Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 126 of 362
Found at i:41672192 original size:31 final size:32
Alignment explanation
Indices: 41672149--41672221 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
41672139 TGTACGTGTT
41672149 AGACCATAGCAAGG-CTATGGT-GATATGTGCA
1 AGACCATAGCAAGGTC-ATGGTAGATATGTGCA
* * *
41672180 AGACCATGGCAAGGTCATGGTAATATATGTGTA
1 AGACCATAGCAAGGTCATGGT-AGATATGTGCA
41672213 AGACCATAG
1 AGACCATAG
41672222 TTAGACTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 18 0.51
32 1 0.03
33 16 0.46
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.23
Consensus pattern (32 bp):
AGACCATAGCAAGGTCATGGTAGATATGTGCA
Found at i:41672884 original size:27 final size:27
Alignment explanation
Indices: 41672846--41672923 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
41672836 CATTACCCCG
*
41672846 TGTTTATCATCCCA-GAGGACTATCCCA
1 TGTTTATCATCCCATCA-GACTATCCCA
*
41672873 TGTTTAGT-ATCCCATCAGACTATCCCG
1 TGTTTA-TCATCCCATCAGACTATCCCA
* *
41672900 TGTTTAAT-GTCCCATCAAACTATC
1 TGTTT-ATCATCCCATCAGACTATC
41672924 TATGATGCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 41 0.93
28 3 0.07
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (27 bp):
TGTTTATCATCCCATCAGACTATCCCA
Found at i:41675845 original size:22 final size:22
Alignment explanation
Indices: 41675817--41675860 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
41675807 ATTAAATAGA
41675817 AATAAAAATCATTTATATCATC
1 AATAAAAATCATTTATATCATC
41675839 AATAAAAATCATTTATATCATC
1 AATAAAAATCATTTATATCATC
41675861 TTCTTCCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (22 bp):
AATAAAAATCATTTATATCATC
Found at i:41677036 original size:57 final size:59
Alignment explanation
Indices: 41676946--41677086 Score: 139
Period size: 57 Copynumber: 2.4 Consensus size: 59
41676936 GTTATGGATT
* * *
41676946 GGATTTAGCCCGGACAGGTAATCC-AGATCAAGCTCTT-TAGAGCAT-ATGTCATAAAAA
1 GGATTTAGCCTGGACTGGTAATCCTAGATCAAGCT-TTATAGAGCATAATATCATAAAAA
* * * * *
41677003 GGATTTAGCCTGGACTGGTAATCCTA-A-CTAAGCTTTATTGAGTATAAATATTATAGACA
1 GGATTTAGCCTGGACTGGTAATCCTAGATC-AAGCTTTATAGAGCAT-AATATCATAAAAA
*
41677062 GGATTTAGCCTAGACTGGTAATCCT
1 GGATTTAGCCTGGACTGGTAATCCT
41677087 GTTGTATACA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
56 3 0.04
57 34 0.49
58 1 0.01
59 32 0.46
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (59 bp):
GGATTTAGCCTGGACTGGTAATCCTAGATCAAGCTTTATAGAGCATAATATCATAAAAA
Found at i:41678603 original size:21 final size:21
Alignment explanation
Indices: 41678566--41678605 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41678556 CTGTAACTAG
*
41678566 GAAAAATTTTTGAAATTTCAC
1 GAAAAATTTTAGAAATTTCAC
41678587 GAAAAATTCTTAG-AATTTC
1 GAAAAATT-TTAGAAATTTC
41678606 TGATTAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (21 bp):
GAAAAATTTTAGAAATTTCAC
Found at i:41681743 original size:21 final size:21
Alignment explanation
Indices: 41681719--41681765 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
41681709 TTACCACAAG
41681719 TTCATCATATCTCATGTCATT
1 TTCATCATATCTCATGTCATT
41681740 TTCATCATATCTCATGTCATT
1 TTCATCATATCTCATGTCATT
*
41681761 CTCAT
1 TTCAT
41681766 GAGTTCGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (21 bp):
TTCATCATATCTCATGTCATT
Found at i:41681763 original size:11 final size:12
Alignment explanation
Indices: 41681723--41681766 Score: 51
Period size: 11 Copynumber: 4.0 Consensus size: 12
41681713 CACAAGTTCA
41681723 TCATATCTCATG
1 TCATATCTCATG
*
41681735 TCAT-TTTCA--
1 TCATATCTCATG
41681744 TCATATCTCATG
1 TCATATCTCATG
41681756 TCAT-TCTCATG
1 TCATATCTCATG
41681767 AGTTCGATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 11 0.41
12 8 0.30
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (12 bp):
TCATATCTCATG
Found at i:41686731 original size:32 final size:32
Alignment explanation
Indices: 41686683--41686750 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
41686673 AAAGATGTTC
* *
41686683 ATCACACATTAGACTTTCATAATCTTCCATTA
1 ATCACACATCAAACTTTCATAATCTTCCATTA
41686715 ATCACACATCAAACTTTCATAATCTTCCATTA
1 ATCACACATCAAACTTTCATAATCTTCCATTA
41686747 ATCA
1 ATCA
41686751 TCAAAGTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.35
Consensus pattern (32 bp):
ATCACACATCAAACTTTCATAATCTTCCATTA
Found at i:41688412 original size:47 final size:47
Alignment explanation
Indices: 41688361--41688677 Score: 492
Period size: 47 Copynumber: 6.7 Consensus size: 47
41688351 TTAGGATTCT
* * *
41688361 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
41688408 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
41688455 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
41688502 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGTCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41688549 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
41688596 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
41688643 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41688678 TCCCTAAGGG
Statistics
Matches: 251, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 250 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41688852 original size:37 final size:37
Alignment explanation
Indices: 41688799--41688871 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
41688789 AGCTCTAAAG
* * *
41688799 ACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAC
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAC
*
41688836 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
41688872 GACTTCGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAC
Found at i:41690992 original size:40 final size:40
Alignment explanation
Indices: 41690721--41691061 Score: 363
Period size: 40 Copynumber: 8.6 Consensus size: 40
41690711 TCGAATGATG
* *
41690721 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
41690761 TCCGGACTAAGAT-CCGAAG-GCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * * *
41690801 TCTGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
41690841 ACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
41690881 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
41690921 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
41690961 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * * *
41691001 TCCGTACTAA-ACCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
41691040 T-CGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
41691062 ATCATGCTGG
Statistics
Matches: 263, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
38 5 0.02
39 38 0.14
40 199 0.76
41 21 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:41693600 original size:47 final size:47
Alignment explanation
Indices: 41693549--41693818 Score: 461
Period size: 47 Copynumber: 5.7 Consensus size: 47
41693539 TTAGGATTCT
* * *
41693549 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
41693596 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** *
41693643 ATGTGACAAAAGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41693690 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41693737 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
41693784 ATGTGATGAATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41693819 TCCCGAAGGG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 211 1.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41693996 original size:37 final size:37
Alignment explanation
Indices: 41693936--41694014 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41693926 CCGAGCTCTA
* * *
41693936 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
*
41693973 AAGACCCGATAACTTCGTCTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
41694010 AAGAC
1 AAGAC
41694015 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTCTGGAGATTATGTCCGGGT
Found at i:41705510 original size:23 final size:23
Alignment explanation
Indices: 41705483--41705527 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
41705473 CTCTGTTTAC
*
41705483 GCACTTTGGAGTTGTCCTGTTAT
1 GCACTTTGGAGTTGTCCCGTTAT
*
41705506 GCACTTTGGTGTTGTCCCGTTA
1 GCACTTTGGAGTTGTCCCGTTA
41705528 CACATTTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.42
Consensus pattern (23 bp):
GCACTTTGGAGTTGTCCCGTTAT
Found at i:41706283 original size:19 final size:19
Alignment explanation
Indices: 41706259--41706296 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
41706249 ATGTTAAATG
41706259 ATAGATTATGAATCTTTGT
1 ATAGATTATGAATCTTTGT
41706278 ATAGATTATGAATCTTTGT
1 ATAGATTATGAATCTTTGT
41706297 TGAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
ATAGATTATGAATCTTTGT
Found at i:41711679 original size:7 final size:8
Alignment explanation
Indices: 41711647--41711684 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
41711637 GTCACGTTAA
41711647 TAAATAATT
1 TAAA-AATT
41711656 TAAAAATT
1 TAAAAATT
41711664 ATAAAAATT
1 -TAAAAATT
41711673 T-AAAATT
1 TAAAAATT
41711680 TAAAA
1 TAAAA
41711685 CAAACCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.26
8 8 0.30
9 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAAATT
Found at i:41712780 original size:48 final size:48
Alignment explanation
