Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 11 of 24
Found at i:1787896 original size:13 final size:13
Alignment explanation
Indices: 1787878--1787903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1787868 CAATTTTTTG
1787878 TGTATCGATACAT
1 TGTATCGATACAT
1787891 TGTATCGATACAT
1 TGTATCGATACAT
1787904 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1787918 original size:32 final size:33
Alignment explanation
Indices: 1787858--1787921 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1787848 TACAAGCCAA
** *
1787858 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
1787891 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
1787922 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:1788648 original size:21 final size:21
Alignment explanation
Indices: 1788607--1788650 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1788597 CTCCCCTTTA
* *
1788607 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1788628 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1788649 TC
1 TC
1788651 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1788826 original size:22 final size:20
Alignment explanation
Indices: 1788796--1788836 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
1788786 TTATAGATTA
*
1788796 AAATTCAAAGTACAATGCAAAT
1 AAATACAAAGT-CAA-GCAAAT
1788818 AAATACAAAGTCAAGCAAA
1 AAATACAAAGTCAAGCAAA
1788837 ACATTAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 3 0.17
22 10 0.56
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (20 bp):
AAATACAAAGTCAAGCAAAT
Found at i:1790473 original size:13 final size:13
Alignment explanation
Indices: 1790455--1790480 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1790445 ATAATCACCC
1790455 TGTATCGATACAA
1 TGTATCGATACAA
1790468 TGTATCGATACAA
1 TGTATCGATACAA
1790481 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1794422 original size:21 final size:21
Alignment explanation
Indices: 1794393--1794437 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1794383 AAGTTTTTAT
*
1794393 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1794413 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1794435 TTT
1 TTT
1794438 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1794595 original size:15 final size:16
Alignment explanation
Indices: 1794571--1794603 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1794561 CAATCTTTTG
1794571 TTCAAGATTTTT-AAT
1 TTCAAGATTTTTCAAT
*
1794586 TTCAATATTTTTCAAT
1 TTCAAGATTTTTCAAT
1794602 TT
1 TT
1794604 ATTATCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (16 bp):
TTCAAGATTTTTCAAT
Found at i:1798619 original size:20 final size:21
Alignment explanation
Indices: 1798583--1798621 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1798573 TGGACATGTT
*
1798583 AAAATGCATGGAACATGGAAC
1 AAAATGCATGAAACATGGAAC
1798604 AAAATGCAT-AAACATGGA
1 AAAATGCATGAAACATGGA
1798622 CTGTTAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.51, C:0.13, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATGCATGAAACATGGAAC
Found at i:1799708 original size:20 final size:20
Alignment explanation
Indices: 1799680--1799729 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1799670 ACATGGTCTA
* * *
1799680 GTATTGATATATTCATTTAT
1 GTATCGATACATTCACTTAT
1799700 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
1799720 GTATCGATAC
1 GTATCGATAC
1799730 CTTAACTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (20 bp):
GTATCGATACATTCACTTAT
Found at i:1799737 original size:20 final size:20
Alignment explanation
Indices: 1799696--1799737 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1799686 ATATATTCAT
*
1799696 TTATGTATCGATACATTCAC
1 TTATGTATCGATACATTAAC
*
1799716 TTATGTATCGATACCTTAAC
1 TTATGTATCGATACATTAAC
1799736 TT
1 TT
1799738 GTTATACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (20 bp):
TTATGTATCGATACATTAAC
Found at i:1800315 original size:72 final size:72
Alignment explanation
Indices: 1800184--1800318 Score: 180
Period size: 72 Copynumber: 1.9 Consensus size: 72
1800174 CCAGATTTGT
* * * * * * *
1800184 GTAGACATCTCATTTTATCTAGGCCAATTTTTGGCAACCCGAAGTATGCTTAGAGGGTGGTGACA
1 GTAGACACCTCATTTTATCCAGGCCAATTTTTGGCAACCCGAAGCACGCCTAAAAGGTGGTGACA
1800249 TCGAAGC
66 TCGAAGC
* * *
1800256 GTAGACACCTCATTTTGTCCAGGCCAATTTTTGGTAACCCGAGGCACGCCTAAAAGGTGGTGA
1 GTAGACACCTCATTTTATCCAGGCCAATTTTTGGCAACCCGAAGCACGCCTAAAAGGTGGTGA
1800319 GATCAGAGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 53 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (72 bp):
GTAGACACCTCATTTTATCCAGGCCAATTTTTGGCAACCCGAAGCACGCCTAAAAGGTGGTGACA
TCGAAGC
Found at i:1800608 original size:20 final size:20
Alignment explanation
Indices: 1800578--1800624 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
1800568 ATTTGTATTA
* *
1800578 ATACAATAAGTTAATGTCTCG
1 ATAC-ATAAGTGAATGTATCG
*
1800599 ATACATAAGTGAATGTATTG
1 ATACATAAGTGAATGTATCG
1800619 ATACAT
1 ATACAT
1800625 GCTTGTACTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (20 bp):
ATACATAAGTGAATGTATCG
Found at i:1801662 original size:164 final size:166
Alignment explanation
Indices: 1801454--1801801 Score: 442
Period size: 165 Copynumber: 2.1 Consensus size: 166
1801444 TTTATCTACA
* *
1801454 ATTAAATTAGCTTTT-CAAAATCCCTTTTATTTCACGAGTTTTTCATTTTTCGCTT-AAATTTCT
1 ATTAAATTAG-TTTTGAAAAATCCCTTTTATTTCACGAATTTTTCATTTTTC-CTTGAAATTT-T
* * *
1801517 -CTATTTTTAAAATACAGAGTT-TTT-TACTCCCTAAATGTTTTTAAAG-GATTTTTCATCGGTT
63 ACTATTTCTAAAATACAGAGTTGTTTCAACT-CCTAAATGTTTTTAAAGAGATTTTTC-TCAGTT
*
1801578 CAAAATTTTTAATA-TTCATCAAATATCATTACTTAATTCAC
126 CAAAATTTTTAA-AGTTCATCAAATATCATCACTTAATTCAC
* *
1801619 ATTAAA-TAGTTTTGAAAAATTCCTTTTATTTCATGAATTTTTCATTTTTCCTTGAAATTTTACT
1 ATTAAATTAGTTTTGAAAAATCCCTTTTATTTCACGAATTTTTCATTTTTCCTTGAAATTTTACT
* * * * *
1801683 GTTTCTAAAATACGGAGTTGTTTCAACTCCTAAATGTTTTTAAAGAGATTTTTCTTAGTTCATAT
66 ATTTCTAAAATACAGAGTTGTTTCAACTCCTAAATGTTTTTAAAGAGATTTTTCTCAGTTCAAAA
* * *
1801748 TTTTTAAAGTTCATCAAATATTATCATTTAATTCAT
131 TTTTTAAAGTTCATCAAATATCATCACTTAATTCAC
1801784 ATTAAATTAGTTTTGAAA
1 ATTAAATTAGTTTTGAAA
1801802 TTTTCATATA
Statistics
Matches: 159, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
163 8 0.05
164 60 0.38
165 69 0.43
166 22 0.14
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (166 bp):
ATTAAATTAGTTTTGAAAAATCCCTTTTATTTCACGAATTTTTCATTTTTCCTTGAAATTTTACT
ATTTCTAAAATACAGAGTTGTTTCAACTCCTAAATGTTTTTAAAGAGATTTTTCTCAGTTCAAAA
TTTTTAAAGTTCATCAAATATCATCACTTAATTCAC
Found at i:1803994 original size:141 final size:140
Alignment explanation
Indices: 1803837--1804115 Score: 387
Period size: 141 Copynumber: 2.0 Consensus size: 140
1803827 GGGCATTTTT
* *
1803837 ATAATTTTTTAAAATCGAGTCCTAGGTTGTCACCAGGTCCGTTTTTATGCCAAAGATAGGTATTT
1 ATAATTTTTTAAAATCGAGTCCTAAGTTATCACCAGGTCCGTTTTTATGCCAAAGATAGGTATTT
* * * *
1803902 AGGATAGGCTCATCCCATCTATAATCTTTATATGTCCTTTAAGGTTATCGAGCAGTTCTAAGTCT
66 AGGATAGGCTCATCCCATCTATAATCTTTATAAGTCCTTT-AGGTTATCAAGCACTTCTAAGTCA
*
1803967 AGGATATCTTC
130 AAGATATCTTC
** * * * * *
1803978 ATAATTTTTTTGAATCGAGTCTTAAGTTATCACCGGGTCTGTTTTTATGCCGAAGATGGGTATTT
1 ATAATTTTTTAAAATCGAGTCCTAAGTTATCACCAGGTCCGTTTTTATGCCAAAGATAGGTATTT
* * * *
1804043 AGGATAGGTTCATCCTATCTATAATCTTTTTAAGTCCTTTGGGTTATCAAGCACTTCTAAGTCAA
66 AGGATAGGCTCATCCCATCTATAATCTTTATAAGTCCTTTAGGTTATCAAGCACTTCTAAGTCAA
1804108 AGATATCT
131 AGATATCT
1804116 CCTAGGAGAT
Statistics
Matches: 120, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
140 28 0.23
141 92 0.77
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (140 bp):
ATAATTTTTTAAAATCGAGTCCTAAGTTATCACCAGGTCCGTTTTTATGCCAAAGATAGGTATTT
AGGATAGGCTCATCCCATCTATAATCTTTATAAGTCCTTTAGGTTATCAAGCACTTCTAAGTCAA
AGATATCTTC
Found at i:1804290 original size:152 final size:153
Alignment explanation
Indices: 1803991--1804316 Score: 338
Period size: 152 Copynumber: 2.1 Consensus size: 153
1803981 ATTTTTTTGA
* * * * **
1803991 ATCGAGTCTTAAGTTATCACCGGGTCTGTTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCAT
1 ATCGAGTCCTAGGTTGTCACCGGATCTACTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCAT
* * *
1804056 CCTATCTATAATCTTTTTAAGTCCTTTGGGTTATCAAGCACTTCTAAGTCAAAGATATCTCCTAG
66 CATATCTATAATCTTTTTAAGTCCTTTGGGGTATCAAGCACTTCTAAGTCAAAGATACCTCCTAG
1804121 GAGATTTTCGTAATTTTTC-AAAG
131 GAGATTTTCGT-ATTTTTCTAAAG
* * *
1804144 -TCGAGTTCTAGGTTGTCACCGGATCTACTTTTATGCCGAAGAT-GGTATTTGGGATATGTTCAT
1 ATCGAGTCCTAGGTTGTCACCGGATCTACTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCAT
* * ** * * ** * *
1804207 TATATCTATAATCTTTTTTAGATCCTTTAGGGGTATCGGGTACTTCTATGTTGAAGGTGCC-CTC
66 CATATCTATAATCTTTTTAAG-TCCTTT-GGGGTATCAAGCACTTCTAAGTCAAAGATACCTC-C
* * * *
1804271 TAGGGGAATTTTTGT-TTTTTCTTATG
128 TAGGAG-ATTTTCGTATTTTTCTAAAG
1804297 ATCGAGTCCTAGGTTGTCAC
1 ATCGAGTCCTAGGTTGTCAC
1804317 TCTTATACTA
Statistics
Matches: 140, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
151 36 0.26
152 49 0.35
153 30 0.21
154 25 0.18
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (153 bp):
ATCGAGTCCTAGGTTGTCACCGGATCTACTTTTATGCCGAAGATGGGTATTTAGGATAGGTTCAT
CATATCTATAATCTTTTTAAGTCCTTTGGGGTATCAAGCACTTCTAAGTCAAAGATACCTCCTAG
GAGATTTTCGTATTTTTCTAAAG
Found at i:1806879 original size:16 final size:16
Alignment explanation
Indices: 1806855--1806894 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1806845 TTTCATTCAT
* **
1806855 CAAGGAAAGTTAAGTA
1 CAAGCAAAGTTAAAAA
1806871 CAAGCAAAGTTAAAAA
1 CAAGCAAAGTTAAAAA
1806887 CAAGCAAA
1 CAAGCAAA
1806895 TAAAAGTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.12
Consensus pattern (16 bp):
CAAGCAAAGTTAAAAA
Found at i:1809320 original size:33 final size:33
Alignment explanation
