Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 150 of 196
Found at i:44417655 original size:3 final size:3
Alignment explanation
Indices: 44417647--44417710 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
44417637 TTAATAACAG
44417647 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
44417695 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
44417711 CAGACCATAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:44417794 original size:3 final size:3
Alignment explanation
Indices: 44417788--44417845 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
44417778 ATTTTTTTGC
*
44417788 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
44417836 TCT TCT TCT T
1 TCT TCT TCT T
44417846 GACTCTCTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:44418397 original size:3 final size:3
Alignment explanation
Indices: 44418368--44418435 Score: 59
Period size: 3 Copynumber: 23.3 Consensus size: 3
44418358 CCATTTTTTC
* * * * *
44418368 TCT TCT CCT TCT TAT TCT TCT TAT TCT TCT TCT TCT TC- TCC TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
44418415 TTT TCT TCT TTT TC- TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
44418436 AAACCCTAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:44419803 original size:18 final size:16
Alignment explanation
Indices: 44419761--44419803 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 16
44419751 TGTCGTTCGT
44419761 TTTCAAAATATTATTCA
1 TTTC-AAATATTATTCA
44419778 TTTACAAATCATTATTCAA
1 TTT-CAAAT-ATTATTC-A
44419797 TTTCAAA
1 TTTCAAA
44419804 ACTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.30
18 12 0.52
19 4 0.17
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTCAAATATTATTCA
Found at i:44425297 original size:31 final size:31
Alignment explanation
Indices: 44425253--44425311 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
44425243 TTTTTCTCAA
*
44425253 TTAAATTAAAATTAAAATTTTATATATACAT
1 TTAAATCAAAATTAAAATTTTATATATACAT
* *
44425284 TTAAATCATAATTAAAGTTTTATATATA
1 TTAAATCAAAATTAAAATTTTATATATA
44425312 ATTACACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (31 bp):
TTAAATCAAAATTAAAATTTTATATATACAT
Found at i:44429623 original size:16 final size:17
Alignment explanation
Indices: 44429594--44429626 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44429584 ATCACAATAA
44429594 AATAAAATTCTAATATT
1 AATAAAATTCTAATATT
*
44429611 AATAAACTT-TAATATT
1 AATAAAATTCTAATATT
44429627 TTGATATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAATTCTAATATT
Found at i:44430709 original size:18 final size:18
Alignment explanation
Indices: 44430686--44430723 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
44430676 GGCCGAGCGG
44430686 CCCGGCCCGACGGCCCGC
1 CCCGGCCCGACGGCCCGC
44430704 CCCGGCCCGACGGCCCGC
1 CCCGGCCCGACGGCCCGC
44430722 CC
1 CC
44430724 GAAATATGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.63, G:0.32, T:0.00
Consensus pattern (18 bp):
CCCGGCCCGACGGCCCGC
Found at i:44431074 original size:16 final size:16
Alignment explanation
Indices: 44431053--44431094 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
44431043 AATAATTTGA
*
44431053 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
44431069 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
44431085 TAGTTTTAAT
1 TAATTTTAAT
44431095 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:44431078 original size:22 final size:22
Alignment explanation
Indices: 44431068--44431128 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
44431058 TTACTAACAA
* * *
44431068 TTAATTTTAATAACAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
44431090 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
44431112 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
44431129 CGGGTCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:44445648 original size:3 final size:3
Alignment explanation
Indices: 44445640--44445668 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44445630 TTATGTGAAT
44445640 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
44445669 TTGTTCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44454321 original size:12 final size:13
Alignment explanation
Indices: 44454300--44454331 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
44454290 CATATAAAAA
*
44454300 TTTAAAAAAATGT
1 TTTAAAAAAATAT
44454313 TTTAAAAAAATAT
1 TTTAAAAAAATAT
44454326 TTTAAA
1 TTTAAA
44454332 TTTTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (13 bp):
TTTAAAAAAATAT
Found at i:44454809 original size:25 final size:24
Alignment explanation
Indices: 44454773--44454820 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
44454763 AATAAAAATT
*
44454773 AATATTATTTTTATTTATTTTATAA
1 AATATTATTTTTAATT-TTTTATAA
44454798 AATATT-TCTTTTAATTTTTTATA
1 AATATTAT-TTTTAATTTTTTATA
44454821 CACCTAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
AATATTATTTTTAATTTTTTATAA
Found at i:44455042 original size:16 final size:16
Alignment explanation
Indices: 44455004--44455049 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
44454994 TTCTGGACAT
*
44455004 AACTTTTAATTTTTTT
1 AACTTTTAATTTTTTG
* *
44455020 TATTTTTAATTTTTTG
1 AACTTTTAATTTTTTG
44455036 AACTTTTGAATTTT
1 AACTTTT-AATTTT
44455050 ATTTAATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (16 bp):
AACTTTTAATTTTTTG
Found at i:44455117 original size:16 final size:16
Alignment explanation
Indices: 44455092--44455122 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44455082 TATAGATTTA
*
44455092 TAAATTTTTTAAAATT
1 TAAATCTTTTAAAATT
44455108 TAAATCTTTTAAAAT
1 TAAATCTTTTAAAAT
44455123 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATCTTTTAAAATT
Found at i:44462631 original size:51 final size:51
Alignment explanation
Indices: 44462572--44462690 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
44462562 TTTTCTCTAG
* *
44462572 TTAATTTAAATTAATTAAAAGATAGATAATAAAAAATTATATCATCACTAA
1 TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
* *
44462623 TTAATTTAAACTAATTAAAAAATAAATAATAAAAAATTATATTATCACTAA
1 TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
* *
44462674 -TAAATTAAATTATTTAA
1 TTAATTTAAATTAATTAA
44462691 GTGATAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 14 0.23
51 47 0.77
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (51 bp):
TTAATTTAAATTAATTAAAAAATAAATAATAAAAAATTATATCATCACTAA
Found at i:44466863 original size:30 final size:30
Alignment explanation
Indices: 44466809--44466865 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
44466799 TAAAAAACAT
**
44466809 TATTTTATTGTATTCCATAAATATAATAAA
1 TATTTTATTGTATTAAATAAATATAATAAA
*
44466839 TATTTTATTGTATTAAATATATATAAT
1 TATTTTATTGTATTAAATAAATATAAT
44466866 TACTCTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (30 bp):
TATTTTATTGTATTAAATAAATATAATAAA
Found at i:44470152 original size:21 final size:21
Alignment explanation
Indices: 44470126--44470165 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44470116 TATTTAACGC
*
44470126 TAAATCTCGAACCTTGAACAT
1 TAAATCTCGAACCTCGAACAT
*
44470147 TAAATCTTGAACCTCGAAC
1 TAAATCTCGAACCTCGAAC
44470166 CCTAAGGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (21 bp):
TAAATCTCGAACCTCGAACAT
Found at i:44470347 original size:22 final size:22
Alignment explanation
Indices: 44470322--44470377 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
44470312 TTTGGGTTTA
44470322 AGGTTTAAGGG-TTTGAGATTAT
1 AGGTTT-AGGGTTTTGAGATTAT
* *
44470344 AGGTTTGGGGTTTTGAGATTCT
1 AGGTTTAGGGTTTTGAGATTAT
* *
44470366 AGATTTTGGGTT
1 AGGTTTAGGGTT
44470378 CAGGGTTTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 26 0.90
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.45
Consensus pattern (22 bp):
AGGTTTAGGGTTTTGAGATTAT
Found at i:44470740 original size:74 final size:74
Alignment explanation
Indices: 44470619--44470768 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
44470609 CCTAAAAAAG
44470619 TTAGTTTTTAGGATATATTATATTATATTATATTATAAGTTTAAATTGTAAATTAATACTTAAAT
1 TTAGTTTTTAGGATATATTATATTATATTATATTATAAGTTTAAATTGTAAATTAATACTTAAAT
44470684 TATGAACTT
66 TATGAACTT
44470693 TTAGTTTTTAGGATATATTATATTATATTATATTATAAGTTTAAATTGTAAATTAATACTTAAAT
1 TTAGTTTTTAGGATATATTATATTATATTATATTATAAGTTTAAATTGTAAATTAATACTTAAAT
44470758 TATGAACTT
66 TATGAACTT
44470767 TT
1 TT
44470769 TTTCAACTTC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.51
Consensus pattern (74 bp):
TTAGTTTTTAGGATATATTATATTATATTATATTATAAGTTTAAATTGTAAATTAATACTTAAAT
TATGAACTT
Found at i:44472255 original size:17 final size:17
Alignment explanation
Indices: 44472227--44472276 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
44472217 TCTTAAATTT
*
44472227 TGATACCCATATCTTTC
1 TGATACCTATATCTTTC
**
44472244 TGATATTTATATCTTTC
1 TGATACCTATATCTTTC
*
44472261 TGGTACCTATATCTTT
1 TGATACCTATATCTTT
44472277 GACTTTCTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (17 bp):
TGATACCTATATCTTTC
Found at i:44474358 original size:29 final size:30
Alignment explanation
Indices: 44474311--44474378 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
44474301 TGGCCCAAGA
* *
44474311 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
44474341 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
44474371 GCAAATAT
1 GTAAATAT
44474379 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:44476870 original size:46 final size:46
Alignment explanation
Indices: 44476811--44477117 Score: 499
Period size: 46 Copynumber: 6.7 Consensus size: 46
44476801 TGAAATGAAA
*
44476811 TGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
*
44476857 TGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
*
44476903 TGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
*
44476949 TGTAAGACCATGGTTGAAAGACACCATGGCAACCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
*
44476995 TGTAAGACCATGGTTGAAAGATACCATGGCAATCTGATATGAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
* *
44477041 TGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATG
1 TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATG-AAATG
* * * *
44477087 AGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGTAAGACCATGGTTGAAAGATACCATGGCA
44477118 TCATGTCAAA
Statistics
Matches: 249, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
45 1 0.00
46 248 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
TGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG
Found at i:44479543 original size:17 final size:17
Alignment explanation
Indices: 44479521--44479569 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
44479511 AAATCTCAGA
44479521 TTTTGATACCCATATAT
1 TTTTGATACCCATATAT
*
44479538 TTTTGATACCTATATAT
1 TTTTGATACCCATATAT
*
44479555 TTCTGATACCCATAT
1 TTTTGATACCCATAT
44479570 CTTTGACTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTGATACCCATATAT
Found at i:44480114 original size:17 final size:19
