Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 128 of 295
Found at i:43905472 original size:40 final size:40
Alignment explanation
Indices: 43905414--43905507 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
43905404 CTCAGTCTCC
* *
43905414 CACACTAAGTGCCATATATAGTCAAAGCTAT-TCTGATTCG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTC-GATACG
** *
43905454 CACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACG
1 CACACTAAGTGCCATATATAGCCAAAGCTATCTCGATACG
*
43905494 CACACTAAGCGCCA
1 CACACTAAGTGCCA
43905508 AACATAATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 43 0.96
41 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCAAAGCTATCTCGATACG
Found at i:43909753 original size:32 final size:32
Alignment explanation
Indices: 43909712--43909775 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
43909702 ATGTGGCTTG
*
43909712 AGCTTTAGGGTTGGTGTATTGCTTTCTGCATT
1 AGCTTTAGGGTTGGTGTATTGCTTTCCGCATT
43909744 AGCTTTAGGGTTGGTGTATTGCTTTCCGCATT
1 AGCTTTAGGGTTGGTGTATTGCTTTCCGCATT
43909776 CTCTATTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.12, C:0.14, G:0.28, T:0.45
Consensus pattern (32 bp):
AGCTTTAGGGTTGGTGTATTGCTTTCCGCATT
Found at i:43927003 original size:23 final size:22
Alignment explanation
Indices: 43926932--43927016 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 22
43926922 ACCTAATCAA
*
43926932 AATACGACACATAA-GTGCCTG
1 AATACGACACACAAGGTGCCTG
*
43926953 AA-ACGACACACGAGGTGCCTG
1 AATACGACACACAAGGTGCCTG
* *
43926974 -CTGCGACACACAAGGTGCCTG
1 AATACGACACACAAGGTGCCTG
* *
43926995 AAATACGACACATAAAGTGCCT
1 -AATACGACACACAAGGTGCCT
43927017 AATCAATAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
20 9 0.18
21 26 0.51
23 16 0.31
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.15
Consensus pattern (22 bp):
AATACGACACACAAGGTGCCTG
Found at i:43927015 original size:44 final size:41
Alignment explanation
Indices: 43926936--43927016 Score: 99
Period size: 44 Copynumber: 1.9 Consensus size: 41
43926926 AATCAAAATA
* * *
43926936 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGCTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
*
43926977 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCT
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCT
43927017 AATCAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.27
42 7 0.21
43 2 0.06
44 15 0.45
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.15
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGCTG
Found at i:43927242 original size:25 final size:23
Alignment explanation
Indices: 43927209--43927271 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
43927199 AAATGTCCAA
43927209 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
43927232 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGTATAATCCT
43927255 CCAAAACACACCAGTAT
1 CCAAAACACACCAGTAT
43927272 CATATAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.44, C:0.35, G:0.05, T:0.16
Consensus pattern (23 bp):
CCAAAACACACCAGTATAATCCT
Found at i:43927301 original size:23 final size:23
Alignment explanation
Indices: 43927209--43927302 Score: 116
Period size: 23 Copynumber: 3.9 Consensus size: 23
43927199 AAATGTCCAA
*
43927209 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
*
43927232 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
43927255 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
43927283 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
43927303 ATAATCCATC
Statistics
Matches: 64, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
23 42 0.66
24 1 0.02
28 21 0.33
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:43928006 original size:16 final size:16
Alignment explanation
Indices: 43927985--43928018 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
43927975 GAGTTACCGA
*
43927985 TTCATTTATCAGATAT
1 TTCATTAATCAGATAT
*
43928001 TTCATTAATCCGATAT
1 TTCATTAATCAGATAT
43928017 TT
1 TT
43928019 TTCTTTACCA
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:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCATTAATCAGATAT
Found at i:43930971 original size:76 final size:76
Alignment explanation
Indices: 43930845--43930996 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
43930835 GCTAAGAACG
43930845 GTCTTCCAAGGATAATTGATACTTCTTTGTCTGCTTCAAAATGTAGAATCACAAAGTTAGAAGGA
1 GTCTTCCAAGGATAATTGATACTTCTTTGTCTGCTTCAAAATGTAGAATCACAAAGTTAGAAGGA
43930910 AAGATGAATTT
66 AAGATGAATTT
* *
43930921 GTCTTCCAAGGATAATTGGTACTTCTTTGTCTGCTTCAAAATGTAGAATCACAAAGTTAGTAGGA
1 GTCTTCCAAGGATAATTGATACTTCTTTGTCTGCTTCAAAATGTAGAATCACAAAGTTAGAAGGA
43930986 AAGATGAATTT
66 AAGATGAATTT
43930997 ATCTACACGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (76 bp):
GTCTTCCAAGGATAATTGATACTTCTTTGTCTGCTTCAAAATGTAGAATCACAAAGTTAGAAGGA
AAGATGAATTT
Found at i:43939011 original size:62 final size:58
Alignment explanation
Indices: 43938927--43939059 Score: 178
Period size: 62 Copynumber: 2.2 Consensus size: 58
43938917 TCCAAAAATA
* *
43938927 ATATTATTTTAAT-AGTTTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAACATT
1 ATATTATTTTAATAAGTTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAACATT
* *
43938987 CTATTATTTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTATTTTAATAAG-TTTAATATTAAATTTAATCTAATATTTATCTTGATAAACATT
*
43939046 ATATTAGTTTAATA
1 ATATTATTTTAATA
43939060 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
59 21 0.32
60 13 0.20
61 3 0.05
62 28 0.43
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.51
Consensus pattern (58 bp):
ATATTATTTTAATAAGTTTAATATTAAATTTAATCTAATATTTATCTTGATAAACATT
Found at i:43984614 original size:53 final size:53
Alignment explanation
Indices: 43984438--43984644 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
43984428 ATTAAGGTTT
* * * * * *
43984438 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAACTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA-GTTCATAAGGC
* * * * ** * * * * *
43984492 AAGGAAATCATGTAAGACCATGTCAAGAAATATCATTGATAAACTACAATAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
43984547 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
43984600 AAGGATACCATGTAAGACCATGTCAAGATATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
43984645 TAATTAGGAA
Statistics
Matches: 116, Mismatches: 35, Indels: 5
0.74 0.22 0.03
Matches are distributed among these distances:
53 45 0.39
54 35 0.30
55 36 0.31
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:43987560 original size:42 final size:43
Alignment explanation
Indices: 43987446--43987561 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 43
43987436 AAAAGCTCGT
* *
43987446 ACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATA
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATA
* * * * *
43987489 TCAATGTCACTATCCCAGACAGGGTCTTACATG-AAGTCAAA-A
1 ACAATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCAAATA
* *
43987531 ACGATGCCAATGTCCCAAACATGGTCTTACA
1 ACAATGCCAATGTCCCAGACATGGTCTTACA
43987562 CATAAATCTC
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 27 0.47
43 31 0.53
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (43 bp):
ACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAATA
Found at i:43992040 original size:47 final size:47
