Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 171 of 235
Found at i:58020649 original size:24 final size:24
Alignment explanation
Indices: 58020617--58020667 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
58020607 AAATCTCGAG
*
58020617 TTCCCTACACTGGCTGCCAAAGTA
1 TTCCCTACACTGGCTGCAAAAGTA
58020641 TTCCCTACACTGGCTGCAAAAGTA
1 TTCCCTACACTGGCTGCAAAAGTA
58020665 TTC
1 TTC
58020668 TGAGATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.27
Consensus pattern (24 bp):
TTCCCTACACTGGCTGCAAAAGTA
Found at i:58031055 original size:57 final size:57
Alignment explanation
Indices: 58030955--58031098 Score: 159
Period size: 57 Copynumber: 2.5 Consensus size: 57
58030945 CATATCGTAT
* * **
58030955 TATAGGATTACCAGTCCAGGATAAATCCTTTATGTAACGTATGCTC-AGAAGAGCTTAA
1 TATAGGATTACCAGTCCAGGATAAATCCTATATGTAACATATGCTCGAG-AG-GAATAA
* *
58031013 T-TAGGATTACCAGTCCAGGTTAAATCCTA-ATTGTATCATATGCTCGAGAGGAATAA
1 TATAGGATTACCAGTCCAGGATAAATCCTATA-TGTAACATATGCTCGAGAGGAATAA
* *
58031069 TATCAGGATTACCAGTCCGGGCTAAATCCT
1 TAT-AGGATTACCAGTCCAGGATAAATCCT
58031099 TTCTATAACG
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
56 6 0.08
57 41 0.55
58 27 0.36
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (57 bp):
TATAGGATTACCAGTCCAGGATAAATCCTATATGTAACATATGCTCGAGAGGAATAA
Found at i:58032335 original size:25 final size:26
Alignment explanation
Indices: 58032294--58032344 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
58032284 AGTTGTAGAG
*
58032294 AGAAAATTCTCTAAAGAGATTATTCT
1 AGAAAATTCTCTAAAGACATTATTCT
*
58032320 AGAAAATT-TCTAAAGACATTTTTCT
1 AGAAAATTCTCTAAAGACATTATTCT
58032345 GATTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (26 bp):
AGAAAATTCTCTAAAGACATTATTCT
Found at i:58034666 original size:20 final size:20
Alignment explanation
Indices: 58034627--58034666 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
58034617 GAGCATTATT
*
58034627 GGATAATTCATAACATTTAC
1 GGATAATTCATAACAATTAC
*
58034647 GGATAATTCATGACAATTAC
1 GGATAATTCATAACAATTAC
58034667 TATTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
GGATAATTCATAACAATTAC
Found at i:58044704 original size:42 final size:42
Alignment explanation
Indices: 58044658--58044742 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
58044648 CTCATCTAAG
*
58044658 ACTAATGACATGATGTATTGTTGTGAGACTAACTTGATGACT
1 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
*
58044700 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGCTGACT
1 ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
58044742 A
1 A
58044743 AGTGTATTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (42 bp):
ACTAATGACATGATGTATTGTTGTAAGACTAACTTGATGACT
Found at i:58045777 original size:13 final size:13
Alignment explanation
Indices: 58045759--58045783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58045749 AGGCCCTGTG
58045759 AGGGACACGGGCC
1 AGGGACACGGGCC
58045772 AGGGACACGGGC
1 AGGGACACGGGC
58045784 ATGTGTTTGG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:58045907 original size:20 final size:20
Alignment explanation
Indices: 58045858--58045910 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
58045848 ACAGGTGGGA
*
58045858 CACACGGGCATGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
*
58045878 TACACGGGCGTGTCCCTAAG
1 CACACGGGCGTGTCCCTAAG
58045898 CACACGGGCGTGT
1 CACACGGGCGTGT
58045911 GCTTCGCCTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.21, C:0.32, G:0.30, T:0.17
Consensus pattern (20 bp):
CACACGGGCGTGTCCCTAAG
Found at i:58047182 original size:47 final size:43
Alignment explanation
Indices: 58047073--58047196 Score: 140
Period size: 47 Copynumber: 2.7 Consensus size: 43
58047063 CATTTGTGCT
* *
58047073 CTAGTGTAAGACATGTCTGGGACATGTATTGGCCACATTATGAGAG
1 CTAGTGTAAGACATGTCTGGGACATGCA-T--CAACATTATGAGAG
* *
58047119 CCAGTGGAAGACCATGTCTGGGACATGGCATCAACATTGAGATGAGAG
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACATT---ATGAGAG
58047167 CTAGTGTAAGACATGTCTGGGACATGCATC
1 CTAGTGTAAGACATGTCTGGGACATGCATC
58047197 GGCCTCGAGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 6 0.09
46 14 0.21
47 29 0.43
48 18 0.27
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (43 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCAACATTATGAGAG
Found at i:58053989 original size:26 final size:26
Alignment explanation
Indices: 58053960--58054041 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
58053950 GATAAAAAAT
*
58053960 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58053986 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
58054012 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
58054038 TGAT
1 TGAT
58054042 GGAAATTTTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:58055532 original size:26 final size:26
Alignment explanation
Indices: 58055469--58055544 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
58055459 AAAAGCAGCT
* * * *
58055469 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-GTGCA
58055497 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGGTGCA
58055523 AAATTACTGTTATACCCCTAGG
1 AAATTACTGTTATACCCCTAGG
58055545 GTTAATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 25 0.57
27 1 0.02
28 18 0.41
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.32
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGGTGCA
Found at i:58055730 original size:54 final size:53
Alignment explanation
Indices: 58055648--58055788 Score: 219
Period size: 54 Copynumber: 2.6 Consensus size: 53
58055638 AGGAAGCGTC
58055648 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
* *
58055702 CTGGTGGCTATACCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
* *
58055756 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
58055789 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 7 0.09
54 73 0.91
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCAACATATATCTGTT
Found at i:58055784 original size:32 final size:27
Alignment explanation
Indices: 58055648--58055788 Score: 180
Period size: 27 Copynumber: 5.2 Consensus size: 27
58055638 AGGAAGCGTC
*
58055648 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGAT
* *
58055675 CTGGTGGCTCTGCAACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
* *
58055702 CTGGTGGCTATACCACGAT-TATCTGAT
1 CTGGTGGCTCTGCCAC-ATATATCTGAT
*
58055729 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGAT
58055756 CTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTCTGCCACATATATCTG-AT
58055783 CTGGTG
1 CTGGTG
58055789 ACTTCGTCAC
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.09
27 87 0.88
28 3 0.03
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGAT
Found at i:58055799 original size:27 final size:27
Alignment explanation
Indices: 58055648--58055806 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
58055638 AGGAAGCGTC
*
58055648 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
58055675 CTGGTGGCTCTGCAACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* * *
58055702 CTGGTGGCTATACCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
58055729 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
58055756 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
58055783 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
58055807 GCAGCTTCGC
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.89
28 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:58057276 original size:33 final size:33
Alignment explanation
Indices: 58057239--58057304 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
58057229 ATGTTTCCAA
58057239 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
1 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
58057272 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
1 GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
58057305 CTTTTCTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.18, C:0.30, G:0.18, T:0.33
Consensus pattern (33 bp):
GGCTTCTTAGGACTTCTACACGCCACGTTCTAT
Found at i:58060332 original size:3 final size:3
Alignment explanation
Indices: 58060324--58060353 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
58060314 TGAATGACCT
58060324 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58060354 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58061086 original size:13 final size:13
Alignment explanation
Indices: 58061068--58061104 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
58061058 TTTGGATTGT
*
58061068 AAAGCACTTTTTA
1 AAAGCACTTTTCA
58061081 AAAGCACTTTTCA
1 AAAGCACTTTTCA
58061094 AAAGCACTTTT
1 AAAGCACTTTT
58061105 AACTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (13 bp):
AAAGCACTTTTCA
Found at i:58069483 original size:43 final size:43
Alignment explanation
Indices: 58069370--58069547 Score: 162
Period size: 43 Copynumber: 4.2 Consensus size: 43
58069360 AAAACTTGGT
* * ** * *
58069370 GGCGTTTATTTAAAAAATGCCGCTAAAAGCCAT-GACATTTAGC
1 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAG-CTTTTAGC
** * * * * *
58069413 GGCGTTTG-AAAAAAAGCGCCGCAAAAAGTTATGGTTTTTAGT
1 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
58069455 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
1 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
** * * *
58069498 GGCGTTTGTTGGGAAAGCGTCGCTAAAAGACATGGCTTTTAGC
1 GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
*
58069541 AGCGTTT
1 GGCGTTT
58069548 TTCCCACAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
42 30 0.28
43 79 0.72
