Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 334 of 345
Found at i:111485352 original size:735 final size:735
Alignment explanation
Indices: 111483935--111485407 Score: 2376
Period size: 735 Copynumber: 2.0 Consensus size: 735
111483925 AGCTCTAACA
* * *
111483935 GTTGCAATTTCATGTTCAACTCGAGGAACTCCCTTTTGTCCCATAACTGCCTCTGAAAGCACATC
1 GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTCCCATAACTGCCTCCGAAAGCACATC
* ** * *
111484000 AGAACTAACAACAGAAAGACAATCTGTGCTTCTCTTTGAATTAACCGGCTCCTGTGCACAAAAGT
66 AGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAGT
* * * * *
111484065 TGGCAACAGCAGCGCTAGCAATGCTGCTGCTGCGCCACCGTTTTTTCCTCCTACTGTAAACTAAA
131 TGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAAA
111484130 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTTGGGTAAGGG
196 ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTTGGGTAAGGG
* * *
111484195 AAGGCGTGAATCCTCAGCCTCTTTACATCCAGGTTGTGAAGTACCATCACATTTAGGAGTCATCC
261 AAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATCC
* * *
111484260 GGAAAGTTTCATTATCAGATATCCAATCACATAAAGAAATCTTTATTGCAGTTTCACGTTCAACT
326 GCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTATTGCAGTTTCACGTTCAACT
* *
111484325 TGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAGACA
391 CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAAACA
* * **
111484390 ATCCGCGCTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCGTTAGCAC
456 ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
* * * *
111484455 TGCTGCTTCTGCCCCACCGTTTCTTCCTCCTGTAAATTAAAATCGGAATAGGACTTTCAAACCTC
521 TGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATCGGAATAGGACTTTCAAACATC
* * * *
111484520 ATACTTACAGATGACTGCTGAGAACCAGTTTTGGGTAAGGGAAGGCATGAATCCTCAGCCTCTTT
586 ATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCTTT
*
111484585 ACATCCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTTG-CAAGTTTCATTACCAGACATC
651 ACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATC-TGCCAAGTTTCATTACCAGACATC
111484649 CAATCACATAAAGAAATCTTT
715 CAATCACATAAAGAAATCTTT
* * **
111484670 GTTGCAGTTTCATGTTCAACTTGAGAAACTCCCTTTCG-CTCCATAACTGCCTCCGAAAGTGCAT
1 GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTC-CCATAACTGCCTCCGAAAGCACAT
* *
111484734 CAGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAACATGCTCCCGTGCATAAAAG
65 CAGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAG
** *
111484799 TTGGCAACAACAGAGCTAGCGCTGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTGA
130 TTGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAA
** *
111484864 AATCGGCATAGGACTTTCAAACATCACACTCACAGATGGCTGCTGAGAACCAGTTTTGGGTAAGG
195 AATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTTGGGTAAGG
111484929 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATC
260 GAAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATC
* * * * *
111484994 TGCCAAGTTTCATTACCAGACATCCAATCACATAAAGAAGTCTTTGTTGCAGTTTCATGTTCAAC
325 CGCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTATTGCAGTTTCACGTTCAAC
* * *
111485059 TCGAGAAACTCCCTTTTGCTCCATAACTGCCTCTGAAAGTGCATTAGAACTAA-GAACAGAAAAA
390 TCGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACG-ACAGAAAAA
111485123 CAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGC
454 CAATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGC
** *
111485188 ACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATCGGCGTTGGACTTTCAAACA
519 ACTGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATCGGAATAGGACTTTCAAACA
*
111485253 TCATACTCACAGATGACTGTTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCT
584 TCATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCT
111485318 TTACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACAT
649 TTACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACAT
111485383 CCAATCACATAAAGAAATCTTT
714 CCAATCACATAAAGAAATCTTT
111485405 GTT
1 GTT
111485408 TCCTGCATTC
Statistics
Matches: 677, Mismatches: 58, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
734 4 0.01
735 673 0.99
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (735 bp):
GTTGCAATTTCATGTTCAACTCGAGAAACTCCCTTTCGTCCCATAACTGCCTCCGAAAGCACATC
AGAACTAACAACAGAAAGACAATCCGCACTTCTCTTTGAATTAACAGGCTCCCGTGCACAAAAGT
TGGCAACAACAGAGCTAGCAATGCTGCTGCTGCCCCACCGTTTCTTCCCCCTACTGTAAACTAAA
ATCGGCATAGGACTTTCAAACATCACACTCACAGATAACCGCTGAGAACCAGTTTTGGGTAAGGG
AAGGCATGAATCCTCAGCCTCTTTACATCCAGCTTGTGAAGTACCATCACATTTAGGAATCATCC
GCAAAGTTTCATTACCAGACATCCAATCACATAAAGAAATCTTTATTGCAGTTTCACGTTCAACT
CGAGAAACTCCCTTTCGCTCCATAACTGCCTCTGAAAGCGCATCAGAACTAACGACAGAAAAACA
ATCCACACTTCTCTTTGAATTAACCAGCTCCTGTGCACAAAAGTTGGCAACAACAGCACTAGCAC
TGCTGCTGCAGCCCCACCGTTTCTTCCTCCTGTAAACTAAAATCGGAATAGGACTTTCAAACATC
ATACTCACAGATGACTGCTGAGAACCAATTTTGGGAAAGGGAAGGCATGAATCCCCAGCCTCTTT
ACAACCACTTTGTGAAGTACCATCACATTTAGGAGTCATCTGCCAAGTTTCATTACCAGACATCC
AATCACATAAAGAAATCTTT
Found at i:111485617 original size:125 final size:126
Alignment explanation
Indices: 111485395--111485897 Score: 832
Period size: 127 Copynumber: 4.0 Consensus size: 126
111485385 AATCACATAA
*
111485395 AGAAATCTTTGTTTCCTGCATTCAAACACAT--AATAGGATTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATA-GACTGTTTCAATTGAACTAGAAATTTG
*
111485458 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
65 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* * *
111485520 AGAAATCTTTGTTTCCTGCATTCAAACAAATAAAATA-ACTGTTTTAACTGAACTAGAAATTTGA
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGACTGTTTCAATTGAACTAGAAATTTGA
* *
111485584 AGTTCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGTGTTTCTCTCTT
66 AGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
*
111485645 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAAAAAGACTGTTTCAATTGAACTAGAAATTTG
1 AGAAATCTTTGTTTCCTGCATTCAAACACAT-AAAATAGACTGTTTCAATTGAACTAGAAATTTG
* *
111485710 AAGTCCCAATCTAAATCTCAACAAATATAATTCAACAAACACAAAATCAGCGTTTCTCTCTT
65 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
* * *
111485772 AGAAATCTTTGTTTCCTGCAGTCAAACACATAAAATAGGACTGTTTCAATTTAACTAGAAATTTA
1 AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATA-GACTGTTTCAATTGAACTAGAAATTTG
*
111485837 AAGTCCCAATCTAAATCTCACCTAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
65 AAGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCT
111485898 AACTTCCACC
Statistics
Matches: 352, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
125 142 0.40
126 10 0.03
127 200 0.57
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (126 bp):
AGAAATCTTTGTTTCCTGCATTCAAACACATAAAATAGACTGTTTCAATTGAACTAGAAATTTGA
AGTCCCAATCTAAATCTCACCAAATATAATTCAACAAACACAAAATCAGGGTTTCTCTCTT
Found at i:111488585 original size:22 final size:21
Alignment explanation
Indices: 111488555--111488601 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
111488545 TACAAATTAA
111488555 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
111488577 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
111488598 ATCT
1 ATCT
111488602 AAGATTGCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:111488607 original size:19 final size:19
Alignment explanation
Indices: 111488572--111488633 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
111488562 AGATTACAAG
111488572 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
111488593 ATCATATCTAAGATTGCTT
1 ATCATATCTAAGATTGCAT
111488612 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
111488631 ATC
1 ATC
111488634 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 30 0.77
20 1 0.03
21 8 0.21
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:111496302 original size:26 final size:26
Alignment explanation
Indices: 111496266--111496318 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
111496256 TTGAAAGAGT
*
111496266 ATAAAAATTATTATGGTGTAAATAGG
1 ATAAAAATTATTATAGTGTAAATAGG
*
111496292 ATAAAAATTATTGTAGTGTAAATAGG
1 ATAAAAATTATTATAGTGTAAATAGG
111496318 A
1 A
111496319 ATTTAGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (26 bp):
ATAAAAATTATTATAGTGTAAATAGG
Found at i:111498505 original size:23 final size:23
Alignment explanation
Indices: 111498458--111498506 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
111498448 TATATAAATA
*
111498458 TATTATTTAATTATAAAGTATTT
1 TATTATTTAATTATAAAGTAATT
* **
111498481 TATTATTTTATTATATTGTAATT
1 TATTATTTAATTATAAAGTAATT
111498504 TAT
1 TAT
111498507 ATTAAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TATTATTTAATTATAAAGTAATT
Found at i:111498522 original size:13 final size:13
Alignment explanation
Indices: 111498489--111498533 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
111498479 TTTATTATTT
*
111498489 TATTATATTGTAA
1 TATTATATTATAA
111498502 T-TTATATTA-AA
1 TATTATATTATAA
111498513 TATATATATTATAA
1 TAT-TATATTATAA
111498527 TATTATA
1 TATTATA
111498534 AATAAACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 3 0.11
12 8 0.29
13 12 0.43
14 5 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (13 bp):
TATTATATTATAA
Found at i:111499825 original size:15 final size:16
Alignment explanation
Indices: 111499805--111499838 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
111499795 ATTGGAAATA
111499805 GAATTGAT-ATTGAAT
1 GAATTGATAATTGAAT
111499820 GAATTGATAAATTGAAT
1 GAATTGAT-AATTGAAT
111499837 GA
1 GA
111499839 TTTTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (16 bp):
GAATTGATAATTGAAT
Found at i:111503540 original size:8 final size:8
Alignment explanation
Indices: 111503500--111503547 Score: 55
Period size: 8 Copynumber: 6.1 Consensus size: 8
111503490 AGGAAATACA
111503500 ATAATAAT
1 ATAATAAT
*
111503508 AATAGTAAT
1 -ATAATAAT
111503517 ATAA-AAT
1 ATAATAAT
*
111503524 -TAATGAT
1 ATAATAAT
111503531 ATAATAAT
1 ATAATAAT
111503539 ATAATAAT
1 ATAATAAT
111503547 A
1 A
111503548 AGCATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 3 0.09
7 5 0.15
8 18 0.55
9 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (8 bp):
ATAATAAT
Found at i:111506746 original size:10 final size:10
Alignment explanation
Indices: 111506727--111506786 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
111506717 TGAAATTCTA
111506727 AAAGATAAAT
1 AAAGATAAAT
111506737 ACAA-ATAAAT
1 A-AAGATAAAT
*
111506747 AAAGATAATT
1 AAAGATAAAT
*
111506757 AAATATAAAT
1 AAAGATAAAT
111506767 AAAGATAAAT
1 AAAGATAAAT
111506777 GAAA-ATAAAT
1 -AAAGATAAAT
111506787 CCTAGAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.05
10 36 0.84
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111506750 original size:20 final size:19
Alignment explanation
Indices: 111506727--111506786 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
111506717 TGAAATTCTA
111506727 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
111506747 AAAGATAATTAAATATAAAT
1 AAAGATAAATAAA-ATAAAT
111506767 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
111506787 CCTAGAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 31 0.86
21 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:111509787 original size:27 final size:26
Alignment explanation
Indices: 111509750--111509858 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
111509740 AGCATGGCTG
* *
111509750 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
111509776 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
111509804 CCAGAACAAAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
111509831 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
111509858 C
1 C
111509859 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 48 0.68