Alignment explanation
Indices: 43991954--43992066 Score: 142
Period size: 47 Copynumber: 2.4 Consensus size: 47
43991944 CCACTTCAAC
* *
43991954 ACCATGTCTGGGACATGCATCAGCCACATTACGAGAGCCAGTGTAAG
1 ACCATGTCTGGGACATGCATCAACCACATAACGAGAGCCAGTGTAAG
* *
43992001 ACCATGTCTGGGACATGCATCAACCTCGA-AATGTA-AGCCAGTGTAAG
1 ACCATGTCTGGGACATGCATCAACCAC-ATAACG-AGAGCCAGTGTAAG
*
43992048 A-CATGTCTGGTACATGCAT
1 ACCATGTCTGGGACATGCAT
43992067 TGACTACGAG
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
46 17 0.29
47 40 0.68
48 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (47 bp):
ACCATGTCTGGGACATGCATCAACCACATAACGAGAGCCAGTGTAAG
Found at i:43993299 original size:21 final size:22
Alignment explanation
Indices: 43993260--43993300 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
43993250 TCGAATTGGT
43993260 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
43993282 CACACGGGTGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
43993301 GTGGCTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:44019354 original size:42 final size:43
Alignment explanation
Indices: 44019263--44019426 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
44019253 AATACCAACA
*** *
44019263 TCCTAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCTAGATGTGGTCTTACACAAAATCAAATATCGATGCCAATG
*
44019306 TCCTAGATAG-GGTCTTACACAAAATCATATA-CGATGCCAATG
1 TCCTAGAT-GTGGTCTTACACAAAATCAAATATCGATGCCAATG
** *
44019348 TCCTAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAATG
1 TCCTAGATGTGGTCTTACAC-AAAATCA-AATATCGATGCCAATG
* * *
44019392 TCCCAGATGTCGTCTTACACAATAA-CACATATCGA
1 TCCTAGATGTGGTCTTACACAA-AATCAAATATCGA
44019427 AATCCTATGT
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 31 0.31
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCTAGATGTGGTCTTACACAAAATCAAATATCGATGCCAATG
Found at i:44019407 original size:44 final size:43
Alignment explanation
Indices: 44019263--44019411 Score: 162
Period size: 42 Copynumber: 3.5 Consensus size: 43
44019253 AATACCAACA
* *
44019263 TCCTAGATGTGGTCTTACATGT-AATCAAATATCGATGCCACTG
1 TCCTAGATGTGGTCTTACACGTAAATCAAA-ATCGATGCCAATG
* *
44019306 TCCTAGATAG-GGTCTTACAC-AAAATC-ATATACGATGCCAATG
1 TCCTAGAT-GTGGTCTTACACGTAAATCAAAAT-CGATGCCAATG
**
44019348 TCCTAGACATGGTCTTACACGTAAATCACAAATCGATGCCAATG
1 TCCTAGATGTGGTCTTACACGTAAATCA-AAATCGATGCCAATG
* *
44019392 TCCCAGATGTCGTCTTACAC
1 TCCTAGATGTGGTCTTACAC
44019412 AATAACACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.32
43 26 0.30
44 28 0.32
45 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (43 bp):
TCCTAGATGTGGTCTTACACGTAAATCAAAATCGATGCCAATG
Found at i:44019634 original size:16 final size:16
Alignment explanation
Indices: 44019615--44019649 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
44019605 TTAACAACAT
44019615 TTATTTACTTATGAAC
1 TTATTTACTTATGAAC
44019631 TTATTTACTTATGAAC
1 TTATTTACTTATGAAC
44019647 TTA
1 TTA
44019650 CCTCGTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.06, T:0.51
Consensus pattern (16 bp):
TTATTTACTTATGAAC
Found at i:44027902 original size:42 final size:42
Alignment explanation
Indices: 44027844--44027925 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
44027834 GGTGCAGGTT
* *
44027844 ACACACGACCAAGACACGCGCCCGTGT-TCTAGGCTGTGTATC
1 ACACACGACCAAGACACACGCCCGTGTCTCTA-CCTGTGTATC
**
44027886 ACACACGACTGAGACACACGCCCGTGTCTCTACCTGTGTA
1 ACACACGACCAAGACACACGCCCGTGTCTCTACCTGTGTA
44027926 CCCAATTCTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (42 bp):
ACACACGACCAAGACACACGCCCGTGTCTCTACCTGTGTATC
Found at i:44028142 original size:20 final size:22
Alignment explanation
Indices: 44028119--44028168 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
44028109 CCAATACTTG
*
44028119 CAAACATAT-A-CCAGCCAATT
1 CAAACATATAAGCAAGCCAATT
44028139 CAAACATTATAAGCAAGCCAATT
1 CAAACA-TATAAGCAAGCCAATT
*
44028162 CTAACAT
1 CAAACAT
44028169 CTAACATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 3 0.12
22 2 0.08
23 14 0.56
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.22
Consensus pattern (22 bp):
CAAACATATAAGCAAGCCAATT
Found at i:44031205 original size:15 final size:15
Alignment explanation
Indices: 44031185--44031228 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44031175 GTAGAATTGT
44031185 TGGTATGGGTTTTGC
1 TGGTATGGGTTTTGC
* *
44031200 TGGTATGGATTTTGT
1 TGGTATGGGTTTTGC
* *
44031215 TGGTTTTGGTTTTG
1 TGGTATGGGTTTTG
44031229 AAAGTTGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.07, C:0.02, G:0.36, T:0.55
Consensus pattern (15 bp):
TGGTATGGGTTTTGC
Found at i:44031630 original size:39 final size:39
Alignment explanation
Indices: 44031576--44031654 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
44031566 CCTTTTATAG
44031576 TGGGGGACAAGCGTAGCTACGTGTCTTAAGGTCACTAAC
1 TGGGGGACAAGCGTAGCTACGTGTCTTAAGGTCACTAAC
*
44031615 TGGGGGATAAGCGTAGCTACGTGTCTTAAGGTCACTAAC
1 TGGGGGACAAGCGTAGCTACGTGTCTTAAGGTCACTAAC
44031654 T
1 T
44031655 CAAAAGTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
TGGGGGACAAGCGTAGCTACGTGTCTTAAGGTCACTAAC
Found at i:44034606 original size:3 final size:3
Alignment explanation
Indices: 44034600--44034639 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44034590 AGAGATGATG
44034600 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44034640 GAGAGAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44035300 original size:8 final size:7
Alignment explanation
Indices: 44035280--44035318 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
44035270 TTAAAATTAT
44035280 TTAAAAA
1 TTAAAAA
44035287 TTAAAAA
1 TTAAAAA
44035294 TTAAAAA
1 TTAAAAA
* *
44035301 TTATAAT
1 TTAAAAA
44035308 TCTAAAAA
1 T-TAAAAA
44035316 TTA
1 TTA
44035319 TGAAAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (7 bp):
TTAAAAA
Found at i:44035589 original size:17 final size:17
Alignment explanation
Indices: 44035562--44035603 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
44035552 AGCATATATT
44035562 TAAAAAATTA-TAAAAA
1 TAAAAAATTATTAAAAA
44035578 TAAAATAATTATTAAAAA
1 TAAAA-AATTATTAAAAA
*
44035596 TATAAAAT
1 TAAAAAAT
44035604 AATGCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
18 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAATTATTAAAAA
Found at i:44035600 original size:20 final size:20
Alignment explanation
Indices: 44035568--44035606 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
44035558 TATTTAAAAA
44035568 ATTATAAAAATAAAATAATT
1 ATTATAAAAATAAAATAATT
44035588 ATTA-AAAATATAAAATAAT
1 ATTATAAAA-ATAAAATAAT
44035607 GCATTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTATAAAAATAAAATAATT
Found at i:44036536 original size:14 final size:13
Alignment explanation
Indices: 44036516--44036560 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
44036506 TTACTTGTAT
*
44036516 GTTATGGCTTAGG
1 GTTATGGTTTAGG
44036529 GTTTATGGGTTTAGG
1 G-TTAT-GGTTTAGG
*
44036544 GTTATGGTTTAGA
1 GTTATGGTTTAGG
44036557 GTTA
1 GTTA
44036561 ATGTTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
14 8 0.29
15 8 0.29
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (13 bp):
GTTATGGTTTAGG
Found at i:44036625 original size:28 final size:29
Alignment explanation
Indices: 44036563--44036625 Score: 110