Alignment explanation
Indices: 44480076--44480114 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
44480066 TATGACTGAA
*
44480076 ATATACAAAAAAAACTTAC
1 ATATACAAAAAAAACATAC
44480095 ATATA-AAAAAAAACAT-C
1 ATATACAAAAAAAACATAC
44480112 ATA
1 ATA
44480115 CAAAGGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (19 bp):
ATATACAAAAAAAACATAC
Found at i:44485953 original size:29 final size:30
Alignment explanation
Indices: 44485900--44485959 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44485890 TTCAAACTTT
* *
44485900 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAATTTA
* *
44485930 GGGGCAAAATTGTAATT-TTAAAAAATTTA
1 GGGGCAAAAATGTAATTATGAAAAAATTTA
44485959 G
1 G
44485960 AGTCGAGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAATTTA
Found at i:44486441 original size:50 final size:50
Alignment explanation
Indices: 44486295--44486537 Score: 364
Period size: 50 Copynumber: 4.9 Consensus size: 50
44486285 ATTTGGGTAA
*
44486295 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
*
44486345 AGAGGTCCCATGTAAGACCAT-TCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
*
44486394 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
* * * *
44486444 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
** *
44486494 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
44486538 GTTATAATCA
Statistics
Matches: 174, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
49 47 0.27
50 93 0.53
51 34 0.20
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
Found at i:44491098 original size:22 final size:24
Alignment explanation
Indices: 44491054--44491100 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
44491044 AAAAAACTAG
44491054 AAAAACGTGCTATGATGAGAGCAGAC
1 AAAAACGTGCTATGAT--GAGCAGAC
44491080 AAAAACGTGCTA-GAT-AGCAGA
1 AAAAACGTGCTATGATGAGCAGA
44491101 ATCTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.45, C:0.15, G:0.26, T:0.15
Consensus pattern (24 bp):
AAAAACGTGCTATGATGAGCAGAC
Found at i:44492617 original size:4 final size:5
Alignment explanation
Indices: 44492592--44492624 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
44492582 GCTGTCGTCT
44492592 TTTTA TTTTA TTTTA TTTTA -TTTA TTTATA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT
44492625 CCTGGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:44496926 original size:18 final size:18
Alignment explanation
Indices: 44496905--44496947 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44496895 TTTTAATTAA
44496905 TAATTATAATTTAAAT-TC
1 TAATTAT-ATTTAAATGTC
* *
44496923 TAATTATTTTTAAATGTG
1 TAATTATATTTAAATGTC
44496941 TAATTAT
1 TAATTAT
44496948 CATAACTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (18 bp):
TAATTATATTTAAATGTC
Found at i:44496963 original size:44 final size:44
Alignment explanation
Indices: 44496915--44497004 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
44496905 TAATTATAAT
* * *
44496915 TTAAATTCTAATTATTTTTAAATGTGTAATTATCATAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
*
44496959 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
44497003 TT
1 TT
44497005 TTAATTCAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTCTA
Found at i:44504569 original size:13 final size:13
Alignment explanation
Indices: 44504551--44504575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44504541 TTACGTTTTA
44504551 ACTCCTCCTTAAC
1 ACTCCTCCTTAAC
44504564 ACTCCTCCTTAA
1 ACTCCTCCTTAA
44504576 TCAAATCCAA
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:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTCCTCCTTAAC
Found at i:44506787 original size:14 final size:13
Alignment explanation
Indices: 44506768--44506800 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
44506758 CGAAACAAAG
44506768 AAGAAAAAGAGAGA
1 AAGAAAAAG-GAGA
44506782 AAGAAAAAGGAGA
1 AAGAAAAAGGAGA
44506795 AA-AAAA
1 AAGAAAA
44506801 TTAGGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGGAGA
Found at i:44510958 original size:16 final size:17
Alignment explanation
Indices: 44510933--44510965 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44510923 AATACATAGG
44510933 GGTTCGCACAG-ACACA
1 GGTTCGCACAGAACACA
*
44510949 GGTTCTCACAGAACACA
1 GGTTCGCACAGAACACA
44510966 TAGGTACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.30, G:0.21, T:0.15
Consensus pattern (17 bp):
GGTTCGCACAGAACACA
Found at i:44511048 original size:18 final size:18
Alignment explanation
Indices: 44510983--44511048 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
44510973 ATGTAAATGA
** *
44510983 ATAGGCTCATATAAGTGC
1 ATAGGCTCGCATAAGTGT
*
44511001 ATAGGCTCGCACAAGTGT
1 ATAGGCTCGCATAAGTGT
* *
44511019 TTAAGCTCGCATAAGTGT
1 ATAGGCTCGCATAAGTGT
*
44511037 ATAGGCACGCAT
1 ATAGGCTCGCAT
44511049 GATACTGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (18 bp):
ATAGGCTCGCATAAGTGT
Found at i:44511976 original size:13 final size:13
Alignment explanation
Indices: 44511960--44511994 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
44511950 TCAAACTCGT
*
44511960 AAATATTTATTAG
1 AAATATTTATTAA
44511973 AAATATTTATTAA
1 AAATATTTATTAA
44511986 AAATATTTA
1 AAATATTTA
44511995 CGAGGCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:44513130 original size:16 final size:16
Alignment explanation
Indices: 44513105--44513138 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44513095 ATGAATATAT
* *
44513105 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
44513121 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
44513137 AT
1 AT
44513139 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:44524185 original size:94 final size:93
Alignment explanation
Indices: 44524022--44524634 Score: 562
Period size: 94 Copynumber: 6.6 Consensus size: 93
44524012 AACAGATCAG
* * * *
44524022 TGAAGCTACAATTCCTATACCCTTAAAGTTGCAGTGGGTCGAAATGAAACTACAATGGTGAATTT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATAGTGAATCT
* **
44524087 TATATCCCTGAAGTTGCAGTAGATTGGAT
65 TATATCCCTGAAGTTGCAGTGGATCAGAT
* * * * * *
44524116 TGAAGCTACAATTCTTATACCCCTAAAATTGTAGTGGGTCAGAATGAAACTACAACAGTGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATAGTGAATCT
**
44524181 TATATCCCTGAAGTTATAGTGGATCAGAT
65 TATATCCCTGAAGTTGCAGTGGATCAGAT
* * * *
44524210 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTAAAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AGTGGGTCG-AATGAAACTACAATAGTGAATC
* *
44524274 TTATATTCCTAAAGTTGCAGTGGATCAGAT
64 TTATATCCCTGAAGTTGCAGTGGATCAGAT
* ** * * * *
44524304 TGAAGCTACAATTCCTATACCCCTAAAGTTGTGGTGGGTCGGATTGAAATTACAATGGCGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATAGTGAATCT
** * * * *
44524369 TACCTCTCTGAAGTTGCAATAGAGCAAGA-
65 TATATCCCTGAAGTTGCAGTGGATC-AGAT
* * * *
44524398 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAA-AGGCGAATC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATA-GTGAATC
* * * * *
44524462 CTATATCCCTAAAGTTACAGCGAATCAGAT
64 TTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * *
44524492 TGAAGCTACAATTCCTACACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTAC-A-A-T---TCA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATAGTGAATCT
* * *
44524551 TATA-CCTCTGAAGTTGTAGTGGGTCGGAT
65 TATATCC-CTGAAGTTGCAGTGGATCAGAT
* * * * *
44524580 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTCAGATTGAAGCTACAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAA
44524635 CTTCTATACC
Statistics
Matches: 422, Mismatches: 85, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
87 2 0.00
88 70 0.17
89 1 0.00
93 7 0.02
94 336 0.80
95 6 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (93 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGAATGAAACTACAATAGTGAATCTT
ATATCCCTGAAGTTGCAGTGGATCAGAT
Found at i:44524343 original size:188 final size:187
Alignment explanation
Indices: 44524022--44524619 Score: 647
Period size: 188 Copynumber: 3.2 Consensus size: 187
44524012 AACAGATCAG
* * * * *
44524022 TGAAGCTACAATTCCTATACCCTTAAAGTTGCAGTGGGTCGAAATGAAACTACAATGGTGAATTT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAATGGGTCGAAATGAAACTAAAATGGTGAATAT
* * ** * *
44524087 TATATCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTCTTATACCCCTAAAATTGTAGTG
66 TATATCCCTAAAGTTGCAGTGGATCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTG
* * *
44524152 GGTCAGAATGAAACTACAACAGTGAATCCTATATCCCTGAAGTTATAGTGGATCAGAT
131 GGTCAGATTGAAACTACAA-AGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
* *
44524210 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTAAAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AATGGGTCGAAATGAAACTAAAATGGTGAATA
* *
44524274 TTATATTCCTAAAGTTGCAGTGGATCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTGGT
65 TTATATCCCTAAAGTTGCAGTGGATCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGT
* * * * * ** * * * * *
44524339 GGGTCGGATTGAAATTACAATGGCGAATCTTACCTCTCTGAAGTTGCAATAGAGCAAGA-
130 GGGTCAGATTGAAACTACAA-AGTGAATCATATATCCCTGAAGTTGTAGTGGATC-AGAT
* * * * * *
44524398 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAAA-GGCGAATC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAATGGGTCGAAATGAAACTA-AAATGGTGAATA
* * * * * * *
44524462 CTATATCCCTAAAGTTACAGCGAATCAGATTGAAGCTACAATTCCTACACCCCTGAAGTTGCAGT
65 TTATATCCCTAAAGTTGCAGTGGATCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGT
* * *
44524527 GGGTCAGATTGAAGCTAC-AA-T---TCATATA-CCTCTGAAGTTGTAGTGGGTCGGAT
130 GGGTCAGATTGAAACTACAAAGTGAATCATATATCC-CTGAAGTTGTAGTGGATCAGAT
* *
44524580 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAATGGGTC
44524620 AGATTGAAGC
Statistics
Matches: 337, Mismatches: 67, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
181 3 0.01
182 52 0.15
187 2 0.01
188 273 0.81
189 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (187 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAATGGGTCGAAATGAAACTAAAATGGTGAATAT
TATATCCCTAAAGTTGCAGTGGATCAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTG
GGTCAGATTGAAACTACAAAGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
Found at i:44524349 original size:44 final size:44
Alignment explanation
Indices: 44524113--44524672 Score: 279
Period size: 44 Copynumber: 12.2 Consensus size: 44
44524103 CAGTAGATTG
* *
44524113 GATTGAAGCTACAATTCTTATACCCCTAAAATTGTAGTGGGTCA
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * * * * *
44524157 GAATGAAACTACAACAGTGAATCCTATATCCCTGAAGTTATAGTGGATCA
1 GATTGAAGCTAC-A-A-T---TCCTATACCCCTAAAGTTGTAGTGGGTCA
* * * *
44524207 GATTAAAGCTACAATTCCTATACCCCTGAAGTTCTAATGGGTC-
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * * ** ** * *
44524250 GAAATGAAACTAAAATAGTGAATATTATATTCCTAAAGTTGCAGTGGATCA
1 G-ATTGAAGCT-ACA-A-T---TCCTATACCCCTAAAGTTGTAGTGGGTCA
* *
44524301 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTGGTGGGTCG
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
