Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_pilon, whole genome shotgun sequence
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: 2417150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 14
Found at i:1462260 original size:419 final size:420
Alignment explanation
Indices: 1461731--1462586 Score: 1510
Period size: 421 Copynumber: 2.0 Consensus size: 420
1461721 TATGTTATTG
1461731 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1461796 AAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAGTA
66 AAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAGTA
* * *
1461861 TGGACACTTTTATAAAAGGAT-ATACTTTACAATA-AAGCACTACCTATTACATTATATAAACGC
131 TAGACACTTTTATAAAAGGATAATACTTTACAATATAACCACTACCTATTACATTATAT-AACGA
1461924 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATGAAAGTGTCC
195 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTAT-TGAAAGTGTCC
1461989 ATACTTTTT-TAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
259 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
*
1462053 AATAGTGTTTCATGTTTT-CACCTACAATATTAATTTAATAATTTCATTTGCAC-AAAAATTATT
324 AATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAATTTCATTTACACAAAAAATTATT
*
1462116 TGATTATTTTGATATTTTATAAAAATATTTAGAA
388 TAATTATTTTGATATTTTAT-AAAATATTTAGAA
1462150 TTTTTAATTTAATAATAATATATATCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
*
1462214 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGT
66 AAATTAATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAGT
*
1462279 ATAGACACTTTTATAAAATGATAGATACTTTACAATATAACCACTACCTATTACATTATATAACG
130 ATAGACACTTTTATAAAAGGATA-ATACTTTACAATATAACCACTACCTATTACATTATATAACG
*
1462344 ATACTTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATTGAAAGTGTCC
194 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATTGAAAGTGTCC
1462409 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
259 ATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTT
1462474 AATAGTGTTTCATGTTTTCCACCTACAATATAATTTAATAATTTCATTTACACAAAAAATTATTT
324 AATAGTGTTTCATGTTTTCCACCTACAATATAATTTAATAATTTCATTTACACAAAAAATTATTT
*
1462539 AATTGTTTTGATATTTTATAAAATATTTAGAA
389 AATTATTTTGATATTTTATAAAATATTTAGAA
* *
1462571 -TTTAAATTTAACAATA
1 TTTTTAATTTAATAATA
1462587 TTAACTAAGA
Statistics
Matches: 419, Mismatches: 11, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
418 55 0.13
419 92 0.22
420 34 0.08
421 177 0.42
422 61 0.15
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (420 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAGTA
TAGACACTTTTATAAAAGGATAATACTTTACAATATAACCACTACCTATTACATTATATAACGAT
ACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATTGAAAGTGTCCAT
ACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAA
TAGTGTTTCATGTTTTCCACCTACAATATAATTTAATAATTTCATTTACACAAAAAATTATTTAA
TTATTTTGATATTTTATAAAATATTTAGAA
Found at i:1462379 original size:23 final size:22
Alignment explanation
Indices: 1462313--1462384 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
1462303 ATACTTTACA
*
1462313 ATATAACCACTACCTATTACATT
1 ATATAA-CGCTACCTATTACATT
* *
1462336 ATATAACGATACTTATTACATT
1 ATATAACGCTACCTATTACATT
*
1462358 ATATAAGCGCTACCTATTACATC
1 ATATAA-CGCTACCTATTACATT
1462381 ATAT
1 ATAT
1462385 TTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAACGCTACCTATTACATT
Found at i:1462750 original size:25 final size:25
Alignment explanation
Indices: 1462722--1462786 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
1462712 ACTCAAAAGA
*
1462722 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
1462747 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
1462772 TGTACATACCTAAAT
1 TGTACATACCTAAAT
1462787 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:1465405 original size:23 final size:23
Alignment explanation
Indices: 1465375--1465420 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1465365 ATGCTATAGT
1465375 CATGTGTTTCGATACATTTGCAA
1 CATGTGTTTCGATACATTTGCAA
1465398 CATGTGTTTCGATACATTTGCAA
1 CATGTGTTTCGATACATTTGCAA
1465421 GCAGAGCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (23 bp):
CATGTGTTTCGATACATTTGCAA
Found at i:1466527 original size:3 final size:3
Alignment explanation
Indices: 1466519--1466587 Score: 84
Period size: 3 Copynumber: 23.0 Consensus size: 3
1466509 ACTTGTTTGG
* * *
1466519 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
1466567 AGC TTC ATC GTC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC
1466588 GTCTCTTCAT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.26, C:0.33, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:1466588 original size:12 final size:12
Alignment explanation
Indices: 1466519--1466602 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
1466509 ACTTGTTTGG
*
1466519 ATCATCATCATC
1 ATCATCATCGTC
*
1466531 ATCATCATCATC
1 ATCATCATCGTC
* *
1466543 ATCATCGTCATC
1 ATCATCATCGTC
*
1466555 ATCTTCATCGTC
1 ATCATCATCGTC
* *
1466567 AGCTTCATCGTC
1 ATCATCATCGTC
1466579 ATCATCATCGTC
1 ATCATCATCGTC
*
1466591 -TCTTCATCGTC
1 ATCATCATCGTC
1466602 A
1 A
1466603 GCTTCATCTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
11 10 0.16
12 53 0.84
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.36
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:1466607 original size:12 final size:12
Alignment explanation
Indices: 1466557--1466610 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
1466547 TCGTCATCAT
1466557 CTTCATCGTCAG
1 CTTCATCGTCAG
*
1466569 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
1466581 CATCATCGTC-T
1 CTTCATCGTCAG
1466592 CTTCATCGTCAG
1 CTTCATCGTCAG
1466604 CTTCATC
1 CTTCATC
1466611 TTCATTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.17, C:0.35, G:0.11, T:0.37
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:1468545 original size:200 final size:200
Alignment explanation
Indices: 1467896--1469266 Score: 2568
Period size: 200 Copynumber: 6.9 Consensus size: 200
1467886 TTTAAATTTG
*
1467896 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1467961 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1468026 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTATGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
1468091 AAAAC
196 AAAAA
1468096 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1468161 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATAC-TTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1468224 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1468288 AAAAA
196 AAAAA
1468293 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1468358 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1468423 TCGACACTTTGTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGAACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
*
1468488 AAAAC
196 AAAAA
*
1468493 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATG
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1468558 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1468623 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1468688 AAAAA
196 AAAAA
*
1468693 TATCGACACAAACTAAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1468758 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCAATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1468823 TCGACACTTTTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1468888 AAAAA
196 AAAAA
*
1468893 TATCGACACAAACTAAAAAAGTGTCAACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1468958 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1469023 TCGACACTTTTTATATATGGATCGACACTTTATGATTGCATCCTGTTTTCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1469088 AAAAA
196 AAAAA
*
1469093 TATCGACACAAACTAAAAAAGTGTAGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1469158 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1469223 TCGACACTTTTTCTATATGGTTCGACACTTTATGGTTGCACCCT
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
1469267 TAATGTGTAT
Statistics
Matches: 1140, Mismatches: 28, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
197 165 0.14
198 29 0.03
199 29 0.03
200 917 0.80
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
AAAAA
Found at i:1469368 original size:18 final size:18
Alignment explanation
Indices: 1469345--1469405 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
1469335 CATCATTCAT
*
1469345 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
1469363 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
1469382 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
1469401 AATTA
1 AATTA
1469406 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:1469381 original size:19 final size:19
Alignment explanation
Indices: 1469357--1469405 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1469347 TTATATTCAC
1469357 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1469376 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1469395 ATACAAAATTA
1 ATACAAAATTA
1469406 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1470788 original size:13 final size:13
Alignment explanation
Indices: 1470770--1470802 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1470760 TGTCATCAAT
1470770 TCCGCTTGGAATA
1 TCCGCTTGGAATA
1470783 TCCGCTTGGAATA
1 TCCGCTTGGAATA
1470796 TCCGCTT
1 TCCGCTT
1470803 TTTCAACCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.33
Consensus pattern (13 bp):
TCCGCTTGGAATA
Found at i:1471246 original size:33 final size:33
Alignment explanation
Indices: 1471209--1471274 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1471199 CATCTTAATA
*
