Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 144 of 185
Found at i:43759726 original size:7 final size:7
Alignment explanation
Indices: 43759714--43759738 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43759704 TATATGTATA
43759714 TATAAAG
1 TATAAAG
43759721 TATAAAG
1 TATAAAG
43759728 TATAAAG
1 TATAAAG
43759735 TATA
1 TATA
43759739 TAAAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (7 bp):
TATAAAG
Found at i:43760395 original size:20 final size:19
Alignment explanation
Indices: 43760348--43760404 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
43760338 TCTTTTTTTT
* * *
43760348 AAATATCAGAAAAAAATAAA
1 AAATATGAGAAGAAAAT-AG
43760368 AAATATGA-AACGAAAATAG
1 AAATATGAGAA-GAAAATAG
43760387 AAATAATGAGAAGAAAAT
1 AAAT-ATGAGAAGAAAAT
43760405 CTCCAAGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.68, C:0.04, G:0.12, T:0.16
Consensus pattern (19 bp):
AAATATGAGAAGAAAATAG
Found at i:43764352 original size:40 final size:40
Alignment explanation
Indices: 43764303--43764394 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
43764293 AACGGCGTTT
*
43764303 TTAGGGGCGTTTGGAT-AAAAACGCCGCTAAAGATCGAACA
1 TTAGCGGCGTTT-GATGAAAAACGCCGCTAAAGATCGAACA
* * * * *
43764343 TTAGCGGCGTTTTATGGAAAATGTCGCTAAAGATCGAGCA
1 TTAGCGGCGTTTGATGAAAAACGCCGCTAAAGATCGAACA
*
43764383 TTAGTGGCGTTT
1 TTAGCGGCGTTT
43764395 TTTTGGAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 42 0.95
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (40 bp):
TTAGCGGCGTTTGATGAAAAACGCCGCTAAAGATCGAACA
Found at i:43764395 original size:40 final size:41
Alignment explanation
Indices: 43764327--43764404 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 41
43764317 ATAAAAACGC
43764327 CGCTAAAGATCGAACATTAGCGGCG-TTTTATGGAAAATGT
1 CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAATGT
* * *
43764367 CGCTAAAGATCGAGCATTAGTGGCGTTTTTTTGGAAAA
1 CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAA
43764405 CTCTGCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 23 0.68
41 11 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (41 bp):
CGCTAAAGATCGAACATTAGCGGCGTTTTTATGGAAAATGT
Found at i:43764414 original size:41 final size:40
Alignment explanation
Indices: 43764327--43764435 Score: 116
Period size: 40 Copynumber: 2.7 Consensus size: 40
43764317 ATAAAAACGC
*
43764327 CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATGT
1 CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATCT
* * *
43764367 CGCTAAAGATCGAGCATTAGTGGCGTTTTTTTGGAAAA-CT
1 CGCTAAAGATCGAACATTAGCGGCG-TTTTATGGAAAATCT
* *
43764407 CTGCTAAAAAT--AAGCATTAGCGACGTTTT
1 C-GCTAAAGATCGAA-CATTAGCGGCGTTTT
43764436 CCAGAAAGCA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 5 0.09
40 34 0.59
41 19 0.33
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (40 bp):
CGCTAAAGATCGAACATTAGCGGCGTTTTATGGAAAATCT
Found at i:43764538 original size:41 final size:41
Alignment explanation
Indices: 43764481--43764591 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 41
43764471 TGAACTTTCG
*
43764481 GGGCTTTAGCGGCATTTTT-AGGAAAGCG-TCGCTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGA-GAAAGCGCT-ACTAATGCTCA
*
43764522 GGGCTTTAGCGGCATTTTTGAGTAAGCGCTACTAATGCTCA
1 GGGCTTTAGCGGCATTTTTGAGAAAGCGCTACTAATGCTCA
*
43764563 GGGCTTTAGCGGCGTTTTTGAGAAAGCGC
1 GGGCTTTAGCGGCATTTTTGAGAAAGCGC
43764592 CGCAAAAAGT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 62 0.97
42 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCATTTTTGAGAAAGCGCTACTAATGCTCA
Found at i:43764982 original size:7 final size:7
Alignment explanation
Indices: 43764972--43765037 Score: 53
Period size: 7 Copynumber: 9.6 Consensus size: 7
43764962 AGAGTTTTGA
43764972 GTTTAGG
1 GTTTAGG
*
43764979 GTTTATG
1 GTTTAGG
* *
43764986 ATGTA-G
1 GTTTAGG
*
43764992 GTTTAGT
1 GTTTAGG
**
43764999 GTTTTTG
1 GTTTAGG
43765006 GTTTAGG
1 GTTTAGG
*
43765013 GTTTAAG
1 GTTTAGG
*
43765020 ATTTAGG
1 GTTTAGG
43765027 GTTTAGG
1 GTTTAGG
43765034 GTTT
1 GTTT
43765038 GGGCCAGTTT
Statistics
Matches: 43, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:43765010 original size:34 final size:36
Alignment explanation
Indices: 43764966--43765037 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 36
43764956 GGGATTAGAG
* *
43764966 TTTTGAGTTTAGGGTTTATGATGTA-GGTTTAGTGT
1 TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
*
43765001 TTTTG-GTTTAGGGTTTAAGATTTAGGGTTTAGGGT
1 TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
43765036 TT
1 TT
43765038 GGGCCAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 17 0.52
35 16 0.48
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (36 bp):
TTTTGAGTTTAGGGTTTAAGATGTAGGGTTTAGGGT
Found at i:43765134 original size:21 final size:21
Alignment explanation
Indices: 43765110--43765151 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43765100 TAGGGCTTGA
** *
43765110 TGTTTATGGTTTACGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
43765131 TGTTTATAATTTAAGGTTTAC
1 TGTTTATAATTTAAGGTTTAC
43765152 AATGCATGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.19, T:0.52
Consensus pattern (21 bp):
TGTTTATAATTTAAGGTTTAC
Found at i:43766688 original size:122 final size:122
Alignment explanation
Indices: 43766521--43766765 Score: 404
Period size: 122 Copynumber: 2.0 Consensus size: 122
43766511 CAACTGCTTT
*
43766521 CCCTGACATACAACATTAGGATTCTATGTTATATACACTTTGAACCTTTCTGCA-TTCAGCATTG
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTT-AGCATTG
* *
43766585 ACTTGAAAACTGGGAATCTAAGCTCAGAAATTGTGA-ATGGATCAAGTGGCACCTCATA
65 ACTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACA-GGATCAAGTGGCACCTCATA
* *
43766643 CCCTTACATGCAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
1 CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
*
43766708 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGTATCAAGTGGCACCTCATA
66 CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
43766765 C
1 C
43766766 AGCATGCATC
Statistics
Matches: 115, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
122 112 0.97
123 3 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (122 bp):
CCCTGACATACAACATTAGGATTCAATGTTATATACACTTTGAACCTTTCTGCAGTTAGCATTGA
CTAGAAAACTGGGAATCTAAGCTCAAAAATTGTGACAGGATCAAGTGGCACCTCATA
Found at i:43768714 original size:43 final size:43
Alignment explanation
Indices: 43768616--43768839 Score: 263
Period size: 43 Copynumber: 5.3 Consensus size: 43
43768606 GATATGTTTT
* * *
43768616 TAGCGGCGTTTATGTGAAAAGTGCCGCTAAAGGTC-TGTTCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * *
43768658 TAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * * * * *
43768701 TAGCGGAGTTTGTGGGATAAGCGCCGCTAAAGATCTTGATCTG
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* * * *
43768744 TAGCGGCGTTTG-CGTAAAAGTGCCGCTAAAGGTCCTGATTTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
* **
43768786 TAGCGGTGTTTGTCAGAAAAGTGCCGCTAAAGGTCATGATCTA
1 TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
43768829 TAGCGGCGTTT
1 TAGCGGCGTTT
43768840 ATTTCTAAAA
Statistics
Matches: 152, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 63 0.41
43 89 0.59
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTCATGATCTA
Found at i:43768763 original size:85 final size:85
Alignment explanation
Indices: 43768631--43768839 Score: 249
Period size: 85 Copynumber: 2.4 Consensus size: 85
43768621 GCGTTTATGT
* * * *
43768631 GAAAAGTGCCGCTAAAGGTCTGTTCTATAGCTGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATG
1 GAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCATG
**
43768696 ATCTATAGCGGAGTTTGTGG
66 ATCTATAGCGGAGTTTGTCA
* * * * * * *
43768716 GATAAGCGCCGCTAAAGATCTTGATCTGTAGCGGCGTTTG-CGTAAAAGTGCCGCTAAAGGTCCT
1 GAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCAT
* *
43768780 GATTTATAGCGGTGTTTGTCA
65 GATCTATAGCGGAGTTTGTCA
*
43768801 GAAAAGTGCCGCTAAAGGTCATGATCTATAGCGGCGTTT
1 GAAAAGCGCCGCTAAAGGTC-TGATCTATAGCGGCGTTT
43768840 ATTTCTAAAA
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
85 87 0.84
86 16 0.16
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (85 bp):
GAAAAGCGCCGCTAAAGGTCTGATCTATAGCGGCGTTTGTCGGAAAAGCGCCGCTAAAAGTCATG
ATCTATAGCGGAGTTTGTCA
Found at i:43769162 original size:15 final size:16
Alignment explanation
Indices: 43769142--43769171 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43769132 TATAAGGGAA
43769142 TAAATATATT-TTTAT
1 TAAATATATTATTTAT
43769157 TAAATATATTATTTA
1 TAAATATATTATTTA
43769172 AATTTAAAAT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAAATATATTATTTAT
Found at i:43773715 original size:22 final size:22
Alignment explanation
Indices: 43773680--43773731 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
43773670 TCCTACTCGT
43773680 GAAATAGCAACAAAACAACAAC
1 GAAATAGCAACAAAACAACAAC
* *
43773702 GAAATGGCAGCAAAACAACATA-
1 GAAATAGCAACAAAACAACA-AC
43773724 GAAATAGC
1 GAAATAGC
43773732 TAATTCAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (22 bp):
