAA
Found at i:1806957 original size:132 final size:132
Alignment explanation
Indices: 1806566--1806960 Score: 390
Period size: 132 Copynumber: 3.0 Consensus size: 132
1806556 ATCTAACCAG
* * * * **
1806566 GGTGGTAACTATATGTCAAATTAGAGTGAAAAGAATCTGACCAAGGTGATAACCATATATCAGAC
1 GGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATACGTCAGAC
* * * * * * *
1806631 TAAAATGAGAAA-AGTTTGACGAGGATGGTAACCATACA-TCAAACAAGAAAGAGACAGATTTGA
66 CAAAATGA-AAAGAGTTTGACCAGGGTGGTAACCATACAGTCAAATAAGGAAGAAAAAG-TTTGA
* *
1806694 CCAG
129 CTAA
* * * * * * * *
1806698 GGTGGTAACCATGCATTAAATCAAAATGAAAAGAATCTGACTAGGGTGCTAACCATACGTTAGAC
1 GGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATACGTCAGAC
* * * * *
1806763 CAAAATGAAAAGAGTTTGACCATGGTGGTAACCCTA-TGTTAAAT-AGGAAAGGAGCAAA-TTTG
66 CAAAATGAAAAGAGTTTGACCAGGGTGGTAACCATACAGTCAAATAAGG-AA-GA-AAAAGTTTG
1806825 ACTAA
128 ACTAA
*
1806830 GGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGT-AGTAACCATACGTCAAA
1 GGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGA-TAACCATACGTCAGA
* * *
1806894 CCAAAATGAAAAGAGTTTGACTAGGGT-GTTACCAATACAGTCAAATAAGGTAGAAAAAGTTTGA
65 CCAAAATGAAAAGAGTTTGACCAGGGTGGTAACC-ATACAGTCAAATAAGGAAGAAAAAGTTTGA
1806958 CTA
129 CTA
1806961 GATACAGTTA
Statistics
Matches: 209, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
131 13 0.06
132 182 0.87
133 9 0.04
134 5 0.02
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (132 bp):
GGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTGACCAGGGTGATAACCATACGTCAGAC
CAAAATGAAAAGAGTTTGACCAGGGTGGTAACCATACAGTCAAATAAGGAAGAAAAAGTTTGACT
AA
Found at i:1806992 original size:35 final size:35
Alignment explanation
Indices: 1806946--1807049 Score: 127
Period size: 35 Copynumber: 3.0 Consensus size: 35
1806936 AAATAAGGTA
* *
1806946 GAAAAAGTTTGACTAGATACAGTTAAACGATGATG
1 GAAAAAGTTTGACCAGATACAGCTAAACGATGATG
* * *
1806981 GAAAGAGTTTGACCAGATACAGCCAAACGATAATG
1 GAAAAAGTTTGACCAGATACAGCTAAACGATGATG
* * * *
1807016 GGAATAGTTTGTCCAGATATAGCTAAACGATGAT
1 GAAAAAGTTTGACCAGATACAGCTAAACGATGAT
1807050 AGGGTGGTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.24
Consensus pattern (35 bp):
GAAAAAGTTTGACCAGATACAGCTAAACGATGATG
Found at i:1807152 original size:35 final size:35
Alignment explanation
Indices: 1807106--1807380 Score: 221
Period size: 35 Copynumber: 7.9 Consensus size: 35
1807096 GGTGGTAACC
* * * * *
1807106 AATACAGTCAAATAAGGGTGGAAAGAGTTCGACCA
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
*
1807141 AATACAATCAAACGATGATGGAAAGAGTTTGACCA
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
* *
1807176 GATATAATCAAATGATGATGGAAAGAGTTTGACCA
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
* * * * * *
1807211 GATATAGTCAAATGATAATGAAAAGAGTATGACCA
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
* ** * * *
1807246 GATACAA-CGAAACAATGATGAAAAAAGTTTGACTA
1 AATACAATC-AAATGATGATGGAAAGAGTTTGACCA
* *
1807281 GATACAGTCAAATGATGATGGAAAGAGTTTGACCA
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
* ** * * *
1807316 AGTACAGCCAAAAGATGATGAAAAAAGTTTGACC-
1 AATACAATCAAATGATGATGGAAAGAGTTTGACCA
** * * **
1807350 GTTACGACCAAACAATGATGGAAAGAGTTTG
1 AATACAATCAAATGATGATGGAAAGAGTTTG
1807381 GCCAGGTCCT
Statistics
Matches: 197, Mismatches: 41, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
34 24 0.12
35 172 0.87
36 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (35 bp):
AATACAATCAAATGATGATGGAAAGAGTTTGACCA
Found at i:1807214 original size:180 final size:178
Alignment explanation
Indices: 1806872--1807217 Score: 476
Period size: 180 Copynumber: 1.9 Consensus size: 178
1806862 GAATCTGACC
*
1806872 AGGGTAGTAACCATACGTCAAACCAAAATGAAAAGAGTTTGACTAGGGTGTTACCAATACAGTCA
1 AGGGTAGTAACCATACGTCAAACCAAAATGAAAAGAGTTTGACTAGGGTGTAACCAATACAGTCA
* * * * *
1806937 AATAAGGTAGAAAAAGTTTGACTAGATACAGTTAAACGATGATGGAAAGAGTTTGACCAGATACA
66 AATAAGGTAGAAAAAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATACA
* * * *
1807002 GCCAAACGATAATGGGAATAGTTTGTCCAGATATAGCTAAACGATGAT
131 ACCAAACGATAATGGAAAGAGTTTGACCAGATATAGCTAAACGATGAT
* * * * * *
1807050 AGGGTGGTAACTATACGTCAGAGCATAATGAGAAGAGTTTGACTAGGGTGGTAACCAATACAGTC
1 AGGGTAGTAACCATACGTCAAACCAAAATGAAAAGAGTTTGACTAGGGT-GTAACCAATACAGTC
* *
1807115 AAATAAGGGTGGAAAGAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATA
65 AAATAA-GGTAGAAAAAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATA
* * * *
1807180 TAATCAAATGATGATGGAAAGAGTTTGACCAGATATAG
129 CAACCAAACGATAATGGAAAGAGTTTGACCAGATATAG
1807218 TCAAATGATA
Statistics
Matches: 144, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
178 43 0.30
179 20 0.14
180 81 0.56
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (178 bp):
AGGGTAGTAACCATACGTCAAACCAAAATGAAAAGAGTTTGACTAGGGTGTAACCAATACAGTCA
AATAAGGTAGAAAAAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATACA
ACCAAACGATAATGGAAAGAGTTTGACCAGATATAGCTAAACGATGAT
Found at i:1807236 original size:70 final size:70
Alignment explanation
Indices: 1807124--1807385 Score: 246
Period size: 70 Copynumber: 3.8 Consensus size: 70
1807114 CAAATAAGGG
* * * * *
1807124 TGGAAAGAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATATAATC-AAA
1 TGGAAAGAGTTTGACCAGATACAGTCAAATGATGATGGAAAGAGTTTGACCAGATACAA-CGAAA
**
1807188 TGATGA
65 CAATGA
* * * *
1807194 TGGAAAGAGTTTGACCAGATATAGTCAAATGATAATGAAAAGAGTATGACCAGATACAACGAAAC
1 TGGAAAGAGTTTGACCAGATACAGTCAAATGATGATGGAAAGAGTTTGACCAGATACAACGAAAC
1807259 AATGA
66 AATGA
* * * * *
1807264 TGAAAAAAGTTTGACTAGATACAGTCAAATGATGATGGAAAGAGTTTGACCA-AGTACAGCCAAA
1 TGGAAAGAGTTTGACCAGATACAGTCAAATGATGATGGAAAGAGTTTGACCAGA-TACAACGAAA
1807328 -AGATGA
65 CA-ATGA
* * * * ** *
1807334 TGAAAAAAGTTTGACC-GTTAC-GACCAAACAATGATGGAAAGAGTTTGGCCAG
1 TGGAAAGAGTTTGACCAGATACAG-TCAAATGATGATGGAAAGAGTTTGACCAG
1807386 GTCCTAATAC
Statistics
Matches: 161, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
68 1 0.01
69 31 0.19
70 129 0.80
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (70 bp):
TGGAAAGAGTTTGACCAGATACAGTCAAATGATGATGGAAAGAGTTTGACCAGATACAACGAAAC
AATGA
Found at i:1807251 original size:105 final size:103
Alignment explanation
Indices: 1807127--1807385 Score: 306
Period size: 105 Copynumber: 2.5 Consensus size: 103
1807117 ATAAGGGTGG
* * *
1807127 AAAGAGTTCGACCAAATACAATCAAACGATGATGGAAAGAGTTTGACCAGATATAATCAAATGAT
1 AAAGAGTT-GACCAGATACAA-CAAACAATGATGGAAAGAGTTTGACCAGATACAATCAAATGAT
* * *
1807192 GATGGAAAGAGTTTGACC-AGATATAGTCAAATGATAATGA
64 GATGGAAAGAGTTTGACCAAG-TACAGCCAAAAGATAATGA
* * * *
1807232 AAAGAGTATGACCAGATACAACGAAACAATGATGAAAAAAGTTTGACTAGATACAGTCAAATGAT
1 AAAGAGT-TGACCAGATACAAC-AAACAATGATGGAAAGAGTTTGACCAGATACAATCAAATGAT
*
1807297 GATGGAAAGAGTTTGACCAAGTACAGCCAAAAGATGATGA
64 GATGGAAAGAGTTTGACCAAGTACAGCCAAAAGATAATGA
* * * *
1807337 AAAAAGTTTGACC-GTTACGACCAAACAATGATGGAAAGAGTTTGGCCAG
1 AAAGAG-TTGACCAGATAC-AACAAACAATGATGGAAAGAGTTTGACCAG
1807386 GTCCTAATAC
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
104 28 0.21
105 99 0.76
106 4 0.03
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (103 bp):
AAAGAGTTGACCAGATACAACAAACAATGATGGAAAGAGTTTGACCAGATACAATCAAATGATGA
TGGAAAGAGTTTGACCAAGTACAGCCAAAAGATAATGA
Found at i:1809091 original size:88 final size:88
Alignment explanation
Indices: 1808916--1809160 Score: 226
Period size: 88 Copynumber: 2.8 Consensus size: 88
1808906 CATCTATATG
* ** * * * *
1808916 TGAAATAATGCAAATGCAAGCATCAATAGAATGGCAAATGCATATATGAAATTG-TGCAAATACC
1 TGAAATAATGCAACTATAAGCACCAATAAAAGGGCAAATGC--ACATGAAA-TGATGCAAATACC
* * * *
1808980 AATGTCATCTAAAGTGT-AGATGTGCA
63 AATGTTATCAAAACTATGA-ATGTGCA
* * * * * *
1809006 TGAAATAATGCATCTATACGCACCAAT-GAAGAGGCTAATGCACATGAAATGATGCTAATGCCAA
1 TGAAATAATGCAACTATAAGCACCAATAAAAG-GGCAAATGCACATGAAATGATGCAAATACCAA
1809070 TGTTATCAAAACTATGAATGTGCA
65 TGTTATCAAAACTATGAATGTGCA
* * * * *
1809094 TGAAATGATGCAACTGTAAGCATCAATAAAAGGGCAAATGCATATGATATGATGCAAATACCAAT
1 TGAAATAATGCAACTATAAGCACCAATAAAAGGGCAAATGCACATGAAATGATGCAAATACCAAT
1809159 GT
66 GT
1809161 CGTGTAAAAT
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
87 2 0.02
88 87 0.70
89 7 0.06
90 29 0.23
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.25
Consensus pattern (88 bp):
TGAAATAATGCAACTATAAGCACCAATAAAAGGGCAAATGCACATGAAATGATGCAAATACCAAT
GTTATCAAAACTATGAATGTGCA
Found at i:1810462 original size:18 final size:18
Alignment explanation
Indices: 1810421--1810463 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
1810411 TCATTTTTTT
1810421 CTTTTTTTCTTACTTCTG
1 CTTTTTTTCTTACTTCTG
*
1810439 CATTTTTTTC-TATTTCATG
1 C-TTTTTTTCTTACTTC-TG
1810458 CTTTTT
1 CTTTTT
1810464 CCTCTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (18 bp):
CTTTTTTTCTTACTTCTG