1471209 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1471242 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1471275 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1471333 original size:21 final size:21
Alignment explanation
Indices: 1471308--1471372 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
1471298 CCCCTTATGC
* * *
1471308 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTAGACT
*
1471329 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTTTCTCTTAGACT
*
1471350 CTATCAAGTTTCTCTTAGACT
1 CTCTCAAGTTTCTCTTAGACT
1471371 CT
1 CT
1471373 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTAGACT
Found at i:1473432 original size:24 final size:24
Alignment explanation
Indices: 1473395--1473447 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1473385 CCGTTCTATC
1473395 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
1473419 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
1473443 TATTT
1 TATTT
1473448 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:1473609 original size:17 final size:18
Alignment explanation
Indices: 1473587--1473629 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1473577 ATATATCCGG
1473587 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1473604 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1473624 TATCAT
1 TATCAT
1473630 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1473803 original size:20 final size:20
Alignment explanation
Indices: 1473773--1473823 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1473763 TCCGGTAACG
*
1473773 TTTTACCGGTTTTATCAT-T
1 TTTTACTGGTTTTATCATAT
1473792 TTGTTACTGGTTTTATCATAT
1 TT-TTACTGGTTTTATCATAT
1473813 TTTTACCTGGT
1 TTTTA-CTGGT
1473824 ATATCGTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 18 0.64
21 8 0.29
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (20 bp):
TTTTACTGGTTTTATCATAT
Found at i:1473863 original size:181 final size:182
Alignment explanation
Indices: 1473559--1474031 Score: 698
Period size: 181 Copynumber: 2.6 Consensus size: 182
1473549 CGTACTTACG
* *
1473559 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
1473624 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
1473689 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * *
1473740 AAAGTATCGACACGTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACTGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
1473805 TATCATATTTTTACCTGGTATATCGTACTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
1473870 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * *
1473922 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
1473986 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTT
1474032 AATTTGGATC
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 164 0.63
182 95 0.37
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTCTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:1474532 original size:228 final size:227
Alignment explanation
Indices: 1474098--1474591 Score: 891
Period size: 228 Copynumber: 2.2 Consensus size: 227
1474088 ACCTACTTTT
* * *
1474098 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATATAATTTATGTTTCA
1474163 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AA
*
1474228 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAT
130 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
* *
1474293 CAAATATAATAATAAATATGTTTTCCACAGTGAA
195 CAAAGATAATAATAAATATATTTT-CACAGTGAA
*
1474327 ATAAGTATGGACACTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATATAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATATAATTTATGTTTCA
1474392 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-A
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
1474456 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
130 AAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
1474521 CAAAGATAATAATAAATATATTTTCACAGTGAA
195 CAAAGATAATAATAAATATATTTTCACAGTGAA
1474554 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTT
1474592 ACAATATAAC
Statistics
Matches: 256, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
227 46 0.18
228 87 0.34
229 62 0.24
230 61 0.24
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (227 bp):
ATAAGTATGGACACTTTTATAAAAAGGATAGATACTTTTTTTAAAGTTATATAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAAATATATTTTCACAGTGAA
Found at i:1481395 original size:39 final size:39
Alignment explanation
Indices: 1481306--1481395 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
1481296 AGGATCTTCA
*
1481306 GTAAGGACTTACCCTGAGCACAAAGCAAATGAGCCTGCT
1 GTAAGGACTTACCCTAAGCACAAAGCAAATGAGCCTGCT
* * *
1481345 ATAAGAACTTACCCTAAGCACAAAGCAGATGAGCCTGCT
1 GTAAGGACTTACCCTAAGCACAAAGCAAATGAGCCTGCT
*
1481384 GTAAGGTCTTAC
1 GTAAGGACTTAC
1481396 AAGTCATAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (39 bp):
GTAAGGACTTACCCTAAGCACAAAGCAAATGAGCCTGCT
Found at i:1481824 original size:3 final size:3
Alignment explanation
Indices: 1481816--1481851 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
1481806 TACTAATATG
1481816 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AA
1481852 CCCCTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1482212 original size:18 final size:18
Alignment explanation
Indices: 1482189--1482236 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1482179 ATGGTTAACA
*
1482189 GTCAACAGTCAACGATCG
1 GTCAACAATCAACGATCG
* *
1482207 GTCAACAATCGACGGTCG
1 GTCAACAATCAACGATCG
*
1482225 GTCAACATTCAA
1 GTCAACAATCAA
1482237 TTGTTTCGGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (18 bp):
GTCAACAATCAACGATCG
Found at i:1486720 original size:60 final size:60
Alignment explanation
Indices: 1486642--1486941 Score: 390
Period size: 60 Copynumber: 5.0 Consensus size: 60
1486632 ATACCCCAAA
* * **
1486642 ACATGCATCTATAAGGACTTACCCTAGACCACTAAGATCTAGGAGTCCTTTATAGAAGAT
1 ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTAGGAGTCCAATATAGAAGAT
* * * *
1486702 ACATGTATCCATAAGGACTTACCATAGACCACTAAGATCTAGAAGTCCAATATAGAATAT
1 ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTAGGAGTCCAATATAGAAGAT
* * * *
1486762 ATATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTAATG-GTCCAATATGGAAGTT
1 ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCT-AGGAGTCCAATATAGAAGAT
* * *
1486822 ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTATGAGTACAATAT-GAAAGTT
1 ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTAGGAGTCCAATATAG-AAGAT
** *
1486882 ACA-GACATCCATAAGGACTTAATGTAGACCACTAAGATCTAGGAGTCCAATATGGAAGAT
1 ACATG-CATCCATAAGGACTTACCGTAGACCACTAAGATCTAGGAGTCCAATATAGAAGAT
1486942 CAGAATAATC
Statistics
Matches: 213, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
59 5 0.02
60 206 0.97
61 2 0.01
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (60 bp):
ACATGCATCCATAAGGACTTACCGTAGACCACTAAGATCTAGGAGTCCAATATAGAAGAT
Found at i:1490375 original size:60 final size:60
Alignment explanation
Indices: 1490308--1490534 Score: 264
Period size: 60 Copynumber: 3.8 Consensus size: 60
1490298 CAAATCAGGT
* * *
1490308 ATCCATAAGGACTTAC-CTTAGAACACTAAGATCTAGGAGTCCATTATGGAAGATGCATGC
1 ATCCATAAGGACTTACTC-TAGAACACTAAGATCTAGAAGTCCAATATGGAAGATACATGC
* *
1490368 ATCCATAAGGACTTACTCTAG-ACAACTAAAATCTAGGAGTCCAATATGGAAGATACATGC
1 ATCCATAAGGACTTACTCTAGAAC-ACTAAGATCTAGAAGTCCAATATGGAAGATACATGC
*** * * * *
1490428 ATTTTTAAGGACTT-GTCGTAGACCACTAAGATCTAGAAGTCCAATATGGAAGTTACAAGC
1 ATCCATAAGGACTTACTC-TAGAACACTAAGATCTAGAAGTCCAATATGGAAGATACATGC
* *
1490488 ATCCATAAGGACTTACTGTA-AACCACTAAGATCTAGAAGTCCGATAT
1 ATCCATAAGGACTTACTCTAGAA-CACTAAGATCTAGAAGTCCAATAT
1490535 AGAATATCAG
Statistics
Matches: 142, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
59 5 0.04
60 134 0.94
61 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (60 bp):
ATCCATAAGGACTTACTCTAGAACACTAAGATCTAGAAGTCCAATATGGAAGATACATGC
Found at i:1492344 original size:21 final size:20
Alignment explanation
Indices: 1492258--1492415 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1492248 AAATGACCAA
**
1492258 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1492277 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1492297 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1492317 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1492338 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1492359 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1492379 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1492400 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1492416 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1492444 original size:20 final size:20
Alignment explanation
Indices: 1492382--1492576 Score: 205
Period size: 20 Copynumber: 9.7 Consensus size: 20
1492372 CGATTTTCCA
* ** *
1492382 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
1492402 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
1492422 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* *
1492442 AAATCACAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
1492462 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
1492482 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
1492502 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
1492522 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
1492542 AAAAATCGCAACGCGTATCCGT
1 --AAATCGCAACGCGTATCCGT
1492564 AAATCGCAACGCG
1 AAATCGCAACGCG
1492577 ATATTTAAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.01
20 124 0.86
21 2 0.01
22 15 0.10
23 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:1492466 original size:60 final size:60