Indices: 1809278--1809342 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1809268 TTTGGGATAA
**
1809278 TGTATCGATACAAT-TATTCATGTATCGATACAT
1 TGTATCGATACAATGT-GCCATGTATCGATACAT
*
1809311 TGTATCGATATAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
1809343 AATAGTGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:1809422 original size:13 final size:13
Alignment explanation
Indices: 1809404--1809429 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1809394 AATGAACATG
1809404 TGTATCGATACAA
1 TGTATCGATACAA
1809417 TGTATCGATACAA
1 TGTATCGATACAA
1809430 AGCATGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1809441 original size:20 final size:20
Alignment explanation
Indices: 1809416--1809467 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1809406 TATCGATACA
*
1809416 ATGTATCGATACA-AAGCATG
1 ATGTATCGATACATAACCA-G
*
1809436 ATGTATCGATACATATCCAG
1 ATGTATCGATACATAACCAG
1809456 ATGTATCGATAC
1 ATGTATCGATAC
1809468 TTTCAAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACATAACCAG
Found at i:1811874 original size:28 final size:28
Alignment explanation
Indices: 1811841--1811912 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
1811831 AATAAAATCA
* *
1811841 GGGTTGAAGTATCCCCTCAAAAATAACG
1 GGGTTGGAGTATCCCCACAAAAATAACG
* *
1811869 GGGTTGGAGTATCCTCACGAAAATAACG
1 GGGTTGGAGTATCCCCACAAAAATAACG
1811897 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1811913 GATTGTGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCACAAAAATAACG
Found at i:1812259 original size:51 final size:51
Alignment explanation
Indices: 1811977--1812261 Score: 340
Period size: 51 Copynumber: 5.6 Consensus size: 51
1811967 GATTAATAGG
* *
1811977 GTTGGAGTATTCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
*
1812029 GTTGGAGTATCCTCGATTAT-AGAAAATTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * * *
1812080 GTTAGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * * *
1812131 GTTGGAGTATCCTCGATTGTGGAAAATTGGTGTGTCGAAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
1812182 GTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
*
1812233 GTTGGAGTACCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
1812262 AGAAACTTAA
Statistics
Matches: 203, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
51 174 0.86
52 29 0.14
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1812261 original size:153 final size:154
Alignment explanation
Indices: 1811975--1812257 Score: 408
Period size: 153 Copynumber: 1.9 Consensus size: 154
1811965 ATGATTAATA
* * * * *
1811975 GGGTTGGAGTATTCTCGATTATGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATC
1 GGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTGTCGAAAATAAAATCAGAGTTGGAGTATC
* * * * *
1812040 CTCGATTATAGAAAATTGGTGTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAA
66 CCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTACCCCCGATTATAGAAA
1812105 ATTGGTGTTTTGAAAATAAAACCG
131 ATTGGTGTTTTGAAAATAAAACCG
* *
1812129 GGGTTGGAGTATCCTCGATTGTGGAAAATTGGTG-TGTCGAAAATAAAATCAGAGTTGGAGTATC
1 GGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTGTCGAAAATAAAATCAGAGTTGGAGTATC
* * * *
1812193 CCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGGGGTTGGAGTACCCCCGATTAT-GAAA
66 CCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTACCCCCGATTATAGAAA
1812257 A
131 A
1812258 ATTGAGAAAC
Statistics
Matches: 113, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
152 5 0.04
153 77 0.68
154 31 0.27
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (154 bp):
GGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTGTCGAAAATAAAATCAGAGTTGGAGTATC
CCCGATTATAGAAAATTAGTGTTTTAGAAATAAAACCGGAGTTAGAGTACCCCCGATTATAGAAA
ATTGGTGTTTTGAAAATAAAACCG
Found at i:1814620 original size:13 final size:13
Alignment explanation
Indices: 1814602--1814627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1814592 AACTTCCTAG
1814602 ATGTATCGATACA
1 ATGTATCGATACA
1814615 ATGTATCGATACA
1 ATGTATCGATACA
1814628 TTCTACAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1814793 original size:21 final size:21
Alignment explanation
Indices: 1814769--1814824 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1814759 GTTGGGACCT
*
1814769 TGTATTGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1814790 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1814811 TGTATCGATACATT
1 TGTATCGATACATT
1814825 TGGACAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1815599 original size:118 final size:116
Alignment explanation
Indices: 1815402--1815615 Score: 267
Period size: 118 Copynumber: 1.8 Consensus size: 116
1815392 GGTGTCCCAC
* * *
1815402 TTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCCTTGAGGACAAAGGAAGAGAAGA
1 TTTTTGAGGACAAAGGAAAAGAGAACGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAGAGAAGA
1815467 AAAGGAAAGTGTCCTACT-TCTTGAGGACAAAGTGAAAAAGAGTACGTCCCG
66 AAAGGAAAGTGTCCTACTCT-TTGAGGACAAAGTGAAAAAGAGTACGTCCCG
* *
1815518 TTTTTGAGGACAAAGGAAAAAGGGAAACGAAATATGTCCTGCT-CTCTGAGGACAAAAGAA-A-A
1 TTTTTGAGGACAAAGG-AAAAGAG-AACGAAATAGGTCCTGCTCCT-TGAGGACAAAAGAAGAGA
* *
1815580 AGGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAA
63 A-GAAAAGGAAAGT--GTCCTACTCTTTGAGGACAAA
1815616 AGAGAAAAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
116 23 0.27
117 14 0.17
118 46 0.55
119 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.20
Consensus pattern (116 bp):
TTTTTGAGGACAAAGGAAAAGAGAACGAAATAGGTCCTGCTCCTTGAGGACAAAAGAAGAGAAGA
AAAGGAAAGTGTCCTACTCTTTGAGGACAAAGTGAAAAAGAGTACGTCCCG
Found at i:1815650 original size:45 final size:45
Alignment explanation
Indices: 1815520--1815658 Score: 132
Period size: 42 Copynumber: 3.2 Consensus size: 45
1815510 ACGTCCCGTT
* *
1815520 TTTGAGGAC-AAAG-G-AAA-AAGGGAAACGAAATATGTCCTGCTC
1 TTTGAGGACAAAAGAGAAAAGAAGGG-AACGAAGTGTGTCCTGCTC
* ** *
1815562 TCTGAGGACAAAAGA-AAAAGGAA---AATAAAGTGCGTCCTGCTC
1 TTTGAGGACAAAAGAGAAAA-GAAGGGAACGAAGTGTGTCCTGCTC
* *
1815604 TTTGAGGACAAAAGAGAAAAGAAGGGAAGGAAGTGTGTCCTCCTC
1 TTTGAGGACAAAAGAGAAAAGAAGGGAACGAAGTGTGTCCTGCTC
1815649 TTTGAGGACA
1 TTTGAGGACA
1815659 GAAAAGTGCC
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
42 39 0.51
43 8 0.10
44 3 0.04
45 25 0.32
46 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.19
Consensus pattern (45 bp):
TTTGAGGACAAAAGAGAAAAGAAGGGAACGAAGTGTGTCCTGCTC
Found at i:1815780 original size:60 final size:59
Alignment explanation
Indices: 1815641--1815934 Score: 374
Period size: 61 Copynumber: 4.9 Consensus size: 59
1815631 AGGAAGTGTG
* * ** * *
1815641 TCCTCCTCTTTGAGGACAGAAAAGTGCCACCAACTCATGTGGGCTTTAAAAGGAGAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAGCA
*
1815702 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
* *
1815762 TCCTGCTCTTTGAAGACTGGAAAATGCTACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGCA
* * *
1815823 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAA-AAAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAA-AA-GCA
** *
1815884 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
1815935 GCATCATGCT
Statistics
Matches: 207, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
59 3 0.01
60 87 0.42
61 112 0.54
62 5 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGCA
Found at i:1815860 original size:121 final size:118
Alignment explanation
Indices: 1815641--1815960 Score: 375
Period size: 121 Copynumber: 2.7 Consensus size: 118
1815631 AGGAAGTGTG
* * **
1815641 TCCTCCTCTTTGAGGACAGAAAAGTGCCACCAACTCATGTGGGCTTTAAAAGGAGAAGGCATCCT
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAA-GA-AA-GCATCCT
* * *
1815706 GCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGAAA-AA-GCA
62 GCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTAGGCTTT-AAAAAAAGAAGGCA
* *
1815762 TCCTGCTCTTTGAAGACTGGAAAATGCTACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAGCATCCT
*
1815827 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAAAGAAGGCG
62 GCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAAAGAAGGCA
** * *
1815884 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG---GCATCATGCTC
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCCTGCTC
1815946 TTTGAGGAC-AAAAAG
66 TTTGAGGACTAAAAAG
1815961 GCGAAAGGAA
Statistics
Matches: 176, Mismatches: 16, Indels: 21
0.83 0.08 0.10
Matches are distributed among these distances:
114 6 0.03
115 19 0.11
120 15 0.09
121 105 0.60
122 30 0.17
123 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (118 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAGCATCCTGCTC
TTTGAGGACTAAAAAGTGCCACCAACTTGTGTAGGCTTTAAAAAAAGAAGGCA
Found at i:1816149 original size:61 final size:59
Alignment explanation
Indices: 1815964--1816695 Score: 792
Period size: 61 Copynumber: 12.5 Consensus size: 59
1815954 CAAAAAGGCG
* * *
1815964 AAAGGAAAGAGCGTCCTGCTCTTTGAGGATTAGAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAGAAAAG-GCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1816024 AAAAGGAGAAGGCGTCCTACTCTTTGAGGGCT-GAAGGTGCCACCAGCTTGTGTGGGCTTT
1 -AAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * **
1816084 AAAAGAAAAAGGCGTCCTACTCTTTGAGGATTGGAGGGTGCCACCAACTTGTGT-GGCTTT
1 -AAAG-AAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * **
1816144 ---TAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCCTGTGGGCTTT
1 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
*
1816200 GAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 --AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1816261 GAAAAGAAAAGGCATCCAGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 --AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * *
1816322 GAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 --AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
1816383 --A-AAAA-GCGTCCAGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* *
1816438 ----AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1816493 ---G-AAAGGCATCTTGCTTTTTAAGGGCT-GAAAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
* *
1816548 ---G-AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACTAACTTATGTGGGCTTT
1 AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
* *
1816603 GAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCAGCAACTTTTGTGGGCTTT
1 -AAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTT
* *
1816664 GAAAGGAAAAGGCATCCTGCTCTTTAAGGACT
1 -AAA-GAAAAGGCGTCCTGCTCTTTGAGGACT
1816696 AAAAAGTGAA
Statistics
Matches: 603, Mismatches: 50, Indels: 36
0.88 0.07 0.05
Matches are distributed among these distances:
54 8 0.01
55 229 0.38
56 10 0.02
57 1 0.00
59 1 0.00
60 60 0.10
61 290 0.48
62 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (59 bp):
AAAGAAAAGGCGTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:1816414 original size:28 final size:28
Alignment explanation
Indices: 1816327--1816469 Score: 78
Period size: 28 Copynumber: 5.2 Consensus size: 28
1816317 GCTTTGAAAA
*
1816327 GAAAAAGCATCCTGCTCTTTGAGGACTG
1 GAAAAAGCATCCAGCTCTTTGAGGACTG
* * * * * *
1816355 GAAAATGCCA-CCAACT-TGTGTGGGCTT
1 GAAAAAG-CATCCAGCTCTTTGAGGACTG
* *
1816382 TAAAAAGCGTCCAGCTCTTTGAGGACTG
1 GAAAAAGCATCCAGCTCTTTGAGGACTG
* * * * * *
1816410 GAAAATGCCA-CCAACT-TGTGTGGGCTT
1 GAAAAAG-CATCCAGCTCTTTGAGGACTG
* * *
1816437 TAAAAGGCATCCTGCTCTTTGAGGACTG
1 GAAAAAGCATCCAGCTCTTTGAGGACTG
1816465 GAAAA
1 GAAAA
1816470 TGCCACCAAC
Statistics
Matches: 77, Mismatches: 32, Indels: 12
0.64 0.26 0.10
Matches are distributed among these distances:
26 3 0.04
27 33 0.43
28 38 0.49
29 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
GAAAAAGCATCCAGCTCTTTGAGGACTG
Found at i:1816529 original size:110 final size:110
Alignment explanation
Indices: 1815969--1816695 Score: 670
Period size: 116 Copynumber: 6.2 Consensus size: 110
1815959 AGGCGAAAGG
* * *
1815969 AAAGAGCGTCCTGCTCTTTGAGGATTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AA
* * * *
1816034 GGCGTCCTACTCTTTGAGGGCTGAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAA
59 GGCGTCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTT-----AA
* * *** *
1816091 AAAGGCGTCCTACTCTTTGAGGATTGGAGGGTGCCACCAACTTGTGT-GGCTTTTAAAAGGCGTC
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGC-TTTGAAAGGCGTC
**
1816155 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCCTGTGGGCTTTGAAAAGA
65 CTGCTCTTTGAGGACTG-AAAGTGCCACCAACTTGTGTGGGCTTT----A-A
1816207 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-----G-AAAG
* * *
1816272 GCATCCAGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGA
60 GCGTCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT----A-A
* * * *
1816329 AAAAGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAAGCGTCC
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* *
1816394 AGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-A
66 TGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1816439 AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCT
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
* * * *
1816504 TGCTTTTTAAGGGCTGAAAGGTGCCACCAACTTGTGTGGGCTTT-G
66 TGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTAA
* * *
1816549 AAAGGCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACTAACTTATGTGGGCTTTGAAAGGAAAA
1 AAAGGCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G-AAA
* *
1816613 GGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCAGCAACTTTTGTGGGCTTTGAAAGGA
59 GGCGTCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTT---A--A
* *
1816671 AAAGGCATCCTGCTCTTTAAGGACT
1 AAAGGCGTCCTGCTCTTTGAGGACT
1816696 AAAAAGTGAA
Statistics
Matches: 526, Mismatches: 54, Indels: 50
0.83 0.09 0.08
Matches are distributed among these distances:
109 8 0.02
110 140 0.27
115 27 0.05
116 169 0.32
117 3 0.01
120 3 0.01
121 42 0.08
122 133 0.25
123 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (110 bp):
AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCC
TGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1817687 original size:1 final size:1
Alignment explanation
Indices: 1817683--1817725 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
1817673 TTTTTCTCTC
* * * *
1817683 TTTTTTCTTTTTTTTGTTTTTTTTTTGTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1817726 GGAAAAGAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:1817703 original size:17 final size:17
Alignment explanation
Indices: 1817683--1817726 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
1817673 TTTTTCTCTC
*
1817683 TTTTTTCTTT-TTTTTG
1 TTTTTTTTTTGTTTTTG
1817699 TTTTTTTTTTGTTTTTG
1 TTTTTTTTTTGTTTTTG
1817716 TTTTTTTTTTG
1 TTTTTTTTTTG
1817727 GAAAAGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 9 0.35
17 17 0.65
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTG
Found at i:1817706 original size:20 final size:19
Alignment explanation
Indices: 1817667--1817725 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
1817657 CTTAAGTAGG
* *
1817667 TTCTTTTTTTTCTCTCTTTT
1 TTCTTTTTTTT-TTTTTTTT
1817687 TTCTTTTTTTTGTTTTTTTT
1 TTCTTTTTTTT-TTTTTTTT
*
1817707 TTGTTTTTGTTTTTTTTTT
1 TTCTTTTT-TTTTTTTTTT
1817726 GGAAAAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 31 0.91
21 3 0.09
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.86
Consensus pattern (19 bp):
TTCTTTTTTTTTTTTTTTT
Found at i:1817726 original size:11 final size:11
Alignment explanation
Indices: 1817690--1817725 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1817680 CTCTTTTTTC
1817690 TTTTTTTTGTT
1 TTTTTTTTGTT
1817701 TTTTTTTTGTT
1 TTTTTTTTGTT
1817712 TTTGTTTTT-TT
1 TTT-TTTTTGTT
1817723 TTT
1 TTT
1817726 GGAAAAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:1830204 original size:28 final size:28
Alignment explanation
Indices: 1830168--1830238 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
1830158 TAAAATCAGT
* *
1830168 GTTGAAGTATCCCCTCAAAAATAACGGG
1 GTTGGAGTATCCCCGCAAAAATAACGGG
*
1830196 GTTGGAGTATCCCCGCGAAAATAACGGG
1 GTTGGAGTATCCCCGCAAAAATAACGGG
*
1830224 GTTGGAGTATTCCCG
1 GTTGGAGTATCCCCG
1830239 ATTGTGAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (28 bp):
GTTGGAGTATCCCCGCAAAAATAACGGG
Found at i:1830334 original size:27 final size:28
Alignment explanation
Indices: 1830272--1830344 Score: 105
Period size: 27 Copynumber: 2.6 Consensus size: 28
1830262 GAATAAAGCT
*
1830272 GGGGTTGGAGTATCCCCTTGGAAATAAC
1 GGGGTTGGAGTATCCCCATGGAAATAAC
*
1830300 GGGGTTGGAGTATCCCCGAT-G-ATTAAC
1 GGGGTTGGAGTATCCCC-ATGGAAATAAC
1830327 GGGGTTGGAGTATCCCCA
1 GGGGTTGGAGTATCCCCA
1830345 ATTATGATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.02
27 22 0.52
28 18 0.43
29 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCATGGAAATAAC
Found at i:1832315 original size:20 final size:20
Alignment explanation
Indices: 1832290--1832345 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
1832280 AAAAATGCCT
*
1832290 GAATGTATCGATGCATTGTA
1 GAATGTATCGATACATTGTA
1832310 GAATGTATCGATACATTGTA
1 GAATGTATCGATACATTGTA
* *
1832330 AAATGTATTGATACAT
1 GAATGTATCGATACAT
1832346 CTGGGTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (20 bp):
GAATGTATCGATACATTGTA
Found at i:1832426 original size:34 final size:34
Alignment explanation
Indices: 1832383--1832463 Score: 144
Period size: 34 Copynumber: 2.4 Consensus size: 34
1832373 ACAAAGATCG
*
1832383 ATGTATCGATAGAATGTATCGATACATTCTACAA
1 ATGTATCGATACAATGTATCGATACATTCTACAA
*
1832417 ATGTATCGATACAATGTATCGTTACATTCTACAA
1 ATGTATCGATACAATGTATCGATACATTCTACAA
1832451 ATGTATCGATACA
1 ATGTATCGATACA
1832464 TTTCCTTGGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (34 bp):
ATGTATCGATACAATGTATCGATACATTCTACAA
Found at i:1832434 original size:13 final size:13
Alignment explanation
Indices: 1832383--1832442 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
1832373 ACAAAGATCG
*
1832383 ATGTATCGATAGA
1 ATGTATCGATACA
1832396 ATGTATCGATAC-
1 ATGTATCGATACA
1832408 A--T-TC--TACAA
1 ATGTATCGATAC-A
1832417 ATGTATCGATACA
1 ATGTATCGATACA
*
1832430 ATGTATCGTTACA
1 ATGTATCGATACA
1832443 TTCTACAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
7 3 0.08
9 3 0.08
10 1 0.03
11 1 0.03
12 3 0.08
13 24 0.63
14 3 0.08
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1832519 original size:19 final size:21
Alignment explanation
Indices: 1832495--1832546 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
1832485 AGGGATACAC
*
1832495 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
1832514 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
*
1832535 TGTATCAATACA
1 TGTATCGATACA
1832547 AATTATTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 12 0.41
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:1833349 original size:62 final size:62
Alignment explanation
Indices: 1833252--1833375 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
1833242 GGCAAAGTCA
*
1833252 AAAGATTTCAGAAATTTCATGTCGATTGTAGGACATTGACGGACAACCAACCGAGAGTAGGT
1 AAAGATTTCAGAAATTTCATGTCGATTGTAGGACATTGACGAACAACCAACCGAGAGTAGGT
* *
1833314 AAAGATTTTAGAAATTTCATGTCGATTGTAGGACATTGACGAACAACCAACTGAGAGTAGGT
1 AAAGATTTCAGAAATTTCATGTCGATTGTAGGACATTGACGAACAACCAACCGAGAGTAGGT
1833376 TCGTGTCGCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (62 bp):
AAAGATTTCAGAAATTTCATGTCGATTGTAGGACATTGACGAACAACCAACCGAGAGTAGGT
Found at i:1834919 original size:51 final size:51
Alignment explanation