** * * * * *
44524345 GATTGAAATTACAATGGCGAATCT-TACCTCTCTGAAGTTGCAATAGAG-CAA
1 GATTGAAGCTACAAT-TC----CTATACC-C-CTAAAGTTGTAGT-GGGTC-A
* * * * *
44524396 GA-TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTC-
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * * * ** * **
44524438 GAAATGAAACTACAAAGGCGAATCCTATATCCCTAAAGTTACAGCGAATCA
1 G-ATTGAAGCTAC--A----ATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * *
44524489 GATTGAAGCTACAATTCCTACACCCCTGAAGTTGCAGTGGGTCA
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * * *
44524533 GATTGAAGCTACAATTCATATACCTCTGAAGTTGTAGTGGGTCG
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
* * ** *
44524577 GATTGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTCA
1 GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
*
44524621 GATTGAAGCTACAACTT-CTATACCCCTGAAGTTGTAGTGGGTC-
1 GATTGAAGCTACAA-TTCCTATACCCCTAAAGTTGTAGTGGGTCA
44524664 GAATTGAAG
1 G-ATTGAAG
44524673 TTACCATAGC
Statistics
Matches: 391, Mismatches: 89, Indels: 72
0.71 0.16 0.13
Matches are distributed among these distances:
42 1 0.00
43 5 0.01
44 238 0.61
45 8 0.02
46 6 0.02
47 4 0.01
48 7 0.02
49 7 0.02
50 109 0.28
51 6 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
GATTGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCA
Found at i:44524603 original size:88 final size:87
Alignment explanation
Indices: 44524489--44524755 Score: 306
Period size: 88 Copynumber: 3.0 Consensus size: 87
44524479 CAGCGAATCA
* *
44524489 GATTGAAGCTACAATTCCTACACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATTCATAT
1 GATTGAAGCTACAATTCATATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATTC-TAT
*
44524554 ACCTCTGAAGTTGTAGTGGGTCG
65 ACCCCTGAAGTTGTAGTGGGTCG
* *
44524577 GATTGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTCAGATTGAAGCTACAACTTCTAT
1 GATTGAAGCTACAATTCATATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAA-TTCTAT
44524642 ACCCCTGAAGTTGTAGTGGGTCG
65 ACCCCTGAAGTTGTAGTGGGTCG
* * * *
44524665 AATTGAAGTTACCATAGCAAATCTTAT-CTCCCAGAAGTTGCAGTGGAGT-AGA-TGAAGCTACA
1 GATTGAAG----C-TA-CAATTCATATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCTACA
* **
44524727 AATCTTATACCCCTGAAGTTACAGTGGGT
58 ATTC-TATACCCCTGAAGTTGTAGTGGGT
44524756 ACATTAGTGA
Statistics
Matches: 155, Mismatches: 14, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
88 86 0.55
89 3 0.02
92 3 0.02
93 36 0.23
94 25 0.16
95 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
GATTGAAGCTACAATTCATATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATTCTATA
CCCCTGAAGTTGTAGTGGGTCG
Found at i:44524827 original size:82 final size:81
Alignment explanation
Indices: 44524684--44524837 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 81
44524674 TACCATAGCA
* * *
44524684 AATCTTATCTCCCAGAAGTTGCAGTGGAGTAGATGAAGCTACAAATCTTATACCCCTGAAGTTAC
1 AATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAAGTTAC
44524749 AGTGGGTACATTAGTG
66 AGTGGGTACATTAGTG
** *
44524765 AATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCCAGAAGTTGCAGTGGAG-AAGAAGAAGCTACAAATCCTATACCCCTGAAGTTA
*
44524830 GAGTGGGT
65 CAGTGGGT
44524838 CAGATTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 27 0.42
82 38 0.58
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (81 bp):
AATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAAGTTAC
AGTGGGTACATTAGTG
Found at i:44524929 original size:94 final size:93
Alignment explanation
Indices: 44524764--44525163 Score: 415
Period size: 94 Copynumber: 4.2 Consensus size: 93
44524754 GTACATTAGT
* * * * *
44524764 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTT
1 GAATCTTATCTCCCTGAA-TTGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTT
* * * *
44524829 GGAGTGGGTCAGATTAAATCTACCATAAT
65 GCAGTGGGTTAGATTGAATCTACCATAAC
* * **
44524858 AAATCTTATCTCCCTGAATATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGTT
1 GAATCTTATCTCCCTGAAT-TGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTT
* *
44524923 GCAGTGGGTTGGATTGAATCTACCATAAG
65 GCAGTGGGTTAGATTGAATCTACCATAAC
* * * * *
44524952 GAATCTTATCTCCTTGACGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGTT
1 GAATCTTATCTCCCTGA-ATTGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTT
* *
44525017 ACAGTGGGTTAGATTGAATATACCATAAC
65 GCAGTGGGTTAGATTGAATCTACCATAAC
* * * *
44525046 GAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAACCCACAAATCCTATATCCCTGAAA-T
1 GAATCTTATCTCCCTGAA-TTGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCT-AAAGT
* ** * * * * *
44525110 TGTAGTGGAATGGATTGAAACTACAACATC
64 TGCAGTGGGTTAGATTGAATCTACCATAAC
* *
44525140 AAATCTTATCTCCTTGAAGTTGCA
1 GAATCTTATCTCCCTGAA-TTGCA
44525164 ATTGAACAAG
Statistics
Matches: 256, Mismatches: 46, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
93 1 0.00
94 251 0.98
95 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (93 bp):
GAATCTTATCTCCCTGAATTGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTG
CAGTGGGTTAGATTGAATCTACCATAAC
Found at i:44525083 original size:188 final size:188
Alignment explanation
Indices: 44524764--44525165 Score: 531
Period size: 188 Copynumber: 2.1 Consensus size: 188
44524754 GTACATTAGT
* *
44524764 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAATGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
** * * *
44524829 GGAGTGGGTCAGATTAAATCTACCATAATAAATCTTATCTCCCTGAATATGCAGTGAAGCAAGAT
66 ACAGTGGGTCAGATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
* * ** ** *
44524894 GAAGCTACAAATTTTATACCCCT-AAAGTTGCAGTGGGTTGGATTGAATCTAC-CATAA
131 GAACCCACAAATCCTATACCCCTGAAA-TTGCAGTGGAATGGATTGAAACTACACATAA
* * * *
44524951 GGAATCTTATCTCCTTGACGTTGCAATGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 -GAATCTTATCTCCTTGAAGTTGCAATGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGT
* * * *
44525016 TACAGTGGGTTAGATTGAATATACCATAACGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGA
65 TACAGTGGGTCAGATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGA
* * *
44525081 TGAACCCACAAATCCTATATCCCTGAAATTGTAGTGGAATGGATTGAAACTACAACATCA
130 TGAACCCACAAATCCTATACCCCTGAAATTGCAGTGGAATGGATTGAAACTAC-ACATAA
44525141 -AATCTTATCTCCTTGAAGTTGCAAT
1 GAATCTTATCTCCTTGAAGTTGCAAT
44525166 TGAACAAGAT
Statistics
Matches: 185, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
188 178 0.96
189 3 0.02
190 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (188 bp):
GAATCTTATCTCCTTGAAGTTGCAATGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
ACAGTGGGTCAGATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
GAACCCACAAATCCTATACCCCTGAAATTGCAGTGGAATGGATTGAAACTACACATAA
Found at i:44525713 original size:5 final size:5
Alignment explanation
Indices: 44525690--44525753 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
44525680 GTACCTACAA
* ** * *
44525690 AAAAG AGAAA- AAAAT AAAAG AAAA- AATGG AAAAG TAGAG AACAAG AAAAG
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG AAAAG
44525740 AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAA
44525754 TGATATTTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
4 5 0.11
5 34 0.74
6 7 0.15
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.05
Consensus pattern (5 bp):
AAAAG
Found at i:44525831 original size:16 final size:15
Alignment explanation
Indices: 44525806--44525843 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
44525796 GTAACGTAAC
44525806 AAAAAAAGAATA-AGA
1 AAAAAAAGAATACA-A
44525821 AAAAAATAGAATACAA
1 AAAAAA-AGAATACAA
44525837 AAAAAAA
1 AAAAAAA
44525844 ACTAAGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAATACAA
Found at i:44526269 original size:12 final size:12
Alignment explanation
Indices: 44526240--44526285 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
44526230 AGAATGTTTT
44526240 TTTTTTAAAATA
1 TTTTTTAAAATA
**
44526252 GGTTTTAAAATGA
1 TTTTTTAAAAT-A
44526265 TTTTTTTAAAATA
1 -TTTTTTAAAATA
44526278 TTTTTTAA
1 TTTTTTAA
44526286 CTTATATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:44526726 original size:12 final size:12
Alignment explanation
Indices: 44526693--44526734 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
44526683 TACTTATTTT
44526693 TTTATTTTTATTA
1 TTTA-TTTTATTA
44526706 TCGTTATTTTATTA
1 T--TTATTTTATTA
44526720 TTTATTTTATTA
1 TTTATTTTATTA
44526732 TTT
1 TTT
44526735 CTGGCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 14 0.52
13 1 0.04
14 9 0.33
15 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:44529659 original size:30 final size:30
Alignment explanation
Indices: 44529613--44529736 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
44529603 TTTTATTATG
*
44529613 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
44529644 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
44529674 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
44529704 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
44529734 CCA
1 CCA
44529737 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:44529668 original size:15 final size:15
Alignment explanation
Indices: 44529623--44529730 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
44529613 CCAATATCTC
44529623 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
44529638 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
44529653 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
44529668 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
44529683 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
44529698 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
44529713 GATACCCATATCTTT
1 GATACCCATATCTTT
44529728 GAT
1 GAT
44529731 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:44534351 original size:30 final size:30
Alignment explanation
Indices: 44534305--44534428 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
44534295 TTTTATTATG
*
44534305 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
44534336 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
44534366 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
44534396 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
44534426 CCA
1 CCA
44534429 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:44534360 original size:15 final size:15
Alignment explanation
Indices: 44534315--44534422 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
44534305 CCAATATCTC
44534315 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
44534330 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
44534345 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
44534360 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
44534375 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
44534390 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
44534405 GATACCCATATCTTT
1 GATACCCATATCTTT
44534420 GAT
1 GAT
44534423 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:44538215 original size:13 final size:13
Alignment explanation