28 17 0.24
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:111511122 original size:22 final size:22
Alignment explanation
Indices: 111511095--111511137 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
111511085 ACAGAAGAAG
* *
111511095 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
111511117 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
111511138 GAAGAGTTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:111519259 original size:46 final size:46
Alignment explanation
Indices: 111519205--111519517 Score: 412
Period size: 46 Copynumber: 6.8 Consensus size: 46
111519195 CTTTGATAGA
*
111519205 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
111519251 AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
111519297 AAACGTGTAAAACCATGGTTGAATGATACCATGGCAACCTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* *
111519343 AAATGTGTAAGGCCATGGTTGAAAGATACCATGGCAACGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * **
111519389 AAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGACGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
** * *
111519435 AAAATGAATAAGACCATGGTTGAATGATACCATGGCAACATGACA-G
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
* * * *
111519481 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
111519518 TCATGTCGAA
Statistics
Matches: 242, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
46 204 0.84
47 38 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG
Found at i:111521024 original size:26 final size:27
Alignment explanation
Indices: 111520914--111521024 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
111520904 AACATGGCTG
* *
111520914 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
111520940 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
111520968 CCATAACAGA-AATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
111520995 CCAGATCAGATAATTGT-GCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
111521021 CCAG
1 CCAG
111521025 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 20 0.27
27 36 0.49
28 17 0.23
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:111529773 original size:6 final size:6
Alignment explanation
Indices: 111529764--111529788 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111529754 ATAAAAATTT
111529764 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
111529789 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:111529841 original size:21 final size:22
Alignment explanation
Indices: 111529801--111529842 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
111529791 AAAATAAAAA
111529801 TCTCCCGCCTCATTTCTCTCCC
1 TCTCCCGCCTCATTTCTCTCCC
111529823 TCTCCC-CCTCAGTTT-TCTCC
1 TCTCCCGCCTCA-TTTCTCTCC
111529843 ACAAATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.05, C:0.52, G:0.05, T:0.38
Consensus pattern (22 bp):
TCTCCCGCCTCATTTCTCTCCC
Found at i:111533257 original size:8 final size:8
Alignment explanation
Indices: 111533240--111533269 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
111533230 ATGCTAAAAT
111533240 ATAATATA
1 ATAATATA
*
111533248 ATATTATA
1 ATAATATA
111533256 ATAATATA
1 ATAATATA
111533264 ATAATA
1 ATAATA
111533270 AAACATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATAATATA
Found at i:111533261 original size:11 final size:11
Alignment explanation
Indices: 111533237--111533270 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
111533227 CTGATGCTAA
111533237 AATATAAT-AT
1 AATATAATAAT
*
111533247 AATATTATAAT
1 AATATAATAAT
111533258 AATATAATAAT
1 AATATAATAAT
111533269 AA
1 AA
111533271 AACATACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATAATAAT
Found at i:111533588 original size:15 final size:15
Alignment explanation
Indices: 111533568--111533598 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111533558 ACCTTTTCTT
*
111533568 TCTCTTCTTCTCTGC
1 TCTCTTCTGCTCTGC
111533583 TCTCTTCTGCTCTGC
1 TCTCTTCTGCTCTGC
111533598 T
1 T
111533599 ACGCCCAGAA
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:0.00, C:0.39, G:0.10, T:0.52
Consensus pattern (15 bp):
TCTCTTCTGCTCTGC
Found at i:111533746 original size:18 final size:18
Alignment explanation
Indices: 111533723--111533805 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
111533713 CCCTGGCCAG
111533723 TTGATTATATAATTTAAA
1 TTGATTATATAATTTAAA
*
111533741 TTGATTATATAATTAAAAA
1 TTGATTATATAATT-TAAA
111533760 TT-ATTATCAT--TTT--A
1 TTGATTAT-ATAATTTAAA
* *
111533774 TCT-AATAAATAATTTAAA
1 T-TGATTATATAATTTAAA
111533792 TTGATTATATAATT
1 TTGATTATATAATT
111533806 CATTAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
14 4 0.08
15 4 0.08
16 3 0.06
17 3 0.06
18 30 0.59
19 7 0.14
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTGATTATATAATTTAAA
Found at i:111534051 original size:21 final size:21
Alignment explanation
Indices: 111534025--111534077 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
111534015 CGCTGTTTCT
*
111534025 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
111534046 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
111534067 AATCTCACCGC
1 AATCTCACCGC
111534078 CACCGTTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.38, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:111538004 original size:9 final size:9
Alignment explanation
Indices: 111537990--111538026 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
111537980 TATAGTTTAA
111537990 TATTCGAAT
1 TATTCGAAT
111537999 TATTCGAAT
1 TATTCGAAT
*
111538008 TATTCGAGT
1 TATTCGAAT
111538017 TATTCGAAT
1 TATTCGAAT
111538026 T
1 T
111538027 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:111538889 original size:15 final size:16
Alignment explanation
Indices: 111538859--111538891 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
111538849 CAGACTCGTG
*
111538859 TATTTAATTTATTATA
1 TATTTAATTAATTATA
111538875 TATTTAA-TAATTATA
1 TATTTAATTAATTATA
111538890 TA
1 TA
111538892 ATAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATTAATTATA
Found at i:111543896 original size:15 final size:16
Alignment explanation
Indices: 111543866--111543898 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
111543856 CAAACTCGTG
*
111543866 TATTTAATTTATTATA
1 TATTTAATTAATTATA
111543882 TATTTAA-TAATTATA
1 TATTTAATTAATTATA
111543897 TA
1 TA
111543899 ATAATTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAATTAATTATA
Found at i:111551784 original size:27 final size:26
Alignment explanation
Indices: 111551735--111551827 Score: 86
Period size: 25 Copynumber: 3.7 Consensus size: 26
111551725 ATATAATAAT
* * *
111551735 AAATTTAATATATATATAGTTAACAAA
1 AAATATAATATATAAATA-TTTACAAA
111551762 AAATATTAATATATAAAT-TTTA-AAA
1 AAATA-TAATATATAAATATTTACAAA
* * *
111551787 ATATATAA-AAATAAATATTTTCAAA
1 AAATATAATATATAAATATTTACAAA
111551812 AAATATAATA-ATAAAT
1 AAATATAATATATAAAT
111551828 TTAAAATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
23 7 0.13
24 6 0.11
25 23 0.42
26 4 0.07
27 4 0.07
28 11 0.20
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (26 bp):
AAATATAATATATAAATATTTACAAA
Found at i:111552809 original size:21 final size:23
Alignment explanation
Indices: 111552767--111552809 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
111552757 ATTGCCACTC
**
111552767 TTTTCTCTACTTTGATTTTAATG
1 TTTTCTCTACTTTGATCATAATG
111552790 TTTTCT-TA-TTTGATCATAAT
1 TTTTCTCTACTTTGATCATAAT
111552810 CTGATTGACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.21, C:0.12, G:0.07, T:0.60
Consensus pattern (23 bp):
TTTTCTCTACTTTGATCATAATG
Found at i:111557608 original size:3 final size:3
Alignment explanation
Indices: 111557571--111557638 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
111557561 ACATATTAAA
* * *
111557571 AAT AAT TAT AAT GA- AAT ACT AAT AAAT AA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
*
111557615 AAC AAT AAT AAT AGAT AAAT AAT A
1 AAT AAT AAT AAT A-AT -AAT AAT A
111557639 TTAAAATTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
2 3 0.06
3 41 0.79
4 7 0.13
5 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:111558186 original size:16 final size:17
Alignment explanation
Indices: 111558147--111558188 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
111558137 GCCAATCACT
*
111558147 GGCCGATCGTCGGCCGCC
1 GGCC-ATCGCCGGCCGCC
*
111558165 GTCCATCGCCGG-CGCC
1 GGCCATCGCCGGCCGCC
111558181 GGCCATCG
1 GGCCATCG
111558189 TGCACAGTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
17 7 0.33
18 3 0.14
ACGTcount: A:0.07, C:0.45, G:0.36, T:0.12
Consensus pattern (17 bp):
GGCCATCGCCGGCCGCC
Found at i:111559743 original size:22 final size:21
Alignment explanation
Indices: 111559715--111559758 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
111559705 CCATTTATCA
111559715 TGTTCTTTTTGT-TCCTTTTTAT
1 TGTTCTTTTT-TAT-CTTTTTAT
111559737 TGTTCTTTTTTATCTTTTTAT
1 TGTTCTTTTTTATCTTTTTAT
111559758 T
1 T
111559759 TCTTATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (21 bp):
TGTTCTTTTTTATCTTTTTAT
Found at i:111560447 original size:16 final size:16
Alignment explanation
Indices: 111560426--111560496 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
111560416 ATTTTAAACA
*
111560426 ATTTTATATATTATTT
1 ATTTTATGTATTATTT
* *
111560442 ATTTTAGGTATTTTTT
1 ATTTTATGTATTATTT
* *
111560458 ATTAGTTCT-T-TTAAATT
1 ATT--TTATGTATT-ATTT
111560475 ATTTTATGTATTATTT
1 ATTTTATGTATTATTT
111560491 ATTTTA
1 ATTTTA
111560497 AAATTGCTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
15 3 0.07
16 28 0.68
17 8 0.20
18 2 0.05
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (16 bp):
ATTTTATGTATTATTT
Found at i:111560495 original size:26 final size:25
Alignment explanation
Indices: 111560414--111560498 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
111560404 TATATATATA
*
111560414 TTATTTTAAACAATTTTATATATTAT
1 TTATTTTAAACTATTTTAT-TATTAT
** *
111560440 TTATTTT-AGGTATTTT-TTATTAG
1 TTATTTTAAACTATTTTATTATTAT
* *
111560463 TTCTTTTAAATTATTTTATGTATTAT
1 TTATTTTAAACTATTTTAT-TATTAT
111560489 TTATTTTAAA
1 TTATTTTAAA
111560499 ATTGCTTTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
23 11 0.23
24 8 0.17
25 7 0.15
26 21 0.45
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (25 bp):
TTATTTTAAACTATTTTATTATTAT
Found at i:111560653 original size:26 final size:25
Alignment explanation
Indices: 111560593--111560654 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
111560583 TAGTTTTTTA
*
111560593 AAATTCTTTTACATATTATTTATTTT
1 AAATT-TTTTACATATTATTTACTTT
* *
111560619 AAATATTTTTATATGTTATTTACTTT
1 AAAT-TTTTTACATATTATTTACTTT
111560645 AAACTTTTTT
1 AAA-TTTTTT
111560655 TTTATATGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 29 0.94
27 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (25 bp):
AAATTTTTTACATATTATTTACTTT
Found at i:111560953 original size:25 final size:24
Alignment explanation
Indices: 111560925--111560973 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
111560915 ATTGTTTTGA
111560925 ATATTAATGATTTTTAAATTGCTTT
1 ATATTAATGA-TTTTAAATTGCTTT
* *
111560950 ATATTATTTATTTTAAATTGCTTT
1 ATATTAATGATTTTAAATTGCTTT
111560974 TATAGTATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (24 bp):
ATATTAATGATTTTAAATTGCTTT
Found at i:111560968 original size:24 final size:25
Alignment explanation
Indices: 111560936--111560991 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
111560926 TATTAATGAT
* *
111560936 TTTTAAATTGC-TTTATATTATTTA
1 TTTTAAATTGCTTTTATAGTATCTA
