Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold164
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: 2248410
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 12 of 15
Found at i:1770633 original size:20 final size:19
Alignment explanation
Indices: 1770582--1770660 Score: 68
Period size: 20 Copynumber: 4.0 Consensus size: 19
1770572 TTTTTAACCA
* *
1770582 AATGTATCGATACATTTTTT
1 AATGTATCGATACA-TTATG
* *
1770602 AATATATTGATACATGTATG
1 AATGTATCGATACAT-TATG
* * *
1770622 AATGTATCGATATATTCTTC
1 AATGTATCGATACATT-ATG
1770642 AATGTATCGATACATTATG
1 AATGTATCGATACATTATG
1770661 TCTTTTTACC
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.07
20 42 0.93
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (19 bp):
AATGTATCGATACATTATG
Found at i:1770654 original size:40 final size:39
Alignment explanation
Indices: 1770582--1770660 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
1770572 TTTTTAACCA
* * *
1770582 AATGTATCGATACATTTTTTAATATATTGATACATGTATG
1 AATGTATCGATACATTCTTCAATATATCGATACAT-TATG
* *
1770622 AATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 AATGTATCGATACATTCTTCAATATATCGATACATTATG
1770661 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (39 bp):
AATGTATCGATACATTCTTCAATATATCGATACATTATG
Found at i:1773888 original size:22 final size:22
Alignment explanation
Indices: 1773861--1773908 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1773851 AAAATAATAA
1773861 TTTTCTTTCCTTTTCTTTTGCT
1 TTTTCTTTCCTTTTCTTTTGCT
** * *
1773883 TTTTCTTTTTTTTTTTTTTGGT
1 TTTTCTTTCCTTTTCTTTTGCT
1773905 TTTT
1 TTTT
1773909 TTTAAACATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.81
Consensus pattern (22 bp):
TTTTCTTTCCTTTTCTTTTGCT
Found at i:1775420 original size:39 final size:39
Alignment explanation
Indices: 1775366--1775446 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
1775356 TGGTTCTAAA
1775366 AAATTATGAAAATGTGTCTATAGGTATACCTTCCACATG
1 AAATTATGAAAATGTGTCTATAGGTATACCTTCCACATG
* *
1775405 AAATTATGAAAATGTGTCTATAGGTGTACCTTTCACATG
1 AAATTATGAAAATGTGTCTATAGGTATACCTTCCACATG
1775444 AAA
1 AAA
1775447 GTATTCCAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (39 bp):
AAATTATGAAAATGTGTCTATAGGTATACCTTCCACATG
Found at i:1776122 original size:165 final size:161
Alignment explanation
Indices: 1775665--1776122 Score: 522
Period size: 165 Copynumber: 2.8 Consensus size: 161
1775655 TAATTCTACC
* * * * * ** * *
1775665 TTTAAAAACTAAAACTTACTATTTAATCCCTAAACTTTGAAAATTTTCATTTCATTTTTGACAAA
1 TTTAAAAAC-AAAAATTGCTATTTAGTCCCTAAACTTTTAAAAATTTCATTTCATACTCGAC-GA
* * * *
1775730 AAACTAAGAGGATAGGAAAAATTTTAAAAATTTTCTATACCACTACGGATGGCCATAAAAATAAT
64 AAACTAAGAGGATA-GAAAAGTTTTAAAAATTTT-TATACC-CTACAGAAGGCCATAAGAATAAT
1775795 AAAAATTTAAAGAAAATGACTAAGATAGCAATTTTT
126 AAAAATTTAAAGAAAATGACTAAGATAGCAATTTTT
* * * * *
1775831 TCTAAAATCAAAAATTGCTATTTGGTCTCTAAACTTTTAAAAATTTCATTTCATACTCGATGAAA
1 TTTAAAAACAAAAATTGCTATTTAGTCCCTAAACTTTTAAAAATTTCATTTCATACTCGACG-AA
** * * * * *
1775896 AACTGGGAAGATATAAAGAGTTTTAAAAA-TTTTATATCCATACAAAAGGCCATAGGAATAATAA
65 AACTAAGAGGATAGAAA-AGTTTTAAAAATTTTTATA-CCCTACAGAAGGCCATAAGAATAATAA
1775960 AAATTTAAAGAAAATGACTAAGATAGCAATTTTTCT
128 AAATTTAAAGAAAATGACTAAGATAGCAA-TTTT-T
* *
1775996 TTTAAAAACCAAATTTGCTATTTAGTCCCTAAACTTTTAAAAATTTCATTTCATACTCGACGAAA
1 TTTAAAAACAAAAATTGCTATTTAGTCCCTAAACTTTTAAAAATTTCATTTCATACTCGACGAAA
* * **
1776061 ACCAAGAGGATACGAAAAGTGTTAAAAATTTTTATACCCTTACAGAAGATCATAAGAATAAT
66 ACTAAGAGGATA-GAAAAGTTTTAAAAATTTTTATACCC-TACAGAAGGCCATAAGAATAAT
1776123 TGAAATCTTT
Statistics
Matches: 241, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
163 52 0.22
164 35 0.15
165 147 0.61
166 7 0.03
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (161 bp):
TTTAAAAACAAAAATTGCTATTTAGTCCCTAAACTTTTAAAAATTTCATTTCATACTCGACGAAA
ACTAAGAGGATAGAAAAGTTTTAAAAATTTTTATACCCTACAGAAGGCCATAAGAATAATAAAAA
TTTAAAGAAAATGACTAAGATAGCAATTTTT
Found at i:1777873 original size:150 final size:149
Alignment explanation
Indices: 1777575--1777920 Score: 375
Period size: 150 Copynumber: 2.3 Consensus size: 149
1777565 AATATATGCA
* * *
1777575 AAAAAATTC-AAAACTCATAAAATAAATTTAATTTTCTAAAACTGATTTAATATGAATTCAATAA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATAAATTCAATAA
* * *
1777639 AAATATTTGATAAATTTTAAAAATTTTGAATTAAAAAATCTAACCAAAAAAATTACAAATTAGAA
66 AAATATTTGATAAA-TTTAAAAATTATAAATTAAAAAATCTAACCAAAAAAATTACAAAGTAGAA
**
1777704 AACTCTATATTTTGAAATAG
130 AACTCTATATTCAGAAATAG
* *
1777724 AAAAAATTCTAAAACTCATAAAATAAATTGAATTTTTTAAAAATGATTTAATATAAATT-AA-AA
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATAAATTCAATAA
* ** *
1777787 ATAATATTTAGAT-AA-TTATAAATTATAAACTTAAAAAAATCTTGCCGAAAAAATTTACAAAGT
66 A-AATATTT-GATAAATTTAAAAATTATAAA-TT-AAAAAATCTAACC-AAAAAAATTACAAAGT
* * * *
1777850 AG-AAATTTTGTATCTCAGTAATAG
126 AGAAAACTCTATAT-TCAGAAATAG
* * * *
1777874 -AAAAATTTTTAAATTCATAAAATAAA-TAAAATTTTTAAAACTGATTT
1 AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTT
1777921 TATAGTGATT
Statistics
Matches: 167, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
147 11 0.07
148 23 0.14
149 62 0.37
150 71 0.43
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (149 bp):
AAAAAATTCTAAAACTCATAAAATAAATTAAATTTTTTAAAACTGATTTAATATAAATTCAATAA
AAATATTTGATAAATTTAAAAATTATAAATTAAAAAATCTAACCAAAAAAATTACAAAGTAGAAA
ACTCTATATTCAGAAATAG
Found at i:1782469 original size:19 final size:19
Alignment explanation
Indices: 1782441--1782477 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1782431 AATGTATGGC
1782441 TCTCAGATAAGTTTTAATG
1 TCTCAGATAAGTTTTAATG
*
1782460 TCTCATATAAGTTTTAAT
1 TCTCAGATAAGTTTTAAT
1782478 ATCACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (19 bp):
TCTCAGATAAGTTTTAATG
Found at i:1782485 original size:19 final size:19
Alignment explanation
Indices: 1782447--1782485 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1782437 TGGCTCTCAG
* *
1782447 ATAAGTTTTAATGTCTCAT
1 ATAAGTTTTAATATCACAT
1782466 ATAAGTTTTAATATCACAT
1 ATAAGTTTTAATATCACAT
1782485 A
1 A
1782486 AATGTATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (19 bp):
ATAAGTTTTAATATCACAT
Found at i:1783219 original size:18 final size:18
Alignment explanation
Indices: 1783198--1783240 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1783188 AAATGTTAAA
*
1783198 TTTTTATAAAAATTGATT
1 TTTTTATAAAAATTAATT
1783216 TTTTTATAAAAATTAATT
1 TTTTTATAAAAATTAATT
1783234 TTTTTAT
1 TTTTTAT
1783241 TTTTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (18 bp):
TTTTTATAAAAATTAATT
Found at i:1784010 original size:2 final size:2
Alignment explanation
Indices: 1784003--1784035 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1783993 ACATTGCCAT
1784003 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1784036 TAGAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1784993 original size:2 final size:2
Alignment explanation
Indices: 1784986--1785015 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1784976 AGCGAGGGAG
1784986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1785016 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1785200 original size:4 final size:4
Alignment explanation
Indices: 1785168--1785206 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
1785158 AGCCGCCTGA
* * *
1785168 CAGC CATC CAGC CAAC CAGC CAAC CAGC CAGC CAGC CAG
1 CAGC CAGC CAGC CAGC CAGC CAGC CAGC CAGC CAGC CAG
1785207 ACCTTCCGAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.31, C:0.49, G:0.18, T:0.03
Consensus pattern (4 bp):
CAGC
Found at i:1785206 original size:8 final size:8
Alignment explanation
Indices: 1785168--1785205 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
1785158 AGCCGCCTGA
*
1785168 CAGCCATC
1 CAGCCAAC
1785176 CAGCCAAC
1 CAGCCAAC
1785184 CAGCCAAC
1 CAGCCAAC
*
1785192 CAGCCAGC
1 CAGCCAAC
1785200 CAGCCA
1 CAGCCA
1785206 GACCTTCCGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.32, C:0.50, G:0.16, T:0.03
Consensus pattern (8 bp):
CAGCCAAC
Found at i:1786203 original size:2 final size:2
Alignment explanation
Indices: 1786196--1786233 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1786186 TGTCTGTCTG
1786196 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1786234 CCCCCTTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1788397 original size:2 final size:2
Alignment explanation
Indices: 1788390--1788426 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1788380 GTAGTGCTGT
1788390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1788427 GCACAATACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1789710 original size:41 final size:41
Alignment explanation
Indices: 1789648--1789735 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
1789638 CTTTTTCATC
1789648 ATAGCATTGGATTCTTAAGGAGTAAATTATTGATCAAAAGAT
1 ATAG-ATTGGATTCTTAAGGAGTAAATTATTGATCAAAAGAT
* *
1789690 TTAGATTGGATTCTTAAGGAGTAGATTATTGATCAAAAGAT
1 ATAGATTGGATTCTTAAGGAGTAAATTATTGATCAAAAGAT
1789731 ATAGA
1 ATAGA
1789736 AATGTATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
41 40 0.93
42 3 0.07
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.34
Consensus pattern (41 bp):
ATAGATTGGATTCTTAAGGAGTAAATTATTGATCAAAAGAT
Found at i:1790229 original size:13 final size:12
Alignment explanation
Indices: 1790188--1790230 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
1790178 TTTTAACTGT
1790188 TATATAAATATATA
1 TATATAAA-ATA-A
1790202 TATATAAAATAA
1 TATATAAAATAA
*
1790214 TATTTAAAATTAA
1 TATATAAAA-TAA
1790227 TATA
1 TATA
1790231 ATATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 9 0.35
13 9 0.35
14 8 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATAAAATAA
Found at i:1790361 original size:27 final size:27
Alignment explanation
Indices: 1790304--1790365 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
1790294 TATTATTAAT
* * *
1790304 TTATTAAAATATTAATTGTATATGAAG
1 TTATTAAAATATCAATTATATATGAAA
1790331 TTATTAAAATATCAATTATATAT-ACAA
1 TTATTAAAATATCAATTATATATGA-AA
1790358 TTA-TAAAA
1 TTATTAAAA
1790366 GCATTTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.19
27 25 0.81
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (27 bp):