Alignment explanation
Indices: 1492382--1492576 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
1492372 CGATTTTCCA
* ** * *
1492382 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * * *** *
1492442 AAATCACAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
1492502 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT--AAATCGCAACGCGTATCCGT
1492564 AAATCGCAACGCG
1 AAATCGCAACGCG
1492577 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
60 79 0.72
62 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:1492999 original size:33 final size:33
Alignment explanation
Indices: 1492960--1493030 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1492950 TTCACTTAGA
*
1492960 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1492993 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1493026 TTTCA
1 TTTCA
1493031 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1493154 original size:20 final size:20
Alignment explanation
Indices: 1493110--1493219 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
1493100 TGCAGAAGAG
*
1493110 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
1493131 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
1493151 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
1493172 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
1493186 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
1493205 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1493220 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:1493167 original size:41 final size:38
Alignment explanation
Indices: 1493103--1493219 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
1493093 TTCAATTTGC
* *
1493103 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1493141 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
1493182 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1493215 AGAAT
1 AGAAT
1493220 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:1493189 original size:14 final size:14
Alignment explanation
Indices: 1493170--1493226 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1493160 GAGAAATGAA
1493170 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1493184 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1493203 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1493217 AATCGCAACG
1 AATCGCAACG
1493227 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1493202 original size:33 final size:33
Alignment explanation
Indices: 1493162--1493242 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
1493152 CGCAACGAGA
1493162 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1493195 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
1493228 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
1493243 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1493260 original size:19 final size:19
Alignment explanation
Indices: 1493238--1493335 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
1493228 GAAACCAAAA
*
1493238 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1493257 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1493271 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1493290 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
1493304 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
1493323 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1493336 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 19 0.31
16 5 0.08
17 6 0.10
19 31 0.51
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1493279 original size:14 final size:14
Alignment explanation
Indices: 1493260--1493349 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
1493250 TTTCATTTCG
1493260 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1493274 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
1493293 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
*
1493307 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
1493326 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1493340 CGTTGCGATT
1 CGTTGCGATT
1493350 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 19 0.32
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1493285 original size:33 final size:33
Alignment explanation
Indices: 1493243--1493357 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1493233 CAAAATCGCA
1493243 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1493276 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
1493309 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1493342 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
1493358 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:1495211 original size:93 final size:93
Alignment explanation
Indices: 1495052--1495425 Score: 709
Period size: 93 Copynumber: 4.1 Consensus size: 93
1495042 TAGATTGCTT
*
1495052 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1495117 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1495145 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1495210 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1495238 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1495301 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
1495329 AGCAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1495394 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
1495421 AGTAA
1 AGTAA
1495426 TGCAATCCAT
Statistics
Matches: 276, Mismatches: 3, Indels: 5
0.97 0.01 0.02
Matches are distributed among these distances:
91 37 0.13
92 111 0.40
93 128 0.46
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:1495372 original size:184 final size:184
Alignment explanation
Indices: 1495056--1495426 Score: 708
Period size: 184 Copynumber: 2.0 Consensus size: 184
1495046 TTGCTTAGTA
1495056 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
*
1495121 TCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGCAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
1495186 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
131 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-AAGT
*
1495241 AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTG-AATAGTATTTG
1 AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
1495305 TCTTTGTTTTGTCTTTTGGTTGAAAGCAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
66 TCTTTGTTTTGTCTTTTGGTTGAAAGCAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
1495370 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGT
131 ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGT
1495424 AAT
1 AAT
1495427 GCAATCCATT
Statistics
Matches: 184, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
183 7 0.04
184 125 0.68
185 52 0.28
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.46
Consensus pattern (184 bp):
AATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTATTTG
TCTTTGTTTTGTCTTTTGGTTGAAAGCAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGT
ATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAGT
Found at i:1495548 original size:14 final size:13
Alignment explanation
Indices: 1495528--1495599 Score: 63
Period size: 14 Copynumber: 4.8 Consensus size: 13
1495518 CGCGAAATGA
1495528 AAATCGCAACGAC
1 AAATCGCAACGAC
1495541 AGAATCGCAACGCGAAACC
1 A-AATCGCAA--CG--A-C
1495560 AAAATCGCAACGAC
1 -AAATCGCAACGAC
1495574 AAGATCGCAACGAC
1 AA-ATCGCAACGAC
1495588 AAGATCGCAACG
1 AA-ATCGCAACG
1495600 CGAAACCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.06
14 32 0.63
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 9 0.18
20 1 0.02
ACGTcount: A:0.44, C:0.29, G:0.19, T:0.07
Consensus pattern (13 bp):
AAATCGCAACGAC
Found at i:1495557 original size:33 final size:32
Alignment explanation
Indices: 1495509--1495585 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 32
1495499 CGCGAAACCA
* **
1495509 AAATCACAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1495541 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
1495574 AAGATCGCAACG
1 AA-ATCGCAACG
1495586 ACAAGATCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
32 2 0.05
33 38 0.95
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:1495599 original size:47 final size:49
Alignment explanation
Indices: 1495491--1495615 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 49
1495481 CGAAACTTAA
*
1495491 AATCGCAACGCGAAACCAAAATCACAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAACCAAAATCGCAACGC-AAATG--AATCGCAACGACAG
1495543 AATCGCAACGCGAAACCAAAATCGCAACG-ACAA-G-ATCGCAACGACA-
1 AATCGCAACGCGAAACCAAAATCGCAACGCA-AATGAATCGCAACGACAG
1495589 AGATCGCAACGCGAAACCAAAATCGCA
1 A-ATCGCAACGCGAAACCAAAATCGCA
1495616 TTGCGATTTT
Statistics
Matches: 70, Mismatches: 1, Indels: 9
0.88 0.01 0.11
Matches are distributed among these distances:
46 1 0.01
47 37 0.53
50 2 0.03
51 2 0.03
52 28 0.40
ACGTcount: A:0.46, C:0.29, G:0.18, T:0.07
Consensus pattern (49 bp):
AATCGCAACGCGAAACCAAAATCGCAACGCAAATGAATCGCAACGACAG
Found at i:1495615 original size:19 final size:19
Alignment explanation
Indices: 1495473--1495571 Score: 100
Period size: 19 Copynumber: 5.4 Consensus size: 19
1495463 TAGTTTACTT
* *
1495473 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1495493 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* **
1495512 TCACAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
1495531 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1495545 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
1495564 TCGCAACG
1 TCGCAACG
1495572 ACAAGATCGC
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