Found at i:1811981 original size:145 final size:143
Alignment explanation
Indices: 1811832--1812092 Score: 308
Period size: 143 Copynumber: 1.8 Consensus size: 143
1811822 ATATAAATGA
* ** *
1811832 ATATATAAAAGATCTGGAAACAAAAGCTTTAAAAAAATGTCTGACATGAATGAATGCGTATATGT
1 ATATACAAAAGATCTGGAAACAAAAGC-TT-AAAAAATGTAAGACATGAATGAATGCATATATGT
* * * *
1811897 ATTCACATATGCAAATGAATGCA-AAGATGAAATTAATGTAATGTCAAAGAAAAAGGTATAACAA
64 ATTCACAGATGCAAATGAATGCACAA-ACGAAAGTAATATAATGTCAAAGAAAAAGGTATAACAA
1811961 AGTAATACAATCAAAT
128 AGTAATACAATCAAAT
* * * * ** * * *
1811977 ATATACAGAAGGTTTGGAAATAAGGGCTTCAAAAATGTAAGTCATGAATGAATGCATGTATGTAT
1 ATATACAAAAGATCTGGAAACAAAAGCTTAAAAAATGTAAGACATGAATGAATGCATATATGTAT
** *
1812042 TCTTAGATGCAAATGAGTGCACAAACGAAAGTAATATAATGTCAAAGAAAA
66 TCACAGATGCAAATGAATGCACAAACGAAAGTAATATAATGTCAAAGAAAA
1812093 GTTATATACA
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
143 71 0.75
144 4 0.04
145 20 0.21
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.26
Consensus pattern (143 bp):
ATATACAAAAGATCTGGAAACAAAAGCTTAAAAAATGTAAGACATGAATGAATGCATATATGTAT
TCACAGATGCAAATGAATGCACAAACGAAAGTAATATAATGTCAAAGAAAAAGGTATAACAAAGT
AATACAATCAAAT
Found at i:1816417 original size:22 final size:22
Alignment explanation
Indices: 1816392--1816448 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
1816382 TGTATTCTAA
1816392 TTTTCTCTCTATTTTCTTCTTT
1 TTTTCTCTCTATTTTCTTCTTT
*
1816414 TTTTCAT-TCT-TTTCCTTCTTT
1 TTTTC-TCTCTATTTTCTTCTTT
1816435 TTTT-TCTCTATTTT
1 TTTTCTCTCTATTTT
1816449 TTTTCAACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 1 0.03
20 3 0.10
21 17 0.57
22 8 0.27
23 1 0.03
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTCTCTCTATTTTCTTCTTT
Found at i:1817272 original size:154 final size:161
Alignment explanation
Indices: 1816962--1817352 Score: 460
Period size: 154 Copynumber: 2.4 Consensus size: 161
1816952 GTTTATTTAA
* * * * *
1816962 AATATTAGATGAATTTTAAAAATGAAAAACCAAGAAAAATCTCCCCAAAAACATTTATGTAGTAG
1 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCTCCCCAAAAACATTTACGAAGTAG
1817027 AAAACTCCTTATTTTAGAAATAGAAAAAATTTCAAGGAAAAACTAAAACATTCATGAAAATGAAT
66 AAAACTCCTTATTTTAGAAATAGAAAAAATTTCAAGG---AAC-AAAACA-T-ATGAAAATGAAT
1817092 GAATGTTTGAAAATGGATTTAATATGAATCAAATAAT
125 GAATGTTTGAAAATGGATTTAATATGAATCAAATAAT
* * *
1817129 AATATTTGATGCATTTTAAAAATTAAAAATCAAG-AAAATCTCCCCAAAAATATTTACGGAGTAG
1 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCTCCCCAAAAACATTTACGAAGTAG
* *
1817193 AAAACT-CTATTTTTCTA-AAATAG-AAAAATTTCAA-G-A-AAAA-A-GTGAAAATGAATGAAT
66 AAAACTCCT-TATTT-TAGAAATAGAAAAAATTTCAAGGAACAAAACATATGAAAATGAATGAAT
* * * *
1817250 TTTTGGAAACT-TATTTAATATGAATTAAATAAT
129 GTTT-GAAAATGGATTTAATATGAATCAAATAAT
* ** *
1817283 TATATTTGATGAATTTTAAAAATTAAAAATTGAGAAAAATCCCCCCCAAAAACATTTACGAAGTA
1 AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAAT-CTCCCCAAAAACATTTACGAAGTA
1817348 GAAAA
65 GAAAA
1817353 TTTTGTATTT
Statistics
Matches: 199, Mismatches: 20, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
154 68 0.34
155 10 0.05
156 26 0.13
157 1 0.01
158 4 0.02
160 1 0.01
164 1 0.01
165 13 0.07
166 43 0.22
167 32 0.16
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.30
Consensus pattern (161 bp):
AATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCTCCCCAAAAACATTTACGAAGTAG
AAAACTCCTTATTTTAGAAATAGAAAAAATTTCAAGGAACAAAACATATGAAAATGAATGAATGT
TTGAAAATGGATTTAATATGAATCAAATAAT
Found at i:1818832 original size:20 final size:19
Alignment explanation
Indices: 1818797--1818835 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
1818787 CAATGATCCC
*
1818797 TTTATTATTTATTATTATA
1 TTTATTATTGATTATTATA
1818816 TTTATTGATTGATTATTATA
1 TTTATT-ATTGATTATTATA
1818836 AGATTGCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTATTATTGATTATTATA
Found at i:1823441 original size:50 final size:50
Alignment explanation
Indices: 1823382--1823478 Score: 194
Period size: 50 Copynumber: 1.9 Consensus size: 50
1823372 TACTCTAAAA
1823382 ATAGTTGATTACACCAGTTTATGTTATACCTTTACAACTTCCTTACCAAG
1 ATAGTTGATTACACCAGTTTATGTTATACCTTTACAACTTCCTTACCAAG
1823432 ATAGTTGATTACACCAGTTTATGTTATACCTTTACAACTTCCTTACC
1 ATAGTTGATTACACCAGTTTATGTTATACCTTTACAACTTCCTTACC
1823479 CTAAGTGGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (50 bp):
ATAGTTGATTACACCAGTTTATGTTATACCTTTACAACTTCCTTACCAAG