Indices: 44538199--44538223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44538189 TATATATTTT
44538199 TTGATAAATTTAA
1 TTGATAAATTTAA
44538212 TTGATAAATTTA
1 TTGATAAATTTA
44538224 TTATTTTAAG
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGATAAATTTAA
Found at i:44542376 original size:21 final size:21
Alignment explanation
Indices: 44542350--44542424 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
44542340 CCAAAAATTT
44542350 ATTTTAAAAATTAAAATAAAA
1 ATTTTAAAAATTAAAATAAAA
* ***
44542371 ATTTTAAAAAGTATTTTAAAA
1 ATTTTAAAAATTAAAATAAAA
*
44542392 ATATTTTAAAATTAAAA-AAAA
1 AT-TTTAAAAATTAAAATAAAA
44542413 GTATTTTAAAAA
1 --ATTTTAAAAA
44542425 AATTTTAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
21 23 0.56
22 16 0.39
23 2 0.05
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (21 bp):
ATTTTAAAAATTAAAATAAAA
Found at i:44542396 original size:11 final size:11
Alignment explanation
Indices: 44542367--44542475 Score: 72
Period size: 12 Copynumber: 10.3 Consensus size: 11
44542357 AAATTAAAAT
44542367 AAAA-ATTTTA
1 AAAATATTTTA
44542377 AAAAGTATTTTA
1 AAAA-TATTTTA
44542389 AAAATATTTT-
1 AAAATATTTTA
***
44542399 AAAAT-TAAAA
1 AAAATATTTTA
44542409 AAAAGTATTTTA
1 AAAA-TATTTTA
*
44542421 AAAAAATTTT-
1 AAAATATTTTA
44542431 -AAA-A--TTA
1 AAAATATTTTA
*
44542438 AAAAAATTTTAA
1 AAAATATTTT-A
44542450 AAAAGTATTTTA
1 AAAA-TATTTTA
*
44542462 AAAGTATTTTA
1 AAAATATTTTA
44542473 AAA
1 AAA
44542476 TTAAAAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.03
8 4 0.05
9 5 0.06
10 13 0.17
11 24 0.31
12 25 0.32
13 5 0.06
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:44542408 original size:17 final size:17
Alignment explanation
Indices: 44542386--44542451 Score: 73
Period size: 17 Copynumber: 4.0 Consensus size: 17
44542376 AAAAAGTATT
*
44542386 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
** **
44542403 TTAAAAAAA-AGT-ATT
1 TTAAAAAAATTTTAAAA
44542418 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
44542435 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
44542452 AAGTATTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
15 10 0.26
16 2 0.05
17 26 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:44542412 original size:32 final size:31
Alignment explanation
Indices: 44542376--44542464 Score: 128
Period size: 32 Copynumber: 2.9 Consensus size: 31
44542366 TAAAAATTTT
44542376 AAAAAGTATTTTAAAAATATTTTAAAATTAAA
1 AAAAAGTATTTTAAAAATATTTTAAAATT-AA
*
44542408 AAAAAGTATTTTAAAAAAATTTTAAAATTAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAA
*
44542439 AAAAA-T-TTTAAAAAAGTATTTTAAAA
1 AAAAAGTATTTTAAAAA-TATTTTAAAA
44542465 GTATTTTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 8 0.15
30 10 0.19
31 7 0.13
32 28 0.53
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAA
Found at i:44542444 original size:41 final size:40
Alignment explanation
Indices: 44542355--44542492 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 40
44542345 AATTTATTTT
*
44542355 AAAAATTAAAATAAAA--ATTTTAAAAAGTATTTTAAAAATATTT
1 AAAAATTAAAA-AAAAGTATTTTAAAAA-TATTTT--AAA-ATTA
* *
44542398 TAAAATTAAAAAAAAGTATTTTAAAAAAATTTTAAAATTAA
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATT-A
** *
44542439 AAAAATTTTAAAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
44542479 AAAAA-TAAAAAAAA
1 AAAAATTAAAAAAAA
44542493 TAAAAATATT
Statistics
Matches: 82, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
39 7 0.09
40 9 0.11
41 37 0.45
42 4 0.05
43 15 0.18
44 10 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (40 bp):
AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:44542498 original size:73 final size:73
Alignment explanation
Indices: 44542349--44542503 Score: 188
Period size: 73 Copynumber: 2.1 Consensus size: 73
44542339 ACCAAAAATT
*
44542349 TATTTTAAAAATTAAAATAAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAG
1 TATTTT-AAAATT--AA-AAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAA
* ***
44542414 TATTTTAAAAAA
62 AAAAATAAAAAA
*
44542426 -ATTTTAAAATTAAAAAAATTTTAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAATAAAAA
1 TATTTTAAAATTAAAAAAATTTT-AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAA-AAAAA
44542490 AAAT-AAAAA
64 AAATAAAAAA
44542499 TATTT
1 TATTT
44542504 ATTATTCGGG
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
72 9 0.13
73 41 0.59
74 8 0.12
75 6 0.09
76 5 0.07
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (73 bp):
TATTTTAAAATTAAAAAAATTTTAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAAAAAAA
ATAAAAAA
Found at i:44543313 original size:24 final size:24
Alignment explanation
Indices: 44543285--44543336 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
44543275 TTCGTAGGTC
*
44543285 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* * * *
44543309 AAATATATTGTACTAGTAAATATT
1 AAATAAATTATACTAATAAATACT
44543333 AAAT
1 AAAT
44543337 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:44545285 original size:24 final size:24
Alignment explanation
Indices: 44545257--44545308 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44545247 TTCGTAGGTC
* *
44545257 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
44545281 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
44545305 AAAT
1 AAAT
44545309 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:44548307 original size:31 final size:31
Alignment explanation
Indices: 44548271--44548335 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
44548261 TTTTATAAAT
*
44548271 AAAATAGTTATTAATTAAAAATATGAATTAA
1 AAAATAGTTATTAATTAAAAACATGAATTAA
* * *
44548302 AAAATATTTATTAATTATAAACATTAATTAA
1 AAAATAGTTATTAATTAAAAACATGAATTAA
44548333 AAA
1 AAA
44548336 TAAAAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (31 bp):
AAAATAGTTATTAATTAAAAACATGAATTAA
Found at i:44549335 original size:12 final size:12
Alignment explanation
Indices: 44549282--44549404 Score: 77
Period size: 12 Copynumber: 9.8 Consensus size: 12
44549272 TCTTCAATTA
*
44549282 TTTTTCATCTAG
1 TTTTTCATCAAG
*
44549294 TTCTTTTATCAAG
1 TT-TTTCATCAAG
*
44549307 TTTTTAATTACCAAG
1 TTTTTCA-T--CAAG
*
44549322 TTTTTTATCAAG
1 TTTTTCATCAAG
* *
44549334 TTTTGCAGCAAG
1 TTTTTCATCAAG
* *
44549346 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
44549358 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
44549370 TCTTTTCATAAAA
1 T-TTTTCATCAAG
*
44549383 TTTTCCATCAAG
1 TTTTTCATCAAG
*
44549395 TTTTTAATCA
1 TTTTTCATCA
44549405 TTTCGTTTTT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
11 3 0.04
12 47 0.56
13 23 0.27
14 1 0.01
15 10 0.12
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:44549381 original size:25 final size:24
Alignment explanation
Indices: 44549282--44549400 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
44549272 TCTTCAATTA
* *
44549282 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
44549307 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
44549334 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
44549358 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
44549383 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
44549401 ATCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
23 7 0.09
24 22 0.29
25 27 0.36
26 1 0.01
27 16 0.21
28 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:44562606 original size:158 final size:158
Alignment explanation
Indices: 44562313--44562624 Score: 511
Period size: 158 Copynumber: 2.0 Consensus size: 158
44562303 AGCCTTGTCC
44562313 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
1 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
44562378 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
66 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
*
44562443 CCTTAACTGCATTATTTTTTGTAACGCT
131 CCTTAACTGCATTAATTTTTGTAACGCT
* **
44562471 ATGGTTGGATTTATCT-GTGTTCTCAAGTTTTGCACCTAGGCATGCCTATGCCT-TGCGCCTTAG
1 ATGGTTGGATTTAT-TGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATG-CTATGCGCCTTAG
* * *
44562534 CGCTAGGCAACAAAAGCACCTCGACCCTTTCAGGCGAGGCGCATTTGGTCAGGCACACTTCTGGT
64 CGCTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGT
* *
44562599 GCTCTTAACTGCGTTAATTTTTGTAA
129 GCCCTTAACTGCATTAATTTTTGTAA
44562625 GGTGATAGGC
Statistics
Matches: 143, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
158 140 0.98
159 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (158 bp):
ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
CCTTAACTGCATTAATTTTTGTAACGCT
Found at i:44569608 original size:16 final size:16
Alignment explanation
Indices: 44569587--44569625 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
44569577 AAGAAAATTG
44569587 TTATTTATTATTATTA
1 TTATTTATTATTATTA
*
44569603 TTATTTATTATTTTTA
1 TTATTTATTATTATTA
44569619 TT-TTTAT
1 TTATTTAT
44569626 ATTCATGCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTATTATTATTA
Found at i:44569880 original size:25 final size:23
Alignment explanation
Indices: 44569831--44569881 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
44569821 TATATTTTTA
* *
44569831 TATTTTTCTTATGTTCATAAGTG
1 TATTTTTCTTATATTCATAAATG
*
44569854 TATTTTTTTTATATTCATATTAATG
1 TATTTTTCTTATATTCATA--AATG
44569879 TAT
1 TAT
44569882 ATATTATGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
25 6 0.26
ACGTcount: A:0.25, C:0.06, G:0.08, T:0.61
Consensus pattern (23 bp):
TATTTTTCTTATATTCATAAATG
Found at i:44570081 original size:15 final size:15
Alignment explanation
Indices: 44570058--44570090 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44570048 GTGATATGTC
44570058 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
44570073 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
44570088 ATT
1 ATT
44570091 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:44570483 original size:98 final size:98
Alignment explanation
Indices: 44570364--44570560 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
44570354 TTAAAAATAA
* *
44570364 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
44570429 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
*
44570462 TAAATGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
44570527 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
44570560 T
1 T
44570561 TTTATTGTAC
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:44572094 original size:44 final size:44
Alignment explanation
Indices: 44571990--44572111 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
44571980 GAAGATGGAA
* * *
44571990 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTGAT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * * *
44572034 AATCCTATCCCCTTGAAGTTGCAGTGGAGCAGATCACAACT-TT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * *
44572077 GGATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATC
44572112 CCATCCTCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 10 0.15
