Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold184
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: 2218657
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.30
Warning! 156408 characters in sequence are not A, C, G, or T
File 12 of 13
Found at i:2013399 original size:32 final size:32
Alignment explanation
Indices: 2013353--2013415 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
2013343 AGTAGCTTAC
*
2013353 ATTGTATTGATACAAAACTTATGTATCGATAT
1 ATTGTATCGATACAAAACTTATGTATCGATAT
* *
2013385 ATTGTATCGTTACAACACTTATGTATCGATA
1 ATTGTATCGATACAAAACTTATGTATCGATA
2013416 CAACACTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (32 bp):
ATTGTATCGATACAAAACTTATGTATCGATAT
Found at i:2013428 original size:20 final size:19
Alignment explanation
Indices: 2013387--2013438 Score: 86
Period size: 20 Copynumber: 2.7 Consensus size: 19
2013377 ATCGATATAT
*
2013387 TGTATCGTTACAACACTTA
1 TGTATCGATACAACACTTA
2013406 TGTATCGATACAACACTTTA
1 TGTATCGATACAACAC-TTA
2013426 TGTATCGATACAA
1 TGTATCGATACAA
2013439 ATTGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:2014372 original size:49 final size:49
Alignment explanation
Indices: 2014206--2014372 Score: 190
Period size: 49 Copynumber: 3.4 Consensus size: 49
2014196 AATGTGATGC
* * *
2014206 TTCATGGCCAGTGACATTGATCTTAAAGATGATGGTGCCAATATGCTGA
1 TTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGA
* * * ** * ** * * *
2014255 TTCAAAGCTAGCGATACCGGACTTAAAGAAAAAGATGCCAATGTGCTGA
1 TTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGA
2014304 TTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGA
1 TTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGA
* *
2014353 TTCAAGGCCAGTGATATTGG
1 TTCAAGGCCAGCGACATTGG
2014373 ACTTTGTGAG
Statistics
Matches: 91, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
49 91 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
TTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGA
Found at i:2014376 original size:98 final size:99
Alignment explanation
Indices: 2014186--2014368 Score: 278
Period size: 98 Copynumber: 1.9 Consensus size: 99
2014176 TCGAAGATGC
* * *
2014186 AAAGAATGACAATGTGATGCTTCATGGCCAGTGACATTGATCTTAAAGATGATGGTGCCAATATG
1 AAAGAATGACAATGTGATGATTCAAGGCCAGCGACATTGATCTTAAAGATGATGGTGCCAATATG
*
2014251 CTGATTCAAAGCTAGCGATACCGGACTTAAAGAA
66 CTGATTCAAAGCCAGCGATACCGGACTTAAAGAA
* * *
2014285 AAAG-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATG
1 AAAGAATGACAATGTGATGATTCAAGGCCAGCGACATTGATCTTAAAGATGATGGTGCCAATATG
* *
2014349 CTGATTCAAGGCCAGTGATA
66 CTGATTCAAAGCCAGCGATA
2014369 TTGGACTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
98 71 0.95
99 4 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (99 bp):
AAAGAATGACAATGTGATGATTCAAGGCCAGCGACATTGATCTTAAAGATGATGGTGCCAATATG
CTGATTCAAAGCCAGCGATACCGGACTTAAAGAA
Found at i:2014666 original size:34 final size:35
Alignment explanation
Indices: 2014628--2014694 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2014618 CCTTACAACA
2014628 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2014662 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2014695 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2015170 original size:13 final size:13
Alignment explanation
Indices: 2015152--2015177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2015142 CAATTTTTTG
2015152 TGTATCGATACAT
1 TGTATCGATACAT
2015165 TGTATCGATACAT
1 TGTATCGATACAT
2015178 ACTTGGTGTA
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:2015192 original size:32 final size:33
Alignment explanation
Indices: 2015132--2015195 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2015122 TACAAGCCAA
** *
2015132 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2015165 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2015196 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2016976 original size:13 final size:13
Alignment explanation
Indices: 2016958--2016982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2016948 ACTGAAGCAA
2016958 TGTATCGATACAT
1 TGTATCGATACAT
2016971 TGTATCGATACA
1 TGTATCGATACA
2016983 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2017612 original size:23 final size:24
Alignment explanation
Indices: 2017567--2017613 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2017557 CAAAGAATTG
*
2017567 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
2017591 AACACAAATT-AATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
2017614 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.62, C:0.17, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:2020222 original size:34 final size:35
Alignment explanation
Indices: 2020184--2020250 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
2020174 CCTTACAACA
2020184 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
2020218 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
2020251 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:2020726 original size:13 final size:13
Alignment explanation
Indices: 2020708--2020733 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2020698 CAATTTTTTG
2020708 TGTATCGATACAT
1 TGTATCGATACAT
2020721 TGTATCGATACAT
1 TGTATCGATACAT
2020734 ACTTGGTGTA
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:2020748 original size:32 final size:33
Alignment explanation
Indices: 2020688--2020751 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
2020678 TACAAGCCAA
** *
2020688 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
2020721 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
2020752 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:2021276 original size:29 final size:28
Alignment explanation
Indices: 2021223--2021344 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 28
2021213 AAGATGAAGA
*
2021223 TGCCAACAACTTGTGTGGGCTTTTGATAGGGT
1 TGCCACCAACTTGTGT--GCTTTTGA-A-GGT
2021255 TG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACCAACTTGTGTGCTTTTGAAGGT
** * * *
2021282 TGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACCAACTTGTGTGCTTTTG-AAGGT
* * *
2021311 TACCACTAACTTGTGGGCTTTTGAAGGT
1 TGCCACCAACTTGTGTGCTTTTGAAGGT
2021339 TGCCAC
1 TGCCAC
2021345 TGACTAATGG
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
27 5 0.06
28 26 0.34
29 32 0.42
31 12 0.16
32 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (28 bp):
TGCCACCAACTTGTGTGCTTTTGAAGGT
Found at i:2021375 original size:30 final size:30
Alignment explanation
Indices: 2021277--2021639 Score: 416
Period size: 30 Copynumber: 12.2 Consensus size: 30
2021267 TGTGCTTTTG
* *
2021277 AAGGTTGCCACTGACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* * * *
2021307 AA-GATACCACTAACTTGTGGGCTTTTG--
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* **
2021334 AAGGTTGCCACTGACTAATGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
*
2021364 AAGGGTGCCACTGAGTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
*
2021394 GAAAGGTGCCACTGACTTGTGGGCTTTGGAA
1 -AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
2021425 AA-GATTCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
*
2021454 AAAGGTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
*
2021484 AAGGGTGCCACTGACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* * * *
2021514 AA-GATACCACTAACTCGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
2021543 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
2021573 AATGGTGCCACTGACTTATGGGCTTTGAAAAGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTG----GAA
* * *
2021607 AAAGGTGCCACGGAGTTGTGGGCTTT--AA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
2021635 AAGGG
1 AAGGG
2021640 AAAAGATGCC
Statistics
Matches: 286, Mismatches: 37, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.01
28 25 0.09
29 73 0.26
30 133 0.47
31 28 0.10
34 25 0.09
ACGTcount: A:0.25, C:0.16, G:0.32, T:0.28
Consensus pattern (30 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGGAA
Found at i:2021475 original size:59 final size:60
Alignment explanation
Indices: 2021277--2021604 Score: 418
Period size: 59 Copynumber: 5.5 Consensus size: 60
2021267 TGTGCTTTTG
* * * *
2021277 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAA-GATACCACTAACTTGTGGGCTTTTG---
1 AAGG-TGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAAA
** * *
2021334 AAGGTTGCCACTGACTAATGGGCTTTGGAAAAGGGTGCCACTGAGTTGTGGGCTTTGGAAGA
1 AAGG-TGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAA-A
*
2021396 AAGGTGCCACTGACTTGTGGGCTTTGGAAAA-GATTCCACTGACTTGTGGGCTTTGGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAAA
* *
2021455 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTG-AA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAAA
* * * * *
2021514 AAGATACCACTAACTCGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAAA
* *
2021574 ATGGTGCCACTGACTTATGGGCTTT-GAAAAG
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAG
2021605 AAAAAGGTGC
Statistics
Matches: 237, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
57 29 0.12
58 20 0.08
59 92 0.39
60 67 0.28
61 25 0.11
62 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (60 bp):
AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTGGAAA
Found at i:2021506 original size:89 final size:88
Alignment explanation
Indices: 2021277--2021605 Score: 448
Period size: 89 Copynumber: 3.7 Consensus size: 88
2021267 TGTGCTTTTG
* * * * *
2021277 AAGGTTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTTG--AAGGTT
1 AAGG-TGCCACTGACTTGTGGGCTTTGGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGATT
*
2021340 GCCACTGACTAATGGGCTTTGGAAA
65 -CCACTGACTAGTGGGCTTTGGAAA
* * *
2021365 AGGGTGCCACTGAGTTGTGGGCTTTGGAAGAAAGGTGCCACTGACTTGTGGGCTTTGGAAAAGAT
1 AAGGTGCCACTGACTTGTGGGCTTTGG-A-AAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGAT
*
2021430 TCCACTGACTTGTGGGCTTTGGAAA
64 TCCACTGACTAGTGGGCTTTGGAAA
*
2021455 AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAA-GGTGCCACTGACTTGTGGGCTTTTGAAAAGATT
* *
2021520 CCACTAACTCGTGGGCTTTGGAAA
65 CCACTGACTAGTGGGCTTTGGAAA
* *
2021544 AGGGTGCCACTGACTTGTGGGCTTTGGAAAATGGTGCCACTGACTTATGGGC-TTTGAAAAGA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAAAA-GGTGCCACTGACTTGTGGGCTTTTGAAAAGA
2021606 AAAAGGTGCC
Statistics
Matches: 217, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
87 21 0.10
88 17 0.08
89 127 0.59
90 47 0.22
91 5 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (88 bp):
AAGGTGCCACTGACTTGTGGGCTTTGGAAAAGGTGCCACTGACTTGTGGGCTTTTGAAAAGATTC
CACTGACTAGTGGGCTTTGGAAA
Found at i:2021668 original size:33 final size:34
Alignment explanation
Indices: 2021569--2021672 Score: 113
Period size: 34 Copynumber: 3.1 Consensus size: 34
2021559 TGTGGGCTTT
* * *
2021569 GGAAAATGGTGCCACTGACTTATGGGCTTTGAAAA-
1 GGAAAA-GATGCCACGGAGTTATGGGCTTT-AAAAG
* * *
2021604 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAG
1 GGAAAAGATGCCACGGAGTTATGGGCTTTAAAAG
*
2021638 GGAAAAGATGCCATGGAGTTATGGGC-TTAAAAG
1 GGAAAAGATGCCACGGAGTTATGGGCTTTAAAAG
2021671 GG
1 GG
2021673 TGAGGAATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