Indices: 41712709--41712802 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
41712699 GTCGAGATCC
41712709 ATTGTAGTGGCACAAAATGTCGTCGAACAAAGTAGTTGGTACGAATCT
1 ATTGTAGTGGCACAAAATGTCGTCGAACAAAGTAGTTGGTACGAATCT
41712757 ATTGTAGTGGCACAAAATGTCGTCGAACAAAGTAGTTGGTACGAAT
1 ATTGTAGTGGCACAAAATGTCGTCGAACAAAGTAGTTGGTACGAAT
41712803 TGAAAATACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (48 bp):
ATTGTAGTGGCACAAAATGTCGTCGAACAAAGTAGTTGGTACGAATCT
Found at i:41731186 original size:13 final size:14
Alignment explanation
Indices: 41731158--41731192 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
41731148 GTTTCAAACA
41731158 ATTTCAAGAATCAAG
1 ATTTCAAG-ATCAAG
41731173 ATTTCAAG-TCAAG
1 ATTTCAAGATCAAG
41731186 ATTTCAA
1 ATTTCAA
41731193 ATCTTGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.31
Consensus pattern (14 bp):
ATTTCAAGATCAAG
Found at i:41732598 original size:38 final size:39
Alignment explanation
Indices: 41732551--41732627 Score: 147
Period size: 38 Copynumber: 2.0 Consensus size: 39
41732541 TATTAATATG
41732551 ATTAAATCACATCTACAAGTAAACTAGAAGTTTG-TAAT
1 ATTAAATCACATCTACAAGTAAACTAGAAGTTTGCTAAT
41732589 ATTAAATCACATCTACAAGTAAACTAGAAGTTTGCTAAT
1 ATTAAATCACATCTACAAGTAAACTAGAAGTTTGCTAAT
41732628 CCAAAAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 34 0.89
39 4 0.11
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.31
Consensus pattern (39 bp):
ATTAAATCACATCTACAAGTAAACTAGAAGTTTGCTAAT
Found at i:41737925 original size:180 final size:180
Alignment explanation
Indices: 41737654--41738011 Score: 513
Period size: 180 Copynumber: 2.0 Consensus size: 180
41737644 GAGCTACGGA
* *
41737654 ACTCCAAATTAAGATCCACTAATTTTCCCAGAAACTAGACTCACATATATTCTTACCATAAAATT
1 ACTCCAAATTAAGAACCACTAATTTTCCCAGAAACTAGACTCACATATATTATTACCATAAAATT
* * * * * *
41737719 TTCAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATAGATAAAATTTGCCTCTATTTCACTGTC
66 TTAAGAATTTTTGGTTTAGCCAATTAGTACAATTTATACATAAAATATACCCCTATTTCACTGTC
41737784 CAACAGTT-TCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
131 CAACAGTTCT-GACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
* *
41737834 ACTCCAAATTAAGAACCTCTAATTTTCCCAGAAA-TGAGACTCGCATATATTATTACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCCCAGAAACT-AGACTCACATATATTATTACCATAAAAT
* * *
41737898 TTTAATAATTTTTGGTTTAGCCAATTAGTACAATTTATTCATTAAATATACCCCTATTTCACTGT
65 TTTAAGAATTTTTGGTTTAGCCAATTAGTACAATTTATACATAAAATATACCCCTATTTCACTGT
** * * * *
41737963 CTTATAGTTCTGATCTTTCTTTACTAAAAATTATTTATCTCATGGTACA
130 CCAACAGTTCTGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACA
41738012 GATCTCGGAT
Statistics
Matches: 157, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
179 1 0.01
180 155 0.99
181 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCACTAATTTTCCCAGAAACTAGACTCACATATATTATTACCATAAAATT
TTAAGAATTTTTGGTTTAGCCAATTAGTACAATTTATACATAAAATATACCCCTATTTCACTGTC
CAACAGTTCTGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAAG
Found at i:41738628 original size:50 final size:50
Alignment explanation
Indices: 41738553--41738991 Score: 342
Period size: 50 Copynumber: 8.8 Consensus size: 50
41738543 ACCGAAGCTC
* *
41738553 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** * *
41738603 TCTGGTACACGTAGTAGCATACACTTAGTACTACACACATGACTTATCGA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * ** *
41738653 TCTGATACACATAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTGAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAA
* *
41738705 -CGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * *
41738754 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACGCACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * * * * ** * *
41738804 TCTGATACACGTAGTA----G-A-GTACTACTACACACGTGATCGAAACTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAA
* * * * *
41738849 TC-GAGTACGCATAGTAGCTTGCACTTAGTGCTACACATGCGACCTAACAA
1 TCTG-GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* * *
41738899 TTTGGTACACGTAGTAGCCTGCACTTAGTACTACGCATGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
* *
41738947 ACTGTCTTAAACACATAGTAGCCTGCACATT-GTACTACACATGTG
1 TCTG--GT--ACACATAGTAGCCTGCAC-TTAGTACTACACATGTG
41738992 TTCTCACAAT
Statistics
Matches: 307, Mismatches: 65, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
44 16 0.05
45 17 0.06
46 1 0.00
48 4 0.01
49 4 0.01
50 179 0.58
51 52 0.17
52 32 0.10
53 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
Found at i:41738739 original size:101 final size:100
Alignment explanation
Indices: 41738553--41738797 Score: 285
Period size: 101 Copynumber: 2.4 Consensus size: 100
41738543 ACCGAAGCTC
* * * * * *
41738553 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCGGGTACACATAGT
* *
41738618 AGCATACACTTAGTACTACACACATGACTTATCGA
66 AGCATACACTTAGTACTACACACATGACCTATCAA
* * * * *
41738653 TCTGATACACATAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTGAA-CGGGTACGCATA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TCAATCGGGTACACATA
* * **
41738717 GTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
64 GTAGCATACACTTAGTACTACACACATGACCTATCAA
* * *
41738754 TCCGGTACACGTAGTAGCCTGCACTTAGTACTACGCACGTGACC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
41738798 TAACCATCTG
Statistics
Matches: 120, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
100 38 0.32
101 79 0.66
102 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (100 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCGGGTACACATAGT
AGCATACACTTAGTACTACACACATGACCTATCAA
Found at i:41738893 original size:145 final size:148
Alignment explanation
Indices: 41738557--41738945 Score: 534
Period size: 145 Copynumber: 2.6 Consensus size: 148
41738547 AAGCTCTCTG
*
41738557 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCA
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
* * * * * * * *
41738622 TACACTTAGTACTACACACATGACTTATCGATCTGATACACATAGTATCCTGCACTTAGTACTAC
66 TGCACTTAGTACTACGCACGTGACCTAACCATCTGATACACATAGTA--C-GCACGTACTACTAC
* *
41738687 ACACGTGATCGAAGTGAACGG
128 ACACGTGATCGAACTGAACGA
* *
41738708 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
*
41738773 TGCACTTAGTACTACGCACGTGACCTAACCATCTGATACACGTAGTA-G-A-GTACTACTACACA
66 TGCACTTAGTACTACGCACGTGACCTAACCATCTGATACACATAGTACGCACGTACTACTACACA
*
41738835 CGTGATCGAAACT-ATCGA
131 CGTGATCG-AACTGAACGA
* * * *
41738853 GTACGCATAGTAGCTTGCACTTAGTGCTACACATGCGACCTAACAATTTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
*
41738918 TGCACTTAGTACTACGCATGTGACCTAA
66 TGCACTTAGTACTACGCACGTGACCTAA
41738946 AACTGTCTTA
Statistics
Matches: 215, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
145 108 0.50
146 4 0.02
147 1 0.00
151 102 0.47
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (148 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACGCACGTGACCTAACCATCTGATACACATAGTACGCACGTACTACTACACA
CGTGATCGAACTGAACGA
Found at i:41754897 original size:93 final size:93
Alignment explanation
Indices: 41754790--41754961 Score: 213
Period size: 93 Copynumber: 1.8 Consensus size: 93
41754780 GCCCATAAGT
** *
41754790 GAACTCGAACTCAACTC-AATGAGCTCGGGCGCTCGCATCCATAAGTGAACT-GAGACGCAACTC
1 GAACTCGAACTCAACTCGAAT-AGCTCGAACACTCGCATCCATAAGTGAACTCGA-ACGCAACTC
*
41754853 AACGAGCTCGGATGCCTAGTTACATCTCTC
64 AACGAGCTCCGATGCCTAGTTACATCTCTC
* * * * * *
41754883 GAACTCGGACTCAACTCGACTAGTTCTAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGAACTCAACTCGAATAGCTCGAACACTCGCATCCATAAGTGAACTCGAACGCAACTCAA
*
41754948 CGAGTTCCGATGCC
66 CGAGCTCCGATGCC
41754962 CAAATATCCT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
93 62 0.94
94 4 0.06
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCGAATAGCTCGAACACTCGCATCCATAAGTGAACTCGAACGCAACTCAA
CGAGCTCCGATGCCTAGTTACATCTCTC
Found at i:41759761 original size:27 final size:25
Alignment explanation
Indices: 41759724--41759835 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 25
41759714 AGCATGGCTG
*
41759724 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
41759750 CCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGA-ACAGATAAT-GTGGCAGAGC-A
*
41759778 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAG-CA
* *
41759805 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAG-CA
41759832 CCAG
1 CCAG
41759836 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 11
0.82 0.05 0.12
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:41759816 original size:54 final size:54
Alignment explanation
Indices: 41759724--41759835 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
41759714 AGCATGGCTG
* * *
41759724 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCTA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
41759778 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
41759832 CCAG
1 CCAG
41759836 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:41761276 original size:24 final size:24
Alignment explanation
Indices: 41761249--41761295 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
41761239 CTAGATTTCC
**
41761249 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
*
41761273 TCCCTTATCAACTCCTAATTCCT
1 TCCCTTATCAACTCCTAAATCCT