14 9 0.14
15 1 0.02
16 2 0.03
17 2 0.03
18 1 0.02
19 37 0.57
20 13 0.20
ACGTcount: A:0.46, C:0.28, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1495633 original size:19 final size:19
Alignment explanation
Indices: 1495611--1495745 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1495601 GAAACCAAAA
*
1495611 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1495630 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1495646 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
1495663 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
1495679 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1495696 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1495715 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1495735 TCGTGTTGCGA
1 TCGCGTTGCGA
1495746 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1495652 original size:14 final size:14
Alignment explanation
Indices: 1495633--1495689 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1495623 TTTCATTTCG
1495633 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
1495647 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
1495664 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
1495680 CGTTGCGATT
1 CGTTGCGATT
1495690 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:1495658 original size:33 final size:33
Alignment explanation
Indices: 1495616--1495708 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1495606 CAAAATCGCA
*
1495616 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1495649 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
1495682 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1495709 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1497681 original size:14 final size:14
Alignment explanation
Indices: 1497662--1497697 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1497652 ATTGTTTAAT
1497662 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1497676 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1497690 TGATTTGT
1 TGATTTGT
1497698 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1497820 original size:19 final size:19
Alignment explanation
Indices: 1497804--1497901 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
1497794 AAAAATGACT
1497804 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1497823 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1497842 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1497856 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1497875 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1497895 ATCGCAA
1 ATCGCAA
1497902 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1497933 original size:53 final size:53
Alignment explanation
Indices: 1497804--1497919 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
1497794 AAAAATGACT
1497804 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1497856 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1497909 ATCGCAATGCG
1 ATCGCAATGCG
1497920 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:1497972 original size:19 final size:19
Alignment explanation
Indices: 1497948--1498112 Score: 189
Period size: 19 Copynumber: 9.4 Consensus size: 19
1497938 GATTCTCTCG
1497948 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1497967 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1497986 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1498000 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1498019 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1498038 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1498052 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1498072 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
1498086 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1498105 TTGCGATT
1 TTGCGATT
1498113 CTCTCGTTGC
Statistics
Matches: 124, Mismatches: 6, Indels: 32
0.77 0.04 0.20
Matches are distributed among these distances:
14 23 0.19
16 16 0.13
17 13 0.10
18 3 0.02
19 57 0.46
20 12 0.10
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1497983 original size:52 final size:52
Alignment explanation
Indices: 1497926--1498084 Score: 309
Period size: 52 Copynumber: 3.0 Consensus size: 52
1497916 TGCGTTTATA
1497926 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1497978 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1498030 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
1498083 AT
1 AT
1498085 GTTGGGATTT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 89 0.84
53 17 0.16
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:1498134 original size:33 final size:33
Alignment explanation
Indices: 1497926--1498126 Score: 212
Period size: 33 Copynumber: 5.9 Consensus size: 33
1497916 TGCGTTTATA
1497926 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
1497959 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
1497999 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1498030 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
1498063 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
1498097 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1498127 GTAATTTCCG
Statistics
Matches: 138, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.07
32 6 0.04
33 62 0.45
34 29 0.21
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:1500632 original size:24 final size:24
Alignment explanation
Indices: 1500598--1500644 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1500588 CTGAAACATC
1500598 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1500622 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1500645 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1501282 original size:20 final size:20
Alignment explanation
Indices: 1501254--1501483 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
1501244 AAATTTCAGT
* * *
1501254 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1501274 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1501294 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
1501314 GTTGCGATTTATGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1501334 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1501354 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
1501374 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
1501394 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1501414 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1501434 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1501454 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1501474 GTTGCGATTT
1 GTTGCGATTT
1501484 TGGAAAATCG
Statistics
Matches: 180, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 179 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1501500 original size:21 final size:21
Alignment explanation
Indices: 1501470--1501552 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
1501460 ATTTTCATAT
*
1501470 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1501491 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1501512 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
* *
1501533 TCTCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1501553 CTGATTTGCG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 43 0.93
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1503812 original size:109 final size:109
Alignment explanation
Indices: 1503620--1503836 Score: 301
Period size: 109 Copynumber: 2.0 Consensus size: 109
1503610 ATAATATCTT
* * *
1503620 ATGATTACAAGATAATATATGTTCATAATCTTTCTTAAGAATCGACAATGTAGATCTCTTGTGTA
1 ATGATTACAAGATAATATATGTTCAGAATCTTTCTTAACAATCAACAATGTAGATCTCTTGTGTA
**
1503685 ACTGATTTAACACATGACCTCTAATGAGAATAACACTTCCTTTA
66 ACTGATCGAACACATGACCTCTAATGAGAATAACACTTCCTTTA
* *
1503729 ATGATTACAATG-TAATATTTGTTCAGAATCTTTCTTAACAATCAACAATGTATATCTCTTGTGT
1 ATGATTACAA-GATAATATATGTTCAGAATCTTTCTTAACAATCAACAATGTAGATCTCTTGTGT
* ** * * *
1503793 AACTGATCGAATATGTGACCTTTAATGAGAATAATACTTTCTTT
65 AACTGATCGAACACATGACCTCTAATGAGAATAACACTTCCTTT
1503837 GATCACCGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 93 0.99
110 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (109 bp):
ATGATTACAAGATAATATATGTTCAGAATCTTTCTTAACAATCAACAATGTAGATCTCTTGTGTA
ACTGATCGAACACATGACCTCTAATGAGAATAACACTTCCTTTA
Found at i:1504736 original size:129 final size:129
Alignment explanation
Indices: 1504501--1504760 Score: 430
Period size: 129 Copynumber: 2.0 Consensus size: 129
1504491 TAAATATTAT
* * *
1504501 ACGAACGGTTCACAAATCATTCATCTTAACTATACATAATAGATGCACACATTTGGTAGGTTTGT
1 ACGAACGGTTCACAAACCATTCATCTTAAATATACATAATAGATGCACACATTTGGTAGGTTTGC
* *
1504566 TTTATCATTTTAGATCTATTTTATATAGTTGGTATATGGATGTTTAATGAGTTGAGTAGCTCGA
66 TTTATCATTTTAGATCTATTTTATATAGTTGGTATAGGGATGTTTAATGAGTTGAGCAGCTCGA
* * * *
1504630 ACGAACGGTTTACGAACCATTCATCTTAAATATGCATAGTAGATGCACACATTTGGTAGGTTTGC
1 ACGAACGGTTCACAAACCATTCATCTTAAATATACATAATAGATGCACACATTTGGTAGGTTTGC
*
1504695 TTTATCATTTTAGATCTGTTTTATATAGTTGGTATAGGGATGTTTAATGAGTTGAGCAGCTCGA
66 TTTATCATTTTAGATCTATTTTATATAGTTGGTATAGGGATGTTTAATGAGTTGAGCAGCTCGA
1504759 AC
1 AC
1504761 TTGACTCGGT
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (129 bp):
ACGAACGGTTCACAAACCATTCATCTTAAATATACATAATAGATGCACACATTTGGTAGGTTTGC
TTTATCATTTTAGATCTATTTTATATAGTTGGTATAGGGATGTTTAATGAGTTGAGCAGCTCGA
Found at i:1511052 original size:24 final size:25
Alignment explanation
Indices: 1511025--1511078 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
1511015 TTTCCACTAA
1511025 ATTTTTAAA-TTTATTT-TTATCATT