33 13 0.22
34 42 0.70
35 5 0.08
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.22
Consensus pattern (34 bp):
GGAAAAGATGCCACGGAGTTATGGGCTTTAAAAG
Found at i:2023138 original size:15 final size:13
Alignment explanation
Indices: 2023120--2023209 Score: 76
Period size: 15 Copynumber: 6.5 Consensus size: 13
2023110 ATCCGGACCC
2023120 TTTTTGTTGTTGTTG
1 TTTTTGTT-TT-TTG
*
2023135 TTTTTGTTTTTTT
1 TTTTTGTTTTTTG
*
2023148 TTTTTGCTTTGTT-
1 TTTTTG-TTTTTTG
2023161 TTTTTGTTTTTTG
1 TTTTTGTTTTTTG
2023174 TTTTTTTGTTTTTTG
1 --TTTTTGTTTTTTG
*
2023189 TTTATTTGGTTTTT-
1 -TT-TTTGTTTTTTG
2023203 TTTTTGT
1 TTTTTGT
2023210 GGAGGACGCC
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.14
13 16 0.25
14 10 0.15
15 30 0.46
ACGTcount: A:0.01, C:0.01, G:0.16, T:0.82
Consensus pattern (13 bp):
TTTTTGTTTTTTG
Found at i:2023151 original size:27 final size:27
Alignment explanation
Indices: 2023120--2023209 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 27
2023110 ATCCGGACCC
2023120 TTTTTGTTGTTGTTGTTTTTGTTTTTTT
1 TTTTTGTTGTTGTTGTTTTTG-TTTTTT
*
2023148 TTTTTGCT-TTGTT-TTTTTGTTTTTT
1 TTTTTGTTGTTGTTGTTTTTGTTTTTT
* *
2023173 GTTTTT-TTGTTTTTTGTTTATTTGGTTTTT
1 -TTTTTGTTG-TTGTTG-TT-TTTGTTTTTT
2023203 TTTTTGT
1 TTTTTGT
2023210 GGAGGACGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
25 7 0.14
26 11 0.22
27 9 0.18
28 7 0.14
29 7 0.14
30 10 0.20
ACGTcount: A:0.01, C:0.01, G:0.16, T:0.82
Consensus pattern (27 bp):
TTTTTGTTGTTGTTGTTTTTGTTTTTT
Found at i:2023159 original size:33 final size:34
Alignment explanation
Indices: 2023122--2023186 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
2023112 CCGGACCCTT
2023122 TTTGTTGTTGTTG-TTTTTGTTTTTTT-TTTTTGC
1 TTTGTT-TTGTTGTTTTTTGTTTTTTTGTTTTTGC
*
2023155 TTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTT
1 TTTGTTTTGTTGTTTTTTGTTTTTTTGTTTTT
2023187 TGTTTATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 5 0.17
33 19 0.66
34 5 0.17
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (34 bp):
TTTGTTTTGTTGTTTTTTGTTTTTTTGTTTTTGC
Found at i:2023160 original size:30 final size:28
Alignment explanation
Indices: 2023120--2023207 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
2023110 ATCCGGACCC
2023120 TTTTTG-TTGTTGTTGTTTTTGTTTTTTT
1 TTTTTGTTTGTTGTT-TTTTTGTTTTTTT
*
2023148 TTTTTGCTTTGTT-TTTTTGTT-TTTTGTT
1 TTTTTG-TTTGTTGTTTTT-TTGTTTTTTT
* * *
2023176 TTTTTGTTTTTTGTTTATTTGGTTTTTT
1 TTTTTGTTTGTTGTTTTTTTGTTTTTTT
2023204 TTTT
1 TTTT
2023208 GTGGAGGACG
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
27 7 0.14
28 34 0.68
29 4 0.08
30 5 0.10
ACGTcount: A:0.01, C:0.01, G:0.15, T:0.83
Consensus pattern (28 bp):
TTTTTGTTTGTTGTTTTTTTGTTTTTTT
Found at i:2034102 original size:42 final size:42
Alignment explanation
Indices: 2034055--2034138 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2034045 TAAAGGGGGA
2034055 AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
2034097 AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
2034139 CACTACAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (42 bp):
AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
Found at i:2037196 original size:52 final size:52
Alignment explanation
Indices: 2037050--2037176 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
2037040 AAATATGAAG
2037050 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
* * * *
2037102 ATTCGCCAGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAA
1 ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
*
2037154 ATTTTCCTGCATGTATCGATACA
1 ATTTGCCTGCATGTATCGATACA
2037177 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (52 bp):
ATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGCAA
Found at i:2037203 original size:13 final size:13
Alignment explanation
Indices: 2037185--2037209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2037175 CAAAGATCAG
2037185 TGTATCGATACAA
1 TGTATCGATACAA
2037198 TGTATCGATACA
1 TGTATCGATACA
2037210 TTTGAGTAAT
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:2037276 original size:19 final size:19
Alignment explanation
Indices: 2037252--2037336 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
2037242 TAGCTTACAT
2037252 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2037271 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
*
2037290 TGTTTCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
2037303 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAAC-TTA
2037323 TGTATCGATACAAA
1 TGTATCGATACAAA
2037337 TCGTTGAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.18
14 1 0.02
16 2 0.04
19 29 0.53
20 13 0.24
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2037312 original size:32 final size:33
Alignment explanation
Indices: 2037271--2037334 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2037261 ACAAAACTTA
*
2037271 TGTATCGATACAACAC-TTATGTTTCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
2037303 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
2037335 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:2038181 original size:13 final size:13
Alignment explanation
Indices: 2038163--2038187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2038153 TATATTTCTC
2038163 TTTTTCTTTGCAT
1 TTTTTCTTTGCAT
2038176 TTTTTCTTTGCA
1 TTTTTCTTTGCA
2038188 CTTACATGCA
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:0.08, C:0.16, G:0.08, T:0.68
Consensus pattern (13 bp):
TTTTTCTTTGCAT
Found at i:2048495 original size:78 final size:77
Alignment explanation
Indices: 2048362--2048544 Score: 181
Period size: 78 Copynumber: 2.4 Consensus size: 77
2048352 CCCAAAGGCT
* * * * *
2048362 AGATGATATTGGTGCGTCACAAGGCCAAAGGAGGCATTTCACACATATTCTCAATCATATCCTTC
1 AGATGATATTGGTGCATCACATGGCCAAAGGAGG-ATTTCACACACATTCCCAATCATATCCCTC
* * *
2048427 CTTTCCAAATACC
65 ATTCCCAAACACC
* * * *
2048440 AGATGATATTGGTGCATCACATGGCCAAGAGGGATG-TTTCCCATACATTCCCAATCGTATCCCT
1 AGATGATATTGGTGCATCACATGGCCAA-A-GGAGGATTTCACACACATTCCCAATCATATCCCT
*
2048504 CATTCCCAAACACT
64 CATTCCCAAACACC
* *
2048518 AAAT-AGTATTGATGCATCACATGGCCA
1 AGATGA-TATTGGTGCATCACATGGCCA
2048545 TAAAAGGCAC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
77 1 0.01
78 81 0.93
79 1 0.01
80 4 0.05
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (77 bp):
AGATGATATTGGTGCATCACATGGCCAAAGGAGGATTTCACACACATTCCCAATCATATCCCTCA
TTCCCAAACACC
Found at i:2049047 original size:42 final size:42
Alignment explanation
Indices: 2048980--2049213 Score: 154
Period size: 41 Copynumber: 5.6 Consensus size: 42
2048970 TCCACCTTCC
* * *
2048980 TTAGACCCGAGAGACTT-TCTTATCTTTCATCTGCCCATCAGT
1 TTAGACCTGAGAGACTTCTC-CATCTTTTATCTGCCCATCAGT
* * * * ** *
2049022 TTACACTTGAGAGACTTCTCCATCTTTTGTCTGTCTGTC-GAC
1 TTAGACCTGAGAGACTTCTCCATCTTTTATCTGCCCATCAG-T
* * * * *
2049064 TTAGA-CTCAGAGACTTCTTCATCTTTTATTTGCCCTTCTGT
1 TTAGACCTGAGAGACTTCTCCATCTTTTATCTGCCCATCAGT
* * * * * * *
2049105 TTAGACCCGAAAGACTTCTTCA-CTTTCATCTACCTATCGGT
1 TTAGACCTGAGAGACTTCTCCATCTTTTATCTGCCCATCAGT
* * *
2049146 TTAGACCTG-GAGACTTTTCCATCTTTTGTCTGCCCATCAGC
1 TTAGACCTGAGAGACTTCTCCATCTTTTATCTGCCCATCAGT
* * * *
2049187 TTAGACCCGGGAGACTTTTTCATCTTT
1 TTAGACCTGAGAGACTTCTCCATCTTT
2049214 CGTTTACCCG
Statistics
Matches: 145, Mismatches: 41, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
40 9 0.06
41 73 0.50
42 61 0.42
43 2 0.01
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (42 bp):
TTAGACCTGAGAGACTTCTCCATCTTTTATCTGCCCATCAGT
Found at i:2049273 original size:84 final size:84
Alignment explanation
Indices: 2049073--2049633 Score: 370
Period size: 84 Copynumber: 6.7 Consensus size: 84
2049063 CTTAGACTCA
* * * * * *
2049073 GAGACTTCTTCATCTTTTATTTGCCCT-TCTGTTTAGACCCGAAAGACTTCTTCA-CTTTCATCT
1 GAGACTTCTTCATCTTTTGTCT-ACCTGTCGGCTTAGACCCGAGAGACTTCTTCATCTTTCATCT
** *
2049136 ACCTATCGGTTTAGACCT-G
65 ACCCGTCGGCTTAGACCTGG
* ** * * * * *
2049155 GAGACTT-TTCCATCTTTTGTCTGCCCATCAGCTTAGACCCGGGAGACTTTTTCATCTTTCGTTT
1 GAGACTTCTT-CATCTTTTGTCTACCTGTCGGCTTAGACCCGAGAGACTTCTTCATCTTTCATCT
* * *
2049219 ACCCGTCGGCTCAAACTTGG
65 ACCCGTCGGCTTAGACCTGG
* * * * ** **
2049239 GAGGCTTCTTCGTCTTTTGTCTACCTGTCGGCTTAGA-CCTAAAGGACTTCCACATCTTTTGTCT
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGAGA-GACTTCTTCATCTTTCATCT
* * * *
2049303 ACCCATCAG-TTTGACCTAG
65 ACCCGTCGGCTTAGACCTGG
* * * * * *
2049322 GAGACTTCTTCAT-TTTTCGTCAACCCGTCAGCTTAGACTC-AGGAGACTTCTTCATCTTTTATT
1 GAGACTTCTTCATCTTTT-GTCTACCTGTCGGCTTAGACCCGA-GAGACTTCTTCATCTTTCATC
* *
2049385 TTCCCGTCGGCTTAGACTTGG
64 TACCCGTCGGCTTAGACCTGG
* ** * *
2049406 GAGACTTCTTCAACTTTCATCTACCTGTCGGTTTAGACCCGAGAGACTTCTTCAACTTTCATCTA
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGAGAGACTTCTTCATCTTTCATCTA
* * *
2049471 CCTGTCGGTTTAGACCCGG
66 CCCGTCGGCTTAGACCTGG
* * * * * ** *
2049490 GAGACTTCTTCATCTTTTGTCTACCTATCGGCTCA-AACCTAGAAGGCTTCTTCATCCATCGTCT
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGAG-AGACTTCTTCATCTTTCATCT
* * * *
2049554 GCCCATCGGCTCAG-TCTCGG
65 ACCCGTCGGCTTAGACCT-GG
* * * * * *
2049574 GAGACTTTCTTTAT-TAATCGTCTACCTGTTGGCTCAGACCCGAGAAACTTCTTCATCTTT
1 GAGAC-TTCTTCATCT-TTTGTCTACCTGTCGGCTTAGACCCGAGAGACTTCTTCATCTTT
2049634 TTTTTCCCTG
Statistics
Matches: 360, Mismatches: 102, Indels: 31
0.73 0.21 0.06
Matches are distributed among these distances:
81 4 0.01
82 43 0.12
83 83 0.23
84 184 0.51
85 41 0.11
86 5 0.01
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (84 bp):
GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGAGAGACTTCTTCATCTTTCATCTA
CCCGTCGGCTTAGACCTGG
Found at i:2049334 original size:125 final size:126
Alignment explanation
Indices: 2049116--2049401 Score: 301
Period size: 125 Copynumber: 2.3 Consensus size: 126
2049106 TAGACCCGAA
* ** * ** * *
2049116 AGACTTCTTCA-CTTTCATCTACCTATCGGTTTAGACCTGGA-GACTTTTC-CATCTTTTGTCTG
1 AGACTTCTTCATCTTTTATCTACCCGTCGGCTTAGACCTAAAGGAC-TTCCACATCTTTTGTCTA
* * ** * **
2049178 CCCATCAGCTTAGACCCGGGAGACTTTTTCATCTTTCGTTTACCCGTCGGCTCAAACTTGGG
65 CCCATCAGCTTAGACCCAGGAGACTTCTTCATCTTTCGTCAACCCGTCAGCTCAAACTCAGG
* * * *
2049240 AGGCTTCTTCGTCTTTTGTCTACCTGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTGTCTAC
1 AGACTTCTTCATCTTTTATCTACCCGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTGTCTAC
* * * * *
2049305 CCATCAG-TTTGACCTAGGAGACTTCTTCATTTTTCGTCAACCCGTCAGCTTAGACTCAGG
66 CCATCAGCTTAGACCCAGGAGACTTCTTCATCTTTCGTCAACCCGTCAGCTCAAACTCAGG
* *
2049365 AGACTTCTTCATCTTTTATTTTCCCGTCGGCTTAGAC
1 AGACTTCTTCATCTTTTATCTACCCGTCGGCTTAGAC
2049402 TTGGGAGACT
Statistics
Matches: 131, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
124 9 0.07
125 99 0.76
126 23 0.18
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (126 bp):
AGACTTCTTCATCTTTTATCTACCCGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTGTCTAC
CCATCAGCTTAGACCCAGGAGACTTCTTCATCTTTCGTCAACCCGTCAGCTCAAACTCAGG
Found at i:2049357 original size:167 final size:167
Alignment explanation
Indices: 2049133--2049444 Score: 405
Period size: 167 Copynumber: 1.9 Consensus size: 167
2049123 TTCACTTTCA
* * ** *