41761296 CTCCTGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.38, G:0.02, T:0.38
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:41767570 original size:27 final size:26
Alignment explanation
Indices: 41767534--41767629 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 26
41767524 CAGCATGGCT
*
41767534 ACCAGAACAGATAATATGACAGAGTC
1 ACCAGAACAGATAATATGACAGAGCC
* *
41767560 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-ATGACAGAGCC
* *
41767588 ACCAGAACAGA-AATATGTGGCAAAGCC
1 ACCAGAACAGATAATA--TGACAGAGCC
*
41767615 ACCAGATCAGATAAT
1 ACCAGAACAGATAAT
41767630 TGTGGCATAG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.15
27 33 0.56
28 17 0.29
ACGTcount: A:0.43, C:0.22, G:0.21, T:0.15
Consensus pattern (26 bp):
ACCAGAACAGATAATATGACAGAGCC
Found at i:41767598 original size:54 final size:53
Alignment explanation
Indices: 41767534--41767646 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 53
41767524 CAGCATGGCT
* *
41767534 ACCAGAACAGATAATA-TGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGA-AATAGTGACAAAGCCACCAGAT-CAGATAATCGTGGCAGAGCC
* * *
41767588 ACCAGAACAGAAATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCC
1 ACCAGAACAGAAATA-GTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCC
41767642 ACCAG
1 ACCAG
41767647 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 4 0.08
54 34 0.65
55 14 0.27
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (53 bp):
ACCAGAACAGAAATAGTGACAAAGCCACCAGATCAGATAATCGTGGCAGAGCC
Found at i:41767633 original size:27 final size:27
Alignment explanation
Indices: 41767559--41767646 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
41767549 ATGACAGAGT
* *
41767559 CACCAGATACAGATAATCGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCAAAGC
*
41767587 CACCAGAACAGA-AATATGTGGCAAAGC
1 CACCAGATCAGATAAT-TGTGGCAAAGC
*
41767614 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCAAAGC
41767641 CACCAG
1 CACCAG
41767647 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.06
27 40 0.75
28 10 0.19
ACGTcount: A:0.38, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCAAAGC
Found at i:41773065 original size:36 final size:34
Alignment explanation
Indices: 41773018--41773120 Score: 91
Period size: 36 Copynumber: 2.9 Consensus size: 34
41773008 AGAATCTTCA
*
41773018 AAACAAAGAACCCAACATCTTCAAAAAACAACTAAC
1 AAACAATGAACCCAACATCTTCAAAAAA-AA-TAAC
* * *
41773054 AAACAATGAACCTAGCA-CATTCAAAAAAAATAAT
1 AAACAATGAACCCAACATC-TTCAAAAAAAATAAC
* *
41773088 AAACAATAAAGAACCCAAAATCTTCAGAAAAAA
1 AAACAAT---GAACCCAACATCTTCAAAAAAAA
41773121 CCCAATATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
34 10 0.19
35 3 0.06
36 23 0.43
37 17 0.31
38 1 0.02
ACGTcount: A:0.60, C:0.21, G:0.05, T:0.14
Consensus pattern (34 bp):
AAACAATGAACCCAACATCTTCAAAAAAAATAAC
Found at i:41777426 original size:13 final size:13
Alignment explanation
Indices: 41777408--41777432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41777398 GTTTACCATT
41777408 AAAAATACCCAAG
1 AAAAATACCCAAG
41777421 AAAAATACCCAA
1 AAAAATACCCAA
41777433 AACTCCATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.24, G:0.04, T:0.08
Consensus pattern (13 bp):
AAAAATACCCAAG
Found at i:41780923 original size:31 final size:31
Alignment explanation
Indices: 41780879--41780995 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
41780869 TCAATCTCAG
* *
41780879 CATAT-ACTAGGCCGAAGCCTTTACATTATC
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
41780909 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
41780940 TATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
41780971 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
41780996 TGCAAACGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 4 0.05
31 74 0.95
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:41781249 original size:25 final size:25
Alignment explanation
Indices: 41781215--41781284 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
41781205 CTCTTTTAAT
41781215 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
41781240 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
41781265 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41781285 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:41783319 original size:21 final size:21
Alignment explanation
Indices: 41783295--41783336 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
41783285 CTTTTTATTC
41783295 AATTAACT-ATCGAAACTTTAA
1 AATTAACTGA-CGAAACTTTAA
* *
41783316 AATTTATTGACGAAACTTTAA
1 AATTAACTGACGAAACTTTAA
41783337 TACTAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (21 bp):
AATTAACTGACGAAACTTTAA
Found at i:41789394 original size:51 final size:50
Alignment explanation
Indices: 41789323--41789482 Score: 248
Period size: 51 Copynumber: 3.2 Consensus size: 50
41789313 CTGATCACAT
41789323 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
* *
41789374 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
* * *
41789424 TTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCAC
*
41789475 TTGTCACT
1 TTATCACT
41789483 GATCAGAAGT
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
50 46 0.46
51 55 0.54
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTTATCAC
Found at i:41794747 original size:17 final size:17
Alignment explanation
Indices: 41794725--41794772 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
41794715 ACTCATTTGG
41794725 TTTAATTTATTTATATA
1 TTTAATTTATTTATATA
41794742 TTTAA--TA--T-TATA
1 TTTAATTTATTTATATA
*
41794754 TTCAATTTATTTATATA
1 TTTAATTTATTTATATA
41794771 TT
1 TT
41794773 ATATCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 10
0.69 0.03 0.28
Matches are distributed among these distances:
12 8 0.32
13 1 0.04
14 2 0.08
15 2 0.08
16 1 0.04
17 11 0.44
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTAATTTATTTATATA
Found at i:41794774 original size:11 final size:11
Alignment explanation
Indices: 41794729--41794850 Score: 57
Period size: 11 Copynumber: 11.4 Consensus size: 11
41794719 ATTTGGTTTA
*
41794729 ATTTATTTATAT
1 ATTTATATAT-T
41794741 ATTTA-ATATT
1 ATTTATATATT
41794751 ATATTCA-AT-TT
1 AT-TT-ATATATT
41794762 ATTTATATATT
1 ATTTATATATT
* * *
41794773 ATATCTATTTT
1 ATTTATATATT
*
41794784 A-TTATAT-CT
1 ATTTATATATT
*
41794793 ATTCTAAATA-T
1 ATT-TATATATT
41794804 -TTTATATATT
1 ATTTATATATT
41794814 -TTTATATTATT
1 ATTTATA-TATT
41794825 -TTTATATATT
1 ATTTATATATT
41794835 A-TTATTATATAT
1 ATTTA-TATAT-T
41794847 ATTT
1 ATTT
41794851 TTATTTAATC
Statistics
Matches: 88, Mismatches: 9, Indels: 25
0.72 0.07 0.20
Matches are distributed among these distances:
9 8 0.09
10 28 0.32
11 40 0.45
12 10 0.11
13 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
ATTTATATATT
Found at i:41794788 original size:14 final size:14
Alignment explanation
Indices: 41794769--41794795 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41794759 TTTATTTATA
41794769 TATTATATCTATTT
1 TATTATATCTATTT
41794783 TATTATATCTATT
1 TATTATATCTATT
41794796 CTAAATATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TATTATATCTATTT
Found at i:41794812 original size:9 final size:9
Alignment explanation
Indices: 41794763--41794851 Score: 56
Period size: 9 Copynumber: 9.3 Consensus size: 9
41794753 ATTCAATTTA
41794763 TTTATATAT
1 TTTATATAT
* *
41794772 TATATCTAT
1 TTTATATAT
41794781 TTTATTATATCT
1 TTTA-TATA--T
*
41794793 ATTCTAAATAT
1 -TT-TATATAT
41794804 TTTATATATT
1 TTTATATA-T
41794814 TTTATATTAT
1 TTTATA-TAT
41794824 TTT-TATAT
1 TTTATATAT
*
41794832 ATTAT-TAT
1 TTTATATAT
*
41794840 TATATATAT
1 TTTATATAT
41794849 TTT
1 TTT
41794852 TATTTAATCT
Statistics
Matches: 61, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 11 0.18
9 23 0.38
10 16 0.26
11 3 0.05
12 1 0.02
13 5 0.08
14 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTATATAT
Found at i:41794834 original size:13 final size:13
Alignment explanation
Indices: 41794812--41794854 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
41794802 ATTTTATATA
41794812 TTTT-TATATTAT
1 TTTTATATATTAT
41794824 TTTTATATATTAT
1 TTTTATATATTAT
*
41794837 TATTATATA-TAT
1 TTTTATATATTAT
41794849 TTTTAT
1 TTTTAT
41794855 TTAATCTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATATATTAT
Found at i:41794840 original size:19 final size:20
Alignment explanation
Indices: 41794763--41794844 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 20
41794753 ATTCAATTTA
*
41794763 TTTATATATTA-TATCTA-T
1 TTTATATATTATTATATATT
* *
41794781 TTTATTATATCTATTCTAAATAT
1 TTTA-TATAT-TATTATATAT-T
*
41794804 TTTATATATTTTTATATTATT
1 TTTATATATTATTATA-TATT
41794825 TTTATATATTATTATTATAT
1 TTTATATATTATTA-TATAT
41794845 ATATTTTTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.08
19 5 0.10
20 2 0.04
21 25 0.50
22 9 0.18
23 5 0.10
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTATATATTATTATATATT
Found at i:41794847 original size:15 final size:14
Alignment explanation
Indices: 41794800--41794857 Score: 64
Period size: 15 Copynumber: 4.1 Consensus size: 14
41794790 TCTATTCTAA
*
41794800 ATATTTTATATATTT
1 ATATATTAT-TATTT
*
41794815 TTATATTATT-TTT
1 ATATATTATTATTT