111560960 TTTTAAATTGCTTTTATAGTATCTA
1 TTTTAAATTGCTTTTATAGTATCTA
*
111560985 TTCTAAA
1 TTTTAAA
111560992 CCTTTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.39
25 17 0.61
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.57
Consensus pattern (25 bp):
TTTTAAATTGCTTTTATAGTATCTA
Found at i:111569541 original size:210 final size:209
Alignment explanation
Indices: 111569176--111569965 Score: 971
Period size: 210 Copynumber: 3.8 Consensus size: 209
111569166 GCCGTAGCAT
*
111569176 AGTAGATCTCACCTTCAGAT-ATTTACGCTGAAGCAGATTCAAGATGACAGATCTTATCTCTCTG
1 AGTAGATCTCACCTTCAGATGA-TTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTG
111569240 TATTCGGCAAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
65 TATTCGG-AAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
* *
111569305 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTAA
129 TCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAA
* *
111569370 TGGA-AGGCAGACACAT
194 TGGAGA-GCAGATACAC
* * *
111569386 AGCAGATCTCACCTTCAGATGTTTACGCTAAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
1 AGTAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
**
111569451 ATTCGGTGGGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
66 ATTCGG-AAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
* *
111569516 CTAAGATGATTTGTCGTCTCTGTATTGTCAGATAACAAATCGAAGTCTGGCATCTCCACTTCAAT
130 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAAT
*
111569581 GGAGAGCAAATACAC
195 GGAGAGCAGATACAC
* ** *
111569596 AGTAGATC-CGACCTTCAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTG-GC--ATC-CT
1 AGTAGATCTC-ACCTTCAGATGATTACG-CTGAAGC-AGATCCAAGATGA-CAGATCTTATCTCT
* * * *
111569655 -TGTACTTAC--AAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATAAAG
62 CTGTA-TT-CGGAAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAG
*
111569717 CAAATCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
125 CAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
111569782 TTAATGGAGAGCAGATACAC
190 TTAATGGAGAGCAGATACAC
* * **
111569802 AGTAGATCTCACATTCAGATGATTATGCTGAAGCAGATCCAAGAT----GAT-TTGGCAT-TCT-
1 AGTAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGACAGATCTTATC-TCTCTG
* ** * * *
111569860 TATGCTTATA--AG--GAAC-AA-ATCATAGCTGATTTGGCTTTCGCGTGCTTACGATGAAGCAA
65 TATTCGGA-AGGAGCAGATCGAAGAT-ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAA
* * **
111569919 GTCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAATGAATCGAAG
128 ATCTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAG
111569966 AAGCAGATTT
Statistics
Matches: 513, Mismatches: 47, Indels: 51
0.84 0.08 0.08
Matches are distributed among these distances:
198 1 0.00
199 81 0.16
200 3 0.01
201 1 0.00
202 3 0.01
203 4 0.01
204 2 0.00
205 11 0.02
206 156 0.30
207 6 0.01
208 4 0.01
209 6 0.01
210 219 0.43
211 15 0.03
212 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (209 bp):
AGTAGATCTCACCTTCAGATGATTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTCTGT
ATTCGGAAGGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATG
GAGAGCAGATACAC
Found at i:111569964 original size:199 final size:201
Alignment explanation
Indices: 111569266--111569965 Score: 797
Period size: 206 Copynumber: 3.4 Consensus size: 201
111569256 GATCGAAGAT
*
111569266 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTAT
1 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
* * * * * * *
111569331 TGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTTAATGGA-AGGCAGACACATAGCAGATCT
66 TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGA-GCAAATACACAGTAGATC-
* * * * ** *
111569395 C-ACCTTCAGATGTTTACG-CTAAAGC-AGATCCAAGATGACAGATCTTATC-TCTCTGTATTCG
129 CGACATTCAGACGATTA-GACTGAAGCAAGATCCAAGAT----GAT-TTGGCATC-CT-TATAC-
**** * * * *
111569456 GTGGGGAGCAGATCGAAGAT
185 -TTACAAG--GAACAAATAC
*
111569476 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTAT
1 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
*
111569541 TGTCAGATAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAATACACAGTAGATCCG
66 TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAATACACAGTAGATCCG
* *
111569606 ACCTTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTACTTACAAGGAAC
131 ACATTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATACTTACAAGGAAC
111569671 AAATCGAAGAC
196 AAAT-----AC
*
111569682 ATAGCTGATTTGGCTTTCACGTGTTTACGATAAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
1 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
* *
111569747 TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTTAATGGAGAGCAGATACACAGTAGATCTC
66 TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAATACACAGTAGATC-C
* * * *
111569812 -ACATTCAGATGATTATG-CTGAAGC-AGATCCAAGATGATTTGGCATTCTTATGCTTATAAGGA
130 GACATTCAGACGATTA-GACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATACTTACAAGGA
111569874 ACAAAT-C
194 ACAAATAC
* * *
111569881 ATAGCTGATTTGGCTTTCGCGTGCTTACGATGAAGCAAGTCTAAGATGATTTGTCATCTCTGTAT
1 ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
**
111569946 TGTCAGAGAATGAATCGAAG
66 TGTCAGAGAACAAATCGAAG
111569966 AAGCAGATTT
Statistics
Matches: 438, Mismatches: 40, Indels: 35
0.85 0.08 0.07
Matches are distributed among these distances:
199 80 0.18
201 5 0.01
203 3 0.01
205 43 0.10
206 149 0.34
207 7 0.02
209 2 0.00
210 137 0.31
211 12 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (201 bp):
ATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTAT
TGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAATACACAGTAGATCCG
ACATTCAGACGATTAGACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATACTTACAAGGAAC
AAATAC
Found at i:111571612 original size:25 final size:22
Alignment explanation
Indices: 111571582--111571629 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 22
111571572 ACTTTTGTAT
111571582 TATATATTGAAAAATTATTTTATTA
1 TATATATT--AAAATTA-TTTATTA
*
111571607 TATATATTAATATTATTTATTA
1 TATATATTAAAATTATTTATTA
111571629 T
1 T
111571630 CTATTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 6 0.27
25 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATATATTAAAATTATTTATTA
Found at i:111571900 original size:32 final size:27
Alignment explanation
Indices: 111571875--111571926 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
111571865 TATGTATATC
111571875 ATATATTA-TCTATTATATTATTTATGT
1 ATATATTATTC-ATTATATTATTTATGT
*
111571902 TTATATTATTCATTATATTATTTAT
1 ATATATTATTCATTATATTATTTAT
111571927 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (27 bp):
ATATATTATTCATTATATTATTTATGT
Found at i:111577119 original size:15 final size:14
Alignment explanation
Indices: 111577070--111577120 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
111577060 AAAATTTTCA
*
111577070 ATAAATAAAAATAT
1 ATAAATTAAAATAT
111577084 ATAGAATTATTAAATAT
1 ATA-AATTA--AAATAT
111577101 -TAAATTAAAATAAT
1 ATAAATTAAAAT-AT
111577115 ATAAAT
1 ATAAAT
111577121 CATGTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.13
14 5 0.16
15 14 0.45
16 2 0.06
17 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
ATAAATTAAAATAT
Found at i:111584709 original size:39 final size:39
Alignment explanation
Indices: 111584618--111584708 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
111584608 AAAAAGTATA
*
111584618 TTTAATGA-AATAAAACATTTATTATATTTATTTATATTT
1 TTTAAT-ATAATAAAACATTTATTATATTTATGTATATTT
* *
111584657 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTTT
1 TTTAATATAATAAAACATTTATTATATTTAT-GTA-T-ATTT
111584699 TTTAATATAA
1 TTTAATATAA
111584709 ATACTTTTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.02
39 28 0.62
40 2 0.04
41 1 0.02
42 13 0.29
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (39 bp):
TTTAATATAATAAAACATTTATTATATTTATGTATATTT
Found at i:111585329 original size:26 final size:26
Alignment explanation
Indices: 111585293--111585376 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
111585283 TGATACAAAT
111585293 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111585319 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111585345 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111585371 TGATAA
1 TGATAA
111585377 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:111586887 original size:26 final size:26
Alignment explanation
Indices: 111586858--111586910 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111586848 TTTACAGTTT
111586858 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
111586884 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
111586910 T
1 T
111586911 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:111591071 original size:26 final size:26
Alignment explanation
Indices: 111591035--111591144 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
111591025 TGATACAAAT
111591035 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111591061 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
111591087 TGATAATGGGTTAGGAAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
111591113 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
111591139 TGATAA
1 TGATAA
111591145 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:111602965 original size:54 final size:54
Alignment explanation
Indices: 111602906--111603014 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
111602896 AATTCTTCTT
* * *
111602906 TAATATTTTGATTAATTCCACCGGACGTCCCCAAATTATAGTTCATATTCTAAG
1 TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
*
111602960 TAATATTTTGATTAATTCCACCGAACCTCTCCAAATTATAGTTCATATTCAAAG
1 TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
111603014 T
1 T
111603015 TGATCCTAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (54 bp):
TAATATTTTGATTAATTCCACCGAACCTCCCCAAATTATAGTTCATATTCAAAG
Found at i:111607508 original size:26 final size:26
Alignment explanation
Indices: 111607478--111607586 Score: 146
Period size: 26 Copynumber: 4.0 Consensus size: 26
111607468 CAGTGTTCAA
*
111607478 TGTAAATAAATATTATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
111607504 TGTAAATAAATAATATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
* *
111607530 CCAATGTAAAAAAAATATTATTTGAAGGTGT
1 ----TGT-AAATAAATAATATTTGAAGGTGT
111607561 TGTAAATAAATAATATTTGAAGGTGT
1 TGTAAATAAATAATATTTGAAGGTGT
111607587 CCAATGTAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
26 46 0.63
27 3 0.04
30 3 0.04
31 21 0.29
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (26 bp):
TGTAAATAAATAATATTTGAAGGTGT
Found at i:111607550 original size:57 final size:57
Alignment explanation
Indices: 111607470--111607596 Score: 229
Period size: 57 Copynumber: 2.2 Consensus size: 57
111607460 TGTGAACCCA
* *
111607470 GTGTTCAATGT-AAATAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
1 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
111607526 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
1 GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
111607583 GTGTCCAATGTAAA
1 GTGTCCAATGTAAA
111607597 TAAGAAAACT
Statistics
Matches: 68, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
56 10 0.15
57 58 0.85
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (57 bp):
GTGTCCAATGTAAAAAAAATATTATTTGAAGGTGTTGTAAATAAATAATATTTGAAG
Found at i:111607596 original size:26 final size:26
Alignment explanation
Indices: 111607481--111607599 Score: 89
Period size: 26 Copynumber: 4.4 Consensus size: 26
111607471 TGTTCAATGT
* **
111607481 AAATAAATATTATTTGAAGGTGTTGT
1 AAATAAATAATATTTGAAGGTGTTCC