Indices: 1834860--1834971 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
1834850 AACAGGGTTG
* * * * *
1834860 GAGTATCCCCGATTGTGAGAAATTGGTGTTTTGGAAATAAAATTGGAGCTA
1 GAGTATCCCCGATTGTGAAAAATTGGTATCTTAGAAATAAAATCGGAGCTA
* * *
1834911 GAGTATCCCCGATTGTGAAAAATTGGTATCTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATTGGTATCTTAGAAATAAAATCGGAGCTA
1834962 GAGTATCCCC
1 GAGTATCCCC
1834972 TCGGAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATTGGTATCTTAGAAATAAAATCGGAGCTA
Found at i:1834985 original size:28 final size:28
Alignment explanation
Indices: 1834954--1835029 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
1834944 GAAATAAAAT
* **
1834954 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGATTGGAGTATCCCCGAGGAAATAA
*
1834982 CGGGATTGGAGTATCCCCGATGAAATAA
1 CGGGATTGGAGTATCCCCGAGGAAATAA
*
1835010 CGGGATTGGAGTACCCCCGA
1 CGGGATTGGAGTATCCCCGA
1835030 TTATGAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.20
Consensus pattern (28 bp):
CGGGATTGGAGTATCCCCGAGGAAATAA
Found at i:1835115 original size:28 final size:27
Alignment explanation
Indices: 1835066--1835133 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
1835056 ATAAAGCCGA
*
1835066 GGTTGGAGTATCCTCTCGGAAACAATGG
1 GGTTGGAGTAT-CTCTCGGAAACAACGG
*
1835094 GGTTGGAGTATCTCT-GATGAAATAACGG
1 GGTTGGAGTATCTCTCG--GAAACAACGG
1835122 GGTTGGAGTATC
1 GGTTGGAGTATC
1835134 CCCTGATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 31 0.86
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (27 bp):
GGTTGGAGTATCTCTCGGAAACAACGG
Found at i:1835217 original size:51 final size:52
Alignment explanation
Indices: 1835119--1835237 Score: 165
Period size: 51 Copynumber: 2.3 Consensus size: 52
1835109 GATGAAATAA
*
1835119 CGGGGTTGGAGTATCCCCTGATTATGAAAATTTGGTGTTTTGAAAATAAAA-
1 CGGGGTTGGAGTATCCCCTGATTATGAAAATTTGATGTTTTGAAAATAAAAT
*
1835170 CAGGGGTTGGAATATCCCC-GATTATGGAAAA-TTGATGTTTT-AGAAATAAAAT
1 C-GGGGTTGGAGTATCCCCTGATTAT-GAAAATTTGATGTTTTGA-AAATAAAAT
1835222 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1835238 TCTTGGAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
50 1 0.02
51 38 0.62
52 22 0.36
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (52 bp):
CGGGGTTGGAGTATCCCCTGATTATGAAAATTTGATGTTTTGAAAATAAAAT
Found at i:1835343 original size:131 final size:131
Alignment explanation
Indices: 1835092--1835368 Score: 312
Period size: 131 Copynumber: 2.1 Consensus size: 131
1835082 CGGAAACAAT
* * * * * *
1835092 GGGGTTGGAGTAT-CTCTGATGAAATAACGGGGTTGGAGTATCCCCTGATTATGAAAATTTGGTG
1 GGGGTTGGAGTATCCTCTGA-GAAATAACGAGGTTAGAGTATCCCCTGATGATAAAAAATCGGTG
* * * *
1835156 TTTTGAAAATAAAACAGGGGTTGGAATATCCCCGATTATGGAAAATTGATGTTTTAGAAATAAAA
65 TTTTGAAAATAAAACAGGAGTTGGAATATCCCCAATTATGGAAAATCGATGCTTTAGAAATAAAA
1835221 TC
130 TC
*
1835223 GGGGTTGGAGTATCCTCTTG-GAAATAACGAGGTTAGAGTATCCCC-GATGGTAAAAAATCGGTG
1 GGGGTTGGAGTATCCTC-TGAGAAATAACGAGGTTAGAGTATCCCCTGATGATAAAAAATCGGTG
* * * *
1835286 TTTTGGAAATAAAATC-GGAGTTGGAGTATCTCCAATT-TGCGGTAAATCGATGCTTTAGAAATA
65 TTTTGAAAATAAAA-CAGGAGTTGGAATATCCCCAATTAT--GGAAAATCGATGCTTTAGAAATA
*
1835349 AAATT
127 AAATC
* *
1835354 GGAGTTAGAGTATCC
1 GGGGTTGGAGTATCC
1835369 CCGATTAAGA
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
129 1 0.01
130 43 0.35
131 74 0.60
132 3 0.02
133 2 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (131 bp):
GGGGTTGGAGTATCCTCTGAGAAATAACGAGGTTAGAGTATCCCCTGATGATAAAAAATCGGTGT
TTTGAAAATAAAACAGGAGTTGGAATATCCCCAATTATGGAAAATCGATGCTTTAGAAATAAAAT
C
Found at i:1837700 original size:20 final size:19
Alignment explanation
Indices: 1837675--1837748 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
1837665 AAAATGCCTG
*
1837675 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1837695 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
1837715 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1837735 AATGTATCGATACA
1 AATGTATCGATACA
1837749 TCTGGGTAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1838489 original size:20 final size:20
Alignment explanation
Indices: 1838447--1838485 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1838437 CGTGTAAATG
* *
1838447 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
1838467 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
1838486 ATATAGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:1838554 original size:13 final size:13
Alignment explanation
Indices: 1838536--1838561 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1838526 CAATTTTTTG
1838536 TGTATCGATACAT
1 TGTATCGATACAT
1838549 TGTATCGATACAT
1 TGTATCGATACAT
1838562 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1839316 original size:21 final size:21
Alignment explanation
Indices: 1839253--1839316 Score: 87
Period size: 20 Copynumber: 3.1 Consensus size: 21
1839243 CTCCCCTTTA
* *
1839253 TCTCCCCCGTTTATTAA-TAAT
1 TCTCCCCC-TTAATCAAGTAAT
1839274 TCTCCCCCTTAATCAAGT-AT
1 TCTCCCCCTTAATCAAGTAAT
1839294 TCTCCCCCTTAATCAAGTAAT
1 TCTCCCCCTTAATCAAGTAAT
1839315 TC
1 TC
1839317 ATATAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.25, C:0.33, G:0.05, T:0.38
Consensus pattern (21 bp):
TCTCCCCCTTAATCAAGTAAT
Found at i:1841135 original size:13 final size:13
Alignment explanation
Indices: 1841117--1841142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1841107 ATAATCACCC
1841117 TGTATCGATACAA
1 TGTATCGATACAA
1841130 TGTATCGATACAA
1 TGTATCGATACAA
1841143 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1843232 original size:15 final size:15
Alignment explanation
Indices: 1843212--1843242 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1843202 ATTTCGTTTG
*
1843212 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1843227 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1843242 G
1 G
1843243 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1845075 original size:21 final size:21
Alignment explanation
Indices: 1845046--1845090 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1845036 AAGTTTTCAT
*
1845046 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1845066 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1845088 TTT
1 TTT
1845091 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1847326 original size:13 final size:13
Alignment explanation
Indices: 1847308--1847333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1847298 CAATTTTTTG
1847308 TGTATCGATACAT
1 TGTATCGATACAT
1847321 TGTATCGATACAT
1 TGTATCGATACAT
1847334 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1850403 original size:13 final size:14
Alignment explanation
Indices: 1850385--1850413 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1850375 GGGAATGGAC
1850385 TTTTTGTTGA-GTT
1 TTTTTGTTGATGTT
1850398 TTTTTGTTGATGTT
1 TTTTTGTTGATGTT
1850412 TT
1 TT
1850414 GCTAAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.07, C:0.00, G:0.21, T:0.72
Consensus pattern (14 bp):
TTTTTGTTGATGTT
Found at i:1850911 original size:20 final size:20
Alignment explanation
Indices: 1850885--1850937 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1850875 AAAAAGACAG
*
1850885 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1850905 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1850925 AATGTATCGATAC
1 AATGTATCGATAC
1850938 GTCTGGGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1851919 original size:28 final size:28
Alignment explanation
Indices: 1851821--1852369 Score: 531
Period size: 28 Copynumber: 18.9 Consensus size: 28
1851811 TTAAAAAAAA
*
1851821 GTGCCACTAACTTGTGTGGGATTTGAAAAGAG
1 GTGCCACTAAC-T-TGTGGGCTTTG-AAAG-G
* * *
1851853 TTGCCACTGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTAACT--TGTGGGCTTTG-AAAGG
1851884 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
1851912 GTGCCACTGACTTATGGGCTTTTAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
1851940 GTGTCACTAACTTGTGGGCTTTGAAATG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
1851968 ATGCCACTAACTTGTGAGCTTTGAAAAGA
1 GTGCCACTAACTTGTGGGCTTTG-AAAGG
* *
1851997 ATGCCACTAACTTGTAGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
1852025 GTGCCACTGACTTGTGGTCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * * *
1852053 ATGCCACTGACTTATGGGCTTTAAAAAGAG
1 GTGCCACTAACTTGTGGGCTTT-GAAAG-G
* * *
1852083 TTGCCACCAACTCGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
1852111 ATGCAACTAACTTGTGGGCTTTGAAAATAG
1 GTGCCACTAACTTGTGGGCTTTG-AAA-GG
** *
1852141 GTGCCACCGACTTGTGTGGGCTTTGGAAAGA
1 GTGCCACTAAC-T-TGTGGGCTTT-GAAAGG
*
1852172 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
*
1852200 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* * *
1852228 ATGCCATTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
* *
1852256 GTGCCACTGACTTGTGAGCTTTGAAAAGAG
1 GTGCCACTAACTTGTGGGCTTTG-AAAG-G
* * *
1852286 TTGACACTAACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTAACT--TGTGGGCTTTG-AAAGG
* * * *
1852317 GTGTCATTGACTTGTGGGCTCTGAAAGG
1 GTGCCACTAACTTGTGGGCTTTGAAAGG
1852345 GTGCCACTAACTTGTGGGCTTTGAA
1 GTGCCACTAACTTGTGGGCTTTGAA
1852370 GAGATGAACG
Statistics
Matches: 432, Mismatches: 72, Indels: 30
0.81 0.13 0.06
Matches are distributed among these distances:
28 241 0.56
29 70 0.16
30 37 0.09
31 30 0.07
32 53 0.12
33 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
GTGCCACTAACTTGTGGGCTTTGAAAGG
Found at i:1852309 original size:145 final size:145
Alignment explanation
Indices: 1851822--1852369 Score: 690
Period size: 145 Copynumber: 3.8 Consensus size: 145
1851812 TAAAAAAAAG
* * *
1851822 TGCCACTAACTTGTGTGGGATTTGAAAAGAGTTGCCACTGACTCGTGTGGGCTTTGAAAAGAGTG
1 TGCCACTAAC-T-TGTGAGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTG
* * * * * *