41794828 ATATATTATTATTAT
1 ATATATTATTATT-T
*
41794843 ATATATTTTTATTT
1 ATATATTATTATTT
41794857 A
1 A
41794858 ATCTTTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.32
14 5 0.14
15 20 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATATATTATTATTT
Found at i:41794855 original size:21 final size:20
Alignment explanation
Indices: 41794804--41794855 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
41794794 TTCTAAATAT
41794804 TTTATATATTTTTA-TATTA
1 TTTATATATTTTTATTATTA
* *
41794823 TTTTTATA-TATTATTATTA
1 TTTATATATTTTTATTATTA
41794842 --TATATATTTTTATT
1 TTTATATATTTTTATT
41794856 TAATCTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTATATATTTTTATTATTA
Found at i:41806895 original size:14 final size:14
Alignment explanation
Indices: 41806876--41806903 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41806866 ACTAAGTTCG
41806876 TATCAATTATAATC
1 TATCAATTATAATC
41806890 TATCAATTATAATC
1 TATCAATTATAATC
41806904 AATAGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
TATCAATTATAATC
Found at i:41807293 original size:40 final size:40
Alignment explanation
Indices: 41807249--41807324 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
41807239 TAGTGCCTCA
* **
41807249 TATAGCCGAAGCTATTCCAATTCGGACACTTAGTGCTATT
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
* *
41807289 TATAGCCGAAGTTATTTCAAATCACACACTTAGTGC
1 TATAGCCGAAGCTATTCCAAATCACACACTTAGTGC
41807325 CGAACATAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (40 bp):
TATAGCCGAAGCTATTCCAAATCACACACTTAGTGCTATT
Found at i:41810067 original size:79 final size:81
Alignment explanation
Indices: 41809931--41810113 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
41809921 TCGAATGATG
* *
41809931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
41809995 TGTGTGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41810010 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41810072 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
41810090 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
41810114 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:41810122 original size:40 final size:40
Alignment explanation
Indices: 41809931--41810115 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
41809921 TCGAATGATG
* * * *
41809931 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
41809971 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41810011 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41810050 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41810091 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41810116 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 81 0.66
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41812789 original size:20 final size:20
Alignment explanation
Indices: 41812766--41812823 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
41812756 ACACATTTGC
41812766 GTGGCTTGGGACACGCCCGT
1 GTGGCTTGGGACACGCCCGT
* **
41812786 GTGGCTTGAGACACGCTTGT
1 GTGGCTTGGGACACGCCCGT
*
41812806 GTGGCTTGGGACATGCCC
1 GTGGCTTGGGACACGCCC
41812824 ATGTAGGGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.26, G:0.38, T:0.24
Consensus pattern (20 bp):
GTGGCTTGGGACACGCCCGT
Found at i:41815213 original size:48 final size:48
Alignment explanation
Indices: 41815147--41815256 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
41815137 ACATTATGAG
* *
41815147 AGCTAGTGTAAGACATGTCCGGGACATGCATCAGCTTCGAGATATACA
1 AGCTAGTGTAAGATATGTCCAGGACATGCATCAGCTTCGAGATATACA
* * *
41815195 AGCTAGTGTAAGATATGTCTAGGACATGCATTAGCTTCGAGATGTACA
1 AGCTAGTGTAAGATATGTCCAGGACATGCATCAGCTTCGAGATATACA
41815243 AGCTAGTGTAAGAT
1 AGCTAGTGTAAGAT
41815257 CTGTTTGGGA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (48 bp):
AGCTAGTGTAAGATATGTCCAGGACATGCATCAGCTTCGAGATATACA
Found at i:41815348 original size:49 final size:49
Alignment explanation
Indices: 41815290--41815414 Score: 178
Period size: 49 Copynumber: 2.6 Consensus size: 49
41815280 TGTTGTCTGT
* *
41815290 CAGTGTAAGACCTGTCTGGGACATGGCATTGACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATTGACATCAATAGATGAAAGC
** * * **
41815339 CAGTGTAAGACCTGTCTGGGACACAGCATTGACCTCAATATATGAAATT
1 CAGTGTAAGACCTGTCTGGGACATGGCATTGACATCAATAGATGAAAGC
41815388 CAGTGTAAGACCTGTCTGGGACATGGC
1 CAGTGTAAGACCTGTCTGGGACATGGC
41815415 GTCGGTATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATTGACATCAATAGATGAAAGC
Found at i:41818167 original size:80 final size:80
Alignment explanation
Indices: 41818034--41818197 Score: 328
Period size: 80 Copynumber: 2.0 Consensus size: 80
41818024 TAGGTATTTT
41818034 TACCGATTATGTCATTTTACTCGTTTTCACGTAAAATCGTTTAGCAAAAGTTGTTTAACACAATT
1 TACCGATTATGTCATTTTACTCGTTTTCACGTAAAATCGTTTAGCAAAAGTTGTTTAACACAATT
41818099 TAAAGTTTCATATTA
66 TAAAGTTTCATATTA
41818114 TACCGATTATGTCATTTTACTCGTTTTCACGTAAAATCGTTTAGCAAAAGTTGTTTAACACAATT
1 TACCGATTATGTCATTTTACTCGTTTTCACGTAAAATCGTTTAGCAAAAGTTGTTTAACACAATT
41818179 TAAAGTTTCATATTA
66 TAAAGTTTCATATTA
41818194 TACC
1 TACC
41818198 ATAAAACATC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (80 bp):
TACCGATTATGTCATTTTACTCGTTTTCACGTAAAATCGTTTAGCAAAAGTTGTTTAACACAATT
TAAAGTTTCATATTA
Found at i:41823388 original size:47 final size:47
Alignment explanation
Indices: 41823267--41823390 Score: 203
Period size: 47 Copynumber: 2.6 Consensus size: 47
41823257 CATCCATAAG
*
41823267 TGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
** *
41823314 CAAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTGCATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
*
41823361 TGAACTCGGACTCATCTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
41823391 ACTCAAATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:41828054 original size:42 final size:41
Alignment explanation
Indices: 41828007--41828128 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 41
41827997 TACCGTACCA
* * **
41828007 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC
* *
41828048 GATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATC
1 -ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATC
41828091 ATTGCCATATCCCAGATATGGTCTTACAC-ATAATCTCA
1 A-TGCCATATCCCAGATATGGTCTTACACGA-AATCTCA
41828129 ACTAATCCTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 34 0.49
43 34 0.49
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC
Found at i:41828070 original size:43 final size:42
Alignment explanation
Indices: 41828008--41828128 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
41827998 ACCGTACCAA
* * * **
41828008 TGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCGA-
1 TGCCATAGCCCAGATATGGTCTTACACGAAATCTCATATC-AT
*
41828050 TGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCAT
1 TGCC-ATAGCCCAGATATGGTCTTACACGAAATCTCATATCAT
*
41828093 TGCCATATCCCAGATATGGTCTTACAC-ATAATCTCA
1 TGCCATAGCCCAGATATGGTCTTACACGA-AATCTCA
41828129 ACTAATCCTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.01
42 33 0.49
43 34 0.50
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TGCCATAGCCCAGATATGGTCTTACACGAAATCTCATATCAT
Found at i:41829156 original size:17 final size:18
Alignment explanation
Indices: 41829134--41829168 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
41829124 AAGTTTTGCA
41829134 CTTTTTAC-AATTTAGTC
1 CTTTTTACAAATTTAGTC
41829151 CTTTTTACTAAATTTAGT
1 CTTTTTAC-AAATTTAGT
41829169 GCCCAAACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTTTTACAAATTTAGTC
Found at i:41830163 original size:30 final size:30
Alignment explanation
Indices: 41830117--41830186 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
41830107 CCATGTGCTA
*
41830117 GACCGTGTCCTCCACACGGCTGAGACACAT
1 GACCGTGTCTTCCACACGGCTGAGACACAT
*
41830147 GACCATGTCTTCCACACGGCTGAGACACAT
1 GACCGTGTCTTCCACACGGCTGAGACACAT
41830177 GACCGTGTCT
1 GACCGTGTCT
41830187 CTGCCTGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (30 bp):
GACCGTGTCTTCCACACGGCTGAGACACAT
Found at i:41836297 original size:21 final size:22
Alignment explanation
Indices: 41836247--41836297 Score: 88
Period size: 21 Copynumber: 2.4 Consensus size: 22
41836237 TCATTAAAGA
41836247 ATTAATT-ATCATTAAATCAAG
1 ATTAATTAATCATTAAATCAAG
41836268 ATTAATTAAT-ATTAAATCAAG
1 ATTAATTAATCATTAAATCAAG
41836289 ATTAATTAA
1 ATTAATTAA
41836298 AGTATAAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (22 bp):
ATTAATTAATCATTAAATCAAG
Found at i:41838069 original size:30 final size:30
Alignment explanation
Indices: 41838035--41838131 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
41838025 AGCTCACTCC
41838035 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
41838065 TAGCTCAACTTCAGCTTAGGAGTTTAATCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
41838095 CAGCTCAACTTTAGCTCACAAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
41838125 TAGCTCA
1 TAGCTCA
41838132 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:41841134 original size:8 final size:8
Alignment explanation
Indices: 41841119--41841150 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
41841109 TCACAAATGC
41841119 CGGCTTTT
1 CGGCTTTT
*
41841127 CAGCTTTT
1 CGGCTTTT
41841135 CGGCTTTT
1 CGGCTTTT