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
GGCGTTTGTTGAAAAAGCGCCGCTAAAAGTCATAGCTTTTAGC
Found at i:58069565 original size:43 final size:43
Alignment explanation
Indices: 58069467--58069566 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 43
58069457 CGTTTGTTGA
* * ***
58069467 AAAAGCGCCGCTAAAAGTCATAGCTTTTAGCGGCGTTTGTTGGG
1 AAAA-CGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
* * *
58069511 AAAGCGTCGCTAAAAGACATGGCTTTTAGCAGCGTTT-TTCCC
1 AAAACGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
58069553 ACAAACGCCGCTAA
1 A-AAACGCCGCTAA
58069567 TTTTGGCAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.07
43 39 0.87
44 3 0.07
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAACGCCGCTAAAAGACATAGCTTTTAGCAGCGTTTGTTCCC
Found at i:58069696 original size:33 final size:31
Alignment explanation
Indices: 58069638--58069700 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
58069628 ACCAATCCAA
* *
58069638 CAAATATAGCATAAAATGCAGCCAAAAACAG
1 CAAATATAGCATAAAATACAACCAAAAACAG
*
58069669 CAAATTTAGCATAAAAAATACAACCAAAAACA
1 CAAATATAGCAT--AAAATACAACCAAAAACA
58069701 TTAATTCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 11 0.41
33 16 0.59
ACGTcount: A:0.59, C:0.19, G:0.08, T:0.14
Consensus pattern (31 bp):
CAAATATAGCATAAAATACAACCAAAAACAG
Found at i:58069960 original size:21 final size:21
Alignment explanation
Indices: 58069936--58069991 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
58069926 CTGCCATCGT
* *
58069936 TGCTGCCTCTGCCTCCCTTAC
1 TGCTGCCGCTGCCTCCCTCAC
*
58069957 TGCTGCCGCTGCCTCCCTCGC
1 TGCTGCCGCTGCCTCCCTCAC
58069978 TGCTGCCGCTGCCT
1 TGCTGCCGCTGCCT
58069992 AAGTTGTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.02, C:0.48, G:0.21, T:0.29
Consensus pattern (21 bp):
TGCTGCCGCTGCCTCCCTCAC
Found at i:58075639 original size:9 final size:9
Alignment explanation
Indices: 58075627--58075905 Score: 208
Period size: 9 Copynumber: 30.6 Consensus size: 9
58075617 AATTATATAT
*
58075627 TTATCTAAG
1 TTATGTAAG
58075636 TTATGTAAG
1 TTATGTAAG
58075645 TTATGTAAG
1 TTATGTAAG
*
58075654 TTATGTAAA
1 TTATGTAAG
*
58075663 TTATGATATAAAA
1 TTATG---T-AAG
*
58075676 TATATTTAAG
1 T-TATGTAAG
58075686 TATTATGTAAG
1 --TTATGTAAG
58075697 TTATGTAAG
1 TTATGTAAG
*
58075706 TTATGATATG
1 TTATG-TAAG
* * *
58075716 ATATAT-AT
1 TTATGTAAG
58075724 TTATGTAAG
1 TTATGTAAG
*
58075733 TTATAT-A-
1 TTATGTAAG
58075740 TATATGTAAG
1 T-TATGTAAG
*
58075750 TTATATAAG
1 TTATGTAAG
58075759 TTATGTAAG
1 TTATGTAAG
58075768 TTATGTAAG
1 TTATGTAAG
** *
58075777 TTACAT-AT
1 TTATGTAAG
*
58075785 TTATCTAAG
1 TTATGTAAG
*
58075794 TTATATAAG
1 TTATGTAAG
*
58075803 TTATATAAG
1 TTATGTAAG
*
58075812 TTATGTATG
1 TTATGTAAG
*
58075821 TTATATAAG
1 TTATGTAAG
58075830 TTATGTAAG
1 TTATGTAAG
*
58075839 TTATATAAG
1 TTATGTAAG
* *
58075848 TTATAT-AT
1 TTATGTAAG
*
58075856 TTATCTAAG
1 TTATGTAAG
**
58075865 TTACATAAG
1 TTATGTAAG
58075874 TTATGTAAG
1 TTATGTAAG
*
58075883 TTTTGTAAG
1 TTATGTAAG
*
58075892 TTATGTAAA
1 TTATGTAAG
58075901 TTATG
1 TTATG
58075906 ATATCAAATA
Statistics
Matches: 216, Mismatches: 40, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
7 1 0.00
8 20 0.09
9 169 0.78
10 9 0.04
11 8 0.04
12 2 0.01
13 4 0.02
14 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:58075639 original size:17 final size:17
Alignment explanation
Indices: 58075603--58075639 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
58075593 TATGATATGA
*
58075603 TATATATTTATGTAAAT
1 TATATATTTATCTAAAT
*
58075620 TATATATTTATCTAAGT
1 TATATATTTATCTAAAT
58075637 TAT
1 TAT
58075640 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
TATATATTTATCTAAAT
Found at i:58075700 original size:43 final size:43
Alignment explanation
Indices: 58075645--58075726 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
58075635 GTTATGTAAG
58075645 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
* * *
58075688 TTATGTAAGTTATGTAAGTTATGATATGATATATATTTA
1 TTATGTAAGTTATGTAAATTATGATATAAAATATATTTA
58075727 TGTAAGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAATTATGATATAAAATATATTTAAGTA
Found at i:58075770 original size:71 final size:70
Alignment explanation
Indices: 58075688--58075905 Score: 251
Period size: 71 Copynumber: 3.1 Consensus size: 70
58075678 TATTTAAGTA
* *
58075688 TTATGTAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATATATA-TATGTAAGT
1 TTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTATATAAGTTATATA-AGTATGTAAGT
58075751 TATATAAG
63 TATATAAG
* * * *
58075759 TTATGTAAGTTATGTAAGTTACATATTTATCTAAGTTATATAAGTTATATAAGTTATGTATGTTA
1 TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAG-TATGTAAGTTA
58075824 TATAAG
65 TATAAG
* * * * * *
58075830 TTATGTAAGTTATATAAGTTATATATTTATCTAAGTTACATAAGTTATGTAAGTTTTGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAG-TATGTAAGTTA
* *
58075895 TGTAAA
65 TATAAG
58075901 TTATG
1 TTATG
58075906 ATATCAAATA
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
69 5 0.04
70 20 0.15
71 105 0.81
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.47
Consensus pattern (70 bp):
TTATGTAAGTTATGTAAGTTATATATATATATAAGTTATATAAGTTATATAAGTATGTAAGTTAT
ATAAG
Found at i:58075772 original size:44 final size:44
Alignment explanation
Indices: 58075693--58075905 Score: 216
Period size: 44 Copynumber: 4.8 Consensus size: 44
58075683 AAGTATTATG
* * * *
58075693 TAAGTTATGTAAGTTATGATATGATATAT-ATTTATGTAAGTTATA
1 TAAG-TATGTAAGTTAT-ATAAGTTATATAAGTTATGTAAGTTACA
*
58075738 TATA-TATGTAAGTTATATAAGTTATGTAAGTTATGTAAGTTACA
1 TA-AGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
** * * *
58075782 TATTTATCTAAGTTATATAAGTTATATAAGTTATGTATGTTATA
1 TAAGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
* *
58075826 TAAGTTATGTAAGTTATATAAGTTATAT-ATTTATCTAAGTTACA
1 TAAG-TATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
* * * *
58075870 TAAGTTATGTAAGTTTTGTAAGTTATGTAAATTATG
1 TAAG-TATGTAAGTTATATAAGTTATATAAGTTATG
58075906 ATATCAAATA
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
43 8 0.06
44 103 0.73
45 29 0.21
46 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.15, T:0.46
Consensus pattern (44 bp):
TAAGTATGTAAGTTATATAAGTTATATAAGTTATGTAAGTTACA
Found at i:58076030 original size:15 final size:15
Alignment explanation
Indices: 58076010--58076065 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
58076000 AAGTTGCGGG
58076010 ATTAAATAATATTTA
1 ATTAAATAATATTTA
58076025 ATTAAATAATATTT-
1 ATTAAATAATATTTA
58076039 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
58076054 ATTAAATAATAT
1 ATTAAATAATAT
58076066 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:58076411 original size:64 final size:64
Alignment explanation
Indices: 58076309--58076442 Score: 241
Period size: 64 Copynumber: 2.1 Consensus size: 64
58076299 ATATTTTATT
* * *
58076309 AAATATTTTTATATTAGATGGGACATATTATATTAATAAATAAATTTATTAAAATTCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
58076373 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
1 AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
58076437 AAATAT
1 AAATAT
58076443 AGAAATATTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.40
Consensus pattern (64 bp):
AAATATTTGTATATTAGATGGGACATATTATATCAATAAATAAATTTATTAAAAATCGTGATAG
Found at i:58077008 original size:11 final size:11
Alignment explanation
Indices: 58076994--58077019 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
58076984 AATCTAAGGA
58076994 TAAATAAGAAT
1 TAAATAAGAAT
58077005 TAAATAAGAAT
1 TAAATAAGAAT
58077016 TAAA
1 TAAA
58077020 AACATGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (11 bp):
TAAATAAGAAT
Found at i:58086902 original size:46 final size:46
Alignment explanation
Indices: 58086846--58087018 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
58086836 TGGTTGAGCA
*
58086846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
58086892 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA-AGATGCAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
58086939 TCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
58086985 -CCCAAGCTCGTTAAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
58087019 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 7 0.07
44 3 0.03
45 5 0.05
46 54 0.51
47 27 0.26
48 1 0.01
49 2 0.02
50 6 0.06
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58087002 original size:93 final size:93
Alignment explanation
Indices: 58086843--58087013 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
58086833 GGATGGTTGA
* * *
58086843 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTAAGT
58086908 TGAGTCCGAGTTCGTAAGATGCAACTAG
66 TGAGTCCGAGTTCGTAAGATGCAACTAG
* * *
58086936 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG-CCCAAGCTCGTTAAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAA-CTCGTTAAG
58087000 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
58087014 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCCAACTCGTTAAGT
TGAGTCCGAGTTCGTAAGATGCAACTAG
Found at i:58089860 original size:16 final size:17
Alignment explanation
Indices: 58089841--58089876 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
58089831 ATTATTTAAT
*
58089841 ATATAAA-TAAAAAATA
1 ATATAAATTAAAAAACA
58089857 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
58089874 ATA
1 ATA
58089877 AGTTATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:58090006 original size:16 final size:16
Alignment explanation