111607507 AAATAAATAATATTTGAAGGTG-TCC
1 AAATAAATAATATTTGAAGGTGTTCC
* * **
111607532 AATGTAAAAAAAATATTATTTGAAGGTGTTGT
1 ------AAATAAATAATATTTGAAGGTGTTCC
111607564 AAATAAATAATATTTGAAGGTG-TCC
1 AAATAAATAATATTTGAAGGTGTTCC
*
111607589 AATGTAAATAA
1 AA-ATAAATAA
111607600 GAAAACTATT
Statistics
Matches: 73, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
25 4 0.05
26 48 0.66
31 20 0.27
32 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (26 bp):
AAATAAATAATATTTGAAGGTGTTCC
Found at i:111608177 original size:24 final size:23
Alignment explanation
Indices: 111608150--111608226 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 23
111608140 TAATGTTAAA
111608150 ATTATTATCATTTAATTAGATTTT
1 ATTATTATCATTTAATTA-ATTTT
* *
111608174 ATTATTATAATTAAACTTGATATTTT
1 ATTATTATCATTTAA-TT-A-ATTTT
*
111608200 AGTATAATTATCACTTAATTAATTTT
1 A-T-T-ATTATCATTTAATTAATTTT
111608226 A
1 A
111608227 CGATTATATA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
24 13 0.31
25 2 0.05
26 13 0.31
27 2 0.05
28 3 0.07
29 9 0.21
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (23 bp):
ATTATTATCATTTAATTAATTTT
Found at i:111608695 original size:20 final size:20
Alignment explanation
Indices: 111608669--111608719 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
111608659 ATACCAAATC
111608669 TTATTTAATTAGTAAA-TATA
1 TTATTTAATT-GTAAACTATA
*
111608689 TTTTTTAAATTGTAAACTTATA
1 TTATTT-AATTGTAAAC-TATA
111608711 TTATTTAAT
1 TTATTTAAT
111608720 GAAAATGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 10 0.38
21 7 0.27
22 9 0.35
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TTATTTAATTGTAAACTATA
Found at i:111608717 original size:22 final size:21
Alignment explanation
Indices: 111608669--111608718 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
111608659 ATACCAAATC
111608669 TTATTT-AATTAGTAAATATA
1 TTATTTAAATTAGTAAATATA
*
111608689 TTTTTTAAATT-GTAAACTTATA
1 TTATTTAAATTAGTAAA--TATA
111608711 TTATTTAA
1 TTATTTAA
111608719 TGAAAATGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 10 0.40
21 4 0.16
22 11 0.44
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
TTATTTAAATTAGTAAATATA
Found at i:111618339 original size:17 final size:19
Alignment explanation
Indices: 111618297--111618340 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
111618287 ATGAAATTTT
*
111618297 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
111618316 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
111618334 AA-TATTA
1 AATTATTA
111618341 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:111620339 original size:26 final size:27
Alignment explanation
Indices: 111620290--111620352 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 27
111620280 TTTATTAAAC
* * * *
111620290 TACCCCTAAGTATGAAAATTACCGTTT
1 TACCCCTAGGTATCAAAATGACCGTTA
111620317 TACCCCTAGGTA-CAAAATGACCGTTA
1 TACCCCTAGGTATCAAAATGACCGTTA
111620343 TACCCCTAGG
1 TACCCCTAGG
111620353 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 21 0.66
27 11 0.34
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
TACCCCTAGGTATCAAAATGACCGTTA
Found at i:111624614 original size:7 final size:7
Alignment explanation
Indices: 111624602--111624630 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
111624592 GATTCAGAAT
111624602 TGAATTA
1 TGAATTA
111624609 TGAATTA
1 TGAATTA
111624616 TGAATTA
1 TGAATTA
111624623 TGAATTA
1 TGAATTA
111624630 T
1 T
111624631 TATAGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (7 bp):
TGAATTA
Found at i:111630455 original size:26 final size:26
Alignment explanation
Indices: 111630426--111630533 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
111630416 TGGTACAAAT
*
111630426 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
111630452 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
111630478 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
111630504 TGATAATGGATTAGGTAAATGTTCCT
1 TGATAATGGATTAGGTAAATGTTCCA
111630530 TGAT
1 TGAT
111630534 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:111632049 original size:26 final size:26
Alignment explanation
Indices: 111632020--111632072 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111632010 TTTACAGTTT
111632020 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
111632046 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
111632072 T
1 T
111632073 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:111633610 original size:20 final size:20
Alignment explanation
Indices: 111633585--111633640 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
111633575 AGATTGGGGC
*
111633585 ACATGCCCGTGTGGCCTGGG
1 ACATGCCCGTGTGGCCTAGG
**
111633605 ACATGCTAGTGTGGCCTAGG
1 ACATGCCCGTGTGGCCTAGG
*
111633625 ACATGCCCGTGGGGCC
1 ACATGCCCGTGTGGCC
111633641 ATCCCGTGGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.29, G:0.38, T:0.20
Consensus pattern (20 bp):
ACATGCCCGTGTGGCCTAGG
Found at i:111636075 original size:20 final size:20
Alignment explanation
Indices: 111636050--111636090 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
111636040 CTAATTACTT
111636050 CTAATTAAAAATAAATTCAA
1 CTAATTAAAAATAAATTCAA
* *
111636070 CTAATTAAAATTTAATTCAA
1 CTAATTAAAAATAAATTCAA
111636090 C
1 C
111636091 CCATAACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (20 bp):
CTAATTAAAAATAAATTCAA
Found at i:111638810 original size:22 final size:21
Alignment explanation
Indices: 111638753--111638810 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
111638743 TATAATATAT
* *
111638753 AATATGAAAGTATATATGTAAA
1 AATAT-AAAGAATATATATAAA
* *
111638775 AATAATATATAATATATATAAA
1 AAT-ATAAAGAATATATATAAA
111638797 GAATATAAAGAATA
1 -AATATAAAGAATA
111638811 CGTAATACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (21 bp):
AATATAAAGAATATATATAAA
Found at i:111638837 original size:3 final size:3
Alignment explanation
Indices: 111638829--111638944 Score: 59
Period size: 3 Copynumber: 39.0 Consensus size: 3
111638819 AAGTAAAAAT
* * * *
111638829 ATA ATA ATA ATA TATAA ATA ATA AT- GTA A-A ATA ATA ATA GTTT GTA
1 ATA ATA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
*
111638875 A-A A-A ATA ATA TATA ATAA ATA ATA ATA AT- ATA A-A ATA ATGT ATA
1 ATA ATA ATA ATA -ATA AT-A ATA ATA ATA ATA ATA ATA ATA AT-A ATA
*
111638919 ATA A-A ATA ATT AT- ATA ATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA
111638945 TAAAGATATA
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
2 15 0.17
3 57 0.64
4 16 0.18
5 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:111638865 original size:30 final size:31
Alignment explanation
Indices: 111638829--111638957 Score: 108
Period size: 30 Copynumber: 4.2 Consensus size: 31
111638819 AAGTAAAAAT
*
111638829 ATAATAATAATATATA-AATAATAATGTAAA
1 ATAATAATAATATATATAATAATAATATAAA
* * * * *
111638859 ATAATAATAGTTTGTA-AAAAATAATATATA
1 ATAATAATAATATATATAATAATAATATAAA
* *
111638889 ATAAATAATAATA-ATATAA-AATAATGTATA
1 AT-AATAATAATATATATAATAATAATATAAA
111638919 ATAA-AATAAT-TATATAATATATAATATAAA
1 ATAATAATAATATATATAATA-ATAATATAAA
111638949 GATATATAA
1 -ATA-ATAA
111638958 ACATTATGTG
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
28 12 0.15
29 3 0.04
30 48 0.61
31 13 0.16
32 1 0.01
33 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (31 bp):
ATAATAATAATATATATAATAATAATATAAA
Found at i:111638867 original size:50 final size:50
Alignment explanation
Indices: 111638770--111638913 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 50
111638760 AAGTATATAT
* * *
111638770 GTAAAAATAATATATAAT-ATATATAAAGAAT-ATAAAGAATACGTAATA-CAA
1 GTAAAAAT-ATA-ATAATAATATATAAATAATAATTAA-AATA-ATAATAGCAA
***
111638821 GTAAAAATATAATAATAATATATAAATAATAATGTAAAATAATAATAGTTT
1 GTAAAAATATAATAATAATATATAAATAATAAT-TAAAATAATAATAGCAA
*
111638872 GTAAAAA-ATAATATATAATAAAT-AATAATAATATAAAATAAT
1 GTAAAAATATAATA-ATAATATATAAATAATAAT-TAAAATAAT
111638914 GTATAATAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
49 5 0.06
50 44 0.55
51 29 0.36
52 2 0.03
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (50 bp):
GTAAAAATATAATAATAATATATAAATAATAATTAAAATAATAATAGCAA
Found at i:111638942 original size:15 final size:14
Alignment explanation
Indices: 111638827--111638957 Score: 63
Period size: 14 Copynumber: 8.9 Consensus size: 14
111638817 ACAAGTAAAA
111638827 ATATAATA-ATAAT
1 ATATAATATATAAT
111638840 ATATAA-ATAATAAT
1 ATATAATAT-ATAAT
* *
111638854 GTAAAATA-ATAAT
1 ATATAATATATAAT
* * *
111638867 AGTTTGTAAAAAATAAT
1 A---TATAATATATAAT
*
111638884 ATATAATAAATAAT
1 ATATAATATATAAT
111638898 A-ATAATATAAAATAAT
1 ATATAATAT---ATAAT
* *
111638914 GTATAATAAAATAATT
1 ATATAAT-ATATAA-T
111638930 ATATAATATATAAT
1 ATATAATATATAAT
*
111638944 ATAAAGATATATAA
1 ATATA-ATATATAA
111638958 ACATTATGTG
Statistics
Matches: 90, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
12 1 0.01
13 17 0.19
14 26 0.29
15 18 0.20
16 16 0.18
17 11 0.12
18 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (14 bp):
ATATAATATATAAT
Found at i:111638947 original size:20 final size:19
Alignment explanation
Indices: 111638725--111638947 Score: 73
Period size: 20 Copynumber: 11.8 Consensus size: 19
111638715 AAAAGATGAC
*
111638725 ATAATAATATAAAATAAT-T
1 ATAAT-ATATAATATAATAT
111638744 ATAATATATAATATGAA-AGT
1 ATAATATATAATAT-AATA-T
* *
111638764 AT-ATATGTAAAAATAATAT
1 ATAATATAT-AATATAATAT
* *
111638783 ATAATATATATAAAGAATAT
1 ATAATATATA-ATATAATAT
* *
111638803 A-AAGAATACGTAATACAAGTA-
1 ATAA-TATA--TAATATAA-TAT
111638824 A-AA-ATATAATAATAATAT
1 ATAATATATAAT-ATAATAT
*
111638842 ATAA-ATAATAATGTAA-A-
1 ATAATAT-ATAATATAATAT
* * * *
111638859 ATAATA-ATAGTTTGTAAAAA
1 ATAATATATA--ATATAATAT
111638879 ATAATATATAATA-AATA-
1 ATAATATATAATATAATAT
* *
111638896 ATAATAATATAAAATAATGT
1 ATAAT-ATATAATATAATAT
*
111638916 ATAATA-A-AATA-ATTAT
1 ATAATATATAATATAATAT
111638932 ATAATATATAATATAA
1 ATAATATATAATATAA
111638948 AGATATATAA
Statistics
Matches: 157, Mismatches: 20, Indels: 54
0.68 0.09 0.23
Matches are distributed among these distances:
16 12 0.08
17 19 0.12
18 34 0.22
19 37 0.24
20 41 0.26
21 10 0.06
22 4 0.03
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.34
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:111644659 original size:23 final size:24
Alignment explanation
Indices: 111644633--111644678 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
111644623 TATCATTTAT
111644633 TTCATTATAT-CA-ATATTTTATGC
1 TTCA-TATATCCATATATTTTATGC
*
111644656 TTCATATTTCCATATATTTTATG
1 TTCATATATCCATATATTTTATG
111644679 TATATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.28, C:0.13, G:0.04, T:0.54
Consensus pattern (24 bp):
TTCATATATCCATATATTTTATGC
Found at i:111645094 original size:46 final size:45
Alignment explanation
Indices: 111644939--111645240 Score: 319
Period size: 46 Copynumber: 7.0 Consensus size: 45
111644929 TTTGACGTGA
* * * * ** * *
111644939 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
** * * *
111644984 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT-ACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTCATATCAGGT
*
111645029 TGCCGTGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TCATATCAGGT
111645075 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
*
111645113 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGT
*
111645159 TGTCATGGTATCTTTCAACCATGGTCTT--ACA--C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
111645197 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAG
111645241 AGAGCACACT
Statistics