2049133 TCTACCTATCGGTTTAGACCTGGAGACTTTTCCATCTTTTGTCTGCCCATCAGCTTAGACCCGGG
1 TCTACCCATCAGTTTAGACCTGGAGACTTTTCCATCTTTTGTCAACCCATCAGCTTAGACCCAGG
* * * ** **
2049198 AGACTTTTTCATCTTTCGTTTACCCGTCGGCTCAAACTTGGGAGGCTTCTTCGTCTTTTGTCTAC
66 AGACTTCTTCATCTTTCATTTACCCGTCGGCTCAAACTTGGGAGACTTCTTCAACTTTCATCTAC
2049263 CTGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTG
131 CTGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTG
* *
2049300 TCTACCCATCAGTTT-GACCTAGGAGACTTCTT-CAT-TTTTCGTCAACCCGTCAGCTTAGACTC
1 TCTACCCATCAGTTTAGACCT-GGAGACTT-TTCCATCTTTT-GTCAACCCATCAGCTTAGACCC
* * * *
2049362 AGGAGACTTCTTCATCTTTTATTTTCCCGTCGGCTTAGACTTGGGAGACTTCTTCAACTTTCATC
63 AGGAGACTTCTTCATCTTTCATTTACCCGTCGGCTCAAACTTGGGAGACTTCTTCAACTTTCATC
*
2049427 TACCTGTCGGTTTAGACC
128 TACCTGTCGGCTTAGACC
2049445 CGAGAGACTT
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
166 9 0.07
167 112 0.91
168 2 0.02
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.37
Consensus pattern (167 bp):
TCTACCCATCAGTTTAGACCTGGAGACTTTTCCATCTTTTGTCAACCCATCAGCTTAGACCCAGG
AGACTTCTTCATCTTTCATTTACCCGTCGGCTCAAACTTGGGAGACTTCTTCAACTTTCATCTAC
CTGTCGGCTTAGACCTAAAGGACTTCCACATCTTTTG
Found at i:2049513 original size:42 final size:42
Alignment explanation
Indices: 2049032--2049649 Score: 318
Period size: 42 Copynumber: 14.8 Consensus size: 42
2049022 TTACACTTGA
* ** * * *
2049032 GAGACTTCTCCATCTTTTGTCTGTCTGTCGACTTAGACTC-A
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * * * * *
2049073 GAGACTTCTTCATCTTTTATTTGCCCT-TCTGTTTAGACCCGA
1 GAGACTTCTTCATCTTTTGTCT-ACCTGTCGGCTTAGACCCGG
* ** * * *
2049115 AAGACTTCTTCA-CTTTCATCTACCTATCGGTTTAGA-CCTG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* ** *
2049155 GAGACTT-TTCCATCTTTTGTCTGCCCATCAGCTTAGACCCGG
1 GAGACTTCTT-CATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * * * * * **
2049197 GAGACTTTTTCATCTTTCGTTTACCCGTCGGCTCAAACTTGG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * **
2049239 GAGGCTTCTTCGTCTTTTGTCTACCTGTCGGCTTAGA-CCTA
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* ** ** * * **
2049280 AAGGACTTCCACATCTTTTGTCTACCCATCAG-TTTGACCTAG
1 GA-GACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * * * *
2049322 GAGACTTCTTCAT-TTTTCGTCAACCCGTCAGCTTAGACTCAG
1 GAGACTTCTTCATCTTTT-GTCTACCTGTCGGCTTAGACCCGG
* * * * **
2049364 GAGACTTCTTCATCTTTTATTTTCCCGTCGGCTTAGACTTGG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* ** * *
2049406 GAGACTTCTTCAACTTTCATCTACCTGTCGGTTTAGACCCGA
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* ** *
2049448 GAGACTTCTTCAACTTTCATCTACCTGTCGGTTTAGACCCGG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * * **
2049490 GAGACTTCTTCATCTTTTGTCTACCTATCGGCTCAAACCTAG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * ** * * ** * * *
2049532 AAGGCTTCTTCATCCATCGTCTGCCCATCGGCTCAGTCTCGG
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
* * * * * *
2049574 GAGACTTTCTTTAT-TAATCGTCTACCTGTTGGCTCAGACCCGA
1 GAGAC-TTCTTCATCT-TTTGTCTACCTGTCGGCTTAGACCCGG
* * * *
2049617 GAAACTTCTTCATCTTTTTTTTCCCTGTCGGCT
1 GAGACTTCTTCATCTTTTGTCTACCTGTCGGCT
2049650 CAGTCTTAAG
Statistics
Matches: 440, Mismatches: 122, Indels: 29
0.74 0.21 0.05
Matches are distributed among these distances:
39 2 0.00
40 17 0.04
41 87 0.20
42 296 0.67
43 38 0.09
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (42 bp):
GAGACTTCTTCATCTTTTGTCTACCTGTCGGCTTAGACCCGG
Found at i:2050980 original size:166 final size:166
Alignment explanation
Indices: 2050642--2051007 Score: 414
Period size: 166 Copynumber: 2.2 Consensus size: 166
2050632 TTTTCGAGAG
* * *
2050642 GATTTTTCTTAATTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTCAG
1 GATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTAAG
**** * ** **
2050707 TTTTCAATTTTTTTTTTCATTTTCATGAGTTTTTTATTTTTTCCTTAAAACTCAATTTTTTTTAA
66 TTTTCAAAAAATTTATTCATTTTCATGAGTTTTGGATTTTTTCCTTAAAACTCAATTTTTTCCAA
* * * * * *
2050772 ATACGGTGTTTTCTACTCTGTAATTTTTTTCGAGGG
131 AAACCGAGTTTTCTACTCCGTAATTTTTTTCAAGGA
*
2050808 GATTTTTCTCAGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTAAG
1 GATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTAAG
** * * **
2050873 TTTT-AAAAAATTTATTCATTTTCATGAGTTTTGGATTTTTTTGTTGAAATTCTCTTTTTTCCAA
66 TTTTCAAAAAATTTATTCATTTTCATGAGTTTTGGATTTTTTCCTTAAAACTCAATTTTTTCCAA
*
2050937 GAAACCGAGTTTTCCT-TTCCGTAAATTTTTTT-AAGGA
131 -AAACCGAGTTTT-CTACTCCGT-AATTTTTTTCAAGGA
* ** *
2050974 GATTTTTCTTGGTTTAGAATTTTTAAAACTCATC
1 GATTTTTCTTAGTTTTCAATTTTTAAAATTCATC
2051008 TAATGTTGTT
Statistics
Matches: 166, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
165 45 0.27
166 110 0.66
167 11 0.07
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (166 bp):
GATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAATTAAG
TTTTCAAAAAATTTATTCATTTTCATGAGTTTTGGATTTTTTCCTTAAAACTCAATTTTTTCCAA
AAACCGAGTTTTCTACTCCGTAATTTTTTTCAAGGA
Found at i:2052295 original size:162 final size:160
Alignment explanation
Indices: 2051911--2052359 Score: 573
Period size: 162 Copynumber: 2.8 Consensus size: 160
2051901 AACATCTATT
* * * *
2051911 ATTTTTTAATCTTTTGTATTCCTATAGGTATCCATAGGAGTATAAAAGATTTCGAAAAACTTGTC
1 ATTTTATAATCTTTTATATTCCTATAGGTATCCGTAGG-GTATAAAAGATTTCGAAAAACTT-TT
* *
2051976 ATATCTTTTAAGGTATCCATTAAGATACGAAATGATTTTTTTCCAAAAGTAAATAAATAATATTA
64 ATATCTTTT-AGGTATCCATTAAGGTACGAAATGATTTTTTT-CAAAAATAAATAAATAATATTA
*
2052041 AATTCACTCCCTGTTAATTACAAAAATGTTAATC
127 AATTCACTCCCTGTTAATTACAAAAATATTAATC
* * * * *
2052075 ATTTTGTAATTTTTTATGTTCC-ATGGGTATCCGTAGGGGTATAAAAGATTACGAAAAACTCTTT
1 ATTTTATAATCTTTTATATTCCTATAGGTATCCGTA-GGGTATAAAAGATTTCGAAAAACT-TTT
* * *
2052139 TTATCTTTTTGGATATCCATTAAGGTACGAAAAG-TTTTTTTCAAAAATAAATAAATAATATTAA
64 ATATCTTTTAGG-TATCCATTAAGGTACGAAATGATTTTTTTCAAAAATAAATAAATAATATTAA
2052203 ATTCACTCTCC-GTTAATTACAAAAAATATTAATC
128 ATTCACTC-CCTGTTAATTAC-AAAAATATTAATC
* *
2052237 A-TTTATAATCTTTTATATTCCTATAGGTATCCGTACGGGTACAAAAGATTTTGAAAAACTTTTC
1 ATTTTATAATCTTTTATATTCCTATAGGTATCCGTA-GGGTATAAAAGATTTCGAAAAACTTTT-
* * *
2052301 ATATCTTTTCGGGTATCCATTAAGGTACGAAATGATCTTTTTCCAAACATAAATAAATA
64 ATATCTTTT-AGGTATCCATTAAGGTACGAAATGAT-TTTTTTCAAAAATAAATAAATA
2052360 TTAATCATTT
Statistics
Matches: 248, Mismatches: 27, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
161 59 0.24
162 85 0.34
163 63 0.25
164 41 0.17
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (160 bp):
ATTTTATAATCTTTTATATTCCTATAGGTATCCGTAGGGTATAAAAGATTTCGAAAAACTTTTAT
ATCTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCAAAAATAAATAAATAATATTAAATT
CACTCCCTGTTAATTACAAAAATATTAATC
Found at i:2070413 original size:9 final size:9
Alignment explanation
Indices: 2070399--2070426 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
2070389 CATCAAGGAC
2070399 GATGAAGAT
1 GATGAAGAT
2070408 GATGAAGAT
1 GATGAAGAT
2070417 GATGAAGAT
1 GATGAAGAT
2070426 G
1 G
2070427 TTGATGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (9 bp):
GATGAAGAT
Found at i:2077444 original size:20 final size:20
Alignment explanation
Indices: 2077419--2077488 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
2077409 ACCCTAAAAA
*
2077419 GTATCGATACAAATTTAATT
1 GTATCGATACAAATTGAATT
** *
2077439 GTATCGATACATGTTGCATT
1 GTATCGATACAAATTGAATT
*** *
2077459 GTATCGATACCTGTTGCATT
1 GTATCGATACAAATTGAATT
2077479 GTATCGATAC
1 GTATCGATAC
2077489 TTCAAAAAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (20 bp):
GTATCGATACAAATTGAATT
Found at i:2091453 original size:20 final size:21
Alignment explanation
Indices: 2091428--2091483 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
2091418 TTTTGGACCA
*
2091428 AAATGTATTGATACATA-GCC
1 AAATGTATCGATACATAGGCC
*
2091448 AAATGTATCAATACATAGGCC
1 AAATGTATCGATACATAGGCC
*
2091469 -AACGTATCGATACAT
1 AAATGTATCGATACAT
2091484 TTAAGTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (21 bp):
AAATGTATCGATACATAGGCC
Found at i:2092053 original size:15 final size:15
Alignment explanation
Indices: 2092033--2092073 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
2092023 ATAGCCGTTA
2092033 AAAAACAAAAGAAAT
1 AAAAACAAAAGAAAT
*
2092048 AAAAACAAATTGAAAT
1 AAAAACAAA-AGAAAT
2092064 AAAAA-AAAAG
1 AAAAACAAAAG
2092074 TAGCTCGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 12 0.52
16 10 0.43
ACGTcount: A:0.78, C:0.05, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAACAAAAGAAAT
Found at i:2093066 original size:21 final size:21
Alignment explanation
Indices: 2093037--2093077 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2093027 AAAGGTCAAA
2093037 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
*
2093059 ACCC-AGAAGTATCGTTACA
1 ACCCTAGAAGTATCGATACA
2093078 TATTGCTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 2 0.11
22 4 0.22
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:2093104 original size:13 final size:13
Alignment explanation
Indices: 2093086--2093110 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2093076 CATATTGCTT
2093086 TGTATCGATACAC
1 TGTATCGATACAC
2093099 TGTATCGATACA
1 TGTATCGATACA
2093111 TGATCTTGGT
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:2098946 original size:52 final size:52
Alignment explanation
Indices: 2098865--2098998 Score: 214
Period size: 52 Copynumber: 2.6 Consensus size: 52
2098855 CCTGAAATAT
**
2098865 GAAAATTTATCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
** * *
2098917 GCGAATTTGCTTGCATGTATCGATACATTTTATAATGTATCGATACATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
2098969 GAAAATTTGCCTGCATGTATCGATACATTT
1 GAAAATTTGCCTGCATGTATCGATACATTT
2098999 GGACCAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGG
Found at i:2106358 original size:21 final size:21
Alignment explanation
Indices: 2106329--2106399 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
2106319 TTCATTTCTC
*
2106329 TCTTCTTTTTGCTGTTTCGAT
1 TCTTTTTTTTGCTGTTTCGAT
*
2106350 TCTTTTTTTTGCTATTTCGAT
1 TCTTTTTTTTGCTGTTTCGAT
2106371 TC--TTTTTT--TGTTTCGATT
1 TCTTTTTTTTGCTGTTTCGA-T
2106389 TCTTTTTTTTG
1 TCTTTTTTTTG
2106400 TTTTGATTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
17 7 0.16
18 3 0.07
19 6 0.14
20 6 0.14
21 21 0.49
ACGTcount: A:0.06, C:0.14, G:0.11, T:0.69
Consensus pattern (21 bp):
TCTTTTTTTTGCTGTTTCGAT
Found at i:2106396 original size:18 final size:18
Alignment explanation
Indices: 2106331--2106408 Score: 86
Period size: 18 Copynumber: 4.2 Consensus size: 18
2106321 CATTTCTCTC
**
2106331 TTCTTTTTGCTGTTTCGA
1 TTCTTTTTTTTGTTTCGA
2106349 TTCTTTTTTTTGCTATTTCGA
1 TTCTTTTTTTTG---TTTCGA
2106370 TTC-TTTTTTTGTTTCGA
1 TTCTTTTTTTTGTTTCGA
*
2106387 TTTCTTTTTTTTGTTTTGA
1 -TTCTTTTTTTTGTTTCGA
2106406 TTC
1 TTC
2106409 CTCTCTTGTC
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 6 0.12
18 16 0.31
19 13 0.25
20 8 0.15
21 9 0.17
ACGTcount: A:0.06, C:0.13, G:0.12, T:0.69
Consensus pattern (18 bp):
TTCTTTTTTTTGTTTCGA
Found at i:2106459 original size:13 final size:13
Alignment explanation
Indices: 2106443--2106467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2106433 TTTTTTCCCC
2106443 TCTTTTTTTTCTT
1 TCTTTTTTTTCTT
2106456 TCTTTTTTTTCT
1 TCTTTTTTTTCT