GAAATAGCAACAAAACAACAAC
Found at i:43775400 original size:28 final size:28
Alignment explanation
Indices: 43775338--43775401 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
43775328 TTAATATCAA
43775338 TATAA-ATATAAATATATAATTATTATT
1 TATAATATATAAATATATAATTATTATT
* *
43775365 TA-ACATATATAATTAATATAA-TATTTTT
1 TATA-ATATATAAAT-ATATAATTATTATT
43775393 TATAATATA
1 TATAATATA
43775402 ATATATTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
26 1 0.03
27 3 0.10
28 20 0.65
29 7 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
TATAATATATAAATATATAATTATTATT
Found at i:43780009 original size:22 final size:22
Alignment explanation
Indices: 43779981--43780023 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
43779971 ATAAGTTGTT
*
43779981 TTGCTACCATTTTGTTATTATA
1 TTGCTACCATTGTGTTATTATA
* *
43780003 TTGCTACTATTGTGTTGTTAT
1 TTGCTACCATTGTGTTATTAT
43780024 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTGTGTTATTATA
Found at i:43780377 original size:19 final size:19
Alignment explanation
Indices: 43780353--43780444 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
43780343 AATTTTTGAG
43780353 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
43780372 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
43780391 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
43780410 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43780429 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
43780445 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43784704 original size:13 final size:12
Alignment explanation
Indices: 43784683--43784718 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
43784673 GTTCAGATTC
43784683 AAAAAAAAAACA
1 AAAAAAAAAACA
43784695 AAAAACAAAAACA
1 AAAAA-AAAAACA
43784708 AAAATAAAAAA
1 AAAA-AAAAAA
43784719 TGAAAGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:43786523 original size:131 final size:132
Alignment explanation
Indices: 43785966--43786883 Score: 1272
Period size: 132 Copynumber: 7.0 Consensus size: 132
43785956 TTCCTCGTTT
* *
43785966 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
43786031 TAGTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
43786096 CA
131 CA
* * * * *
43786098 GTAGTGGAGTAAATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATAGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * ** ** *
43786163 CAGTAATTCTACTTCCCTGGGCAGCAGTAGAATAGATTAAAGATAGCAGATCTTGCCTTCCT--G
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
43786226 TA
131 CA
* * * * *
43786228 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTAA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* * *
43786293 AGTCAATAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
*
43786358 AAGAA
128 AAGCA
* *
43786363 GTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
43786428 CAGTAATTCTACTTCCTTAGGCAATAGT-GAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
43786492 CA
131 CA
* * *
43786494 GTAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
*
43786559 TAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
43786624 CA
131 CA
* * * *
43786626 GTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGT-GAGTACATTGAAGC
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * **
43786690 TAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
66 CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
*
43786755 TA
131 CA
* * * *
43786757 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
* * *
43786822 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
43786884 GCAGTTGCAG
Statistics
Matches: 695, Mismatches: 82, Indels: 18
0.87 0.10 0.02
Matches are distributed among these distances:
130 2 0.00
131 243 0.35
132 338 0.49
133 110 0.16
135 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGC
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CA
Found at i:43786631 original size:263 final size:264
Alignment explanation
Indices: 43785966--43786883 Score: 1321
Period size: 263 Copynumber: 3.5 Consensus size: 264
43785956 TTCCTCGTTT
* *
43785966 GTAGTCGAGCAGATCGAAGATGGCGGATTTTACCTCCCTATGGTTATAGTGGAGTACATTGAAG-
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
* *
43786030 CTAGTAATTCTACTTCCCTGGGTAGCAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
66 C-AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* * * * *
43786095 GCAGTAGTGGAGTAAATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATAGA
130 GCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* ** * ** ** *
43786160 AGCCAGTAATTCTACTTCCCTGGGCAGCAGTAGAATAGATTAAAGATAGCAGATCTTGCCTTCCT
195 AGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCT
43786225 --GTA
260 AAGTA
* * * * *
43786228 TTGACAGCGAAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTGTAGTGGAGTACATTAA
1 --G-TAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
43786293 AGTCAATAATTCTACTTCCCTGGGCAGTAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
63 AGTCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
*
43786358 AAGAAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
128 AAGCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATT
*
43786423 GAAGCCAGTAATTCTACTTCCTTAGGCAATAGT-GAATAGATTGAAGATTTCAGATCTTATCTCC
193 GAAGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCC
*
43786487 CTAAGCA
258 CTAAGTA
* * *
43786494 GTAGTGGAGCAGATTGAAGATGGCAGATTTTACCTCCATGTGGTTATAGTGGAGTACATTGAAG-
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
43786558 CTAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
66 C-AGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAA
* * * * *
43786623 GCAGTAGTGGAGCAGATTGAAGATTGCGGATTTTACCTCCCTGTAGTTACAGT-GAGTACATTGA
130 GCAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGA
* *
43786687 AGCTAGTAATTCTACTTCCCTAGGCAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT
195 AGCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCT
43786752 AAGTA
260 AAGTA
* * *
43786757 GTAGTGGAGTAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGT
1 GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
* * *
43786822 CAGTAATTCTA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCTTATCTCCCT
66 CAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGATTGAAGATT-TCAGATCTTATCTCCCT
43786884 GCAGTTGCAG
Statistics
Matches: 589, Mismatches: 56, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
262 42 0.07
263 310 0.53
264 33 0.06
265 201 0.34
266 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (264 bp):
GTAGTGGAGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGT
CAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAG
CAGTAGTGGAGTAGATCGAAGATAGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAA
GCCAGTAATTCTACTTCCCTAGGCAATAGTAGAATAGATTGAAGATTTCAGATCTTATCTCCCTA
AGTA
Found at i:43787136 original size:19 final size:19
Alignment explanation
Indices: 43787112--43787203 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
43787102 AATTTTTGAG
43787112 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
43787131 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
43787150 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
43787169 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
43787188 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
43787204 ATATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:43787731 original size:98 final size:98
Alignment explanation
Indices: 43787608--43787802 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
43787598 AAAAATCATG
*
43787608 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
43787673 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
43787706 AAGGAAATATTCCGAGTTTGGGATTCTAAAGGGATCGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
*
43787771 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
43787803 TTTATTGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:43799138 original size:24 final size:24
Alignment explanation
Indices: 43799094--43799141 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43799084 AATAGCTCCA
* *
43799094 AAGAGCAATTAATGAGTAGCATCG
1 AAGAGCAATTAACGAGAAGCATCG
*
43799118 AAGAGCAATTAACGGGAAGCATCG
1 AAGAGCAATTAACGAGAAGCATCG
43799142 GATAGCCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (24 bp):
AAGAGCAATTAACGAGAAGCATCG
Found at i:43799240 original size:26 final size:25
Alignment explanation
Indices: 43799175--43799234 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 25
43799165 AAGCAAGCAC
*
43799175 TAACGGGAAGCTCACAAAGAGCCTT
1 TAACGGGAAGCTCACAAAGAGCCTA
*
43799200 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCC-TA
43799227 TAACGGGA
1 TAACGGGA
43799235 CACTCATAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 3 0.10
26 24 0.77
27 4 0.13
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (25 bp):
TAACGGGAAGCTCACAAAGAGCCTA
Found at i:43804114 original size:18 final size:19
Alignment explanation