Matches: 221, Mismatches: 17, Indels: 37
0.80 0.06 0.13
Matches are distributed among these distances:
38 64 0.29
39 2 0.01
40 6 0.03
41 2 0.01
43 2 0.01
44 7 0.03
45 67 0.30
46 71 0.32
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
Found at i:111645121 original size:38 final size:38
Alignment explanation
Indices: 111645070--111645229 Score: 230
Period size: 38 Copynumber: 4.0 Consensus size: 38
111645060 CATCTCATAT
111645070 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
111645108 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
*
111645153 TCAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
111645192 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
111645230 TTTCATATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
38 69 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:111645136 original size:84 final size:84
Alignment explanation
Indices: 111645027--111645240 Score: 392
Period size: 84 Copynumber: 2.5 Consensus size: 84
111645017 TTTCATGTAC
* *
111645027 GTTGCCGTGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
111645092 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
* *
111645111 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGTCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
111645176 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
111645195 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
111645241 AGAGCACACT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 125 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:111655718 original size:40 final size:40
Alignment explanation
Indices: 111655671--111655814 Score: 209
Period size: 40 Copynumber: 3.6 Consensus size: 40
111655661 CTCGCACAAG
*
111655671 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
111655711 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
111655751 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
*
111655791 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
111655815 CATTTGAATA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:111655771 original size:80 final size:79
Alignment explanation
Indices: 111655635--111655814 Score: 256
Period size: 80 Copynumber: 2.3 Consensus size: 79
111655625 ACCCAAGTAT
* * *
111655635 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGT
*
111655698 CACTAGCATAAATGC
65 CACTAGCATAAAAGC
* * *
111655713 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGT
111655778 CACTAGCATAAAAGC
65 CACTAGCATAAAAGC
*
111655793 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
111655815 CATTTGAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
77 1 0.01
78 11 0.12
79 18 0.20
80 61 0.67
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCATAAAAGC
Found at i:111660733 original size:41 final size:41
Alignment explanation
Indices: 111660676--111660831 Score: 262
Period size: 41 Copynumber: 3.8 Consensus size: 41
111660666 GAATGTAATA
* *
111660676 CAGACTTTAAGTCTAGCA-GCATTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGC-TTAATGCCGGTGATACATTT
111660717 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
111660758 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
111660799 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
111660832 TACTGAATCA
Statistics
Matches: 111, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
40 3 0.03
41 106 0.95
42 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:111660856 original size:82 final size:82
Alignment explanation
Indices: 111660676--111660873 Score: 269
Period size: 82 Copynumber: 2.4 Consensus size: 82
111660666 GAATGTAATA
111660676 CAGACTTTAAGTCTAGCA-GCATTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTT
1 CAGACTTTAAGTCTAGCAGGC-TTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTT
*
111660740 AATGCCGGTGATACATTT
65 AATGCCGGTGATACATAT
* *
111660758 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
111660822 AGTGCCGGTG-TAC-TGAAT
66 A-TGCCGGTGATACAT--AT
* * **
111660840 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
111660874 ATCTGTTTAA
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
80 1 0.01
81 6 0.06
82 94 0.91
83 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:111668310 original size:41 final size:41
Alignment explanation
Indices: 111668253--111668408 Score: 278
Period size: 41 Copynumber: 3.8 Consensus size: 41
111668243 GAATGTAATA
* *
111668253 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
111668294 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
111668335 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
111668376 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG
1 CAGACTATATGTCTAGCAGGCTTAA-TGCCGGTG
111668409 TACTGAATCA
Statistics
Matches: 112, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
40 3 0.03
41 109 0.97
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (41 bp):
CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:111668433 original size:82 final size:82
Alignment explanation
Indices: 111668253--111668450 Score: 285
Period size: 82 Copynumber: 2.4 Consensus size: 82
111668243 GAATGTAATA
111668253 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
*
111668318 ATGCCGGTGATACATTT
66 ATGCCGGTGATACATAT
* *
111668335 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGC-TA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
111668399 AGTGCCGGTG-TAC-TGAAT
66 A-TGCCGGTGATACAT--AT
* * **
111668417 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
111668451 ATCTGTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 6 0.06
82 97 0.93
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (82 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTCAGACTATATGTCTAGCAGGCTTA
ATGCCGGTGATACATAT
Found at i:111669787 original size:40 final size:40
Alignment explanation
Indices: 111669740--111669883 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
111669730 CTCGCACAAG
*
111669740 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
111669780 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
111669820 GCCTTCGGATCTTA-CTTCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGC-CCGGATATAGTCACTAGCATAAAT
*
111669860 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
111669884 CATTCGAATA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 85 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:111669842 original size:80 final size:79
Alignment explanation
Indices: 111669704--111669883 Score: 240
Period size: 80 Copynumber: 2.3 Consensus size: 79
111669694 ACCCAAGTAT
* * *
111669704 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGT
*
111669767 CACTAGCATAAATGC
65 CACTAGCATAAAAGC
* * *
111669782 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTA-CTTCGGATATAG
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGC-CCGGATATAG
111669846 TCACTAGCATAAAAGC
64 TCACTAGCATAAAAGC
*
111669862 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
111669884 CATTCGAATA
Statistics
Matches: 90, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 11 0.12
79 19 0.21
80 59 0.66
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
ACTAGCATAAAAGC
Found at i:111673153 original size:27 final size:26
Alignment explanation
Indices: 111673105--111673159 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 26
111673095 TTAACCACAA
*
111673105 ATCTATTCTAGTGGCTTGACCACACTT
1 ATCTATTCTAGTGGATTGACCACA-TT
*
111673132 ATCTAATTCTGGTGGATT-ACCACATT
1 ATCT-ATTCTAGTGGATTGACCACATT
111673158 AT
1 AT
111673160 TTTTGTCTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.16
27 10 0.40
28 11 0.44
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (26 bp):
ATCTATTCTAGTGGATTGACCACATT
Found at i:111673461 original size:44 final size:44
Alignment explanation
Indices: 111673401--111673487 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
111673391 TCCTTTTTTT
111673401 AAAAAAAGGAAATTTGTTTTTGAACAAAAATGAAGGCCAAATTA
1 AAAAAAAGGAAATTTGTTTTTGAACAAAAATGAAGGCCAAATTA
111673445 AAAAAAAGGAAATTTGTTTTTGAACAAAAATGAAGGCCAAATT
1 AAAAAAAGGAAATTTGTTTTTGAACAAAAATGAAGGCCAAATT
111673488 TGGGTCTACG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (44 bp):
AAAAAAAGGAAATTTGTTTTTGAACAAAAATGAAGGCCAAATTA
Found at i:111674321 original size:140 final size:141
Alignment explanation
Indices: 111674128--111674834 Score: 774
Period size: 139 Copynumber: 5.1 Consensus size: 141
111674118 GGCATATAAT
*
111674128 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACACATATAA
1 ATAATAATATTAAAATAAAGTAATT-AAAATAATACTATGTATAAATATATATATACACATATAA
* * *
111674193 TAAAAACATACACTAATATTAATAATGATAATGATACTAACAATAGTAATGAAATACAAAAAAAG
65 TAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAAAAG
111674258 TAAATATAATATA
130 -AAATATAATATA
*
111674271 ATAATAATATTAAAATAAAGTAATT-AAA-AATACTATGTATAAATATATATATACATATATAAT
1 ATAATAATATTAAAATAAAGTAATTAAAATAATACTATGTATAAATATATATATACACATATAAT
*
111674334 -AAAACATATACTAATATTAATAATAATAATAATACTAGA-AATAATAATGAAATACAAAAAAAA
66 AAAAACATACACTAATATTAATAATAATAATAATACTA-ACAATAATAATGAAATAC-AAAAAAA
* *
111674397 TAAACATAATATA
129 GAAATATAATATA
* * * *
111674410 ATAATATTATTAAAATAAAGTAATTAAAAATAATACTATATGTAAAAATATATATATATACCTAT
1 ATAATAATATTAAAATAAAGTAATT-AAAATAATAC--TATGTATAAATATATATATACACATAT
* *
111674475 ATATAAAAACATACACTAATATTAATAATAATAATAATATTAGCAATAATAATGAAATACAAAAA
63 A-ATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAA
111674540 AAG---TA-AATATA
127 AAGAAATATAATATA
*
111674551 ATAATAATGTTAAAATAAAGTAATT--AA-AA-A-TA-G--T--AT-TATATAT----ATATAAT
1 ATAATAATATTAAAATAAAGTAATTAAAATAATACTATGTATAAATATATATATACACATATAAT
* * * * * *
111674601 AAGAATATACACTAATACTAATAATAATAATAATAGT---AATAATATTGAAATAC--AAAAAGC
66 AAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAAAAGA
*
111674661 AATGTAATATA
131 AATATAATATA
*
111674672 ATAA-AATATTAAAATAAAGTAATTAAAAATAATACTATGTATAAATATAAATACATATACATAT
1 ATAATAATATTAAAATAAAGTAATT-AAAATAATACTATGTATAAATAT--AT--ATATACACAT
* * * ** *
111674736 ATAATAAAAATATATACTAATATTAATAATAATAATAATAATAGTAATAATATTGAAATACAAAA
61 ATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAATACAAAA
**
111674801 AAA-AAGCA-AATATA
126 AAAGAAATATAATATA
*
111674815 ATTACTAATATTAATAATAA
1 A-TAATAATATTAA-AATAA
111674835 TAATAATAAT
Statistics
Matches: 484, Mismatches: 38, Indels: 81
0.80 0.06 0.13
Matches are distributed among these distances:
117 6 0.01
119 15 0.03
120 20 0.04
121 10 0.02
122 35 0.07
123 6 0.01
124 2 0.00
125 1 0.00
126 2 0.00
127 8 0.02
128 2 0.00
129 1 0.00
131 2 0.00
132 2 0.00
133 2 0.00
134 2 0.00
136 5 0.01
137 2 0.00
138 2 0.00
139 84 0.17
140 81 0.17
141 35 0.07
142 6 0.01
143 48 0.10
144 27 0.06
145 22 0.05
146 56 0.12
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (141 bp):
ATAATAATATTAAAATAAAGTAATTAAAATAATACTATGTATAAATATATATATACACATATAAT
AAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAATACAAAAAAAGA
AATATAATATA
Found at i:111674455 original size:18 final size:18
Alignment explanation
Indices: 111674434--111674468 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
111674424 ATAAAGTAAT
111674434 TAAAAATA-ATACTATATG
1 TAAAAATATATA-TATATG
111674452 TAAAAATATATATATAT
1 TAAAAATATATATATAT
111674469 ACCTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (18 bp):
TAAAAATATATATATATG
Found at i:111674505 original size:3 final size:3
Alignment explanation
Indices: 111674491--111674644 Score: 50
Period size: 3 Copynumber: 50.7 Consensus size: 3