41841143 CGGCTTTT
1 CGGCTTTT
41841151 GTCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.22, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:41844210 original size:46 final size:46
Alignment explanation
Indices: 41844160--41844332 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
41844150 TGGTTGAGCA
* *
41844160 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
41844206 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
41844253 TCCGAACTCGTTGAGTTGAGTCGGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
41844299 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41844333 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 57 0.55
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:41844316 original size:93 final size:93
Alignment explanation
Indices: 41844157--41844327 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
41844147 GGATGGTTGA
*
41844157 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
41844222 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * *
41844250 GCATCCGAACTCGTTGAGTTGAGTCGGAGTTCATTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
*
41844314 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
41844328 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41844594 original size:19 final size:20
Alignment explanation
Indices: 41844557--41844594 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41844547 ATAAGGTGGT
41844557 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
41844577 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
41844595 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:41851773 original size:46 final size:46
Alignment explanation
Indices: 41851723--41851895 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
41851713 TGGTTGAGCA
*
41851723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
41851769 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
41851816 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
41851862 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41851896 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:41851879 original size:93 final size:93
Alignment explanation
Indices: 41851720--41851890 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
41851710 GGATGGTTGA
* *
41851720 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41851785 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
41851813 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
41851878 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41851891 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41852157 original size:19 final size:20
Alignment explanation
Indices: 41852120--41852157 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
41852110 ATAATGTGGT
41852120 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
41852140 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
41852158 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:41855105 original size:32 final size:32
Alignment explanation
Indices: 41855064--41855130 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
41855054 ATGTTGTATA
41855064 TTAGAATTAAAAATACTTGAGACTAGGTTACC
1 TTAGAATTAAAAATACTTGAGACTAGGTTACC
41855096 TTAGAATTAAAAATACTTGAGACTAGGTTACC
1 TTAGAATTAAAAATACTTGAGACTAGGTTACC
41855128 TTA
1 TTA
41855131 ATAGTGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (32 bp):
TTAGAATTAAAAATACTTGAGACTAGGTTACC
Found at i:41860748 original size:43 final size:42
Alignment explanation
Indices: 41860701--41860816 Score: 121
Period size: 42 Copynumber: 2.7 Consensus size: 42
41860691 TCCCAGAAGT
41860701 GGTCTTACATGTAATCAAATATTGATGCCACTATCCCAAACAG
1 GGTCTTACATGTAATCAAATATTGATGCCA-TATCCCAAACAG
* * * *
41860744 GGTCTTACACG-AGATCAAATA-TGATGCCGATGTCCCAGACAT
1 GGTCTTACATGTA-ATCAAATATTGATGCC-ATATCCCAAACAG
*
41860786 GGTCTTACATGTAAATCATAA-ATCGATGCCA
1 GGTCTTACATGT-AATCA-AATATTGATGCCA
41860817 ACGTCGCAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
42 27 0.44
43 25 0.41
44 9 0.15
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATTGATGCCATATCCCAAACAG
Found at i:41866969 original size:48 final size:48
Alignment explanation
Indices: 41866902--41867146 Score: 445
Period size: 48 Copynumber: 5.1 Consensus size: 48
41866892 GCGGAAATTG
*
41866902 ATGTATGAGATAAGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
41866950 ATGTATGAGATAAGCATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
41866998 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
41867046 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
41867094 ATGTATGAGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
41867142 ATGTA
1 ATGTA
41867147 GGCGATGTGT
Statistics
Matches: 192, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 192 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:41867401 original size:37 final size:37
Alignment explanation
Indices: 41867293--41867401 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41867283 GGAAATATAT
*
41867293 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
41867330 TCCGGGTAAGACCCGATGACTACGTGTTGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
41867367 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41867402 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:41870525 original size:11 final size:10
Alignment explanation
Indices: 41870486--41870527 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
41870476 TTCTCAATTC
41870486 ATCA-ACCAA
1 ATCATACCAA
41870495 ATCATACCAA
1 ATCATACCAA
*
41870505 ATCTAAACCAA
1 ATC-ATACCAA
41870516 TATCATACCAA
1 -ATCATACCAA
41870527 A
1 A
41870528 GAATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 9 0.32
11 12 0.43
12 3 0.11
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (10 bp):
ATCATACCAA
Found at i:41871332 original size:43 final size:42
Alignment explanation
Indices: 41871266--41871387 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
41871256 AGCTCGTACA
* *
41871266 ATGCCAATGTCCCAGACGAGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGAGGTCTTACACGAAATCAAATA-CG
*
41871309 ATGCCATTGTCCCAGAC-AGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACGA-GGTCTTACACGAAATCAAATACG
* * * *
41871351 ATTCCAATGTCCTAGATGTGGTCTTACACGTAAATCA
1 ATGCCAATGTCCCAGACGAGGTCTTACACG-AAATCA
41871388 TAAGTCGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 27 0.40
43 41 0.60
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGAGGTCTTACACGAAATCAAATACG
Found at i:41878125 original size:21 final size:23
Alignment explanation
Indices: 41878084--41878125 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
41878074 TGAAATTCCA
41878084 ACCATTTCATAACCAAAACATAC
1 ACCATTTCATAACCAAAACATAC
*
41878107 ACCATTT-AT-ACCAATACAT
1 ACCATTTCATAACCAAAACAT
41878126 TATCAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (23 bp):
ACCATTTCATAACCAAAACATAC
Found at i:41878190 original size:11 final size:10
Alignment explanation
Indices: 41878151--41878192 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
41878141 TTCTCAATTC
41878151 ATCAT-CCAA
1 ATCATACCAA
41878160 ATCATACCAA
1 ATCATACCAA
*
41878170 ATCTAAACCAA
1 ATC-ATACCAA
41878181 TATCATACCAA
1 -ATCATACCAA
41878192 A
1 A
41878193 GTATATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 5 0.18
10 8 0.29
11 12 0.43
12 3 0.11
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (10 bp):
ATCATACCAA
Found at i:41880575 original size:42 final size:42
Alignment explanation
Indices: 41880490--41880651 Score: 111
Period size: 42 Copynumber: 3.8 Consensus size: 42
41880480 AGAAAGCTCG
* * *
41880490 TACAATGCCAATGTCCCAGACGTGGTCTTACATGTAACTAAA
1 TACAATGCCACTGTCCCAGACGTGGTCTTACACGAAACTAAA
41880532 TATCAATGCCACTG-CCCAGACAG-GGTCTTACACGAAA-TCAAA
1 TA-CAATGCCACTGTCCCAGAC-GTGGTCTTACACGAAACT-AAA
* ** * * *
41880574 TACGATGCCACCAT-CCAGACGTAGTCTTACGCGTAAATCTTAAG
1 TACAATGCCACTGTCCCAGACGTGGTCTTACACG-AAA-C-TAAA
* * *
41880618 TA-GATACCAAC-GTCTCAGACGTGGTCTTACACGA
1 TACAATGCC-ACTGTCCCAGACGTGGTCTTACACGA
41880652 TAACACATAT
Statistics
Matches: 95, Mismatches: 14, Indels: 21
0.73 0.11 0.16
Matches are distributed among these distances:
40 1 0.01
41 24 0.25
42 29 0.31
43 18 0.19
44 22 0.23
45 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
TACAATGCCACTGTCCCAGACGTGGTCTTACACGAAACTAAA
Found at i:41883120 original size:17 final size:19
Alignment explanation
Indices: 41883098--41883132 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
41883088 GTACTTCAAT
41883098 AATTAAT-TAGG-TAAAAC
1 AATTAATCTAGGCTAAAAC
41883115 AATTAATCTAGGCTAAAA
1 AATTAATCTAGGCTAAAA
41883133 GGAACTCGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 4 0.25
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (19 bp):
AATTAATCTAGGCTAAAAC
Found at i:41886192 original size:53 final size:53
Alignment explanation
Indices: 41886111--41886214 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 53
41886101 TTCCTTTTTA
* * * * *
41886111 AACTTACCATAGCCTTGTCTTGACATGGTTTTACATGGTATCCTTGCCTTATG
1 AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
41886164 AACTAACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTA
1 AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTA
41886215 CCGTAGTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTAACCATAGCCATGCCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:41886250 original size:55 final size:53
Alignment explanation
Indices: 41886126--41886251 Score: 135
Period size: 53 Copynumber: 2.3 Consensus size: 53
41886116 ACCATAGCCT
* * * *
41886126 TGTCTTGACATGGTTTTACATGGTATCCTTGCCTTATGAACTAACCATTGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTACGAACTAACCAATGCCA
* * * ** * *
41886179 TGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTACCGTAGTTTATCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTA-CG-AACTAACCAATGCCA
41886234 TGTCTTGACATGGTCTTA
1 TGTCTTGACATGGTCTTA
41886252 TTGCCTTGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 31 0.53
54 1 0.02
55 26 0.45
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGGGATCCTTGCCTTACGAACTAACCAATGCCA
Found at i:41910691 original size:22 final size:22
Alignment explanation
Indices: 41910664--41910709 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
41910654 ATACCTTGTG
41910664 TTGGTATATTTTATGGCATGAA
1 TTGGTATATTTTATGGCATGAA
41910686 TTGGTATATTTTATGGCATGAA
1 TTGGTATATTTTATGGCATGAA
41910708 TT
1 TT
41910710 AGATGATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (22 bp):
TTGGTATATTTTATGGCATGAA
Found at i:41910722 original size:22 final size:22
Alignment explanation
Indices: 41910675--41910723 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
41910665 TGGTATATTT
* **
41910675 TATGGCATGAATTGGTATATTT
1 TATGGCATGAATTAGTATATAA
41910697 TATGGCATGAATTAG-ATGATAA
1 TATGGCATGAATTAGTAT-ATAA
41910719 TATGG
1 TATGG
41910724 TGAGAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (22 bp):
TATGGCATGAATTAGTATATAA
Found at i:41919986 original size:42 final size:42
Alignment explanation
Indices: 41919920--41920015 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
41919910 TGAGAATATA
* * *
41919920 TGTAAGACCATATCTAGGATATGGCATC-AGTATGATATTAT-G
1 TGTAAGACCATATCTAGGACATGGCATCGA-TACGAAATT-TCG
* *
41919962 TGTAAGACCATGTCTGGGACATGGCATCGATACGAAATTTCG
1 TGTAAGACCATATCTAGGACATGGCATCGATACGAAATTTCG
41920004 TGTAAGACCATA
1 TGTAAGACCATA
41920016 GTTGGGCTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGACATGGCATCGATACGAAATTTCG
Found at i:41920415 original size:15 final size:16
Alignment explanation
Indices: 41920395--41920424 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
41920385 ATTTCTGTGA
41920395 TGTAATTTGT-CTGTT
1 TGTAATTTGTGCTGTT
41920410 TGTAATTTGTGCTGT
1 TGTAATTTGTGCTGT
41920425 AATGCTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.13, C:0.07, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTAATTTGTGCTGTT
Found at i:41921514 original size:43 final size:43
Alignment explanation
Indices: 41921432--41921587 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
41921422 TGAGACATCG
** * *
41921432 TGTAAGACTGTGTCTGGGACA-CAGGCCTCGAT-TGAGATTTACA
1 TGTAAGACCATGTCTGGGACATC-GGCATCGATAT-TGATTTACA
* *
41921475 TATAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CG
1 TGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTACA
* ** *
41921517 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
* *
41921560 TGTAAGACCACGTCTTGGACATCGGCAT
1 TGTAAGACCATGTCTGGGACATCGGCAT
41921588 TGTACTTGTT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 33 0.36
43 57 0.63
44 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTACA
Found at i:41921580 original size:85 final size:85
Alignment explanation
Indices: 41921429--41921587 Score: 223
Period size: 85 Copynumber: 1.9 Consensus size: 85
41921419 GTTTGAGACA
** * *
41921429 TCGTGTAAGACTGTGTCTGGGACACAGGCCTCGATTGAGATTTACATATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
41921494 CATCGGCATCATATCTGATT
66 CATCGGCATCATATCTGATT
* * *
41921514 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTTG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTTACATATAAGACCACGTCTGG
41921577 GACATCGGCAT
64 GACATCGGCAT
41921588 TGTACTTGTT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 59 0.91
86 1 0.02
87 5 0.08
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (85 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTTACATATAAGACCACGTCTGGGA
CATCGGCATCATATCTGATT
Found at i:41927852 original size:46 final size:46
Alignment explanation
Indices: 41927802--41927974 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
41927792 TGGTTGAGCA
41927802 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41927848 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41927893 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
41927941 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41927975 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41927958 original size:93 final size:93
Alignment explanation
Indices: 41927799--41927969 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41927789 GGATGGTTGA
* *
41927799 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41927864 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41927892 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41927957 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41927970 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41935401 original size:46 final size:46
Alignment explanation
Indices: 41935351--41935523 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
41935341 TGGTTGAGCA
41935351 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
41935397 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
41935442 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
41935490 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
41935524 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:41935507 original size:93 final size:93
Alignment explanation
Indices: 41935348--41935518 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
41935338 GGATGGTTGA
* *
41935348 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41935413 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
41935441 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
41935506 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
41935519 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:41943759 original size:47 final size:47
Alignment explanation
Indices: 41943685--41943780 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
41943675 AGCTTTGTGG
* *
41943685 TCCCAAAACCACTATTTTTATTTTCACTAAAAATGGGTTGTTACAAC
1 TCCCAAAACCACTATTTTGATTTTCACTAAAAATGGGCTGTTACAAC
*
41943732 TCCCGAAACCACTATTTTGATTTTCACTAAAAATGGGCTGTTACAAC
1 TCCCAAAACCACTATTTTGATTTTCACTAAAAATGGGCTGTTACAAC
41943779 TC
1 TC
41943781 TCTCCCCTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (47 bp):
TCCCAAAACCACTATTTTGATTTTCACTAAAAATGGGCTGTTACAAC
Found at i:41945002 original size:22 final size:21
Alignment explanation
Indices: 41944977--41945019 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
41944967 TCTCCCGTTT
*
41944977 CGTTCCCAATCACCGGTACATC
1 CGTTCCAAATCA-CGGTACATC
* *
41944999 CGTTTCAAATCACTGTACATC
1 CGTTCCAAATCACGGTACATC
41945020 TTATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.26, C:0.35, G:0.12, T:0.28
Consensus pattern (21 bp):
CGTTCCAAATCACGGTACATC
Found at i:41952824 original size:30 final size:29
Alignment explanation
Indices: 41952788--41952944 Score: 102
Period size: 30 Copynumber: 5.3 Consensus size: 29
41952778 TCATCAAAAA
*
41952788 ATGAAAATGGATAGCTTCAGGCTAAT-GAAT
1 ATGAAAAGGGATAGCTTC-GGCT-ATCGAAT
*
41952818 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * * *
41952847 ATGAAAAGGGAT-GGTGACGACCATCAAACA
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * *
41952877 ATGAAAAGGGTTGGCTTCGGCTATTGATTT
1 ATGAAAAGGGATAGCTTCGGCTATCGA-AT
* * * *
41952907 ACGAAATGGGATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
41952937 ATGAAAAG
1 ATGAAAAG
41952945 CAATGGTGAC
Statistics
Matches: 93, Mismatches: 28, Indels: 12
0.70 0.21 0.09
Matches are distributed among these distances:
28 4 0.04
29 26 0.28
30 61 0.66
31 2 0.02
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:41952931 original size:89 final size:90
Alignment explanation
Indices: 41952779--41952978 Score: 242
Period size: 89 Copynumber: 2.2 Consensus size: 90
41952769 TAACATCGCT
* * * *
41952779 CATCAAAAAATGAAAATGGATAGCTTCAGGCTAATGAATATGAAAAGGGATAGCTTCGGCTATC-
1 CATCAAACAATGAAAAGGGATAGCTTCAGGCTAATGAATACGAAAAGGGATAGCTTCGACTATCA
* **
41952843 GATTATGAAAAGGGATGGTGACGAC
66 AATTATGAAAAGCAATGGTGACGAC
* * * * *
41952868 CATCAAACAATGAAAAGGGTTGGCTTC-GGCTATTGATTTACGAAATGGGATAGCTTCGACTATC
1 CATCAAACAATGAAAAGGGATAGCTTCAGGCTAATGA-ATACGAAAAGGGATAGCTTCGACTATC
41952932 AAATTATGAAAAGCAATGGTGACGAC
65 AAATTATGAAAAGCAATGGTGACGAC
** *
41952958 CATTGAACAATGAAAATGGAT
1 CATCAAACAATGAAAAGGGAT
41952979 GGTGATGACC
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
88 8 0.09
89 46 0.49
90 39 0.42
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.24
Consensus pattern (90 bp):
CATCAAACAATGAAAAGGGATAGCTTCAGGCTAATGAATACGAAAAGGGATAGCTTCGACTATCA
AATTATGAAAAGCAATGGTGACGAC