Indices: 58089985--58090038 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
58089975 AGAACTACAT
58089985 AAAATTTGAAATCTTG
1 AAAATTTGAAATCTTG
58090001 AAAA-TT---A--TTG
1 AAAATTTGAAATCTTG
58090011 AAAATTTGAAATCATT-
1 AAAATTTGAAATC-TTG
58090027 AAAATTTGAAAT
1 AAAATTTGAAAT
58090039 TATTTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 14
0.69 0.00 0.31
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
12 1 0.03
14 1 0.03
15 2 0.06
16 16 0.52
17 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.09, T:0.37
Consensus pattern (16 bp):
AAAATTTGAAATCTTG
Found at i:58090316 original size:78 final size:79
Alignment explanation
Indices: 58090150--58090339 Score: 256
Period size: 78 Copynumber: 2.4 Consensus size: 79
58090140 AACACTAATT
* * * *
58090150 ACCCTTAAACCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACCCTTAATCCTT
1 ACCC-TAAACCATGTCCCCTTAACCCCTTAA-CCCTCAACACTAAACCATAAACCCTTAATCCTT
*
58090215 AAAATTTAAATACTAA
64 AAAATTTAAAAACTAA
* *
58090231 ACCCTAAACCATGTCCCCTTAACCCCTTAACCCTCAACATTAAACCATAAACCC-TAATTCTTAA
1 ACCCTAAACCATGTCCCCTTAACCCCTTAACCCTCAACACTAAACCATAAACCCTTAATCCTTAA
* *
58090295 ACTTTAAAAATTAA
66 AATTTAAAAACTAA
* *
58090309 ACCCTAAACTATATCCCCTTAACCCCTTAAC
1 ACCCTAAACCATGTCCCCTTAACCCCTTAAC
58090340 TATTAACCTT
Statistics
Matches: 98, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
78 49 0.50
79 21 0.21
80 24 0.24
81 4 0.04
ACGTcount: A:0.37, C:0.35, G:0.01, T:0.27
Consensus pattern (79 bp):
ACCCTAAACCATGTCCCCTTAACCCCTTAACCCTCAACACTAAACCATAAACCCTTAATCCTTAA
AATTTAAAAACTAA
Found at i:58090499 original size:15 final size:14
Alignment explanation
Indices: 58090458--58090526 Score: 50
Period size: 15 Copynumber: 4.7 Consensus size: 14
58090448 TCCATAATCC
* *
58090458 ATAAACCTTAAAAT
1 ATAAACCCTAAACT
* *
58090472 ATTAACTCATAAACT
1 ATAAAC-CCTAAACT
58090487 ATAAACCCCTAAACCT
1 ATAAA-CCCTAAA-CT
58090503 -TAAACCCTAAACT
1 ATAAACCCTAAACT
*
58090516 CATAATCCCTA
1 -ATAAACCCTA
58090527 GACCCATGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
13 2 0.05
14 12 0.27
15 27 0.61
16 3 0.07
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:58090607 original size:16 final size:14
Alignment explanation
Indices: 58090576--58090613 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
58090566 TCATAATCCA
58090576 TAAACCATAAACCC
1 TAAACCATAAACCC
58090590 TAAACCATATATACCC
1 TAAACCATA-A-ACCC
58090606 TAAACCAT
1 TAAACCAT
58090614 GCATAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:58090628 original size:80 final size:83
Alignment explanation
Indices: 58090450--58090628 Score: 224
Period size: 80 Copynumber: 2.2 Consensus size: 83
58090440 TCCCTCAATC
* *
58090450 CATAATCCATAAACCTTAAAATATTAACTCATAAACTATAAACCCCTAAACCTTAAACCCTAAAC
1 CATAATCCATAAACCTTAAAATATTAACTCAT--ACTATAAACCCATAAACCATAAACCCTAAAC
*
58090515 TCATAATCCCTAGACCCATG
64 TCATAATCCCTAGAACCATG
* *
58090535 CATAATCCATAAACCTTAAAATATTAACTCGT-C-AT-AATCCATAAACCATAAACCCTAAAC-C
1 CATAATCCATAAACCTTAAAATATTAACTCATACTATAAACCCATAAACCATAAACCCTAAACTC
58090596 ATATATACCCTA-AACCATG
66 ATA-AT-CCCTAGAACCATG
* *
58090615 CATAAACCTTAAAC
1 CATAATCCATAAAC
58090629 TATAATAATG
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.05
80 42 0.49
81 7 0.08
82 1 0.01
85 31 0.36
ACGTcount: A:0.45, C:0.28, G:0.02, T:0.25
Consensus pattern (83 bp):
CATAATCCATAAACCTTAAAATATTAACTCATACTATAAACCCATAAACCATAAACCCTAAACTC
ATAATCCCTAGAACCATG
Found at i:58091591 original size:40 final size:41
Alignment explanation
Indices: 58091460--58091600 Score: 194
Period size: 41 Copynumber: 3.4 Consensus size: 41
58091450 AATAGTTTAG
*
58091460 ATCTATAGCGGCGTTTTTCCAAAAAGCGCCACTAAAACTCAA
1 ATCTATAGCGGCGTTTTT-TAAAAAGCGCCACTAAAACTCAA
* *
58091502 ATCTATTGCGGCGTTTTTTGAAAAGCGCCACTAAAACTCAA
1 ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
* ** * *
58091543 ATCCATAGCGATGTTTTTTAAAAAGCGCCGCTAATACTC-A
1 ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
58091583 ATCTATAGCGGCGTTTTT
1 ATCTATAGCGGCGTTTTT
58091601 GAGGAAGCGC
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 16 0.19
41 53 0.62
42 17 0.20
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (41 bp):
ATCTATAGCGGCGTTTTTTAAAAAGCGCCACTAAAACTCAA
Found at i:58096581 original size:23 final size:23
Alignment explanation
Indices: 58096549--58096602 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
58096539 ATATTTAGTT
*
58096549 TAAAAA-AATTAAATAA-CTAAA
1 TAAAAATAATTAAATAACCAAAA
*
58096570 TAAATAATAATTAAGTAACCAAAA
1 TAAA-AATAATTAAATAACCAAAA
58096594 TAAAAATAA
1 TAAAAATAA
58096603 AGACATAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 2 0.07
23 14 0.50
24 8 0.29
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (23 bp):
TAAAAATAATTAAATAACCAAAA
Found at i:58106892 original size:41 final size:41
Alignment explanation
Indices: 58106835--58106922 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
58106825 TACCTGGTAC
* * * * *
58106835 AATACATTGGCACGAAGATTGCCAGGCTCAAAGCCTGATAT
1 AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
* * *
58106876 AATACAGTGGTACGAAGCCTACTAGGCACAAAGCCTAATAT
1 AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
58106917 AATACA
1 AATACA
58106923 CCGGAATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (41 bp):
AATACAGTGGCACGAAGACTACCAGGCACAAAGCCTAATAT
Found at i:58106934 original size:41 final size:41
Alignment explanation
Indices: 58106858--58106992 Score: 135
Period size: 41 Copynumber: 3.3 Consensus size: 41
58106848 GAAGATTGCC
* ** *
58106858 AGGCTCAAAGCCTGATATAATACAGTGGTACGAAGCCTACT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
* *
58106899 AGGCACAAAGCCTAATATAATACACCGGAATGAAGCCTACT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
** ** * * * *
58106940 AAACACAAAGTTTGATATAATACACCGGCACAAAGCTTGCT
1 AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
*
58106981 AGGCACAGAGCC
1 AGGCACAAAGCC
58106993 CGAGTATCAC
Statistics
Matches: 73, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 73 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
AGGCACAAAGCCTGATATAATACACCGGAACGAAGCCTACT
Found at i:58107019 original size:38 final size:38
Alignment explanation
Indices: 58106958--58107112 Score: 186
Period size: 38 Copynumber: 4.1 Consensus size: 38
58106948 AGTTTGATAT
* *
58106958 AATA-CACCGGCACAAAGCTTGCTAGGCACAGAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCG
* ** *
58106995 AGTATCACCAACACAAAGCCTGCTAGGTACAAAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCG
** * * *
58107033 AATATCACCGGCATGAAGCCTGCTAGGCAGAGAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCG
* *
58107071 AATATCACCGGCATAAAGCCTGCTAGACACAAAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCG
58107109 AATA
1 AATA
58107113 ACGTTACGTT
Statistics
Matches: 97, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
37 3 0.03
38 94 0.97
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.13
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGGCACAAAGCCCG
Found at i:58116933 original size:18 final size:17
Alignment explanation
Indices: 58116900--58116938 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
58116890 TTGTATAAAT
58116900 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
58116918 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
58116935 TGTG
1 TGTG
58116939 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:58117191 original size:23 final size:23
Alignment explanation
Indices: 58117165--58117238 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
58117155 GTGTTATTGA
58117165 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
58117188 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
58117210 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
58117233 TCAGTG
1 TCAGTG
58117239 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:58117217 original size:22 final size:22
Alignment explanation
Indices: 58117166--58117231 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
58117156 TGTTATTGAT
*
58117166 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
58117189 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
58117211 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
58117232 ATCAGTGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:58119542 original size:16 final size:16
Alignment explanation
Indices: 58119521--58119551 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
58119511 TTCACTATTA
58119521 TGTCTTTTATATTTTC
1 TGTCTTTTATATTTTC
58119537 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
58119552 GCATGCATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:58121171 original size:25 final size:25
Alignment explanation
Indices: 58121140--58121223 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
58121130 ATAATATTAT
58121140 TTTAATAGTTTAATATTAAATTTAA
1 TTTAATAGTTTAATATTAAATTTAA
* *
58121165 TTTAATA-CTT-ATCTTAATAATTT--
1 TTTAATAGTTTAATATT-A-AATTTAA
*
58121188 TTTAATTGTTTAATATTAAATTTAA
1 TTTAATAGTTTAATATTAAATTTAA
58121213 TTTAAT-GTTTA
1 TTTAATAGTTTA
58121224 TCTATTAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
23 15 0.31
24 11 0.23
25 22 0.46
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TTTAATAGTTTAATATTAAATTTAA
Found at i:58121872 original size:68 final size:68
Alignment explanation
Indices: 58121732--58121988 Score: 284
Period size: 68 Copynumber: 3.8 Consensus size: 68
58121722 CTCAACTATA
* * * *
58121732 GTCTTACACAATATGATGTCATGTTTTACTGTCCTGACGAACTTCATATGTTACAATAACCCAGC