1851887 CCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTATGGGCTTTTAAAGGGTGTCACTAACT
64 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACT
*
1851952 TGTGGGCTTTGAAATGA
129 TGTGGGCTTTGAAAGGA
* * *
1851969 TGCCACTAACTTGTGAGCTTTGAAAAGA-ATGCCACTAACT--TGTAGGCTTTG-AAAGGGTGCC
1 TGCCACTAACTTGTGAGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTGCC
* * * * *
1852030 ACTGACTTGTGGTCTTTGAAAGGATGCCACTGACTTATGGGCTTTAAAAAGAGTTGCCACCAACT
66 ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTT-GAAAG-GATGCCACTAACT
*
1852095 CGTGGGCTTTGAAAGGA
129 TGTGGGCTTTGAAAGGA
* * * * ** * *
1852112 TGCAACTAACTTGTGGGCTTTGAAAATAGGTGCCACCGACTTGTGTGGGCTTTGGAAAGAGTGCC
1 TGCCACTAACTTGTGAGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTGCC
* * *
1852177 ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACTTG
66 ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTG
*
1852242 TGGGCTTTGAAAGGG
131 TGGGCTTTGAAAGGA
* * *
1852257 TGCCACTGACTTGTGAGCTTTGAAAAGAGTTGACACTAACTCGTGTGGGCTTTGAAAAGAGTGTC
1 TGCCACTAACTTGTGAGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTGCC
* * * *
1852322 ATTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTTTGAA
66 ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAA
1852370 GAGATGAACG
Statistics
Matches: 348, Mismatches: 47, Indels: 14
0.85 0.11 0.03
Matches are distributed among these distances:
141 51 0.15
142 14 0.04
143 50 0.14
144 19 0.05
145 138 0.40
146 15 0.04
147 61 0.18
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (145 bp):
TGCCACTAACTTGTGAGCTTTGAAAAGAGTTGCCACTAACTCGTGTGGGCTTTGAAAAGAGTGCC
ACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGATGCCACTAACTTG
TGGGCTTTGAAAGGA
Found at i:1853637 original size:17 final size:16
Alignment explanation
Indices: 1853590--1853657 Score: 68
Period size: 15 Copynumber: 4.2 Consensus size: 16
1853580 CCCCTTTCTG
*
1853590 TTTT-TTTTTTGTTAT
1 TTTTATTTTTTGTTTT
* *
1853605 TTTT-TTCTTGGTTTT
1 TTTTATTTTTTGTTTT
*
1853620 TTTTGTTTTTTCGTTTT
1 TTTTATTTTTT-GTTTT
1853637 TTTCTATTTTTTGTTTT
1 TTT-TATTTTTTGTTTT
1853654 TTTT
1 TTTT
1853658 TTCGGTATGA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
15 16 0.36
16 5 0.11
17 16 0.36
18 7 0.16
ACGTcount: A:0.03, C:0.04, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTTGTTTT
Found at i:1860539 original size:44 final size:43
Alignment explanation
Indices: 1860490--1860593 Score: 165
Period size: 44 Copynumber: 2.4 Consensus size: 43
1860480 AAATTTCTCC
1860490 CCCTTGATAAAATAATTAAGGCTCTCTTTTATAAAAAAATTTAT
1 CCCTTGATAAAATAATTAAGGCTCTCTTTTATAAAAAAATTT-T
*
1860534 CCCTTGATAAAATAACTAAGGCTCTCTTTTATAAAAAAATTTT
1 CCCTTGATAAAATAATTAAGGCTCTCTTTTATAAAAAAATTTT
*
1860577 CTCCTTTATAAAA-AATT
1 C-CCTTGATAAAATAATT
1860594 TTCTCCCCCT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 5 0.09
44 51 0.91
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (43 bp):
CCCTTGATAAAATAATTAAGGCTCTCTTTTATAAAAAAATTTT
Found at i:1860591 original size:19 final size:20
Alignment explanation
Indices: 1860556--1860599 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
1860546 TAACTAAGGC
*
1860556 TCTCTTTTATAAAAAAATTT
1 TCTCCTTTATAAAAAAATTT
1860576 TCTCCTTTAT-AAAAAATTT
1 TCTCCTTTATAAAAAAATTT
1860595 TCTCC
1 TCTCC
1860600 CCCTTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (20 bp):
TCTCCTTTATAAAAAAATTT
Found at i:1870554 original size:53 final size:53
Alignment explanation
Indices: 1870474--1870610 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1870464 CTACTACCAA
* *
1870474 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTAATGCCAGTGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTAATGCCAATGACC
* *
1870527 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTAATGCCAATGACC
1870580 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
1870611 TATGCAATCT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 63 0.80
54 16 0.20
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTAATGCCAATGACC
Found at i:1870643 original size:20 final size:20
Alignment explanation
Indices: 1870580--1870650 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1870570 GCCAATGTCC
**
1870580 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1870600 TGTATCGATAC-TATGCAATC
1 TGTATCGATACATAT-TAATG
1870620 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1870640 TGTATCGATAC
1 TGTATCGATAC
1870651 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1872363 original size:13 final size:13
Alignment explanation
Indices: 1872345--1872374 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1872335 CATACTGAAG
1872345 CAATGTATCGATA
1 CAATGTATCGATA
1872358 CAATGTATCGATA
1 CAATGTATCGATA
1872371 CAAT
1 CAAT
1872375 CTGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1880874 original size:33 final size:33
Alignment explanation
Indices: 1880832--1880910 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
1880822 TACAATGAAC
1880832 ATGTATCGATACAATGTATCAATATAAAGCATT
1 ATGTATCGATACAATGTATCAATATAAAGCATT
*
1880865 ATGTATCGATACAATGTATCGATATAAAGCATT
1 ATGTATCGATACAATGTATCAATATAAAGCATT
1880898 ATGTATCGATACA
1 ATGTATCGATACA
1880911 TGTGGATATG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAATGTATCAATATAAAGCATT
Found at i:1880903 original size:20 final size:20
Alignment explanation
Indices: 1880845--1880908 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
1880835 TATCGATACA
*
1880845 ATGTATCAATATAAAGCATT
1 ATGTATCGATATAAAGCATT
1880865 ATGTATCG--AT--A-CA--
1 ATGTATCGATATAAAGCATT
1880878 ATGTATCGATATAAAGCATT
1 ATGTATCGATATAAAGCATT
1880898 ATGTATCGATA
1 ATGTATCGATA
1880909 CATGTGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 8 0.22
15 4 0.11
16 1 0.03
17 1 0.03
18 4 0.11
20 18 0.50
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATATAAAGCATT
Found at i:1881508 original size:24 final size:24
Alignment explanation
Indices: 1881481--1881558 Score: 85
Period size: 24 Copynumber: 3.5 Consensus size: 24
1881471 CTCCCCCTTG
*
1881481 ATAAAATAATTAAGGCTCTCTTTT
1 ATAAAAAAATTAAGGCTCTCTTTT
* *
1881505 ATAAAAAAATT-----TCTCCTTG
1 ATAAAAAAATTAAGGCTCTCTTTT
*
1881524 ATAAAATAATTAAGGCTCTCTTTT
1 ATAAAAAAATTAAGGCTCTCTTTT
1881548 ATAAAAAAATT
1 ATAAAAAAATT
1881559 TTCTCCTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 16 0.38
24 26 0.62
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (24 bp):
ATAAAAAAATTAAGGCTCTCTTTT
Found at i:1881519 original size:19 final size:19
Alignment explanation
Indices: 1881497--1881583 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 19
1881487 TAATTAAGGC
*
1881497 TCTCTTTTATAAAAAAATT
1 TCTCCTTTATAAAAAAATT
* *
1881516 TCTCCTTGATAAAATAATT
1 TCTCCTTTATAAAAAAATT
*
1881535 AAGGCTCTCTTTTATAAAAAAATTT
1 -----TCTCCTTTATAAAAAAA-TT
*
1881560 TCTCCTTTATAAAAAATTT
1 TCTCCTTTATAAAAAAATT
1881579 TCTCC
1 TCTCC
1881584 CCCTTTTTGT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
19 23 0.43
20 15 0.28
24 14 0.26
25 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.03, T:0.44
Consensus pattern (19 bp):
TCTCCTTTATAAAAAAATT
Found at i:1881524 original size:43 final size:43
Alignment explanation
Indices: 1881462--1881577 Score: 180
Period size: 43 Copynumber: 2.6 Consensus size: 43
1881452 ACTCTCCCTT
1881462 AAAAAATTTCTCCCCCTTGATAAAATAATTAAGGCTCTCTTTTATA
1 AAAAAATTTCT---CCTTGATAAAATAATTAAGGCTCTCTTTTATA
1881508 AAAAAATTTCTCCTTGATAAAATAATTAAGGCTCTCTTTTATA
1 AAAAAATTTCTCCTTGATAAAATAATTAAGGCTCTCTTTTATA
*
1881551 AAAAAATTTTCTCCTTTATAAAA-AATT
1 AAAAAA-TTTCTCCTTGATAAAATAATT
1881578 TTCTCCCCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
43 42 0.62
44 15 0.22
46 11 0.16
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.39
Consensus pattern (43 bp):
AAAAAATTTCTCCTTGATAAAATAATTAAGGCTCTCTTTTATA
Found at i:1883548 original size:20 final size:21
Alignment explanation
Indices: 1883517--1883556 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1883507 ATCTGGGTTT
1883517 TTTCAGATGTATCGATACATC
1 TTTCAGATGTATCGATACATC
1883538 TTTCA-ATGTATCGATACAT
1 TTTCAGATGTATCGATACAT
1883557 TATAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAGATGTATCGATACATC
Found at i:1888048 original size:3 final size:3
Alignment explanation
Indices: 1888040--1888079 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
1888030 TCCGAGTCAA
**
1888040 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT TTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1888080 TTTGATGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:1889779 original size:19 final size:20
Alignment explanation
Indices: 1889735--1889787 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1889725 CTGCCAGTTT
**
1889735 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
1889755 CATGTATCGATATAA-TGAA
1 CATGTATCGATACAATTGAA
*
1889774 CATGTATTGATACA
1 CATGTATCGATACA
1889788 GTGTATCGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1893967 original size:20 final size:20
Alignment explanation
Indices: 1893923--1893970 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1893913 CAAAACCCTT
* *
1893923 GAATGTATCGATACACACCC
1 GAATGTATCGATACAAACCA
*
1893943 GAATGTATCGATACAAAGCA
1 GAATGTATCGATACAAACCA
*
1893963 TAATGTAT
1 GAATGTAT
1893971 GTATTGATAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (20 bp):
GAATGTATCGATACAAACCA
Found at i:1894025 original size:20 final size:19
Alignment explanation
Indices: 1893979--1894035 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1893969 ATGTATTGAT
* *
1893979 ACATTTTATCGATACATGT
1 ACATTGTATCGATACATGG
*
1893998 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
1894017 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1894036 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1900121 original size:18 final size:20