1 ATTTTTAAATTTTATTTATTAT-ATT
1511049 ATTTTTAAATTTTTATTTATTATATT
1 ATTTTTAAA-TTTTATTTATTATATT
1511075 ATTT
1 ATTT
1511079 AGATTTCGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 9 0.33
26 14 0.52
27 4 0.15
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
ATTTTTAAATTTTATTTATTATATT
Found at i:1519217 original size:21 final size:22
Alignment explanation
Indices: 1519178--1519219 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1519168 TATATACATT
*
1519178 TGTGTGTGTCATTAGGAATTCTA
1 TGTGTGTGT-ATTAAGAATTCTA
1519201 TGTGTGTGT-TTAAGAATTC
1 TGTGTGTGTATTAAGAATTC
1519220 GTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.45
Consensus pattern (22 bp):
TGTGTGTGTATTAAGAATTCTA
Found at i:1520573 original size:115 final size:115
Alignment explanation
Indices: 1520371--1520602 Score: 464
Period size: 115 Copynumber: 2.0 Consensus size: 115
1520361 CGTCATATCA
1520371 ACATTCAGTTACCCCTAGTAACTACTGTTAACGGAGAATGACTGATTTATTATAAATCGATAACT
1 ACATTCAGTTACCCCTAGTAACTACTGTTAACGGAGAATGACTGATTTATTATAAATCGATAACT
1520436 CGGTGATCAAATCATTACTTTTGAAATATTAATGAAAAAAAGAGAAACTT
66 CGGTGATCAAATCATTACTTTTGAAATATTAATGAAAAAAAGAGAAACTT
1520486 ACATTCAGTTACCCCTAGTAACTACTGTTAACGGAGAATGACTGATTTATTATAAATCGATAACT
1 ACATTCAGTTACCCCTAGTAACTACTGTTAACGGAGAATGACTGATTTATTATAAATCGATAACT
1520551 CGGTGATCAAATCATTACTTTTGAAATATTAATGAAAAAAAGAGAAACTT
66 CGGTGATCAAATCATTACTTTTGAAATATTAATGAAAAAAAGAGAAACTT
1520601 AC
1 AC
1520603 TCAAACATCA
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 117 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (115 bp):
ACATTCAGTTACCCCTAGTAACTACTGTTAACGGAGAATGACTGATTTATTATAAATCGATAACT
CGGTGATCAAATCATTACTTTTGAAATATTAATGAAAAAAAGAGAAACTT
Found at i:1521507 original size:115 final size:114
Alignment explanation
Indices: 1521349--1521562 Score: 347
Period size: 115 Copynumber: 1.9 Consensus size: 114
1521339 AATGCTTAAT
1521349 GTTCATAATGAACTAACATTTTTTGTGTATAAATCTCATGAAATATAGTAGAATAAATATGTACC
1 GTTCATAATGAACTAACATTTTTTGTGTATAAATCTCATGAAATATAGTAGAATAAATATGTACC
*
1521414 GTTAAATTTTATAAGCTCAACCTTTAGATATTTTCTTATATTCTTATAA
66 ATTAAATTTTATAAGCTCAACCTTTAGATATTTTCTTATATTCTTATAA
* * * * *
1521463 GTTCATAATGTACTACCATTTTTGTGTTTATAAATCTCATGAAATATAGTAGAATAGATGTGTAC
1 GTTCATAATGAACTAACATTTTT-TGTGTATAAATCTCATGAAATATAGTAGAATAAATATGTAC
* *
1521528 CATTAAATTTTATAAGTTCAACCTTTAGATGTTTT
65 CATTAAATTTTATAAGCTCAACCTTTAGATATTTT
1521563 ATTTCGCGGG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
114 21 0.23
115 70 0.77
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (114 bp):
GTTCATAATGAACTAACATTTTTTGTGTATAAATCTCATGAAATATAGTAGAATAAATATGTACC
ATTAAATTTTATAAGCTCAACCTTTAGATATTTTCTTATATTCTTATAA
Found at i:1526080 original size:45 final size:46
Alignment explanation
Indices: 1526011--1526117 Score: 164
Period size: 45 Copynumber: 2.3 Consensus size: 46
1526001 GGTGCACTAA
* * *
1526011 GAGTGCATCGATGCATGAAGTGCATTCGATG-TTTCA-AAATAGCCT
1 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACCCT
1526056 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
1 GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
1526102 GAGTGCATCGATGCAT
1 GAGTGCATCGATGCAT
1526118 GGTATGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
45 29 0.51
46 25 0.44
47 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (46 bp):
GAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACCCT
Found at i:1526189 original size:20 final size:20
Alignment explanation
Indices: 1526164--1526201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1526154 CAATTTATTC
1526164 ATTGGTACATCGATGCATGG
1 ATTGGTACATCGATGCATGG
* *
1526184 ATTGGTGCATCGGTGCAT
1 ATTGGTACATCGATGCAT
1526202 CCCTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATGG
Found at i:1532167 original size:16 final size:16
Alignment explanation
Indices: 1532146--1532179 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1532136 TTCAATGTGA
1532146 CATTTTGAATTATCAC
1 CATTTTGAATTATCAC
1532162 CATTTTGAATTATCAC
1 CATTTTGAATTATCAC
1532178 CA
1 CA
1532180 AAAGCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (16 bp):
CATTTTGAATTATCAC
Found at i:1534846 original size:64 final size:62
Alignment explanation
Indices: 1534713--1534835 Score: 140
Period size: 64 Copynumber: 1.9 Consensus size: 62
1534703 TGCACTAAGA
* * * * *
1534713 GTGCATCGATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATACA--GCTC
* *
1534777 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-ACCCTGAGTGCATGGATACA
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATACCCTGAGTGCATCGATACA
1534836 CATCGATGCA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
64 26 0.51
65 22 0.43
66 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATACCCTGAGTGCATCGATACAGCTC
Found at i:1534899 original size:20 final size:20
Alignment explanation
Indices: 1534874--1534911 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1534864 CAATTTATTC
1534874 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
1534894 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1534912 CATTTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:1537585 original size:20 final size:21
Alignment explanation
Indices: 1537543--1537588 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1537533 AATTTTGCAG
1537543 AGAAAACATCCCCAAACGACT
1 AGAAAACATCCCCAAACGACT
* *
1537564 AGAAATCATCCCC-AACGGCT
1 AGAAAACATCCCCAAACGACT
1537584 AGAAA
1 AGAAA
1537589 CAACCACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.46, C:0.30, G:0.13, T:0.11
Consensus pattern (21 bp):
AGAAAACATCCCCAAACGACT
Found at i:1538212 original size:2 final size:2
Alignment explanation
Indices: 1538205--1538230 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1538195 TATGATTAAA
1538205 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
1538231 TTAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1538619 original size:26 final size:30
Alignment explanation
Indices: 1538583--1538649 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 30
1538573 ATACAACTTT
1538583 TATTTACAAAAGAAATTA-AATT-ATTAT-A
1 TATTTA-AAAAGAAATTATAATTCATTATCA
* *
1538611 T-TTTAAAAATAAATTATTATTCATTATCA
1 TATTTAAAAAGAAATTATAATTCATTATCA
1538640 TATTTAAAAA
1 TATTTAAAAA
1538650 TCCAGAACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 10 0.30
27 7 0.21
28 6 0.18
29 2 0.06
30 8 0.24
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (30 bp):
TATTTAAAAAGAAATTATAATTCATTATCA
Found at i:1538987 original size:22 final size:23
Alignment explanation
Indices: 1538937--1538989 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
1538927 TAATAGAAAA
*
1538937 TGACTAAAATAAAAAAAAATTAG
1 TGACTAAAATAAAAAAAAATTAC
* * *
1538960 TAACTAAAAT-AAGAAACATTAC
1 TGACTAAAATAAAAAAAAATTAC
1538982 TGACTAAA
1 TGACTAAA
1538990 TTTGCGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.60, C:0.09, G:0.08, T:0.23
Consensus pattern (23 bp):
TGACTAAAATAAAAAAAAATTAC
Found at i:1544756 original size:20 final size:20
Alignment explanation
Indices: 1544731--1544835 Score: 122
Period size: 20 Copynumber: 5.2 Consensus size: 20
1544721 TTGTAAATCA
1544731 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
1544751 CAACACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
*
1544771 CAATACAGAAGTCAAATTCG
1 CAACACAGAAGTCAAATTCG
* ** *
1544791 CAACGC-GTTTGCCAAATTCG
1 CAACACAG-AAGTCAAATTCG
* *
1544811 CAACACTGAATTTCAAATTCG
1 CAACACAGAA-GTCAAATTCG
1544832 CAAC
1 CAAC
1544836 TGAATTTCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 5
0.82 0.13 0.06
Matches are distributed among these distances:
19 1 0.01
20 57 0.80
21 13 0.18
ACGTcount: A:0.40, C:0.26, G:0.14, T:0.20
Consensus pattern (20 bp):
CAACACAGAAGTCAAATTCG
Found at i:1544816 original size:60 final size:60
Alignment explanation
Indices: 1544743--1544880 Score: 158
Period size: 60 Copynumber: 2.3 Consensus size: 60
1544733 ACACAGAAGT
1544743 CAAATTCGCAACACAGAA-GTCAAATTCGCAATACAGAA-GTCAAATTCGCAACGCG-TTTGC
1 CAAATTCGCAACACAGAATGTCAAATTCGC-A-ACAGAATGTCAAATTCGCAACGCGATTT-C
* * * * * *
1544803 CAAATTCGCAACACTGAATTTCAAATTCGCAACTGAATTTCAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACAGAATGTCAAATTCGCAACAGAATGTCAAATTCGCAACGCGATTTC
*
1544863 CGAATTCGCAACAC-GAAT
1 CAAATTCGCAACACAGAAT
1544881 TTAATTTTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
59 9 0.13
60 46 0.68
61 13 0.19
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (60 bp):
CAAATTCGCAACACAGAATGTCAAATTCGCAACAGAATGTCAAATTCGCAACGCGATTTC
Found at i:1544868 original size:20 final size:20
Alignment explanation
Indices: 1544742--1544912 Score: 124
Period size: 20 Copynumber: 8.7 Consensus size: 20
1544732 AACACAGAAG
* *
1544742 TCAAATTCGCAACACAGAA-G
1 TCAAATTCGCAACTC-GAATT
*
1544762 TCAAATTCGCAA-TACAGAA-G
1 TCAAATTCGCAACT-C-GAATT
*
1544782 TCAAATTCGCAACGCG--TT
1 TCAAATTCGCAACTCGAATT
*
1544800 TGCCAAATTCGCAACACTGAATT
1 T--CAAATTCGCAACTC-GAATT
1544823 TCAAATTCGCAACT-GAATT
1 TCAAATTCGCAACTCGAATT
*
1544842 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACTCGAATT
* *
1544862 TCGAATTCGCAACACGAATT
1 TCAAATTCGCAACTCGAATT
* * *
1544882 T-AATTTTGCAACACGAATT
1 TCAAATTCGCAACTCGAATT
*
1544901 T-AATTTCGCAAC
1 TCAAATTCGCAAC
1544913 AGGTTTTAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.01
19 46 0.36
20 66 0.51
21 13 0.10
23 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.27
Consensus pattern (20 bp):
TCAAATTCGCAACTCGAATT
Found at i:1544894 original size:19 final size:19
Alignment explanation
Indices: 1544807--1544913 Score: 101
Period size: 19 Copynumber: 5.5 Consensus size: 19