Period size: 28 Copynumber: 2.2 Consensus size: 29
44036553 TAGAGTTAAT
44036563 GTTTTTGAAAAAAAAAATTAGGGTTTAGG
1 GTTTTTGAAAAAAAAAATTAGGGTTTAGG
*
44036592 GTTTTT-AAAAAATAAATTAGGGTTTAGG
1 GTTTTTGAAAAAAAAAATTAGGGTTTAGG
44036620 GTTTTT
1 GTTTTT
44036626 TAAATTGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 27 0.82
29 6 0.18
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (29 bp):
GTTTTTGAAAAAAAAAATTAGGGTTTAGG
Found at i:44036830 original size:14 final size:14
Alignment explanation
Indices: 44036795--44036836 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
44036785 CATACAGTTG
*
44036795 ATTCTGAAAAAATT
1 ATTCTGAAAAAATA
*
44036809 ATTTTGAAAAGAA-A
1 ATTCTGAAAA-AATA
44036823 ATTCTGAAAAAATA
1 ATTCTGAAAAAATA
44036837 TCTCAGGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 2 0.09
14 19 0.83
15 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (14 bp):
ATTCTGAAAAAATA
Found at i:44050414 original size:23 final size:23
Alignment explanation
Indices: 44050391--44050519 Score: 91
Period size: 23 Copynumber: 5.3 Consensus size: 23
44050381 TAAGCTCCTC
44050391 TTGAGCTGATAAACAGTAAGCTCTA
1 TTGAGCTGA-AAACAGTAAGCTC-A
44050416 TTGAGCTG-AAACAGTAAGCTCA
1 TTGAGCTGAAAACAGTAAGCTCA
* *
44050438 TATGAGCTG-AATCGGTAAGCTCCA
1 T-TGAGCTGAAAACAGTAAGCT-CA
* * * * *
44050462 ATAAGCTTAAAACAATAAGCTCT
1 TTGAGCTGAAAACAGTAAGCTCA
* *
44050485 TATGAGCTGATACACCGGTAAGCTCA
1 T-TGAGCTGA-A-AACAGTAAGCTCA
44050511 TATGAGCTG
1 T-TGAGCTG
44050520 TGGTGAGTCC
Statistics
Matches: 82, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
22 2 0.02
23 36 0.44
24 17 0.21
25 9 0.11
26 18 0.22
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (23 bp):
TTGAGCTGAAAACAGTAAGCTCA
Found at i:44050820 original size:20 final size:20
Alignment explanation
Indices: 44050792--44050833 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
44050782 GTATTTCACT
* *
44050792 TTTACTCATGTAAACAGTAA
1 TTTAATCATATAAACAGTAA
*
44050812 TTTAATCATATAATCAGTAA
1 TTTAATCATATAAACAGTAA
44050832 TT
1 TT
44050834 CAAATTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (20 bp):
TTTAATCATATAAACAGTAA
Found at i:44051979 original size:9 final size:9
Alignment explanation
Indices: 44051961--44052011 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
44051951 TTACAAAAAT
*
44051961 ATTAATTAA
1 ATTAAATAA
*
44051970 ATTACATAA
1 ATTAAATAA
*
44051979 ATGAAATAA
1 ATTAAATAA
44051988 ATTAAATAA
1 ATTAAATAA
*
44051997 TATTTAA-AA
1 -ATTAAATAA
44052006 ATTAAA
1 ATTAAA
44052012 ATTAACTCTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
8 5 0.15
9 24 0.71
10 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:44055979 original size:17 final size:17
Alignment explanation
Indices: 44055957--44056001 Score: 81
Period size: 17 Copynumber: 2.6 Consensus size: 17
44055947 ATAAGCTCAA
*
44055957 CAAAGAAAGAAAGTAAG
1 CAAAGAGAGAAAGTAAG
44055974 CAAAGAGAGAAAGTAAG
1 CAAAGAGAGAAAGTAAG
44055991 CAAAGAGAGAA
1 CAAAGAGAGAA
44056002 GCTCAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.62, C:0.07, G:0.27, T:0.04
Consensus pattern (17 bp):
CAAAGAGAGAAAGTAAG
Found at i:44065539 original size:23 final size:23
Alignment explanation
Indices: 44065496--44065540 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44065486 AATAATAAAT
* *
44065496 TTATATTATTTTTTAAAAGTAAC
1 TTATATTATATTTAAAAAGTAAC
44065519 TTATA-TATATTTAAAATAGTAA
1 TTATATTATATTTAAAA-AGTAA
44065541 AAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATATTATATTTAAAAAGTAAC
Found at i:44066922 original size:61 final size:63
Alignment explanation
Indices: 44066822--44066946 Score: 182
Period size: 61 Copynumber: 2.0 Consensus size: 63
44066812 TCAATTTGTA
* * *
44066822 TTAGATATTGTAATTATTTAAGTTTTTTTTTATCTAATTAATGTT-TAGATACTA-TTTATAT
1 TTAGATATTGTAATTATTTAACTTTATTTTTATCAAATTAATGTTGTAGATACTACTTTATAT
* * *
44066883 TTAGATGTTGTAATTATTTAACTTTATTTTTATCAAATTAATTTTGTAGATACTACTTTGTAT
1 TTAGATATTGTAATTATTTAACTTTATTTTTATCAAATTAATGTTGTAGATACTACTTTATAT
44066946 T
1 T
44066947 AGTTTACCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
61 40 0.71
62 9 0.16
63 7 0.12
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (63 bp):
TTAGATATTGTAATTATTTAACTTTATTTTTATCAAATTAATGTTGTAGATACTACTTTATAT
Found at i:44067449 original size:3 final size:3
Alignment explanation
Indices: 44067441--44067485 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
44067431 ATTTGAATAA
44067441 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
44067486 ATCATCAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:44073910 original size:27 final size:28
Alignment explanation
Indices: 44073863--44073937 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 28
44073853 ATAAAACAAA
44073863 TTAAAAA-AATATAACTGATAATAAA-TAAGT
1 TTAAAAACAA-ATAA-T-ATAA-AAAGTAAGT
*
44073893 TT-AAAACAAATAATATAAAAAGTAATT
1 TTAAAAACAAATAATATAAAAAGTAAGT
*
44073920 TTAAAAATAAATAATATA
1 TTAAAAACAAATAATATA
44073938 CAACAATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 3 0.08
27 10 0.25
28 15 0.38
29 8 0.20
30 4 0.10
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (28 bp):
TTAAAAACAAATAATATAAAAAGTAAGT
Found at i:44074402 original size:16 final size:16
Alignment explanation
Indices: 44074383--44074421 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
44074373 TACAAAAGAA
44074383 AATAA-ATAAATAAATG
1 AATAATATAAA-AAATG
*
44074399 AATAATATAAAAAGTG
1 AATAATATAAAAAATG
44074415 AATAATA
1 AATAATA
44074422 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (16 bp):
AATAATATAAAAAATG
Found at i:44075816 original size:44 final size:46
Alignment explanation
Indices: 44075783--44076008 Score: 121
Period size: 44 Copynumber: 5.1 Consensus size: 46
44075773 AAGATTCGTC
* *
44075783 ATCTTCGATCTGCTCCACTACTACTT-AGGGAGATAA-AATCTGCA
1 ATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
* * * *
44075827 ATTTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-T
1 ATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
* * ** * * **
44075871 ATC-ACGAACCTGCTCCACTGTAACTTCAAGGAGATAAG--GCTGGT
1 ATCTTC-AATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
** * * * ** * * *
44075915 GGCTTAAATCTGCTCAATTACCGCTACATGGAGATAAGATTC-GCA
1 ATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
*** *
44075960 ATCTTCAATCTGCTCCACTATTGCTT-AGGGAGATAAG-ATCTGTA
1 ATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
44076004 ATCTT
1 ATCTT
44076009 TAGCCTATTC
Statistics
Matches: 134, Mismatches: 39, Indels: 18
0.70 0.20 0.09
Matches are distributed among these distances:
43 5 0.04
44 95 0.71
45 31 0.23
46 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (46 bp):
ATCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAATCTGCA
Found at i:44076023 original size:177 final size:176
Alignment explanation
Indices: 44075703--44076040 Score: 455
Period size: 177 Copynumber: 1.9 Consensus size: 176
44075693 TATCTTTAGT
* * * * *
44075703 CTGCTCCACTACAACTTCAGGGAGATAAGATTTGTGGCTTAAATCTGCTCCATTGCCGCTACATA
1 CTGCTCCACTACAACTTCAAGGAGATAAGACTGGTGGCTTAAATCTGCTCAATTACCGCTACATA
*
44075768 GAGATAAGATTCGTCATCTTCGATCTGCTCCACTACTACTTAGGGAGATAAAATCTGCAATTTTC
66 GAGATAAGATTCGTCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAAATCTGCAATTTTC
* *
44075833 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCACGAAC
131 AACCTACTCCACTGCAAC-TCAGGGAGATAAGACTTGTATCACGAAC
** * *
44075880 CTGCTCCACTGTAACTTCAAGGAGATAAGGCTGGTGGCTTAAATCTGCTCAATTACCGCTACATG
1 CTGCTCCACTACAACTTCAAGGAGATAAGACTGGTGGCTTAAATCTGCTCAATTACCGCTACATA
* * * *
44075945 GAGATAAGATTCG-CAATCTTCAATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTT
66 GAGATAAGATTCGTC-ATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAAATCTGCAAT-TT
* * **
44076009 T-AGCCTATTCCACTGCTGCTCAGGGAGATAAG
129 TCAACCTACTCCACTGCAACTCAGGGAGATAAG
44076041 GCTAATGGCC
Statistics
Matches: 139, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
176 14 0.10
177 122 0.88
178 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (176 bp):
CTGCTCCACTACAACTTCAAGGAGATAAGACTGGTGGCTTAAATCTGCTCAATTACCGCTACATA
GAGATAAGATTCGTCATCTTCAATCTGCTCCACTACTACTTAGGGAGATAAAATCTGCAATTTTC
AACCTACTCCACTGCAACTCAGGGAGATAAGACTTGTATCACGAAC
Found at i:44080830 original size:21 final size:21
Alignment explanation
Indices: 44080787--44080830 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
44080777 AAAATGCAAG
* *
44080787 AAAAGAATATTTGCTTAGGAT
1 AAAAGAATATTTGCTCAGAAT
44080808 AAAAGAATATTTGCTCAGAAT
1 AAAAGAATATTTGCTCAGAAT
44080829 AA
1 AA
44080831 GACATAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.16, T:0.30
Consensus pattern (21 bp):
AAAAGAATATTTGCTCAGAAT
Found at i:44088301 original size:25 final size:24
Alignment explanation
Indices: 44088222--44088303 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
44088212 AATAAATAAG
44088222 TTTAAAACAAATAATATAAAAAGTA
1 TTTAAAACAAATAATATAAAAA-TA
* *
44088247 GTTTTAAAAATAAATAATATACAACA-A
1 --TTT-AAAACAAATAATATA-AAAATA
*
44088274 TTTAAAACAAATGATATATAAAATA
1 TTTAAAACAAATAATATA-AAAATA
44088299 TTTAA
1 TTTAA
44088304 TAATATATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 16 0.35
25 9 0.20
27 4 0.09
28 14 0.30
29 3 0.07
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.32
Consensus pattern (24 bp):
TTTAAAACAAATAATATAAAAATA
Found at i:44088726 original size:16 final size:16
Alignment explanation
Indices: 44088707--44088745 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
44088697 TACAAAAGAA
44088707 AATAA-ATAAATAAATG
1 AATAATATAAA-AAATG
*
44088723 AATAATATAAAAAGTG
1 AATAATATAAAAAATG
44088739 AATAATA
1 AATAATA
44088746 ATTTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (16 bp):
AATAATATAAAAAATG
Found at i:44096192 original size:19 final size:19
Alignment explanation
Indices: 44096170--44096224 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
44096160 GTTAATTTTT
44096170 TTATATAATTTTAAGTTAA
1 TTATATAATTTTAAGTTAA
**
44096189 TTAT-T-ATTTTATTTTTTAA
1 TTATATAATTTTA--AGTTAA
44096208 TTATATAATTATTAAGT
1 TTATATAATT-TTAAGT
44096225 AAGTTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
17 6 0.22
18 1 0.04
19 12 0.44
20 2 0.07
21 3 0.11
22 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTATATAATTTTAAGTTAA
Found at i:44098009 original size:23 final size:23
Alignment explanation
Indices: 44097974--44098017 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
44097964 AACTAAATTC
44097974 ACTTACTTTTCTAACTCAATTTAT
1 ACTTACTTTTCT-ACTCAATTTAT
*
44097998 ACTT-CTTTTCTACTTAATTT
1 ACTTACTTTTCTACTCAATTT
44098018 CTTGCTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (23 bp):
ACTTACTTTTCTACTCAATTTAT
Found at i:44103881 original size:26 final size:25
Alignment explanation
Indices: 44103843--44103901 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
44103833 ATTAAATTAT
*
44103843 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
44103869 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
44103895 ATATTAT
1 ATATTAT
44103902 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:44103900 original size:15 final size:15
Alignment explanation
Indices: 44103856--44103911 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
44103846 TTTTTGTTAA
*
44103856 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
44103871 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
44103882 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
44103897 ATTATATATTATAAT
1 ATTATATTTTATAAT
44103912 TTTAATAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:44103927 original size:24 final size:22
Alignment explanation
Indices: 44103882--44103950 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
44103872 ATTATTTTAA
44103882 ATTATATTTTATAATATTATAT
1 ATTATATTTTATAATATTATAT
* *
44103904 ATTATAATTT-TAATA-AAT-T
1 ATTATATTTTATAATATTATAT
44103923 CA-TATATTTTATCAA-ATTATAT
1 -ATTATATTTTAT-AATATTATAT
44103945 ATTATA
1 ATTATA
44103951 AAAAAATATA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
19 8 0.22
20 5 0.14
21 10 0.27
22 14 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATATTTTATAATATTATAT
Found at i:44103946 original size:17 final size:17
Alignment explanation
Indices: 44103828--44103968 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
44103818 AATACTAAGA
*
44103828 ATTTTATTAAATTATAT
1 ATTTTAATAAATTATAT
**
44103845 ATTTTTGTTAAA-T-TAT
1 A-TTTTAATAAATTATAT
*
44103861 A-TTTAAT-AATAAT-T
1 ATTTTAATAAATTATAT
* *
44103875 ATTTTAAATTATATTTTAT
1 ATTTT-AA-TAAATTATAT
* *
44103894 AATATT-ATATATTATA-
1 -ATTTTAATAAATTATAT
44103910 ATTTTAATAAATTCATAT
1 ATTTTAATAAATT-ATAT
44103928 ATTTT-ATCAAATTATAT
1 ATTTTAAT-AAATTATAT
* *
44103945 ATTATAA-AAA-AATAT
1 ATTTTAATAAATTATAT
44103960 A-TTTAATAA
1 ATTTTAATAA
44103969 TAATTATGTT
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
13 2 0.02
14 10 0.11
15 15 0.16
16 15 0.16
17 24 0.25
18 24 0.25
19 1 0.01
20 4 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (17 bp):
ATTTTAATAAATTATAT
Found at i:44104217 original size:16 final size:16
Alignment explanation
Indices: 44104196--44104263 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
44104186 GATTTGCTAT
44104196 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
44104212 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
44104228 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44104244 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
44104260 TACA
1 TACA
44104264 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:44104962 original size:18 final size:18
Alignment explanation
Indices: 44104939--44104976 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44104929 AATATATATT
*
44104939 AACCCAAGTACCTAACCC
1 AACCCAAGTACCCAACCC
*
44104957 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
44104975 AA
1 AA
44104977 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.45, G:0.03, T:0.11
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:44104969 original size:13 final size:13
Alignment explanation
Indices: 44104953--44104977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44104943 CAAGTACCTA
44104953 ACCCAACCCAATT
1 ACCCAACCCAATT
44104966 ACCCAACCCAAT
1 ACCCAACCCAAT
44104978 AATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:44105015 original size:5 final size:6
Alignment explanation
Indices: 44105002--44105042 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
44104992 ATAATTTAAT
*
44105002 AAATAA AAATAA AATTCTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AA--ATAA AAATAA AAATAA AAATAA AAA