Alignment explanation
Indices: 1900098--1900139 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1900088 TTTGATGTTT
1900098 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
1900116 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
1900136 ATTA
1 ATTA
1900140 GGGTCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:1900421 original size:21 final size:22
Alignment explanation
Indices: 1900382--1900422 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1900372 AAACCCTAAC
*
1900382 AATCTTTCTTCAAAATTCTTCA
1 AATCTTTCTACAAAATTCTTCA
*
1900404 AATCTTT-TACAAATTTCTT
1 AATCTTTCTACAAAATTCTT
1900423 GTTTTTCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (22 bp):
AATCTTTCTACAAAATTCTTCA
Found at i:1902189 original size:22 final size:22
Alignment explanation
Indices: 1902164--1902205 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1902154 TTTTTTTAGA
*
1902164 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGAGGAGAAATGC
**
1902186 TTTGATTAAGGAGGAGAAAT
1 TTTGACAAAGGAGGAGAAAT
1902206 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.24
Consensus pattern (22 bp):
TTTGACAAAGGAGGAGAAATGC
Found at i:1902218 original size:22 final size:21
Alignment explanation
Indices: 1902171--1902247 Score: 100
Period size: 22 Copynumber: 3.6 Consensus size: 21
1902161 AGATTTGACA
* *
1902171 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAAT-TTTTTATT
*
1902193 AAGGAGGAGAAATTTTTTATT
1 AAGGGGGAGAAATTTTTTATT
*
1902214 AAAGGGGAGAAATTTTTTAATT
1 AAGGGGGAGAAATTTTTT-ATT
1902236 AAGGGGGAGAAA
1 AAGGGGGAGAAA
1902248 AATGAAAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
21 22 0.46
22 26 0.54
ACGTcount: A:0.39, C:0.01, G:0.31, T:0.29
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTTATT
Found at i:1902895 original size:20 final size:19
Alignment explanation
Indices: 1902849--1902905 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1902839 TTGTATCGAT
* *
1902849 ACATTGTATCAATACATGT
1 ACATTGTATCGATACATGG
*
1902868 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1902887 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1902906 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1903502 original size:19 final size:21
Alignment explanation
Indices: 1903455--1903510 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
1903445 AATTTCAACA
1903455 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
* *
1903476 AATTGTATCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
1903496 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
1903511 TGTATTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 13 0.42
20 3 0.10
21 15 0.48
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:1903524 original size:32 final size:32
Alignment explanation
Indices: 1903479--1903549 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1903469 AAACAGTAAT
* *
1903479 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGAAACATAAGTGTTGTATCGATACAA
*
1903511 TGTATTGAAACATAAGTGTTGTATCGATACAA
1 TGTATCGAAACATAAGTGTTGTATCGATACAA
1903543 TGTATCG
1 TGTATCG
1903550 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGAAACATAAGTGTTGTATCGATACAA
Found at i:1903617 original size:33 final size:33
Alignment explanation
Indices: 1903573--1903639 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1903563 GCCAAGGAAA
*
1903573 TGTATCGATACATTACTCAATGTATCGATACAT
1 TGTATCAATACATTACTCAATGTATCGATACAT
** **
1903606 TGTATCAATACATTGGTCTTTGTATCGATACAT
1 TGTATCAATACATTACTCAATGTATCGATACAT
1903639 T
1 T
1903640 TGGGAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATTACTCAATGTATCGATACAT
Found at i:1908317 original size:13 final size:13
Alignment explanation
Indices: 1908299--1908324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1908289 TACACAAAAT
1908299 ATGTATCGATACA
1 ATGTATCGATACA
1908312 ATGTATCGATACA
1 ATGTATCGATACA
1908325 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1908322 original size:32 final size:34
Alignment explanation
Indices: 1908281--1908345 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
1908271 TAGCCAAACT
*
1908281 TGTATCGATACAC-AAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
1908313 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
1908346 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
33 5 0.17
34 12 0.40
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:1910580 original size:21 final size:21
Alignment explanation
Indices: 1910547--1910596 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1910537 TTGCAAGTTG
*
1910547 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1910569 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1910590 AAATAAA
1 AAATAAA
1910597 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1914525 original size:13 final size:13
Alignment explanation
Indices: 1914503--1914540 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1914493 CATTTTTCTT
*
1914503 TGTATAGATACAA
1 TGTATCGATACAA
*
1914516 TGTATCGATACAC
1 TGTATCGATACAA
1914529 TGTATCGATACA
1 TGTATCGATACA
1914541 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1917115 original size:13 final size:13
Alignment explanation
Indices: 1917097--1917122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1917087 TATACAAAAT
1917097 ATGTATCGATACA
1 ATGTATCGATACA
1917110 ATGTATCGATACA
1 ATGTATCGATACA
1917123 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1917120 original size:32 final size:34
Alignment explanation
Indices: 1917079--1917143 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
1917069 TAGCCAAACT
* *
1917079 TGTATCGATATAC-AAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAAATTGTATCGATACAA
1917111 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAAATTGTATCGATACA
1917144 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 5 0.17
34 12 0.41
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (34 bp):
TGTATCGATACACAAAAAAATTGTATCGATACAA
Found at i:1917403 original size:15 final size:15
Alignment explanation
Indices: 1917383--1917413 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1917373 CATCTAGCAT
1917383 TCAAAGTATTTTATA
1 TCAAAGTATTTTATA
1917398 TCAAAGTATTTTATA
1 TCAAAGTATTTTATA
1917413 T
1 T
1917414 TTTTCAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (15 bp):
TCAAAGTATTTTATA
Found at i:1917970 original size:34 final size:35
Alignment explanation
Indices: 1917901--1917973 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
1917891 GGTGTTTGTG
* *
1917901 GAAAGAATAAGCACAAAGGAATACAAATGAGCTTT
1 GAAAGAATAAGCACAAAGCAATACAAAAGAGCTTT
**
1917936 GAAAGAATAA-CAACAAA-CAATACAAAAGCTCTTT
1 GAAAGAATAAGC-ACAAAGCAATACAAAAGAGCTTT
1917970 GAAA
1 GAAA
1917974 TGATAAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 18 0.55
35 15 0.45
ACGTcount: A:0.55, C:0.14, G:0.15, T:0.16
Consensus pattern (35 bp):
GAAAGAATAAGCACAAAGCAATACAAAAGAGCTTT
Found at i:1918163 original size:13 final size:13
Alignment explanation
Indices: 1918145--1918171 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1918135 CTGTTAGGCT
1918145 CAATGTATCGATA
1 CAATGTATCGATA
1918158 CAATGTATCGATA
1 CAATGTATCGATA
1918171 C
1 C
1918172 TGAGTAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1918282 original size:33 final size:32
Alignment explanation
Indices: 1918220--1918283 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
1918210 CAATTCACTG
* * *
1918220 TGTATCGATACCAAGAACATGTATTGATACAA
1 TGTATAGATACAAAGAACATGTATCGATACAA
*
1918252 TGTATAGATACAAAGCAATATGTATCGATACA
1 TGTATAGATACAAAG-AACATGTATCGATACA
1918284 TCTGCTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (32 bp):
TGTATAGATACAAAGAACATGTATCGATACAA
Found at i:1919117 original size:20 final size:20
Alignment explanation
Indices: 1919092--1919186 Score: 122
Period size: 20 Copynumber: 4.8 Consensus size: 20
1919082 TTTTCACAAT
1919092 TTGTATCGATACATTGTT-CA
1 TTGTATCGATACATT-TTACA
*
1919112 TTGTATCGATACATTTTGCA
1 TTGTATCGATACATTTTACA
* *
1919132 TTATATCGATACATTGCT-CA
1 TTGTATCGATACATT-TTACA
1919152 TTGTATCGATACATTTTACA
1 TTGTATCGATACATTTTACA
*
1919172 ATGTATCGATACATT
1 TTGTATCGATACATT
1919187 CAGGCATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.04
20 63 0.94
21 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTTTACA
Found at i:1919139 original size:40 final size:40
Alignment explanation
Indices: 1919095--1919186 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
1919085 TCACAATTTG
* * *
1919095 TATCGATACATTGTTCATTGTATCGATACATTTTGCATTA
1 TATCGATACATTGCTCATTGTATCGATACATTTTACAATA
*
1919135 TATCGATACATTGCTCATTGTATCGATACATTTTACAATG
1 TATCGATACATTGCTCATTGTATCGATACATTTTACAATA
1919175 TATCGATACATT
1 TATCGATACATT
1919187 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (40 bp):
TATCGATACATTGCTCATTGTATCGATACATTTTACAATA
Found at i:1920490 original size:13 final size:13
Alignment explanation
Indices: 1920474--1920498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1920464 TTTATGAGTT
1920474 GGTTTTCCAACCC
1 GGTTTTCCAACCC
1920487 GGTTTTCCAACC
1 GGTTTTCCAACC
1920499 TTGGGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (13 bp):
GGTTTTCCAACCC
Found at i:1922202 original size:13 final size:13
Alignment explanation
Indices: 1922184--1922209 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1922174 CATTTTGGGA
1922184 TGTATCGATACAT
1 TGTATCGATACAT
1922197 TGTATCGATACAT
1 TGTATCGATACAT
1922210 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1922206 original size:33 final size:32
Alignment explanation
Indices: 1922164--1922227 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1922154 TACAAGCCAA