1544797 GTTTGCCAAA
*
1544807 TTCGCAACACTGAATTTCAAA
1 TTCGCAACAC-GAATTT-AAT
* *
1544828 TTCGCAAC-TGAATTTCAAA
1 TTCGCAACACGAATTT-AAT
* *
1544847 TTCGCAACTCGATTTTCGAA-
1 TTCGCAACACGAATTT--AAT
1544867 TTCGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
*
1544886 TTTGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
1544905 TTCGCAACA
1 TTCGCAACA
1544914 GGTTTTAGTT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
18 2 0.03
19 44 0.59
20 19 0.25
21 10 0.13
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (19 bp):
TTCGCAACACGAATTTAAT
Found at i:1545898 original size:24 final size:24
Alignment explanation
Indices: 1545847--1545900 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1545837 GTATTCGAAA
*
1545847 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
1545871 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
1545895 TTTGAT
1 TTTGAT
1545901 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:1548834 original size:20 final size:20
Alignment explanation
Indices: 1548811--1548863 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1548801 AAACTTAAAT
*
1548811 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
1548831 TCGCAACGCAAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
1548851 TCGCAACGCGAAA
1 TCGCAACGCGAAA
1548864 CTAAATTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:1549281 original size:22 final size:22
Alignment explanation
Indices: 1549254--1549304 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1549244 GATGGAGATA
* *
1549254 GACGGATTTCGTCGGAGATGGG
1 GACGGATTACGTCAGAGATGGG
1549276 GACGGATTACGTCAGAGATGGG
1 GACGGATTACGTCAGAGATGGG
1549298 GACGGAT
1 GACGGAT
1549305 GTCGCCGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTACGTCAGAGATGGG
Found at i:1549479 original size:20 final size:20
Alignment explanation
Indices: 1549427--1549480 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1549417 ATAAACGTGC
* *
1549427 TTTGACTTCTATGTTTCGAA
1 TTTGACTTCTGTGTTTCAAA
*
1549447 TTTGACTTATGTGTTGT-AAA
1 TTTGACTTCTGTGTT-TCAAA
1549467 TTTGACTTCTGTGT
1 TTTGACTTCTGTGT
1549481 AGCGATTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.52
Consensus pattern (20 bp):
TTTGACTTCTGTGTTTCAAA
Found at i:1549507 original size:20 final size:20
Alignment explanation
Indices: 1549482--1549528 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1549472 CTTCTGTGTA
1549482 GCGATTTACAAATTCACGTT
1 GCGATTTACAAATTCACGTT
*
1549502 GCGATTTACAAATTCGCGTT
1 GCGATTTACAAATTCACGTT
*
1549522 ACGATTT
1 GCGATTT
1549529 TGGAAAATCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (20 bp):
GCGATTTACAAATTCACGTT
Found at i:1549604 original size:20 final size:20
Alignment explanation
Indices: 1549555--1549629 Score: 84
Period size: 19 Copynumber: 3.8 Consensus size: 20
1549545 GATTCACATA
*
1549555 TTCGCGTTGCGAATTTGGAAA
1 TTCGCGTTGCGAATTT-GAAG
*
1549576 TT-G-GATTGCGAAATTGAAG
1 TTCGCG-TTGCGAATTTGAAG
1549595 TTCGCGTTGCGAATTTG-AG
1 TTCGCGTTGCGAATTTGAAG
*
1549614 ATCGCGTTGCGAATTT
1 TTCGCGTTGCGAATTT
1549630 ATTGGTCATT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
19 23 0.49
20 21 0.45
21 3 0.06
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGAAG
Found at i:1549618 original size:19 final size:19
Alignment explanation
Indices: 1549556--1549629 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
1549546 ATTCACATAT
*
1549556 TCGCGTTGCGAATTTGGAAA
1 TCGCGTTGCGAATTT-GAGA
* * *
1549576 TTG-GATTGCGAAATTGAAGT
1 TCGCG-TTGCGAATTTG-AGA
1549596 TCGCGTTGCGAATTTGAGA
1 TCGCGTTGCGAATTTGAGA
1549615 TCGCGTTGCGAATTT
1 TCGCGTTGCGAATTT
1549630 ATTGGTCATT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
19 19 0.43
20 24 0.55
21 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.34
Consensus pattern (19 bp):
TCGCGTTGCGAATTTGAGA
Found at i:1553970 original size:3 final size:3
Alignment explanation
Indices: 1553950--1553990 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
1553940 TTCTAACATG
*
1553950 AAT AACT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAC AAT AA
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1553991 CAAAACAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:1553991 original size:6 final size:6
Alignment explanation
Indices: 1553950--1554001 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
1553940 TTCTAACATG
* * *
1553950 AATAAC TAATAA- AATAAT AATAAT AATAAT AATAAC AATAAC AA-AAC
1 AATAAC -AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC
1553997 AATAA
1 AATAA
1554002 AAACTCTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
5 10 0.24
6 27 0.64
7 5 0.12
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (6 bp):
AATAAC
Found at i:1560289 original size:23 final size:22
Alignment explanation
Indices: 1560246--1560289 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1560236 TCATACTTTA
*
1560246 TAATATTTTCTTGCTTTATTAC
1 TAATATTTTCTAGCTTTATTAC
1560268 TAATAGTTTTCTAG-TTTGATTA
1 TAATA-TTTTCTAGCTTT-ATTA
1560290 GACTTCAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (22 bp):
TAATATTTTCTAGCTTTATTAC
Found at i:1565922 original size:2 final size:2
Alignment explanation
Indices: 1565915--1565960 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1565905 ATTCAGAGTT
1565915 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1565957 TA TA
1 TA TA
1565961 CTTACAATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1565976 original size:15 final size:16
Alignment explanation
Indices: 1565966--1566001 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
1565956 ATATACTTAC
1565966 AATATTAATACAAACA
1 AATATTAATACAAACA
*
1565982 AATATTAATA-ATACA
1 AATATTAATACAAACA
1565997 AATAT
1 AATAT
1566002 ATCCAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATTAATACAAACA
Found at i:1566532 original size:48 final size:48
Alignment explanation
Indices: 1566465--1566583 Score: 238
Period size: 48 Copynumber: 2.5 Consensus size: 48
1566455 ATTAAAACAT
1566465 AATTCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTAGCATATAAA
1 AATTCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTAGCATATAAA
1566513 AATTCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTAGCATATAAA
1 AATTCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTAGCATATAAA
1566561 AATTCAGGTCAGGTAACAGATCA
1 AATTCAGGTCAGGTAACAGATCA
1566584 TATAACTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (48 bp):
AATTCAGGTCAGGTAACAGATCAGAATCCATGTCAAGTAGCATATAAA
Found at i:1567385 original size:29 final size:29
Alignment explanation
Indices: 1567235--1567412 Score: 157
Period size: 29 Copynumber: 6.2 Consensus size: 29
1567225 CTATTTTACA
* * * *
1567235 AAAATAGCACCATTTTTAAAATAATTACC
1 AAAATAACACCCTTTTTAAATTAATTCCC
* *
1567264 AAAATAACACCCTTTTTGAATTAATTTCC
1 AAAATAACACCCTTTTTAAATTAATTCCC
* *
1567293 AAAATAGCA--CTTTTCAAATTAAATTCCC
1 AAAATAACACCCTTTTTAAATT-AATTCCC
* *
1567321 AAAAT-A-GCCATTTTTCAAATTAAATTCCC
1 AAAATAACACCCTTTTT-AAATT-AATTCCC
*
1567350 AAAATAACACCCTTTTTGAATTAATTCCC
1 AAAATAACACCCTTTTTAAATTAATTCCC
* * * **
1567379 AAAATAATAGCCATTTCGAATTAATTCCC
1 AAAATAACACCCTTTTTAAATTAATTCCC
1567408 AAAAT
1 AAAAT
1567413 GTCACCCGAT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
27 9 0.07
28 15 0.12
29 87 0.71
30 5 0.04
31 7 0.06
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATAACACCCTTTTTAAATTAATTCCC
Found at i:1567449 original size:18 final size:17
Alignment explanation
Indices: 1567425--1567497 Score: 119
Period size: 18 Copynumber: 4.2 Consensus size: 17
1567415 CACCCGATAA
1567425 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
*
1567442 CAGGTCAACGGGTCGAGT
1 C-GGTCAACGGGTCGGGT
1567460 CGGGTCAACGGGTCGGGT
1 C-GGTCAACGGGTCGGGT
1567478 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
1567495 CGG
1 CGG
1567498 AACCGGTCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
17 20 0.38
18 32 0.62
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (17 bp):
CGGTCAACGGGTCGGGT
Found at i:1573206 original size:2 final size:2
Alignment explanation
Indices: 1573199--1573249 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
1573189 CATTCAGAGT
1573199 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1573241 TA TA TA TA T
1 TA TA TA TA T
1573250 CTTACAATAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1573823 original size:27 final size:27
Alignment explanation
Indices: 1573793--1573849 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
1573783 TGTCAAGTAG
1573793 CATATAAAAATTCAGGTCAGTAA-AGAT
1 CATATAAAAATTCAGGTCA-TAACAGAT
1573820 CATATAAAAATTCAGGTCATAACAGAT
1 CATATAAAAATTCAGGTCATAACAGAT
1573847 CAT
1 CAT
1573850 TATGATAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.26
Consensus pattern (27 bp):
CATATAAAAATTCAGGTCATAACAGAT
Found at i:1574571 original size:27 final size:28
Alignment explanation
Indices: 1574533--1574669 Score: 118
Period size: 27 Copynumber: 4.9 Consensus size: 28
1574523 AAATAGCACC
* * *
1574533 CTTTTTGAATT-AATTTCTAAAATATCA
1 CTTTTCGAATTAAATTCCCAAAATATCA
* * *
1574560 CTTTTCGAATTAAATTCCTAGAATAGCA
1 CTTTTCGAATTAAATTCCCAAAATATCA
* *
1574588 CCTTTTTCTAATTAAATTCCCAAAATAACA
1 -C-TTTTCGAATTAAATTCCCAAAATATCA
*
1574618 CTTCTCGAATT-AATTCCCAAAATATCA
1 CTTTTCGAATTAAATTCCCAAAATATCA
* *
1574645 CCCATTTCAAATT-AATTCCCAAAAT
1 --CTTTTCGAATTAAATTCCCAAAAT
1574670 GTTACCCGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
27 25 0.27
28 21 0.23
29 22 0.24
30 23 0.25
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (28 bp):
CTTTTCGAATTAAATTCCCAAAATATCA
Found at i:1574586 original size:57 final size:56