2106468 CTTCCACAAC
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TCTTTTTTTTCTT
Found at i:2108132 original size:13 final size:13
Alignment explanation
Indices: 2108114--2108140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2108104 TGCCACTTTC
2108114 ATGTATCGATACA
1 ATGTATCGATACA
2108127 ATGTATCGATACA
1 ATGTATCGATACA
2108140 A
1 A
2108141 AGCATAATAT
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:2109673 original size:57 final size:56
Alignment explanation
Indices: 2109603--2109719 Score: 148
Period size: 56 Copynumber: 2.1 Consensus size: 56
2109593 AGACAATTTA
* * *
2109603 TCTTAAGATATGTCTACTTT-GCACATTATCCTTGATAAAACCA-GCTTATCCATATTG
1 TCTTAACACATGTCTACTTTAG-ACATTAT-CTTGATAAAACAATG-TTATCCATATTG
* *
2109660 TCTTAACACATGTCTACTTTAGACATTATCTTGTTAACACAATGTTATCCATATTG
1 TCTTAACACATGTCTACTTTAGACATTATCTTGATAAAACAATGTTATCCATATTG
2109716 TCTT
1 TCTT
2109720 TAATAAGACA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
56 26 0.49
57 26 0.49
58 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (56 bp):
TCTTAACACATGTCTACTTTAGACATTATCTTGATAAAACAATGTTATCCATATTG
Found at i:2109771 original size:28 final size:27
Alignment explanation
Indices: 2109704--2109806 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 27
2109694 TAACACAATG
*
2109704 TTATCCATATTGTCTTTAATAAGACAAGC
1 TTAT-CATATTGTC-TTAATAAAACAAGC
* * *
2109733 TTATTCGTATTGTCTTAGTAATACAAGC
1 TTA-TCATATTGTCTTAATAAAACAAGC
2109761 TTATCAATATTGTCTTAATAAAACAAGC
1 TTATC-ATATTGTCTTAATAAAACAAGC
* *
2109789 TTACCGATATTATCTTAA
1 TTATC-ATATTGTCTTAA
2109807 CACATATCTA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.03
28 49 0.78
29 11 0.17
30 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.40
Consensus pattern (27 bp):
TTATCATATTGTCTTAATAAAACAAGC
Found at i:2110511 original size:19 final size:18
Alignment explanation
Indices: 2110487--2110550 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
2110477 TTTCAACGAA
2110487 TTGTATCGATACATAAGT
1 TTGTATCGATACATAAGT
2110505 GTTGTATCGATAC--AA--
1 -TTGTATCGATACATAAGT
2110520 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAG-T
*
2110538 TTGTATTGATACA
1 TTGTATCGATACA
2110551 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
TTGTATCGATACATAAGT
Found at i:2110525 original size:13 final size:13
Alignment explanation
Indices: 2110507--2110531 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2110497 ACATAAGTGT
2110507 TGTATCGATACAA
1 TGTATCGATACAA
2110520 TGTATCGATACA
1 TGTATCGATACA
2110532 TAAGTTTTGT
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:2110529 original size:32 final size:32
Alignment explanation
Indices: 2110488--2110558 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
2110478 TTCAACGAAT
2110488 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
2110520 TGTATCGATACATAAGTTTTGTATTGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2110552 TGTATCG
1 TGTATCG
2110559 CTACGAAGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2110621 original size:13 final size:13
Alignment explanation
Indices: 2110603--2110627 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2110593 ATTACTCAAA
2110603 TGTATCGATACAT
1 TGTATCGATACAT
2110616 TGTATCGATACA
1 TGTATCGATACA
2110628 CTAATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2110676 original size:52 final size:52
Alignment explanation
Indices: 2110636--2110764 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
2110626 CACTAATCTT
2110636 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
**
2110688 TGTATCGATACATATAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
2110740 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2110765 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:2113091 original size:53 final size:53
Alignment explanation
Indices: 2113034--2113139 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
2113024 TGTCTATCCG
2113034 ATTATTTCAAGATAATCGGTGGCAATTACGAGATACATTATTACGTTTTCTTT
1 ATTATTTCAAGATAATCGGTGGCAATTACGAGATACATTATTACGTTTTCTTT
2113087 ATTATTTCAAGATAATCGGTGGCAATTACGAGATACATTATTACGTTTTCTTT
1 ATTATTTCAAGATAATCGGTGGCAATTACGAGATACATTATTACGTTTTCTTT
2113140 CTTCTTCCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (53 bp):
ATTATTTCAAGATAATCGGTGGCAATTACGAGATACATTATTACGTTTTCTTT
Found at i:2115719 original size:20 final size:20
Alignment explanation
Indices: 2115696--2115752 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
2115686 AAGTACCTAG
*
2115696 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* *
2115716 ATGTATCGATACGTTCTTCG
1 ATGTATCGATACATTCTTCA
2115736 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
2115753 ATCTTTTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2117973 original size:27 final size:26
Alignment explanation
Indices: 2117943--2118013 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
2117933 TTTATTCATC
* *
2117943 AGGGATACTCGAACCCCATTCCTCTGA
1 AGGGATACTCAAACCCCATTCCTC-CA
* *
2117970 AGGGATACTTAAATCCCATTCCTCCA
1 AGGGATACTCAAACCCCATTCCTCCA
*
2117996 AGGGGATACTCCAACCCC
1 A-GGGATACTCAAACCCC
2118014 GCTTTTAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 2 0.06
27 34 0.94
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (26 bp):
AGGGATACTCAAACCCCATTCCTCCA
Found at i:2123434 original size:34 final size:34
Alignment explanation
Indices: 2123391--2123477 Score: 165
Period size: 34 Copynumber: 2.6 Consensus size: 34
2123381 TTAATTTCTT
2123391 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
*
2123425 TGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
2123459 TGTTAGGTGTGTTAGGTGA
1 TGTTAGGTGTGTTAGGTGA
2123478 GAATGTTAGG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.41
Consensus pattern (34 bp):
TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
Found at i:2123476 original size:22 final size:22
Alignment explanation
Indices: 2123444--2123499 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
2123434 TGTTAGGTGA
*
2123444 TGTGTTTGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
2123466 TGTGTTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
2123488 TGTGTTAGGTGA
1 TGTGTTAGGTGA
2123500 TGTATTTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:2123489 original size:56 final size:56
Alignment explanation
Indices: 2123417--2123533 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
2123407 TGATGTATTT
*
2123417 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
2123473 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
2123529 GGTGA
1 GGTGA
2123534 TGTGTTTGGT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (56 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
Found at i:2123515 original size:34 final size:34
Alignment explanation
Indices: 2123473--2123562 Score: 171
Period size: 34 Copynumber: 2.6 Consensus size: 34
2123463 AGGTGTGTTA
2123473 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
*
2123507 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
2123541 GGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTA
2123563 ACATGTATAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:2123544 original size:90 final size:90
Alignment explanation
Indices: 2123391--2123562 Score: 344
Period size: 90 Copynumber: 1.9 Consensus size: 90
2123381 TTAATTTCTT
2123391 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
2123456 GAATGTTAGGTGTGTTAGGTGAGAA
66 GAATGTTAGGTGTGTTAGGTGAGAA
2123481 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
2123546 GAATGTTAGGTGTGTTA
66 GAATGTTAGGTGTGTTA
2123563 ACATGTATAT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 82 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.41
Consensus pattern (90 bp):
TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGA
GAATGTTAGGTGTGTTAGGTGAGAA
Found at i:2125121 original size:16 final size:17
Alignment explanation
Indices: 2125094--2125130 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2125084 TTTTAAATTT
2125094 TAAATTTGAAAAATAAA
1 TAAATTTGAAAAATAAA
*
2125111 TAAATTT-AAAAATATA
1 TAAATTTGAAAAATAAA
2125127 TAAA
1 TAAA
2125131 AAAATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAATTTGAAAAATAAA
Found at i:2127602 original size:17 final size:17
Alignment explanation
Indices: 2127581--2127629 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2127571 CTTAATACAT
*
2127581 AATATAATTATAAATATG
1 AATATAATAAT-AATATG
*
2127599 -ATATAAAAATAATATG
1 AATATAATAATAATATG
*
2127615 AATATAATATTAATA
1 AATATAATAATAATA
2127630 AATAAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
AATATAATAATAATATG
Found at i:2127603 original size:11 final size:11
Alignment explanation
Indices: 2127581--2127633 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
2127571 CTTAATACAT
2127581 AATATAATTATA
1 AATATAA-TATA
*
2127593 AATATGATATA
1 AATATAATATA
* *
2127604 AAAATAATATG
1 AATATAATATA
*
2127615 AATATAATATT
1 AATATAATATA
2127626 AATA-AATA
1 AATATAATA
2127634 AATATTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
10 4 0.11
11 25 0.71
12 6 0.17
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AATATAATATA
Found at i:2127675 original size:15 final size:14
Alignment explanation
Indices: 2127653--2127758 Score: 67
Period size: 15 Copynumber: 7.2 Consensus size: 14
2127643 AAAAAATTTT
2127653 AATATAAATTATTA
1 AATATAAATTATTA
2127667 AATATTAAAATTTATATA
1 AATA-T-AAA-TTAT-TA
* *
2127685 AATAAAAATATTTTA
1 AATATAAAT-TATTA
2127700 AATA-AAATTA-TA
1 AATATAAATTATTA
*
2127712 ATATAATAAAATATATA
1 A-AT-ATAAATTAT-TA
*
2127729 AA-A-ATATTATTA
1 AATATAAATTATTA
2127741 ATATATAAATTATTA
1 A-ATATAAATTATTA
2127756 AAT
1 AAT
2127759 TTATTATTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
12 6 0.08
13 9 0.12
14 13 0.18
15 22 0.31
16 9 0.12
17 7 0.10
18 6 0.08
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATATAAATTATTA
Found at i:2127708 original size:46 final size:45
Alignment explanation
Indices: 2127642--2127734 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 45
2127632 TAAATATTTT
* * *
2127642 TAAAAAATTTTAATATAAATTATTAA-ATATTAAAATTTATATAAA
1 TAAAAAATTTTAATATAAATTA-TAATATAATAAAATATATAAAAA
2127687 TAAAAATATTTTAA-ATAAAATTATAATATAATAAAATATATAAAAA
1 TAAAAA-ATTTTAATAT-AAATTATAATATAATAAAATATATAAAAA
2127733 TA
1 TA
2127735 TTATTAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
45 11 0.26
46 31 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (45 bp):
TAAAAAATTTTAATATAAATTATAATATAATAAAATATATAAAAA
Found at i:2134530 original size:79 final size:77
Alignment explanation
Indices: 2134111--2134550 Score: 328
Period size: 79 Copynumber: 5.5 Consensus size: 77
2134101 GATAAAAATG
* * ** * * *
2134111 GGGTTGAAGTATCCACTTGAAAATAACGAGGCTAGAGTATCCCCGATTATGAAAAATTAGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCGATGATGAAAAATTAGTG---
* *
2134176 TTTTAGAATAAAA-CC
62 TTTTAAAATAAAATCA
* * * * * * * *
2134191 GAGGTTGGAGTATCCCCTTAGAAATAACGAAGTTGGAGTATCCTCGACGATAAAAAATCAATGTT
1 G-GGTTGGAGTATCCCCTCAAAAATAACG-GGTTGGAGTATCCCCGATGATGAAAAATTAGTGTT
2134256 TTAGAAATAAAATCA
64 TTA-AAATAAAATCA
* * * * * * * **