Found at i:41953001 original size:30 final size:29
Alignment explanation
Indices: 41952932--41953005 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
41952922 TTCGACTATC
* *
41952932 AAATTATGAAAAGCAATGGTGACGACCATT
1 AAATTATGAAAAG-GATGGTGACGACCATA
* ** *
41952962 GAACAATGAAAATGGATGGTGATGACCATA
1 AAATTATGAAAA-GGATGGTGACGACCATA
41952992 AAATTATGAAAAGG
1 AAATTATGAAAAGG
41953006 GATAGCCTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
29 2 0.06
30 31 0.91
31 1 0.03
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (29 bp):
AAATTATGAAAAGGATGGTGACGACCATA
Found at i:41953008 original size:90 final size:89
Alignment explanation
Indices: 41952817--41953033 Score: 222
Period size: 90 Copynumber: 2.4 Consensus size: 89
41952807 GGCTAATGAA
* * **
41952817 TATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAAACAATGAA
1 TATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGCAATGGTGACGACCATCAAACAATGAA
* * * ** *
41952882 AAGGGTTGGCTTCGGCTATTGATT
66 AAGGGATGGCTTCGACCATAAAAT
* * **
41952906 TACGAAATGGGATAGCTTCGACTATCAAATTATGAAAAGCAATGGTGACGACCATTGAACAATGA
1 TATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAAGCAATGGTGACGACCATCAAACAATGA
*
41952971 AAATGGATGG-TGAT-GACCATAAAAT
65 AAAGGGATGGCT--TCGACCATAAAAT
* * *
41952996 TATGAAAAGGGATAGCCTCGACTGTCGAACTATGAAAA
1 TATGAAAAGGGATAGCTTCGACTATC-AATTATGAAAA
41953034 AAGATAACTT
Statistics
Matches: 104, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
89 24 0.23
90 79 0.76
91 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (89 bp):
TATGAAAAGGGATAGCTTCGACTATCAATTATGAAAAGCAATGGTGACGACCATCAAACAATGAA
AAGGGATGGCTTCGACCATAAAAT
Found at i:41956555 original size:24 final size:24
Alignment explanation
Indices: 41956529--41956672 Score: 234
Period size: 24 Copynumber: 6.0 Consensus size: 24
41956519 GCCTCTTTCA
* * *
41956529 ATAACTGGGGCAAAATCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTG
41956553 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41956577 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41956601 ATAACTGGGGCATAAGCCTTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
41956625 ATAACTAGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41956649 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
41956673 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 111 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:41956747 original size:20 final size:20
Alignment explanation
Indices: 41956722--41956760 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
41956712 TATGAATACA
41956722 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
41956742 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
41956761 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:41956766 original size:20 final size:20
Alignment explanation
Indices: 41956723--41956767 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
41956713 ATGAATACAT
**
41956723 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
41956743 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
41956763 CATGT
1 CATGT
41956768 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:41956845 original size:24 final size:25
Alignment explanation
Indices: 41956804--41956850 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
41956794 ATATATAAAC
* *
41956804 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGTAAAACGGTCATTTTTA
41956829 CCTA-GGGTAAAACGGTCATTTT
1 CCTAGGGGTAAAACGGTCATTTT
41956851 CATGTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (25 bp):
CCTAGGGGTAAAACGGTCATTTTTA
Found at i:41959725 original size:49 final size:49
Alignment explanation
Indices: 41959653--41959898 Score: 285
Period size: 49 Copynumber: 5.0 Consensus size: 49
41959643 GTAGACAAGG
* * * * *
41959653 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
41959702 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
** * * * * *
41959752 CCATCTGATACACGTAGTCGTCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * * *
41959802 GTTATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAG
1 -TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
41959852 TTATCCGGTACACGTAATAGCATGCACTTAGTACTACACACGTGACC
1 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
41959899 TCACAATAGA
Statistics
Matches: 163, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 82 0.50
50 45 0.28
51 36 0.22
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:41959835 original size:101 final size:97
Alignment explanation
Indices: 41959674--41959898 Score: 270
Period size: 101 Copynumber: 2.3 Consensus size: 97
41959664 GCATAGTAGC
* * * *
41959674 CTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTAC
1 CTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACATAGTACTAC
* * *
41959739 ACACGTGACCTAACCATCTGATACACGTAGTCG
66 ACACGTGACC-AACCATCCGATACACGTAATAG
* * *
41959772 TCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACATAGTAC
1 -CTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACATAGTAC
* *** *
41959837 TACACATGTGACCAGTTATCCGGTACACGTAATAG
63 TACACACGTGACCAACCATCCGATACACGTAATAG
41959872 CATGCACTTAGTACTACACACGTGACC
1 C-TGCACTTAGTACTACACACGTGACC
41959899 TCACAATAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
99 24 0.22
100 41 0.38
101 42 0.39
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (97 bp):
CTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAGCCTGCACATAGTACTAC
ACACGTGACCAACCATCCGATACACGTAATAG
Found at i:41960175 original size:27 final size:27
Alignment explanation
Indices: 41960145--41960198 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41960135 TCATACAACC
* *
41960145 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
41960172 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
41960199 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:41964969 original size:18 final size:20
Alignment explanation
Indices: 41964946--41964994 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
41964936 AAAACATGTG
41964946 AGAAAGAAAAGA-AAATTGA
1 AGAAAGAAAAGAGAAATTGA
* *
41964965 A-AAAG-AGAGAGAGATTGA
1 AGAAAGAAAAGAGAAATTGA
41964983 AGAAAGAAAAGA
1 AGAAAGAAAAGA
41964995 TGGTGAGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 4 0.17
18 11 0.46
19 5 0.21
20 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.27, T:0.08
Consensus pattern (20 bp):
AGAAAGAAAAGAGAAATTGA
Found at i:41965130 original size:15 final size:15
Alignment explanation
Indices: 41965100--41965148 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
41965090 GAGGATTTGA
41965100 AAATGAGTTAGAAAAAG
1 AAATGAG-T-GAAAAAG
41965117 AAATGAGTGAAAAAG
1 AAATGAGTGAAAAAG
* *
41965132 AAAAGAGTGGAAAAG
1 AAATGAGTGAAAAAG
41965147 AA
1 AA
41965149 GAAAGTGTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 22 0.73
16 1 0.03
17 7 0.23
ACGTcount: A:0.61, C:0.00, G:0.27, T:0.12
Consensus pattern (15 bp):
AAATGAGTGAAAAAG
Found at i:41966939 original size:38 final size:38
Alignment explanation
Indices: 41966843--41966940 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 38
41966833 TATAATCTGC
* * *
41966843 ACATTTTAAATGCAGGTTTTAAATATGTCTTATTTTAGT
1 ACATATTAAATACACGTTTT-AATATGTCTTATTTTAGT
**
41966882 ACATATTAAATAGGCGTTTTAATATGTCTTAGTTTTAG-
1 ACATATTAAATACACGTTTTAATATGTCTTA-TTTTAGT
* * *
41966920 ACATCTTTAATACATGTTTTA
1 ACATATTAAATACACGTTTTA
41966941 TTTCATACCA
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
38 27 0.56
39 21 0.44
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (38 bp):
ACATATTAAATACACGTTTTAATATGTCTTATTTTAGT
Found at i:41975158 original size:28 final size:28
Alignment explanation
Indices: 41975118--41975267 Score: 157
Period size: 28 Copynumber: 5.3 Consensus size: 28
41975108 ATTGCATGAC
* *
41975118 TATGAATGTGATTGAGGCC-GATGGGCCA
1 TATGAATATGATTG-GGCCTAATGGGCCA
*
41975146 TATGAATATGATTGGGGCC-AATGGGTCA
1 TATGAATATGATT-GGGCCTAATGGGCCA
41975174 TATGAA-AGTGATTTGGGCCTAATGGGCCA
1 TATGAATA-TGA-TTGGGCCTAATGGGCCA
41975203 TATGAATGA-GATTGGGCCTAATGGGCCA
1 TATGAAT-ATGATTGGGCCTAATGGGCCA
*
41975231 TATGAATGA-GATTGGGCCTAAAGGGGCCA
1 TATGAAT-ATGATTGGGCCT-AATGGGCCA
*
41975260 AATGAATA
1 TATGAATA
41975268 AGTATGGATC
Statistics
Matches: 109, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
27 1 0.01
28 74 0.68
29 33 0.30
31 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (28 bp):
TATGAATATGATTGGGCCTAATGGGCCA
Found at i:41975206 original size:57 final size:56
Alignment explanation
Indices: 41975138--41975267 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 56
41975128 ATTGAGGCCG
* *
41975138 ATGGGCCATATGAATATGATTGGGGCC-AATGGGTCATATGAAAGTGATTTGGGCCT-A
1 ATGGGCCATATGAATA-GATT-GGGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAA
*
41975195 ATGGGCCATATGAATGAGATTGGGCCTAATGGGCCATATGAATGAGATTGGGCCTAA
1 ATGGGCCATATGAAT-AGATTGGGCCTAATGGGCCATATGAAAGAGATTGGGCCTAA
* *
41975252 AGGGGCCAAATGAATA
1 ATGGGCCATATGAATA
41975268 AGTATGGATC
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
56 14 0.22
57 50 0.77
58 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.25
Consensus pattern (56 bp):
ATGGGCCATATGAATAGATTGGGCCTAATGGGCCATATGAAAGAGATTGGGCCTAA