44 55 0.85
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
Found at i:44572434 original size:217 final size:216
Alignment explanation
Indices: 44571992--44572664 Score: 940
Period size: 217 Copynumber: 3.1 Consensus size: 216
44571982 AGATGGAAAA
* * *
44571992 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTGATAATCCTATCCCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCCCC-TGAAGTTGCA
* * * * ** *
44572057 GTGGAGCAGATCACAACTTTGGATCTTATCTCTTTGAAGTTGCAGAGAGCAGATC-C--C-A-TC
65 GTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
* * *
44572117 ----CT-CCTGAAGTTGTAGTGGGGCAGACTGAAG-ATAGCAAGTCTTATCCTCCTAAAGTTGCA
130 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTA-AGCAAGTCTTATCCTCCTGAAGTTGCA
* *
44572176 GTGGGGCAGACTGAAGATGGTAAG
193 GTGGGGCAGACTGAAGATAGCAAG
* *
44572200 TCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATC-CCCTGAAGTTGCA
*
44572265 TTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
65 GTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
*
44572330 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
130 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
44572395 GGGGCAGACTGAAGATAGCAAG
195 GGGGCAGACTGAAGATAGCAAG
* *
44572417 TCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAATAATCCTATCACCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATC-CCCTGAAGTTGCA
44572482 GTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
65 GTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTC
*
44572547 TTATCTCCCTGAAGTTGCAGTGTAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
130 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGT
** **
44572612 AAGGCAGACTGAAGATTTC-AG
195 GGGGCAGACTGAAGATAGCAAG
** *
44572633 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGAT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
44572665 CGAAGATGGC
Statistics
Matches: 417, Mismatches: 35, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
208 103 0.25
209 4 0.01
211 1 0.00
212 1 0.00
213 2 0.00
216 17 0.04
217 267 0.64
218 22 0.05
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (216 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCCCCTGAAGTTGCAG
TGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCT
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTG
GGGCAGACTGAAGATAGCAAG
Found at i:44572474 original size:89 final size:84
Alignment explanation
Indices: 44572326--44572610 Score: 258
Period size: 89 Copynumber: 3.3 Consensus size: 84
44572316 GATCGCATCT
* * * *
44572326 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGA-TAAGCAA-TAA-TCTTATCC-CCTGAAGTTG
*
44572391 CAGTGGGGCAGACTGAAGATAGCA
62 CAGTGGAGCAGACT-AAGATAGCA
*
44572415 AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAATAATCCTATCACCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGA-T-AAG-CAATAATCTTATC-CCCTGAAGTTG
* * * *
44572480 CAGTGGAGCGGATTAA-A-ACCTC
62 CAGTGGAGCAGACTAAGATAGC-A
* * * *
44572502 AGATCTTATCTCTCTGAAGTTGCAGA-GAGCAGAT-CGCATCTAGTCTTATCTCCCTGAAGTTGC
1 AG-TCTTATCTCCCTGAAGTTGCAGAGGAGCAGATAAGCA-ATAATCTTATC-CCCTGAAGTTGC
*
44572565 AGTGTAGCAGACTAAG-TAAGCA
63 AGTGGAGCAGACTAAGAT-AGCA
44572587 AGTCTTATC-CTCCTGAAGTTGCAG
1 AGTCTTATCTC-CCTGAAGTTGCAG
44572611 TAAGGCAGAC
Statistics
Matches: 163, Mismatches: 23, Indels: 25
0.77 0.11 0.12
Matches are distributed among these distances:
83 3 0.02
84 52 0.32
85 2 0.01
86 5 0.03
87 10 0.06
88 24 0.15
89 59 0.36
90 6 0.04
91 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (84 bp):
AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATAAGCAATAATCTTATCCCCTGAAGTTGCAGT
GGAGCAGACTAAGATAGCA
Found at i:44572595 original size:84 final size:85
Alignment explanation
Indices: 44572114--44572610 Score: 259
Period size: 84 Copynumber: 5.7 Consensus size: 85
44572104 AGCAGATCCC
* * * *
44572114 ATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAGTCTTATC-CTCCTAAAGTTGCAGT
1 ATCC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCTCT-CTGAAGTTGCAGA
* * ****
44572178 GGGGCAGACTGAAGATGGTAAGTCTT
62 GGAGCAGA-TTAAGCCAAT-AGTCTT
* * * * * * **
44572204 ATCTCCTTGAAGTTGCAGTGGAGTAGA-TTA-AAGCCGATAATCCTATCTCCCTGAAGTTGCATT
1 ATC-CCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTATCTCTCTGAAGTTGCAGA
* *
44572267 GGAGCGGATTAAAACC--TCAGATCTT
62 GGAGCAGATT-AAGCCAAT-AG-TCTT
* * * * * * * *
44572292 ATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA
1 ATC-CCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCTCTGAAGTTGCAGAGGA
* * * *
44572354 GTAGACTAAG-TAAGCAAGTCTT
65 GCAGATTAAGCCAA--TAGTCTT
* *
44572376 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGAG
1 ATCC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCTCTCTGAAGTTGCAGAG
* *
44572441 GAGCAGATTAAAGCCAATAATCCT
63 GAGCAGATT-AAGCCAATAGTCTT
* * * *
44572465 ATCACCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTCAGATCTTATCTCTCTGAAGTTGCAGA-
1 ATC-CCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTATCTCTCTGAAGTTGCAGAG
* *
44572528 GAGCAGA-T-CG-CATCTAGTCTT
63 GAGCAGATTAAGCCA-ATAGTCTT
*
44572549 ATCTCCCTGAAGTTGCAGTGTAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCAG
1 ATC-CCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTCT-CTGAAGTTGCAG
44572611 TAAGGCAGAC
Statistics
Matches: 316, Mismatches: 64, Indels: 60
0.72 0.15 0.14
Matches are distributed among these distances:
83 7 0.02
84 100 0.32
85 10 0.03
86 10 0.03
87 23 0.07
88 48 0.15
89 89 0.28
90 26 0.08
91 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (85 bp):
ATCCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCTCTGAAGTTGCAGAGGAG
CAGATTAAGCCAATAGTCTT
Found at i:44572621 original size:44 final size:42
Alignment explanation
Indices: 44572117--44572611 Score: 312
Period size: 44 Copynumber: 11.4 Consensus size: 42
44572107 AGATCCCATC
* *
44572117 CTCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAGTCTTAT
1 CTCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTAT
* * * *
44572161 CCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGTAAGTCTTAT
1 -CTCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTAT
* * * *
44572206 CTCCTTGAAGTTGCAGTGGAGTAGA-TTA-AAGCCGATAATCCTAT
1 CTCC-TGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTAT
* * * * *
44572250 CTCCCTGAAGTTGCATTGGAGCGGATTAA-AACCTCAGATCTTAT
1 CT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTAT
* * * * *
44572294 CTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTAT
1 CTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTAT
*
44572334 CTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCAAGTCTTAT
1 CT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTAT
*
44572378 CCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAAGTCTTAT
1 -CTCCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTAT
* * * *
44572423 CTCCCTGAAGTTGCAGAGGAGCAGA-TTA-AAGCCAATAATCCTAT
1 CT-CCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTAT
* * * * *
44572467 CACCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTCAGATCTTAT
1 C-TCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTAT
* * * * *
44572511 CTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTAT
1 CTC-CTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTAT
*
44572551 CTCCCTGAAGTTGCAGTGTAGCAGACTAAGTAAGCAAGTCTTAT
1 CT-CCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTAT
44572595 CCTCCTGAAGTTGCAGT
1 -CTCCTGAAGTTGCAGT
44572612 AAGGCAGACT
Statistics
Matches: 355, Mismatches: 63, Indels: 65
0.73 0.13 0.13
Matches are distributed among these distances:
40 40 0.11
41 21 0.06
42 11 0.03
43 22 0.06
44 155 0.44
45 106 0.30
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (42 bp):
CTCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTAT
Found at i:44574317 original size:28 final size:27
Alignment explanation
Indices: 44574263--44574323 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
44574253 TATATATTTT
* *
44574263 TATATTTTTCTTATGTTCATAAGTGTA
1 TATATTTTTCTTATATTCATAAATGTA
*
44574290 T-TATTTTTTTTATATTCATATTAATGTA
1 TATATTTTTCTTATATTCATA--AATGTA
44574318 TATATT
1 TATATT
44574324 ATGTGCCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 17 0.61
27 1 0.04
28 6 0.21
29 4 0.14
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.61
Consensus pattern (27 bp):
TATATTTTTCTTATATTCATAAATGTA
Found at i:44574519 original size:15 final size:15
Alignment explanation
Indices: 44574496--44574528 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
44574486 GTGATATGTC
44574496 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
44574511 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
44574526 ATT
1 ATT
44574529 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:44574911 original size:98 final size:98
Alignment explanation
Indices: 44574802--44574998 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
44574792 TTAAAAATAA
* * *
44574802 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTATGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTATGATTTC
*
44574867 TTAAATCTTGGGTAAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
* *
44574900 TAAAGGAAATATTCTGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTATGATTTC
*
44574965 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
44574998 T
1 T
44574999 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTACCCTAACGTATTGGGTATGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:44575193 original size:19 final size:21
Alignment explanation
Indices: 44575161--44575222 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
44575151 AATTCTCGAC
*
44575161 CTTAATACACTAATTAATTAA
1 CTTAAGACACTAATTAATTAA
** *
44575182 C-T-AGGTACTAATTAATTAC
1 CTTAAGACACTAATTAATTAA
44575201 CTTAAGACACTAATTAATTAA
1 CTTAAGACACTAATTAATTAA
44575222 C
1 C
44575223 GCATTATGGT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
19 14 0.44
20 2 0.06
21 16 0.50
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (21 bp):
CTTAAGACACTAATTAATTAA
Found at i:44577517 original size:4 final size:4
Alignment explanation
Indices: 44577501--44577557 Score: 53
Period size: 4 Copynumber: 13.5 Consensus size: 4
44577491 ATTAACCATA
* *
44577501 TATT TAGT TATT TATT TATT TGATT TGATT TGATT T-TT TGTTT TATT
1 TATT TATT TATT TATT TATT T-ATT T-ATT T-ATT TATT T-ATT TATT
44577548 TATT TATT TA
1 TATT TATT TA
44577558 CATAATATTA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.06
4 27 0.57
5 17 0.36
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (4 bp):
TATT
Found at i:44577533 original size:10 final size:9
Alignment explanation
Indices: 44577508--44577556 Score: 59
Period size: 8 Copynumber: 5.7 Consensus size: 9
44577498 ATATATTTAG
44577508 TTATTT-AT
1 TTATTTGAT
44577516 TTATTTGAT
1 TTATTTGAT
44577525 TTGATTTGAT
1 TT-ATTTGAT
*
44577535 TT-TTTGTT
1 TTATTTGAT
44577543 TTATTT-AT