111674481 AAACATACAC
* * * * *
111674491 TAA TAT TAA TAA TAA TAA TAA TAT TAG CAA TAA TAA TGA -AA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * ** * *
111674536 AAA AAA GTAA -ATA TAA TAA TAA TGT TAA -AA TAA -AG TAA TTAA AAA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * * *
111674581 TAG T-A TTA TATA TATA TAA TAA GAA T-A TACA CTAA TAC TAA TAA TAA
1 TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA
*
111674628 TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TA
111674645 TTGAAATACA
Statistics
Matches: 110, Mismatches: 28, Indels: 26
0.67 0.17 0.16
Matches are distributed among these distances:
2 8 0.07
3 83 0.75
4 17 0.15
5 2 0.02
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:111674512 original size:18 final size:18
Alignment explanation
Indices: 111674491--111674527 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
111674481 AAACATACAC
*
111674491 TAATATTAATAATAATAA
1 TAATATTAACAATAATAA
*
111674509 TAATATTAGCAATAATAA
1 TAATATTAACAATAATAA
111674527 T
1 T
111674528 GAAATACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATATTAACAATAATAA
Found at i:111674650 original size:119 final size:122
Alignment explanation
Indices: 111674452--111674771 Score: 352
Period size: 120 Copynumber: 2.6 Consensus size: 122
111674442 ATACTATATG
*
111674452 TAAAAATATATATATATACCTATATATAAAAACATACACTAATATTAATAATAATAATAATATTA
1 TAAAAATATATATATATA-CTATATATAAAAACATACACTAATACTAATAATAATAATAATATTA
*
111674517 GCAATAATAATGAAATACAAAAA-AA-GTAAATATAATAATAATGTTAAAATAAAGTAAT
65 GCAATAATAATGAAATACAAAAACAATGT-AATATAATAA-AATATTAAAATAAAGTAAT
* *
111674575 TAAAAATAGTAT-TATATA-TATATAATAAGAATATACACTAATACTAATAATAATAAT-A-A-T
1 TAAAAATA-TATATATATACTATAT-ATAAAAACATACACTAATACTAATAATAATAATAATATT
* *
111674635 AGTAATAATATTGAAATACAAAAAGCAATGTAATATAATAAAATATTAAAATAAAGTAAT
64 AGCAATAATAATGAAATACAAAAA-CAATGTAATATAATAAAATATTAAAATAAAGTAAT
* * * * * * *
111674695 TAAAAATA-ATACTATGTA-TAAATATAAATACATATACATATATAATAAAAATATATACTAATA
1 TAAAAATATATA-TATATACTATATATAAAAACATACAC-TA-ATACTAATAATA-ATAATAATA
**
111674758 TTAATAATAATAAT
62 TTAGCAATAATAAT
111674772 AATAATAGTA
Statistics
Matches: 167, Mismatches: 17, Indels: 24
0.80 0.08 0.12
Matches are distributed among these distances:
118 2 0.01
119 33 0.20
120 38 0.23
121 28 0.17
122 36 0.22
123 15 0.09
124 4 0.02
125 11 0.07
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (122 bp):
TAAAAATATATATATATACTATATATAAAAACATACACTAATACTAATAATAATAATAATATTAG
CAATAATAATGAAATACAAAAACAATGTAATATAATAAAATATTAAAATAAAGTAAT
Found at i:111674767 original size:3 final size:3
Alignment explanation
Indices: 111674736--111674848 Score: 63
Period size: 3 Copynumber: 38.0 Consensus size: 3
111674726 ATATACATAT
* * * *
111674736 ATA ATA AAA ATA TATA CTA ATA TTA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
111674782 ATA ATA TTG A-A ATA CA-A AAA AAA AGC A-A AT- ATA ATTA CTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
*
111674825 TTA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA
111674849 TTGAAATACA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
2 5 0.06
3 73 0.87
4 6 0.07
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:111674795 original size:262 final size:264
Alignment explanation
Indices: 111674311--111674803 Score: 701
Period size: 262 Copynumber: 1.9 Consensus size: 264
111674301 TACTATGTAT
* *
111674311 AAATATATATATACATATATAATAAAACATATACTAATATTAATAATAATAATAATACTAGAAAT
1 AAATATATATATACATATATAATAAAACATACACTAATACTAATAATAATAATAATACTAGAAAT
*
111674376 AATAATGAAATACAAAAAAAATAAACATAATATAATAATATTATTAAAATAAAGTAATTAAAAAT
66 AATAATGAAATACAAAAAAAAT--A-ATAATATAATAATAATATTAAAATAAAGTAATTAAAAAT
* * * *
111674441 AATACTATATGTAAAAATATATATATATACCTATATATAAAAACATACACTAATATTAATAATAA
128 AATACTATATATAAAAATAAATACATATACATATATATAAAAACATACACTAATATTAATAATAA
*
111674506 TAATAATATTAGCAATAATAATGAAATACAAAAAAAGTAAATATAATAATAATGTTAAAATAAAG
193 TAATAATAATAGCAATAATAATGAAATACAAAAAAAGTAAATATAATAATAATGTTAAAATAAAG
111674571 TAATTAA
258 TAATTAA
* * *
111674578 AAATAGTAT-TATATATATATAATAAGAATATACACTAATACTAATAATAATAAT-A-A-TAGTA
1 AAATA-TATATATACATATATAATAA-AACATACACTAATACTAATAATAATAATAATACTAGAA
* * *
111674639 ATAATATTGAAATACAAAAAGCAAT-GTAATATAATAA-AATATTAAAATAAAGTAATTAAAAAT
64 ATAATAATGAAATACAAAAA-AAATAATAATATAATAATAATATTAAAATAAAGTAATTAAAAAT
* * * *
111674702 AATACTATGTATAAATATAAATACATATACATATATAATAAAAATATATACTAATATTAATAATA
128 AATACTATATATAAAAATAAATACATATACATATAT-ATAAAAACATACACTAATATTAATAATA
* *
111674767 ATAATAATAATAGTAATAATATTGAAATACAAAAAAA
192 ATAATAATAATAGCAATAATAATGAAATACAAAAAAA
111674804 AAGCAAATAT
Statistics
Matches: 202, Mismatches: 20, Indels: 13
0.86 0.09 0.06
Matches are distributed among these distances:
261 55 0.27
262 71 0.35
265 23 0.11
266 4 0.02
267 21 0.10
268 28 0.14
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (264 bp):
AAATATATATATACATATATAATAAAACATACACTAATACTAATAATAATAATAATACTAGAAAT
AATAATGAAATACAAAAAAAATAATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAAT
ACTATATATAAAAATAAATACATATACATATATATAAAAACATACACTAATATTAATAATAATAA
TAATAATAGCAATAATAATGAAATACAAAAAAAGTAAATATAATAATAATGTTAAAATAAAGTAA
TTAA
Found at i:111674824 original size:61 final size:59
Alignment explanation
Indices: 111674759--111674901 Score: 193
Period size: 61 Copynumber: 2.4 Consensus size: 59
111674749 ATACTAATAT
*
111674759 TAATAATAATAATAATAATAGTAATAATATTGAAATACAAAAAAAAAGCAAATATAAT-TAC
1 TAATAATAATAATAATAATAGTAATAATATTGAAATAC---AAAAAAGCAAATATAATATAA
* *
111674820 TAATATTAATAATAATAATAATAATAATATTGAAATACAAAAAAGCAAATATAATATAA
1 TAATAATAATAATAATAATAGTAATAATATTGAAATACAAAAAAGCAAATATAATATAA
* *
111674879 TAAAAATATTAA-AATAA-AGTAAT
1 TAATAATAATAATAATAATAGTAAT
111674902 TAAAAAAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
57 5 0.07
58 22 0.30
59 11 0.15
61 36 0.49
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (59 bp):
TAATAATAATAATAATAATAGTAATAATATTGAAATACAAAAAAGCAAATATAATATAA
Found at i:111674831 original size:143 final size:139
Alignment explanation
Indices: 111674587--111674848 Score: 341
Period size: 143 Copynumber: 1.8 Consensus size: 139
111674577 AAAATAGTAT
* * *
111674587 TATATATATATAATAAGAATATACACTAATACTAATAATAATAATAATAGTAATAATATTGAAAT
1 TATACATATATAATAAAAATATACACTAATAATAATAATAATAATAATAGTAATAATATTGAAAT
* * * *
111674652 ACAAAAAGCAATGTAATATAATAAAATATTAAAATAA-AGTAATTAAAAATAATACTATGTATAA
66 ACAAAAAGAAAAGAAATATAATAAAATATT-AAATAATAATAA-TAAAAATAATACTATGTATAA
111674716 ATATAAATACA
129 ATATAAATACA
*
111674727 TATACATATATAATAAAAATATATACTAATATTAATAATAATAATAATAATAGTAATAATATTGA
1 TATACATATATAATAAAAATATACACT-A-A-TAATAATAATAATAATAATAGTAATAATATTGA
* *
111674792 AATACAAAAA-AAAAGCAAATATAATTACTAATATT-AATAATAATAATAATAATAATA
63 AATACAAAAAGAAAAG-AAATATAA-TA-AAATATTAAATAATAATAATAAAAATAATA
111674849 TTGAAATACA
Statistics
Matches: 105, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
140 24 0.23
141 1 0.01
142 4 0.04
143 64 0.61
144 6 0.06
145 6 0.06
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (139 bp):
TATACATATATAATAAAAATATACACTAATAATAATAATAATAATAATAGTAATAATATTGAAAT
ACAAAAAGAAAAGAAATATAATAAAATATTAAATAATAATAATAAAAATAATACTATGTATAAAT
ATAAATACA
Found at i:111674904 original size:143 final size:143
Alignment explanation
Indices: 111674619--111674895 Score: 322
Period size: 143 Copynumber: 2.0 Consensus size: 143
111674609 ACACTAATAC
* * *
111674619 TAATAATAATAATAATAGTAATAATATTGAAATACAAAAAGCAATGTAATATAATAAAATATTAA
1 TAATAATAATAATAATAGTAATAATATTGAAATACAAAAAGAAAAGAAATATAATAAAATATTAA
* *
111674684 AATAAAGTAATTAAAAATAATACTATGTATAAATATAAATACATATACATATATAATAAAAATAT
66 AATAAAGTAATTAAAAATAATACTATGAATAAATATAAATACAAATACATATATAATAAAAATAT
* *
111674749 ATACTAATATTAA
131 AAAATAATATTAA
*
111674762 TAATAATAATAATAATAGTAATAATATTGAAATACAAAAA-AAAAGCAAATATAATTACTAATAT
1 TAATAATAATAATAATAGTAATAATATTGAAATACAAAAAGAAAAG-AAATATAA-TA-AAATAT
* * *
111674826 TAATAAT-AA-TAA-TAATAATAATA-T-TGAAATACAA-A-AAA-GCAAATATA-ATATAATAA
63 TAA-AATAAAGTAATTAAAAATAATACTATG-AATA-AATATAAATACAAATACATATATAATAA
111674882 AAATATTAAAATAA
125 AAATA-TAAAATAA
111674896 AGTAATTAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
139 14 0.12
140 12 0.10
141 5 0.04
142 8 0.07
143 59 0.51
144 5 0.04
145 10 0.09
146 3 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (143 bp):
TAATAATAATAATAATAGTAATAATATTGAAATACAAAAAGAAAAGAAATATAATAAAATATTAA
AATAAAGTAATTAAAAATAATACTATGAATAAATATAAATACAAATACATATATAATAAAAATAT
AAAATAATATTAA
Found at i:111674977 original size:3 final size:3
Alignment explanation
Indices: 111674963--111675014 Score: 56
Period size: 3 Copynumber: 18.0 Consensus size: 3
111674953 AAATATACAC
*
111674963 TAA TATA TAA TAA TAA TAA TAA TAG TAA TAA TAA T-A TAA -AA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
111675006 TAA AAA TAA
1 TAA TAA TAA
111675015 AAATGATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
2 6 0.14
3 33 0.79
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:111676580 original size:14 final size:14
Alignment explanation
Indices: 111676547--111676580 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
111676537 GTTGATTTTC
*
111676547 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
111676561 TT-AAAAACAGAAA
1 TTGAAAAACAGAAA
111676574 TTGAAAA
1 TTGAAAA
111676581 TATCTCGGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:111676760 original size:77 final size:77
Alignment explanation
Indices: 111676641--111676792 Score: 286
Period size: 77 Copynumber: 2.0 Consensus size: 77
111676631 ATAGAAACTA
111676641 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
111676706 AAACAGAAATTG
66 AAACAGAAATTG
* *
111676718 AAAATACCTCGGCCTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
111676783 AAACAGAAAT
66 AAACAGAAAT
111676793 AAAAATATCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (77 bp):
AAAATACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
AAACAGAAATTG
Found at i:111688868 original size:43 final size:43
Alignment explanation
Indices: 111688780--111688944 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
111688770 AATGTGATAT
* * ** *
111688780 TCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTG-A-AATAATA
*
111688823 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAGATAATA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAAATAATA
* *
111688866 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCGGTGAAATGATA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAAATAATA
** * * *
111688909 TCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAA
111688945 TGAGTTCAGA
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
42 12 0.11
43 73 0.68
44 17 0.16
45 5 0.05
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (43 bp):
TCGGGCTTCGGGCCTAGCAAGCTATAATGCCAGTGAAATAATA
Found at i:111688967 original size:41 final size:42
Alignment explanation
Indices: 111688877--111688971 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 42
111688867 CGGGCTTCGG
* * * * *
111688877 GCCTAGCAAGCTATAATGCCGGTGAAATGATATCGGGCTTCAA
1 GCCTAGCAGGCGA-AATGCCGGTGAAATGATATCAGACTTAAA
111688920 GCCTAGCAGGCGAAATGCCGGTG-AATGAGT-TCAGACTTAAA
1 GCCTAGCAGGCGAAATGCCGGTGAAATGA-TATCAGACTTAAA
*
111688961 GTCTAGCAGGC
1 GCCTAGCAGGC
111688972 TTTGTGCTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 23 0.51
42 11 0.24
43 11 0.24
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (42 bp):
GCCTAGCAGGCGAAATGCCGGTGAAATGATATCAGACTTAAA
Found at i:111689025 original size:40 final size:40