TTATTAAAATATCAATTATATATGAAA
Found at i:1792992 original size:21 final size:21
Alignment explanation
Indices: 1792967--1793008 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1792957 GTTTGAAATT
1792967 AGCCAGAACCTATTGAATGTA
1 AGCCAGAACCTATTGAATGTA
1792988 AGCCAGAACCTATTGAATGTA
1 AGCCAGAACCTATTGAATGTA
1793009 GGTCAAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (21 bp):
AGCCAGAACCTATTGAATGTA
Found at i:1795595 original size:416 final size:418
Alignment explanation
Indices: 1794439--1795701 Score: 1892
Period size: 420 Copynumber: 3.0 Consensus size: 418
1794429 ACATTATAAG
** * * *
1794439 GCTCTTATGGGCCACAGTTGAAATGAAAGATTGGGAACTCTATCACTTGGATATGAAATTAGCAT
1 GCTCTTATGGGCCTTAGTTGAAATGAAAGATTGGAAAGTCTATCACTTGGATATGAAATCAGCA-
* * * * *
1794504 GCCTAGATGGTTTGCTTGAGAAAGAGATTTTTGTTAAGCAATCAGAGGGATTTCAAGCTCTAAAA
65 --CT---TGGTTTGGTTGAGGAAGAGATTTTTGTTAAGCAATCAAAGGGGTTTCAAGCTCCAAAA
*
1794569 AGTGAAGAGAAGGTGTACAAGTTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTG
125 AGTGAAGAGAAGGTGTACAAGCTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTG
* *
1794634 GTATAGTAGAATTGATTTTTATTTGCTATGAGAAGGGTTTATCAAAAGTGAAAGTGAAGCTACAC
190 GTATAGTAGAATTGATTTTTATTTGCTATGAGAAGGGTTTATCAAAAGTGAAAGTGAAGCTATAT
* * *
1794699 AATGTCGTAACGTGATCCGGATACGAATCTCGACCAAGCCCAACTTAAAATAACCCTTGATTATG
255 AGTGTCGTAACGTGATCCGGATACGAATCTCGACCAAGCTCAACTTAAAATAGCCCTTGATTATG
* *
1794764 AAAATAATGAAGTATTGTTATTTTGATGACT-C---TTTATGGGCCATATTATTGTAACTATTTC
320 AAAATAATGAAGTATTGTTATTTTGATGACTCCTATTTTATGGGCCATATTAATGTAAATATTTC
** *
1794825 GTATTTTCGGAGACTTGGGTCATCGAGATGAATC
385 GTATTTTCGGAGACTTGGGTTGTCAAGATGAATC
* *
1794859 GCTCTTATGGGCCTTAATTGAAATGAAAGATTGGAAAGTCTATAACTTGGATATGAAATCAGCAT
1 GCTCTTATGGGCCTTAGTTGAAATGAAAGATTGGAAAGTCTATCACTTGGATATGAAATCAGCA-
*
1794924 TCCTAGATGGTTTGGTTGAGGAAGAGATTTTTGTTAAGCAATCAAAGGGGTTTCAAGCTCCTAAA
65 --CT---TGGTTTGGTTGAGGAAGAGATTTTTGTTAAGCAATCAAAGGGGTTTCAAGCTCCAAAA
*
1794989 AGTGAAGAGAAGGTGTACAACCTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTG
125 AGTGAAGAGAAGGTGTACAAGCTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTG
* * *
1795054 GTATAGTAAAATTGATTTTTATTTGCTATGAGAAGGGTTTATTAAAAGTAAAAGTGAAGCTATAT
190 GTATAGTAGAATTGATTTTTATTTGCTATGAGAAGGGTTTATCAAAAGTGAAAGTGAAGCTATAT
* * *
1795119 AGTATCATAACGTGACCCGGATACGAATCTCGACCAAGCTCAACTTAAAAT-GACCCTTGATTAT
255 AGTGTCGTAACGTGATCCGGATACGAATCTCGACCAAGCTCAACTTAAAATAG-CCCTTGATTAT
* *
1795183 GAAAATAATAAAGTATTGTTATTTTGATGACTCCTATTTTATAGGCCATATTAATGTAAATATTT
319 GAAAATAATGAAGTATTGTTATTTTGATGACTCCTATTTTATGGGCCATATTAATGTAAATATTT
* * *
1795248 CATATTTTCAGAGACTAGGGTTGTCAAGATGAATC
384 CGTATTTTCGGAGACTTGGGTTGTCAAGATGAATC
*
1795283 GTTCTTATGGGCCTTAGTTGAAATGAAAGATTGGAAAGTCTATCACTTGGATATGAAATCAGCA-
1 GCTCTTATGGGCCTTAGTTGAAATGAAAGATTGGAAAGTCTATCACTTGGATATGAAATCAGCAC
* *
1795347 TTGGTTTGGTTGAGGAAGAGATTTTTATTAAGCAATCAAAGGGGTTTTAAGCTCCAAAAAGTGAA
66 TTGGTTTGGTTGAGGAAGAGATTTTTGTTAAGCAATCAAAGGGGTTTCAAGCTCCAAAAAGTGAA
1795412 GAGAAGGTGTACAAGCTTCATAAAGCTTTATATGGACTAAAACAA-CTCCAAGAGCTTGGTATAG
131 GAGAAGGTGTACAAGCTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTGGTATAG
* * * * *
1795476 TAGAGTTGATTTTTAATTGCTACGAGAAGGGCTCATCAAAAGTGAAAGTGAAGCTATATAGTGTC
196 TAGAATTGATTTTTATTTGCTATGAGAAGGGTTTATCAAAAGTGAAAGTGAAGCTATATAGTGTC
* * *
1795541 GTAACGTGATTCGGATACGAATCCCGACCAAGCTCGACTTAAAATAGCCCTTGATTATGAAAATA
261 GTAACGTGATCCGGATACGAATCTCGACCAAGCTCAACTTAAAATAGCCCTTGATTATGAAAATA
* *
1795606 ATGAAGTATTGTTATTTTGATGACTCCTATTTTATGGGCTATATTAATATAAATATTTCGTATTT
326 ATGAAGTATTGTTATTTTGATGACTCCTATTTTATGGGCCATATTAATGTAAATATTTCGTATTT
* * *
1795671 TTGGGGACTTGGGTTGTCAAAATGAATC
391 TCGGAGACTTGGGTTGTCAAGATGAATC
1795699 GCT
1 GCT
1795702 TGTTCGACTT
Statistics
Matches: 768, Mismatches: 69, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
416 218 0.28
417 106 0.14
420 328 0.43
421 1 0.00
424 115 0.15
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (418 bp):
GCTCTTATGGGCCTTAGTTGAAATGAAAGATTGGAAAGTCTATCACTTGGATATGAAATCAGCAC
TTGGTTTGGTTGAGGAAGAGATTTTTGTTAAGCAATCAAAGGGGTTTCAAGCTCCAAAAAGTGAA
GAGAAGGTGTACAAGCTTCATAAAGCTTTATATGGACTAAAACAAGCTCCAAGAGCTTGGTATAG
TAGAATTGATTTTTATTTGCTATGAGAAGGGTTTATCAAAAGTGAAAGTGAAGCTATATAGTGTC
GTAACGTGATCCGGATACGAATCTCGACCAAGCTCAACTTAAAATAGCCCTTGATTATGAAAATA
ATGAAGTATTGTTATTTTGATGACTCCTATTTTATGGGCCATATTAATGTAAATATTTCGTATTT
TCGGAGACTTGGGTTGTCAAGATGAATC
Found at i:1799335 original size:79 final size:79
Alignment explanation
Indices: 1799203--1799410 Score: 256
Period size: 79 Copynumber: 2.6 Consensus size: 79
1799193 TCATTGATGT
* * * * * *
1799203 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGA
1 TTTTATTTATAAAACATCAATTTTTCACCATCGGGGATACTCCAACCTTGTTATTTTCGAGGGGA
*
1799268 TACTCCAAACTC-GA
66 TACT-CAAACTCTAA
* * *
1799282 TTTTATTTATAAAACATCAATTTTTTACCATCGGGGATACTCTAACCTTGTTATTTTTGAGGGGA
1 TTTTATTTATAAAACATCAATTTTTCACCATCGGGGATACTCCAACCTTGTTATTTTCGAGGGGA
*
1799347 TACTCTAACTCTAA
66 TACTCAAACTCTAA
* * * **
1799361 TTTTATTTCTAAAACATCGATTTTTCACAATTAGGGATACTCCAACCTTG
1 TTTTATTTATAAAACATCAATTTTTCACCATCGGGGATACTCCAACCTTG
1799411 ATTTTATTTC
Statistics
Matches: 110, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
78 6 0.05
79 104 0.95
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (79 bp):
TTTTATTTATAAAACATCAATTTTTCACCATCGGGGATACTCCAACCTTGTTATTTTCGAGGGGA
TACTCAAACTCTAA
Found at i:1799415 original size:51 final size:51
Alignment explanation
Indices: 1799343--1799458 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 51
1799333 TATTTTTGAG
* *
1799343 GGGATACTCTAA-CTCTAATTTTATTTCTAAAACATCGATTTTTCACAATTA
1 GGGATACTCCAACCTCTAATTTTATTTCCAAAACATCGATTTTTCACAA-TA
* * *
1799394 GGGATACTCCAACCT-TGATTTTATTTCCAAAACATCGATTTTTTACAATC
1 GGGATACTCCAACCTCTAATTTTATTTCCAAAACATCGATTTTTCACAATA
1799444 GAGGATACTCCAACC
1 G-GGATACTCCAACC
1799459 CCGTTATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 2 0.03
51 54 0.93
52 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (51 bp):
GGGATACTCCAACCTCTAATTTTATTTCCAAAACATCGATTTTTCACAATA
Found at i:1799516 original size:130 final size:129
Alignment explanation
Indices: 1799264--1799540 Score: 358
Period size: 130 Copynumber: 2.1 Consensus size: 129
1799254 TATTTTCGAG
* * * * *
1799264 GGGATACTCCAAACTCGATTTTATTTATAAAACATCAATTTTTTACCATCGGGGATACTCTAACC
1 GGGATACTCCAACCTCGATTTTATTTACAAAACATCAATTTTTTACAATCGAGGATACTCCAACC
** * * * *
1799329 TTGTTATTTTTGAGGGGATACTCTAACTCTAATTTTATTTCTAAAACATCGATTTTTCACAATTA
66 CCGTTATTTTTGAGGGGATACTCTAACCCCAATTTTATTTCTAAAACATCAAGTTTTCACAA-TA
* * *
1799394 GGGATACTCCAACCTTGATTTTATTTCCAAAACATCGATTTTTTACAATCGAGGATACTCCAACC
1 GGGATACTCCAACCTCGATTTTATTTACAAAACATCAATTTTTTACAATCGAGGATACTCCAACC
** *
1799459 CCGTTATTTTTGAGGGGATACTGC-AACCCCAATTTTATTTCTAAAATGTCAAGTTTTCACAATC
66 CCGTTATTTTTGAGGGGATACT-CTAACCCCAATTTTATTTCTAAAACATCAAGTTTTCACAATA
*
1799523 GAAGATACTCCAACCTCG
1 G-GGATACTCCAACCTCG
1799541 TTATTTTCGA
Statistics
Matches: 126, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
129 2 0.02
130 123 0.98
131 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (129 bp):
GGGATACTCCAACCTCGATTTTATTTACAAAACATCAATTTTTTACAATCGAGGATACTCCAACC
CCGTTATTTTTGAGGGGATACTCTAACCCCAATTTTATTTCTAAAACATCAAGTTTTCACAATA
Found at i:1799574 original size:79 final size:78
Alignment explanation
Indices: 1799394--1799586 Score: 242
Period size: 79 Copynumber: 2.4 Consensus size: 78
1799384 TTCACAATTA
** * * * * *
1799394 GGGATACTCCAACCTTGATTTTATTTCCAAAACATCGATTTTTTACAATCGAGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTT-CAAAATATCAAGTTTTCACAATCGAAGATACTCCAACC
*
1799459 CCGTTATTTTTGAG
65 CCGTTATTTTCGAG
* * *
1799473 GGGATACTGCAACCCCAATTTTATTTCTAAAATGTCAAGTTTTCACAATCGAAGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTC-AAAATATCAAGTTTTCACAATCGAAGATACTCCAACC
*
1799538 TCGTTATTTTCGAG
65 CCGTTATTTTCGAG
*
1799552 GGGATACTCCAACCCCGTTTTTATCTTCAAAATAT
1 GGGATACTCCAACCCCGATTTTAT-TTCAAAATAT
1799587 TAAATTTTTC
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 92 0.96
80 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.34
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCAAAATATCAAGTTTTCACAATCGAAGATACTCCAACCC
CGTTATTTTCGAG
Found at i:1801245 original size:20 final size:20
Alignment explanation
Indices: 1801172--1801246 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
1801162 TTTTACCTAG
*
1801172 ATGTATTGATACA-TCTTTCA
1 ATGTATCGATACATTC-TTCA
* * * *
1801192 ACGTATCGATATATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
* *
1801212 ATGTATCAACACATTCTTCA
1 ATGTATCGATACATTCTTCA
1801232 ATGTATCGATACATT
1 ATGTATCGATACATT
1801247 TTGTCTTTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 6
0.67 0.22 0.10
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
22 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:1813254 original size:20 final size:20
Alignment explanation
Indices: 1813190--1813264 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
1813180 AAAAAGACAG
*
1813190 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * * **
1813210 AATATATTGATACATTCATC
1 AATGTATCGATACATTGAAA
* *
1813230 CATGTATCAATACATTGAAA
1 AATGTATCGATACATTGAAA
*
1813250 AATGTCTCGATACAT
1 AATGTATCGATACAT
1813265 CTAGGTACTT
Statistics
Matches: 40, Mismatches: 15, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1814216 original size:28 final size:28
Alignment explanation
Indices: 1814111--1814539 Score: 457
Period size: 28 Copynumber: 15.2 Consensus size: 28
1814101 ACAGTGGTGA
* *
1814111 TTTGAAAGGGTGCCACCGACTTATGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * *
1814139 TTTG-AAGGATGCTATTGACTTGTTGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
1814166 TTTGAAAAGAGTGCCACTAACTTGTGAGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGC
*
1814195 TTTGAAAGGGTGCTACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
1814223 TTTGAAAGGATGCCATTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * ** *
1814251 TTTAAAAAGAGTTGCCACCAACTCGTGGGC
1 TTT-GAAAG-GGTGCCACTGACTTGTGGGC
*
1814281 TTTGAAAAGGTGCCACTGAC-TGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
1814308 TTTGAAAAGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