Indices: 43804077--43804121 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
43804067 TAGGAAGTAG
43804077 ACAAAAAAAAAACATCATCA
1 ACAAAAAAAAAACA-CATCA
* *
43804097 CCAAAAAAAAAAGA-ATCA
1 ACAAAAAAAAAACACATCA
43804115 ACAAAAA
1 ACAAAAA
43804122 GTTTTGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.73, C:0.18, G:0.02, T:0.07
Consensus pattern (19 bp):
ACAAAAAAAAAACACATCA
Found at i:43804838 original size:21 final size:21
Alignment explanation
Indices: 43804805--43804845 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
43804795 TTCTCCTTCA
* *
43804805 ACTTCCTATAATATATTATCT
1 ACTTCCTAAAATAGATTATCT
*
43804826 ACTTTCTAAAATAGATTATC
1 ACTTCCTAAAATAGATTATC
43804846 ACATAATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (21 bp):
ACTTCCTAAAATAGATTATCT
Found at i:43811056 original size:20 final size:20
Alignment explanation
Indices: 43811031--43811098 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
43811021 AAGACACCAG
*
43811031 AATATCGTAGTTCATAATGA
1 AATATCATAGTTCATAATGA
*
43811051 AATATCAATA-TCTTATAATGA
1 AATATC-ATAGT-TCATAATGA
43811072 AATATCATAGTTCATAATGA
1 AATATCATAGTTCATAATGA
43811092 AATATCA
1 AATATCA
43811099 ATATCTCATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (20 bp):
AATATCATAGTTCATAATGA
Found at i:43811070 original size:21 final size:21
Alignment explanation
Indices: 43811042--43811109 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
43811032 ATATCGTAGT
43811042 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
*
43811063 TTATAATGAAATATC-ATAGT-
1 TCATAATGAAATATCAATA-TC
43811083 TCATAATGAAATATCAATATC
1 TCATAATGAAATATCAATATC
43811104 TCATAA
1 TCATAA
43811110 AATCATTTCC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 18 0.43
21 24 0.57
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (21 bp):
TCATAATGAAATATCAATATC
Found at i:43811076 original size:41 final size:41
Alignment explanation
Indices: 43811031--43811109 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
43811021 AAGACACCAG
* *
43811031 AATATCGTAGTTCATAATGAAATATCAATATCTTATAATGA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
43811072 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
1 AATATCATAGTTCATAATGAAATATCAATATCTCATAA
43811110 AATCATTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (41 bp):
AATATCATAGTTCATAATGAAATATCAATATCTCATAATGA
Found at i:43813992 original size:40 final size:40
Alignment explanation
Indices: 43813941--43814028 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
43813931 CATTAAGCCT
43813941 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
1 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
*
43813981 CCTGCTAGACATTAAGTCTGTAAAGTTCATCGGCATTAAG
1 CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
43814021 CCTGCTAG
1 CCTGCTAG
43814029 GCACAGGACC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
CCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCATTAAG
Found at i:43816647 original size:396 final size:397
Alignment explanation
Indices: 43815914--43816709 Score: 1513
Period size: 396 Copynumber: 2.0 Consensus size: 397
43815904 TACAAGAGCT
43815914 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
1 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
*
43815979 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACTCATATCCATCACCGAAACA
66 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
43816044 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
131 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
* * *
43816109 TAACCGAAATCAAACATATTCAATCGTAATGTCCCTTGAATGGGCCTTCGAGACCCAATTTTTGC
196 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATAGGCCCTCGAGACCCAATTTTTGC
* *
43816174 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCTGAGAATTTTTCACAAAATCTCAAAATTTTTC
261 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCAGAAAATTTTTCACAAAATCTCAAAATTTTTC
43816239 TTAGCTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATCCC
326 TTAGCTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATCCC
43816304 CATGTCC
391 CATGTCC
43816311 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
1 CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
*
43816376 ATTAGCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCG-AACA
66 ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
43816440 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
131 AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
43816505 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATAGGCCCTCGAGACCCAATTTTTGC
196 TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATAGGCCCTCGAGACCCAATTTTTGC
43816570 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCAGAAAATTTTTCACAAAATCTCAAAATTTTTC
261 TTTAGAAACAAGTCGGGACTAAATCTGGAACTCAGAAAATTTTTCACAAAATCTCAAAATTTTTC
*
43816635 TTAGCTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATGCC
326 TTAGCTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATCCC
43816700 CATGTCC
391 CATGTCC
43816707 CAG
1 CAG
43816710 GCCATGTGGG
Statistics
Matches: 391, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
396 268 0.69
397 123 0.31
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (397 bp):
CAGAACCTAAACATGTATTCTCGAGTCCGCAACATATGCAAGAGGTTGGAACCTAGGCAAAATTC
ATTACCTTGTATAAGAGGTTTTACTAATTTTGTAACACCCCTAACCCATATCCATCACCGAAACA
AGGTTACGGAGCATTACCAGAGTTTATAGATTTAAAAATAGTTTACACATATCATTTACTATTCA
TAACCGAAATCAAACATATTCAATCATAATGTCCCTTGAATAGGCCCTCGAGACCCAATTTTTGC
TTTAGAAACAAGTCGGGACTAAATCTGGAACTCAGAAAATTTTTCACAAAATCTCAAAATTTTTC
TTAGCTGCAGGGGACACACGCCCGTGTGGCTAGGCCGTGTGGCTTTCACGGCCAAGTGACATCCC
CATGTCC
Found at i:43819552 original size:37 final size:37
Alignment explanation
Indices: 43819491--43819636 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
43819481 TACGTATGAT
* *
43819491 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
43819526 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43819563 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
43819600 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43819637 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:43819653 original size:46 final size:46
Alignment explanation
Indices: 43819600--43819868 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
43819590 TAAGTGTAGC
* **
43819600 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
43819646 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43819692 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
43819744 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
43819790 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43819842 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
43819869 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:43819719 original size:52 final size:52
Alignment explanation
Indices: 43819643--43819862 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
43819633 TAGCTAAAGC
* *
43819643 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43819696 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43819748 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
43819794 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
43819846 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
43819863 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:43819765 original size:98 final size:98
Alignment explanation
Indices: 43819600--43819868 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
43819590 TAAGTGTAGC
* * *
43819600 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
43819665 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
43819699 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
43819764 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
43819797 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
43819862 GATCAGA
66 GATCAGA
43819869 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:43823049 original size:49 final size:49
Alignment explanation
Indices: 43822994--43823139 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
43822984 TTCGTTTTCT
* *
43822994 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
43823043 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
43823092 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
43823140 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:43824453 original size:37 final size:37
Alignment explanation
Indices: 43824392--43824537 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
43824382 TACGTATGAT
* *
43824392 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
43824427 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43824464 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
43824501 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
43824538 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:43824554 original size:46 final size:46
Alignment explanation
Indices: 43824501--43824769 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