1 GTCTTACACAATATGATGCCATG-TTTACTGTCCTGACGGACTTCATATGTTGCAATAACCCAGA
*
58121797 TGTG
65 TATG
* * * * * ** *
58121801 GTCTTACATAATATGATACCATGTTTATTGTTCTGATGGACTTCATATGTTGTTATAGCCCAGAT
1 GTCTTACACAATATGATGCCATGTTTACTGTCCTGACGGACTTCATATGTTGCAATAACCCAGAT
58121866 ATG
66 ATG
58121869 GTCTTACACAATATGATGCCATGTTTACTGTCCTGACGGACTTCATATGTTGGC-ATAACCCA-A
1 GTCTTACACAATATGATGCCATGTTTACTGTCCTGACGGACTTCATATGTT-GCAATAACCCAGA
58121932 CTATG
65 -TATG
* * * ** * * *
58121937 ATATTGCACAATATGATATCATGTTTACTGTCTTGGCGGACTTCATAGGTTG
1 GTCTTACACAATATGATGCCATGTTTACTGTCCTGACGGACTTCATATGTTG
58121989 TCGGTAACCA
Statistics
Matches: 158, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
67 2 0.01
68 135 0.85
69 21 0.13
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (68 bp):
GTCTTACACAATATGATGCCATGTTTACTGTCCTGACGGACTTCATATGTTGCAATAACCCAGAT
ATG
Found at i:58121963 original size:136 final size:137
Alignment explanation
Indices: 58121732--58121989 Score: 351
Period size: 136 Copynumber: 1.9 Consensus size: 137
58121722 CTCAACTATA
* *
58121732 GTCTTACACAATATGATGTCATGTTTTACTGTCCTGACGAACTTCATATGTTACAATAACCCAGC
1 GTCTTACACAATATGATGCCATGTTTTACTGTCCTGACGAACTTCATATGTTACAATAACCCAAC
* * * * * * *
58121797 TGTGGTCTTACATAATATGATACCATGTTTATTGT-TCTGATGGACTTCATATGTTGTTATAGCC
66 TATGATATTACACAATATGATACCATGTTTACTGTCT-TGACGGACTTCATAGGTTGTTATAGCC
58121861 CAGATATG
130 CAGATATG
* *
58121869 GTCTTACACAATATGATGCCATG-TTTACTGTCCTGACGGACTTCATATGTTGGC-ATAACCCAA
1 GTCTTACACAATATGATGCCATGTTTTACTGTCCTGACGAACTTCATATGTT-ACAATAACCCAA
* * *
58121932 CTATGATATTGCACAATATGATATCATGTTTACTGTCTTGGCGGACTTCATAGGTTGT
65 CTATGATATTACACAATATGATACCATGTTTACTGTCTTGACGGACTTCATAGGTTGT
58121990 CGGTAACCAT
Statistics
Matches: 105, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
136 81 0.77
137 24 0.23
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (137 bp):
GTCTTACACAATATGATGCCATGTTTTACTGTCCTGACGAACTTCATATGTTACAATAACCCAAC
TATGATATTACACAATATGATACCATGTTTACTGTCTTGACGGACTTCATAGGTTGTTATAGCCC
AGATATG
Found at i:58124439 original size:31 final size:31
Alignment explanation
Indices: 58124404--58124473 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
58124394 TTTAGATCGG
58124404 ATTAAAATTTTAA-AATTTGAAAAACATAAAA
1 ATTAAAATTTTAAGAATTT-AAAAACATAAAA
*
58124435 ATTAAAA--TTAATGAATTTAAAAATATAAAA
1 ATTAAAATTTTAA-GAATTTAAAAACATAAAA
*
58124465 ACTAAAATT
1 ATTAAAATT
58124474 AAATAAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
29 4 0.12
30 17 0.52
31 12 0.36
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (31 bp):
ATTAAAATTTTAAGAATTTAAAAACATAAAA
Found at i:58124463 original size:30 final size:31
Alignment explanation
Indices: 58124417--58124475 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
58124407 AAAATTTTAA
*
58124417 AATTTGAAAAACATAAAAATTAAAATTAATG
1 AATTTGAAAAACATAAAAACTAAAATTAATG
*
58124448 AATTT-AAAAATATAAAAACTAAAATTAA
1 AATTTGAAAAACATAAAAACTAAAATTAA
58124476 ATAAATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.29
Consensus pattern (31 bp):
AATTTGAAAAACATAAAAACTAAAATTAATG
Found at i:58131925 original size:8 final size:9
Alignment explanation
Indices: 58131901--58131930 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
58131891 ATTCTGTACC
58131901 TTTAAAAAT
1 TTTAAAAAT
58131910 TTTAAAAAT
1 TTTAAAAAT
58131919 TTTAAAAAT
1 TTTAAAAAT
58131928 TTT
1 TTT
58131931 CAAACTGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:58133722 original size:1 final size:1
Alignment explanation
Indices: 58133673--58133702 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
58133663 AGAATCGAGC
*
58133673 AAAAAAAAAAAAAAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
58133703 TNNNNNAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:58142704 original size:13 final size:13
Alignment explanation
Indices: 58142688--58142712 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58142678 CTGCCAACAC
58142688 ACATGCCCGTGTT
1 ACATGCCCGTGTT
58142701 ACATGCCCGTGT
1 ACATGCCCGTGT
58142713 GCCAGGCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.24, T:0.28
Consensus pattern (13 bp):
ACATGCCCGTGTT
Found at i:58154016 original size:40 final size:40
Alignment explanation
Indices: 58153938--58154160 Score: 265
Period size: 40 Copynumber: 5.5 Consensus size: 40
58153928 ACCCAAGTAT
* * * *
58153938 CTTCGAGATTTAG-CCGGATATAG-CAACTCGTACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
58153977 CTTCGGGTCTTAGCCCAGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
58154017 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
58154057 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
58154100 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
58154140 CTTC-GAACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
58154161 CATCCGAAGA
Statistics
Matches: 160, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 27 0.17
40 96 0.60
41 1 0.01
43 36 0.22
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:58154122 original size:83 final size:80
Alignment explanation
Indices: 58153938--58154160 Score: 265
Period size: 83 Copynumber: 2.8 Consensus size: 80
58153928 ACCCAAGTAT
* * * * * *
58153938 CTTCGAGATTTAG-CCGGATATAG-CAACTCGTACAAATGCCTTCGGGTCTTAGCCCAGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
58154001 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
*
58154017 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
58154081 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* * *
58154100 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTC-GAACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
58154161 CATCCGAAGA
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 12 0.10
80 47 0.38
81 1 0.01
82 15 0.12
83 50 0.40
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:58160311 original size:40 final size:40
Alignment explanation
Indices: 58160267--58160457 Score: 314
Period size: 40 Copynumber: 4.8 Consensus size: 40
58160257 GGATATAACT
* *
58160267 ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
58160307 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
*
58160347 ACTTGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
*
58160387 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA
*
58160426 ACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
58160458 TTATCATCCA
Statistics
Matches: 143, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 1 0.01
39 35 0.24
40 107 0.75
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:58166284 original size:27 final size:27
Alignment explanation
Indices: 58166254--58166431 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58166244 ATATTGAGTC
* * * *
58166254 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
58166281 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58166308 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
58166336 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
58166363 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
58166390 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
58166417 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58166432 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:58166393 original size:82 final size:81
Alignment explanation
Indices: 58166275--58166430 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58166265 TGCTATATAA
* *
58166275 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
58166340 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
58166357 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
58166421 CACTTAGTGC
65 CACTTAGTGC
58166431 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:58179507 original size:44 final size:44
Alignment explanation
Indices: 58179459--58179603 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 44
58179449 TCTCTATTGC
* * *
58179459 AATTTCAGGGAGAAGAGATTTGTATCTTCGATCCACTCCACTAG-
1 AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAAT-GT
* * ** * *
58179503 AATTTCAAGGAGATGAGAATTGTGGCTACGAACAACTCCAATGT
1 AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAATGT
* * *
58179547 AGTTTCAAGGAGAAGAGATTTGTAGT-TTCGATCTACTCCAATGGA
1 AATTTCAAGGAGAAGAGATTTGTA-TCTTCGATCAACTCCAAT-GT
58179592 AATTT-AAGGAGA
1 AATTTCAAGGAGA
58179604 TAAAAGCTGA
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 73 0.92
45 5 0.06
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (44 bp):
AATTTCAAGGAGAAGAGATTTGTATCTTCGATCAACTCCAATGT
Found at i:58179996 original size:130 final size:133
Alignment explanation
Indices: 58179713--58180093 Score: 493
Period size: 132 Copynumber: 2.9 Consensus size: 133
58179703 CATTTTCGAT
* * *
58179713 CTGCTCCACTGCTACTCATGGAGACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
1 CTGCTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * * * * **
58179778 TGATAAGATTCGTCGTCTTCGGTTTGTTCTACTGCT-GGTCA-GGAAGATAAGATCTACAATCTT
66 AGATAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGG-AGATAAGATCTACAATCTT
*
58179841 TAGC
130 CAGC
* *
58179845 CTCCTCTACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTT-CTACC-CAGGG
1 CTGCTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * * *
58179908 AGATAAGATTCACCATCTTCGATCTGCTCTATTGTTACCTCATGGAGATAAGATCTAC-ATCTTC
66 AGATAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTC
58179972 AGC
131 AGC
* * * *
58179975 CTGCTCCACTGTTGCTTAGGGAAATAAGGCTAGTAGCTTAAATCTGCTCCCTTGCTACCTCAGGG
1 CTGCTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