1814336 TTTGAAAAGTGTTACCACTGGCTTGTGGGC
1 TTTG-AAAG-GGTGCCACTGACTTGTGGGC
* * * * *
1814366 TTTAAAAAGGTGCTACTGATTTATGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
*
1814394 TTTGAAAGGGTGCCACTTACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
1814422 TTTGAAAGGGTGCCACTGACATGTGGCC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
1814450 TTTGAAAGGGTGCCACTGACTTTTGGCC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* * *
1814478 TTTAAAAGGGTGCCACTAACTTGTGGGT
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
* *
1814506 TTTGAAAGGGTGCCATTGACTGGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGC
1814534 TTTGAA
1 TTTGAA
1814540 GAGATGAACG
Statistics
Matches: 327, Mismatches: 67, Indels: 14
0.80 0.16 0.03
Matches are distributed among these distances:
27 47 0.14
28 210 0.64
29 33 0.10
30 37 0.11
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (28 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGC
Found at i:1815774 original size:1 final size:1
Alignment explanation
Indices: 1815760--1815833 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
1815750 CCCCTTTCTA
* * * * * * * * *
1815760 TTTTTTGTTATTTTTTTCTTGTTTTTTGTTATTTTTGTTTTTTTTTTGTTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
1815825 ATTTTTTTT
1 TTTTTTTTT
1815834 GGGTATGAAG
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.04, C:0.01, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:1815776 original size:11 final size:10
Alignment explanation
Indices: 1815760--1815833 Score: 71
Period size: 11 Copynumber: 7.2 Consensus size: 10
1815750 CCCCTTTCTA
1815760 TTTTTTGTTAT
1 TTTTTTGTT-T
* *
1815771 TTTTTTCTTG
1 TTTTTTGTTT
1815781 TTTTTTG-TT
1 TTTTTTGTTT
*
1815790 ATTTTTGTTTT
1 TTTTTTG-TTT
1815801 TTTTTTGTTTT
1 TTTTTTG-TTT
1815812 TTTTTTGTTT
1 TTTTTTGTTT
1815822 TTTATTT-TTT
1 TTT-TTTGTTT
1815832 TT
1 TT
1815834 GGGTATGAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
9 7 0.13
10 17 0.31
11 30 0.56
ACGTcount: A:0.04, C:0.01, G:0.08, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:1815786 original size:21 final size:19
Alignment explanation
Indices: 1815760--1815833 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 19
1815750 CCCCTTTCTA
1815760 TTTTTTGTTATTTTTTTCTTG
1 TTTTTTGTT-TTTTTTT-TTG
1815781 TTTTTTGTTATTTTTGTTTT-
1 TTTTTTGTT-TTTTT-TTTTG
1815801 TTTTTTG-TTTTTTTTTTG
1 TTTTTTGTTTTTTTTTTTG
*
1815819 TTTTTTATTTTTTTT
1 TTTTTTGTTTTTTTT
1815834 GGGTATGAAG
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
17 4 0.08
18 11 0.22
19 8 0.16
20 7 0.14
21 17 0.35
22 2 0.04
ACGTcount: A:0.04, C:0.01, G:0.08, T:0.86
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTTTG
Found at i:1815803 original size:17 final size:17
Alignment explanation
Indices: 1815781--1815830 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
1815771 TTTTTTCTTG
*
1815781 TTTTTTGTTATTTTTGT
1 TTTTTTTTTATTTTTGT
* *
1815798 TTTTTTTTTGTTTTTTT
1 TTTTTTTTTATTTTTGT
1815815 TTTGTTTTTTATTTTT
1 TTT-TTTTTTATTTTT
1815831 TTTGGGTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 17 0.61
18 11 0.39
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTATTTTTGT
Found at i:1815803 original size:38 final size:38
Alignment explanation
Indices: 1815760--1815834 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
1815750 CCCCTTTCTA
*
1815760 TTTTTTGTTATTTTTTTCTTGTTTTTTGTTATTTTTGT
1 TTTTTTGTTATTTTTTTCTTGTTTTTTATTATTTTTGT
* * * *
1815798 TTTTTTTTTGTTTTTTTTTTGTTTTTTATTTTTTTTG
1 TTTTTTGTTATTTTTTTCTTGTTTTTTATTATTTTTG
1815835 GGTATGAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.04, C:0.01, G:0.09, T:0.85
Consensus pattern (38 bp):
TTTTTTGTTATTTTTTTCTTGTTTTTTATTATTTTTGT
Found at i:1815808 original size:27 final size:26
Alignment explanation
Indices: 1815760--1815834 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
1815750 CCCCTTTCTA
* *
1815760 TTTTTTG-TTATTTTTTTCTTGTTTT
1 TTTTTTGTTTGTTTTTTTTTTGTTTT
1815785 TTGTTATT-TTTGTTTTTTTTTTGTTTT
1 TT-TT-TTGTTTGTTTTTTTTTTGTTTT
*
1815812 TTTTTTGTTTTTTATTTTTTTTG
1 TTTTTTGTTTGTT-TTTTTTTTG
1815835 GGTATGAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
25 4 0.10
26 9 0.21
27 29 0.69
ACGTcount: A:0.04, C:0.01, G:0.09, T:0.85
Consensus pattern (26 bp):
TTTTTTGTTTGTTTTTTTTTTGTTTT
Found at i:1826426 original size:20 final size:20
Alignment explanation
Indices: 1826401--1826477 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1826391 GTAAAAAGAC
1826401 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
1826421 AGAATGTATCAATACATTCA
1 AGAATGTATCGATACATTGA
*
1826441 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1826461 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1826478 CTGGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 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:0.13, G:0.14, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1830080 original size:14 final size:15
Alignment explanation
Indices: 1830061--1830099 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
1830051 AATTATTAAA
*
1830061 AATTTTTATATG-AT
1 AATTTTAATATGAAT
1830075 AATTTTAAT-TGAAT
1 AATTTTAATATGAAT
1830089 AATTTTAATAT
1 AATTTTAATAT
1830100 TGGCTTAGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 19 0.86
15 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
AATTTTAATATGAAT
Found at i:1831223 original size:15 final size:15
Alignment explanation
Indices: 1831183--1831223 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
1831173 TAATTTATGC
1831183 TTTT-TCTTTTTATT
1 TTTTCTCTTTTTATT
*
1831197 TTTCCT-TATTTTATT
1 TTTTCTCT-TTTTATT
1831212 TTTTCTCTTTTT
1 TTTTCTCTTTTT
1831224 TCTTTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTCTTTTTATT
Found at i:1831224 original size:16 final size:16
Alignment explanation
Indices: 1831189--1831243 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
1831179 ATGCTTTTTC
1831189 TTTTTA-TTTTTC-CT
1 TTTTTATTTTTTCTCT
1831203 TATTTTATTTTTTCTCT
1 T-TTTTATTTTTTCTCT
*
1831220 TTTTTCTTTCTTTTCTCT
1 TTTTT-ATT-TTTTCTCT
1831238 CTTTTT
1 -TTTTT
1831244 TGTTGAGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 1 0.03
15 5 0.15
16 10 0.29
17 5 0.15
18 8 0.24
19 5 0.15
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATTTTTTCTCT
Found at i:1831551 original size:4 final size:4
Alignment explanation
Indices: 1831542--1831580 Score: 69
Period size: 4 Copynumber: 9.5 Consensus size: 4
1831532 CGAATGTAAG
1831542 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT
1831581 TTAAAATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:1832032 original size:13 final size:13
Alignment explanation
Indices: 1832014--1832070 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1832004 CATAAAGTGT
1832014 TGTATCGATACAA
1 TGTATCGATACAA
1832027 TGTATCGATACATAA
1 TGTATCGATAC--AA
1832042 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1832059 TGTATCGATACA
1 TGTATCGATACA
1832071 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1832049 original size:32 final size:32
Alignment explanation
Indices: 1831994--1832094 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1831984 TTCAAAGATT
1831994 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1832027 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1832059 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1832091 TGTA
1 TGTA
1832095 AGCTACTGCC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 54 0.81
33 13 0.19
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1832051 original size:19 final size:18
Alignment explanation
Indices: 1831992--1832089 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1831982 ATTTCAAAGA
1831992 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
1832011 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1832027 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1832043 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1832059 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1832075 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1832090 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1832150 original size:13 final size:13
Alignment explanation
Indices: 1832132--1832156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1832122 ATTACTCAAA
1832132 TGTATCGATACAT
1 TGTATCGATACAT
1832145 TGTATCGATACA
1 TGTATCGATACA
1832157 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1832209 original size:52 final size:52
Alignment explanation
Indices: 1832165--1832293 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1832155 CACTGATCTT
* *
1832165 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1832217 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1832269 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1832294 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1836763 original size:34 final size:35
Alignment explanation
Indices: 1836725--1836791 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1836715 CCTTACAACA
1836725 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1836759 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1836792 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1837267 original size:13 final size:13
Alignment explanation
Indices: 1837249--1837274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1837239 CAATTTTTTG
1837249 TGTATCGATACAT
1 TGTATCGATACAT
1837262 TGTATCGATACAT
1 TGTATCGATACAT
1837275 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:1837339 original size:21 final size:21
Alignment explanation
Indices: 1837313--1837388 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1837303 CTGCCAAGAA
1837313 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1837334 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1837354 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1837375 ATGTATCGATACAT
1 ATGTATCGATACAT
1837389 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1837358 original size:20 final size:20
Alignment explanation
Indices: 1837333--1837406 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1837323 ACATCTTTTT