Found at i:1825015 original size:7 final size:7
Alignment explanation
Indices: 1824999--1825072 Score: 87
Period size: 7 Copynumber: 10.0 Consensus size: 7
1824989 AATGTCATAA
1824999 AAAAAGAT
1 AAAAA-AT
1825007 AAAAAAT
1 AAAAAAT
1825014 AAAAAAT
1 AAAAAAT
1825021 AAAAAAT
1 AAAAAAT
1825028 AATAAAA-
1 AA-AAAAT
1825035 AAATAAAT
1 AAA-AAAT
1825043 AAAAAAT
1 AAAAAAT
1825050 ATAAAATAT
1 A-AAAA-AT
*
1825059 AAAATAT
1 AAAAAAT
1825066 AAAAAAT
1 AAAAAAT
1825073 GTCGAATGAA
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
6 1 0.02
7 36 0.61
8 19 0.32
9 3 0.05
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (7 bp):
AAAAAAT
Found at i:1825017 original size:14 final size:14
Alignment explanation
Indices: 1824999--1825072 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 14
1824989 AATGTCATAA
1824999 AAAAAGATAAAAAAT
1 AAAAA-ATAAAAAAT
1825014 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
1825028 AATAAAA-AAATAAAT
1 AA-AAAATAAA-AAAT
1825043 AAAAAATATAAAATAT
1 AAAAAATA-AAAA-AT
*
1825059 AAAATATAAAAAAT
1 AAAAAATAAAAAAT
1825073 GTCGAATGAA
Statistics
Matches: 53, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
14 20 0.38
15 22 0.42
16 11 0.21
ACGTcount: A:0.80, C:0.00, G:0.01, T:0.19
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:1825045 original size:36 final size:34
Alignment explanation
Indices: 1824997--1825071 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 34
1824987 ATAATGTCAT
*
1824997 AAAAAAAGATAAAAAATAAAAAATAAAAAATAATA
1 AAAAAAAAATAAAAAATAAAAAATAAAAAAT-ATA
* *
1825032 AAAAAATAAATAAAAAATATAAAATATAAAATATA
1 AAAAAA-AAATAAAAAATAAAAAATAAAAAATATA
1825067 AAAAA
1 AAAAA
1825072 TGTCGAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 14 0.39
36 22 0.61
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.17
Consensus pattern (34 bp):
AAAAAAAAATAAAAAATAAAAAATAAAAAATATA
Found at i:1825812 original size:20 final size:20
Alignment explanation
Indices: 1825787--1825836 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1825777 TTTTACCTAG
*
1825787 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATCA
* *
1825807 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
1825827 ATGTATCGAT
1 ATGTATCGAT
1825837 GCCTTCTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:1825919 original size:49 final size:50
Alignment explanation
Indices: 1825807--1825940 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
1825797 ACATGTATGA
* *
1825807 ATGTATCGATACATTTTTCAATGTATCGATGCCTTCTATCTTTTTACCCAG
1 ATGTATCGATACATTTTT-AATGTATCGATACATTCTATCTTTTTACCCAG
*
1825858 ATTTATCGATACATTTTTAATGTATCGATACATTCTATC-TTTTACCCAG
1 ATGTATCGATACATTTTTAATGTATCGATACATTCTATCTTTTTACCCAG
** *
1825907 ATGTATCGATACATTGTAAAATGTATCGACACAT
1 ATGTATCGATACATT-TTTAATGTATCGATACAT
1825941 CTAGTTAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 24 0.32
50 34 0.45
51 17 0.23
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (50 bp):
ATGTATCGATACATTTTTAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:1826838 original size:20 final size:22
Alignment explanation
Indices: 1826798--1826845 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1826788 TAGCCTTTGA
*
1826798 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
1826820 CCATGCA-TTTTTAAC-ATG-T
1 CCATGCATTTTTTAACTATGTT
1826839 CCA-GCAT
1 CCATGCAT
1826846 CTCATTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.12
19 4 0.17
20 3 0.12
21 7 0.29
22 7 0.29
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:1830613 original size:13 final size:13
Alignment explanation
Indices: 1830595--1830620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1830585 CAATTTTTTG
1830595 TGTATCGATACAT
1 TGTATCGATACAT
1830608 TGTATCGATACAT
1 TGTATCGATACAT
1830621 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1831359 original size:21 final size:21
Alignment explanation
Indices: 1831318--1831361 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1831308 CTCTCCTTTA
* *
1831318 TCTCCCCCATTTATTAATAAT
1 TCTCCCCCATTAATCAATAAT
1831339 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCATTAATCAA-TAAT
1831360 TC
1 TC
1831362 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.27, C:0.32, G:0.02, T:0.39
Consensus pattern (21 bp):
TCTCCCCCATTAATCAATAAT
Found at i:1832951 original size:13 final size:13