2134271 GGATTAGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCTCCGATGGTGGAAAATCGGTGTTT
1 GGGTTGGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCCGATGATGAAAAATTAGTGTTT
**
2134336 TAAAAATAAAATTG
65 T-AAAATAAAATCA
* * * ** * * *
2134350 GGGTTGGAGTATCACCTCGAAAATAATAGGGTTGGAGTATCTTCAATGGTG-GAAATTCAGTGTT
1 GGGTTGGAGTATCCCCTCAAAAATAA-CGGGTTGGAGTATCCCCGATGATGAAAAATT-AGTGTT
2134414 TTACAAATAAAATC-
64 TTA-AAATAAAATCA
* * *
2134428 GAGGTTGGAGTATTCCCTCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAATTAGTATT
1 G-GGTTGGAGTATCCCCTCAAAAATAACGGG-TTGGAGTATCCCCGATGATGAAAAATTAGTGTT
2134493 TTGAAAATAAAATCA
64 TT-AAAATAAAATCA
* * * *
2134508 GGGTTGGAGTATCTCTTTAAAAATAACGGGGTTGGAGTTTCCC
1 GGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTATCCC
2134551 TTCAGAAATA
Statistics
Matches: 290, Mismatches: 57, Indels: 27
0.78 0.15 0.07
Matches are distributed among these distances:
78 14 0.05
79 213 0.73
80 15 0.05
81 48 0.17
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCTCAAAAATAACGGGTTGGAGTATCCCCGATGATGAAAAATTAGTGTTTT
AAAATAAAATCA
Found at i:2134531 original size:158 final size:157
Alignment explanation
Indices: 2134145--2134545 Score: 385
Period size: 158 Copynumber: 2.5 Consensus size: 157
2134135 AACGAGGCTA
* * * * *
2134145 GAGTATCCCCGATTATGAAAAATTAGTGTTTTTTTAGAATAAAA-CCGAGGTTGGAGTATCCCCT
1 GAGTATCCCCGATTATGAAAAATTA--GTATTTTAAAAATAAAATCAG-GGTTGGAGTATCACCT
* * * * *
2134209 TAGAAATAACGAAGTTGGAGTATCCTCGACGATAAAAAATCAATGTTTTAGAAATAAAATCAGGA
63 TAAAAATAAAG-GGTTGGAGTATCCTCAACGATAAAAAATCAATGTTTTACAAATAAAATCAGGA
*
2134274 TTAGAGTATCCCCTCGAAAATAATAGGGTTG
127 TTAGAGTATCCCCTCAAAAATAATAGGGTTG
* ** * ** * ** **
2134305 GAGTATCTCCGATGGTGGAAAATCGGTGTTTTAAAAATAAAATTGGGGTTGGAGTATCACCTCGA
1 GAGTATCCCCGATTATGAAAAATTAGTATTTTAAAAATAAAATCAGGGTTGGAGTATCACCTTAA
* * * ** * *
2134370 AAATAATAGGGTTGGAGTATCTTCAATGGTGGAAATTCAGTGTTTTACAAATAAAATCGAGG-TT
66 AAATAA-AGGGTTGGAGTATCCTCAACGATAAAAAATCAATGTTTTACAAATAAAATC-AGGATT
* * *
2134434 GGAGTATTCCCTCAAAAATAA-CGGGATTG
129 AGAGTATCCCCTCAAAAATAATAGGG-TTG
* * *
2134463 GAGTATCCCCGATTATGAAAAATTAGTATTTTGAAAATAAAATCAGGGTTGGAGTATCTCTTTAA
1 GAGTATCCCCGATTATGAAAAATTAGTATTTTAAAAATAAAATCAGGGTTGGAGTATCACCTTAA
*
2134528 AAATAACGGGGTTGGAGT
66 AAATAA-AGGGTTGGAGT
2134546 TTCCCTTCAG
Statistics
Matches: 191, Mismatches: 46, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
157 3 0.02
158 164 0.86
159 5 0.03
160 19 0.10
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (157 bp):
GAGTATCCCCGATTATGAAAAATTAGTATTTTAAAAATAAAATCAGGGTTGGAGTATCACCTTAA
AAATAAAGGGTTGGAGTATCCTCAACGATAAAAAATCAATGTTTTACAAATAAAATCAGGATTAG
AGTATCCCCTCAAAAATAATAGGGTTG
Found at i:2134539 original size:28 final size:28
Alignment explanation
Indices: 2134508--2134578 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
2134498 AATAAAATCA
* *
2134508 GGGTTGGAGTATCTCTTTAAAAATAACG
1 GGGTTGGAGTATCCCTTCAAAAATAACG
* * *
2134536 GGGTTGGAGTTTCCCTTCAGAAATAATG
1 GGGTTGGAGTATCCCTTCAAAAATAACG
2134564 GGGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
2134579 GATTGTGGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
GGGTTGGAGTATCCCTTCAAAAATAACG
Found at i:2134541 original size:107 final size:107
Alignment explanation
Indices: 2134422--2134653 Score: 287
Period size: 107 Copynumber: 2.2 Consensus size: 107
2134412 TTTTACAAAT
*
2134422 AAAAT-CGAGGTTGGAGTATTCCC-TCAAAAATAACGGGATTGGAGTATCCCCGATTATGAAAAA
1 AAAATACGGGGTTGGAGTATTCCCTTCAAAAATAACGGGATTGGAGTAT-CCCGATTATGAAAAA
* **
2134485 TTAG-TATTTTGAAAATAAAATC-AGGGTTGGAGTATCTCTTTA-
65 TCAGTTATTTTGAAAATAAAATCGA-GGTTGGAGTATC-CCCTAG
* * * * *
2134527 AAAATAACGGGGTTGGAGT-TTCCCTTCAGAAATAATGGGGTTGGAGTATCCCGATTGTGGAAAA
1 AAAAT-ACGGGGTTGGAGTATTCCCTTCAAAAATAACGGGATTGGAGTATCCCGATTATGAAAAA
* *
2134591 TCAGTTGTTTTGGAAATAAAATCGAGGTTGGAGTATCCCCTAG
65 TCAGTTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTAG
2134634 AAAATACGGGGTTGGAGTAT
1 AAAATACGGGGTTGGAGTAT
2134654 CCCCGATGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
105 5 0.05
106 37 0.34
107 66 0.61
108 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (107 bp):
AAAATACGGGGTTGGAGTATTCCCTTCAAAAATAACGGGATTGGAGTATCCCGATTATGAAAAAT
CAGTTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCCTAG
Found at i:2134620 original size:79 final size:78
Alignment explanation
Indices: 2134537--2134689 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 78
2134527 AAAATAACGG
* * * * *
2134537 GGTTGGAGTTTCCCTTCAG-AAATAATGGGGTTGGAGTAT-CCCGAT-TGTGGAAAATCAGTTGT
1 GGTTGGAGTATCCCCT-AGAAAAT-ACGGGGTTGGAGTATCCCCGATGT-TGGAAAATC-GATAT
*
2134599 TTTGGAAATAAAATCGA
62 TTTAGAAATAAAATCGA
2134616 GGTTGGAGTATCCCCTAGAAAATACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTTTA
1 GGTTGGAGTATCCCCTAGAAAATACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTTTA
2134681 GAAATAAAA
66 GAAATAAAA
2134690 ACATCAATGA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
78 31 0.48
79 33 0.51
80 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (78 bp):
GGTTGGAGTATCCCCTAGAAAATACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTTTA
GAAATAAAATCGA
Found at i:2134649 original size:78 final size:79
Alignment explanation
Indices: 2134537--2134689 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 79
2134527 AAAATAACGG
* * * * *
2134537 GGTTGGAGTTTCCCTTCAGAAATAATGGGGTTGGAGTAT-CCCGAT-TGTGGAAAATCAGTTGTT
1 GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGT-TGGAAAATC-GATATT
*
2134600 TTGGAAATAAAATCGA
64 TTAGAAATAAAATCGA
2134616 GGTTGGAGTATCCCCT-AGAAA-ATACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTT
1 GGTTGGAGTATCCCCTCAGAAATA-ACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTT
2134679 TAGAAATAAAA
65 TAGAAATAAAA
2134690 ACATCAATGA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.02
78 34 0.52
79 29 0.45
80 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATGTTGGAAAATCGATATTTT
AGAAATAAAATCGA
Found at i:2136063 original size:40 final size:40
Alignment explanation
Indices: 2136019--2136099 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
2136009 ATTTCATGGA
* *
2136019 ACCTATCAAGTTATTAAATATGCATGAACACACTTAATAT
1 ACCTATCAAGCTATTAAATATACATGAACACACTTAATAT
2136059 ACCTATCAAGCTATTAAATATACATGAACACACTTAATAT
1 ACCTATCAAGCTATTAAATATACATGAACACACTTAATAT
2136099 A
1 A
2136100 TGTTGGAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (40 bp):
ACCTATCAAGCTATTAAATATACATGAACACACTTAATAT
Found at i:2136099 original size:19 final size:19
Alignment explanation
Indices: 2136035--2136099 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
2136025 CAAGTTATTA
*
2136035 AATATGCATGAACACACTT
1 AATATACATGAACACACTT
* *
2136054 AATATACCT-ATCA-AGCTATT
1 AATATACATGAACACA-C--TT
2136074 AAATATACATGAACACACTT
1 -AATATACATGAACACACTT
2136094 AATATA
1 AATATA
2136100 TGTTGGAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
17 1 0.03
18 4 0.11
19 13 0.37
20 4 0.11
21 8 0.23
22 4 0.11
23 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.29
Consensus pattern (19 bp):
AATATACATGAACACACTT
Found at i:2137085 original size:20 final size:20
Alignment explanation
Indices: 2137060--2137115 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2137050 AAAGATGCCT
*
2137060 GAATGTATTGATACATTGAG
1 GAATGTATCGATACATTGAG
2137080 GAATGTATCGATACATTGAG
1 GAATGTATCGATACATTGAG
*
2137100 AAATGTATCGATACAT
1 GAATGTATCGATACAT
2137116 CAGGGTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (20 bp):
GAATGTATCGATACATTGAG
Found at i:2137740 original size:69 final size:65
Alignment explanation
Indices: 2137642--2138211 Score: 302
Period size: 61 Copynumber: 9.0 Consensus size: 65
2137632 AAGGATGAAG
* *
2137642 TAGATAGGTGCTACCAATTTGTGTGGGCTTTAAGATGGAAAAGGAGAGAAGCGTCCTGCTCTTTG
1 TAGA-AGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAA--A-A-AAGCGTCCTGCTCTTTG
2137707 AGGAC
61 AGGAC
* **** ** * * *
2137712 TAGAAGGTGCCACCAGCTTGTGTGGGCTTTTTTTTTTAAAAAAAAGTGTCTTGCTCTTTGGGGAC
1 TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGAC
* **** * * ** *
2137777 TAGAAGGTGCCACCAACTTGTGTGAGCTTTCTTTTTTTTTAAGAAAAAGAAGTATCCTACTCTTT
1 TAGAAGGTGCCACCAACTTGTGTG-G---GC-TTTAAGAT-GGAAAAAAAAGCGTCCTGCTCTTT
2137842 GAGGAC
60 GAGGAC
* * * *
2137848 TAGAAGGTGCCACCAACTTGTGTGGGCTTT--GCA---AGAAGAAAGTGTCCTGCTCTTTGAGGG
1 TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAG-ATGGAAAAAAAAGCGTCCTGCTCTTTGAGGA
2137908 C
65 C
* * * * *
2137909 T-GAAAAGTGCCACCAACTTTTATAGGCTTTGAA-A-GG-----AAAGCATCCTGCTCTTTGAGG
1 TAG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGG
2137966 AC
64 AC
* * * * *
2137968 T-GAAAGGTGCCACCAACTTATGTGGGCTTTAA-AAGG--AAAAGA-CATCCTACTCTTTGAGGA
1 TAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGA
2138028 C
65 C
* * * * * ** * *
2138029 TAGAAGGTGCCAGCAACTTGTATAGGCTTTAA-AAGG--AAAAAGGTATCTTGCTCTTTAAGGAC
1 TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGAC
* * * * * **
2138091 TGGAAGGTGCCACCAACTTGTGTGGTCTTTAA-AAGG---AAAAGGCATCCTGCTCTTTGAAAAC
1 TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGAC
* *
2138152 TA-AA-GTGCCACCAACTTGTGTGGGCTTTAA-AAGG--AAAAGA-CGTCCTGCTCTTTGAGGAC
1 TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGAC
2138211 T
1 T
2138212 GAAAGGATAA
Statistics
Matches: 410, Mismatches: 70, Indels: 51
0.77 0.13 0.10
Matches are distributed among these distances:
58 3 0.01
59 94 0.23
60 6 0.01
61 119 0.29
62 50 0.12
65 42 0.10
66 5 0.01
67 2 0.00
69 29 0.07
70 13 0.03
71 47 0.11
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (65 bp):
TAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGATGGAAAAAAAAGCGTCCTGCTCTTTGAGGAC
Found at i:2137782 original size:65 final size:68
Alignment explanation
Indices: 2137695--2137877 Score: 264
Period size: 71 Copynumber: 2.7 Consensus size: 68
2137685 GAGAGAAGCG
*
2137695 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGTGTGGGCTTTTTTTTTT-A-AAAAA-AA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTTTTTTTTAAGAAAAAGAA
*
2137757 GTG
66 GTA
* * *
2137760 TCTTGCTCTTTGGGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTCTTTTTTTTTAAGAAAAA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGC--T-TTTTTTTTTAAGAAAAA
2137825 GAAGTA
63 GAAGTA
*
2137831 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT
2137878 GCAAGAAGAA
Statistics
Matches: 103, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
65 40 0.39
67 1 0.01
68 11 0.11
69 2 0.02
70 5 0.05
71 44 0.43
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (68 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTTTTTTTTAAGAAAAAGAA
GTA
Found at i:2137971 original size:59 final size:60
Alignment explanation
Indices: 2137830--2138217 Score: 444
Period size: 61 Copynumber: 6.4 Consensus size: 60
2137820 AAAAAGAAGT
* ** * *
2137830 ATCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGAAGAAAGT
1 ATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGC
* * * * * * *
2137891 GTCCTGCTCTTTGAGGGCTGAAAAGTGCCACCAACTTTTATAGGCTTTGAAAGG-AAAGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGC
*