1837333 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1837353 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1837374 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1837394 CATGTATCGATAC
1 CATGTATCGATAC
1837407 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1837370 original size:41 final size:41
Alignment explanation
Indices: 1837313--1837406 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1837303 CTGCCAAGAA
1837313 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1837354 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1837395 ATGTATCGATAC
1 ATGTATCGATAC
1837407 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1838064 original size:21 final size:21
Alignment explanation
Indices: 1838023--1838066 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1838013 CTCCCCTTTA
* *
1838023 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1838044 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1838065 TC
1 TC
1838067 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:1839229 original size:13 final size:13
Alignment explanation
Indices: 1839211--1839235 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1839201 ACTGAAGCAA
1839211 TGTATCGATACAT
1 TGTATCGATACAT
1839224 TGTATCGATACA
1 TGTATCGATACA
1839236 ATCTGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1839848 original size:23 final size:24
Alignment explanation
Indices: 1839803--1839849 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1839793 CAAAGAATTG
*
1839803 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1839827 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1839850 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1842433 original size:34 final size:35
Alignment explanation
Indices: 1842395--1842461 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1842385 CCTTACAACA
1842395 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1842429 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1842462 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1842937 original size:13 final size:13
Alignment explanation
Indices: 1842919--1842944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1842909 CAATTTTTTG
1842919 TGTATCGATACAT
1 TGTATCGATACAT
1842932 TGTATCGATACAT
1 TGTATCGATACAT
1842945 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:1843009 original size:21 final size:21
Alignment explanation
Indices: 1842983--1843058 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1842973 CTGCCAAGAA
1842983 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1843004 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1843024 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1843045 ATGTATCGATACAT
1 ATGTATCGATACAT
1843059 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1843028 original size:20 final size:20
Alignment explanation
Indices: 1843003--1843076 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1842993 ACATCTTTTT
1843003 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1843023 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1843044 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1843064 CATGTATCGATAC
1 CATGTATCGATAC
1843077 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1843040 original size:41 final size:41
Alignment explanation
Indices: 1842983--1843076 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1842973 CTGCCAAGAA
1842983 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1843024 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1843065 ATGTATCGATAC
1 ATGTATCGATAC
1843077 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1843734 original size:21 final size:21
Alignment explanation
Indices: 1843693--1843736 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1843683 CTCCCCTTTA
* *
1843693 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1843714 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1843735 TC
1 TC
1843737 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:1844899 original size:13 final size:13
Alignment explanation
Indices: 1844881--1844905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1844871 ACTGAAGCAA
1844881 TGTATCGATACAT
1 TGTATCGATACAT
1844894 TGTATCGATACA
1 TGTATCGATACA
1844906 ATCTGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1845518 original size:23 final size:24
Alignment explanation
Indices: 1845473--1845519 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1845463 CAAAGAATTG
*
1845473 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
1845497 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
1845520 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:1848102 original size:34 final size:35
Alignment explanation
Indices: 1848064--1848130 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1848054 CCTTACAACA
1848064 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1848098 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1848131 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1848606 original size:13 final size:13
Alignment explanation
Indices: 1848588--1848613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1848578 CAATTTTTTG
1848588 TGTATCGATACAT
1 TGTATCGATACAT
1848601 TGTATCGATACAT
1 TGTATCGATACAT
1848614 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:1848678 original size:21 final size:21
Alignment explanation
Indices: 1848652--1848727 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1848642 CTGCCAAGAA
1848652 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1848673 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1848693 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1848714 ATGTATCGATACAT
1 ATGTATCGATACAT
1848728 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1848697 original size:20 final size:20
Alignment explanation
Indices: 1848672--1848745 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1848662 ACATCTTTTT
1848672 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1848692 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1848713 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1848733 CATGTATCGATAC
1 CATGTATCGATAC
1848746 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1848709 original size:41 final size:41
Alignment explanation
Indices: 1848652--1848745 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1848642 CTGCCAAGAA
1848652 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1848693 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1848734 ATGTATCGATAC
1 ATGTATCGATAC
1848746 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1851441 original size:18 final size:16
Alignment explanation
Indices: 1851404--1851435 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1851394 GTCAAAAGTA
1851404 AACACACAAAAAAAAC
1 AACACACAAAAAAAAC
1851420 AACACACAAAAAAAAC
1 AACACACAAAAAAAAC
1851436 TGAACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.75, C:0.25, G:0.00, T:0.00
Consensus pattern (16 bp):
AACACACAAAAAAAAC
Found at i:1851712 original size:8 final size:7
Alignment explanation
Indices: 1851693--1851741 Score: 55
Period size: 7 Copynumber: 6.6 Consensus size: 7
1851683 TTCCAAACAC
1851693 AAAAAAG
1 AAAAAAG
1851700 AAAAAAG
1 AAAAAAG
1851707 AGAAAAAG
1 A-AAAAAG
1851715 AAAAAAAG
1 -AAAAAAG
1851723 AAAAAA-
1 AAAAAAG
1851729 ACAAAACAG
1 A-AAAA-AG
1851738 AAAA
1 AAAA
1851742 TCTCGGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
6 1 0.03
7 18 0.49
8 16 0.43
9 2 0.05
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1851714 original size:15 final size:14
Alignment explanation
Indices: 1851694--1851741 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 14
1851684 TCCAAACACA
1851694 AAAAAGAAAAAAGAG
1 AAAAAGAAAAAA-AG
1851709 AAAAAGAAAAAAAG
1 AAAAAGAAAAAAAG
1851723 AAAAA-AACAAAACAG
1 AAAAAGAA-AAAA-AG
1851738 AAAA
1 AAAA
1851742 TCTCGGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.06
14 11 0.35
15 18 0.58
ACGTcount: A:0.83, C:0.04, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:1851719 original size:16 final size:16
Alignment explanation
Indices: 1851693--1851734 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
1851683 TTCCAAACAC
1851693 AAAAAAG-AAAAAAGA
1 AAAAAAGAAAAAAAGA
*
1851708 GAAAAAGAAAAAAAGA
1 AAAAAAGAAAAAAAGA
*
1851724 AAAAAACAAAA
1 AAAAAAGAAAA
1851735 CAGAAAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAGA
Found at i:1851739 original size:23 final size:23
Alignment explanation
Indices: 1851693--1851741 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
1851683 TTCCAAACAC
*
1851693 AAAAAAGAAAAAAGAGAAAAAGA
1 AAAAAAGAAAAAAGACAAAAAGA
1851716 AAAAAAGAAAAAA-ACAAAACAGA
1 AAAAAAGAAAAAAGACAAAA-AGA
1851739 AAA
1 AAA
1851742 TCTCGGTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAAAAAGACAAAAAGA
Found at i:1852998 original size:131 final size:130
Alignment explanation
Indices: 1852764--1853330 Score: 772
Period size: 131 Copynumber: 4.3 Consensus size: 130
1852754 ATACCTTCTT
* * *
1852764 AAAGCCCACAACTCCGTGGCACCTTTTT--CTTTTCAAAGCCCACCACTCCGTGGCACCTT-TTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT-AAAGTCCACAACCCCGTGGCACCTTGTTC
* *
1852826 TTTTTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCT
65 CTTTTAAGTCCACGACTCCGTGGCACC---TTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCT
1852891 TTTC
127 TTTC
*
1852895 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTC
*
1852960 CTTTTAAGTCCACAACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTT
65 CTTTTAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTT
1853025 C
130 C
*
1853026 AAAGCCCACAACTCCGTGGCA-C-TTTTCCCTTTTAAAGTCCACAACCCCGTAGCACCTTGTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCC
* * * * *
1853089 TTTTAAGACCACGACTCCATGGCACCTTCCTTTCAAAGTTCGCGACTCCGTGGCACCTTCTTTTC
66 TTTTAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTC
* * *
1853154 AAAGCCCACAACTCCATGACACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTC
* * * *
1853219 CTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCATAACTCTGTGGCACTCTTTTTC
65 CTTTTAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCAC-C---TT-