43824491 TAAGTGTAGC
* **
43824501 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
43824547 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43824593 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
43824645 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
43824691 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
43824743 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
43824770 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:43824620 original size:52 final size:52
Alignment explanation
Indices: 43824544--43824763 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
43824534 TAGCTAAAGC
* *
43824544 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43824597 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
43824649 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
43824695 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
43824747 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
43824764 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:43824666 original size:98 final size:98
Alignment explanation
Indices: 43824501--43824769 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
43824491 TAAGTGTAGC
* * *
43824501 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
43824566 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
43824600 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
43824665 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
43824698 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
43824763 GATCAGA
66 GATCAGA
43824770 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:43832062 original size:18 final size:17
Alignment explanation
Indices: 43832036--43832069 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
43832026 CCCAAGACAA
*
43832036 TTTTTAAAAATGGGTTT
1 TTTTTAAAAAGGGGTTT
43832053 TTTTTAAAAAAGGGGTT
1 TTTTT-AAAAAGGGGTT
43832070 CGTATATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTTTTAAAAAGGGGTTT
Found at i:43833288 original size:15 final size:14
Alignment explanation
Indices: 43833268--43833301 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
43833258 AAAAAGGTAC
*
43833268 AAAAAATAATAATA
1 AAAAAATAAAAATA
43833282 GAAAAAATAAAAATA
1 -AAAAAATAAAAATA
43833297 AAAAA
1 AAAAA
43833302 CTACCTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:43841216 original size:46 final size:46
Alignment explanation
Indices: 43841131--43841241 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 46
43841121 ACTACACTCN
43841131 TGTTCTTAGGTATTAAAAAACTTAAAATACTACCTTCTTTCTCACA
1 TGTTCTTAGGTATTAAAAAACTTAAAATACTACCTTCTTTCTCACA
* *
43841177 TGTTTTTAGGTATTAAAAAACTTAAAATACCATA-C-TCTTTCTCACG
1 TGTTCTTAGGTATTAAAAAACTTAAAATA-C-TACCTTCTTTCTCACA
* **
43841223 TATTCTTAAATATTAAAAA
1 TGTTCTTAGGTATTAAAAA
43841242 TACCATACTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 53 0.93
47 2 0.04
48 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (46 bp):
TGTTCTTAGGTATTAAAAAACTTAAAATACTACCTTCTTTCTCACA
Found at i:43841243 original size:38 final size:38
Alignment explanation
Indices: 43841200--43841306 Score: 137
Period size: 38 Copynumber: 3.1 Consensus size: 38
43841190 TAAAAAACTT
43841200 AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
1 AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
43841238 AAAATACCATACTCTTTCTCACG----------TATT-
1 AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
43841265 AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
1 AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
43841303 AAAA
1 AAAA
43841307 AACTTAAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 22
0.73 0.00 0.28
Matches are distributed among these distances:
27 23 0.40
28 4 0.07
37 4 0.07
38 27 0.47
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.37
Consensus pattern (38 bp):
AAAATACCATACTCTTTCTCACGTATTCTTAAATATTA
Found at i:43841276 original size:27 final size:28
Alignment explanation
Indices: 43841233--43841291 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
43841223 TATTCTTAAA
43841233 TATTAAAAATACCATACTCTTTCTCACG
1 TATTAAAAATACCATACTCTTTCTCACG
43841261 TATT-AAAATACCATACTCTTTCTCACG
1 TATTAAAAATACCATACTCTTTCTCACG
43841288 TATT
1 TATT
43841292 CTTAAATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (28 bp):
TATTAAAAATACCATACTCTTTCTCACG
Found at i:43841663 original size:22 final size:22
Alignment explanation
Indices: 43841633--43841675 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
43841623 ACACGAAAAC
* *
43841633 AGGCTTTTAGTGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
43841655 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
43841676 AGCGCCGCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:43841867 original size:42 final size:43
Alignment explanation
Indices: 43841747--43841925 Score: 243
Period size: 43 Copynumber: 4.2 Consensus size: 43
43841737 GCGTCGCTAA
* *
43841747 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
43841790 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
43841833 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*** * * *
43841875 CTTTAGCGGCGCTTTTTTTATAAATGCCGCTATAGATCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
*
43841918 TTTTAGCG
1 CTTTAGCG
43841926 ACGTTTTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 39 0.32
43 84 0.68
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:43841876 original size:85 final size:86
Alignment explanation
Indices: 43841747--43841925 Score: 243
Period size: 85 Copynumber: 2.1 Consensus size: 86
43841737 GCGTCGCTAA
* * *
43841747 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
43841812 AACGCCGCTATAGATCAGGAC
66 AACGCCGCTATAGATCAGGAC
* * *** *
43841833 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTTATA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
* *
43841897 AATGCCGCTATAGATCATGAC
66 AACGCCGCTATAGATCAGGAC
*
43841918 TTTTAGCG
1 CTTTAGCG
43841926 ACGTTTTTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
85 66 0.81
86 15 0.19
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACA
AACGCCGCTATAGATCAGGAC
Found at i:43844305 original size:21 final size:21
Alignment explanation
Indices: 43844281--43844321 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43844271 AACCCTAAAT
43844281 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
43844302 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
43844322 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:43844558 original size:23 final size:24
Alignment explanation
Indices: 43844519--43844572 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
43844509 TATATGAAAT
*
43844519 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
43844543 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
43844565 TAATTAAT
1 TATTTAAT
43844573 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:43844637 original size:22 final size:22
Alignment explanation
Indices: 43844602--43844664 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
43844592 TTGACCCATG
* *
43844602 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
43844624 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
43844646 AAC-CACTAACCCCTAAACC
1 AACTCA-TAACCCCTAAACC
43844665 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:43844713 original size:15 final size:15
Alignment explanation
Indices: 43844677--43844717 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
43844667 AAATCTCAAC
43844677 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
43844691 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
43844705 CCTTAAATCCATA
1 CCTTAAATCCATA
43844718 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:43844726 original size:15 final size:15
Alignment explanation
Indices: 43844680--43844726 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
43844670 TCTCAACCCT
*
43844680 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
43844694 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
43844708 TAAATCCATACTCCA
1 TAAATCCATAATCCA
43844723 TAAA
1 TAAA
43844727 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:43845008 original size:41 final size:41
Alignment explanation
Indices: 43844951--43845066 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
43844941 TAAAATGTTT
43844951 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
43844992 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAGCCA
**
43845033 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCC
43845067 ACGAAATGTT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 68 0.99
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:43853442 original size:17 final size:18
Alignment explanation
Indices: 43853417--43853450 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
43853407 CCATTATATT
*
43853417 TTTTTAATTT-TTTTATA
1 TTTTCAATTTATTTTATA
43853434 TTTTCAATTTATTTTAT
1 TTTTCAATTTATTTTAT