1 TTATTTGAT
44577551 TTATTT
1 TTATTT
44577557 ACATAATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
8 20 0.56
9 7 0.19
10 9 0.25
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.73
Consensus pattern (9 bp):
TTATTTGAT
Found at i:44579598 original size:21 final size:21
Alignment explanation
Indices: 44579572--44579708 Score: 94
Period size: 21 Copynumber: 6.5 Consensus size: 21
44579562 CCGAAGGCTG
*
44579572 AACAGAAGCTCATGAGAGTTA
1 AACAGAAGCTCATAAGAGTTA
* * *
44579593 AACAGAAACTCATAAGGGTTG
1 AACAGAAGCTCATAAGAGTTA
** * *
44579614 AATGGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCATAAGAGTTA
* * * *
44579635 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGTTA
* * * *
44579656 AACAGAAGCTCAAAAAAGCTG
1 AACAGAAGCTCATAAGAGTTA
* * * *
44579677 ATCAGAAACTTATATGAGTTA
1 AACAGAAGCTCATAAGAGTTA
44579698 AACAGAAGCTC
1 AACAGAAGCTC
44579709 GTGAGAGCTA
Statistics
Matches: 80, Mismatches: 36, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 80 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGTTA
Found at i:44579664 original size:42 final size:42
Alignment explanation
Indices: 44579572--44579726 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 42
44579562 CCGAAGGCTG
* * *
44579572 AACAGAAGCTCATGAGAGTTAAACAGAAACTCATAAGGGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
** * * *
44579614 AATGGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
* * * * * * *
44579656 AACAGAAGCTCAAAAAAGCTGATCAGAAACTTATATGAGTTA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
* * *
44579698 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
44579727 GTAAACACAA
Statistics
Matches: 86, Mismatches: 27, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
42 86 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.17
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGGGTTA
Found at i:44584805 original size:10 final size:10
Alignment explanation
Indices: 44584785--44584817 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
44584775 TTTTTAGGAT
44584785 TTTATTTTATC
1 TTTA-TTTATC
44584796 TTTATTTATC
1 TTTATTTATC
44584806 TTTATTTATC
1 TTTATTTATC
44584816 TT
1 TT
44584818 CAAATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTATC
Found at i:44585519 original size:13 final size:13
Alignment explanation
Indices: 44585501--44585530 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
44585491 ACTGGAGACT
44585501 GAATCTCCCATAA
1 GAATCTCCCATAA
44585514 GAATCTCCCATAA
1 GAATCTCCCATAA
44585527 GAAT
1 GAAT
44585531 TTCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (13 bp):
GAATCTCCCATAA
Found at i:44587462 original size:21 final size:21
Alignment explanation
Indices: 44587436--44587476 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44587426 CCCCTATCAG
44587436 TCAACTCTTTCAACTGTGTAT
1 TCAACTCTTTCAACTGTGTAT
* *
44587457 TCAACTCTTTTAACTTTGTA
1 TCAACTCTTTCAACTGTGTA
44587477 GGAGCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (21 bp):
TCAACTCTTTCAACTGTGTAT
Found at i:44590953 original size:25 final size:24
Alignment explanation
Indices: 44590922--44591030 Score: 110
Period size: 25 Copynumber: 4.4 Consensus size: 24
44590912 AGCATGTAAT
*
44590922 CGGGAAGCTCTTCCGAGCCATGTAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* **
44590947 CGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* *
44590972 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCTTACGAGCC-ATTAA
* * *
44590997 CGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTACGAGCCATTAA
44591021 CGGGAAGCTC
1 CGGGAAGCTC
44591031 AAGAGAGCCA
Statistics
Matches: 67, Mismatches: 16, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
24 12 0.18
25 54 0.81
26 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (24 bp):
CGGGAAGCTCTTACGAGCCATTAA
Found at i:44591001 original size:50 final size:49
Alignment explanation
Indices: 44590922--44591030 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 49
44590912 AGCATGTAAT
* * **
44590922 CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATA-AA
* * *
44590972 CGGGAAGCTCTTGCGAGCCAAT-TATCGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTCCGAGCC-ATGTAACGGGAAGCTCATACGAGCCATAAA
44591021 CGGGAAGCTC
1 CGGGAAGCTC
44591031 AAGAGAGCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 12 0.24
50 37 0.73
51 2 0.04
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATAAA
Found at i:44591061 original size:25 final size:24
Alignment explanation
Indices: 44591024--44591091 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
44591014 CCATAAACGG
44591024 GAAGCTCAA-GAGAGCCATTACTCGA
1 GAAGCT-AATGAGAGCCATTA-TCGA
*
44591049 GAAGCTAATGAGAGCCAAATATCGA
1 GAAGCTAATGAGAGCC-ATTATCGA
* **
44591074 GAAGATCGTGAGAGCCAT
1 GAAGCTAATGAGAGCCAT
44591092 ATAACATGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 30 0.83
26 3 0.08
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.16
Consensus pattern (24 bp):
GAAGCTAATGAGAGCCATTATCGA
Found at i:44603151 original size:31 final size:30
Alignment explanation
Indices: 44603117--44603176 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
44603107 TTAAAAGAAA
44603117 AAAAAAACTT-AATAACTCAGTGACTTAAAT
1 AAAAAAACTTAAATAA-TCAGTGACTTAAAT
***
44603147 AAAAACTTTTAAATAATCAGTGACTTAAAT
1 AAAAAAACTTAAATAATCAGTGACTTAAAT
44603177 GAGTATTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.30
Consensus pattern (30 bp):
AAAAAAACTTAAATAATCAGTGACTTAAAT
Found at i:44605465 original size:11 final size:11
Alignment explanation
Indices: 44605449--44605473 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44605439 TTCAATTCAA
44605449 ATAATCAATAT
1 ATAATCAATAT
44605460 ATAATCAATAT
1 ATAATCAATAT
44605471 ATA
1 ATA
44605474 TACTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:44606235 original size:16 final size:17
Alignment explanation
Indices: 44606214--44606257 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
44606204 CTTTCTCTCA
44606214 CTGTTTTGTTTCTA-TT
1 CTGTTTTGTTTCTATTT
*
44606230 CTG-TTTCTTTCTATTT
1 CTGTTTTGTTTCTATTT
44606246 CT-TTTTGTTTCT
1 CTGTTTTGTTTCT
44606258 TTTATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (17 bp):
CTGTTTTGTTTCTATTT
Found at i:44613955 original size:8 final size:8
Alignment explanation
Indices: 44613944--44613992 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
44613934 CATATTTTTC
44613944 ATAAATTT
1 ATAAATTT
44613952 ATAAA-TT
1 ATAAATTT
44613959 ATAAATTAT
1 ATAAATT-T
**
44613968 ATATTTTTT
1 ATA-AATTT
44613977 ATAAATTT
1 ATAAATTT
44613985 ATAAATTT
1 ATAAATTT
44613993 TCAAAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.21
8 17 0.50
9 8 0.24
10 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATAAATTT
Found at i:44613980 original size:18 final size:19
Alignment explanation
Indices: 44613921--44613993 Score: 66
Period size: 19 Copynumber: 4.1 Consensus size: 19
44613911 TTTTTAGTTC
* * *
44613921 TTTTATATATTTACATATT
1 TTTTATAAATTTATAAATT
*
44613940 TTTCATAAATTTATAAA--
1 TTTTATAAATTTATAAATT
*
44613957 --TTATAAA-TTATATATT
1 TTTTATAAATTTATAAATT
44613973 TTTTATAAATTTATAAATT
1 TTTTATAAATTTATAAATT
44613992 TT
1 TT
44613994 CAAAATAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 6 0.14
15 6 0.14
18 7 0.17
19 23 0.55
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTATAAATTTATAAATT
Found at i:44615193 original size:48 final size:48
Alignment explanation
Indices: 44615131--44615457 Score: 319
Period size: 48 Copynumber: 7.0 Consensus size: 48
44615121 AAAAGTTGCT
* * * *
44615131 AATATGTTGTGGATGAACCACTAGTCGTGTAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
44615179 AGTATGTTATGGATGAACCACTTGTCTTGCATATAAATTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
44615227 AATACGTTCTGGATGAACCACTTGTCATGTAGATAAAC-GCTG--T-T
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
44615271 AATACATTATGGATAAACCACTTGTCATGCAGATAAA-AGCTG-CT--
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* *
44615315 AATAAGTTATGGATGAACCACTGGTTGTGCAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * **
44615363 AATACGTTGTGGATGAACCACTGGTCGTGTAGTTAAACTATCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* *
44615411 AATACGTTGTGGATGAACCACTGGTCGTGCAGACAAACTGCCGACTA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTA
44615458 CTCCCTCCCT
Statistics
Matches: 233, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
44 68 0.29
45 5 0.02
46 2 0.01
47 3 0.01
48 155 0.67
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (48 bp):
AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
Found at i:44615606 original size:34 final size:34
Alignment explanation
Indices: 44615500--44615846 Score: 187
Period size: 34 Copynumber: 10.2 Consensus size: 34
44615490 ATGCAACATG
* * *
44615500 ACATGTTTATAACAGATCAATA-TGATAGCAAT-A
1 ACATGCTTATAATAGATCAATACAG-TAGCAATAA
* * *
44615533 ACATGCTTATACTA-AGTCGATACAGTATCAACT-A
1 ACATGCTTATAATAGA-TCAATACAGTAGCAA-TAA
* **
44615567 TCATGCTTATAATAGATCAATATGGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* ** *
44615601 ACATGCTTGTGACA-AG-TTGATACAGTAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATACAGTAGCAATAA
* * * * *
44615635 GCATGCCTATAATTGATCAATACGGTAGCAATTA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* * *
44615669 TCATGCTTATAATAAATCAATGCAGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* *
44615703 ACATGCTTGTGACA-AG-TCAATATC-GTAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATA-CAGTAGCAATAA
* * * *
44615737 ACATGC-TATTAACATATCAATACAGTGGTAATAA
1 ACATGCTTA-TAATAGATCAATACAGTAGCAATAA
* * * *
44615771 ACATGCTTGTGACA-AG-TCGATACAATAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATACAGTAGCAATAA
* * * *
44615805 ACATGCTTATAATAGACCATTACAGTATCATTAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
*
44615839 ACTTGCTT
1 ACATGCTT
44615847 TTATCATGTA
Statistics
Matches: 234, Mismatches: 59, Indels: 41
0.70 0.18 0.12
Matches are distributed among these distances:
32 4 0.02
33 31 0.13
34 186 0.79
35 10 0.04
36 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (34 bp):
ACATGCTTATAATAGATCAATACAGTAGCAATAA
Found at i:44615700 original size:68 final size:68
Alignment explanation
Indices: 44615507--44615743 Score: 228
Period size: 68 Copynumber: 3.5 Consensus size: 68
44615497 ATGACATGTT
* * * * * *
44615507 TATAACAGATCAATATGATAGCAA-TAACATGCTTATACTAAGTCGATACAGTATCAACTATCAT
1 TATAATAGATCAATATGGTAGCAATTAACATGCTTATAATAAGTCGATACAGTAGCAATTAGCAT
*
44615571 GCT
66 GCC
* * * * *
44615574 TATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAATTAGCAT
1 TATAATAGATCAATATGGTAGCAATTAACATGCTTATAATAAGTCGATACAGTAGCAATTAGCAT
44615639 GCC
66 GCC
* * * * * * * *
44615642 TATAATTGATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACAT
1 TATAATAGATCAATATGGTAGCAATTAACATGCTTATAATAAGTCGATACAGTAGCAATTAGCAT
*
44615707 GCT
66 GCC
* *
44615710 TGTGACA-AG-TCAATATCGTAGCAATTAACATGCT