1853284 CCTTTTC
125 -CTTTTC
* *
1853291 -AAGCCCACAACTCCATGGCACCTTGTT-CCTTTT-AAGTCCA
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGTCCA
1853331 TAACTTCGTG
Statistics
Matches: 393, Mismatches: 30, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
128 117 0.30
129 1 0.00
130 1 0.00
131 168 0.43
132 7 0.02
133 29 0.07
134 37 0.09
135 7 0.02
136 20 0.05
137 6 0.02
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (130 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCC
TTTTAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTC
Found at i:1853215 original size:259 final size:262
Alignment explanation
Indices: 1852764--1853330 Score: 806
Period size: 259 Copynumber: 2.2 Consensus size: 262
1852754 ATACCTTCTT
* * * * * *
1852764 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTCTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTCCTTTT-AAAGTCCACAACCCCGTAGCACCTTTTCCTT
* *
1852829 TTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTT
65 TTAAGACCACGACCCCATGGCACC-T-TTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTT
* *
1852894 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTT
128 CAAAGCCCACAACTCCATGACACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTT
* *
1852959 TCTTTTAAGTCCACAACTCCGTGGCACCTTCCTTTCAAAGTCCACAACTCCGTGGCAC-C-TT-C
193 CCTTTTAAGTCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTCC
1853021 TTTTC
258 TTTTC
1853026 AAAGCCCACAACTCCGTGGCA-CTTTTCCCTTTTAAAGTCCACAACCCCGTAGCACCTTGTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTT-CCTTTTAAAGTCCACAACCCCGTAGCACCTT-TTCCT
* * * *
1853090 TTTAAGACCACGACTCCATGGCACC-TTCCTTTCAAAGTTCGCGACTCCGTGGCACCTTCTTTTC
64 TTTAAGACCACGACCCCATGGCACCTTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTC
*
1853154 AAAGCCCACAACTCCATGACACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTTGTTC
129 AAAGCCCACAACTCCATGACACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTC
* * * *
1853219 CTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCATAACTCTGTGGCACTCTTTTTC
194 CTTTTAAGTCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTC--TTT-
1853284 CCTTTTC
256 CCTTTTC
*
1853291 -AAGCCCACAACTCCATGGCACCTTGTTCCTTTT-AAGTCCA
1 AAAGCCCACAACTCCGTGGCACCTT-TTCCTTTTAAAGTCCA
1853331 TAACTTCGTG
Statistics
Matches: 273, Mismatches: 22, Indels: 18
0.87 0.07 0.06
Matches are distributed among these distances:
259 149 0.55
260 1 0.00
261 26 0.10
262 52 0.19
263 2 0.01
264 26 0.10
265 15 0.05
266 2 0.01
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (262 bp):
AAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAAGTCCACAACCCCGTAGCACCTTTTCCTTT
TAAGACCACGACCCCATGGCACCTTTCCTTTCAAAGTCCACAACTCCGTGGCACCTTCTTTTCAA
AGCCCACAACTCCATGACACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCT
TTTAAGTCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTCCTTT
TC
Found at i:1853341 original size:100 final size:98
Alignment explanation
Indices: 1852764--1853343 Score: 532
Period size: 100 Copynumber: 5.9 Consensus size: 98
1852754 ATACCTTCTT
* *
1852764 AAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTCAAAGCCCACCACTCCGTGGCACCTTTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * *
1852828 TTTAAGTCCACGACCCCGTGGCACCTTGTTCCTTTC
66 TTTAAGTCCACAACTCCGTGGCACC---TTCTTTTC
*
1852864 AAAGTCCACAACTCCGTGGCACC---TT-CTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCAC-C-TTTT-
* * *
1852925 CCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTTCTTT
63 CCTTTT-AAGTCCACAACTCCGTGGCACCTT-CTT-TTC
* * *
1852964 TAAGTCCACAACTCCGTGGCACC---TTCC-TTTCAAAGTCCACAACTCCGTGGCACC--TT-CT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCT
* *
1853022 TTTCAAAGCCCACAACTCCGTGGCACTTTTCCCTTTT-
66 TTT--AAGTCCACAACTCCGTGGCAC-CTT--CTTTTC
* * * * * * *
1853059 AAAGTCCACAACCCCGTAGCACCTTGTTCCTTTT--AAGACCACGACTCCATGGCACC--TTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCT
* * * *
1853120 TTCAAAGTTCGCGACTCCGTGGCACCTTCTTTTC
66 TT-TAAGTCCACAACTCCGTGGCACCTTCTTTTC
* * *
1853154 AAAGCCCACAACTCCATGACACTCTTTTTCCCTTTT-AAAGTCCACAACTCCGTGGCACCTTGTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTT-TT
*
1853218 CCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTTC
63 CCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTC
* * *
1853254 AAAGCCCATAACTCTGTGGCACTCTTTTTCCCTTTTC-AAGCCCACAACTCCATGGCACCTTGTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTTCAAAGCCCACAACTCCGTGGCACCTT-TT
* *
1853318 CCTTTTAAGTCCATAACTTCGTGGCA
63 CCTTTTAAGTCCACAACTCCGTGGCA
1853344 TCTTTCACCC
Statistics
Matches: 409, Mismatches: 47, Indels: 48
0.81 0.09 0.10
Matches are distributed among these distances:
94 10 0.02
95 57 0.14
96 13 0.03
97 75 0.18
98 30 0.07
99 9 0.02
100 186 0.45
101 29 0.07
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (98 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTCCT
TTTAAGTCCACAACTCCGTGGCACCTTCTTTTC
Found at i:1853429 original size:32 final size:31
Alignment explanation
Indices: 1853350--1853558 Score: 294
Period size: 32 Copynumber: 6.5 Consensus size: 31
1853340 GGCATCTTTC
*
1853350 ACCCTTCTTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTC-TAAAGCCCACACAAGTCGGTGGCA
* *
1853382 ACCTTTTTCTAAAGCCCACACAAGTTGGTGGCA
1 ACC--CTTCTAAAGCCCACACAAGTCGGTGGCA
1853415 ATCCCTTCTAAAGCCCACACAAGTCGGTGGCA
1 A-CCCTTCTAAAGCCCACACAAGTCGGTGGCA
1853447 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCT-AAAGCCCACACAAGTCGGTGGCA
*
1853479 ACCCTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCT-TCTAAAGCCCACACAAGTCGGTGGCA
*
1853511 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACC-CT-TCTAAAGCCCACACAAGTCGGTGGCA
1853544 ACCCTTCT-AAGCCCA
1 ACCCTTCTAAAGCCCA
1853559 ATATCACTGG
Statistics
Matches: 164, Mismatches: 7, Indels: 14
0.89 0.04 0.08
Matches are distributed among these distances:
30 7 0.04
31 10 0.06
32 84 0.51
33 58 0.35
34 5 0.03
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (31 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1853460 original size:97 final size:96
Alignment explanation
Indices: 1853350--1853558 Score: 325
Period size: 97 Copynumber: 2.2 Consensus size: 96
1853340 GGCATCTTTC
* * *
1853350 ACCCTTCTTAAAGCCCACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTC-TAAAGCCCACACAAGTCGGTGGCAACC-CTCTCTAAAGCCCACACAAGTTGGTGGCA
1853415 ATCC-CT-TCTAAAGCCCACACAAGTCGGTGGCA
64 A-CCACTCTCTAAAGCCCACACAAGTCGGTGGCA
1853447 ACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 ACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAA
*
1853512 CCATTCTCTAAAGCCCACACAAGTCGGTGGCA
65 CCACTCTCTAAAGCCCACACAAGTCGGTGGCA
1853544 ACCCTTCT-AAGCCCA
1 ACCCTTCTAAAGCCCA
1853559 ATATCACTGG
Statistics
Matches: 105, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
95 9 0.09
96 30 0.29
97 66 0.63
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (96 bp):
ACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAC
CACTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1853642 original size:21 final size:20
Alignment explanation
Indices: 1853618--1853685 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1853608 ATGTAGCTGG
1853618 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
1853639 CCTTTAAGTC--CAATATCGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
1853660 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
1853682 CCTT
1 CCTT
1853686 CATCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:1853664 original size:43 final size:43
Alignment explanation
Indices: 1853546--1854241 Score: 656
Period size: 43 Copynumber: 15.1 Consensus size: 43
1853536 CGGTGGCAAC
*
1853546 CCTTCTAAGCCCAATATCA-CTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCA
* *
1853590 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1853639 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1853682 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1853731 CCTTTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGACA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1853774 CCTTCATCTTTACGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
*
1853823 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1853866 CCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1853915 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* *
1853958 CCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1854007 CCTTTAAGTCCAATATCGTTGGCCTTCAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1854050 CCTTTATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACATTGGCA
1 -C-----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1854099 CCTTTAAGTCTAATATCGCTGACCTTGAATCAGCATATTGGCGCCTTTGTCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT---G-----G-CA
* *
1854151 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
* * *
1854194 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATAGGCG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1854237 CCTTT
1 CCTTT
1854242 GTCATCTTTT
Statistics
Matches: 544, Mismatches: 62, Indels: 92
0.78 0.09 0.13
Matches are distributed among these distances:
43 265 0.49
44 3 0.01
45 4 0.01
46 1 0.00
47 3 0.01
48 4 0.01
49 224 0.41
50 3 0.01
51 1 0.00
52 36 0.07
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
Found at i:1853713 original size:92 final size:92
Alignment explanation
Indices: 1853546--1854289 Score: 1193
Period size: 92 Copynumber: 8.0 Consensus size: 92
1853536 CGGTGGCAAC
* * *
1853546 CCTTCTAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1853611 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
1853639 CCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1853704 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1853731 CCTTTAAGTCCAATATCGCTGGCCTCGAATCAGCATATTGACACCTTCATCTTTACGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1853796 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* *
1853823 CCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1853888 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
1853915 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1853980 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1854007 CCTTTAAGTCCAATATCGTTGGCCTTCAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