44105043 AATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:44105043 original size:20 final size:20
Alignment explanation
Indices: 44105002--44105046 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44104992 ATAATTTAAT
* **
44105002 AAATAAAAATAAAATTCTAA
1 AAATAAAAATAAAAATAAAA
44105022 AAATAAAAATAAAAATAAAA
1 AAATAAAAATAAAAATAAAA
44105042 AAATA
1 AAATA
44105047 TAATTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (20 bp):
AAATAAAAATAAAAATAAAA
Found at i:44105085 original size:9 final size:9
Alignment explanation
Indices: 44105061--44105101 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
44105051 TTTATACAAA
*
44105061 TAATTCAGT
1 TAATTCGGT
44105070 TAATTCGGT
1 TAATTCGGT
*
44105079 TAATTCGGG
1 TAATTCGGT
*
44105088 TAATTAGGT
1 TAATTCGGT
44105097 TAATT
1 TAATT
44105102 TTATACTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:44106789 original size:57 final size:57
Alignment explanation
Indices: 44106695--44106901 Score: 213
Period size: 57 Copynumber: 3.6 Consensus size: 57
44106685 TATCATATTA
* * **
44106695 TAGGATTACTAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCACAAGAGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTTAAT
* * * **
44106752 TAGGATTACCAATTCAGGCTAAATCCTTTCTGTAACATATGCTCTGAAGAGCTTAAT
1 TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTTAAT
* * * *
44106809 TAAGACTACCAGTCCAGGCTAAACCCTAAT-TGTAACATATGCT--CGAGAGCAATTATAT
1 TAGGATTACCAGTCCAGGCTAAATCCT-ATCTGTAACATATGCTCACAAGAGC--TTA-AT
* * *
44106867 CAGGATTACCAGTCCGGGCTAAATTCTATCTGTAA
1 TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAA
44106902 TGAGGTCAAT
Statistics
Matches: 123, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
55 5 0.04
57 89 0.72
58 29 0.24
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.29
Consensus pattern (57 bp):
TAGGATTACCAGTCCAGGCTAAATCCTATCTGTAACATATGCTCACAAGAGCTTAAT
Found at i:44116770 original size:29 final size:29
Alignment explanation
Indices: 44116727--44116877 Score: 212
Period size: 29 Copynumber: 5.2 Consensus size: 29
44116717 GAGTGCTAAA
44116727 CGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** * *
44116756 TGATGGTCGTCACCATCTCTTTCCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
44116785 CGATGGTCGAAACCATCCCTTTTCATAAT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* * *
44116814 CGATGGTTGAAACCATCCTTTTTTATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
44116843 CGATGGTCGTAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
44116872 CGATGG
1 CGATGG
44116878 GCGTCGATAT
Statistics
Matches: 103, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 103 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:44121289 original size:94 final size:94
Alignment explanation
Indices: 44121151--44123967 Score: 2684
Period size: 94 Copynumber: 30.0 Consensus size: 94
44121141 TCACAGTTTC
* * * * * * * * * *
44121151 ATCTTACTCCATTGCAACTTCAAGGAGATAAGATTTGCTGTTGTAGCTTCATTCCAACCTACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44121216 AACTTCAGGGGTACAAGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * * ** *
44121245 ATCTTGCTTCACTACAACTTCATGGAGATAAGATTCACCATTGTAATTTCATTCTAACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44121310 AAATTCAGGGATATAGGATTTCTAG-TTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * *
44121338 CATCTTGCTCCACTGCAATTTCAGGGAGTTAAGATTCGCTATTGTAGCTTCAATCCGATCCACTA
1 -ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTA
44121403 CAACTTCAGGGGTATAGGATTTGTAGCTTT
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* * ** ** * * *
44121433 ATCTTG-TACCACTGTAACTTTAGGGAGATAAGATTCATTATTGTAGTTTCAATCTGACCCATTG
1 ATCTTGCT-CCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTA
*
44121497 CAACTTTAGGGGTATAGGATTTGTAGCTTT
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * *
44121527 ATCTTGCTCCATTGCAATTTCAGAGAGATAAGATTCACTATAGTAACTTTAATCCGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
44121592 AACTTCAGGGGTATAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * * * *
44121621 ATCTTGCTCCATTACAACTTCAGGGAGATAATATTTGCTATTGTAGCTTCAGTTCGACCTATTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44121686 AACTTCAGAGGTATAAGAATTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* ** * * * * *
44121715 ATCTTACTCCACTGCAACTTCAGAAAGATAAGACTT-GCTACTATAATTTCAATCCTACCCACTG
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATTGTAACTTCAATCCGACCCACTA
44121779 CAACTTCAGGGGTATAGGATTTGTAGCTTT
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* ** * ** ** *
44121809 ATCTTGCTCCACTGCAATTTCAAAGAGATAAGATTCGCTATTGTAGCTTCAATTTGACGTACTAT
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44121874 AACTTCAGGGGTATAAGATTTGTAGCCTTT
66 AACTTCAGGGGTATAGGATTTGTAG-CTTT
* * * * * * * * *
44121904 -TCTTACTCTACTGTAACTTCGGGGAGATAAGATTTGCTATGGTAACTTCAATCCAACCCATTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * * *
44121968 AACTTCAGGGGTACAGGATTTGTAACATC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * *
44121997 ATCTTACTTCACTGCAACTTCAGAGAGATAAGATTTGCTATGGTAACTTGAATCCGACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44122062 AACTTTAGGGGTATAGGATTTATAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * **
44122091 ATCTTACTCCATTGGAACTTCAGGGAGATAAGATTCTCTATTGTAGCTTCAATTTGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44122156 AACTTTAGGGTTATAGAATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * ** * **
44122185 ATCTTGTTCCACTGTAACTTTAGATAGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44122250 AACTTTAGGGGTATAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
** * * ** * *
44122279 ATCTTAATCCATTGCAACTTTAAAGAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44122344 AACTTTAGGGGTATAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * ** * * * * *
44122373 ATCTTGCTTCACTACAACTTTTA-TGATATAAGATTCACTATAATAACTTTAATCCAACCTATTG
1 ATCTTGCTCCACTGCAAC-TTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTA
* * * *
44122437 TAAGTTTA-GGGTATAGGATTTGTAGCTTC
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * *
44122466 ATCTTGTTCCACTACAACTTCAGGGAGATAGGATTCGCTATCGTAACTTTAATCCGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* *
44122531 AACTTTAGGGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* ** * * * *
44122560 ATCTTGCTCCACTGCAACTTTAAAGTGATAAGATTCACTATTGTAGCTTCAATCCGACCTACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44122625 AACTTCCA-GGGTATAAGATTTGTAGCTTT
66 AACTT-CAGGGGTATAGGATTTGTAGCTTT
* * * * * * * *
44122654 ATCTTGCTCCATTGCAACTTCAAGGAGATAAGACTCGTTACTGTAATTTCAATCCTACCTACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* *
44122719 AACTTCAGAGGTATAGGATTTCTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * * *
44122748 ATATTGCTCCACTGCAACTTTAGAGAGATGAGATTCGCTATTGTAGCTTCAATTCGACGCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44122813 AACTTCAGGGGTATAGGATTTGTACCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
** * * * * ** * *
44122842 ATCTTGCTCCACTATAACTTTAAGAAGATAAGATTCACTATAATAACTTCAATCCAACCCACTAT
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44122907 AACTTTAGAGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