*
1922164 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
* *
1922197 TGTATCGATACATCTTGTGTGTATTGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1922228 AACAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1922327 original size:13 final size:13
Alignment explanation
Indices: 1922309--1922333 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1922299 ACATTTGGTC
1922309 ATGTATCGATACA
1 ATGTATCGATACA
1922322 ATGTATCGATAC
1 ATGTATCGATAC
1922334 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1922366 original size:20 final size:19
Alignment explanation
Indices: 1922343--1922381 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1922333 CTGTGCATTA
1922343 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1922363 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1922382 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1924657 original size:20 final size:21
Alignment explanation
Indices: 1924627--1924668 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1924617 CTGTTTTTGT
1924627 TGATGATTTTG-A-TGAAAAA
1 TGATGATTTTGAAGTGAAAAA
1924646 TGATGTATTTTGAAGTGAAAAA
1 TGATG-ATTTTGAAGTGAAAAA
1924668 T
1 T
1924669 AAGAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 1 0.05
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (21 bp):
TGATGATTTTGAAGTGAAAAA
Found at i:1924812 original size:13 final size:13
Alignment explanation
Indices: 1924790--1924827 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1924780 ATAAACCCTT
*
1924790 TGTATCGATACAC
1 TGTATCGATACAA
*
1924803 TGTCTCGATACAA
1 TGTATCGATACAA
1924816 TGTATCGATACA
1 TGTATCGATACA
1924828 GAGAATGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1930908 original size:20 final size:20
Alignment explanation
Indices: 1930883--1930935 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1930873 TCCCGTGTTA
1930883 ATGTATCGATACAATTTGGG
1 ATGTATCGATACAATTTGGG
1930903 ATGTATCGATACAATTTGGG
1 ATGTATCGATACAATTTGGG
1930923 ATGTATCGATACA
1 ATGTATCGATACA
1930936 TGCATTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTTGGG
Found at i:1931011 original size:19 final size:20
Alignment explanation
Indices: 1930966--1931017 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1930956 TTACAAGCCA
*
1930966 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
1930986 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
1931006 -TGTATCGATACA
1 ATGTATCGATACA
1931018 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:1931170 original size:19 final size:20
Alignment explanation
Indices: 1931133--1931171 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1931123 CTGTGCATTA
1931133 TGTATCGATACATTTTAAGG
1 TGTATCGATACATTTTAAGG
1931153 TGTATCGATACA-TTTAAGG
1 TGTATCGATACATTTTAAGG
1931172 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTTAAGG
Found at i:1931689 original size:51 final size:51
Alignment explanation
Indices: 1931627--1931744 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
1931617 ATTTCCGATG
* * * *
1931627 AGATACTCCAACCCCGATTTT-CTTTCTAAAATACAAATTTTTCACAATCGG
1 AGATACTCCAACCCCGATTTTATTTTC-AAAACACAAATTTCTCACAATCGA
* * * **
1931678 GGATACTCCAACTCCAATTTTATTTTCAAAACACCGATTTCTCACAATCGA
1 AGATACTCCAACCCCGATTTTATTTTCAAAACACAAATTTCTCACAATCGA
*
1931729 AGATACTCTAACCCCG
1 AGATACTCCAACCCCG
1931745 TTATTTTCAC
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
51 49 0.92
52 4 0.08
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (51 bp):
AGATACTCCAACCCCGATTTTATTTTCAAAACACAAATTTCTCACAATCGA
Found at i:1931758 original size:79 final size:78
Alignment explanation
Indices: 1931676--1932054 Score: 324
Period size: 79 Copynumber: 4.8 Consensus size: 78
1931666 TTTCACAATC
* * *
1931676 GGGGATACTCCAACTCCAATTTTATTTTCAAAACACCGATTTCTCACAATCGAAGATACTCTAAC
1 GGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCGATTTCTCATAATCGAGGATACTCTAAC
1931741 CCCGTTATTTTC-A
65 CCCGTTATTTTCGA
** * * * *
1931754 CGGGGATACTCCAACCCCGACCTTA-TTTCTAAAGCATCGATCTTC-AATAATCGGGGATACTCT
1 -GGGGATACTCCAA-CCCGATTTTATTTTC-AAAACACCGAT-TTCTCATAATCGAGGATACTCT
1931817 AACCCCGTTATTTTCGA
62 AACCCCGTTATTTTCGA
** * *
1931834 GGGGATACTTTAACCTCGATTTTATTTTCAAAACACCAATTT-TCTATAATC-AGGGATACTCCA
1 GGGGATACTCCAACC-CGATTTTATTTTCAAAACACCGATTTCTC-ATAATCGA-GGATACTCTA
*
1931897 ACCCTGTTATTTTCGA
63 ACCCCGTTATTTTCGA
* * * *
1931913 GAGGATACTTCAACCCTGATTTTATATTT-AAAATACCGATTT-TCTATAATC-AGGGATACTCC
1 GGGGATACTCCAACCC-GATTTTAT-TTTCAAAACACCGATTTCTC-ATAATCGA-GGATACTCT
** **
1931975 AACCTTGTTATTTTTTA
62 AACCCCGTTATTTTCGA
* * * * * * *
1931992 GGGGATACTTCAACCCTGATTTTACTTCCAAAATACCGATTTTTCATAATTGGGGATACTCTA
1 GGGGATACTCCAACCC-GATTTTATTTTCAAAACACCGATTTCTCATAATCGAGGATACTCTA
1932055 CCCTCGTGGT
Statistics
Matches: 253, Mismatches: 33, Indels: 28
0.81 0.11 0.09
Matches are distributed among these distances:
78 11 0.04
79 228 0.90
80 14 0.06
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAACACCGATTTCTCATAATCGAGGATACTCTAACC
CCGTTATTTTCGA
Found at i:1932041 original size:158 final size:157
Alignment explanation
Indices: 1931676--1932052 Score: 386
Period size: 158 Copynumber: 2.4 Consensus size: 157
1931666 TTTCACAATC
* * * * * *
1931676 GGGGATACTCCAACTCC-AATTTTATTTTCAAAACACCGATTTCTCACAATCGAAGATACTCTAA
1 GGGGATACTTCAAC-CCTGATTTTATTTTCAAAACACCGATTTTTCATAATCG-GGATACTCCAA
* * *
1931740 CCCCGTTATTTTCACGGGGATACTCCAACCCCGACCTTATTTCTAAAGCATCGATCTTCAATAAT
64 CCCCGTTATTTTCACGAGGATACTCCAACCCCGACCTTATTTCTAAAACACCGATCTTCAATAAT
* *
1931805 CGGGGATACTCTAACCCCGTTATTTTCGA
129 CAGGGATACTCCAACCCCGTTATTTTCGA
* *
1931834 GGGGATACTTTAA-CCTCGATTTTATTTTCAAAACACC-AATTTTCTATAATCAGGGATACTCCA
1 GGGGATACTTCAACCCT-GATTTTATTTTCAAAACACCGATTTTTC-ATAATC-GGGATACTCCA
* * * ** * * *
1931897 ACCCTGTTATTTTCGA-GAGGATACTTCAACCCTGATTTTATATT-TAAAATACCGATTTTCTAT
63 ACCCCGTTATTTTC-ACGAGGATACTCCAACCCCGACCTTAT-TTCTAAAACACCGATCTTCAAT
** **
1931960 AATCAGGGATACTCCAACCTTGTTATTTTTTA
126 AATCAGGGATACTCCAACCCCGTTATTTTCGA
* * * *
1931992 GGGGATACTTCAACCCTGATTTTACTTCCAAAATACCGATTTTTCATAATTGGGGATACTC
1 GGGGATACTTCAACCCTGATTTTATTTTCAAAACACCGATTTTTCATAA-TCGGGATACTC
1932053 TACCCTCGTG
Statistics
Matches: 179, Mismatches: 31, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
156 2 0.01
157 5 0.03
158 158 0.88
159 14 0.08
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (157 bp):
GGGGATACTTCAACCCTGATTTTATTTTCAAAACACCGATTTTTCATAATCGGGATACTCCAACC
CCGTTATTTTCACGAGGATACTCCAACCCCGACCTTATTTCTAAAACACCGATCTTCAATAATCA
GGGATACTCCAACCCCGTTATTTTCGA
Found at i:1939772 original size:61 final size:59
Alignment explanation
Indices: 1939672--1940139 Score: 574
Period size: 61 Copynumber: 7.9 Consensus size: 59
1939662 GAGCAGGACG
* * *
1939672 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGATGTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTT
*
1939731 CTCTTTCCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTT
1 C-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATG-CTTT
* * * *
1939793 CTTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C--G
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTT
* * * *
1939848 CCTTTCAAAGCCCACACTAGTTGGTGGCATTTTCAAGTCCTCAAAGAGCAGGA--C--G
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTT
* *
1939903 CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGAATGCTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTT
* * * *
1939962 CTCTTTGCAAAGCCCACATAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAAGATGCCTTT
1 C-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATG-CTTT
* * *
1940024 CCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGCAGGACGCCTTT
1 CCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATG-CTTT
** **
1940085 CCTTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGAT
1 CC-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGAT
1940140 ACACTTTATT
Statistics
Matches: 364, Mismatches: 34, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
55 102 0.28
57 2 0.01
59 2 0.01
60 53 0.15
61 193 0.53
62 12 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGATGCTTT
Found at i:1940882 original size:14 final size:14
Alignment explanation
Indices: 1940859--1940906 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
1940849 GAGTGTTTCT
*
1940859 AAAACAAAAATAATA
1 AAAATAAAAATAA-A
1940874 AAAATAAAAATAAA
1 AAAATAAAAATAAA
*
1940888 AAAATAACAATAAA
1 AAAATAAAAATAAA
1940902 AAAAT
1 AAAAT
1940907 CACATTTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:1940888 original size:20 final size:20
Alignment explanation
Indices: 1940859--1940903 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1940849 GAGTGTTTCT
*
1940859 AAAACAAAAATAATAAAAATA
1 AAAATAAAAA-AATAAAAATA
*
1940880 AAAATAAAAAAATAACAATA
1 AAAATAAAAAAATAAAAATA
1940900 AAAA
1 AAAA
1940904 AATCACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAATAAAAAAATAAAAATA
Found at i:1941075 original size:21 final size:21
Alignment explanation
Indices: 1941049--1941090 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1941039 AGCTACTACC
1941049 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
1941070 AAGGAAGTGTATCGATACATT
1 AAGGAAATGTATCGATACATT
1941091 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:1941095 original size:13 final size:13
Alignment explanation
Indices: 1941077--1941102 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1941067 ATTAAGGAAG
1941077 TGTATCGATACAT
1 TGTATCGATACAT
1941090 TGTATCGATACAT
1 TGTATCGATACAT
1941103 CAATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1943534 original size:52 final size:52
Alignment explanation
Indices: 1943476--1944102 Score: 215