43853451 TTTATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCAATTTATTTTATA
Found at i:43856103 original size:22 final size:23
Alignment explanation
Indices: 43856053--43856110 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 23
43856043 GCTTGTGAGA
43856053 AAGCGCCGCTAAAAAATAAGCTAG
1 AAGCGCCGCT-AAAAATAAGCTAG
* *
43856077 AAGCGCCGCTAAAAATATGC-AT
1 AAGCGCCGCTAAAAATAAGCTAG
*
43856099 TAGCGCCGCTAA
1 AAGCGCCGCTAA
43856111 TAAAAATCCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 12 0.39
23 9 0.29
24 10 0.32
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
AAGCGCCGCTAAAAATAAGCTAG
Found at i:43856248 original size:42 final size:44
Alignment explanation
Indices: 43856145--43856250 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 44
43856135 GTAGCCTTCG
* *
43856145 GAGGGCTTTAGTGGCGTTTTT--GTATTAGCGCCGCTAATGCTTT
1 GAGGGTTTTAGTGGCGTTTTTAAGTATTA-CGCCGCTAATGCGTT
* * *
43856188 GA--CTTTTAGCGGCATTTTTAAGTATT-CGCCGCTAATG-GTT
1 GAGGGTTTTAGTGGCGTTTTTAAGTATTACGCCGCTAATGCGTT
43856228 GAGGGTTTTAGTGGCGTTTTTAA
1 GAGGGTTTTAGTGGCGTTTTTAA
43856251 TCAACCGCCG
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
40 4 0.08
41 24 0.47
42 16 0.31
43 7 0.14
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.41
Consensus pattern (44 bp):
GAGGGTTTTAGTGGCGTTTTTAAGTATTACGCCGCTAATGCGTT
Found at i:43856408 original size:41 final size:40
Alignment explanation
Indices: 43856285--43856409 Score: 110
Period size: 41 Copynumber: 3.0 Consensus size: 40
43856275 TGAAGCACCA
* * *
43856285 CTAATATATGGTCTTTTAGCGGCGTTTTTATATAAGAGCCG
1 CTAATATATGGTCTTTTAGCGGCGTTTATGT-TAAGCGCCG
* * * * *
43856326 CTAA-AGTTAAGAT-TTTTGGCGGGGTTTTTATGATAAGCGCCG
1 CTAATA--TATGGTCTTTTAGCGGCG--TTTATGTTAAGCGCCG
43856368 CTAATATATGGTCTTTTAGCGGCGTTTATGTTGAAGCGCCG
1 CTAATATATGGTCTTTTAGCGGCGTTTATGTT-AAGCGCCG
43856409 C
1 C
43856410 AAAAAACATT
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
40 8 0.12
41 26 0.41
42 25 0.39
43 5 0.08
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (40 bp):
CTAATATATGGTCTTTTAGCGGCGTTTATGTTAAGCGCCG
Found at i:43857327 original size:22 final size:20
Alignment explanation
Indices: 43857305--43857369 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 20
43857295 GATATAAGGT
*
43857305 TTAGGGGTTAGGGTTTAGTGG
1 TTAGGGTTTAGGGTTTAG-GG
* *
43857326 TTAGGAATTTAGGGGTTAGGGG
1 TTAGG-GTTTAGGGTTTA-GGG
43857348 TTAGGGATTTAGGGTTTAGGG
1 TTAGGG-TTTAGGGTTTAGGG
43857369 T
1 T
43857370 GTCAAGGGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
21 9 0.25
22 26 0.72
23 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (20 bp):
TTAGGGTTTAGGGTTTAGGG
Found at i:43857342 original size:15 final size:14
Alignment explanation
Indices: 43857304--43857368 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
43857294 AGATATAAGG
*
43857304 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGA
*
43857318 TTTAGTGGTTAGGAA
1 TTTAGGGGTTAGG-A
*
43857333 TTTAGGGGTTAGGG
1 TTTAGGGGTTAGGA
* * *
43857347 GTTAGGGATTTAGGG
1 TTTAGGG-GTTAGGA
43857362 TTTAGGG
1 TTTAGGG
43857369 TGTCAAGGGT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
14 18 0.43
15 24 0.57
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (14 bp):
TTTAGGGGTTAGGA
Found at i:43857369 original size:7 final size:7
Alignment explanation
Indices: 43857302--43857369 Score: 66
Period size: 7 Copynumber: 9.4 Consensus size: 7
43857292 TGAGATATAA
43857302 GGTTTAG
1 GGTTTAG
*
43857309 GGGTTAG
1 GGTTTAG
43857316 GGTTTAG
1 GGTTTAG
43857323 TGG-TTAG
1 -GGTTTAG
*
43857330 GAATTTAG
1 G-GTTTAG
*
43857338 GGGTTAG
1 GGTTTAG
*
43857345 GGGTTAG
1 GGTTTAG
43857352 GGATTTAG
1 GG-TTTAG
43857360 GGTTTAG
1 GGTTTAG
43857367 GGT
1 GGT
43857370 GTCAAGGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
6 1 0.02
7 37 0.73
8 13 0.25
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.37
Consensus pattern (7 bp):
GGTTTAG
Found at i:43858700 original size:22 final size:22
Alignment explanation
Indices: 43858659--43858702 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
43858649 AATTCATGAA
*
43858659 TTTTTTTTCCCTTTTCTCTCTT
1 TTTTTTTTCCCTTCTCTCTCTT
43858681 TTTTTTCTTCCCTTCT-TCTCTT
1 TTTTTT-TTCCCTTCTCTCTCTT
43858703 CTCCTTGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTTCCCTTCTCTCTCTT
Found at i:43860658 original size:15 final size:14
Alignment explanation
Indices: 43860634--43860663 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
43860624 TATTCCATAT
43860634 ATAAAAATTTATAA
1 ATAAAAATTTATAA
43860648 ATAATAAATTTATAA
1 ATAA-AAATTTATAA
43860663 A
1 A
43860664 GTCGAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAAATTTATAA
Found at i:43864490 original size:14 final size:14
Alignment explanation
Indices: 43864473--43864528 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
43864463 ACTGAAGACG
43864473 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
*
43864487 AAGACAAAAAGACAAA
1 AAGA-AAAAA-AGAAA
*
43864503 AAGAAAAAGAGAAA
1 AAGAAAAAAAGAAA
*
43864517 AAGAGAAAAAGA
1 AAGAAAAAAAGA
43864529 GAGAAAGAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 18 0.51
15 9 0.26
16 8 0.23
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:43864503 original size:22 final size:22
Alignment explanation
Indices: 43864473--43864528 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
43864463 ACTGAAGACG
43864473 AAGAAAAAAAGAAAAAGACAAA
1 AAGAAAAAAAGAAAAAGACAAA
* *
43864495 AAGACAAAAAGAAAAAGAGAAA
1 AAGAAAAAAAGAAAAAGACAAA
*
43864517 AAGAGAAAAAGA
1 AAGAAAAAAAGA
43864529 GAGAAAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.79, C:0.04, G:0.18, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAGAAAAAGACAAA
Found at i:43864539 original size:8 final size:8
Alignment explanation
Indices: 43864474--43864538 Score: 80
Period size: 8 Copynumber: 8.4 Consensus size: 8
43864464 CTGAAGACGA
*
43864474 AGAAAAAA
1 AGAAAAAG
43864482 AGAAAAAG
1 AGAAAAAG
*
43864490 ACAAAAAG
1 AGAAAAAG
*
43864498 A-CAAAA-
1 AGAAAAAG
43864504 AGAAAAAG
1 AGAAAAAG
43864512 AGAAAAAG
1 AGAAAAAG
43864520 AGAAAAAG
1 AGAAAAAG
*
43864528 AGAGAAAG
1 AGAAAAAG
43864536 AGA
1 AGA
43864539 GGGGGGAGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
6 1 0.02
7 8 0.16
8 41 0.82
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (8 bp):
AGAAAAAG
Found at i:43870623 original size:23 final size:22
Alignment explanation
Indices: 43870591--43870690 Score: 69
Period size: 23 Copynumber: 4.3 Consensus size: 22
43870581 TTACTTGAAA
*
43870591 TTAATAATATTATTATAAAAAT
1 TTAAAAATATTATTATAAAAAT
*
43870613 TGTAAAAATATTTTTA-AAAAACGT
1 T-TAAAAATATTATTATAAAAA--T
* *
43870637 TTAAAAATATTTTTTTATAAAAT
1 TTAAAAATATTATTATA-AAAAT
* *
43870660 TATAAAATATATAATTCT-AAAAT
1 T-TAAAA-ATATTATTATAAAAAT
43870683 TCTAAAAA
1 T-TAAAAA
43870691 GGTATTTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
22 7 0.11
23 38 0.59
24 8 0.12
25 11 0.17
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAAAATATTATTATAAAAAT
Found at i:43870814 original size:24 final size:25
Alignment explanation
Indices: 43870787--43870833 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43870777 TTAAATTATA
43870787 TATTTT-AAAATTTTTATAAAAATT
1 TATTTTCAAAATTTTTATAAAAATT
* *
43870811 TATTTTCAAACTTTTTTTAAAAA
1 TATTTTCAAAATTTTTATAAAAA
43870834 AATTATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (25 bp):
TATTTTCAAAATTTTTATAAAAATT
Found at i:43870988 original size:14 final size:14
Alignment explanation
Indices: 43870971--43871039 Score: 58
Period size: 14 Copynumber: 5.1 Consensus size: 14
43870961 AAAAGTATTT
43870971 TTTTAATATTTAAA
1 TTTTAATATTTAAA
43870985 TTTTAATATTATAAA
1 TTTTAATATT-TAAA
*
43871000 TTTCT-AT-TTTTAA
1 TTT-TAATATTTAAA
43871013 -TTTAA-ATTTAATA
1 TTTTAATATTTAA-A
*
43871026 TTTTTAT-TTTAAA
1 TTTTAATATTTAAA
43871039 T
1 T
43871040 AAACCTAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
11 1 0.02
12 7 0.16
13 6 0.13
14 21 0.47
15 9 0.20
16 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTAATATTTAAA
Found at i:43871029 original size:20 final size:20
Alignment explanation
Indices: 43870972--43871039 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
43870962 AAAGTATTTT
*
43870972 TTTAATATTTAA-ATTTTAATA
1 TTTAA-ATTTAATATTTTTA-A
*
43870993 TTATAAATTT-CTATTTTTAA
1 TT-TAAATTTAATATTTTTAA
*
43871013 TTTAAATTTAATATTTTTAT
1 TTTAAATTTAATATTTTTAA
43871033 TTTAAAT
1 TTTAAAT
43871040 AAACCTAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 7 0.17
20 18 0.45
21 12 0.30
22 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAATTTAATATTTTTAA
Found at i:43872380 original size:7 final size:7
Alignment explanation
Indices: 43872347--43872379 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
43872337 CCGGTCCATC
43872347 GGCCTTA
1 GGCCTTA
43872354 GGCCTTA
1 GGCCTTA
43872361 GGCCTTA
1 GGCCTTA
*
43872368 GGCCTCA
1 GGCCTTA
43872375 GGCCT
1 GGCCT
43872380 CTTAGCTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.12, C:0.33, G:0.30, T:0.24