Found at i:41975298 original size:18 final size:18
Alignment explanation
Indices: 41975275--41975311 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
41975265 ATAAGTATGG
41975275 ATCTGTTAGTGTTTAGTA
1 ATCTGTTAGTGTTTAGTA
41975293 ATCTGTTAGTGTTTAGTA
1 ATCTGTTAGTGTTTAGTA
41975311 A
1 A
41975312 GGGGTTGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (18 bp):
ATCTGTTAGTGTTTAGTA
Found at i:41975635 original size:13 final size:13
Alignment explanation
Indices: 41975617--41975643 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41975607 CGAGAATGAC
41975617 TAAAATACCCCTA
1 TAAAATACCCCTA
41975630 TAAAATACCCCTA
1 TAAAATACCCCTA
41975643 T
1 T
41975644 GTGTTGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (13 bp):
TAAAATACCCCTA
Found at i:41977165 original size:44 final size:43
Alignment explanation
Indices: 41977025--41977194 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
41977015 CTTGTACAAC
* * * *
41977025 GCCAACGTCTCAGACGTGGTCTTACATGAAATCACATATCGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCACAAATCGAT
* * * * * *
41977068 GTCACTGTCCCAGACAGGGTCTTACA-CAAACTCATACA-CGAT
1 GCCAATGTCCCAGACATGGTCTTACATGAAA-TCACAAATCGAT
* * * *
41977110 GCCGATATCCCAGAAATTGTCTTACATGCAAATCACAAATCGAT
1 GCCAATGTCCCAGACATGGTCTTACATG-AAATCACAAATCGAT
* *
41977154 GCCAATGTCCCAGGCGTGGTCTTACATGAAATCACAAATCG
1 GCCAATGTCCCAGACATGGTCTTACATGAAATCACAAATCG
41977195 GAATCCTATG
Statistics
Matches: 98, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
42 26 0.27
43 43 0.44
44 29 0.30
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACATGAAATCACAAATCGAT
Found at i:41984040 original size:42 final size:42
Alignment explanation
Indices: 41983988--41984095 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 42
41983978 TTTAATATTG
* * * *
41983988 AAATAGGATTTGCATGTTAAGCATATTGACTATGTTGATTAT
1 AAATATGATTTGCATGTTAAGCATACTGACTACGTAGATTAT
* *
41984030 AAATATGATTTGCATGGTAAGCATGCTGACTACGTAGATTAT
1 AAATATGATTTGCATGTTAAGCATACTGACTACGTAGATTAT
* * *
41984072 AAATCTGAATCGCATGTTAAGCAT
1 AAATATGATTTGCATGTTAAGCAT
41984096 GCCCACTGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (42 bp):
AAATATGATTTGCATGTTAAGCATACTGACTACGTAGATTAT
Found at i:41986528 original size:20 final size:19
Alignment explanation
Indices: 41986482--41986528 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
41986472 GTAATTCATG
41986482 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
41986501 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
41986522 TTTAATT
1 TTTAATT
41986529 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:41991294 original size:46 final size:45
Alignment explanation
Indices: 41991215--41991340 Score: 128
Period size: 46 Copynumber: 2.7 Consensus size: 45
41991205 CATTGGTGTG
* * *
41991215 AGCCAGTGTAAGACCATGTCTAGAACATGGCATCAGCATTGAGAC-A
1 AGCCAGTGTAAGA-CATGTCTAGGATAT-GCATCAGCATCGAGACTA
* * *
41991261 AGTGCTAGTGTAAGACATGTCTAGGATATGCATCGGCCTCGAGACTTA
1 A--GCCAGTGTAAGACATGTCTAGGATATGCATCAGCATCGAGAC-TA
* *
41991309 AGCCAGTGTAAGACATGTCTGGGATAGGCATC
1 AGCCAGTGTAAGACATGTCTAGGATATGCATC
41991341 GACTACAAGA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
46 42 0.63
47 12 0.18
48 13 0.19
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTAGGATATGCATCAGCATCGAGACTA
Found at i:41991429 original size:50 final size:50
Alignment explanation
Indices: 41991359--41991488 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
41991349 GATGTGTCAG
41991359 TGTAAGACATGTCTGGGACATGGCACT-AGCACGGATATGCGAGAGCTAA
1 TGTAAGACATGTCTGGGACATGGCACTCAGCACGGATATGCGAGAGCTAA
* * * * **
41991408 TGTAAGACCATGTCTGAGACATGGC-GTCGGCACGGATATGTGAGAGCTTG
1 TGTAAGA-CATGTCTGGGACATGGCACTCAGCACGGATATGCGAGAGCTAA
41991458 TGTAAGATCATGTCTGGGACATGGCA-TCAGC
1 TGTAAGA-CATGTCTGGGACATGGCACTCAGC
41991489 CTCAATGATG
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 8 0.12
50 61 0.88
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (50 bp):
TGTAAGACATGTCTGGGACATGGCACTCAGCACGGATATGCGAGAGCTAA
Found at i:41993004 original size:25 final size:25
Alignment explanation
Indices: 41992976--41993033 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
41992966 TCATATGAGA
*
41992976 TTACCGTTATTTAGCTCGG-AGACGC
1 TTACCGTTATTCAGCTCGGAAGA-GC
*
41993001 TTACCATTATTCAGCTCGGAAGAGC
1 TTACCGTTATTCAGCTCGGAAGAGC
*
41993026 TTATCGTT
1 TTACCGTT
41993034 TATAGTTCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 25 0.89
26 3 0.11
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGGAAGAGC
Found at i:41993219 original size:26 final size:26
Alignment explanation
Indices: 41993188--41993239 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
41993178 CAAAGCTATT
41993188 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
41993214 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
41993240 GAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:42000694 original size:52 final size:51
Alignment explanation
Indices: 42000578--42000720 Score: 227
Period size: 52 Copynumber: 2.8 Consensus size: 51
42000568 CTGACTCAAA
*
42000578 TGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAGC-TTGGTCACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACAAG
*
42000627 TGTGGTTCTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAG
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCACAAG
* *
42000679 TGTGGTACTCTGTGAAGGCCACTTTGTGAAGAAGGTAGCTTT
1 TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTT
42000721 AACTACAAGG
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
49 29 0.34
51 17 0.20
52 40 0.47
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (51 bp):
TGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCACAAG
Found at i:42000749 original size:51 final size:52
Alignment explanation
Indices: 42000579--42000751 Score: 185
Period size: 52 Copynumber: 3.4 Consensus size: 52
42000569 TGACTCAAAT
* ** *
42000579 GTGGTACTATGTGAAGGCCACTTTGAGAAG--AGATAGC-TTGGTCACAAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTACTCACAAGG
* ** *
42000628 GTGGTTCTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCACAAGT
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTACTCACAAGG
* *
42000680 GTGGTACTCTGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTAACT-ACAAGG
1 GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTT-ACTCACAAGG
* * *
42000731 GTGGTATTATTTGCAGGCCAC
1 GTGGTACTATGTGAAGGCCAC
42000752 CGGGTATCCA
Statistics
Matches: 108, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
49 28 0.26
51 39 0.36
52 41 0.38
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (52 bp):
GTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTACTCACAAGG
Found at i:42013735 original size:46 final size:46
Alignment explanation
Indices: 42013680--42013850 Score: 145
Period size: 46 Copynumber: 3.7 Consensus size: 46
42013670 TGAGCATCCA
*
42013680 AACTAGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG-TTAG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGCTTAG
* * * * * **
42013726 AACTCGTTGAGTTGAGTTCGAGTTC-GTGA-AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--GC-TTAG
* *
42013773 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTA-
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGCTTAG
* *
42013819 AGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
42013851 GGCGGGTTAC
Statistics
Matches: 97, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 51 0.53
47 26 0.27
48 4 0.04
50 3 0.03
51 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGCTTAG
Found at i:42013832 original size:93 final size:93
Alignment explanation
Indices: 42013673--42013843 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
42013663 GGATGGTTGA
* *
42013673 GCATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTAGAACTCGTTGAGT
1 GCATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTAGAACTCGTTGAGT
42013738 TGAGT-TCGAGTTCGTGAAATGTAACTAG
66 TGAGTCT-GAGTTCGTGAAATGTAACTAG
* * * *
42013766 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTA-AGCTCGTTGAG
1 GCATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG-CTAGAACTCGTTGAG
42013830 TTGAGTCTGAGTTC
65 TTGAGTCTGAGTTC
42013844 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
93 67 0.96
94 3 0.04
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCAAACTAGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCTAGAACTCGTTGAGT
TGAGTCTGAGTTCGTGAAATGTAACTAG
Found at i:42015806 original size:28 final size:28
Alignment explanation
Indices: 42015766--42015879 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 28
42015756 GGAGGAAGCG
42015766 TTCTGGTGGCTATGCCACAAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* *
42015794 TTCTAGTGGCTATGCCACAAAAATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* *
42015822 TT-TGGTGGCTCTGCCA-TAATATCTGT
1 TTCTGGTGGCTATGCCACAAATATCTGT
* * * * *
42015848 ATATGGTGACTCTGTCAC-AATATCT-T
1 TTCTGGTGGCTATGCCACAAATATCTGT
42015874 TTCTGG
1 TTCTGG
42015880 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
26 14 0.19
27 31 0.42
28 28 0.38
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTATGCCACAAATATCTGT
Done.