2137950 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGAC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-C
* * * * *
2138011 ATCCTACTCTTTGAGGACT-AGAAGGTGCCAGCAACTTGTATAGGCTTTAAAAGGAAAAAGGT
1 ATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAA-GC
* * * *
2138073 ATCTTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAAAAGGC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GC
**
2138134 ATCCTGCTCTTTGAAAACT-AAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-C
*
2138193 GTCCTGCTCTTTGAGGACTGAAAGG
1 ATCCTGCTCTTTGAGGACTGAAAGG
2138218 ATAAAAGGTT
Statistics
Matches: 276, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
58 1 0.00
59 101 0.37
60 10 0.04
61 113 0.41
62 50 0.18
63 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (60 bp):
ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGC
Found at i:2138046 original size:120 final size:119
Alignment explanation
Indices: 2137830--2138217 Score: 467
Period size: 120 Copynumber: 3.2 Consensus size: 119
2137820 AAAAAGAAGT
* ** * **
2137830 ATCCTACTCTTTGAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAGAAGAAAGTGTC
1 ATCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCATC
* * * *
2137894 CTGCTCTTTGAGGGCTGAAAAGTGCCACCAACTTTTATAGGCTTTGAAAGG-AAAGC
64 CTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGC
*
2137950 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGACATCC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CATCC
* * *
2138015 TACTCTTTGAGGACTAGAAGGTGCCAGCAACTTGTATAGGCTTTAAAAGGAAAAAGGT
65 TGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTATAGGCTTTAAAAGG-AAAA-GC
* * * *
2138073 ATCTTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGTCTTTAAAAGGAAAAGGCATCC
1 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCATCC
** * *
2138138 TGCTCTTTGAAAACTA-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGAC
65 TGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAG-C
*
2138193 GTCCTGCTCTTTGAGGACTGAAAGG
1 ATCCTGCTCTTTGAGGACTGAAAGG
2138218 ATAAAAGGTT
Statistics
Matches: 230, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
119 8 0.03
120 116 0.50
121 28 0.12
122 5 0.02
123 72 0.31
124 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (119 bp):
ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCATCCT
GCTCTTTGAGGACTAGAAGTGCCACCAACTTGTATAGGCTTTAAAAGGAAAAGC
Found at i:2148332 original size:22 final size:22
Alignment explanation
Indices: 2148304--2148348 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
2148294 GGTCAGAACC
2148304 ATGTCTTCACGGTTAAAAGTGA
1 ATGTCTTCACGGTTAAAAGTGA
2148326 ATGTCTTCACGGTTAAAAGTGA
1 ATGTCTTCACGGTTAAAAGTGA
2148348 A
1 A
2148349 ACACCGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGTCTTCACGGTTAAAAGTGA
Found at i:2150972 original size:79 final size:78
Alignment explanation
Indices: 2150902--2151477 Score: 531
Period size: 79 Copynumber: 7.3 Consensus size: 78
2150892 ATCCGTTTGG
* * * * *
2150902 AAATAATGGGGTTAGAGTATCCGCGATTGTGGAAAATA-AGTGTTTCAGAAATAAAGCCAGGGTT
1 AAATAATAGGGTTGGAGTATCC-CGATTGTGGAAAATAGA-TGTTTTAGAAATAAAACCGGGGTT
* *
2150966 GGAGTATCCCCTCGA
64 GGAGTATCCCTTCAA
* * *
2150981 AAATAATAGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTG
1 AAATAATAGGGTTGGAGTATCC-CGATTGTGGAAAATAGATGTTTTAGAAATAAAACCGGGGTTG
2151046 GAGTATCCCTTCAA
65 GAGTATCCCTTCAA
* * * * * * *
2151060 AAATAATAAGGTTGGGGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGATTA
1 AAATAATAGGGTTGGAGTATCC-CGATTGTGGAAAATAGATGTTTTAGAAATAAAACCGGGGTTG
* *
2151125 GAGTATCTCTTTAA
65 GAGTATCCCTTCAA
** * * * *
2151139 AAATAACGGGGTTTGAGTATCCCTGA-CGATGGAAAATTA-ATGTTTCAGAAATAAAATCGGGGT
1 AAATAATAGGGTTGGAGTATCCC-GATTG-TGGAAAA-TAGATGTTTTAGAAATAAAACCGGGGT
*
2151202 TGGAGTATCCCCTCAA
63 TGGAGTATCCCTTCAA
* *
2151218 AAATAACAGGGTTGGAGTATCCACGATGGTGGAAAATCAG-TGTTTTAGAAATAAAACCGGGGTT
1 AAATAATAGGGTTGGAGTATCC-CGATTGTGGAAAAT-AGATGTTTTAGAAATAAAACCGGGGTT
*
2151282 GGAGTATCCCTTCGA
64 GGAGTATCCCTTCAA
* * * * * *
2151297 AAATAAAAAGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAATCGGAGTTG
1 AAATAATAGGGTTGGAGTATCCC-GATTGTGGAAAATAGATGTTTTAGAAATAAAACCGGGGTTG
*
2151362 GAGTATTCCC-TCGA
65 GAGTA-TCCCTTCAA
* * * * * **
2151376 AAATAA-CGAGGTTGAAGTATCCTCGATTGT-GAGAAATCGATGTTTTAGGAATATAATTGGGGT
1 AAATAATAG-GGTTGGAGTATCC-CGATTGTGGA-AAATAGATGTTTTAGAAATAAAACCGGGGT
* **
2151439 TAGAGTAT-CCTCTCGG
63 TGGAGTATCCCT-TCAA
2151455 AAATAAT-GAGGTTGGAGTATCCC
1 AAATAATAG-GGTTGGAGTATCCC
2151478 CTTAAAAATA
Statistics
Matches: 421, Mismatches: 59, Indels: 35
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.00
78 9 0.02
79 401 0.95
80 9 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (78 bp):
AAATAATAGGGTTGGAGTATCCCGATTGTGGAAAATAGATGTTTTAGAAATAAAACCGGGGTTGG
AGTATCCCTTCAA
Found at i:2151447 original size:237 final size:235
Alignment explanation
Indices: 2150931--2151476 Score: 649
Period size: 237 Copynumber: 2.3 Consensus size: 235
2150921 TCCGCGATTG
** *
2150931 TGGAAAAT-AAGTGTTTCAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTG
1 TGGAAAATCAA-TGTTTCAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA-AGGGTTG
* * *
2150995 GAGTATCCTCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAA
64 GAGTATCCACGATGATGAAAAATAGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAA
* * *
2151060 AAATAATAAGGTTGGGGTATCCTCGATTGTGAAAAATCGATGTTTTAGAAATAAAACCGAGATTA
129 AAATAAAAAGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGATTA
* * *
2151125 GAGTATCTCTTTAAAAATAACGGGGTTTGAGTATCCCTGACGA
194 GAGTATCTCCTCAAAAATAACGAGGTTTGAGTATCCCT-ACGA
* *
2151168 TGGAAAATTAATGTTTCAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGG
1 TGGAAAATCAATGTTTCAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAA-AGGGTTGG
* * *
2151233 AGTATCCACGATGGTGGAAAATCAG-TGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCGA
65 AGTATCCACGATGATGAAAAAT-AGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAA
* *
2151297 AAATAAAAAGGTTGGAGTATCC-CTGATGGTGGAAAATCGATGTTTTAGAAATAAAATCG-GAGT
129 AAATAAAAAGGTTGGAGTATCCTC-GATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGA-T
* *
2151360 TGGAGTAT-TCCCTCGAAAATAACGAGG-TTGAAGTAT-CCT-CGA
192 TAGAGTATCT-CCTCAAAAATAACGAGGTTTG-AGTATCCCTACGA
* * * * * * * * *
2151402 TTGTGAGAAATCGATGTTTTAGGAATATAATTGGGGTTAGAGTATCCTCTCGGAAATAATGAGGT
1 -TG-GA-AAATCAATGTTTCAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAAG-GGT
2151467 TGGAGTATCC
62 TGGAGTATCC
2151477 CCTTAAAAAT
Statistics
Matches: 267, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
234 3 0.01
235 2 0.01
236 13 0.05
237 246 0.92
238 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (235 bp):
TGGAAAATCAATGTTTCAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAAAGGGTTGGA
GTATCCACGATGATGAAAAATAGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCTTCAAAA
ATAAAAAGGTTGGAGTATCCTCGATGGTGAAAAATCGATGTTTTAGAAATAAAACCGAGATTAGA
GTATCTCCTCAAAAATAACGAGGTTTGAGTATCCCTACGA
Found at i:2151472 original size:28 final size:28
Alignment explanation
Indices: 2151436--2151506 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
2151426 ATATAATTGG
* * ** **
2151436 GGTTAGAGTATCCTCTCGGAAATAATGA
1 GGTTGGAGTATCCCCTCAAAAATAACAA
*
2151464 GGTTGGAGTATCCCCTTAAAAATAACAA
1 GGTTGGAGTATCCCCTCAAAAATAACAA
2151492 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2151507 GATTGTGGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCAAAAATAACAA
Found at i:2151553 original size:107 final size:107
Alignment explanation
Indices: 2151358--2151554 Score: 247
Period size: 107 Copynumber: 1.8 Consensus size: 107
2151348 TAAAATCGGA
* * * * *
2151358 GTTGGAGTATTCCCTCGAAAATAACGAGGTTGAAGTATCCTCGATTGTGAGAAATCGATGTTTTA
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAGAAATCAATGTTTTA
* ** *
2151423 GGAATATAATTGGGGTTAGAGTATCCTCTCGGAAATAATGAG
66 GGAATAAAACCGGAGTTAGAGTATCCTCTCGGAAATAATGAG
* *
2151465 GTTGGAGTATCCCCTTAAAAATAACAAGGTTGGAGTATCCCCGATTGTG-GAAAATCAATGTTTT
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAG-AAATCAATGTTTT
2151529 -GGAAATAAAACCGGAGTT-GAAGTATC
65 AGG-AATAAAACCGGAGTTAG-AGTATC
2151555 ACCTTAAAAA
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
106 4 0.05
107 72 0.95
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.29
Consensus pattern (107 bp):
GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAGAAATCAATGTTTTA
GGAATAAAACCGGAGTTAGAGTATCCTCTCGGAAATAATGAG
Found at i:2151566 original size:107 final size:107
Alignment explanation
Indices: 2151358--2151583 Score: 244
Period size: 107 Copynumber: 2.1 Consensus size: 107
2151348 TAAAATCGGA
* * * * *
2151358 GTTGGAGTATTCCCTCGAAAATAACGAGGTTGAAGTATCCTCGATTGTGAGAAATCGATGTTTTA
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAGAAATCAATGTTTTA
* ** * ** *
2151423 GGAATATAATTGGGGTTAGAGTATCCTCTCGGAAATAATGAG
66 GGAATAAAACCGGAGTTAGAGTATCCTCTCAAAAATAACGAG
* *
2151465 GTTGGAGTATCCCCTTAAAAATAACAAGGTTGGAGTATCCCCGATTGTG-GAAAATCAATGTTTT
1 GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAG-AAATCAATGTTTT
* *
2151529 -GGAAATAAAACCGGAGTT-GAAGTATCAC-CTTAAAAATAACGGG
65 AGG-AATAAAACCGGAGTTAG-AGTATC-CTCTCAAAAATAACGAG
2151572 GTTGGAGTATCC
1 GTTGGAGTATCC
2151584 TTGATGGTGG
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
106 4 0.04
107 94 0.95
108 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (107 bp):
GTTGGAGTATCCCCTCAAAAATAACAAGGTTGAAGTATCCCCGATTGTGAGAAATCAATGTTTTA
GGAATAAAACCGGAGTTAGAGTATCCTCTCAAAAATAACGAG
Found at i:2151613 original size:79 final size:79
Alignment explanation
Indices: 2151465--2151617 Score: 198
Period size: 79 Copynumber: 1.9 Consensus size: 79
2151455 AAATAATGAG
* * * * *
2151465 GTTGGAGTATCCCCTTAAAAATAACAAGGTTGGAGTATCCCCGATTGTGGAAAATCAATGTTTTG
1 GTTGAAGTATCACCTTAAAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTA
2151530 GAAATAAAACCGGA
66 GAAATAAAACCGGA
** ** ***
2151544 GTTGAAGTATCACCTTAAAAATAACGGGGTTGGAGTATCCTTGATGGTGGAAAATTGGTATTTTA
1 GTTGAAGTATCACCTTAAAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTA
2151609 GAAATAAAA
66 GAAATAAAA
2151618 ACATAAATGA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
GTTGAAGTATCACCTTAAAAATAACAAGGTTGGAGTATCCCCGATGGTGGAAAATCAATATTTTA
GAAATAAAACCGGA
Found at i:2154746 original size:57 final size:56
Alignment explanation
Indices: 2154616--2154765 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 56
2154606 TCATTTTGCA
* * * *
2154616 ATTTCCATGCATTTTTATGTCATTTTAGTTATTTTCCATGCTTAGGAACTTTATGAC
1 ATTTACATGCATTTTAATGTCA-TTTAGTCATTTTCCATACTTAGGAACTTTATGAC
* ** *
2154673 ATTTTACAT--ATTTTAATGTCATTTAGTCATTTTTCATAACTTAGAGATTTTTATGTC
1 A-TTTACATGCATTTTAATGTCATTTAGTCATTTTCCAT-ACTTAG-GAACTTTATGAC
*
2154730 ATTT-CATGCATTTTAATGTCATTTAGGCCATTTTCC
1 ATTTACATGCATTTTAATGTCATTTA-GTCATTTTCC
2154766 TTGTTTAGGG
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
55 17 0.22
56 19 0.25
57 27 0.35
58 14 0.18
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.50
Consensus pattern (56 bp):
ATTTACATGCATTTTAATGTCATTTAGTCATTTTCCATACTTAGGAACTTTATGAC
Found at i:2154761 original size:20 final size:20
Alignment explanation