* * * *
58180040 AGAGAAGATTCGCCGTCTTCGATCTATTCCATTGCTACCTCATAGAGATAAGAT
66 AGATAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGAT
58180094 TTGTGAATTC
Statistics
Matches: 214, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
130 87 0.41
131 26 0.12
132 101 0.47
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (133 bp):
CTGCTCCACTGCTGCTCAGGGAAACAAGGCTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGG
AGATAAGATTCGCCGTCTTCGATCTGTTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTC
AGC
Found at i:58181369 original size:26 final size:23
Alignment explanation
Indices: 58181353--58181422 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 23
58181343 TCTTTCTTCT
58181353 TTTTTTTGATTGA-TTTTTTTTA
1 TTTTTTTGATTGATTTTTTTTTA
58181375 TTTTTTTGATTGATTTATTATTATTA
1 TTTTTTTGATTGATTT-TT-TT-TTA
**
58181401 TTTTTTATTTTTGATTTTTTTT
1 TTTTTT-TGATTGATTTTTTTT
58181423 AGTCTCAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 13 0.32
23 2 0.05
24 3 0.07
25 4 0.10
26 11 0.27
27 8 0.20
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTTTTGATTGATTTTTTTTTA
Found at i:58181409 original size:16 final size:16
Alignment explanation
Indices: 58181352--58181423 Score: 51
Period size: 16 Copynumber: 4.5 Consensus size: 16
58181342 TTCTTTCTTC
*
58181352 TTTTTTT-TGATTGAT
1 TTTTTTTATTATTGAT
*
58181367 TTTTTTTATTTTTTTGA-
1 TTTTTTTA--TTATTGAT
**
58181384 TTGATTTATTATT-AT
1 TTTTTTTATTATTGAT
*
58181399 TATTTTTTATTTTTGAT
1 T-TTTTTTATTATTGAT
58181416 TTTTTTTA
1 TTTTTTTA
58181424 GTCTCAAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
14 1 0.02
15 12 0.28
16 16 0.37
17 9 0.21
18 5 0.12
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (16 bp):
TTTTTTTATTATTGAT
Found at i:58184898 original size:24 final size:24
Alignment explanation
Indices: 58184854--58184906 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
58184844 CTTAGCCAGT
*
58184854 TGTTCTTACATTTGTGCTTGCATC
1 TGTTCTTACATTTCTGCTTGCATC
*
58184878 TGTTCTTACATTTCCT-TTTGCATC
1 TGTTCTTACATTT-CTGCTTGCATC
58184902 TGTTC
1 TGTTC
58184907 CAACCTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.11, C:0.23, G:0.13, T:0.53
Consensus pattern (24 bp):
TGTTCTTACATTTCTGCTTGCATC
Found at i:58184915 original size:24 final size:24
Alignment explanation
Indices: 58184871--58184916 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
58184861 ACATTTGTGC
**
58184871 TTGCATCTGTTCTTACATTTCCTT
1 TTGCATCTGTTCCAACATTTCCTT
*
58184895 TTGCATCTGTTCCAACCTTTCC
1 TTGCATCTGTTCCAACATTTCC
58184917 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.30, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCATCTGTTCCAACATTTCCTT
Found at i:58187231 original size:20 final size:21
Alignment explanation
Indices: 58187159--58187253 Score: 61
Period size: 21 Copynumber: 4.3 Consensus size: 21
58187149 AATGAAAAAG
*
58187159 AAATA-AAATATTTTAAAAT-
1 AAATATAAATAGTTTAAAATA
*
58187178 AAATA-AATAGAGTTTAATATATA
1 AAATATAA-ATAGTTTAA-A-ATA
* * *
58187201 TATATATATAACAATTTAAAATA
1 -AAATATA-AATAGTTTAAAATA
58187224 AAATATAAATAGTTTAAAATA
1 AAATATAAATAGTTTAAAATA
58187245 TATAATATA
1 -A-AATATA
58187254 TAAAAGGAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
19 7 0.12
20 7 0.12
21 13 0.22
22 9 0.15
23 9 0.15
24 5 0.08
25 8 0.14
26 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (21 bp):
AAATATAAATAGTTTAAAATA
Found at i:58187239 original size:46 final size:44
Alignment explanation
Indices: 58187170--58187256 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 44
58187160 AATAAAATAT
*
58187170 TTTAAAATAAATAAATAGAGTTTAATATATATATATATATAACAA
1 TTTAAAATAAATAAATAGAGTTTAAAATATATA-ATATATAACAA
*
58187215 TTTAAAATAAAATATAA-ATAGTTTAAAATATATAATATATAA
1 TTTAAAAT-AAATA-AATAGAGTTTAAAATATATAATATATAA
58187257 AAGGAAATCT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
45 16 0.42
46 20 0.53
47 2 0.05
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (44 bp):
TTTAAAATAAATAAATAGAGTTTAAAATATATAATATATAACAA
Found at i:58187423 original size:20 final size:19
Alignment explanation
Indices: 58187381--58187444 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 19
58187371 AATAATATAC
*
58187381 AAAAAAACTTACAACAAATAAT
1 AAAAAAATTTA-AA-AAA-AAT
58187403 AAAACAAATTTAAAAAAAAT
1 AAAA-AAATTTAAAAAAAAT
* *
58187423 ATAAAATATTTAAAACAAAT
1 A-AAAAAATTTAAAAAAAAT
58187443 AA
1 AA
58187445 TTTATACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.03
20 18 0.49
21 6 0.16
22 6 0.16
23 6 0.16
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAAATTTAAAAAAAAT
Found at i:58190883 original size:30 final size:30
Alignment explanation
Indices: 58190849--58190938 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
58190839 TAAATTGAAC
*
58190849 CACACGG-CCAGACCACACGTCCGTGTCTCA
1 CACACGGTCCAGA-CACACGGCCGTGTCTCA
**
58190879 CACACGGTGGAGACACACGGCCGTGTCTCA
1 CACACGGTCCAGACACACGGCCGTGTCTCA
** *
58190909 TC-C-CGTGTAGAGACACACGACCGTGTCTCA
1 -CACACG-GTCCAGACACACGGCCGTGTCTCA
58190939 TCCCGTGTAG
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
29 2 0.04
30 46 0.88
31 4 0.08
ACGTcount: A:0.23, C:0.37, G:0.24, T:0.16
Consensus pattern (30 bp):
CACACGGTCCAGACACACGGCCGTGTCTCA
Found at i:58190939 original size:30 final size:30
Alignment explanation
Indices: 58190862--58190948 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
58190852 ACGGCCAGAC
* *
58190862 CACACGTCCGTGTCTCA-CACACG-GTGGAGA
1 CACACGACCGTGTCTCATC-C-CGTGTAGAGA
*
58190892 CACACGGCCGTGTCTCATCCCGTGTAGAGA
1 CACACGACCGTGTCTCATCCCGTGTAGAGA
58190922 CACACGACCGTGTCTCATCCCGTGTAG
1 CACACGACCGTGTCTCATCCCGTGTAG
58190949 TTAACTCTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 2 0.04
30 49 0.94
31 1 0.02
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.20
Consensus pattern (30 bp):
CACACGACCGTGTCTCATCCCGTGTAGAGA
Found at i:58199425 original size:53 final size:53
Alignment explanation
Indices: 58199228--58199431 Score: 140
Period size: 53 Copynumber: 3.8 Consensus size: 53
58199218 AGGGTTTAAG
* * * * * * *
58199228 GATACCAAGTAAGACCATGCCAAGGA-ATGACATTGGTAAGTTTTACAAGGTAAG
1 GATACCACGTAAGACCATGCCAA-GACATGAAAATGGTAAG-TTCATAAGGCAAA
* * * * ** * * * *
58199282 GAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGAAAATGGT-AAGTTC-ATAAGGCAAA
* * * ** * *
58199337 GATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAA
*
58199390 GATACCACGTAAGACCATGTCAAGACATGAAAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTT
58199432 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 30, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
53 46 0.39
54 32 0.27
55 39 0.33
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGAAAATGGTAAGTTCATAAGGCAAA
Found at i:58214717 original size:40 final size:40
Alignment explanation
Indices: 58214619--58214881 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
58214609 TCCTCGTTCA
* * * * *
58214619 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
58214658 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
58214698 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
58214738 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
58214778 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
58214818 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
58214858 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58214882 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:58222669 original size:40 final size:40
Alignment explanation
Indices: 58222571--58222833 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
58222561 TCCTCGTTCA
* * * * *
58222571 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
58222610 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
58222650 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
58222690 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
58222730 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
58222770 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
58222810 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58222834 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:58229446 original size:35 final size:35
Alignment explanation
Indices: 58229376--58229458 Score: 96
Period size: 35 Copynumber: 2.3 Consensus size: 35
58229366 AATCCCTCCA
* * * *
58229376 AAACACGCCATATGCTCCAAAGATCTGGTCCAACCG
1 AAACATGCCA-ATGCTCCAAAGAGCTAGTCAAACCG
58229412 AAACATGCCAATGCT-CATAAGAGCTAGTCAAACCG
1 AAACATGCCAATGCTCCA-AAGAGCTAGTCAAACCG
*
58229447 AAACATGTCAAT
1 AAACATGCCAAT
58229459 TAGATAGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 2 0.05
35 30 0.73
36 9 0.22
ACGTcount: A:0.39, C:0.28, G:0.16, T:0.18
Consensus pattern (35 bp):
AAACATGCCAATGCTCCAAAGAGCTAGTCAAACCG
Found at i:58232942 original size:15 final size:15
Alignment explanation
Indices: 58232922--58232953 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
58232912 TAAAATATAT
*
58232922 TTTTTTTATTTTTAA
1 TTTTTTTAATTTTAA
58232937 TTTTTTTAATTTTAA
1 TTTTTTTAATTTTAA
58232952 TT
1 TT
58232954 AATTAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTAATTTTAA
Found at i:58233311 original size:7 final size:7
Alignment explanation
Indices: 58233299--58233323 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58233289 AGAGATGAAG
58233299 AGAATAA
1 AGAATAA
58233306 AGAATAA
1 AGAATAA
58233313 AGAATAA
1 AGAATAA
58233320 AGAA
1 AGAA
58233324 AATATGAAAG
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:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AGAATAA