Alignment explanation
Indices: 1832933--1832958 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1832923 ATAATCACCC
1832933 TGTATCGATACAA
1 TGTATCGATACAA
1832946 TGTATCGATACAA
1 TGTATCGATACAA
1832959 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1835052 original size:15 final size:15
Alignment explanation
Indices: 1835032--1835062 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1835022 ATTTCGTTTG
*
1835032 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1835047 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1835062 G
1 G
1835063 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1836895 original size:21 final size:21
Alignment explanation
Indices: 1836866--1836910 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1836856 AAGTTTTCAT
*
1836866 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1836886 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1836908 TTT
1 TTT
1836911 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1839042 original size:13 final size:13
Alignment explanation
Indices: 1839024--1839049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1839014 CAATTTTTTG
1839024 TGTATCGATACAT
1 TGTATCGATACAT
1839037 TGTATCGATACAT
1 TGTATCGATACAT
1839050 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1843133 original size:13 final size:13
Alignment explanation
Indices: 1843115--1843140 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1843105 GATAAAGTGT
1843115 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1843128 TTGAAAAAAAAAA
1 TTGAAAAAAAAAA
1843141 AAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTGAAAAAAAAAA
Found at i:1843177 original size:21 final size:21
Alignment explanation
Indices: 1843153--1843209 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1843143 AAAAAATTTA
1843153 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1843174 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1843195 AATGTATCGATACAT
1 AATGTATCGATACAT
1843210 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1843289 original size:19 final size:19
Alignment explanation
Indices: 1843265--1843332 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1843255 AATTCAACAA
1843265 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1843284 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1843299 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1843316 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1843333 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1843304 original size:13 final size:13
Alignment explanation
Indices: 1843286--1843310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1843276 ACATAAGTTT
1843286 TGTATCGATACAA
1 TGTATCGATACAA
1843299 TGTATCGATACA
1 TGTATCGATACA
1843311 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1843308 original size:32 final size:32
Alignment explanation
Indices: 1843267--1843329 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1843257 TTCAACAATT
*
1843267 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1843299 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1843330 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1843390 original size:13 final size:13
Alignment explanation
Indices: 1843372--1843397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1843362 CATTTTTCTG
1843372 TGTATCGATACAT
1 TGTATCGATACAT
1843385 TGTATCGATACAT
1 TGTATCGATACAT
1843398 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1843394 original size:33 final size:33
Alignment explanation
Indices: 1843352--1843418 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1843342 GCCAAGGAAA
***
1843352 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1843385 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1843418 T
1 T
1843419 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1845931 original size:28 final size:27
Alignment explanation
Indices: 1845864--1845936 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1845854 CTTCACAATC
* *
1845864 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1845891 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1845919 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1845937 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1845981 original size:51 final size:51