1854072 AGTTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * *
1854099 CCTTTAAGTCTAATATCGCTGACCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
*
1854164 TGTAGCTGGCCTTGAATCAGCATATTGGCA
63 TGTAGCTGGCCTTGAATCAGCACATTGGCA
* * *
1854194 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATAGGCGCCTTTGTCATCTTTTAA-ACCT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC-TTTAAGTCC-
* *
1854258 AATGTTGTTGGCCTTGAATCAGCACATTGGCA
61 AATGTAGCTGGCCTTGAATCAGCACATTGGCA
1854290 TTCTTCTTTA
Statistics
Matches: 610, Mismatches: 36, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
92 475 0.78
93 4 0.01
94 1 0.00
95 96 0.16
96 34 0.06
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:1854179 original size:52 final size:52
Alignment explanation
Indices: 1854100--1854288 Score: 191
Period size: 52 Copynumber: 3.8 Consensus size: 52
1854090 ACATTGGCAC
* *
1854100 CTTTAAGTCTAATATCGCTGACCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * *
1854152 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATT---G-----G-CAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
*
1854195 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATAGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * * *
1854247 CTTTTAA-ACCTAATGTTGTTGGCCTTGAATCAGCACATTGGC
1 C-TTTAAGTCC-AATATCGCTGGCCTTGAATCAGCATATTGGC
1854289 ATTCTTCTTT
Statistics
Matches: 111, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
43 37 0.33
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 39 0.35
53 31 0.28
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:1855057 original size:13 final size:13
Alignment explanation
Indices: 1855039--1855063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1855029 TTCAATGATT
1855039 TGTATCGATACAA
1 TGTATCGATACAA
1855052 TGTATCGATACA
1 TGTATCGATACA
1855064 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1855076 original size:19 final size:19
Alignment explanation
Indices: 1855052--1855101 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1855042 ATCGATACAA
1855052 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1855071 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1855090 TGTATCGATACA
1 TGTATCGATACA
1855102 ATGTAAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1855162 original size:13 final size:13
Alignment explanation
Indices: 1855144--1855168 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1855134 ATTACTCAAA
1855144 TGTATCGATACAT
1 TGTATCGATACAT
1855157 TGTATCGATACA
1 TGTATCGATACA
1855169 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1860615 original size:165 final size:166
Alignment explanation
Indices: 1860117--1860705 Score: 690
Period size: 165 Copynumber: 3.6 Consensus size: 166
1860107 TCGAACACAA
* * * * * *
1860117 GAAAATTTCAAAGAAAAAATTTAAAACTCATTAAAATAAGTGAATTTTTAAAAACTAATTTAATT
1 GAAAATTTCAAAGAAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATA
* * * * *
1860182 TAAATTAAATAATAATATTTGATGAAATTTCAAAATTAAAAACCAAGAAAAATCCCTCCG-AAAC
66 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCTGAAAAC
**
1860246 ATTTACGGAACAGAAAAC-TCTGTATTTAGGAAATAG
131 ATTTACGGAGTAGAAAACTTC-GTATTTAGGAAATAG
* * * * *
1860282 AAAAATTTCAAAGAAAAAA-TCAAAACTCATGAAAATAAATAAATTTTTGTAAACTGATTTAATG
1 GAAAATTTCAAAGAAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATA
* *
1860346 TGAATT-AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCTGAAAAT
66 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCTGAAAAC
* * *
1860410 ATTTACGGAGTAGAAAACTCCATATTTCGGAAATAG
131 ATTTACGGAGTAGAAAACTTCGTATTTAGGAAATAG
* * * *
1860446 GAAAATTTCAAGGAAAAAATGAAAAACTCATGAAAATGAATGTATTTTTGAAAACTGATTTAATA
1 GAAAATTTCAAAGAAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATA
** * * *
1860511 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAACTTTCTTTGAAAAC
66 TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCTGAAAAC
* *
1860576 ATTTACGGAGTAGAAAACTTCGTATTTTGTAAA-AG
131 ATTTACGGAGTAGAAAACTTCGTATTTAGGAAATAG
* * * * * * * * *
1860611 GAAAAATTCCAATAGAAAATTAATAGCTCAT-AAAATAAAAGAAATTTTTTAAAATTGATTTAAT
1 GAAAATTTCAAAGAAAAAATTAAAAACTCATGAAAATAAATG-AATTTTTGAAAACTGATTTAAT
*
1860675 GATG-ATTAAATGATAATATTTAGA-GAATTTT
65 -ATGAATTAAATAATAATATTT-GATGAATTTT
1860706 TATGTTCAAA
Statistics
Matches: 362, Mismatches: 55, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
163 48 0.13
164 99 0.27
165 130 0.36
166 85 0.23
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (166 bp):
GAAAATTTCAAAGAAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATA
TGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCTGAAAAC
ATTTACGGAGTAGAAAACTTCGTATTTAGGAAATAG
Found at i:1860648 original size:329 final size:330
Alignment explanation
Indices: 1860001--1860705 Score: 781
Period size: 329 Copynumber: 2.1 Consensus size: 330
1859991 TGAATTTCTC
* * * * * ***
1860001 AAAACTAATTTAATGA-GAGTTTAATAACAATATTATATA-AATTTTAAAAAATT-TAAATTGAG
1 AAAACTGATTTAATGATGA-TTAAATAATAATATT-TAGAGAATTTT-AAAAATTAAAAACCAAG
* ** *
1860063 AAAAATCTCCCAAAAAATATTTATGGAATAGAAAACTTGATTTTTCGAACACAAGAAAATTTCAA
63 AAAAATCTCCCAAAAAATATTTACGGAATAGAAAACTCCATATTTCGAACACAAGAAAATTTCAA
** * *
1860128 AGAAAAAATTTAAAACTCATTAAAATAAGTGAATTTTTAAAAACTAATTTAATTTAAATTAAATA
128 AGAAAAAATGAAAAACTCATGAAAATAAGTGAATTTTTAAAAACTAATTTAATATAAATTAAATA
*
1860193 ATAATATTTGATGAAATTTCAAAATTAAAAACCAAGAAAAATCCCTCCGAAACATTTACGGAACA
193 ATAATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCCCTCCGAAACATTTACGGAACA
* *
1860258 GAAAACTCTGTATTTAGGAAATAGAAAAATTTCAAAGAAAAAATCAAAACTCATGAAAAT-AAAT
258 GAAAACTCTGTATTTAGGAAATAGAAAAATTCCAAAG-AAAAATCAAAACTCATGAAAATAAAAG
1860322 AAATTTTTGT
322 AAATTTTT-T
1860332 -AAACTGATTTAATG-TGAATT-AATAATAATATTT-GATGAATTTTAAAAATTAAAAACCAAGA
1 AAAACTGATTTAATGATG-ATTAAATAATAATATTTAGA-GAATTTTAAAAATTAAAAACCAAGA
** * * *
1860393 AAAATCTCCCTGAAAATATTTACGGAGTAGAAAACTCCATATTTCGGAA-ATAGGAAAATTTCAA
64 AAAATCTCCCAAAAAATATTTACGGAATAGAAAACTCCATATTTC-GAACACAAGAAAATTTCAA
* * * * *
1860457 GGAAAAAATGAAAAACTCATGAAAATGAA-TGTATTTTTGAAAACTGATTTAATATGAATTAAAT
128 AGAAAAAATGAAAAACTCATGAAAAT-AAGTGAATTTTTAAAAACTAATTTAATATAAATTAAAT
* ** * ** ** *
1860521 AATAATATTTGATGAATTTTAAAAATTTTAAACCAAGAAAACTTTCTTTGAAAACATTTACGGAG
192 AATAATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCCCTCCG-AAACATTTACGGAA
* * * * *
1860586 TAGAAAACT-TCGTATTTTGTAAA-AGGAAAAATTCCAATAG-AAAATTAATAGCTCAT-AAAAT
256 CAGAAAACTCT-GTATTTAGGAAATA-GAAAAATTCCAA-AGAAAAATCAA-AACTCATGAAAAT
1860647 AAAAGAAATTTTTT
317 AAAAGAAATTTTTT
* *
1860661 AAAATTGATTTAATGATGATTAAATGATAATATTTAGAGAATTTT
1 AAAACTGATTTAATGATGATTAAATAATAATATTTAGAGAATTTT
1860706 TATGTTCAAA
Statistics
Matches: 313, Mismatches: 44, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
327 1 0.00
328 8 0.03
329 182 0.58
330 96 0.31
331 24 0.08
332 2 0.01
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (330 bp):
AAAACTGATTTAATGATGATTAAATAATAATATTTAGAGAATTTTAAAAATTAAAAACCAAGAAA
AATCTCCCAAAAAATATTTACGGAATAGAAAACTCCATATTTCGAACACAAGAAAATTTCAAAGA
AAAAATGAAAAACTCATGAAAATAAGTGAATTTTTAAAAACTAATTTAATATAAATTAAATAATA
ATATTTGATGAAATTTAAAAATTAAAAACCAAGAAAAATCCCTCCGAAACATTTACGGAACAGAA
AACTCTGTATTTAGGAAATAGAAAAATTCCAAAGAAAAATCAAAACTCATGAAAATAAAAGAAAT
TTTTT
Found at i:1865094 original size:20 final size:20
Alignment explanation
Indices: 1865052--1865105 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1865042 CCACATGTCT
* *
1865052 TGTATCAATACATTCAGGCA
1 TGTATCAATATATTCACGCA
**
1865072 TGTATCAATATATTCACTTA
1 TGTATCAATATATTCACGCA
*
1865092 TGTATCGATATATT
1 TGTATCAATATATT
1865106 ACCTCATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (20 bp):
TGTATCAATATATTCACGCA
Found at i:1866304 original size:48 final size:48
Alignment explanation
Indices: 1866233--1866330 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
1866223 TGTAAAACAG
*
1866233 CTATTGATTTTACTCTTTAATTTTCTTTCAAATGCCAACAAGATGCAA
1 CTATTGATTTCACTCTTTAATTTTCTTTCAAATGCCAACAAGATGCAA
1866281 CTATTGATTTCACTCTTTAATTTTCTTTCAAATGCCAACAAGATGCAA
1 CTATTGATTTCACTCTTTAATTTTCTTTCAAATGCCAACAAGATGCAA
1866329 CT
1 CT
1866331 CAATTAAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (48 bp):
CTATTGATTTCACTCTTTAATTTTCTTTCAAATGCCAACAAGATGCAA
Found at i:1868992 original size:46 final size:41
Alignment explanation
Indices: 1868906--1869022 Score: 114
Period size: 46 Copynumber: 2.8 Consensus size: 41
1868896 CTAACCAATT
* *
1868906 AAATTTTATATCTAAGTAAATTAAATTACTTTGGAGATAAATAAA
1 AAATTTTATCTCTAA-TAAATTAAATTA-ATT--AGATAAATAAA
*
1868951 ATAATTTTATCTCTAATCAAATTAAATTAATTA-AAAAATAAA
1 A-AATTTTATCTCTAAT-AAATTAAATTAATTAGATAAATAAA
*
1868993 AAA--TTATCTTTAAATAAATTAAATTAATTA
1 AAATTTTATCTCT-AATAAATTAAATTAATTA
1869023 AAAGATAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
39 22 0.34
40 3 0.05
41 2 0.03
42 9 0.14
43 1 0.02
45 4 0.06
46 24 0.37
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (41 bp):
AAATTTTATCTCTAATAAATTAAATTAATTAGATAAATAAA
Found at i:1870474 original size:28 final size:29
Alignment explanation
Indices: 1870419--1870484 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
1870409 TTAGTAAAGT
*
1870419 ATTAAA-TTATTAATTTTAATAATAAAAA
1 ATTAAATTTAATAATTTTAATAATAAAAA
1870447 ATTAAATTTAATAATTTTAA-ATATAAAAA
1 ATTAAATTTAATAATTTTAATA-ATAAAAA
*
1870476 AGTAAATTT
1 ATTAAATTT
1870485 TTTAGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 7 0.21
29 27 0.79
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
ATTAAATTTAATAATTTTAATAATAAAAA
Found at i:1871150 original size:2 final size:2
Alignment explanation
Indices: 1871143--1871172 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1871133 ACATTATACC
1871143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1871173 TAAAGAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1871384 original size:17 final size:17
Alignment explanation
Indices: 1871362--1871404 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1871352 ATATATATTA
*
1871362 AAAAAATATTTATTT-TT
1 AAAAAATA-TTATTTCAT
1871379 AAAAAACTATTATTTCAT
1 AAAAAA-TATTATTTCAT
1871397 AAAAAATA
1 AAAAAATA