Found at i:58234437 original size:29 final size:28
Alignment explanation
Indices: 58234370--58234437 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
58234360 TTGAGTTGCT
* *
58234370 TCTTTCTATTTTAATCAATTTATTCCATA
1 TCTTTCT-TTTTAATCAATTTATTCAAGA
* *
58234399 TCTATATTTTTCAAT-AGATTTATTCAAGA
1 TCTTTCTTTTT-AATCA-ATTTATTCAAGA
58234428 TCTTTCTTTT
1 TCTTTCTTTT
58234438 ATTTCATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (28 bp):
TCTTTCTTTTTAATCAATTTATTCAAGA
Found at i:58236752 original size:5 final size:5
Alignment explanation
Indices: 58236742--58236775 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
58236732 CCCACTTGTG
58236742 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
58236776 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:58242684 original size:53 final size:54
Alignment explanation
Indices: 58242603--58242781 Score: 209
Period size: 55 Copynumber: 3.3 Consensus size: 54
58242593 TTTCCTTTTT
* * * *
58242603 GAACTTACCATTGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
58242656 GACCTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* * *
58242710 GTAACTCACTAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* *
58242765 GAACTTATCAATGCCAT
1 GAACTCACCAATGCCAT
58242782 CTTTACCTTA
Statistics
Matches: 104, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.02
53 42 0.40
54 14 0.13
55 44 0.42
56 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
GAACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:58242971 original size:45 final size:46
Alignment explanation
Indices: 58242809--58242972 Score: 145
Period size: 47 Copynumber: 3.5 Consensus size: 46
58242799 CCATATTCCA
* **
58242809 AACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTT
1 AACATGGTCTTACATGGTATCCTTGACTTA--GCCAATGCCATGTCTT
* ** * *
58242857 CATGTGGTCTTACATGGTATCCTT-AATTAATGCCGATGCCATGTCTT
1 AACATGGTCTTACATGGTATCCTTGACTT-A-GCCAATGCCATGTCTT
* * * * *
58242904 GACTTGGCCTTACGTAGG-ATCCTTGCCTTA-CCAATGCCATGTCTT
1 AACATGGTCTTACAT-GGTATCCTTGACTTAGCCAATGCCATGTCTT
58242949 AACATGGTCTTACATGGTATCCTT
1 AACATGGTCTTACATGGTATCCTT
58242973 AACTGTCAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
44 2 0.02
45 31 0.34
47 33 0.36
48 26 0.28
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (46 bp):
AACATGGTCTTACATGGTATCCTTGACTTAGCCAATGCCATGTCTT
Found at i:58252869 original size:28 final size:28
Alignment explanation
Indices: 58252829--58252885 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
58252819 GTGAAAGAAG
*
58252829 TAAGCTTATAAAGCTTAGTAACTTCACA
1 TAAGCTTATAAAGATTAGTAACTTCACA
58252857 TAAGCTTATAAAGATTAGTAACTTCACA
1 TAAGCTTATAAAGATTAGTAACTTCACA
58252885 T
1 T
58252886 GTAAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (28 bp):
TAAGCTTATAAAGATTAGTAACTTCACA
Found at i:58253421 original size:55 final size:53
Alignment explanation
Indices: 58253294--58253428 Score: 146
Period size: 53 Copynumber: 2.5 Consensus size: 53
58253284 AACTTACTAT
* * * *
58253294 TGCCATGTCTTGACATGGTCTTGCGTGGTATCCTTGCCTTAAGAACTCACCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGGATCCTTGCCTTAAGAACTCACCAA
* * ** *
58253347 TGCCATGCCTTAGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTGGCTCATCAA
1 TGCCATGTCTTGGCATGGTCTTACATGGGATCC-TTGCCTTA-AG-AACTCACCAA
*
58253402 TGTCATGTCTTGGCATGGTCTTACATG
1 TGCCATGTCTTGGCATGGTCTTACATG
58253429 ATTTCTTTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 32 0.48
54 2 0.03
55 31 0.46
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (53 bp):
TGCCATGTCTTGGCATGGTCTTACATGGGATCCTTGCCTTAAGAACTCACCAA
Found at i:58253437 original size:55 final size:55
Alignment explanation
Indices: 58253339--58253444 Score: 140
Period size: 55 Copynumber: 1.9 Consensus size: 55
58253329 GCCTTAAGAA
*
58253339 CTCACCAATGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTATAGTGG
1 CTCACCAATGCCATGCCTTAGCATGGTCTTACATGAGACCTTTGCCTTATAGTGG
* * * * ***
58253394 CTCATCAATGTCATGTCTTGGCATGGTCTTACATGATTTCTTTGCCTTATA
1 CTCACCAATGCCATGCCTTAGCATGGTCTTACATGAGACCTTTGCCTTATA
58253445 AAACTTATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (55 bp):
CTCACCAATGCCATGCCTTAGCATGGTCTTACATGAGACCTTTGCCTTATAGTGG
Found at i:58253511 original size:47 final size:47
Alignment explanation
Indices: 58253460--58253565 Score: 167
Period size: 47 Copynumber: 2.3 Consensus size: 47
58253450 TATCAATGCC
* * *
58253460 ATCCTTATCTTACCAAATGCCATGTTCCAAACATTATCTTACATGGT
1 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGATCTAACATGGT
*
58253507 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTAACATGGT
1 ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGATCTAACATGGT
*
58253554 ATCTTTGTCTTA
1 ATCCTTGTCTTA
58253566 GTGGCAATGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 54 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (47 bp):
ATCCTTGTCTTACCAAATGCCATGTTCCAAACATGATCTAACATGGT
Found at i:58259888 original size:18 final size:18
Alignment explanation
Indices: 58259856--58259902 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
58259846 GGATTTTGAA
58259856 TAAAGTTTAAA-TTGAGTT
1 TAAA-TTTAAATTTGAGTT
58259874 TAAATTTAAATTTGAGTT
1 TAAATTTAAATTTGAGTT
**
58259892 TGGATTTAAAT
1 TAAATTTAAAT
58259903 ATATATTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TAAATTTAAATTTGAGTT
Found at i:58265417 original size:44 final size:44
Alignment explanation
Indices: 58265369--58265456 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
58265359 GATTACATGA
58265369 ATATCCTAATTAATAGAATTTTTGTAGTTTTTCCTTTATTATTT
1 ATATCCTAATTAATAGAATTTTTGTAGTTTTTCCTTTATTATTT
*
58265413 ATATCCTAATTAATAGAATTTTTGTAGTTTTTTCTTTATTATTT
1 ATATCCTAATTAATAGAATTTTTGTAGTTTTTCCTTTATTATTT
58265457 TTCTTCCGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (44 bp):
ATATCCTAATTAATAGAATTTTTGTAGTTTTTCCTTTATTATTT
Found at i:58265670 original size:30 final size:30
Alignment explanation
Indices: 58265636--58265694 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58265626 ATCAAAATGT
58265636 AAACATACTTT-TCCATAAGATAATGAATAA
1 AAACATACTTTCT-CATAAGATAATGAATAA
* *
58265666 AAACATACTTTCTCATAATATAATTAATA
1 AAACATACTTTCTCATAAGATAATGAATA
58265695 TAAGAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.49, C:0.14, G:0.03, T:0.34
Consensus pattern (30 bp):
AAACATACTTTCTCATAAGATAATGAATAA
Found at i:58267114 original size:11 final size:11
Alignment explanation
Indices: 58267085--58267119 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
58267075 ATTAAAACAA
58267085 ACATATTAAAC
1 ACATATTAAAC
58267096 ACAT-TTAAAC
1 ACATATTAAAC
*
58267106 ACTTATTAAAC
1 ACATATTAAAC
58267117 ACA
1 ACA
58267120 AAACACATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.51, C:0.20, G:0.00, T:0.29
Consensus pattern (11 bp):
ACATATTAAAC
Found at i:58267134 original size:9 final size:9
Alignment explanation
Indices: 58267083--58267138 Score: 55
Period size: 9 Copynumber: 6.2 Consensus size: 9
58267073 ACATTAAAAC
*
58267083 AAACATATT
1 AAACACATT
58267092 AAACACATTT
1 AAACACA-TT
58267102 AAACACTTATT
1 AAACAC--ATT
58267113 AAACACA--
1 AAACACATT
58267120 AAACACATT
1 AAACACATT
58267129 AAACAC-TT
1 AAACACATT
58267137 AA
1 AA
58267139 CTTAAATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
7 7 0.17
8 4 0.10
9 13 0.32
10 8 0.20
11 8 0.20
12 1 0.02
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (9 bp):
AAACACATT
Found at i:58271487 original size:11 final size:11
Alignment explanation
Indices: 58271440--58271492 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 11
58271430 ACACCTGTAG
58271440 TTAAACACAT-
1 TTAAACACATA
*
58271450 TAAAACAAACATA
1 TTAAAC--ACATA
58271463 TTAAACACAT-
1 TTAAACACATA
*
58271473 TTAAACACTTA
1 TTAAACACATA
58271484 TTAAACACA
1 TTAAACACA
58271493 AAACACATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 14 0.40
11 12 0.34
12 4 0.11
13 5 0.14
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (11 bp):
TTAAACACATA
Found at i:58271487 original size:21 final size:22
Alignment explanation
Indices: 58271440--58271492 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
58271430 ACACCTGTAG
58271440 TTAAACACATTAAAACAAACATA
1 TTAAACACATTAAAAC-AACATA
* *
58271463 TTAAACACATTTAAAC-ACTTA
1 TTAAACACATTAAAACAACATA
58271484 TTAAACACA
1 TTAAACACA
58271493 AAACACATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.46
23 15 0.54
ACGTcount: A:0.55, C:0.19, G:0.00, T:0.26
Consensus pattern (22 bp):
TTAAACACATTAAAACAACATA
Found at i:58271507 original size:9 final size:9
Alignment explanation
Indices: 58271440--58271511 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
58271430 ACACCTGTAG
58271440 TTAAACACA
1 TTAAACACA
58271449 TTAAA-AC-
1 TTAAACACA
*
58271456 --AAACATA
1 TTAAACACA
58271463 TTAAACACA
1 TTAAACACA
58271472 TTTAAACACTTA
1 -TTAAACAC--A
58271484 TTAAACACA
1 TTAAACACA
58271493 --AAACACA
1 TTAAACACA
58271500 TTAAACAC-
1 TTAAACACA
58271508 TTAA
1 TTAA
58271512 CTTAAATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
5 3 0.06
6 1 0.02
7 7 0.13
8 6 0.12
9 18 0.35
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (9 bp):
TTAAACACA
Found at i:58271698 original size:19 final size:20
Alignment explanation
Indices: 58271659--58271699 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
58271649 ATGAGTTATT
**
58271659 TAATGCAAGACTTAATTTAA
1 TAATGCAAGACTTAAACTAA
58271679 TAATGC-AGACTTAAACTAA
1 TAATGCAAGACTTAAACTAA
58271698 TA
1 TA
58271700 TAGGAGTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (20 bp):