Consensus pattern (7 bp):
GGCCTTA
Found at i:43889237 original size:50 final size:49
Alignment explanation
Indices: 43889152--43889246 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 49
43889142 CCCCTTCCTT
43889152 TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
1 TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
* * * *
43889201 TTTAATTCAATGTCATCCGTTCCCATGAAGATGCGGGCATCGATCA
1 TTTAACTCAATGTCAT-CATTCCCATGAAGACGCGGGCATCAATCA
43889247 TGACTGAACT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 15 0.37
50 26 0.63
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TTTAACTCAATGTCATCATTCCCATGAAGACGCGGGCATCAATCAGTCA
Found at i:43903914 original size:2 final size:2
Alignment explanation
Indices: 43903907--43903942 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
43903897 TACATACATA
* *
43903907 TG TG TG TG TG CG TG TG TG TG TG TG TG CG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
43903943 AAATTTTACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.50, T:0.44
Consensus pattern (2 bp):
TG
Found at i:43903928 original size:16 final size:16
Alignment explanation
Indices: 43903907--43903942 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
43903897 TACATACATA
43903907 TGTGTGTGTGCGTGTG
1 TGTGTGTGTGCGTGTG
43903923 TGTGTGTGTGCGTGTG
1 TGTGTGTGTGCGTGTG
43903939 TGTG
1 TGTG
43903943 AAATTTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.50, T:0.44
Consensus pattern (16 bp):
TGTGTGTGTGCGTGTG
Found at i:43908442 original size:43 final size:41
Alignment explanation
Indices: 43908384--43908486 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 41
43908374 AATATGTCAT
43908384 AATAATATCCTATAATATCATATTAGAAATCAAATTGCTAATA
1 AATAATATCC-ATAATATCATATTAGAAATCAAATTGCTAA-A
* *
43908427 AATAATATCTCATAATATCTTATTAGGAATCAAATTGCTAAA
1 AATAATATC-CATAATATCATATTAGAAATCAAATTGCTAAA
43908469 AGATAATATCCCATAATA
1 A-ATAATAT-CCATAATA
43908487 ATATCCTAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
42 2 0.04
43 51 0.93
44 2 0.04
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (41 bp):
AATAATATCCATAATATCATATTAGAAATCAAATTGCTAAA
Found at i:43912782 original size:53 final size:53
Alignment explanation
Indices: 43912716--43912821 Score: 160
Period size: 53 Copynumber: 2.0 Consensus size: 53
43912706 AGTACTAATA
* *
43912716 AAAACATATTTAAACGATTTTGTTCAAGACCT-ACAACATTATGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGA-CTGACAACATTATGTCTTACAAAT
* *
43912769 AAAACATAATTAAATAATTTTGTTCAAGACTGACAACATTGTGTCTTACAAAT
1 AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
43912822 TGAAAAATAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 2 0.04
53 46 0.96
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (53 bp):
AAAACATAATTAAACAATTTTGTTCAAGACTGACAACATTATGTCTTACAAAT
Found at i:43917492 original size:59 final size:61
Alignment explanation
Indices: 43917423--43917539 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
43917413 ATAACTTTAA
* **
43917423 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTATGTTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
* * *
43917482 TATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTAATTTTGATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAGATAAATATTAAATTAAATTTAATATTAA
43917540 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 20 0.41
61 1 0.02
62 28 0.57
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (61 bp):
TATTAAATTAATAGAATACTTACTACAAGATAAATATTAAATTAAATTTAATATTAAATCT
Found at i:43921417 original size:18 final size:18
Alignment explanation
Indices: 43921379--43921470 Score: 62
Period size: 18 Copynumber: 4.9 Consensus size: 18
43921369 GTTGATTGGA
**
43921379 AAAAAATATTAAAAACAAT
1 AAAAAAT-TTAAAAATTAT
43921398 AAAAAATTTAAAAATTAT
1 AAAAAATTTAAAAATTAT
* *
43921416 --AACATTGTAACAACTTATT
1 AAAAAATT-TAA-AAATTA-T
*
43921435 AAAAAATTGCAAAAATTAT
1 AAAAAATT-TAAAAATTAT
* *
43921454 AAAAAATGTAAATATTA
1 AAAAAATTTAAAAATTA
43921471 ACAAATTATT
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
16 5 0.09
17 3 0.05
18 21 0.36
19 16 0.28
20 5 0.09
21 8 0.14
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAAAATTTAAAAATTAT
Found at i:43922061 original size:31 final size:31
Alignment explanation
Indices: 43922014--43922081 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
43922004 TGTTAATCTA
* *
43922014 TGAACTTGGCAATTGTT-TCTCTATTAGGGCT
1 TGAACTTGACAATTGTTCT-TATATTAGGGCT
*
43922045 TGAATTTGACAATTGTTCTTATATTAGGGCT
1 TGAACTTGACAATTGTTCTTATATTAGGGCT
*
43922076 TCAACT
1 TGAACT
43922082 CTAGGGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (31 bp):
TGAACTTGACAATTGTTCTTATATTAGGGCT
Found at i:43922959 original size:17 final size:18
Alignment explanation
Indices: 43922937--43922971 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
43922927 GATATATAAT
*
43922937 TATATTTTAAAA-TAAAA
1 TATATTCTAAAATTAAAA
43922954 TATATTCTAAAATTAAAA
1 TATATTCTAAAATTAAAA
43922972 AGGAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATTCTAAAATTAAAA
Found at i:43925046 original size:21 final size:21
Alignment explanation
Indices: 43925020--43925098 Score: 108
Period size: 21 Copynumber: 3.9 Consensus size: 21
43925010 GGTGGATCAA
*
43925020 CTCTTACGAGCTTCTATTCAG
1 CTCTTACGAGCTTCTGTTCAG
* *
43925041 CTCTTATGAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAG
*
43925062 CTCTTATGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAG
43925083 CT-TT-CGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
43925099 GGTGTATTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
19 11 0.21
20 2 0.04
21 40 0.75
ACGTcount: A:0.15, C:0.25, G:0.16, T:0.43
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAG
Found at i:43925063 original size:42 final size:40
Alignment explanation
Indices: 43925016--43925098 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 40
43925006 ATTGGGTGGA
*
43925016 TCAACTCTTACGAGCTTCTATTCAGCTCTTATGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTATTCAGCT-TT-CGAGCTTCTGT
* *
43925058 TCAACTCTTATGAGCTTCTGTTCAGCTTTCGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTATTCAGCTTTCGAGCTTCTGT
43925098 T
1 T
43925099 GGTGTATTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 11 0.29
41 2 0.05
42 25 0.66
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.42
Consensus pattern (40 bp):
TCAACTCTTACGAGCTTCTATTCAGCTTTCGAGCTTCTGT
Found at i:43927596 original size:30 final size:29
Alignment explanation
Indices: 43927563--43927618 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
43927553 CCCTTTTGTT
*
43927563 TTTTTA-TTTCGATTTCGCCCCCTTTTTGG
1 TTTTTACTTT-GATTTAGCCCCCTTTTTGG
*
43927592 TTTTTACTTTGATTTAGTCCCCTTTTT
1 TTTTTACTTTGATTTAGCCCCCTTTTT
43927619 AGTATTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.09, C:0.21, G:0.11, T:0.59
Consensus pattern (29 bp):
TTTTTACTTTGATTTAGCCCCCTTTTTGG
Found at i:43927669 original size:3 final size:3
Alignment explanation
Indices: 43927640--43927719 Score: 55
Period size: 3 Copynumber: 27.7 Consensus size: 3
43927630 TATTTTCTTC
* * *
43927640 ATT ATT -TT AAT A-T ATT ATC ATTT ATT ATT ATT ATT ACT ATT -TCT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT-T
*
43927684 ATT ATT ATT A-T ATT -TT ATT ATTT ATC A-T ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT AT
43927720 ACGATAGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
2 10 0.16
3 45 0.74
4 6 0.10
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:43927688 original size:18 final size:16
Alignment explanation
Indices: 43927642--43927719 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 16
43927632 TTTTCTTCAT
*
43927642 TATTTTAATA-TATTA
1 TATTTTATTATTATTA
43927657 TCATTTATTATTATTATTA
1 T-A-TT-TTATTATTATTA
43927676 CTATTTCTATTATTATTA
1 -TATTT-TATTATTATTA
*
43927694 TATTTTATTATTTATCA
1 TATTTTATTA-TTATTA
43927711 TATTATTAT
1 TATT-TTAT
43927720 ACGATAGTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
15 1 0.02
16 6 0.11
17 17 0.32
18 22 0.42
19 6 0.11
20 1 0.02
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTATTATTATTA
Found at i:43931239 original size:18 final size:20
Alignment explanation
Indices: 43931200--43931240 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
43931190 GTTGTTACTA
43931200 TTTTGTTGTCATTGTATAAT
1 TTTTGTTGTCATTGTATAAT
*
43931220 TTTTGTT-TTATTGT-TAAT
1 TTTTGTTGTCATTGTATAAT
43931238 TTT
1 TTT
43931241 GTTACTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.17, C:0.02, G:0.12, T:0.68
Consensus pattern (20 bp):
TTTTGTTGTCATTGTATAAT
Found at i:43931240 original size:17 final size:19
Alignment explanation
Indices: 43931199--43931243 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
43931189 TGTTGTTACT
43931199 ATTTTGTTGTCATTGTATA
1 ATTTTGTTGTCATTGTATA
*
43931218 ATTTTTGTT-TTATTGT-TA
1 A-TTTTGTTGTCATTGTATA
43931236 ATTTTGTT
1 ATTTTGTT
43931244 ACTATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
19 7 0.29