Alignment explanation
Indices: 111688834--111689025 Score: 116
Period size: 43 Copynumber: 4.6 Consensus size: 40
111688824 CGGGCTTCGG
* * * ***
111688834 GCCTAGCAAGCTATAATGCCAGTGAGATAATATCGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGATA-AAT-TCGGGCTTAAA
* *
111688877 GCCTAGCAAGCTATAATGCCGGTGA-AATGATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTGATAA--AT-TCGGGCTTAAA
* * * * *
111688920 GCCTAGCAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTG-ATAAATTCGGGCTTAAA
* *** ** *
111688961 GTCTAGCAGGCTTTGTGCTAGTGATAAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGATAAATTCGGGCTTAAA
*
111689001 ACCTAGCAGGCTAAATGCCGGTGAT
1 GCCTAGCAGGCTAAATGCCGGTGAT
111689026 TTAATAAAAG
Statistics
Matches: 116, Mismatches: 29, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
40 30 0.26
41 25 0.22
42 12 0.10
43 48 0.41
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (40 bp):
GCCTAGCAGGCTAAATGCCGGTGATAAATTCGGGCTTAAA
Found at i:111691728 original size:3 final size:3
Alignment explanation
Indices: 111691708--111692472 Score: 105
Period size: 3 Copynumber: 252.7 Consensus size: 3
111691698 AAACATACAC
* * * * *
111691708 TAA TAT TAA TAA TGA TAA TAA TAC TAA CAA TAA TAA TGA -AA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
111691753 AAA AAA GTAA -ATA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AT TAA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
111691796 TTAA -AA -AA TAC T-A TATA TAA -ATA TATA TACA TATA TAA TAA -AA
1 -TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TA-A TAA TAA TAA
* * * * *
111691839 CATA TAC TAA TAT TAA TAA TAA TAA TAC TAGA -AA TAA TAA TGA -AA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
* * * *
111691884 TACA AAA AAA TAA -ACA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG
1 TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
111691927 TAA TTAA AAA TAA TAC T-A TATA TAA AAA TATA TATT TACC TATA TAA
1 TAA -TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TA-A TA-A TA-A TAA
* * ** * *
111691974 TAA -AA -ACA TACA CTAA TAT TAA TAA TGA TAA TAA TGC TAA CAA TAG
1 TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
111692020 TAA TGA -AA TACA AAA AAA GTAA -ATA TAA T-A TAA TAA TAA TAT TAA
1 TAA TAA TAA TA-A TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
111692065 -AA TAA -AG TAA TTAA -AA -AA TAC T-A TATA TAA -AA AAA TATA TATA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TA-A
* * *
111692108 TACA TATA TAA TAA -AA CATA TAC TAA TAA TAA TAA TAA TAA TAC TAGA
1 TA-A TA-A TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* *
111692156 -AA TAA TAA TGA -AA TACA -AA -AA AAA TAA -ACA TAA T-A TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * * *
111692197 TAA TAT TAA -AA TAA -AG TAA TTAA AAA TAA TAC T-A TATG TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A TAA TAA
* *
111692240 T-A TATA TACC TATA TAA TAA -AA -ACA TACA CTAA TAT TAA TAA TAA
1 TAA TA-A TA-A TA-A TAA TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA
* * * * *
111692285 TAA TAA TAA TAA TAG CAA TAA TAA TGA -AA TACA AAA AAA GTAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA -TAA TA-A
** * * * *
111692331 TAA TAA TAA TGT TAA -AA TAA -AG TAA TTAA AAA TAG T-A TTA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A
* * *
111692375 TAAA TATA TATA TACG TATA TAA TAA GAA T-A TACA CTAA TAT TAA TAA
1 T-AA TA-A TA-A TA-A TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA
* * *
111692423 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAG TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
111692471 TA
1 TA
111692473 TTGAAATACA
Statistics
Matches: 552, Mismatches: 128, Indels: 164
0.65 0.15 0.19
Matches are distributed among these distances:
2 70 0.13
3 359 0.65
4 116 0.21
5 7 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:111691740 original size:141 final size:140
Alignment explanation
Indices: 111691623--111692445 Score: 1005
Period size: 141 Copynumber: 5.9 Consensus size: 140
111691613 AAAAGGAAGG
111691623 CATATA-AT-ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AATATATATAT
1 CATATATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATAT
*
111691685 ACACATATAATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAATAATGAAAT
66 ACACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAAT
111691750 ACAAAAAAAGTA
131 ACAAAAAAA--A
* *
111691762 AATATAATATAATAATAATATTAAAATAAATTAATT-AAAA-AATACTATATAT-AA-ATATATA
1 CATAT-ATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATA
* *
111691823 TACATATATAAT-AAAACATATACTAATA-T--TAATAATAATAATACTAGA-AATAATAATGAA
65 TACACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTA-ACAATAATAATGAA
111691883 ATACAAAAAAATAAA
129 ATAC--AAAAA-AAA
111691898 CATA-ATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAAATATATAT
1 CATATATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT--AAATATATAT
* * * *
111691962 TTAC-CTATATAATAAAAACATACACTAATATTAATAATGATAATAATGCTAACAATAGTAATGA
64 ATACAC-ATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGA
111692026 AATACAAAAAAAGTA
128 AATACAAAAAAA--A
*
111692041 AATATAATATAATAATAATATTAAAATAAAGTAATT-AAAA-AATACTATATATAAAAAAATATA
1 CATAT-ATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT----AAATATA
* *
111692104 TATATACATATATAAT-AAAACATATACT-A-A-TAATAATAATAATAATACTAGA-AATAATAA
61 TATATACACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTA-ACAATAATAA
111692164 TGAAATACAAAAAAAATAAA
125 TGAAATAC---AAAAA-AAA
*
111692184 CATA-ATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATGTAAA-ATATATAT
1 CATATATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATAT
*
111692247 AC-CTATATAATAAAAACATACACTAATATTAATAATAATAATAATAATAATAGCAATAATAATG
66 ACAC-ATATAATAAAAACATACACTAATATTAATAATAATAATAATACT-A-A-CAATAATAATG
111692311 AAATAC-AAAAAAA
127 AAATACAAAAAAAA
* * * * *
111692324 -GTAAATATAATAATAATGTTAAAATAAAGTAATTAAAAATAGTATTATATATAAATATATATAT
1 CATATATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATAT
** * * * *
111692388 ACGTATATAATAAGAATATACACTAATATTAATAATAATAATAATAATAATAATAATA
66 ACACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATA
111692446 GTAATAATAG
Statistics
Matches: 605, Mismatches: 35, Indels: 89
0.83 0.05 0.12
Matches are distributed among these distances:
134 29 0.05
135 36 0.06
136 17 0.03
137 6 0.01
138 41 0.07
139 41 0.07
140 83 0.14
141 143 0.24
142 54 0.09
143 35 0.06
144 50 0.08
145 70 0.12
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (140 bp):
CATATATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATAT
ACACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATAATAATGAAAT
ACAAAAAAAA
Found at i:111692003 original size:279 final size:280
Alignment explanation
Indices: 111691631--111692444 Score: 1292
Period size: 279 Copynumber: 2.9 Consensus size: 280
111691621 GGCATATAAT
*
111691631 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAATATATATA-TACAC-ATATA
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAATATATATTAC-CTATATA
111691694 ATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAATAATGAAATACAAAAAAA
65 ATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAATAATGAAATACAAAAAAA
*
111691759 GTAAATATAATATAATAATAATATTAAAATAAATTAATTAAAAAATACTATATAT-AA-ATATAT
130 GTAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATACTATATATAAATATATAT
111691822 ATACATATATAATAAAACATATACTAATATTAATAATAATAATACTAGAAATAATAATGAAATAC
195 ATACATATATAATAAAACATATACTAATATTAATAATAATAATACTAGAAATAATAATGAAATAC
111691887 -AAAAAAATAAACATAATATA
260 AAAAAAAATAAACATAATATA
111691907 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAAATATATATTTACCTATAT
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AAAATATATA-TTACCTATAT
* *
111691972 AATAAAAACATACACTAATATTAATAATGATAATAATGCTAACAATAGTAATGAAATACAAAAAA
64 AATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAATAATGAAATACAAAAAA
111692037 AGTAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATACTATATATAAAAAAATA
129 AGTAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATACTATATAT----AAATA
*
111692102 TATATATACATATATAATAAAACATATACTAATAATAATAATAATAATACTAGAAATAATAATGA
190 TATATATACATATATAATAAAACATATACTAATATTAATAATAATAATACTAGAAATAATAATGA
111692167 AATACAAAAAAAATAAACATAATATA
255 AATACAAAAAAAATAAACATAATATA
*
111692193 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATGTAAAATATATA-TACCTATATAA
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAATATATATTACCTATATAA
* *
111692257 TAAAAACATACACTAATATTAATAATAATAATAATAATAATAGCAATAATAATGAAATACAAAAA
66 TAAAAACATACACTAATATTAATAATGATAATAATACT-A-A-CAATAATAATGAAATACAAAAA
* *
111692322 AAG----TA-AATATAATAATAATGTTAAAATAAAGTAATTAAAAATAGTATTATATATAAATAT
128 AAGTAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAA-A-TACTATATATAAATAT
* * * *
111692382 ATATATACGTATATAATAAGAATATACACTAATATTAATAATAATAATAATA-ATAATAATAAT
191 ATATATACATATATAATAA-AACATATACTAATATTAATAATAATAATACTAGA-AATAATAAT
111692445 AGTAATAATA
Statistics
Matches: 503, Mismatches: 17, Indels: 32
0.91 0.03 0.06
Matches are distributed among these distances:
276 43 0.09
277 9 0.02
278 1 0.00
279 150 0.30
280 37 0.07
281 35 0.07
282 3 0.01
283 55 0.11
284 3 0.01
285 81 0.16
286 86 0.17
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (280 bp):
ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAATATATATTACCTATATAA
TAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAATAATGAAATACAAAAAAAG
TAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAAATACTATATATAAATATATATA
TACATATATAATAAAACATATACTAATATTAATAATAATAATACTAGAAATAATAATGAAATACA
AAAAAAATAAACATAATATA
Found at i:111692095 original size:16 final size:15
Alignment explanation
Indices: 111692076--111692129 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
111692066 ATAAAGTAAT
111692076 TAAAAAATACTATATA
1 TAAAAAATA-TATATA
111692092 TAAAAAA-ATATATA
1 TAAAAAATATATATA
* *
111692106 T-ATACATATATA-A
1 TAAAAAATATATATA
*
111692119 TAAAACATATA
1 TAAAAAATATA
111692130 CTAATAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.15
14 20 0.61
15 1 0.03
16 7 0.21
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAAATATATATA
Found at i:111692536 original size:67 final size:67
Alignment explanation
Indices: 111692465--111692679 Score: 213
Period size: 67 Copynumber: 3.1 Consensus size: 67
111692455 GTAATAATAG
* *
111692465 TAATAATATTGAAATACAAAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAA
1 TAATAATATTGAAATACAAAAAACAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAA
111692530 AA
66 AA
* * * * *
111692532 TAATACTA-TG-TATA-AATAAATACATATACATATATAATAAAATATATACTAATAATAATAAT
1 TAATAATATTGAAATACAA-AAA-ACAAATATA-ATATAATAAAA-ATAT--TAA-AATAA-AGT
*
111692594 AA-TAATAATAG
58 AATTAA-AA-AA
111692605 TAATAATATTGAAATACAAAAAAAACAAATATAATATAATAAAAAATATTAAAATAAAGTAATTA
1 TAATAATATTGAAATAC--AAAAAACAAATATAATATAAT-AAAAATATTAAAATAAAGTAATTA
111692670 AAAAA
63 AAAAA
111692675 TAATA
1 TAATA
111692680 CTATGTATAA
Statistics
Matches: 117, Mismatches: 14, Indels: 31
0.72 0.09 0.19
Matches are distributed among these distances:
64 2 0.02
65 6 0.05
66 7 0.06
67 18 0.15
68 4 0.03
70 9 0.08
71 14 0.12
72 14 0.12
73 11 0.09
74 2 0.02
75 14 0.12
76 11 0.09
77 3 0.03
78 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (67 bp):
TAATAATATTGAAATACAAAAAACAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAA
AA
Found at i:111692578 original size:20 final size:20
Alignment explanation