1 TAT-A-ATAGATCAATATGGTAGCAATTAACATGCT
44615744 ATTAACATAT
Statistics
Matches: 136, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
67 22 0.16
68 111 0.82
69 2 0.01
70 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (68 bp):
TATAATAGATCAATATGGTAGCAATTAACATGCTTATAATAAGTCGATACAGTAGCAATTAGCAT
GCC
Found at i:44615756 original size:68 final size:68
Alignment explanation
Indices: 44615651--44615816 Score: 219
Period size: 68 Copynumber: 2.4 Consensus size: 68
44615641 CTATAATTGA
* * * *
44615651 TCAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGAC
1 TCAATACAGTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGAC
44615716 AAG
66 AAG
* * *
44615719 TCAATATC-GTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTG
1 TCAATA-CAGTAGCAATTAACATGCTTA-TAACAAATCAATACAGTAGCAATAAACATGCTTGTG
44615782 ACAAG
64 ACAAG
* *
44615787 TCGATACAATAGCAATTAACATGCTTATAA
1 TCAATACAGTAGCAATTAACATGCTTATAA
44615817 TAGACCATTA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
67 3 0.03
68 80 0.93
69 3 0.03
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (68 bp):
TCAATACAGTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGAC
AAG
Found at i:44615756 original size:102 final size:102
Alignment explanation
Indices: 44615565--44615759 Score: 270
Period size: 102 Copynumber: 1.9 Consensus size: 102
44615555 CAGTATCAAC
* ** **
44615565 TATCATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGC
1 TATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAGTAGC
* *
44615630 AATTAGCATGCCTATAATTGATCAATACGGTAGCAAT
66 AATTAACATGCCTATAAATGATCAATACGGTAGCAAT
*
44615667 TATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-GTAG
1 TATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA-CAGTAG
44615731 CAATTAACATG-CTATTAACAT-ATCAATAC
65 CAATTAACATGCCTA-TAA-ATGATCAATAC
44615760 AGTGGTAATA
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
101 3 0.04
102 77 0.94
103 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (102 bp):
TATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAGTAGC
AATTAACATGCCTATAAATGATCAATACGGTAGCAAT
Found at i:44615776 original size:102 final size:102
Alignment explanation
Indices: 44615568--44615812 Score: 262
Period size: 102 Copynumber: 2.4 Consensus size: 102
44615558 TATCAACTAT
* ** **
44615568 CATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAAT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAGTAGCAAT
* * * * *
44615633 TAGCATGCCTATAATTGATCAATACGGTAGCAATTAT
66 TAACATGCCTATAAATGATCAATACAGTAGCAATAAA
*
44615670 CATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-GTAGCAA
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA-CAGTAGCAA
* *
44615734 TTAACATG-CTATTAACAT-ATCAATACAGTGGTAATAAA
65 TTAACATGCCTA-TAA-ATGATCAATACAGTAGCAATAAA
* * * * * * *
44615772 CATGCTTGTGACAAGTCGATACAATAGCAATTAACATGCTT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
44615813 ATAATAGACC
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
101 3 0.03
102 114 0.96
103 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (102 bp):
CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAGTAGCAAT
TAACATGCCTATAAATGATCAATACAGTAGCAATAAA
Found at i:44615829 original size:68 final size:68
Alignment explanation
Indices: 44615660--44615846 Score: 216
Period size: 68 Copynumber: 2.8 Consensus size: 68
44615650 ATCAATACGG
* *
44615660 TAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATA
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
*
44615725 TCG
66 TCA
* * * * *
44615728 TAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGAT
1 TAGCAATTAACATGCTTA-TAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
44615792 A-CAA
65 ATC-A
* * * * * *
44615796 TAGCAATTAACATGCTTATAATAGACCATTACAGTATCATTAAACTTGCTT
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
44615847 TTATCATGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
67 3 0.03
68 94 0.95
69 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (68 bp):
TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
TCA
Found at i:44616295 original size:13 final size:13
Alignment explanation
Indices: 44616277--44616301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44616267 GGCACATGGT
44616277 CGTGTGGTCCACC
1 CGTGTGGTCCACC
44616290 CGTGTGGTCCAC
1 CGTGTGGTCCAC
44616302 ACGCCCATGT
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:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
CGTGTGGTCCACC
Found at i:44617945 original size:26 final size:26
Alignment explanation
Indices: 44617916--44617968 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
44617906 TATTATAGGC
*
44617916 TTTTT-ATATATTT-TAATTGTATATT
1 TTTTTCATAAATTTATAATT-TATATT
*
44617941 TTTTTCATAAATTTATAGTTTATATT
1 TTTTTCATAAATTTATAATTTATATT
44617967 TT
1 TT
44617969 ATATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTTCATAAATTTATAATTTATATT
Found at i:44625887 original size:25 final size:25
Alignment explanation
Indices: 44625859--44625915 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
44625849 AAGTAAAGGG
**
44625859 AAGCTCATACGAGGT-GTATATCGGA
1 AAGCTCATACGA-GTCAAATATCGGA
44625884 AAGCTCATACGAGTCAAATATCGGA
1 AAGCTCATACGAGTCAAATATCGGA
44625909 AAGCTCA
1 AAGCTCA
44625916 AGAGAGCCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGCTCATACGAGTCAAATATCGGA
Found at i:44625926 original size:25 final size:25
Alignment explanation
Indices: 44625876--44625947 Score: 76
Period size: 25 Copynumber: 2.9 Consensus size: 25
44625866 TACGAGGTGT
* *
44625876 ATATCGGAAAGCTCATA-CGAGTCAA
1 ATATCGGAAAGCTCA-AGAGAGCCAA
44625901 ATATCGGAAAGCTCAAGAGAGCCAA
1 ATATCGGAAAGCTCAAGAGAGCCAA
* *
44625926 ATAACAGG-AAGCTCATGAGAGC
1 ATATC-GGAAAGCTCAAGAGAGC
44625948 TATGGTGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.02
25 38 0.93
26 2 0.05
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (25 bp):
ATATCGGAAAGCTCAAGAGAGCCAA
Found at i:44641903 original size:20 final size:22
Alignment explanation
Indices: 44641878--44641934 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
44641868 AATTTTTTGT
44641878 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
44641898 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
44641918 TAAA-TTATATATTCAAA
1 TAAATTTATATATTCAAA
44641935 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:44643295 original size:46 final size:41
Alignment explanation
Indices: 44643212--44643301 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 41
44643202 GACAACAACA
*
44643212 ATTAGAGTTTTAGTTTTTTTTTATTATTATATCAGGTTTTT
1 ATTAGAGTTTTAGTTTTTTTTTATTATTACATCAGGTTTTT
* *
44643253 ATTAGAGTTTTAGTTTTACTTGTTTTCTCTATTACATTAGGTTTTT
1 ATTAGAGTTTTAG-TTT--TT-TTTTAT-TATTACATCAGGTTTTT
44643299 ATT
1 ATT
44643302 TCCTTTATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
41 13 0.32
42 3 0.07
44 2 0.05
45 5 0.12
46 18 0.44
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (41 bp):
ATTAGAGTTTTAGTTTTTTTTTATTATTACATCAGGTTTTT
Found at i:44644229 original size:13 final size:12
Alignment explanation
Indices: 44644207--44644236 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
44644197 ATGTTAAGTT
44644207 ATTTGTGTGAAA
1 ATTTGTGTGAAA
44644219 ATTTCGTGTGAAA
1 ATTT-GTGTGAAA
44644232 ATTTG
1 ATTTG
44644237 ATCGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (12 bp):
ATTTGTGTGAAA
Found at i:44645552 original size:37 final size:37
Alignment explanation
Indices: 44645511--44645630 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 37
44645501 GAATATAAAT
*
44645511 ATGTATGCATATAATCAAGTTATTGAGTTGGGAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
* * * * *
44645548 ATGTATGAATTTTAT-AA-TTATAGGGAGATT-CGAACATA
1 ATGTATGCATTTAATCAAGTTAT--TGAG-TTGGGAA-TTA
*
44645586 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
*
44645624 AAGTATG
1 ATGTATG
44645631 TTTCTTATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
35 4 0.06
36 2 0.03
37 24 0.39
38 8 0.13
39 18 0.29
40 2 0.03
41 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
Found at i:44645656 original size:76 final size:77
Alignment explanation
Indices: 44645495--44645657 Score: 206
Period size: 76 Copynumber: 2.1 Consensus size: 77
44645485 TAAAGGTATG
* * *
44645495 AGGTTCGAATATAAATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATTT
1 AGGTTCGAACAT-AATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTT
**
44645560 TATAATTATAGGG
65 TATAATTATAGAA
* * *
44645573 AGATTCGAACAT-ATATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTAAAGTATG-TTTCT
1 AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT-T
44645636 TAT-ATTCATAGAA
65 TATAATT-ATAGAA
44645649 AGGTTCGAA
1 AGGTTCGAA
44645658 TATAGAGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.07
76 59 0.80
78 10 0.14
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (77 bp):
AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTTT
ATAATTATAGAA
Found at i:44645897 original size:41 final size:41
Alignment explanation
Indices: 44645852--44645951 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
44645842 GGCTTTGTGC
*
44645852 CTAGCAGGCTTAACGCTGGTGAAAAATTTCGGACTATACGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
44645893 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATATGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
44645934 CTAGCAGGCTTAATGCCG
1 CTAGCAGGCTTAACGCCG
44645952 ATGTTCTGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
Found at i:44650645 original size:50 final size:50
Alignment explanation
Indices: 44650569--44650809 Score: 288
Period size: 50 Copynumber: 4.8 Consensus size: 50
44650559 ATTTGGGTAA
* *
44650569 AGAGGTCCCATGTAAGACCATGTCTGGGACACGGCATTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
44650619 AGAGGTCTCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
44650669 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
44650719 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** *
44650768 AAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44650810 TGTTATTATC
Statistics
Matches: 163, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.24
50 123 0.75
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:44651323 original size:23 final size:23
Alignment explanation
Indices: 44651289--44651747 Score: 313
Period size: 23 Copynumber: 19.6 Consensus size: 23
44651279 TTCACACCAA
44651289 AAATTGGACAGCATATATACAAC
1 AAATTGGACAGCATATATACAAC
* * *
44651312 AATTTGGGCAGCATATATACATC
1 AAATTGGACAGCATATATACAAC
* *
44651335 AAATT-GAGCAGCAT-TTTAGCATAA
1 AAATTGGA-CAGCATATATA-CA-AC
44651359 AAATTGGACAGCATATATACAAC
1 AAATTGGACAGCATATATACAAC
* * * *
44651382 AATTTGGGCAGCCTATATATATACC
1 AAATTGGACAG-C-ATATATACAAC
* * * *
44651407 AAATT-GAGCAGTATTTTTACATC
1 AAATTGGA-CAGCATATATACAAC
*
44651430 AAAATTGGATAGCATATATACAAC
1 -AAATTGGACAGCATATATACAAC
* * *