** * * * * *
44122936 ATCTTATTCCACTACAACTTC-GGGAGATAAGATTCACTATGGTAACTTTAATCAGACCCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44123000 AACTTCAAGGGTATAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
** * * * * * * *
44123029 ATCTTGCTCCACTATAATTTTAGAGAGATAAGATTAGCTATGGTAACTTCAATCTGACCCACTTG
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCAC-TA
*
44123094 C-ACTTCAGGGGTATAGGATTTGTAGCTTC
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * ** * ** *
44123123 ATTTTGCTCCATTGCAACTTTAGGGAGATAAAATTTACTATGGTAACTTCAATCAAACTCACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44123188 AACTTCAGGGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * *
44123217 ATCTTACTCTACTACAACTTTAGGGAGATAAGATTCACTATGGTAACTTCAAT-CGAACCTACTA
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCG-ACCCACTA
* * *
44123281 CAACTTCAGGGGAATAAGATTTGTAGATTT
65 CAACTTCAGGGGTATAGGATTTGTAGCTTT
* ** * * * ** *
44123311 ATCTTACTCTGCTGCAACTTTAGGGAGATAAGATTCGCTATGGTAACATCAATCTAACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * * *
44123376 AACTTCAGTGGTATATGATTTATAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * *
44123405 ATCTTGCTCCACTGTAACTTCAGGGAGATAAGATTCACTATGGTAACTTCAATCTGACCCATTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * * *
44123470 AACTTTAGGGGTATAGGTTTTATAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * *
44123499 GTCTTGTTCCACTGTAACTTCAGGGAGATAAGATTCACTATGGTAACTTTAATCCGACCCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44123564 AACTTTAGGGGTATAGGTTTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
*** * * * * * * * *
44123593 ATCTTGCTCCACCATAATTTCAGGGAGGTAAGTTTTGCTATGGTAACTTCAATTCGACCTACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
*
44123658 AATTTCAGGGGTATAGGATTTGTAGCTTT
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* ** * ** * * * *
44123687 ATCTTACTCCACTATAACTTTAGGGAGATAAGATTTTCTATGGTAACTTCAATCTGACCCATTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44123752 AACTTCAAGAGTATAGGATTTGTAGCTTA
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * * * * * *
44123781 ATCTTACTCCACTGCAACTTTAGGGAGATAAAATTCGTTATGGTGACTTTAATTCGACCTACTAC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
* * *
44123846 AACTTTAGAGGTATAGGATTTGTAGCTTC
66 AACTTCAGGGGTATAGGATTTGTAGCTTT
* * * * ** * * * *
44123875 ATCTTGCTCCAGTGCACCTTCAGGGAGATAAGATTCACCATTGTAGTTTCATTCCAACTCACTGC
1 ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
** *
44123940 AACTTCAGATGTATAGGACTTGTAGCTT
66 AACTTCAGGGGTATAGGATTTGTAGCTT
44123968 CAATCTGACC
Statistics
Matches: 2257, Mismatches: 448, Indels: 36
0.82 0.16 0.01
Matches are distributed among these distances:
92 3 0.00
93 160 0.07
94 2077 0.92
95 17 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (94 bp):
ATCTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATTGTAACTTCAATCCGACCCACTAC
AACTTCAGGGGTATAGGATTTGTAGCTTT
Found at i:44121445 original size:44 final size:44
Alignment explanation
Indices: 44121397--44121645 Score: 111
Period size: 44 Copynumber: 5.4 Consensus size: 44
44121387 TCAATCCGAT
44121397 CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTGTA
1 CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTGTA
** * *
44121441 CCACTGTAACTTTAGGGAG-ATAAGATTCATTATTGTAG-TTTCAATC-TG-A
1 CCACTACAACTTCAGGG-GTAT-AG---GA-T-TTGTAGCTTT--ATCTTGTA
* * *
44121490 CCCATTGCAACTTTAGGGGTATAGGATTTGTAGCTTTATCTTGCT-
1 -CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTG-TA
* * * * * * *
44121535 CCATTGCAATTTCAGAGAG-ATAAGATTCACTATAGTAACTTTAATC-CG-A
1 CCACTACAACTTCAG-GGGTATAGGA-T---T-T-GTAGCTTT-ATCTTGTA
44121584 CCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTGCT-
1 -CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTG-TA
*
44121629 CCATTACAACTTCAGGG
1 CCACTACAACTTCAGGG
44121646 AGATAATATT
Statistics
Matches: 155, Mismatches: 21, Indels: 58
0.66 0.09 0.25
Matches are distributed among these distances:
43 6 0.04
44 66 0.43
45 11 0.07
46 2 0.01
48 2 0.01
49 12 0.08
50 50 0.32
51 6 0.04
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (44 bp):
CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTGTA
Found at i:44121733 original size:44 final size:44
Alignment explanation
Indices: 44121685--44121830 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
44121675 CGACCTATTA
44121685 CAACTTCAGAGGTATAAGAATTGTAGCTTTATCTTACTCCACTG
1 CAACTTCAGAGGTATAAGAATTGTAGCTTTATCTTACTCCACTG
* * *
44121729 CAACTTCAGAAAG-ATAAGACTTGCTA-CTATAAT-TTCAATCCTACCCACTG
1 CAACTTCAG-AGGTATAAGAATTG-TAGCT-TTATCTT--A--CT--CCACTG
* * * *
44121779 CAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTGCTCCACTG
1 CAACTTCAGAGGTATAAGAATTGTAGCTTTATCTTACTCCACTG
*
44121823 CAATTTCA
1 CAACTTCA
44121831 AAGAGATAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
44 35 0.44
45 7 0.09
46 3 0.04
48 2 0.03
49 6 0.08
50 27 0.34
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
CAACTTCAGAGGTATAAGAATTGTAGCTTTATCTTACTCCACTG
Found at i:44122197 original size:44 final size:44
Alignment explanation
Indices: 44122131--44122393 Score: 131
Period size: 44 Copynumber: 5.7 Consensus size: 44
44122121 AGATTCTCTA
* * *
44122131 TTGTAGCTTCAAT-TTGACCCACTACAACTTTAGGGTTATAGAAT
1 TTGTAGCTT-TATCTTGATCCACTACAACTTTAGGGGTATAGAAT
* ** ** *
44122175 TTGTAGCTTTATCTTGTTCCACTGTAACTTTAGATAG-ATAAGATTCGCT
1 TTGTAGCTTTATCTTGATCCACTACAACTTTAG-GGGTAT-AGA----AT
* * *
44122224 ATTGTAGCTTCAAT-TTGACCCACTACAACTTTAGGGGTATAGGAT
1 -TTGTAGCTT-TATCTTGATCCACTACAACTTTAGGGGTATAGAAT
* * * * * *
44122269 TTGTAGCTTTATCTTAATCCATTGCAACTTTAAAGAG-ATAAGATTCGCT
1 TTGTAGCTTTATCTTGATCCACTACAACTTT-AGGGGTAT-AGA----AT
* * *
44122318 ATTGTAGCTTCAATC-TGACCCACTACAACTTTAGGGGTATAGGAT
1 -TTGTAGCTT-TATCTTGATCCACTACAACTTTAGGGGTATAGAAT
* *
44122363 TTGTAGCTTTATCTTGCTTCACTACAACTTT
1 TTGTAGCTTTATCTTGATCCACTACAACTTT
44122394 TATGATATAA
Statistics
Matches: 158, Mismatches: 40, Indels: 42
0.66 0.17 0.17
Matches are distributed among these distances:
43 7 0.04
44 75 0.47
45 10 0.06
49 10 0.06
50 51 0.32
51 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (44 bp):
TTGTAGCTTTATCTTGATCCACTACAACTTTAGGGGTATAGAAT
Found at i:44122254 original size:50 final size:48
Alignment explanation
Indices: 44122115--44122351 Score: 156
Period size: 44 Copynumber: 5.0 Consensus size: 48
44122105 GAACTTCAGG
*
44122115 GAGATAAGATTCTCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
1 GAGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
* * * * ** **
44122163 GGGTTATAGA----AT-TTGTAGCTT-TATCTTGTTCCACTGTAACTTTA
1 GAGATA-AGATTCGCTATTGTAGCTTCAAT-TTGACCCACTACAACTTTA
44122207 GATAGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
1 G--AGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
* * * * * * * *
44122257 GGGGTATAG----GAT-TTGTAGCTT-TATCTTAATCCATTGCAACTTTAAA
1 GAGATA-AGATTCGCTATTGTAGCTTCAAT-TTGACCCACTACAACTTT--A
*
44122303 GAGATAAGATTCGCTATTGTAGCTTCAATCTGACCCACTACAACTTTA
1 GAGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
44122351 G
1 G
44122352 GGGTATAGGA
Statistics
Matches: 136, Mismatches: 33, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
43 4 0.03
44 48 0.35
45 8 0.06
46 8 0.06
48 9 0.07
49 8 0.06
50 47 0.35
51 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (48 bp):