Indices: 2154719--2154763 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
2154709 TAACTTAGAG
* *
2154719 ATTTTTATGTCATTTCATGC
1 ATTTTAATGTCATTTCAGGC
2154739 ATTTTAATGTCATTT-AGGCC
1 ATTTTAATGTCATTTCAGG-C
2154759 ATTTT
1 ATTTT
2154764 CCTTGTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTTTAATGTCATTTCAGGC
Found at i:2158677 original size:21 final size:20
Alignment explanation
Indices: 2158652--2158690 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2158642 GTTAGGACCT
*
2158652 TGTATTGATACATTCTGAAAA
1 TGTATTAATACATT-TGAAAA
2158673 TGTATTAATACATTTGAA
1 TGTATTAATACATTTGAA
2158691 CAAAAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.41
Consensus pattern (20 bp):
TGTATTAATACATTTGAAAA
Found at i:2159455 original size:52 final size:52
Alignment explanation
Indices: 2159350--2159673 Score: 141
Period size: 52 Copynumber: 6.1 Consensus size: 52
2159340 GATGCGAAAA
* ** * *
2159350 ATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATATTAGGCTTAAAG
1 ATGATAAAAGTGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
* * *
2159402 ATGATAAAAGTGCCAATGTGCCAATTCAAAGCCAATGACATTTGACTTGAAGATGAGAAG
1 ATGATAAAAGTGCCAATATGCCAATTCAAAGCCAACGACATTAGAC-T-----T-A-AAG
* ** * * * * * *
2159462 AATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAG
1 -ATGATAAAAGTGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
** * ** ** ** *
2159515 ATGCGAAAAATGCCAATATGCTGATTCATGGCCAGTGACATTAGACTTGAAG
1 ATGATAAAAGTGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
* * * * * * *
2159567 ATGA-AAAGAATGCCAGTGTGCTAATTCAAGGCCAACGACATTAGGCTT-AGG
1 ATGATAAA-AGTGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
* ** * * * * *
2159618 AATGA-CAAAGATGCCAATATGCTTATTCAAGGCCAGCGATATTGGACTTAGAG
1 -ATGATAAAAG-TGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
2159671 ATG
1 ATG
2159674 GTGAAGGTAA
Statistics
Matches: 209, Mismatches: 50, Indels: 26
0.73 0.18 0.09
Matches are distributed among these distances:
51 6 0.03
52 155 0.74
53 5 0.02
54 1 0.00
55 1 0.00
58 1 0.00
59 1 0.00
60 4 0.02
61 35 0.17
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (52 bp):
ATGATAAAAGTGCCAATATGCCAATTCAAAGCCAACGACATTAGACTTAAAG
Found at i:2159482 original size:113 final size:113
Alignment explanation
Indices: 2159325--2159578 Score: 337
Period size: 113 Copynumber: 2.2 Consensus size: 113
2159315 TAGGGTTAGC
* * * * *
2159325 GACATTGGACTTAAAGATGCGAAAAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACGATA
1 GACATTAGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACAATA
* * *
2159390 TTAGGCTTAAAGATGATAAAAGTGCCAATGTGCCAATTCAAAGCCAAT
66 TTAGGCTTAAAGATGAGAAAAATGCCAATATGCCAATTCAAAGCCAAT
* * *
2159438 GACATTTGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATA
1 GACATTAGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACAATA
* * ** ** *
2159503 TTGGGCTTAAAGATGCGAAAAATGCCAATATGCTGATTCATGGCCAGT
66 TTAGGCTTAAAGATGAGAAAAATGCCAATATGCCAATTCAAAGCCAAT
*
2159551 GACATTAGACTTGAAGATGAAAAGAATG
1 GACATTAGACTTGAAGATGAGAAGAATG
2159579 CCAGTGTGCT
Statistics
Matches: 122, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
113 122 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.24
Consensus pattern (113 bp):
GACATTAGACTTGAAGATGAGAAGAATGATAAAGGTGCCAATATGCTGATTCAAAGCCAACAATA
TTAGGCTTAAAGATGAGAAAAATGCCAATATGCCAATTCAAAGCCAAT
Found at i:2159741 original size:52 final size:52
Alignment explanation
Indices: 2159473--2159770 Score: 244
Period size: 52 Copynumber: 5.7 Consensus size: 52
2159463 ATGATAAAGG
* * * * *
2159473 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATG-CGAAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAG-AAAA
* * *
2159525 TGCCAATATGCTGATTCATGGCCAGTGACATTAGACTTGAAGATGAA-AAGAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGAA-AA
* * * * * * *
2159577 TGCCAGTGTGCTAATTCAAGGCCAACGACATTAGGCTT-AGGAATGACA-AAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAG-ATGA-AGAAAA
* * * * ** **
2159629 TGCCAATATGCTTATTCAAGGCCAGCGATATTGGACTTAGAGATGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGAAAA
** * * *
2159681 TAACAATATGCTGATTTAAGGCCAGCAACATCAGACTTAAAGATGAAGAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGAAAA
* * * *
2159733 TGCTAATATGTTGATTCAGGGCTAGCGACATTAGACTT
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTT
2159771 TGAAAATGAA
Statistics
Matches: 189, Mismatches: 51, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
51 4 0.02
52 181 0.96
53 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGAAGAAAA
Found at i:2159750 original size:156 final size:156
Alignment explanation
Indices: 2159461--2159766 Score: 355
Period size: 156 Copynumber: 2.0 Consensus size: 156
2159451 AAGATGAGAA
* * *
2159461 GAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATGCGAAAAAT
1 GAATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGCGAAAAAT
** * ** * * * *
2159526 GCCAATATGCTGATTCATGGCCAGTGACATTAGACTTGAAGATGAAAAGAATGCCAGTGTGCTAA
66 AACAATATGCTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAAAGAATGCCAATATGCTAA
2159591 TTCAAGGCCAACGACATTAGGCTTAG
131 TTCAAGGCCAACGACATTAGGCTTAG
* * * * **
2159617 GAATGACAAAGATGCCAATATGCTTATTCAAGGCCAGCGATATTGGACTTAGAGATG-GTGAAGG
1 GAATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGCG-AAAAA
* * *
2159681 TAACAATATGCTGATTTAAGGCCAGCAACATCAGACTTAAAGATGAAGAA-AATGCTAATATGTT
65 TAACAATATGCTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAA-AAGAATGCCAATATGCT
* * * *
2159745 GATTCAGGGCTAGCGACATTAG
129 AATTCAAGGCCAACGACATTAG
2159767 ACTTTGAAAA
Statistics
Matches: 123, Mismatches: 25, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
155 1 0.01
156 120 0.98
157 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (156 bp):
GAATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGCGAAAAAT
AACAATATGCTGATTCAAGGCCAGCAACATCAGACTTAAAGATGAAAAGAATGCCAATATGCTAA
TTCAAGGCCAACGACATTAGGCTTAG
Found at i:2159943 original size:32 final size:32
Alignment explanation
Indices: 2159920--2160208 Score: 443
Period size: 32 Copynumber: 9.0 Consensus size: 32
2159910 GTATGGACTG
* * * *
2159920 TTGAGAAGATTGCCACCAACTTGTTTGGACTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
*
2159952 TTGAGAAGGTTACCACCAACTTGTATGGGCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
*
2159984 TTGAAAAGGTTACCACCAACTTGTGTGGGCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
*
2160016 TTGAGAAGGTTACCACCAACTTGTGTGGCCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
2160048 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
*
2160080 TTGAGAAGGTTACCACCAACTTGTGTGGCCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
* *
2160112 TTGAGAAGGTTACCACCAACATGTGTGGGCGT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
*
2160144 TTGAAAAGGTTACCACCAACTTGTGTGGGCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
* ** *
2160176 TTGAAAAGGTTGTCACCAACTTGTATGGGCTT
1 TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
2160208 T
1 T
2160209 GATGTCTAGC
Statistics
Matches: 238, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 238 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (32 bp):
TTGAGAAGGTTACCACCAACTTGTGTGGGCTT
Found at i:2171208 original size:174 final size:174
Alignment explanation
Indices: 2170918--2171267 Score: 700
Period size: 174 Copynumber: 2.0 Consensus size: 174
2170908 ATCAGAAAGA
2170918 TTCATCATGGCTTCTTTCAAGCTGGCCCAAGAAATGCATTCGTTGCTTCTTTTTACCTTAATGTG
1 TTCATCATGGCTTCTTTCAAGCTGGCCCAAGAAATGCATTCGTTGCTTCTTTTTACCTTAATGTG
2170983 ATTATCGACCCATGTTTCCGTGGCCCCAAGAATTTGCATTAATCTTTTCTTGAACGGAGGAGGTT
66 ATTATCGACCCATGTTTCCGTGGCCCCAAGAATTTGCATTAATCTTTTCTTGAACGGAGGAGGTT
2171048 GTAGGGCTTTGCAGTAAATCCTATCAGACTTCGCCCTTTCTATG
131 GTAGGGCTTTGCAGTAAATCCTATCAGACTTCGCCCTTTCTATG
2171092 TTCATCATGGCTTCTTTCAAGCTGGCCCAAGAAATGCATTCGTTGCTTCTTTTTACCTTAATGTG
1 TTCATCATGGCTTCTTTCAAGCTGGCCCAAGAAATGCATTCGTTGCTTCTTTTTACCTTAATGTG
2171157 ATTATCGACCCATGTTTCCGTGGCCCCAAGAATTTGCATTAATCTTTTCTTGAACGGAGGAGGTT
66 ATTATCGACCCATGTTTCCGTGGCCCCAAGAATTTGCATTAATCTTTTCTTGAACGGAGGAGGTT
2171222 GTAGGGCTTTGCAGTAAATCCTATCAGACTTCGCCCTTTCTATG
131 GTAGGGCTTTGCAGTAAATCCTATCAGACTTCGCCCTTTCTATG
2171266 TT
1 TT
2171268 GAGCAGAGCT
Statistics
Matches: 176, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (174 bp):
TTCATCATGGCTTCTTTCAAGCTGGCCCAAGAAATGCATTCGTTGCTTCTTTTTACCTTAATGTG
ATTATCGACCCATGTTTCCGTGGCCCCAAGAATTTGCATTAATCTTTTCTTGAACGGAGGAGGTT
GTAGGGCTTTGCAGTAAATCCTATCAGACTTCGCCCTTTCTATG
Found at i:2171786 original size:21 final size:22
Alignment explanation
Indices: 2171747--2171787 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2171737 TAGCAACTGT
**
2171747 ACAAAAATAGTAGAGATGAATA
1 ACAAAAATAAAAGAGATGAATA
2171769 ACAAAAATAAAAGA-ATGAA
1 ACAAAAATAAAAGAGATGAA
2171788 CATTAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.66, C:0.05, G:0.15, T:0.15
Consensus pattern (22 bp):
ACAAAAATAAAAGAGATGAATA
Found at i:2173972 original size:100 final size:100
Alignment explanation
Indices: 2173798--2174074 Score: 493
Period size: 100 Copynumber: 2.8 Consensus size: 100
2173788 ATTAAATCTT
*
2173798 GTGGCACCTTCTAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGC
1 GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGC
*
2173863 AGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTG
66 AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTG
*
2173898 GTGGCACCTTCTAGTCCTCAAAGAGTAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGC
1 GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGC
2173963 AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTG
66 AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTG
* *
2173998 GTGGCACCTT-TGAGTCCTCAAAGAGCAGGATGCTCTCTCCTTTCGCCCTTTAGTCCTCAAAGAG
1 GTGGCACCTTCT-AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAG
2174062 CAGGATGCCTTTT
65 CAGGATGCCTTTT
2174075 AAAGCCCACA
Statistics
Matches: 170, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
99 1 0.01
100 169 0.99
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (100 bp):
GTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCACCCTTTAGTCCTCAAAGAGC
AGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTG
Found at i:2174251 original size:61 final size:60
Alignment explanation
Indices: 2174048--2174257 Score: 218
Period size: 61 Copynumber: 3.5 Consensus size: 60
2174038 TTTCGCCCTT
** *
2174048 TAGTCCTCAAAGAGCAGGATGC----CTTTT-AAAGCCCACACAAGTTAATGGCACTTCC
1 TAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
2174103 TA-TCTTC-AAGAAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAG-AGCAGGATGCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
2174163 CAGTCTTCAAAGAGCAGGACGCATTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
1 TAGTCCTCAAAGAGCAGGATGC-TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
*
2174224 TAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTC
1 TAGTCCTCAAAGAGCAGGATG-CTTTT-CTTTTC
2174258 TCCTTTGTCC
Statistics
Matches: 127, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
53 3 0.02
54 14 0.11
55 2 0.02
59 4 0.03
60 25 0.20
61 66 0.52
62 13 0.10