TAATGCAAGACTTAAACTAA
Found at i:58271763 original size:50 final size:52
Alignment explanation
Indices: 58271659--58271767 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 52
58271649 ATGAGTTATT
* *
58271659 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAATATAGGAGTTACA
1 TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
* * * *
58271711 TAATGCAAGTCATT-ATTT-ATGATGCATACTT-AACTAACATAAGAGTTGCA
1 TAATGCAAGAC-TTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
58271761 TAATGCA
1 TAATGCA
58271768 TTTCTTTATT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 23 0.46
51 11 0.22
52 14 0.28
53 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (52 bp):
TAATGCAAGACTTAATTTAATAATGCAGACTTAAACTAACATAAGAGTTACA
Found at i:58272561 original size:15 final size:14
Alignment explanation
Indices: 58272535--58272570 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
58272525 AAAATAAAAG
*
58272535 AAAAACATTAAATT
1 AAAAATATTAAATT
58272549 AATAAATATTAAATT
1 AA-AAATATTAAATT
58272564 AAAAATA
1 AAAAATA
58272571 ACATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATATTAAATT
Found at i:58273029 original size:21 final size:21
Alignment explanation
Indices: 58273003--58273048 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
58272993 GTTAAATAAC
**
58273003 TTTAAAATTTTAAGAAA-AAAT
1 TTTAAAAAATTAA-AAATAAAT
58273024 TTTAAAAAATTAAAAATAAAT
1 TTTAAAAAATTAAAAATAAAT
58273045 TTTA
1 TTTA
58273049 TACCTTCTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
TTTAAAAAATTAAAAATAAAT
Found at i:58278562 original size:34 final size:34
Alignment explanation
Indices: 58278454--58278585 Score: 108
Period size: 33 Copynumber: 3.9 Consensus size: 34
58278444 TACACATTAC
* * *
58278454 CAGAAACATATGTCAGATCGAAATGTCATATTTC
1 CAGAAACATATATCAGATCAAAATGTCATATTTT
* ** * *
58278488 CA-AAACATATTTC-GAATTGAAATATCATATTGT
1 CAGAAACATATATCAG-ATCAAAATGTCATATTTT
* *
58278521 CATAAACATATATCAGA-CTAAAATGTCATGTTTT
1 CAGAAACATATATCAGATC-AAAATGTCATATTTT
*
58278555 CAGAAACACATATATCATATCAAAATGTCAT
1 CAG-AA-ACATATATCAGATCAAAATGTCAT
58278586 GTTAGACCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
32 1 0.01
33 26 0.33
34 26 0.33
35 3 0.04
36 21 0.27
37 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (34 bp):
CAGAAACATATATCAGATCAAAATGTCATATTTT
Found at i:58279100 original size:32 final size:32
Alignment explanation
Indices: 58279059--58279123 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
58279049 CTACAGCATG
*
58279059 ATAGAATAATTGTGTGAAAATTTTGTTAATAA
1 ATAGAATAATTGTGTGAAAATTTCGTTAATAA
58279091 ATAGAATAATTGTGTGAAAATTTCGTTAATAA
1 ATAGAATAATTGTGTGAAAATTTCGTTAATAA
58279123 A
1 A
58279124 ATTTATCTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (32 bp):
ATAGAATAATTGTGTGAAAATTTCGTTAATAA
Found at i:58293595 original size:44 final size:44
Alignment explanation
Indices: 58293545--58293632 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
58293535 ATGGGTCGGA
*
58293545 TAATTTTTCTCATGTGGCTTTAATTGTCTCGACGCATAGGCCAC
1 TAATTTTTCTCATGGGGCTTTAATTGTCTCGACGCATAGGCCAC
58293589 TAATTTTTCTCATGGGGCTTTAATTGTCTCGACGCATAGGCCAC
1 TAATTTTTCTCATGGGGCTTTAATTGTCTCGACGCATAGGCCAC
58293633 AACTCGACCT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (44 bp):
TAATTTTTCTCATGGGGCTTTAATTGTCTCGACGCATAGGCCAC
Found at i:58293871 original size:52 final size:52
Alignment explanation
Indices: 58293793--58293899 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
58293783 CGTCCATTCG
*
58293793 AACTTAACATCTTTTTGAAGTAGCTTCATCATTGGTGTGGCTATCATCGAGA
1 AACTTAACATCCTTTTGAAGTAGCTTCATCATTGGTGTGGCTATCATCGAGA
*
58293845 AACTTAACATCCTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGA
1 AACTTAACATCCTTTTGAAGTAGCTTCATCATTGGTGTGGCTATCATCGAGA
58293897 AAC
1 AAC
58293900 CTTTCACAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
AACTTAACATCCTTTTGAAGTAGCTTCATCATTGGTGTGGCTATCATCGAGA
Found at i:58294265 original size:52 final size:52
Alignment explanation
Indices: 58294209--58294312 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
58294199 TCCAAATACT
58294209 GTCTGAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAG
1 GTCTGAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAG
*
58294261 GTCTGAAGATCCGATTCATCAAATCCATAAATACTGCAGGGGCATTAGTGAG
1 GTCTGAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAG
58294313 CCCAAACGGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (52 bp):
GTCTGAAGATCCGATTCATCAAATCCATAAATACCGCAGGGGCATTAGTGAG
Found at i:58298134 original size:39 final size:40
Alignment explanation
Indices: 58298091--58298260 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
58298081 TCCTCGTTCA
* * * *
58298091 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
58298130 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58298170 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
58298210 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
58298250 AAGGCCTTCGG
1 AATGCCTTCGG
58298261 ATCTTAGTCC
Statistics
Matches: 121, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 35 0.29
40 86 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:58298189 original size:40 final size:39
Alignment explanation
Indices: 58298091--58298313 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
58298081 TCCTCGTTCA
* * * * *
58298091 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
*
58298130 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
58298169 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
58298209 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* ** * * * *
58298249 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
58298290 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
58298314 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 38 0.23
40 116 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:58298322 original size:41 final size:41
Alignment explanation
Indices: 58298245--58298322 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
58298235 TTAGTATCTC
* * *
58298245 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
58298286 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
58298323 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:58304374 original size:150 final size:150
Alignment explanation
Indices: 58304101--58304400 Score: 582
Period size: 150 Copynumber: 2.0 Consensus size: 150
58304091 AGATCATCAG
58304101 CTACCTCTCGGTCACGATCGGGATCCATTACTATAAATACACATTTACAATTGTCAGAAATCACC
1 CTACCTCTCGGTCACGATCGGGATCCATTACTATAAATACACATTTACAATTGTCAGAAATCACC
*
58304166 ACACTATCAAGTAATCACATAAAATGGCATGTATAGCTAGACCCAAAACATTATGGTAGTCCTAG
66 ACACTATCAAGTAATCACATAAAATGGCATGTATAGCTAGACCCAAAACATTACGGTAGTCCTAG
58304231 AATCGACTAAACCGTAGCTC
131 AATCGACTAAACCGTAGCTC
*
58304251 CTACCTCTCGGTCACGATCGGGATCCATTACTATAAATACACATTTACAATTTTCAGAAATCACC
1 CTACCTCTCGGTCACGATCGGGATCCATTACTATAAATACACATTTACAATTGTCAGAAATCACC
58304316 ACACTATCAAGTAATCACATAAAATGGCATGTATAGCTAGACCCAAAACATTACGGTAGTCCTAG
66 ACACTATCAAGTAATCACATAAAATGGCATGTATAGCTAGACCCAAAACATTACGGTAGTCCTAG
58304381 AATCGACTAAACCGTAGCTC
131 AATCGACTAAACCGTAGCTC
58304401 TGATACCAAT
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 148 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (150 bp):
CTACCTCTCGGTCACGATCGGGATCCATTACTATAAATACACATTTACAATTGTCAGAAATCACC
ACACTATCAAGTAATCACATAAAATGGCATGTATAGCTAGACCCAAAACATTACGGTAGTCCTAG
AATCGACTAAACCGTAGCTC
Found at i:58318690 original size:22 final size:22
Alignment explanation
Indices: 58318649--58318691 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
58318639 AATATTTTCC
*
58318649 ACAAAAAAAGTGATAAAAAAGT
1 ACAAAAAAAGTGAAAAAAAAGT
58318671 ACAAAAAAA-TGAAAAGAAAAG
1 ACAAAAAAAGTGAAAA-AAAAG
58318692 AAAAAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.72, C:0.05, G:0.14, T:0.09
Consensus pattern (22 bp):
ACAAAAAAAGTGAAAAAAAAGT
Found at i:58326142 original size:40 final size:40
Alignment explanation
Indices: 58326075--58326171 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 40
58326065 AGATTCAGTT
* * *
58326075 CATTAGCGACGCTTTTCGAAAAACGCCGCTGA-AGATCAAG
1 CATTAGCGGCGTTTTTAGAAAAACGCCGCT-ATAGATCAAG
* * *
58326115 CATTAGCGGCGTTTTTAGAGAAGCGCCGCTATAGATCGAG
1 CATTAGCGGCGTTTTTAGAAAAACGCCGCTATAGATCAAG
58326155 C-TATAGCGGCGTTTTTA
1 CAT-TAGCGGCGTTTTTA
58326172 CGTAAGCGCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.04
40 47 0.96
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CATTAGCGGCGTTTTTAGAAAAACGCCGCTATAGATCAAG
Found at i:58326250 original size:153 final size:154
Alignment explanation
Indices: 58325941--58326261 Score: 348
Period size: 153 Copynumber: 2.1 Consensus size: 154
58325931 TGAGTATTAG
*
58325941 AAACGCCGCTAAAAAATCGAGCATTAGCGGCATTTTCAGTAAAGCGCCGCTATAGATCCACCTAT
1 AAACGCCGCTAAAAAATCAAGCATTAGCGGCATTTTCAGTAAAGCGCCGCTATAGATCCACCTAT
* * * * * **
58326006 AGCGGCGCTTTATTAAAAACGCCGCTAAAAGTTTAATGCGAACGACGTTGCATTATGTAAGATTC
66 AGCGGCGCTTTATTAAAAACGCCGCTAAAAGATTAAAGAGAACGACGTCGCATTATGTAACAACC
* *
58326071 AGTTCATTAGCGACGCTTTTCGAA
131 AATTCATTAGCGACGCTTTTCAAA
* * * * * *
58326095 AAACGCCGCT-GAAGATCAAGCATTAGCGGCGTTTTTAG-AGAAGCGCCGCTATAGATCGAGCTA
1 AAACGCCGCTAAAAAATCAAGCATTAGCGGCATTTTCAGTA-AAGCGCCGCTATAGATCCACCTA
* * * ** *
58326158 TAGCGGCG-TTT-TTACGTAAGCGCTGCTAAAAGATTAAAGAGAACGACGTCGTTTTCT-TAACA
65 TAGCGGCGCTTTATTA--AAAACGCCGCTAAAAGATTAAAGAGAACGACGTCGCATTATGTAACA
*
58326220 ACCAATTGCATTAGCGGCG-TTTTCTAAA
128 ACCAATT-CATTAGCGACGCTTTTC-AAA