1871405 ACACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAAAATATTATTTCAT
Found at i:1871399 original size:18 final size:18
Alignment explanation
Indices: 1871360--1871402 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1871350 TAATATATAT
*
1871360 TAAAAAAATATTTATTTT
1 TAAAAAAATATTTATTTA
*
1871378 TAAAAAACTA-TTATTTCA
1 TAAAAAAATATTTATTT-A
1871396 TAAAAAA
1 TAAAAAA
1871403 TAACACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAAAATATTTATTTA
Found at i:1873284 original size:19 final size:19
Alignment explanation
Indices: 1873262--1873301 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1873252 TCTTTATTCA
1873262 TTTCTTTCA-ATTTTACTTT
1 TTTCTTT-ATATTTTACTTT
1873281 TTTCTTTATTATTTTACTTT
1 TTTCTTTA-TATTTTACTTT
1873301 T
1 T
1873302 CATGATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.05
19 7 0.37
20 11 0.58
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTATATTTTACTTT
Found at i:1876236 original size:3 final size:3
Alignment explanation
Indices: 1876228--1876280 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
1876218 TTGCTTTTTT
1876228 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1876276 ATA AT
1 ATA AT
1876281 TATTATTATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1876285 original size:3 final size:3
Alignment explanation
Indices: 1876279--1876319 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1876269 AATAATAATA
1876279 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1876320 AACTAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1876981 original size:2 final size:2
Alignment explanation
Indices: 1876974--1877009 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1876964 ATCCTAATTG
1876974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1877010 TTTCTTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1877168 original size:12 final size:13
Alignment explanation
Indices: 1877151--1877182 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
1877141 GATGTTCAAG
1877151 GAAAAAAAG-AAA
1 GAAAAAAAGAAAA
1877163 G-AAAAAAGAAAA
1 GAAAAAAAGAAAA
1877175 GAAAAAAA
1 GAAAAAAA
1877183 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.39
12 5 0.28
13 6 0.33
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:1877169 original size:11 final size:12
Alignment explanation
Indices: 1877153--1877181 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1877143 TGTTCAAGGA
1877153 AAAAAAG-AAAG
1 AAAAAAGAAAAG
1877164 AAAAAAGAAAAG
1 AAAAAAGAAAAG
1877176 AAAAAA
1 AAAAAA
1877182 ATTGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:1879402 original size:25 final size:25
Alignment explanation
Indices: 1879354--1879403 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
1879344 AATGGTATTG
* *
1879354 ATAAAGTTTAACTTTATCTGGGATT
1 ATAAAGTTCAACTTTATCTAGGATT
*
1879379 ATAAAGTTCAACTTTATTTAGGATT
1 ATAAAGTTCAACTTTATCTAGGATT
1879404 CTAGATAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (25 bp):
ATAAAGTTCAACTTTATCTAGGATT
Found at i:1883848 original size:26 final size:26
Alignment explanation
Indices: 1883795--1883849 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
1883785 TAAAGATGGT
* * * *
1883795 ATTGATAAAGTTTAACTTTATTTGAG
1 ATTGATAAAATTCAACTTTATCTAAG
1883821 ATTGATAAAATTCAACTTTATCTAAG
1 ATTGATAAAATTCAACTTTATCTAAG
1883847 ATT
1 ATT
1883850 CTAGATAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (26 bp):
ATTGATAAAATTCAACTTTATCTAAG
Found at i:1887038 original size:22 final size:22
Alignment explanation
Indices: 1887000--1887041 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1886990 ATGTATATCC
*
1887000 AGTAAAAATAATGTGTACATTT
1 AGTAAAAATAATATGTACATTT
*
1887022 AGTAAAAATATTATGTACAT
1 AGTAAAAATAATATGTACAT
1887042 ACAAGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.36
Consensus pattern (22 bp):
AGTAAAAATAATATGTACATTT
Found at i:1887048 original size:23 final size:22
Alignment explanation
Indices: 1886987--1887049 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
1886977 CGAATAAGAC
* *
1886987 AATATGTATATCCAGTAAAAAT
1 AATATGTACATCAAGTAAAAAT
* **
1887009 AATGTGTACATTTAGTAAAAAT
1 AATATGTACATCAAGTAAAAAT
*
1887031 ATTATGTACATACAAGTAA
1 AATATGTACAT-CAAGTAA
1887050 TTATATACAC
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.48, C:0.08, G:0.11, T:0.33
Consensus pattern (22 bp):
AATATGTACATCAAGTAAAAAT
Found at i:1888077 original size:26 final size:28
Alignment explanation
Indices: 1888035--1888099 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
1888025 TTTATACATG
* *
1888035 ATATT-TTGATAATTTATA-AAT-TTAT
1 ATATTATTAATAAATTATATAATATTAT
1888060 ATATTATTAATAAATTATATAATATTAT
1 ATATTATTAATAAATTATATAATATTAT
1888088 -T-TTATTAA-AAAT
1 ATATTATTAATAAAT
1888100 AGAATTGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 9 0.26
26 18 0.51
27 4 0.11
28 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
ATATTATTAATAAATTATATAATATTAT
Found at i:1888079 original size:18 final size:19
Alignment explanation
Indices: 1888050--1888086 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1888040 TTGATAATTT
*
1888050 ATAAATTTATATATTATTA
1 ATAAATTTATATAATATTA
1888069 ATAAA-TTATATAATATTA
1 ATAAATTTATATAATATTA
1888087 TTTTATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAATTTATATAATATTA
Found at i:1889041 original size:24 final size:25
Alignment explanation
Indices: 1889009--1889062 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
1888999 TATCAAACAC
*
1889009 AATAAAAATACAATATAA-ATAAAT
1 AATAAAAATACAATATAATATAAAA
*
1889033 AATAAAAATATAATATAATATAAAA
1 AATAAAAATACAATATAATATAAAA
1889058 AATAA
1 AATAA
1889063 TATTAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
AATAAAAATACAATATAATATAAAA
Found at i:1889044 original size:19 final size:20
Alignment explanation
Indices: 1889009--1889075 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
1888999 TATCAAACAC
*
1889009 AATAAAAATACAATATAAATA
1 AATAAAAA-ATAATATAAATA
*
1889030 AATAATAAA-AATATAATATA
1 AATAAAAAATAATATAA-ATA
*
1889050 ATATAAAAAATAATATTAATA
1 A-ATAAAAAATAATATAAATA
1889071 TAATA
1 -AATA
1889076 CAAGTGTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 7 0.18
20 5 0.13
21 20 0.51
22 7 0.18
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (20 bp):
AATAAAAAATAATATAAATA
Found at i:1889049 original size:5 final size:5
Alignment explanation
Indices: 1889015--1889075 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
1889005 ACACAATAAA
* *
1889015 AATAC AATAT AA-AT AA-AT AATAAA AATAT AATAT AATAT AA-A- AA-AT
1 AATAT AATAT AATAT AATAT AAT-AT AATAT AATAT AATAT AATAT AATAT
1889061 AATATT AATAT AATA
1 AATA-T AATAT AATA
1889076 CAAGTGTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
3 3 0.06
4 11 0.23
5 25 0.52
6 9 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (5 bp):
AATAT
Found at i:1889056 original size:18 final size:18
Alignment explanation
Indices: 1889020--1889073 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
1889010 ATAAAAATAC
1889020 AATATAA-ATAAATAATAAA
1 AATATAATAT-AAT-ATAAA
1889039 AATATAATATAATATAAA
1 AATATAATATAATATAAA
1889057 AA-ATAATATTAATATAA
1 AATATAATA-TAATATAA
1889074 TACAAGTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.18
18 15 0.45
19 10 0.30
20 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATATAATATAATATAAA
Found at i:1889070 original size:28 final size:29
Alignment explanation
Indices: 1889015--1889078 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
1889005 ACACAATAAA
1889015 AATACAATATAAATAAATAATAAAAATAT
1 AATACAATATAAATAAATAATAAAAATAT
* **
1889044 AATATAATATAAA-AAATAATATTAATAT
1 AATACAATATAAATAAATAATAAAAATAT
1889072 AATACAA
1 AATACAA
1889079 GTGTATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 19 0.61
29 12 0.39
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (29 bp):
AATACAATATAAATAAATAATAAAAATAT
Found at i:1889547 original size:24 final size:24
Alignment explanation
Indices: 1889483--1889553 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
1889473 TTAATTATTA
*
1889483 ATATT-TTAA-AAATTAAATTTAT
1 ATATTATTAATAAATAAAATTTAT
* *
1889505 AT-TTATT-GTAGGATAAAAATTTAT
1 ATATTATTAATA-AAT-AAAATTTAT
1889529 ATATTATTAATAAATAAAA-TTAT
1 ATATTATTAATAAATAAAATTTAT
1889552 AT
1 AT
1889554 CATCTCATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 8 0.21
24 14 0.37
25 7 0.18
26 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
ATATTATTAATAAATAAAATTTAT
Found at i:1892340 original size:14 final size:14
Alignment explanation
Indices: 1892321--1892347 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1892311 ATATATTTTG
1892321 TTTTATTTAATTAA
1 TTTTATTTAATTAA
1892335 TTTTATTTAATTA
1 TTTTATTTAATTA
1892348 TACAAGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTTAATTAA
Found at i:1897291 original size:20 final size:20
Alignment explanation
Indices: 1897263--1897337 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1897253 TTTTACCCAG
1897263 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1897283 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1897303 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
1897323 ATGTATCGATACATT
1 ATGTATCGATACATT
1897338 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1897323 original size:40 final size:39
Alignment explanation
Indices: 1897263--1897340 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1897253 TTTTACCCAG
*
1897263 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
1897303 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
1897341 TCTTTTTACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:1905697 original size:51 final size:52
Alignment explanation
Indices: 1905628--1905743 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 52
1905618 AAAATAATGG
* * *
1905628 GGTTAGAGTATCCTCGATTATGAAAAATCAATGTTTT-AGAAATAAAA-CTAA
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGA-AAATAAAATCGAA
* *
1905679 GGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAA
1 GGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGAAAATAAAATCGAA
1905731 -GTTGGAGTATCCC
1 GGTTGGAGTATCCC
1905744 TTTAGAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
51 54 0.93