Alignment explanation
Indices: 1574521--1574669 Score: 165
Period size: 57 Copynumber: 2.6 Consensus size: 56
1574511 AAATAATTAA
* * * * *
1574521 CAAAATAGCACCCTTTTTGAATTAATTTCTAAAATATCACTTTTCGAATTAAATTCC
1 CAAAATAGCACCCTTTTTAAATTAATTCCCAAAATAACACTTCTCGAATT-AATTCC
* * *
1574578 TAGAATAGCA-CCTTTTTCTAATTAAATTCCCAAAATAACACTTCTCGAATTAATTCC
1 CAAAATAGCACCCTTTTT-AAATT-AATTCCCAAAATAACACTTCTCGAATTAATTCC
* * *
1574635 CAAAATATCACCCATTTCAAATTAATTCCCAAAAT
1 CAAAATAGCACCCTTTTTAAATTAATTCCCAAAAT
1574670 GTTACCCGAT
Statistics
Matches: 76, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
56 19 0.25
57 29 0.38
58 28 0.37
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (56 bp):
CAAAATAGCACCCTTTTTAAATTAATTCCCAAAATAACACTTCTCGAATTAATTCC
Found at i:1574658 original size:29 final size:29
Alignment explanation
Indices: 1574494--1574669 Score: 144
Period size: 29 Copynumber: 6.1 Consensus size: 29
1574484 TATTTTACAG
** * **
1574494 AAATAGCACCCTTTTTAAAATAATTAACA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
* * *
1574523 AAATAGCACCCTTTTTGAATTAATTTCTA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
* *
1574552 AAATATCA--CTTTTCGAATTAAATTCCTA
1 AAATAGCACCCTTTTCGAATT-AATTCCCA
* * *
1574580 GAATAGCACCTTTTTCTAATTAAATTCCCA
1 AAATAGCACCCTTTTCGAATT-AATTCCCA
* *
1574610 AAATA--ACACTTCTCGAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
* * *
1574637 AAATATCACCCATTTCAAATTAATTCCCA
1 AAATAGCACCCTTTTCGAATTAATTCCCA
1574666 AAAT
1 AAAT
1574670 GTTACCCGAT
Statistics
Matches: 120, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
27 23 0.19
28 23 0.19
29 53 0.44
30 21 0.17
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.35
Consensus pattern (29 bp):
AAATAGCACCCTTTTCGAATTAATTCCCA
Found at i:1574732 original size:18 final size:17
Alignment explanation
Indices: 1574690--1574750 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
1574680 CAACGGTCAA
1574690 CGGGTCGGGTCAACGTGT
1 CGGGTCGGGTCAACG-GT
*
1574708 CGAGTCGGGTCAACGGAT
1 CGGGTCGGGTCAACGG-T
*
1574726 CGGGTC-GGTCAATGGGT
1 CGGGTCGGGTCAA-CGGT
1574743 CGGGTCGG
1 CGGGTCGG
1574751 AACCGGTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.13, C:0.21, G:0.46, T:0.20
Consensus pattern (17 bp):
CGGGTCGGGTCAACGGT
Found at i:1575724 original size:86 final size:86
Alignment explanation
Indices: 1575575--1575746 Score: 274
Period size: 86 Copynumber: 2.0 Consensus size: 86
1575565 TTTCTTTTTC
* **
1575575 CACTTTAATTTTTTTAGTGTTGTGAATATTAAGGATGGCATAAGATGTAAAAGTATCTGAGACAT
1 CACTTTAATTTTTTTAGTGTTGTGAATATTAAGGATGACATAAGATGTAAAAGTATCCAAGACAT
*
1575640 GCAAAAACTTCATGAACGCTA
66 GAAAAAACTTCATGAACGCTA
1575661 CACTTTAATTTTTTTAGTGTTGTGAATATTCAA-GATGACATAAGATGTAAAAGTATCCAAGACA
1 CACTTTAATTTTTTTAGTGTTGTGAATATT-AAGGATGACATAAGATGTAAAAGTATCCAAGACA
* *
1575725 TGAAAAAATTTCATGAATGCTA
65 TGAAAAAACTTCATGAACGCTA
1575747 TTAATGGTCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 77 0.97
87 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (86 bp):
CACTTTAATTTTTTTAGTGTTGTGAATATTAAGGATGACATAAGATGTAAAAGTATCCAAGACAT
GAAAAAACTTCATGAACGCTA
Found at i:1576408 original size:21 final size:21
Alignment explanation
Indices: 1576384--1576424 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1576374 TCAAAGACAC
*
1576384 TTACCAAGGTACTTCATCTAT
1 TTACCAAGGTAATTCATCTAT
*
1576405 TTACCAATGTAATTCATCTA
1 TTACCAAGGTAATTCATCTA
1576425 CTTCCACTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (21 bp):
TTACCAAGGTAATTCATCTAT
Found at i:1578363 original size:255 final size:253
Alignment explanation
Indices: 1577916--1578423 Score: 950
Period size: 255 Copynumber: 2.0 Consensus size: 253
1577906 TAATAGTGTA
1577916 GGGTGATTAAAAAATATGTGAATCTTGTGCTACTTTATTAAAACGAGGATCTAAAATATATAATA
1 GGGTGATTAAAAAATATGTGAATCTTGTGCTACTTTATTAAAACGAGGATCTAAAATATATAATA
1577981 AGGTGAAAATGTAAAATATCAAAATTTAAAAGATTGAAACTATAATGGACATAAGAATTTTTTGT
66 AGGTGAAAATGTAAAATATCAAAATTTAAAAGATTGAAACTATAATGGACATAAGAATTTTTTGT
1578046 TCATAAACACCATAAATTTGGTTAATTTTTATAAATAATTTATTGCAATGAATTTTTGAGATAAT
131 TCATAAACACCATAAATTTGGTTAATTTTTATAAATAATTTATTGCAATGAATTTTTGAGATAAT
1578111 AAGAGAGAAATTAGAAAGTTG-TTTTTTGTTAAA-ATTGTCAAGAGAAAATAATATTT
196 AAGAGAGAAATTAGAAAGTTGTTTTTTTGTTAAATATTGTCAAGAGAAAATAATATTT
1578167 GGGTGATTAAAAAATATGTGAATCTTGTGCTACTTTATTAAAACGAGGATCCTAAAATATATTAT
1 GGGTGATTAAAAAATATGTGAATCTTGTGCTACTTTATTAAAACGAGGAT-CT-AAA-ATA-TAT
1578232 AATAAGGTGAAAATGTAAAATATCAAAATTTAAAAAGATTGAAACTATAATGGACATAAGAATTT
62 AATAAGGTGAAAATGTAAAATATCAAAATTT-AAAAGATTGAAACTATAATGGACATAAGAATTT
1578297 TTTGTTCATAAACACCATAAATTTGGTTAA-TTTTATAAATAATTTATTGCAATGAATTTTTGAG
126 TTTGTTCATAAACACCATAAATTTGGTTAATTTTTATAAATAATTTATTGCAATGAATTTTTGAG
1578361 ATAATAAGAGAGAAATTAGAAAGTTGTTTTTTTGTTAAATATTGTCAAGAGAAAATAATATTT
191 ATAATAAGAGAGAAATTAGAAAGTTGTTTTTTTGTTAAATATTGTCAAGAGAAAATAATATTT
1578424 TATAGGTTAG
Statistics
Matches: 250, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
251 50 0.20
252 2 0.01
253 3 0.01
254 3 0.01
255 94 0.38
256 75 0.30
257 23 0.09
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (253 bp):
GGGTGATTAAAAAATATGTGAATCTTGTGCTACTTTATTAAAACGAGGATCTAAAATATATAATA
AGGTGAAAATGTAAAATATCAAAATTTAAAAGATTGAAACTATAATGGACATAAGAATTTTTTGT
TCATAAACACCATAAATTTGGTTAATTTTTATAAATAATTTATTGCAATGAATTTTTGAGATAAT
AAGAGAGAAATTAGAAAGTTGTTTTTTTGTTAAATATTGTCAAGAGAAAATAATATTT
Found at i:1585768 original size:20 final size:20
Alignment explanation
Indices: 1585745--1585812 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
1585735 TTATGGGGGC
1585745 ATCGATACTCTACCCTTGGT
1 ATCGATACTCTACCCTTGGT
*
1585765 ATCGATACTCTACCCTTAGT
1 ATCGATACTCTACCCTTGGT
*
1585785 ATCGATACCCTACCCTTGGT
1 ATCGATACTCTACCCTTGGT
1585805 ATCGATAC
1 ATCGATAC
1585813 CCCCTAAGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (20 bp):
ATCGATACTCTACCCTTGGT
Found at i:1587792 original size:21 final size:21
Alignment explanation
Indices: 1587768--1587810 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1587758 TATACAACTT
1587768 TAATGTGTATATGTATA-TATA
1 TAATGTGTATAT-TATAGTATA
1587789 TAATGTGTATATTATAGTATA
1 TAATGTGTATATTATAGTATA
1587810 T
1 T
1587811 TTTTTGAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
TAATGTGTATATTATAGTATA
Found at i:1587997 original size:46 final size:48
Alignment explanation
Indices: 1587880--1588001 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 48
1587870 GAAAATGTAT
* *
1587880 ATATATATAATATATTATATATTTTTGAAAATATATAAAATTTTGAAA
1 ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
* * * *
1587928 ACATATTTAATATATT-TA-ATTTTTGAAAACAT-GCAGATTTTGAAA
1 ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
1587973 ATATA-AT-ATATATTATATAGTTTTT-AAAA
1 ATATATATAATATATTATATA-TTTTTGAAAA
1588002 TTCTATAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
43 7 0.11
44 3 0.05
45 19 0.30
46 18 0.29
47 2 0.03
48 14 0.22
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (48 bp):
ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
Found at i:1588221 original size:21 final size:21
Alignment explanation
Indices: 1588191--1588252 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
1588181 GACTACCGCA
* *
1588191 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTTCTAATTCGCG
*
1588212 TTGCGGTTTTTCTAATTCGCG
1 TTGCGATTTTTCTAATTCGCG
1588233 TTGCGATTTTTCTAATTCGC
1 TTGCGATTTTTCTAATTCGC
1588253 AATGCGAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (21 bp):
TTGCGATTTTTCTAATTCGCG
Found at i:1588258 original size:21 final size:21
Alignment explanation
Indices: 1588187--1588259 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
1588177 TTCTGACTAC
* *
1588187 CGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTTTTCTAATT
* *
1588208 CGCGTTGCGGTTTTTCTAATT
1 CGCATTGCGATTTTTCTAATT
*
1588229 CGCGTTGCGATTTTTCTAATT
1 CGCATTGCGATTTTTCTAATT
*
1588250 CGCAATGCGA
1 CGCATTGCGA
1588260 ATACGTAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.40
Consensus pattern (21 bp):
CGCATTGCGATTTTTCTAATT
Found at i:1588274 original size:20 final size:20
Alignment explanation
Indices: 1588249--1588342 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
1588239 TTTTTCTAAT
1588249 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** *
1588269 TCGCAACT-CGAATTTGGAAAA
1 TCGCAA-TGCGAA-TACGTAAA
*
1588290 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1588310 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1588330 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1588343 CTGACTATCG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
20 48 0.76
21 15 0.24
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1588306 original size:41 final size:40
Alignment explanation
Indices: 1588249--1588342 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 40
1588239 TTTTTCTAAT
**
1588249 TCGCAATGCGAATACGTAAATCGCAACT-CGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAA-TGCGAA-TACGAAAA
* *
1588290 TCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGAAAA
1588330 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1588343 CTGACTATCG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
40 18 0.38
41 29 0.62
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATACGAAAA
Found at i:1588352 original size:20 final size:20
Alignment explanation
Indices: 1588342--1588435 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
1588332 GCAATGCGAA
* * *
1588342 TCTGACTATCGCAATGCGAA
1 TCTGACTATCGCAACGAGAT
1588362 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
1588382 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