GAGATAAGATTCGCTATTGTAGCTTCAATTTGACCCACTACAACTTTA
Found at i:44123233 original size:44 final size:43
Alignment explanation
Indices: 44123179--44123345 Score: 131
Period size: 44 Copynumber: 3.7 Consensus size: 43
44123169 CTTCAATCAA
*
44123179 ACTC-ACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCTT
1 ACTCTACTACAACTTCAGGGG-ATAAGATTTGTAGCTTCATCTT
* * **
44123222 ACTCTACTACAACTTTAGGGAGATAAGATTCACTATGGTAACTTCAATCGA
1 ACTCTACTACAACTTCAGGG-GATAAGA-T---T-T-GTAGCTTC-ATCTT
* *
44123273 AC-CTACTACAACTTCAGGGGAATAAGATTTGTAGATTTATCTT
1 ACTCTACTACAACTTCAGGGG-ATAAGATTTGTAGCTTCATCTT
* * *
44123316 ACTCTGCTGCAACTTTAGGGAGATAAGATT
1 ACTCTACTACAACTTCAGGG-GATAAGATT
44123346 CGCTATGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
43 9 0.09
44 46 0.47
45 4 0.04
46 1 0.01
48 1 0.01
49 3 0.03
50 29 0.30
51 5 0.05
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (43 bp):
ACTCTACTACAACTTCAGGGGATAAGATTTGTAGCTTCATCTT
Found at i:44123298 original size:50 final size:48
Alignment explanation
Indices: 44123137--44123301 Score: 139
Period size: 50 Copynumber: 3.4 Consensus size: 48
44123127 TGCTCCATTG
* * *
44123137 CAACTTTAGGGAGATAAAATTTACTATGGTAACTTCAATCAAACTCACTA
1 CAACTTCAGGGAGATAAGA-TTACTATGGTAACTTCAATCAACCT-ACTA
* * *
44123187 CAACTTCAGGG-GTATAGGA-T--T-T-GTAGCTTC-ATCTTACTCTACTA
1 CAACTTCAGGGAG-ATAAGATTACTATGGTAACTTCAATC-AAC-CTACTA
*
44123231 CAACTTTAGGGAGATAAGATTCACTATGGTAACTTCAATCGAACCTACTA
1 CAACTTCAGGGAGATAAGATT-ACTATGGTAACTTCAATC-AACCTACTA
44123281 CAACTTCAGGG-GAATAAGATT
1 CAACTTCAGGGAG-ATAAGATT
44123302 TGTAGATTTA
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
43 3 0.03
44 27 0.30
45 5 0.05
46 1 0.01
48 2 0.02
49 3 0.03
50 45 0.49
51 5 0.05
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (48 bp):
CAACTTCAGGGAGATAAGATTACTATGGTAACTTCAATCAACCTACTA
Found at i:44129526 original size:11 final size:11
Alignment explanation
Indices: 44129512--44129537 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44129502 AAATAATATT
44129512 ATAATAAAAGA
1 ATAATAAAAGA
44129523 ATAATAAAAGA
1 ATAATAAAAGA
44129534 ATAA
1 ATAA
44129538 AATTATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (11 bp):
ATAATAAAAGA
Found at i:44129722 original size:8 final size:8
Alignment explanation
Indices: 44129709--44129737 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
44129699 AAAGTGCCAG
44129709 AAATAAAA
1 AAATAAAA
44129717 AAAT-AAA
1 AAATAAAA
44129724 AAATAAAA
1 AAATAAAA
44129732 AAATAA
1 AAATAA
44129738 GTAGGTAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATAAAA
Found at i:44129727 original size:15 final size:15
Alignment explanation
Indices: 44129709--44129737 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44129699 AAAGTGCCAG
44129709 AAATAAAAAAATAAA
1 AAATAAAAAAATAAA
44129724 AAATAAAAAAATAA
1 AAATAAAAAAATAA
44129738 GTAGGTAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAATAAAAAAATAAA
Found at i:44130649 original size:20 final size:21
Alignment explanation
Indices: 44130605--44130653 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
44130595 AAATGAACTA
44130605 CTTTTTTTTGAACTTCGTTGT
1 CTTTTTTTTGAACTTCGTTGT
*
44130626 -TTTTTTTTGTA-TTCGATT-T
1 CTTTTTTTTGAACTTCG-TTGT
44130645 CTTTTTTTT
1 CTTTTTTTT
44130654 TGTTACAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.08, C:0.10, G:0.10, T:0.71
Consensus pattern (21 bp):
CTTTTTTTTGAACTTCGTTGT
Found at i:44143006 original size:26 final size:27
Alignment explanation
Indices: 44142955--44143009 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
44142945 ATCACTAACT
*
44142955 AATACTAATCTAATGCTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
44142982 AATACTAATCTAA-ACTAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAG
44143008 AA
1 AA
44143010 AAATAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (27 bp):
AATACTAATCTAATACTAATAGAATAG
Found at i:44143032 original size:13 final size:13
Alignment explanation
Indices: 44142998--44143024 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44142988 AATCTAAACT
44142998 AATAGAATAGAAA
1 AATAGAATAGAAA
44143011 AATAGAATAGAAA
1 AATAGAATAGAAA
44143024 A
1 A
44143025 TACTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AATAGAATAGAAA
Found at i:44143532 original size:6 final size:7
Alignment explanation
Indices: 44143515--44143541 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44143505 ATGGAAGGGA
44143515 AAAAAAT
1 AAAAAAT
44143522 AAAAAAT
1 AAAAAAT
44143529 AAAAAAT
1 AAAAAAT
44143536 AAAAAA
1 AAAAAA
44143542 AGAGGGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:44145710 original size:27 final size:28
Alignment explanation
Indices: 44145654--44145715 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
44145644 TGTCAAATGA
44145654 TTTTAACTTTACTTATAAAAGTTGGTTT
1 TTTTAACTTTACTTATAAAAGTTGGTTT
44145682 TTTTAACTTTACTTATAAAAGTTGGTTT
1 TTTTAACTTTACTTATAAAAGTTGGTTT
*
44145710 TCTTAA
1 TTTTAA
44145716 TAACTTTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.08, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTTAACTTTACTTATAAAAGTTGGTTT
Found at i:44145721 original size:26 final size:27
Alignment explanation
Indices: 44145664--44145721 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
44145654 TTTTAACTTT
* *
44145664 ACTTATAAAAGTTGGTTTTTTTAACTTT
1 ACTTATAAAAGTTGGTTTTCTTAAC-TA
44145692 ACTTATAAAAGTTGGTTTTCTTAA-TA
1 ACTTATAAAAGTTGGTTTTCTTAACTA
44145718 ACTT
1 ACTT
44145722 TAATGTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 5 0.18
28 23 0.82
ACGTcount: A:0.31, C:0.09, G:0.10, T:0.50
Consensus pattern (27 bp):
ACTTATAAAAGTTGGTTTTCTTAACTA
Found at i:44151286 original size:40 final size:40
Alignment explanation
Indices: 44151231--44151366 Score: 204
Period size: 40 Copynumber: 3.4 Consensus size: 40
44151221 GATGATAACC
44151231 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
*
44151271 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
* *
44151311 GGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCT
* *
44151351 -GGCTAAATTCCGAAGG
1 GGGCTAAGTCCCGAAGG
44151367 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 16 0.18
40 73 0.82
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCT
Found at i:44156367 original size:27 final size:27
Alignment explanation
Indices: 44156336--44156513 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44156326 TAAATTGTAC
44156336 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44156363 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44156389 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44156417 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44156445 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44156472 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44156499 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44156514 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44156450 original size:82 final size:81
Alignment explanation
Indices: 44156337--44156492 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44156327 AAATTGTACA
* *
44156337 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44156401 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44156418 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44156483 TGCGAGTTGA