20 7 0.29
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (19 bp):
ATTTTGTTGTCATTGTATA
Found at i:43931249 original size:18 final size:19
Alignment explanation
Indices: 43931200--43931249 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
43931190 GTTGTTACTA
*
43931200 TTTTGTTGTCATTGTATAAT
1 TTTTGTTCT-ATTGTATAAT
*
43931220 TTTTGTTTTATTGT-TAA-
1 TTTTGTTCTATTGTATAAT
43931237 TTTTGTTACTATT
1 TTTTGTT-CTATT
43931250 TTAGAGGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 5 0.19
20 8 0.30
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.66
Consensus pattern (19 bp):
TTTTGTTCTATTGTATAAT
Found at i:43932500 original size:23 final size:21
Alignment explanation
Indices: 43932445--43932503 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
43932435 AATATGTATG
*
43932445 TTGATTATTATTTATTAAATTT
1 TTGATTA-TATTTATTAAAGTT
* *
43932467 TTTAATA-ATTTCATTATAAGTT
1 TTGATTATATTT-ATTA-AAGTT
43932489 TTGATTATATTTATT
1 TTGATTATATTTATT
43932504 TTTAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 4 0.14
21 4 0.14
22 17 0.59
23 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGATTATATTTATTAAAGTT
Found at i:43934045 original size:21 final size:21
Alignment explanation
Indices: 43934019--43934069 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
43934009 AGCGGTGGCG
*
43934019 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
43934040 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
43934061 GTGAGATTA
1 GTGAGATTA
43934070 AAAACAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.31
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:43939482 original size:18 final size:20
Alignment explanation
Indices: 43939444--43939483 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
43939434 TACAAAACAA
43939444 TTCAATTTCATATCGAATAT
1 TTCAATTTCATATCGAATAT
*
43939464 TTCAATTTTAT-TC-AATAT
1 TTCAATTTCATATCGAATAT
43939482 TT
1 TT
43939484 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
20 10 0.53
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.53
Consensus pattern (20 bp):
TTCAATTTCATATCGAATAT
Found at i:43949231 original size:132 final size:132
Alignment explanation
Indices: 43948989--43949249 Score: 371
Period size: 132 Copynumber: 2.0 Consensus size: 132
43948979 TCAGACATGA
* * * * *
43948989 ATACAATATCAAACGCTTGCAGTGACAAACATCTTGTTTGTCATAAGTAATATCTACTTAGACCT
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
* *
43949054 AGACACATGCATAATTTCTCAAAACATCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
66 AGACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
43949119 CT
131 CT
* * * *
43949121 ATACAATATCAAACACATGCTGTGACCAACATTTTATTTATCATAAGTAATATCTACTCAGAGCT
1 ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
* * **
43949186 AGACACATACAT-ATTTCCTCAAAATACCTACAGTGAAACCTCCAGAGTTGTATGATACCCTTAA
66 AGACACATACATAATTT-CTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAA
43949250 CTCTTGTAAT
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
131 4 0.04
132 109 0.96
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (132 bp):
ATACAATATCAAACACATGCAGTGACAAACATCTTATTTATCATAAGTAATATCTACTCAGACCT
AGACACATACATAATTTCTCAAAACACCTACAGTGAAACCACCAGAGTTGTAAAATACCCTTAAA
CT
Found at i:43953480 original size:19 final size:19
Alignment explanation
Indices: 43953458--43953497 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
43953448 CTTTCCTTTC
*
43953458 CTCTCGTCTCT-TTTTTTTT
1 CTCTC-TCTCTCTCTTTTTT
43953477 CTCTCTCTCTCTCTTTTTT
1 CTCTCTCTCTCTCTTTTTT
43953496 CT
1 CT
43953498 TCCTCCCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.65
Consensus pattern (19 bp):
CTCTCTCTCTCTCTTTTTT
Found at i:43953487 original size:20 final size:21
Alignment explanation
Indices: 43953454--43953502 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
43953444 TTTTCTTTCC
43953454 TTTCCTCTCGTCTCT-TTTTT
1 TTTCCTCTCGTCTCTCTTTTT
43953474 TTTCTCTCTC-TCTCTCTTTTT
1 TTTC-CTCTCGTCTCTCTTTTT
43953495 TCTTCCTC
1 T-TTCCTC
43953503 CCTCAACCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.35
21 14 0.54
22 3 0.12
ACGTcount: A:0.00, C:0.35, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTCCTCTCGTCTCTCTTTTT
Found at i:43958770 original size:62 final size:62
Alignment explanation
Indices: 43958704--43958862 Score: 176
Period size: 62 Copynumber: 2.6 Consensus size: 62
43958694 AAGCATAAAT
* * *
43958704 AGTGAGTTACACGGCCTGGACACACACCCGTGTCCTTGATCATGTGGTTTTATACCACAAAA
1 AGTGAGTTACACGGCCTGGACACACGCTCGTGTCCTTGATCATGTGGTCTTATACCACAAAA
* * * * * * * *
43958766 AGTGAGTTACCCGGCCTAGG-CAAATGCTCGTGTCCTTGGTCGTGTGGTCTTATTCCACACAC
1 AGTGAGTTACACGGCCT-GGACACACGCTCGTGTCCTTGATCATGTGGTCTTATACCACAAAA
* * *
43958828 AGTAAGTTACACAGCCCGGACACACGCTCGTGTCC
1 AGTGAGTTACACGGCCTGGACACACGCTCGTGTCC
43958863 ATTGCCTGTG
Statistics
Matches: 78, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
61 2 0.03
62 74 0.95
63 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (62 bp):
AGTGAGTTACACGGCCTGGACACACGCTCGTGTCCTTGATCATGTGGTCTTATACCACAAAA
Found at i:43975629 original size:25 final size:24
Alignment explanation
Indices: 43975601--43975648 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
43975591 ATCCGGGCAA
43975601 TATAAC-AGGAAGCTCACAAAGAGCC
1 TATAACGA-GAAGCTC-CAAAGAGCC
*
43975626 TATAACGAGTAGCTCCAAAGAGC
1 TATAACGAGAAGCTCCAAAGAGC
43975649 AATTAACAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 12 0.57
26 1 0.05
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (24 bp):
TATAACGAGAAGCTCCAAAGAGCC
Found at i:43975655 original size:24 final size:24
Alignment explanation
Indices: 43975597--43975678 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 24
43975587 GCTTATCCGG
* *
43975597 GCAATATAACAGGAAGCTCACAAAGA
1 GCAAT-TAACAAGTAGCTC-CAAAGA
* *
43975623 GC-CTATAACGAGTAGCTCCAAAGA
1 GCAAT-TAACAAGTAGCTCCAAAGA
* **
43975647 GCAATTAACAAGTAGTTCTGAAGA
1 GCAATTAACAAGTAGCTCCAAAGA
43975671 GCAATTAA
1 GCAATTAA
43975679 TGGGAAGCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 31 0.67
25 13 0.28
26 2 0.04
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (24 bp):
GCAATTAACAAGTAGCTCCAAAGA
Found at i:43976563 original size:25 final size:24
Alignment explanation
Indices: 43976526--43976572 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
43976516 CTCTCAAGCA
*
43976526 CTATAACGGGTAGCTCACAAAGAAC
1 CTATAACGAGTAGCTC-CAAAGAAC
*
43976551 CTATGACGAGTAGCTCCAAAGA
1 CTATAACGAGTAGCTCCAAAGA
43976573 GCAATTAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (24 bp):
CTATAACGAGTAGCTCCAAAGAAC
Found at i:43976583 original size:24 final size:24
Alignment explanation
Indices: 43976556--43976606 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
43976546 AGAACCTATG
*
43976556 ACGAGTAGCTCCAAAGAGCAATTA
1 ACGAGTAGCACCAAAGAGCAATTA
*
43976580 ACGAGTAGCACCGAAGAGCAATTA
1 ACGAGTAGCACCAAAGAGCAATTA
43976604 ACG
1 ACG
43976607 GGAAGCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (24 bp):
ACGAGTAGCACCAAAGAGCAATTA
Found at i:43976613 original size:24 final size:24
Alignment explanation
Indices: 43976569--43976614 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
43976559 AGTAGCTCCA
*
43976569 AAGAGCAATTAACGAGTAGCACCG
1 AAGAGCAATTAACGAGAAGCACCG
*
43976593 AAGAGCAATTAACGGGAAGCAC
1 AAGAGCAATTAACGAGAAGCAC
43976615 TGGATAGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.20, G:0.26, T:0.11
Consensus pattern (24 bp):
AAGAGCAATTAACGAGAAGCACCG
Found at i:43976678 original size:25 final size:25
Alignment explanation
Indices: 43976650--43976697 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43976640 AAGCGAGCAC
*
43976650 TAATGGGAAGCTCACAAAGAGCCTT
1 TAATCGGAAGCTCACAAAGAGCCTT
*
43976675 TAATCGGAAGCTCACGAAGAGCC
1 TAATCGGAAGCTCACAAAGAGCC
43976698 ATATAACGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (25 bp):
TAATCGGAAGCTCACAAAGAGCCTT
Found at i:43984212 original size:22 final size:22
Alignment explanation
Indices: 43984182--43984223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43984172 ATTTGGAGAT
*
43984182 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
43984204 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
43984224 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:43984231 original size:30 final size:30
Alignment explanation
Indices: 43984195--43984253 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
43984185 TTGAAGGAAA
* *
43984195 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
*
43984225 TTGAGAGAATTTTGGAAGTAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
43984254 AAATTTTGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:43984265 original size:52 final size:51
Alignment explanation
Indices: 43984173--43984275 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
43984163 ACCATATGGA
* * *
43984173 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
*
43984224 TTTGAGAGAATTTTGGAAGTAAATTGAGAGAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAG-AATTTTGGAAGGGAATTGAGAG