Alignment explanation
Indices: 1845919--1846089 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
1845909 TTATTTCTGA
* * *
1845919 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1845970 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1846023 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1846075 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1846090 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1846108 original size:28 final size:28
Alignment explanation
Indices: 1846072--1846153 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1846062 ATTTTTCACA
*
1846072 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
1846100 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
1846128 -T-GAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
1846154 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 41 0.89
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:1852853 original size:13 final size:13
Alignment explanation
Indices: 1852835--1852892 Score: 62
Period size: 13 Copynumber: 4.0 Consensus size: 13
1852825 AATTTTTTTG
1852835 TGTATCGATACAT
1 TGTATCGATACAT
1852848 TGTATCGATACATACTTT
1 TGTATCGATAC--A---T
1852866 GTGTATCGATACAT
1 -TGTATCGATACAT
1852880 TGTATCGATACAT
1 TGTATCGATACAT
1852893 ACTTTGTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.62
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 11 0.28
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1852872 original size:19 final size:19
Alignment explanation
Indices: 1852848--1852910 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
1852838 ATCGATACAT
1852848 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
1852867 TGTATCGATAC--A---T-
1 TGTATCGATACATACTTTG
1852880 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
1852899 TGTATCGATACA
1 TGTATCGATACA
1852911 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
17 1 0.03
18 1 0.03
19 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:1852872 original size:32 final size:32
Alignment explanation
Indices: 1852831--1852910 Score: 160
Period size: 32 Copynumber: 2.5 Consensus size: 32
1852821 ATACAATTTT
1852831 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
1852863 TTTGTGTATCGATACATTGTATCGATACATAC
1 TTTGTGTATCGATACATTGTATCGATACATAC
1852895 TTTGTGTATCGATACA
1 TTTGTGTATCGATACA
1852911 AGTTTGGCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (32 bp):
TTTGTGTATCGATACATTGTATCGATACATAC
Found at i:1853653 original size:21 final size:21
Alignment explanation
Indices: 1853612--1853655 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1853602 CTCCCCTTTA
* *
1853612 TCTCCCCCTTTTATTAATAAT
1 TCTCCCCCTTTAATCAATAAT
1853633 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCTTTAATCAA-TAAT
1853654 TC
1 TC
1853656 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (21 bp):
TCTCCCCCTTTAATCAATAAT
Found at i:1854995 original size:21 final size:20
Alignment explanation
Indices: 1854966--1855008 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1854956 GACTAGTGTG
* *
1854966 GGGACTGCCTGGTTGTGACCT
1 GGGACTGCC-GGTCGCGACCT
*
1854987 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1855007 GG
1 GG
1855009 TGGTGCTGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1855458 original size:13 final size:13
Alignment explanation
Indices: 1855440--1855477 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1855430 ATAATCCCCC
1855440 TGTATCGATACAG
1 TGTATCGATACAG
*
1855453 TGTATCGATACAT
1 TGTATCGATACAG
1855466 TGTATCGATACA
1 TGTATCGATACA
1855478 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1857570 original size:15 final size:15
Alignment explanation
Indices: 1857550--1857580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1857540 ATTTCGTTTG
*
1857550 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1857565 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1857580 G
1 G
1857581 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1861631 original size:21 final size:20
Alignment explanation
Indices: 1861606--1861658 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1861596 TACAAACCAA
**
1861606 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
1861627 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1861646 TGTATCGATACAA
1 TGTATCGATACAA