1588402 TCTGACTATCGCAACGAGAT
1 TCTGACTATCGCAACGAGAT
*
1588422 TCTGACAATCGCAA
1 TCTGACTATCGCAA
1588436 TACTGAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
TCTGACTATCGCAACGAGAT
Found at i:1589304 original size:24 final size:24
Alignment explanation
Indices: 1589277--1589330 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1589267 GTATTCAAAA
1589277 TTTGATATTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* * *
1589301 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1589325 TTTGAT
1 TTTGAT
1589331 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1590065 original size:20 final size:20
Alignment explanation
Indices: 1590042--1590109 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
1590032 TTATGGGGGC
1590042 ATCGATACTCTACCCTTGGT
1 ATCGATACTCTACCCTTGGT
*
1590062 ATCGATACTCTACCCTTAGT
1 ATCGATACTCTACCCTTGGT
1590082 ATCGATACTCTACCCTTGGT
1 ATCGATACTCTACCCTTGGT
1590102 ATCGATAC
1 ATCGATAC
1590110 CCCCTAAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCGATACTCTACCCTTGGT
Found at i:1592089 original size:21 final size:21
Alignment explanation
Indices: 1592065--1592107 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
1592055 TATACAACTT
1592065 TAATGTGTATATGTATA-TATA
1 TAATGTGTATAT-TATAGTATA
1592086 TAATGTGTATATTATAGTATA
1 TAATGTGTATATTATAGTATA
1592107 T
1 T
1592108 TTTTTTAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
TAATGTGTATATTATAGTATA
Found at i:1592207 original size:34 final size:36
Alignment explanation
Indices: 1592142--1592213 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
1592132 ATATATATGG
* *
1592142 TATATATACTATAAAATATAATTTTCAGAAAATGTA
1 TATATATAATATAAAATATAATTTTCAGAAAATATA
** *
1592178 TATATATAATATATTATAT-ATTTT-TGAAAATATA
1 TATATATAATATAAAATATAATTTTCAGAAAATATA
1592212 TA
1 TA
1592214 AAATTTTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 10 0.32
35 5 0.16
36 16 0.52
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (36 bp):
TATATATAATATAAAATATAATTTTCAGAAAATATA
Found at i:1592294 original size:46 final size:48
Alignment explanation
Indices: 1592177--1592298 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 48
1592167 CAGAAAATGT
* *
1592177 ATATATATAATATATTATATATTTTTGAAAATATATAAAATTTTGAAA
1 ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
* * * *
1592225 ACATATTTAATATATT-TA-ATTTTTGAAAACAT-GCAGATTTTGAAA
1 ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
1592270 ATATA-AT-ATATATTATATAGTTTTT-AAAA
1 ATATATATAATATATTATATA-TTTTTGAAAA
1592299 TTCTATAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
43 7 0.11
44 3 0.05
45 19 0.30
46 18 0.29
47 2 0.03
48 14 0.22
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (48 bp):
ATATATATAATATATTATATATTTTTGAAAACATAGAAAATTTTGAAA
Found at i:1592534 original size:21 final size:22
Alignment explanation
Indices: 1592484--1592535 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
1592474 TTCTGACTAC
1592484 CGCATTGCG-TTTTTCCAAATT
1 CGCATTGCGATTTTTCCAAATT
* *
1592505 CGCGTTGCGATTTTT-CTAATT
1 CGCATTGCGATTTTTCCAAATT
*
1592526 CGCAATGCGA
1 CGCATTGCGA
1592536 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (22 bp):
CGCATTGCGATTTTTCCAAATT
Found at i:1592550 original size:20 final size:20
Alignment explanation
Indices: 1592525--1592617 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
1592515 TTTTTCTAAT
1592525 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1592545 TCGCAACGCGAATTTGGAATA
1 TCGCAATGCGAATACGTAA-A
*
1592566 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
**
1592586 TCGCAATGC-AAT-CTGTCTA
1 TCGCAATGCGAATAC-GTAAA
1592605 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1592618 CTGACTATCG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 1 0.02
19 14 0.24
20 28 0.48
21 15 0.26
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1592620 original size:20 final size:20
Alignment explanation
Indices: 1592585--1592651 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
1592575 GATTACGTAA
*
1592585 ATCGCAATGC-AATCTGTCT
1 ATCGCAATGCGAATCTGACT
1592604 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
* * *
1592624 ATCGCAACGAGATTCTGACT
1 ATCGCAATGCGAATCTGACT
1592644 ATCGCAAT
1 ATCGCAAT
1592652 ACTGAATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 10 0.24
20 32 0.76
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:1593518 original size:24 final size:24
Alignment explanation
Indices: 1593491--1593544 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
1593481 GTATTCAAAA
1593491 TTTGATCTTGGTCAATAAC-CGGAC
1 TTTGATCTTGGTCAAT-ACTCGGAC
*
1593515 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCGGAC
1593539 TTTGAT
1 TTTGAT
1593545 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCGGAC
Found at i:1596001 original size:20 final size:21
Alignment explanation
Indices: 1595976--1596084 Score: 138
Period size: 20 Copynumber: 5.4 Consensus size: 21
1595966 CAACGCGGAA
1595976 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAATATGACT
* *
1595996 ATCGCAACAC-GAAAATGACT
1 ATCGCAACGCGGAATATGACT
* *
1596016 ATCGTAACGCGGAAT-TGATT
1 ATCGCAACGCGGAATATGACT
1596036 ATCGCAACGCGGAAT-TGACT
1 ATCGCAACGCGGAATATGACT
1596056 ATCGCAACGCGGAA-ATGACT
1 ATCGCAACGCGGAATATGACT
*
1596076 ATTGCAACG
1 ATCGCAACG
1596085 AGAGAATCGC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
20 75 0.96
21 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGGAATATGACT
Found at i:1596207 original size:14 final size:14
Alignment explanation
Indices: 1596188--1596241 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
1596178 CATTTTTGCA
1596188 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1596202 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1596219 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1596235 TTGCGAT
1 TTGCGAT
1596242 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1596227 original size:33 final size:33
Alignment explanation
Indices: 1596166--1596261 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
1596156 TTTAGTTTCG
*
1596166 CGTTGCGATTTTCATTTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1596200 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
1596233 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
1596262 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 33 0.58
34 24 0.42
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1596386 original size:14 final size:14
Alignment explanation
Indices: 1596367--1596403 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1596357 CATCAATTAA
1596367 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1596381 ACAAATCATCTTTT
1 ACAAATCAACATTT
1596395 ACAAATCAA
1 ACAAATCAA
1596404 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1597877 original size:42 final size:42
Alignment explanation
Indices: 1597798--1597890 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1597788 CATCTACAAC
* * *
1597798 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1597840 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1597882 GATGACAGG
1 GATGACAGG
1597891 TGAGTCGGGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1598392 original size:20 final size:20
Alignment explanation
Indices: 1598370--1598498 Score: 150
Period size: 20 Copynumber: 6.5 Consensus size: 20
1598360 GAAACTTAAA
*
1598370 ATCGCAACGCGAAAATGACA
1 ATCGCAACGCGAAAATGACT
*
1598390 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1598410 ATCGCAACGCGAAAATAACT
1 ATCGCAACGCGAAAATGACT
*
1598430 ATCGCGACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1598450 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* * ** *
1598470 ATCACAATGCGAATTTAACT
1 ATCGCAACGCGAAAATGACT
1598490 ATCGCAACG
1 ATCGCAACG
1598499 AGAGAATCGC
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 95 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1598469 original size:60 final size:60
Alignment explanation
Indices: 1598370--1598498 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
1598360 GAAACTTAAA
* *
1598370 ATCGCAACGCGAAAATGACAATCGCAACGTGAAAATGACTATCGCAACGCGAAAATAACT
1 ATCGCAACGCGAAAATGACAATCGCAACGCGAAAATGACTATCACAACGCGAAAATAACT
* * * ** * **
1598430 ATCGCGACGCGAAAATGACTATCGCAATGCGAATTTGACTATCACAATGCGAATTTAACT
1 ATCGCAACGCGAAAATGACAATCGCAACGCGAAAATGACTATCACAACGCGAAAATAACT
1598490 ATCGCAACG
1 ATCGCAACG
1598499 AGAGAATCGC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (60 bp):
ATCGCAACGCGAAAATGACAATCGCAACGCGAAAATGACTATCACAACGCGAAAATAACT
Found at i:1598580 original size:20 final size:20
Alignment explanation
Indices: 1598543--1598717 Score: 144
Period size: 20 Copynumber: 9.4 Consensus size: 20
1598533 AATTCTTTCG
* **
1598543 TTGCGATAATCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1598563 TTACGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1598583 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1598603 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
**
1598623 TT--G-TA---ATTTT-GTTG
1 TTGCGATAGTCATTTTCG-CA
**
1598637 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1598656 TTGCGAT--TC-TCTT-G--
1 TTGCGATAGTCATTTTCGCA
*
1598670 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1598690 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1598710 TTGCGATA
1 TTGCGATA
1598718 ATAAACTATT
Statistics
Matches: 127, Mismatches: 13, Indels: 30
0.75 0.08 0.18
Matches are distributed among these distances:
13 1 0.01
14 15 0.12
16 4 0.03
17 10 0.08
18 2 0.02
19 10 0.08
20 85 0.67
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Done.