43984276 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:43984291 original size:22 final size:21
Alignment explanation
Indices: 43984225--43984292 Score: 82
Period size: 22 Copynumber: 3.1 Consensus size: 21
43984215 ATTTGAGAGT
* *
43984225 TTGAGAGAATTTTGGAAGTAAA
1 TTGAGAGAATTTTGAAAG-GAA
*
43984247 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
43984269 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
43984291 TT
1 TT
43984293 TGTTTGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.73
23 9 0.22
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:43989629 original size:24 final size:25
Alignment explanation
Indices: 43989592--43989639 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
43989582 TTTCAAGAAA
43989592 TTTTAAAATATTAT-TT-TTTTTAC
1 TTTTAAAATATTATATTATTTTTAC
43989615 TTTTAAATATATTATATTATTTTTA
1 TTTTAAA-ATATTATATTATTTTTA
43989640 TTTAATAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 2 0.09
26 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTTAAAATATTATATTATTTTTAC
Found at i:43989643 original size:24 final size:22
Alignment explanation
Indices: 43989593--43989644 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 22
43989583 TTCAAGAAAT
43989593 TTTAAAATATTATTTTTTTTAC
1 TTTAAAATATTATTTTTTTTAC
43989615 TTTTAAATATATTATATTATTTTTA-
1 -TTTAAA-ATATTAT-TT-TTTTTAC
43989640 TTTAA
1 TTTAA
43989645 TAAACTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.23
24 12 0.46
25 2 0.08
26 6 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTAAAATATTATTTTTTTTAC
Found at i:43995652 original size:23 final size:23
Alignment explanation
Indices: 43995600--43995652 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
43995590 AGTGTTATTG
43995600 ATCAGTGGTAGCTTCGACTACAT
1 ATCAGTGGTAGCTTCGACTACAT
* * *
43995623 TTTAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGACTACAT
43995646 ATCAGTG
1 ATCAGTG
43995653 TGGCACTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGACTACAT
Found at i:43995854 original size:37 final size:38
Alignment explanation
Indices: 43995782--43995854 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
43995772 ATGTATGGAA
*
43995782 TTGAATTGAATATTGACTTGAAAATGAAAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
43995820 TTGAATTGAATAGTGA-TT-AAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAA-TGAAAAAGTGAA
43995855 ATTATGAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.12
37 14 0.42
38 15 0.45
ACGTcount: A:0.47, C:0.01, G:0.21, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:43996885 original size:8 final size:8
Alignment explanation
Indices: 43996872--43996898 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
43996862 TGACTCCTTC
43996872 ATTTTCAA
1 ATTTTCAA
43996880 ATTTTCAA
1 ATTTTCAA
43996888 ATTTTCAA
1 ATTTTCAA
43996896 ATT
1 ATT
43996899 CCCTTCTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (8 bp):
ATTTTCAA
Found at i:44014677 original size:23 final size:21
Alignment explanation
Indices: 44014635--44014677 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44014625 AATAGAGAAA
*
44014635 ACGAAATTTCTGGTATATGTT
1 ACGAAATTTCTGGTAGATGTT
44014656 ACGAAATTTCATTGGTAGATGT
1 ACGAAATTTC--TGGTAGATGT
44014678 CTCATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (21 bp):
ACGAAATTTCTGGTAGATGTT
Found at i:44018624 original size:20 final size:20
Alignment explanation
Indices: 44018599--44018638 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
44018589 GATTTTGTTG
44018599 TTGTTTGAA-TCGATTCAAAA
1 TTGTTT-AACTCGATTCAAAA
*
44018619 TTGTTTAACTCGATTTAAAA
1 TTGTTTAACTCGATTCAAAA
44018639 CCCAACAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
TTGTTTAACTCGATTCAAAA
Found at i:44029858 original size:12 final size:12
Alignment explanation
Indices: 44029841--44029868 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
44029831 TTACATGCAA
44029841 ACCATGAAGCAG
1 ACCATGAAGCAG
44029853 ACCATGAAGCAG
1 ACCATGAAGCAG
44029865 ACCA
1 ACCA
44029869 AGCTGCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.29, G:0.21, T:0.07
Consensus pattern (12 bp):
ACCATGAAGCAG
Found at i:44035936 original size:51 final size:51
Alignment explanation
Indices: 44035828--44036006 Score: 297
Period size: 51 Copynumber: 3.5 Consensus size: 51
44035818 CTTACGTATG
* * * *
44035828 ATCACTTATCACTTGTCCCTGATCAAATAAGTGTAGCT-AAGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
* *
44035878 ATCACTTGCCACTAGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
44035929 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
44035980 ATCACTTGTCACTTGTCACTGATCAGA
1 ATCACTTGTCACTTGTCACTGATCAGA
44036007 AGTACTCAAA
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 33 0.28
51 87 0.73
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (51 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTGAAGCTACTACTT
Found at i:44040368 original size:59 final size:57
Alignment explanation
Indices: 44040301--44040489 Score: 143
Period size: 59 Copynumber: 3.2 Consensus size: 57
44040291 ATTTTATTAA
44040301 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATAGTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATA-TTTATAGT
* * ** * * *
44040360 ATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA-TTA-A--
1 ATCATATATT-TTA-ATTA--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTATAGT
* * * *
44040421 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-ATTTATAGT
44040480 ATCATATATT
1 ATCATATATT
44040490 ATGATTTGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 28
0.67 0.13 0.19
Matches are distributed among these distances:
54 15 0.15
55 6 0.06
56 4 0.04
57 3 0.03
59 22 0.23
60 4 0.04
61 12 0.12
63 4 0.04
64 4 0.04
65 5 0.05
66 18 0.19
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTATAGT
Found at i:44040415 original size:120 final size:120
Alignment explanation
Indices: 44040290--44040587 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
44040280 AATTATTTTA
* * *
44040290 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATAGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATAGTT
*
44040354 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
**
44040410 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATAGTTT
44040475 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
44040530 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
44040588 ATGATTAAAT
Statistics
Matches: 170, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
120 162 0.95
121 8 0.05
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATAGTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:44040430 original size:61 final size:61
Alignment explanation
Indices: 44040363--44040550 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
44040353 TTATAGTATC
44040363 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * ** * *
44040424 ATATATTTTAATTATAATATATTTA-ATAATAAT-TATG-TTA--AATTATCTTT-TATAGTATC
1 ATATATTATGATTTTAGTAAATTCATATAAGAATAT-TGATTATTAAGAAT-TTTAT-TA-AATT
*
44040483 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
44040544 ATATATT
1 ATATATT
44040551 TTAATTATAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 5 0.05
58 5 0.05
59 24 0.26
60 18 0.19
61 32 0.34
62 5 0.05
63 5 0.05
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:44040445 original size:16 final size:16
Alignment explanation
Indices: 44040424--44040469 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
44040414 TTATTAAATT
44040424 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
44040440 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
44040455 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
44040470 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:44040547 original size:59 final size:59
Alignment explanation
Indices: 44040364--44040547 Score: 159
Period size: 57 Copynumber: 3.1 Consensus size: 59
44040354 TATAGTATCA
*
44040364 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
* * * * *
44040423 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATT-A-TGTTAA-ATTATCTTT-TATAGT
1 TATATTATGATTTAAGTA-AAT-TCATATAAGAAT-ATTGATTATTAAGA--AT-TTTAT-TA-A
44040480 AT
58 AT
*
44040482 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
44040543 TATAT
1 TATAT
44040548 ATTTTAATTA
Statistics
Matches: 95, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
55 1 0.01
56 11 0.12
57 15 0.16
58 12 0.13
59 11 0.12
61 6 0.06
62 12 0.13
63 15 0.16
64 11 0.12
65 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
Found at i:44040565 original size:16 final size:16
Alignment explanation
Indices: 44040544--44040585 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44040534 TTATTAAATT
*
44040544 ATATATTTTAATTATA
1 ATATATTTTAATAATA
44040560 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
44040575 AT-TATGTTTAA
1 ATATAT-TTTAA
44040586 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Done.