Indices: 111692528--111692594 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
111692518 AAGTAATTAA
*
111692528 AAAATA-ATACTATGTATAAAT
1 AAAATATATAC-ATATAT-AAT
*
111692549 AAATACATATACATATATAAT
1 AAA-ATATATACATATATAAT
111692570 AAAATATATAC-TA-ATAAT
1 AAAATATATACATATATAAT
111692588 AATAATA
1 AA-AATA
111692595 ATAATAATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.17
19 6 0.15
20 7 0.17
21 9 0.22
22 7 0.17
23 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (20 bp):
AAAATATATACATATATAAT
Found at i:111692587 original size:3 final size:3
Alignment explanation
Indices: 111692565--111692612 Score: 62
Period size: 3 Copynumber: 16.0 Consensus size: 3
111692555 ATATACATAT
* *
111692565 ATA ATA A-A ATA TATA CTA ATA ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
111692610 ATA
1 ATA
111692613 TTGAAATACA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:111692706 original size:22 final size:23
Alignment explanation
Indices: 111692672--111692723 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
111692662 AGTAATTAAA
111692672 AAATAATACTATGTATA-AATAT
1 AAATAATACTATGTATATAATAT
111692694 AAATACATA-TATGTATATAATA-
1 AAATA-ATACTATGTATATAATAT
*
111692716 AAAAAATA
1 AAATAATA
111692724 TACACTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 17 0.63
23 7 0.26
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATAATACTATGTATATAATAT
Found at i:111692743 original size:3 final size:3
Alignment explanation
Indices: 111692729--111692785 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
111692719 AAATATACAC
*
111692729 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA -AA -AA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
111692772 AAA TAA AAA TAA TA
1 TAA TAA TAA TAA TA
111692786 GTGTTAGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:111693360 original size:10 final size:10
Alignment explanation
Indices: 111693345--111693369 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
111693335 AAAAGGTATA
111693345 TTTTTTATTT
1 TTTTTTATTT
111693355 TTTTTTATTT
1 TTTTTTATTT
111693365 TTTTT
1 TTTTT
111693370 ATCTATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:111696578 original size:26 final size:27
Alignment explanation
Indices: 111696538--111696603 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
111696528 ATAACATGTA
* * *
111696538 AAAAAAATATTAAATTT-TTTAACTAT
1 AAAAAATTATAAAATTTATTAAACTAT
*
111696564 TAAAAATTATAAAATTTATTAAACTAT
1 AAAAAATTATAAAATTTATTAAACTAT
111696591 AAAAAATCTATAA
1 AAAAAAT-TATAA
111696604 TCTTTAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 14 0.42
28 5 0.15
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAAAATTATAAAATTTATTAAACTAT
Found at i:111708256 original size:31 final size:30
Alignment explanation
Indices: 111708214--111708277 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
111708204 CAAAATTTTG
111708214 AATAAAAAAATTATTAAAATTATATATT-AAT
1 AATAAAAAAATTATTAAAA-TAT-TATTAAAT
*
111708245 AATATAAAAATTATTAAAATATTATTAAAT
1 AATAAAAAAATTATTAAAATATTATTAAAT
111708275 AAT
1 AAT
111708278 TAACGTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 4 0.13
30 9 0.29
31 18 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AATAAAAAAATTATTAAAATATTATTAAAT
Found at i:111711752 original size:22 final size:23
Alignment explanation
Indices: 111711712--111711754 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
111711702 ATGTTTGAAA
* *
111711712 ATTTTATCAGATATTTTCAAAGC
1 ATTTTATCAAATACTTTCAAAGC
111711735 ATTTT-TCAAATACTTTCAAA
1 ATTTTATCAAATACTTTCAAA
111711755 ATGCTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (23 bp):
ATTTTATCAAATACTTTCAAAGC
Found at i:111715607 original size:21 final size:21
Alignment explanation
Indices: 111715581--111715621 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111715571 ATCTGCTCAA
* *
111715581 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
111715602 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
111715622 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:111722142 original size:31 final size:31
Alignment explanation
Indices: 111722107--111722165 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
111722097 ACATAAACTG
111722107 AATTTCAAATTTTAACATATTAAAGGGATTC
1 AATTTCAAATTTTAACATATTAAAGGGATTC
**
111722138 AATTTTGAATTTTAACATATTAAAGGGA
1 AATTTCAAATTTTAACATATTAAAGGGA
111722166 CTAAAAACCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.39
Consensus pattern (31 bp):
AATTTCAAATTTTAACATATTAAAGGGATTC
Found at i:111727329 original size:44 final size:44
Alignment explanation
Indices: 111727266--111727356 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
111727256 ACTTTGTTTT
* *
111727266 TTAGTTTTCCACTTAAACTCTTATTAGTATAGATTATTTTATTA
1 TTAGTTTCCCACTTAAACTCTTATTAGTATAGATTATTTTAATA
* *
111727310 TTAGTTTCCCACTTAAACTCTTATTAGTCTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTTATTAGTATAGATTATTTTAATA
111727354 TTA
1 TTA
111727357 TTTAACCTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.51
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTTATTAGTATAGATTATTTTAATA
Found at i:111727697 original size:20 final size:20
Alignment explanation
Indices: 111727672--111727721 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
111727662 AATATTTAGA
111727672 AATTTTTAAAGGCTTTTTGT
1 AATTTTTAAAGGCTTTTTGT
*
111727692 AATTTTTAGAGGCTTTTTGT
1 AATTTTTAAAGGCTTTTTGT
111727712 AATTTTTAAA
1 AATTTTTAAA
111727722 AATGGTCGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.04, G:0.14, T:0.54
Consensus pattern (20 bp):
AATTTTTAAAGGCTTTTTGT
Found at i:111728863 original size:15 final size:15
Alignment explanation
Indices: 111728835--111728868 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
111728825 CTTTTGTACA
111728835 AAATTAAATAAAATC
1 AAATTAAATAAAATC
* *
111728850 AAATTTAATCAAATC
1 AAATTAAATAAAATC
111728865 AAAT
1 AAAT
111728869 CTTATACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAATC
Found at i:111733486 original size:16 final size:16
Alignment explanation
Indices: 111733465--111733521 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
111733455 TGTCATGTTG
111733465 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
** *
111733481 CCATGGCCT-TATTCATTG
1 CCATGGTATCT-TTCA--A
111733499 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
111733515 CCATGGT
1 CCATGGT
111733522 CTTATTCATT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
15 1 0.03
16 18 0.58
18 11 0.35
19 1 0.03
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:111733500 original size:34 final size:34
Alignment explanation
Indices: 111733462--111733531 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
111733452 TTCTGTCATG
111733462 TTGCCATGGTATCTTTCAACCATGGCCTTATTCA
1 TTGCCATGGTATCTTTCAACCATGGCCTTATTCA
*
111733496 TTGCCATGGTATCTTTCAACCATGGTCTTATTCA
1 TTGCCATGGTATCTTTCAACCATGGCCTTATTCA
111733530 TT
1 TT
111733532 CCCGCCATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (34 bp):
TTGCCATGGTATCTTTCAACCATGGCCTTATTCA
Found at i:111733559 original size:79 final size:80
Alignment explanation
Indices: 111733427--111733573 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 80
111733417 TGACATAGTG
* * * *
111733427 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGCCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGCCATGTTGCCATGGTATCTTTCAACCATGGCCTTA
111733492 TTCATTGCCATGGTA
66 TTCATTGCCATGGTA
* *
111733507 TCTTTCAACCATGGTCTTATTCA-TTCCCGCCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGCCATGTTGCCATGGTATCTTTCAACCATGGCCTTA
111733571 TTC
66 TTC
111733574 TTTTCATGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 40 0.66
80 21 0.34
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.41
Consensus pattern (80 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGCCATGTTGCCATGGTATCTTTCAACCATGGCCTTA
TTCATTGCCATGGTA
Found at i:111733607 original size:46 final size:46
Alignment explanation
Indices: 111733496--111733810 Score: 443
Period size: 46 Copynumber: 6.9 Consensus size: 46
111733486 GCCTTATTCA
** ****
111733496 TTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGCCATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
** * * *
111733541 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
* ** * * *
111733587 TTGCCATGGTACCTTTCAACCATGGTCTTATTCTTTTCATGTCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
*
111733633 TTGCCATGGTATCTTTCAACCATAGTCTTACACATTTCATATCATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
*
111733679 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAACATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
111733725 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
*
111733771 TTGCCATGGTATCTTTCAACCATTGTCTTACACATTTCAT
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
111733811 TTCAGAAAGT
Statistics
Matches: 252, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
45 33 0.13
46 219 0.87
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (46 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATG
Found at i:111735875 original size:41 final size:41
Alignment explanation
Indices: 111735590--111735869 Score: 381
Period size: 41 Copynumber: 6.8 Consensus size: 41
111735580 TTAAACAGAT
** * * *
111735590 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
111735632 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
111735672 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
111735713 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
111735754 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
111735795 TCACCGGCATTAAGCCTGCTAGACTTAAAGTTTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
111735834 CTTCACCGGCATTAAGCCTGCTAGACTTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
111735870 TATTACATTC
Statistics
Matches: 221, Mismatches: 11, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 207 0.94
42 4 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:111738797 original size:11 final size:11
Alignment explanation
Indices: 111738781--111738828 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
111738771 CTTTATATAC
*
111738781 TAATAAAATAA
1 TAATAAAATAT
111738792 TAATAAAATATCT
1 TAATAAAATA--T
*
111738805 TATTAAAATAT
1 TAATAAAATAT
111738816 TAATAAAATAT
1 TAATAAAATAT
111738827 TA
1 TA
111738829 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 23 0.72
13 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:111743873 original size:19 final size:19
Alignment explanation
Indices: 111743834--111743873 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
111743824 AAAAAATCAC
*
111743834 ATTTTTTTACATTTAATAT
1 ATTTTTTTACATTTAAAAT
111743853 ATTTTTTTA-ATTTCAAAAT
1 ATTTTTTTACATTT-AAAAT
111743872 AT
1 AT
111743874 ATGGTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTTTACATTTAAAAT
Found at i:111746504 original size:33 final size:31
Alignment explanation
Indices: 111746444--111746539 Score: 102
Period size: 31 Copynumber: 3.0 Consensus size: 31
111746434 AGTAGAATGA
* *
111746444 ATGAAATATATAAATTTTTTAAGATCTAATTG
1 ATGAAATATATGAA-TTTTTATGATCTAATTG
* * *
111746476 ATGTCAATAATATGAATTTTTATTATCTAATTA
1 ATG-AAAT-ATATGAATTTTTATGATCTAATTG
* *
111746509 ATGAAATATATGAGTTTTTATGATATAATTG
1 ATGAAATATATGAATTTTTATGATCTAATTG
111746540 GCATCAATTG
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
31 20 0.38
32 6 0.12
33 20 0.38
34 6 0.12
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (31 bp):
ATGAAATATATGAATTTTTATGATCTAATTG
Done.