44651454 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
** * *
44651477 AAATTGGGTAGCATTTA-AGCATAA
1 AAATTGGACAGCATATATA-CA-AC
*
44651501 AAATTGGACAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
* *
44651524 AAATTGGATAGCAT-TTTAGCATTA-
1 AAATTGGACAGCATATATA-CA--AC
* * *
44651548 AAATTTGACAGCATATATGCACC
1 AAATTGGACAGCATATATACAAC
* * *
44651571 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
* *
44651594 AAATTGGACAGCAT-TTTAGCATAA
1 AAATTGGACAGCATATATA-CA-AC
* * *
44651618 AAATTTGACAGCATATGTGCAAC
1 AAATTGGACAGCATATATACAAC
* * * *
44651641 AATTTGGGCAGCATATATATACC
1 AAATTGGACAGCATATATACAAC
* * *
44651664 AAATT-GAGCAGCATTTTTACATC
1 AAATTGGA-CAGCATATATACAAC
44651687 AAAATTGGACAGCATATATACAAC
1 -AAATTGGACAGCATATATACAAC
* * *
44651711 AATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCATATATACAAC
44651734 AAATTGGACAGCAT
1 AAATTGGACAGCAT
44651748 TTAAGCATAA
Statistics
Matches: 328, Mismatches: 84, Indels: 48
0.71 0.18 0.10
Matches are distributed among these distances:
22 10 0.03
23 194 0.59
24 93 0.28
25 31 0.09
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
AAATTGGACAGCATATATACAAC
Found at i:44651378 original size:47 final size:47
Alignment explanation
Indices: 44651289--44651747 Score: 290
Period size: 47 Copynumber: 9.8 Consensus size: 47
44651279 TTCACACCAA
* * * * * *
44651289 AAATTGGACAGCATATATACA-ACAATTTGGGCAGCATATATACATC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
*
44651335 AAATTGAGCAGCAT-TTTAGCATAAAAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
* * * * * * * * *
44651382 AATTTGGGCAGCCTATATATATACCAAATT-GAGCAGTATTTTTACATC
1 AAATTGGGCAGCATATTTACATA-AAAATTGGA-CAGCATATATACAAC
** * * * * *
44651430 AAAATTGGATAGCATATATACA-ACAATTTGGGCAGCATAAATACAAC
1 -AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* * *
44651477 AAATTGGGTAGCAT-TTAAGCATAAAAATTGGACAGCATAAATACAAC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
** * * * *
44651524 AAATTGGATAGCAT-TTTAGCATTAAAATTTGACAGCATATATGCACC
1 AAATTGGGCAGCATATTTA-CATAAAAATTGGACAGCATATATACAAC
* ** * * *
44651571 AATTTGGGCAGCATAAATACA-ACAAATTGGACAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATA-CA-AC
* * * * * * * * *
44651618 AAATTTGACAGCATATGTGCA-ACAATTTGGGCAGCATATATATACC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* * *
44651664 AAATTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
* ** *
44651711 AATTTGGGCAGCATAAATACA-ACAAATTGGACAGCAT
1 AAATTGGGCAGCATATTTACATAAAAATTGGACAGCAT
44651748 TTAAGCATAA
Statistics
Matches: 314, Mismatches: 85, Indels: 28
0.74 0.20 0.07
Matches are distributed among these distances:
45 7 0.02
46 73 0.23
47 192 0.61
48 26 0.08
49 16 0.05
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (47 bp):
AAATTGGGCAGCATATTTACATAAAAATTGGACAGCATATATACAAC
Found at i:44651447 original size:142 final size:143
Alignment explanation
Indices: 44651257--44651530 Score: 417
Period size: 142 Copynumber: 1.9 Consensus size: 143
44651247 GACAGCATTC
44651257 ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
1 ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
* * * * *
44651322 GCATATATACATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTT
66 GCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATT
44651387 GGGCAGCCTATAT
131 GGGCAGCCTATAT
* * * * *
44651400 ATATACCAAA-TTGAGCAGTATTTTTACATC-AAAATTGGATAGCATATATACAACAATTTGGGC
1 ATATACCAAACTAGA-CAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGC
* *
44651463 AGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAAT
65 AGCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAAT
44651528 TGG
130 TGG
44651531 ATAGCATTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
142 96 0.81
143 22 0.19
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.26
Consensus pattern (143 bp):
ATATACCAAACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCA
GCATAAATACAACAAATTGAGCAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATT
GGGCAGCCTATAT
Found at i:44651537 original size:70 final size:70
Alignment explanation
Indices: 44651287--44651530 Score: 346
Period size: 70 Copynumber: 3.5 Consensus size: 70
44651277 TTTTCACACC
*
44651287 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACATCAAATTGAGCAGCATTTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
44651352 AGCAT
66 AGCAT
* * *
44651357 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATATACCAAATTGAGCAGTATT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAG-C-ATATATACAACAAATTGAGCAGCA-T
44651422 TTTA-CAT
63 TTTAGCAT
* * * * * *
44651429 CAAAATTGGATAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATTTA
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
44651494 AGCAT
66 AGCAT
* *
44651499 AAAAATTGGACAGCATAAATACAACAAATTGG
1 AAAAATTGGACAGCATATATACAACAATTTGG
44651531 ATAGCATTTT
Statistics
Matches: 154, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
69 4 0.03
70 85 0.55
71 2 0.01
72 58 0.38
73 5 0.03
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (70 bp):
AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAATTGAGCAGCATTTT
AGCAT
Found at i:44651583 original size:70 final size:70
Alignment explanation
Indices: 44651504--44651762 Score: 378
Period size: 70 Copynumber: 3.7 Consensus size: 70
44651494 AGCATAAAAA
* * *
44651504 TTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCATTAAAATTTGACAGCATATATGCA
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
*
44651569 CCAAT
66 ACAAT
*
44651574 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCA
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
44651639 ACAAT
66 ACAAT
* * * * * *
44651644 TTGGGCAGCATATATATACCAAATT-GAGCAGCATTTTTA-CATCAAAATTGGACAGCATATATA
1 TTGGGCAGCATAAATACAACAAATTGGA-CAGCA-TTTTAGCATAAAAATTTGACAGCATATATG
44651707 CAACAAT
64 CAACAAT
*
44651714 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTAAGCATAAAAATT
1 TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATT
44651763 ACATGAACAT
Statistics
Matches: 168, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
69 6 0.04
70 155 0.92
71 7 0.04
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (70 bp):
TTGGGCAGCATAAATACAACAAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATATGCA
ACAAT
Found at i:44651642 original size:117 final size:116
Alignment explanation
Indices: 44651421--44651632 Score: 334
Period size: 117 Copynumber: 1.8 Consensus size: 116
44651411 TGAGCAGTAT
* **
44651421 TTTTACATCAAAATTGGATAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGT
1 TTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGAC
44651486 AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
66 AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
* * * *
44651537 TTTTAGCATTAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGA
1 TTTTA-CATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGA
* *
44651602 CAGCATTTTAGCATAAAAATTTGACAGCATA
65 CAGCATTTAAGCATAAAAATTGGACAGCATA
44651633 TGTGCAACAA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
116 5 0.06
117 81 0.94
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (116 bp):
TTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGAC
AGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCA
Found at i:44651700 original size:117 final size:117
Alignment explanation
Indices: 44651430--44651724 Score: 303
Period size: 117 Copynumber: 2.5 Consensus size: 117
44651420 TTTTTACATC
* * * *
44651430 AAAATTGGATAGCATATATACA-ACAATTTGGGCAGCATAAATACAACAAATTGGGTAGCATTTA
1 AAAATTTGACAGCATATATACACA-AAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTTA
* *
44651494 AGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCATT
65 AGCATAAAAATTGGACAGCATAAATACAACAAATTGGACAGCATTATAGCATT
* * * * *
44651547 AAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTTA
1 AAAATTTGACAGCATATATACACAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTTAA
* ** * * * *
44651612 GCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCA-TATA-TA-T
66 GCATAAAAATTGGACAGCATAAATACAACAAATTGGACAGCATTATAGCATT
* * * * *
44651661 ACCAAA-TTGAGCAGCATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCAT
1 A--AAATTTGA-CAGCATATATACA-CAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCAT
44651725 AAATACAACA
Statistics
Matches: 148, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
114 2 0.01
115 5 0.03
116 16 0.11
117 125 0.84
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (117 bp):
AAAATTTGACAGCATATATACACAAAATTGGGCAGCATAAATACAACAAATTGGGCAGCATTTAA
GCATAAAAATTGGACAGCATAAATACAACAAATTGGACAGCATTATAGCATT
Found at i:44652474 original size:28 final size:28
Alignment explanation
Indices: 44652442--44652562 Score: 144
Period size: 28 Copynumber: 4.5 Consensus size: 28
44652432 TTTAATAAGT
* * *
44652442 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
44652470 TCGCACACTTAGTG---T-C-ATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
*
44652493 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTCTACAATTAAAC
* * *
44652521 TCACACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTCTACAATTAAAC
44652549 TCGCACACTTAGTG
1 TCGCACACTTAGTG
44652563 TCGAAAGTCA
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
23 20 0.24
26 1 0.01
27 1 0.01
28 60 0.73
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCTACAATTAAAC
Found at i:44652500 original size:51 final size:54
Alignment explanation
Indices: 44652442--44652562 Score: 149
Period size: 51 Copynumber: 2.3 Consensus size: 54
44652432 TTTAATAAGT
* *
44652442 TCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTG-T-C-ATTAAAC
1 TCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTGTTACAATTAAAC
** * *
44652493 TCGCACACTTAGTGCTTTACAATTAAACTCACACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTG--TTACAATTAAAC
44652549 TCGCACACTTAGTG
1 TCGCACACTTAGTG
44652563 TCGAAAGTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
51 37 0.63
54 1 0.02
55 1 0.02
56 20 0.34
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.31
Consensus pattern (54 bp):
TCGCACACTTAGTGCTCAACAATCAAACTCACACACTTAGTGTTACAATTAAAC
Found at i:44661596 original size:59 final size:59
Alignment explanation
Indices: 44661527--44661705 Score: 268
Period size: 68 Copynumber: 2.9 Consensus size: 59
44661517 TCAAGTTTAT
44661527 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
44661586 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT---AC-----A-ACAATTAATACAATTAATAATTTGAT
44661651 AAA
57 AAA
*
44661654 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
44661706 AATAATTTGA
Statistics
Matches: 110, Mismatches: 1, Indels: 18
0.85 0.01 0.14
Matches are distributed among these distances:
59 48 0.44
60 1 0.01
62 2 0.02
65 2 0.02
67 1 0.01
68 56 0.51
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.40
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Done.