Period size: 52 Copynumber: 11.9 Consensus size: 52
1943466 TCAATTGTTC
*
1943476 ATAATCGGGGATACTCCAACCCTAGTTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCT
* * * * *
1943528 TTAATCGAGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCAG-TTTTATTTTC-AAAACACCAATTTTCCT
* ** * * * * * *
1943580 ACAATCAAGGATACTCCAACCTC-G--TTATTTCATCGGGGATACTCCAA---CCCC
1 ATAATCGGGGATACTCCAACCCCAGTTTTATTT--TC---AAAACACCAATTTTCCT
* * * * * * *** *
1943631 ATTACCTCCGAGGGGATACTCTAACCCCGGCTTTATTTCCAAAATATTGATATT-CT
1 A-TA-AT-C--GGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCT
* * *
1943687 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTTTC-
1 -ATAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTCCT
* * *
1943739 ACAATCGAGGATACTCTAACCCC-GATTTTATTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTTTCCT
* * * * *
1943791 TTAATCGGGGATACTCCAACTCC-GATTTTATTTCTAAAAACACTAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCAG-TTTTATTT-TCAAAACACCAATTTTCCT
* * * * * * * *
1943843 ACAATCGAGGATACTCCAATCTC-GTTATTTCATCGGGGATGCTC-CAAC-CCCA-TTACCT
1 ATAATCGGGGATACTCCAACCCCAG-T-TTT-AT------T-TTCAAAACACCAATTTTCCT
* * * * * * ***
1943901 CTGA--GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA--TTCCT
1 ATAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCT
* * *
1943949 CATAATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCCAGTTTTATTTTC-AAAACACCAATTTTCCT
* * * * *
1944001 ACAATCGGGGATACTCCAATCTCGGTTTTCTTTTCAAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCT
* * * *
1944053 TTAATCGGGCATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTT
1 ATAATCGGGGATACTCCAACCCCAG-TTTTATTTTC-AAAACACCAATTTT
1944103 TCACAATCTA
Statistics
Matches: 423, Mismatches: 104, Indels: 95
0.68 0.17 0.15
Matches are distributed among these distances:
47 1 0.00
48 7 0.02
49 9 0.02
50 5 0.01
51 117 0.28
52 160 0.38
53 60 0.14
54 9 0.02
55 4 0.01
56 30 0.07
57 7 0.02
58 3 0.01
59 9 0.02
60 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (52 bp):
ATAATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCT
Found at i:1943768 original size:51 final size:52
Alignment explanation
Indices: 1943690--1943861 Score: 231
Period size: 52 Copynumber: 3.3 Consensus size: 52
1943680 ATATTCTCAT
* *
1943690 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTTCAC
1 AATCGAGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCAC
* * * * **
1943741 AATCGAGGATACTCTAACCCCGATTTTATTT-TCAAAACACCAATTTTCCTTT
1 AATCGAGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTC-AC
* *
1943793 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCAC
1 AATCGAGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCAC
1943845 AATCGAGGATACTCCAA
1 AATCGAGGATACTCCAA
1943862 TCTCGTTATT
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.01
51 42 0.41
52 44 0.43
53 15 0.15
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (52 bp):
AATCGAGGATACTCCAACCCCGATTTTATTTCTAAAAACACTAATTTTTCAC
Found at i:1943777 original size:103 final size:104
Alignment explanation
Indices: 1943644--1943858 Score: 308
Period size: 103 Copynumber: 2.1 Consensus size: 104
1943634 ACCTCCGAGG
* * ***
1943644 GGATACTCTAACCCCGGCTTTATTTCCAAAATATTGATATT-CTCATAATCGGGGATACTCCAAC
1 GGATACTCTAACCCCGACTTTATTTCCAAAACACCAATATTCCT-ATAATCGGGGATACTCCAAC
*
1943708 CCCGGTTTTATTTCT-AAAACACTAATTTTTCACAATCGA
65 CCCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGA
* * * * *
1943747 GGATACTCTAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACT
1 GGATACTCTAACCCCGACTTTATTTCCAAAACACCAATATTCCTATAATCGGGGATACTCCAACC
1943812 CCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGA
66 CCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGA
1943851 GGATACTC
1 GGATACTC
1943859 CAATCTCGTT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
103 65 0.66
104 34 0.34
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (104 bp):
GGATACTCTAACCCCGACTTTATTTCCAAAACACCAATATTCCTATAATCGGGGATACTCCAACC
CCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGA
Found at i:1944094 original size:262 final size:260
Alignment explanation
Indices: 1943478--1944235 Score: 1228
Period size: 262 Copynumber: 2.9 Consensus size: 260
1943468 AATTGTTCAT
*
1943478 AATCGGGGATACTCCAACCCTAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGAGGATACT
1 AATCGGGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCG-GGATACT
1943543 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCGTTAT
64 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCGTTAT
*
1943608 TTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCTAACCCCGGCTTTATTTCCAA
129 TTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
*
1943673 AATATTGATATTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTT
194 AATATTGAT-TTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTC
1943738 CAC
258 CAC
* * *
1943741 AATCGAGGATACTCTAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC-GGGATACT
* * * *
1943806 CCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGAGGATACTCCAATCTCGTTAT
64 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCGTTAT
* *
1943871 TTCATCGGGGATGCTCCAACCCCATTACCTCTGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
129 TTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
* *
1943936 AATATTGATTCCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATACTAATTTTCC
194 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
1944001 AC
259 AC
* *
1944003 AATCGGGGATACTCCAATCTCGGTTTTCTTTTCAAAACACCAATTTTCCTTTAATCGGGCATACT
1 AATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGG-ATACT
* * *
1944068 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCTAGAATACTCAAACCTCGTTAT
64 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCGTTAT
** **
1944133 TTCATCGGGGATACTCCAACCCTGTGCCCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
129 TTCATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
* *
1944198 AATATTGATTTCTCATAATTGGGGATACTCCAATCCCG
194 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCG
1944236 TTATTTCTGA
Statistics
Matches: 457, Mismatches: 35, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
261 3 0.01
262 263 0.58
263 187 0.41
264 4 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (260 bp):
AATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGATACTCC
AACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCAAGGATACTCCAACCTCGTTATTT
CATCGGGGATACTCCAACCCCATTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAA
TATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCAC
Found at i:1944119 original size:52 final size:50
Alignment explanation
Indices: 1943690--1944120 Score: 180
Period size: 51 Copynumber: 8.3 Consensus size: 50
1943680 ATATTCTCAT
* * * *
1943690 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCAC
1 AATCGGGAATACTCCAACTCCGGTTTTATTTC-AAAACACCAATTTTCCAC
* * * **
1943741 AATCGAGG-ATACTCTAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCG-GGAATACTCCAACTCCGGTTTTA-TTTCAAAACACCAATTTTCC-AC
* * * *
1943793 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCAC
1 AATCGGGAATACTCCAACTCCGGTTTTATTTC--AAAACACCAATTTTCCAC
* * * * *
1943845 AATCGAGG-ATACTCCAA-TCTCGTTATTTCATCGGGGATGCTC-CAAC-CCCA-TTACCTC
1 AATCG-GGAATACTCCAACTC-CGGT-TTT-AT------T--TCAAAACACCAATTTTCCAC
* * * * * *** * *
1943902 --TGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTCCTCAT
1 AAT-CGGGAATACTCCAACTCCGGTTTTATTT-CAAAACACCAATTTTC-CAC
* * * *
1943952 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAATACTAATTTTCCAC
1 AATCGGGAATACTCCAACTCCGGTTTTATTTC-AAAACACCAATTTTCCAC
* * **
1944003 AATCGGGGATACTCCAA-TCTCGGTTTTCTTTTCAAAACACCAATTTTCCTTT
1 AATCGGGAATACTCCAACTC-CGGTTTT-ATTTCAAAACACCAATTTTCC-AC
* * *
1944055 AATCGGGCATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCAC
1 AATCGGGAATACTCCAACTCCGGTTTTATTT-C-AAAACACCAATTTTCCAC
**
1944107 AATCTAGAATACTC
1 AATCGGGAATACTC
1944121 AAACCTCGTT
Statistics
Matches: 293, Mismatches: 52, Indels: 69
0.71 0.13 0.17
Matches are distributed among these distances:
46 1 0.00
47 1 0.00
48 3 0.01
49 4 0.01
50 3 0.01
51 122 0.42
52 88 0.30
53 36 0.12
54 4 0.01
55 6 0.02
56 12 0.04
57 5 0.02
58 2 0.01
59 3 0.01
60 1 0.00
62 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (50 bp):
AATCGGGAATACTCCAACTCCGGTTTTATTTCAAAACACCAATTTTCCAC
Found at i:1944270 original size:79 final size:78
Alignment explanation
Indices: 1944164--1944372 Score: 224
Period size: 79 Copynumber: 2.6 Consensus size: 78
1944154 CTGTGCCCTC
***
1944164 CGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATTGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGG-TTTATTTCCAAAATATTGATTTCTCATAACCAGGGATACTCC
*
1944229 AATCCCGTTA-TTT
65 AACCCCGTTATTTT
* * * * * *
1944242 CTGAGGGGATACTCCAATCTCGAGTTTATTTCC-TAATCATCGATTTTTCACAACCAGGGATACT
1 C-GAGGGGATACTCCAACCCCG-GTTTATTTCCAAAAT-ATTGATTTCTCATAACCAGGGATACT
1944306 CCAACCCCGTTATTTT
63 CCAACCCCGTTATTTT
* * * *
1944322 CAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTCTCAT
1 CGAGGGGATACTCCAACCCCGGT-TTATTTCCAAAATATT-GATTTCTCAT
1944373 CGGGACATAT
Statistics
Matches: 104, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
78 5 0.05
79 84 0.81
80 15 0.14
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (78 bp):
CGAGGGGATACTCCAACCCCGGTTTATTTCCAAAATATTGATTTCTCATAACCAGGGATACTCCA
ACCCCGTTATTTT
Found at i:1946406 original size:4 final size:4
Alignment explanation
Indices: 1946397--1946425 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
1946387 TATTTTGAGG
1946397 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
1946426 GTTTTGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Done.