52 4 0.07
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTTGAAAATAAAATCGAA
Found at i:1905793 original size:130 final size:131
Alignment explanation
Indices: 1905593--1905873 Score: 304
Period size: 130 Copynumber: 2.2 Consensus size: 131
1905583 TTTGGAGAAT
* ** *
1905593 AAACC-GAGGTTGGAGTAT-CCTCTCGAAAATAATGGGGTTAGAGTATCCTCGATTATGAAAAAT
1 AAACCAGA-GTTGGAGTATCCCTCTAGAAAATAACAGGGTTAGAGTATCCTCGATGATGAAAAAT
* * * *
1905656 CAATGTTTTAGAAATAAAACTAAGGTTGGAGTATCCCCGATTGTGAAAAATCAG-TGTTTTGAAA
65 CAATGTTTTAAAAATAAAACCAAGGTTGGAGTATCCCCAATTATGAAAAAT-AGATGTTTTGAAA
1905720 ATA
129 ATA
* * *
1905723 AAATC-GAAGTTGGAGTATCCCTTTAG-AAATAACAGGGTTAGAGTATTCC-CGATGATGGAAAA
1 AAACCAG-AGTTGGAGTATCCCTCTAGAAAATAACAGGGTTAGAGTA-TCCTCGATGATGAAAAA
*** ** * * *
1905785 TTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAA
64 TCAATGTTTTAAAAATAAAACCAAGGTTGGAGTATCCCCAATTATGAAAAATAGATGTTTTGAAA
1905850 ATA
129 ATA
*
1905853 AAACCAGGGTTGGAGTATCCC
1 AAACCAGAGTTGGAGTATCCC
1905874 CGATTGTGAA
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
129 1 0.01
130 114 0.91
131 10 0.08
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (131 bp):
AAACCAGAGTTGGAGTATCCCTCTAGAAAATAACAGGGTTAGAGTATCCTCGATGATGAAAAATC
AATGTTTTAAAAATAAAACCAAGGTTGGAGTATCCCCAATTATGAAAAATAGATGTTTTGAAAAT
A
Found at i:1905836 original size:51 final size:51
Alignment explanation
Indices: 1905757--1905924 Score: 183
Period size: 51 Copynumber: 3.3 Consensus size: 51
1905747 AGAAATAACA
* * * * * *
1905757 GGGTTAGAGTATTCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACCG
1 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAACCG
* * * *
1905808 GGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCA
1 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAACCG
* * ** *
1905859 GGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCG
1 GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAACCG
**
1905910 AAGTTGGAGTATCCC
1 GGGTTGGAGTATCCC
1905925 TTTGGAAATA
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATTGGTGTTTTGAAAATAAAACCG
Found at i:1905937 original size:181 final size:181
Alignment explanation
Indices: 1905626--1906055 Score: 763
Period size: 181 Copynumber: 2.4 Consensus size: 181
1905616 CGAAAATAAT
* * ** * *
1905626 GGGGTTAGAGTATC-CTCGATTATGAAAAATCAATGTTTTAGAAATAAAACTAAGGTTGGAGTAT
1 GGGGTTGGAGTATCTC-CAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTAT
1905690 CCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTAGAAATAA
65 CCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTAGAAATAA
*
1905755 CAGGGTTAGAGTATTCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACC
130 CAGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACC
*
1905807 GGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATC
1 GGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATC
*
1905872 CCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTGGAAATAAC
66 CCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTAGAAATAAC
1905937 AGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACC
131 AGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACC
1905988 GGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATC
1 GGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATC
1906053 CCC
66 CCC
1906056 TCAAAAATAA
Statistics
Matches: 238, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
181 237 1.00
182 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (181 bp):
GGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATC
CCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTAGAAATAAC
AGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACC
Found at i:1905942 original size:130 final size:128
Alignment explanation
Indices: 1905806--1906522 Score: 614
Period size: 130 Copynumber: 5.5 Consensus size: 128
1905796 AAAATAAAAC
* * * * *
1905806 CGGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1905871 CCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAATCGAAGTTGGAGTATCCCTTTGGAAATAA
66 CCCCGATTGTGAAAAAT-AGTGTTTTGAAAATAAAA-CGAAGTTGGAGTATCCCTTTGGAAATAA
* * * * * * *
1905936 CAGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
* * * * * * * ***
1906001 CTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTATCCCCTCAAAAATAA
66 CCCCGATTGTGAAAAATAG-TGTTTTGAAAATAAAACGAA-GTTGGAGTATCCCTTTGGAAATAA
* * * * *
1906066 CGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAAT-AAATCGGGGTTGAAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
** * * * * **
1906130 TGCCAATTGTGAAAAATTGATGTTTTGGAAATAAAATTGGGGTTGGAGTATCTCC-TTGGAAATA
66 CCCCGATTGTGAAAAATAG-TGTTTTGAAAATAAAA-CGAAGTTGGAGTATC-CCTTTGGAAATA
1906194 A
128 A
* * *
1906195 CGGGGTTGGAGGATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
**** * * ** *
1906260 CCTCTCGAAAATAATG-GGGTTAGAGTATCTTTGATTATAAAA--AA--TCGA-TAT---TTTGG
66 CC-C-CG---AT--TGTGAAAAATAGTGT-TTTGAAAATAAAACGAAGTTGGAGTATCCCTTTGG
1906316 AAATAAAA
123 AAAT--AA
* * * * *
1906324 CCGGGGTTGAAGTATCCCTGATTATGAAAAA-TCAGTGTTTTAGAAATAAAATCAGGGTTAGAGT
1 -CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAATCGGGGTTGGAGT
* *
1906388 ATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAACCGAGGTTTGAGTATCCCTTTGGAAAT
64 ATCCCCGATTGTGAAAAAT-AGTGTTTTGAAAATAAAA-CGAAGTTGGAGTATCCCTTTGGAAAT
1906453 AA
127 AA
* * * * *
1906455 TGGGGTTGGAATATCCCCGATTGTGAAAAATT-AGTATTTTAGAAATAAAATCGGGGTTGAAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAATCGGGGTTGGAGTA
1906519 TCCC
65 TCCC
1906523 TTCAGAAATA
Statistics
Matches: 468, Mismatches: 89, Indels: 60
0.76 0.14 0.10
Matches are distributed among these distances:
123 2 0.00
124 13 0.03
125 6 0.01
127 9 0.02
128 2 0.00
129 119 0.25
130 281 0.60
131 7 0.01
132 1 0.00
133 9 0.02
135 4 0.01
136 13 0.03
137 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (128 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
CCCCGATTGTGAAAAATAGTGTTTTGAAAATAAAACGAAGTTGGAGTATCCCTTTGGAAATAA
Found at i:1905981 original size:79 final size:81
Alignment explanation
Indices: 1905843--1906001 Score: 207
Period size: 79 Copynumber: 2.0 Consensus size: 81
1905833 AAATTGATGT
* * *
1905843 TTTGGAAATAAAACCAGGGTTGGAGTATCCCCGATTGTGAAAAATCAGTGTTTTGAAAATAAAAT
1 TTTGGAAAT-AAACCAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAAC
1905908 CGAAGTTGGAGTATCCC
65 CGAAGTTGGAGTATCCC
* **
1905925 TTTGGAAAT-AA-CAGGGTTAGAGTATCCCCGA-TGATGGAAAATTGGTGTTTTAAAAATAAAAC
1 TTTGGAAATAAACCAGGGTTAGAGTATCCCCGATTG-TGAAAAATCAGTGTTTTAAAAATAAAAC
**
1905987 CGGGGTTGGAGTATC
65 CGAAGTTGGAGTATC
1906002 TCCAATTATG
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 55 0.81
80 2 0.03
82 9 0.13
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (81 bp):
TTTGGAAATAAACCAGGGTTAGAGTATCCCCGATTGTGAAAAATCAGTGTTTTAAAAATAAAACC
GAAGTTGGAGTATCCC
Found at i:1906017 original size:51 final size:51
Alignment explanation
Indices: 1905936--1906055 Score: 150
Period size: 51 Copynumber: 2.4 Consensus size: 51
1905926 TTGGAAATAA
* * * *
1905936 CAGGGTTAGAGTATCCCCGATGATGGAAAATTGGTGTTTTAAAAATAAAAC
1 CAGGGTTGGAGTATCCCCAATGATGAAAAATTGATGTTTTAAAAATAAAAC
* * * **
1905987 CGGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAAC
1 CAGGGTTGGAGTATCCCCAATGATGAAAAATTGATGTTTTAAAAATAAAAC
*
1906038 CAAGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
1906056 TCAAAAATAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCAATGATGAAAAATTGATGTTTTAAAAATAAAAC
Found at i:1906218 original size:79 final size:79
Alignment explanation
Indices: 1906135--1906340 Score: 243
Period size: 79 Copynumber: 2.6 Consensus size: 79
1906125 AGTATTGCCA
* * *
1906135 ATTGTGAAAAATTGATGTTTTGGAAATAAAATTGGGGTTGGAGTAT-CTCCTTGGAAATAACGGG
1 ATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCT-CTCGAAAATAACGGG
*
1906199 GTTGGAGGATCCCCG
65 GTTAGAGGATCCCCG
* * *
1906214 ATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCTCTCGAAAATAATGGGG
1 ATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCTCTCGAAAATAACGGGG
* ***
1906279 TTAGAGTATCTTTG
66 TTAGAGGATCCCCG
* * * * * *
1906293 ATTATAAAAAATCGATATTTTGGAAATAAAACCGGGGTTGAAGTATCC
1 ATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCC
1906341 CTGATTATGA
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
79 105 0.98
80 2 0.02
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (79 bp):
ATTGTGAAAAATTGATGTTTTGGAAATAAAATCGGGGTTGGAGTATCCTCTCGAAAATAACGGGG
TTAGAGGATCCCCG
Found at i:1906244 original size:208 final size:209
Alignment explanation
Indices: 1905987--1906390 Score: 526
Period size: 208 Copynumber: 1.9 Consensus size: 209
1905977 AAAATAAAAC
* * * *
1905987 CGGGGTTGGAGTATCTCCAATTATGAAAAATTGATGTTTTGGAAATAAAACCAAGGTTGGAGTAT
1 CGGGGTTGGAGGATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGGTTAGAGTAT
* * *
1906052 CCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATGAAAAATCGATGTTTTGGAAAT-AAAT
66 CCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATAAAAAATCGATATTTTGGAAATAAAAC
* * * * ** *
1906116 CGGGGTTGAAGTATTGCC-AATTGTGAAAAAT-TGATGTTTTGGAAATAAAATTGGGGTTGGAGT
131 CGGGGTTGAAGTA-TCCCTAATTATGAAAAATCAG-TGTTTTAGAAATAAAATCAGGGTTAGAGT
1906179 ATCTCCTTGGAAATAA
194 ATCTCCTTGGAAATAA
* * * **
1906195 CGGGGTTGGAGGATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAATCGGGGTTAGAGTAT
1 CGGGGTTGGAGGATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGGTTAGAGTAT
* * * * ***
1906260 CCTCTCGAAAATAATGGGGTTAGAGTATCTTTGATTATAAAAAATCGATATTTTGGAAATAAAAC
66 CCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATAAAAAATCGATATTTTGGAAATAAAAC
*
1906325 CGGGGTTGAAGTATCCCTGATTATGAAAAATCAGTGTTTTAGAAATAAAATCAGGGTTAGAGTAT
131 CGGGGTTGAAGTATCCCTAATTATGAAAAATCAGTGTTTTAGAAATAAAATCAGGGTTAGAGTAT
1906390 C
196 C
1906391 CCCGATTGTG
Statistics
Matches: 166, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
208 110 0.66
209 55 0.33
210 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (209 bp):
CGGGGTTGGAGGATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACCAAGGTTAGAGTAT
CCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATTATAAAAAATCGATATTTTGGAAATAAAAC
CGGGGTTGAAGTATCCCTAATTATGAAAAATCAGTGTTTTAGAAATAAAATCAGGGTTAGAGTAT
CTCCTTGGAAATAA
Done.