1861659 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1865208 original size:142 final size:141
Alignment explanation
Indices: 1864900--1865281 Score: 497
Period size: 142 Copynumber: 2.7 Consensus size: 141
1864890 TACGAAATCT
* *
1864900 TTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACTAGTTAGTGGCATCATTTTTCAA
1 TTTCAAAGCCCAC-AGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCACTTTTCAA
* *
1864964 AGCCCACAAGTTAATGGTATCCTTTCAAAGCCCACAAGGCAGTGGCACCCTTTCAAAGCCCACAT
64 AGCCCACAAGTTAGTGGTATCCTTTCAAAGCCCATAAGGCAGTGGCACCCTTTCAAAGCCCACAT
1865029 ATCAGTGGCATCC
129 ATCAGTGGCATCC
*
1865042 TTTCAAAGCCCACAGGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAA
1 TTTCAAAGCCCACA-GTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCACTTTTCAAA
* ** *
1865107 GCCCACAAGTTAGTGGCATCTCTTTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCC-CG
65 GCCCACAAGTTAGTGGTATC-C-TTTCAAAGCCCATAAGGCAGTGGCACCCTTTCAAAGCCCAC-
*
1865171 A-GTCAGTGGCATCC
127 ATATCAGTGGCATCC
* * * * * *
1865185 TTTCAAAGCCCACGAGTCA-TGGCATTCTTTTAGAGCCCACAAGTCAGTGGC-T-TCTTTTCAAA
1 TTTCAAAGCCCAC-AGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCACTTTTCAAA
* *
1865247 GCTCATAAGTTAGTGGTATCCTTTCAAAGCCCATA
65 GCCCACAAGTTAGTGGTATCCTTTCAAAGCCCATA
1865282 CAAATCGGTG
Statistics
Matches: 215, Mismatches: 19, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
138 14 0.07
139 1 0.00
140 26 0.12
141 2 0.01
142 103 0.48
143 32 0.15
144 37 0.17
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (141 bp):
TTTCAAAGCCCACAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCACTTTTCAAAG
CCCACAAGTTAGTGGTATCCTTTCAAAGCCCATAAGGCAGTGGCACCCTTTCAAAGCCCACATAT
CAGTGGCATCC
Found at i:1865281 original size:28 final size:28
Alignment explanation
Indices: 1864900--1865279 Score: 453
Period size: 28 Copynumber: 13.4 Consensus size: 28
1864890 TACGAAATCT
1864900 TTTCAAAGCCCACAAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
1864927 TTTTCAAAGCCCACTAGTTAGTGGCATCATT
1 -TTTCAAAGCCCACAAGTTAGTGGCATC--C
* *
1864958 TTTCAAAGCCCACAAGTTAATGGTATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
** *
1864986 TTTCAAAGCCCACAAGGCAGTGGCACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
*
1865014 TTTCAAAGCCCACATA-TCAGTGGCATCC
1 TTTCAAAGCCCACA-AGTTAGTGGCATCC
*
1865042 TTTCAAAGCCCACAGGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
1865070 TTTCAAAGCCCACAAGTTAGTGGCATCCC
1 TTTCAAAGCCCACAAGTTAGTGGCAT-CC
1865099 TTTTCAAAGCCCACAAGTTAGTGGCATCTC
1 -TTTCAAAGCCCACAAGTTAGTGGCATC-C
*
1865129 TTTTCAAAGCCCATAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
1865158 TTTCAAAGCCC-CGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
1865185 TTTCAAAGCCCACGAGTCA-TGGCATTC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
1865212 TTTTAGAGCCCACAAGTCAGTGGCTTCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
1865240 TTTCAAAGCTCATAAGTTAGTGGTATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC
1865268 TTTCAAAGCCCA
1 TTTCAAAGCCCA
1865280 TACAAATCGG
Statistics
Matches: 306, Mismatches: 36, Indels: 20
0.85 0.10 0.06
Matches are distributed among these distances:
27 47 0.15
28 175 0.57
29 6 0.02
30 78 0.25
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCC
Found at i:1865310 original size:170 final size:172
Alignment explanation
Indices: 1864900--1865313 Score: 468
Period size: 170 Copynumber: 2.4 Consensus size: 172
1864890 TACGAAATCT
* * * * *
1864900 TTTCAAAGCCCACAAGTTAGTGGCA--CCTTTTCAAAGCCCACTAGTTAGTGGCATCAT-TTTTC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAAGCCCACAAATCAGTGGCAAC-TCTTCTC
* *
1864962 AAAGCCCACAAGTTAATGGTATCCTTTCAAAGCCCACAAGGCAGTGGCACCCTTTCAAAGCCCAC
65 AAAGCCCATAAGTTAATGGCATCCTTTCAAAGCCCACAAGGCAGTGGCACCCTTTCAAAGCCCAC
* *
1865027 ATATCAGTGGCATCCTTTCAAAGCCCACAGGTTAGTGGCATCC
130 ATATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1865070 TTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAAGCCCACAAGTTAGTGGCATCTCTTTTCA
1 TTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAAGCCCACAAATCAGTGGCAACTCTTCTCA
* * * *
1865135 AAGCCCATAAGTTAGTGGCATCCTTTCAAAGCCC-CGAGTCAGTGGCATCCTTTCAAAGCCCACG
66 AAGCCCATAAGTTAATGGCATCCTTTCAAAGCCCACAAGGCAGTGGCACCCTTTCAAAGCCCAC-
* * * * * *
1865199 A-GTCA-TGGCATTCTTTTAGAGCCCACAAGTCAGTGGCTTCT
130 ATATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * *
1865240 TTTCAAAGCTCATAAGTTAGTGGTAT-CC-TTTCAAAGCCCATACAAATCGGTGGTAACT-TTCT
1 TTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAAGCCC--ACAAATCAGTGGCAACTCTTCT
1865302 CTAAAGCCCATA
64 C-AAAGCCCATA
1865314 CAAGTTGGTG
Statistics
Matches: 213, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
168 11 0.05
169 6 0.03
170 99 0.46
171 30 0.14
172 67 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (172 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCCCTTTTCAAAGCCCACAAATCAGTGGCAACTCTTCTCA
AAGCCCATAAGTTAATGGCATCCTTTCAAAGCCCACAAGGCAGTGGCACCCTTTCAAAGCCCACA
TATCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:1870947 original size:13 final size:13
Alignment explanation
Indices: 1870929--1870954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1870919 TACAGCAAGT
1870929 ATGTATCGATACA
1 ATGTATCGATACA
1870942 ATGTATCGATACA
1 ATGTATCGATACA
1870955 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1873206 original size:21 final size:21
Alignment explanation
Indices: 1873173--1873217 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1873163 TTGCAAGTTG
*
1873173 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1873195 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1873215 AAA
1 AAA
1873218 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1875040 original size:15 final size:15
Alignment explanation
Indices: 1875020--1875050 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1875010 TAAAAATGTC
*
1875020 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1875035 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1875050 C
1 C
1875051 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1877144 original size:20 final size:20
Alignment explanation
Indices: 1877065--1877144 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1877055 AATGTCCAAA
*
1877065 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1877085 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1877110 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1877130 TTGTATCGATACATT
1 ATGTATCGATACATT
1877145 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1877148 original size:13 final size:13
Alignment explanation
Indices: 1877130--1877168 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1877120 ACATTTTTCT
1877130 TTGTATCGATACA
1 TTGTATCGATACA
1877143 TTGTATCGATACA
1 TTGTATCGATACA
* *
1877156 CTATATCGATACA
1 TTGTATCGATACA
1877169 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1879705 original size:13 final size:13
Alignment explanation
Indices: 1879687--1879712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1879677 TACAGCAAGT
1879687 ATGTATCGATACA
1 ATGTATCGATACA
1879700 ATGTATCGATACA
1 ATGTATCGATACA
1879713 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1882938 original size:19 final size:20
Alignment explanation
Indices: 1882914--1882968 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
1882904 GTATCGATAT
**
1882914 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCACA
*
1882933 ATTGTATCGATACATCCACA
1 ATTGTATCGATACATGCACA
1882953 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1882969 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:1883036 original size:13 final size:13
Alignment explanation
Indices: 1883018--1883042 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1883008 CATGGCACAT
1883018 TGTATCGATACAA
1 TGTATCGATACAA
1883031 TGTATCGATACA
1 TGTATCGATACA
1883043 TTGTCTCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1884657 original size:3 final size:3
Alignment explanation
Indices: 1884638--1884681 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
1884628 AACCATCAAA
* * *
1884638 GAT GAT GAA GAT AAT GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1884682 AGTTGACTCG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:1887899 original size:30 final size:30
Alignment explanation
Indices: 1887863--1887928 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
1887853 AAAAAGAAAA
1887863 GATATTTTAATTGTACAAGTATATGTTGAT
1 GATATTTTAATTGTACAAGTATATGTTGAT
1887893 GATATTTTAATTGTACAAGTATATGTTGAT
1 GATATTTTAATTGTACAAGTATATGTTGAT
1887923 GATATT
1 GATATT
1887929 GTTTTTGGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (30 bp):
GATATTTTAATTGTACAAGTATATGTTGAT
Done.