58326248 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
58326262 GATTAAATAC
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
151 3 0.02
152 17 0.12
153 105 0.77
154 12 0.09
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (154 bp):
AAACGCCGCTAAAAAATCAAGCATTAGCGGCATTTTCAGTAAAGCGCCGCTATAGATCCACCTAT
AGCGGCGCTTTATTAAAAACGCCGCTAAAAGATTAAAGAGAACGACGTCGCATTATGTAACAACC
AATTCATTAGCGACGCTTTTCAAA
Found at i:58326536 original size:21 final size:21
Alignment explanation
Indices: 58326497--58326536 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
58326487 CCTTAAATTG
*
58326497 TAAATCTTAAACCCTAAACAT
1 TAAATCTTAAACCCAAAACAT
* *
58326518 TAAATCTTCAATCCAAAAC
1 TAAATCTTAAACCCAAAAC
58326537 CATAAAACCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAATCTTAAACCCAAAACAT
Found at i:58326758 original size:2 final size:2
Alignment explanation
Indices: 58326751--58326788 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
58326741 AGAATAAATA
*
58326751 AT AT AT AT AT AT AT AT AT AT AT -T GAT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT
58326789 TAATGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:58331838 original size:9 final size:9
Alignment explanation
Indices: 58331815--58331981 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
58331805 ATTGATCATT
*
58331815 ACTTAAATA
1 ACTTACATA
*
58331824 AATTACATA
1 ACTTACATA
58331833 ACTTACATA
1 ACTTACATA
* *
58331842 ACTCATATA
1 ACTTACATA
58331851 ACTTACATA
1 ACTTACATA
*
58331860 ATTTACATAACA
1 ACTTACAT---A
58331872 ACTTACATA
1 ACTTACATA
*
58331881 ACTCACATA
1 ACTTACATA
58331890 ACTTACATA
1 ACTTACATA
*
58331899 ATTTACATAACA
1 ACTTACAT---A
58331911 ACTTACATA
1 ACTTACATA
*
58331920 AGTTACATA
1 ACTTACATA
*
58331929 ATTTACATA
1 ACTTACATA
*
58331938 ATTTACATA
1 ACTTACATA
*
58331947 ACTCACATA
1 ACTTACATA
*
58331956 ACGTACATAACA
1 ACTTACAT---A
58331968 ACTTACATA
1 ACTTACATA
58331977 ACTTA
1 ACTTA
58331982 ACTAATACAT
Statistics
Matches: 129, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
9 105 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ACTTACATA
Found at i:58331884 original size:39 final size:39
Alignment explanation
Indices: 58331832--58331948 Score: 198
Period size: 39 Copynumber: 3.0 Consensus size: 39
58331822 TAAATTACAT
*
58331832 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
58331871 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
* * *
58331910 AACTTACATAAGTTACATAATTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
58331949 TCACATAACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:58331889 original size:30 final size:30
Alignment explanation
Indices: 58331862--58331979 Score: 94
Period size: 30 Copynumber: 3.7 Consensus size: 30
58331852 CTTACATAAT
58331862 TTACATAACAACTTACATAACTCACATAAC
1 TTACATAACAACTTACATAACTCACATAAC
** * * * *
58331892 TTACATAATTTACATA-ACAACTTACATAAG
1 TTACATAA-CAACTTACATAACTCACATAAC
*
58331922 TTACATAATTTACATAATTTACATAACTCACATAAC
1 TTACAT-A---AC--AACTTACATAACTCACATAAC
*
58331958 GTACATAACAACTTACATAACT
1 TTACATAACAACTTACATAACT
58331980 TAACTAATAC
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
30 37 0.57
31 5 0.08
32 2 0.03
34 1 0.02
35 4 0.06
36 16 0.25
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.31
Consensus pattern (30 bp):
TTACATAACAACTTACATAACTCACATAAC
Found at i:58331905 original size:48 final size:47
Alignment explanation
Indices: 58331826--58331981 Score: 177
Period size: 48 Copynumber: 3.3 Consensus size: 47
58331816 CTTAAATAAA
* * *
58331826 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
58331874 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAG
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * *
58331922 TTACATAATTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
58331970 TTACATAACTTA
1 TTACATAACTTA
58331982 ACTAATACAT
Statistics
Matches: 87, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 79 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:58331966 original size:57 final size:57
Alignment explanation
Indices: 58331815--58331977 Score: 188
Period size: 57 Copynumber: 2.8 Consensus size: 57
58331805 ATTGATCATT
* * *
58331815 ACTTAAATAAATTACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAAGTTACAT-A-A
* * *
58331872 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAGTTACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAAGTTACATAA
* * *
58331929 ATTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAA
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAA
58331978 CTTAACTAAT
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 69 0.76
58 1 0.01
59 3 0.03
60 18 0.20
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAAGTTACATAA
Found at i:58331977 original size:39 final size:36
Alignment explanation
Indices: 58331815--58331966 Score: 164
Period size: 39 Copynumber: 4.1 Consensus size: 36
58331805 ATTGATCATT
* * *
58331815 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACT-ACATA
58331851 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACT-ACATA
*
58331890 ACTTACATAATTTACATAACAACTTACATAAGTTACATA
1 ACTTACATAATTTACAT-A-AACTTACATAA-CTACATA
* *
58331929 ATTTACATAATTTACAT-AACTCACATAACGTACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TACATA
58331965 AC
1 AC
58331967 AACTTACATA
Statistics
Matches: 103, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
36 32 0.31
39 70 0.68
40 1 0.01
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (36 bp):
ACTTACATAATTTACATAAACTTACATAACTACATA
Found at i:58346315 original size:46 final size:48
Alignment explanation
Indices: 58346177--58346354 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 48
58346167 ACCACATTAT
* * * *
58346177 GAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGC-ATTGAGAC
1 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCAGCTA-CGAGAC
* * *
58346225 GAGAGCTAGTATAAGA-CATGTCTAGGACAT-GTATCAGCCT-CGAGAC
1 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCAG-CTACGAGAC
*
58346271 GTA-AGCCAGTATAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGAT
1 G-AGAGCCAGTATAAGACCATGTCTGGGACATGGCATCAGCTACGAGAC
* * * *
58346317 GATAGTCAGTGTAAGACCATATCTGGGACATGGCATCA
1 GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCA
58346355 ACACCTTACT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 59 0.54
47 27 0.25
48 20 0.18
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (48 bp):
GAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCAGCTACGAGAC
Found at i:58353714 original size:47 final size:45
Alignment explanation
Indices: 58353639--58353908 Score: 184
Period size: 47 Copynumber: 5.8 Consensus size: 45
58353629 ATTTATTTGT
* *
58353639 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATAA
1 GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACA-GATAA
* * * * *
58353685 GAGCCAGTGTAAGACCATGTCTGGGACATGACATC-GACATTGAAACAA
1 GAGCCAGTATAAGA-CATGTCTGGGACATG-CATCGGCCA--CAGATAA
* * * * * *
58353733 GAGCTAGTATGAGACATGTTTGGGACATGCATCAGCCTCAAGACATA
1 GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCAC-AGATA-A
* * * * *
58353780 -AGCCAGTATAAGACATGTCTAGGAGATGCATCGGCTAGAGATGA
1 GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAGATAA
* * * *** *
58353824 TAGTCAGTATAAGACCATGTCTGGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCCACAGATAA
* *
58353871 GAGCCAGTGTAATACCATGTCTGGGACATGGCATCGGC
1 GAGCCAGTATAAGA-CATGTCTGGGACAT-GCATCGGC
58353909 ACCTTACCCA
Statistics
Matches: 179, Mismatches: 35, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
44 1 0.01
45 15 0.08
46 63 0.35
47 81 0.45
48 18 0.10
49 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (45 bp):
GAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACAGATAA
Found at i:58355595 original size:31 final size:31
Alignment explanation
Indices: 58355504--58355625 Score: 111
Period size: 31 Copynumber: 3.9 Consensus size: 31
58355494 TGACATGTAG
* * *
58355504 CTATCACCTTCCAAAC-CTAACCAACATATTA
1 CTATTACCCTCCAAACAC-AACCAACATATAA
* ** * * * *
58355535 CCATTACCCTAAAAAAACAATCAGCATATAG
1 CTATTACCCTCCAAACACAACCAACATATAA
* *
58355566 CTTTTACCCTCCAAACACAACCAATATATAA
1 CTATTACCCTCCAAACACAACCAACATATAA
*
58355597 CTATTACCCTCCGAACACAACCAACATAT
1 CTATTACCCTCCAAACACAACCAACATAT
58355626 CTCGGGGCCT
Statistics
Matches: 68, Mismatches: 22, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
31 67 0.99
32 1 0.01
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.23
Consensus pattern (31 bp):
CTATTACCCTCCAAACACAACCAACATATAA
Found at i:58370100 original size:47 final size:47
Alignment explanation
Indices: 58370036--58370130 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
58370026 ATGATAGTAT
* * *
58370036 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAA
*
58370083 GGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAA
58370130 G
1 G
58370131 TCCCGAAGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.27
Consensus pattern (47 bp):
GGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAAATGTGATAA
Found at i:58377192 original size:18 final size:18
Alignment explanation
Indices: 58377166--58377204 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
58377156 TTTAAAAAGG
* *
58377166 AAAACAAATGAATGTTAA
1 AAAAAAAATGAATCTTAA
*
58377184 AAAAAAAATGAGTCTTAA
1 AAAAAAAATGAATCTTAA
58377202 AAA
1 AAA
58377205 CTTAATGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (18 bp):
AAAAAAAATGAATCTTAA
Done.