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (60 bp):
TAGTCCTCAAAGAGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:2174345 original size:45 final size:44
Alignment explanation
Indices: 2174252--2174410 Score: 123
Period size: 45 Copynumber: 3.6 Consensus size: 44
2174242 ATGCCTTTTC
* ** *
2174252 CTTTTCTCCTTTGTCCTCAAAGAGCAGGACACAC-TTCATTCCCTT
1 CTTTTC-CCTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCC-T
2174297 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCT
1 CTTTTCCC-TTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCT
* * * * *
2174342 C-TTT-CTTTTTTCCTCAAAAAGCAAGATGCA-TTTCGTTTT-CT
1 CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTT-GTTTTCCT
* * *
2174383 TTTTTTCCTTTATCCTCGAAA-AGCAGGA
1 CTTTTCCCTTTGTCCTC-AAAGAGCAGGA
2174411 TGTACTCTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 5 0.05
42 28 0.29
43 16 0.17
44 8 0.08
45 32 0.34
46 6 0.06
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (44 bp):
CTTTTCCCTTTGTCCTCAAAGAGCAGGACGCACTTTGTTTTCCT
Found at i:2175003 original size:20 final size:21
Alignment explanation
Indices: 2174976--2175014 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2174966 TTTGTATCGA
2174976 TACATTGTATCGATACATTGT
1 TACATTGTATCGATACATTGT
2174997 T-CATTGTATCGATACATT
1 TACATTGTATCGATACATT
2175015 CTTTGTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (21 bp):
TACATTGTATCGATACATTGT
Found at i:2175014 original size:13 final size:13
Alignment explanation
Indices: 2174967--2174996 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2174957 TTTTCACAAT
2174967 TTGTATCGATACA
1 TTGTATCGATACA
2174980 TTGTATCGATACA
1 TTGTATCGATACA
2174993 TTGT
1 TTGT
2174997 TCATTGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2175055 original size:20 final size:20
Alignment explanation
Indices: 2175030--2175123 Score: 120
Period size: 20 Copynumber: 4.7 Consensus size: 20
2175020 TTTACCCAGA
*
2175030 TGTATCGATACATT-TTGCAT
1 TGTATCGATACATTGCT-CAT
2175050 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
2175070 TGTATCGATACATTGCTCAT
1 TGTATCGATACATTGCTCAT
* * *
2175090 TGTATTGATACATT-TTACAA
1 TGTATCGATACATTGCT-CAT
2175110 TGTATCGATACATT
1 TGTATCGATACATT
2175124 CAGGCATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.01
20 65 0.97
21 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTGCTCAT
Found at i:2178241 original size:12 final size:11
Alignment explanation
Indices: 2178219--2178294 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
2178209 AGAGAAAGAA
*
2178219 GAGAGAGGAGG
1 GAGATAGGAGG
2178230 GATGATAGGAGG
1 GA-GATAGGAGG
*
2178242 AGAGACAGGA--
1 -GAGATAGGAGG
*
2178252 GAGATAGTA--
1 GAGATAGGAGG
2178261 GAGATAGGAGG
1 GAGATAGGAGG
2178272 GATGATAGGAGG
1 GA-GATAGGAGG
*
2178284 AGAGACAGGAG
1 -GAGATAGGAG
2178295 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2178251 original size:24 final size:24
Alignment explanation
Indices: 2178218--2178303 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
2178208 AAGAGAAAGA
*
2178218 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
2178242 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
2178260 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
2178284 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
2178304 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:2178270 original size:42 final size:42
Alignment explanation
Indices: 2178209--2178327 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
2178199 TAGCCCTAAA
* *
2178209 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
2178251 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
2178293 AGAGATAATAGAGAGAGGAGGGATGACAGGAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
2178328 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.43, C:0.03, G:0.46, T:0.08
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:2184284 original size:51 final size:51
Alignment explanation
Indices: 2184208--2184324 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
2184198 GTTATTCCGA
* *
2184208 GGGGATACTCCAACCTCGGTTTTA-TTTCTAAAACACCAATTCTCCGCAATC
1 GGGGATACTCCAACCTCGATTTTATTTTC-AAAACACCAATTCTCCACAATC
* * * *
2184259 GGGGATACTCCAACTTCGATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTCTCCACAATC
*
2184310 GGGGATACCCCAACC
1 GGGGATACTCCAACC
2184325 CTGTTATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
GGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAATTCTCCACAATC
Found at i:2184359 original size:28 final size:27
Alignment explanation
Indices: 2184307--2184382 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
2184297 ATTTTTCACA
* **
2184307 ATCGGGGATACCCCAACCCTGTTATTT
1 ATCGGGGATACTCCAACCCCATTATTT
2184334 CATCGGGGATACTCCAACCCCATTATTT
1 -ATCGGGGATACTCCAACCCCATTATTT
2184362 -TCGAGGAGATACTCCAACCCC
1 ATCG-GG-GATACTCCAACCCC
2184383 GGCTTTATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 2 0.05
28 38 0.88
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCATTATTT
Found at i:2185409 original size:13 final size:13
Alignment explanation
Indices: 2185391--2185416 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2185381 CAATTTTTTG
2185391 TGTATCGATACAT
1 TGTATCGATACAT
2185404 TGTATCGATACAT
1 TGTATCGATACAT
2185417 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:2185481 original size:21 final size:21
Alignment explanation
Indices: 2185455--2185530 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2185445 CTGCCAAGAA
*
2185455 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2185476 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2185496 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2185517 ATGTATCGATACAT
1 ATGTATCGATACAT
2185531 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2185501 original size:20 final size:20
Alignment explanation
Indices: 2185476--2185548 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2185466 CATCTTTTTT
2185476 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2185496 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2185517 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2185537 ATGTATCGATAC
1 ATGTATCGATAC
2185549 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2185512 original size:41 final size:41
Alignment explanation
Indices: 2185455--2185548 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2185445 CTGCCAAGAA
*
2185455 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2185496 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2185537 ATGTATCGATAC
1 ATGTATCGATAC
2185549 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2186214 original size:36 final size:36
Alignment explanation
Indices: 2186170--2186241 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
2186160 TTTATTAATA
*
2186170 AATCTCCCCCTTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
2186206 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1 AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
2186242 TATTTGCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (36 bp):
AATCTCCCCATTAATCAAGTAATTCATATCAAAATT
Found at i:2188042 original size:13 final size:13
Alignment explanation
Indices: 2188024--2188062 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2188014 ATAATCACCC
*
2188024 TGTATCGATACAG
1 TGTATCGATACAA
2188037 TGTATCGATACAA
1 TGTATCGATACAA
2188050 TGTATCGATACAA
1 TGTATCGATACAA
2188063 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2188073 original size:20 final size:20
Alignment explanation
Indices: 2188048--2188126 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
2188038 GTATCGATAC
2188048 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
2188068 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
2188093 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
2188113 CATGTATCGATACA
1 AATGTATCGATACA
2188127 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:2190162 original size:15 final size:15
Alignment explanation
Indices: 2190142--2190172 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2190132 ATTTCGTTTG
*
2190142 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2190157 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2190172 G
1 G
2190173 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:2194252 original size:13 final size:13
Alignment explanation
Indices: 2194234--2194259 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2194224 CAATTTTTTG
2194234 TGTATCGATACAT
1 TGTATCGATACAT
2194247 TGTATCGATACAT
1 TGTATCGATACAT
2194260 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:2194324 original size:21 final size:21
Alignment explanation
Indices: 2194298--2194373 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
2194288 CTGCCAAGAA
*
2194298 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2194319 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2194339 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2194360 ATGTATCGATACAT
1 ATGTATCGATACAT
2194374 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2194344 original size:20 final size:20
Alignment explanation
Indices: 2194319--2194391 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2194309 CATCTTTTTT
2194319 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2194339 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2194360 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2194380 ATGTATCGATAC
1 ATGTATCGATAC
2194392 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2194355 original size:41 final size:41
Alignment explanation
Indices: 2194298--2194391 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
2194288 CTGCCAAGAA
*
2194298 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2194339 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
2194380 ATGTATCGATAC
1 ATGTATCGATAC
2194392 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:2195879 original size:79 final size:79
Alignment explanation
Indices: 2195577--2195892 Score: 334
Period size: 79 Copynumber: 4.0 Consensus size: 79
2195567 TGGAGATAAC
* * **
2195577 AACGGGGCTGGAGTATCCCCGATTATGGAAAATT-AGTGTTCCAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAATCGGGGTTGGAG
2195641 TAT-CCCTTCGGAAAT
65 TATCCCCTT-GGAAAT
* * * * * *
2195656 AACAGGGTTGGAGTATCCCTGATTAT-AAAAATTGATATTTT-GAAAATGAAATCGGGATTAGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAG-AAATAAAATCGGGGTTGGAG
* *
2195719 TATCCCCTCGAAAAT
65 TATCCCCTTGGAAAT
* * * *** *
2195734 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGATTTAGAAATAAGGCCGGGGTTGAAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGT
2195799 ATCCCCTTGGAAAT
66 ATCCCCTTGGAAAT
* * * ***
2195813 AACGGGGTTGGAGTATCCCCTATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAAAGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGT
2195878 ATCCCCGATTGGAAA
66 ATCCCC--TTGGAAA
2195893 ATTGGTATTT
Statistics
Matches: 192, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
77 1 0.01
78 57 0.30
79 126 0.66
80 1 0.01
81 7 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGT
ATCCCCTTGGAAAT
Done.