65 TGCGAATTGA
44156493 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44156504 original size:82 final size:81
Alignment explanation
Indices: 44156333--44156513 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44156323 GATTAAATTG
* *
44156333 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44156398 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44156414 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44156478 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44156496 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44156514 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44164556 original size:27 final size:27
Alignment explanation
Indices: 44164525--44164700 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44164515 TAAATTGTAC
44164525 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
44164552 TGCACTAAGTGTGCGAAATGA--ATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44164576 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44164604 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44164632 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44164659 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44164686 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44164701 GACTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
25 22 0.17
27 83 0.65
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44164586 original size:52 final size:54
Alignment explanation
Indices: 44164525--44164675 Score: 182
Period size: 55 Copynumber: 2.8 Consensus size: 54
44164515 TAAATTGTAC
*
44164525 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGA-ATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGACATGT
* * ** **
44164576 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAC-ATGT
* *
44164632 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAG
44164676 TTGATTATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 38 0.46
53 3 0.04
55 40 0.48
56 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGACATGT
Found at i:44170775 original size:40 final size:39
Alignment explanation
Indices: 44170719--44170855 Score: 195
Period size: 40 Copynumber: 3.5 Consensus size: 39
44170709 GGATGATAAC
44170719 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
44170758 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 C-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
44170798 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* * *
44170838 CCGGCTAAATTCCGAAGG
1 CGGGCTAAGTCCCGAAGG
44170856 TACTTGGTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
39 18 0.20
40 71 0.79
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:44178507 original size:242 final size:245
Alignment explanation
Indices: 44178193--44178957 Score: 825
Period size: 242 Copynumber: 3.1 Consensus size: 245
44178183 TAATAAACAA
* * * * * *
44178193 TAATATCTAATGTACTCCTATTATATATAACTATTATTGTAATATAGATTATAATAAAAGATATA
1 TAATATATAATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAAATATA
* *
44178258 GTATTATATGATATTATAATGTTTAATCGTAGATGCATATATACAAACTATTA-ATAT-T-TGAT
66 GTATTATATGATATTATAATGTTTAATCATTGATGCATATATACAAACTATTATATATATATGAT
* *
44178320 ATGATATAACATTATATGATATAGTAGGAGGCTAATTTTCAAATGAACGAAAAGTATAGGGGCTT
131 ATGATATAACATTATATAATATAGTAGGAGGCTAATTTTCAAATGTACGAAAAGTATAGGGGCTT
44178385 AGAGCATATTTCAACTAGTATAATAATAAACAATAATATATAATAATATG
196 AGAGCATATTTCAACTAGTATAATAATAAACAATAATATATAATAATATG
*
44178435 TAGTATATAATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAAATATA
1 TAATATATAATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAAATATA
* * * *
44178500 ATATTATATGATATTATAATGTTTAATCATTTATGCATATGTATAAACTATTAATATTTTATATA
66 GTATTATATGATATTATAATGTTTAATCATTGATGCATATATACAAACTA-T--TA---TATATA
* * * * *
44178565 CTATACTATATGATATACCATTATATAATATAATAGGAGAGATAACTTTCAAATGTACGAAAAGT
125 -TAT--GATATGATATAACATTATATAATATAGTAGGAG-GCTAATTTTCAAATGTACGAAAAGT
* * *
44178630 ATAGGGACTTA-AGGCATATTTCATCCAG--T-ATAAT----AAT-A-A-ATAATAATATG
186 ATAGGGGCTTAGA-GCATATTTCAACTAGTATAATAATAAACAATAATATATAATAATATG
* * *
44178680 TAATATATAATGTACTACTATTAT-TGTAACTATCATTATATTATATATTATAATAAAATATATA
1 TAATATATAATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAAATATA
* * * *
44178744 GTATTACATGATATTAT-ATCGCTTAATAATTGATGCACATATATAAACTATTAATATATTATAT
66 GTATTATATGATATTATAAT-GTTTAATCATTGATG--CATATAT--AC-A--AA-CTATTATAT
* *
44178808 ACTATATGATATGATATAATATTATATAATATAGTA--AGACTAATTTTCAAATGTACGAAAAGT
122 A-TATATGATATGATATAACATTATATAATATAGTAGGAGGCTAATTTTCAAATGTACGAAAAGT
* * * *
44178871 ATAAGGGCATAGAACATA-TTCAACTGGTATAATAATAAACAATAATATAGT-ATAATAAT-
186 ATAGGGGCTTAGAGCATATTTCAACTAGTATAATAATAAACAATAATATA-TAATAAT-ATG
*
44178930 TAATATATATGATGAACTACTATTATAT
1 TAATATATA--ATGTACTACTATTATAT
44178958 TATAGAATAA
Statistics
Matches: 433, Mismatches: 50, Indels: 69
0.78 0.09 0.12
Matches are distributed among these distances:
240 6 0.01
241 34 0.08
242 106 0.24
243 8 0.02
244 89 0.21
245 36 0.08
246 14 0.03
247 6 0.01
248 5 0.01
249 8 0.02
250 15 0.03
251 7 0.02
252 22 0.05
253 2 0.00
254 30 0.07
255 45 0.10
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (245 bp):
TAATATATAATGTACTACTATTATATATAACTATCATTATATTATAGATTATAATAAAAAATATA
GTATTATATGATATTATAATGTTTAATCATTGATGCATATATACAAACTATTATATATATATGAT
ATGATATAACATTATATAATATAGTAGGAGGCTAATTTTCAAATGTACGAAAAGTATAGGGGCTT
AGAGCATATTTCAACTAGTATAATAATAAACAATAATATATAATAATATG
Found at i:44178558 original size:27 final size:24
Alignment explanation
Indices: 44178498--44178558 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 24
44178488 ATAAAAAATA
**
44178498 TAATATTATATGATATTATAATGTT
1 TAATATT-TATGATATTATAAACTT
44178523 TAATCATTTATGCATATGTATAAACTAT
1 TAAT-ATTTATG-ATAT-TATAAACT-T
44178551 TAATATTT
1 TAATATTT
44178559 TATATACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 8 0.27
26 7 0.23
27 10 0.33
28 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (24 bp):
TAATATTTATGATATTATAAACTT
Found at i:44178798 original size:244 final size:242
Alignment explanation
Indices: 44177987--44179120 Score: 953
Period size: 244 Copynumber: 4.7 Consensus size: 242
44177977 AATATACATA
* * *
44177987 TAACTA-CTATTATAATATAGATTATAATAAAAGATATAGTATTACATAATATTATAAT-GTTTA
1 TAACTATC-ATTATATTATAGATTATAATAAAATATATA-TATTACATGATATTAT-ATCGTTTA
* ** *** *
44178050 ATCATCAACATATATATATACACACTATTAATA-TTT-TATACGATATGATAT-AT-T---ATTA
63 ATAATTGATGCATATATATA-A-ACTATTAATATTTTATATACTATATGATATGATATAACATTA
* * * * * * * *
44178108 TATAATATAGCAGGAGGGCTAACTTTTAAATGTACGAAAATTATAGAGACTTAAAGAATATTTCA
126 TATAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAGTATAG-GGCTTAGAGCATATTTCA
* * *
44178173 ACTAGT-T--TAAT-AATAA-ACA-A--TAATATCTAATGTACTCCTATTATATA
190 ACTAGTATAATAATAAATAATA-ATATGTAATATATAATGTACTACTATTAT-TG
* * * * *
44178220 TAACTATTATTGTAATATAGATTATAATAAAAGATATAGTATTATATGATATTATAAT-GTTTAA
1 TAACTATCATTATATTATAGATTATAATAAAATATATA-TATTACATGATATTAT-ATCGTTTAA
** * *
44178284 TCGTAGATGCATATATACAAAC------TA--TTA-ATA-T-T-TGATATGATATAACATTATAT
64 TAATTGATGCATATATATAAACTATTAATATTTTATATACTATATGATATGATATAACATTATAT
* * * *
44178337 GATATAGTAGGAG-GCTAATTTTCAAATGAACGAAAAGTATAGGGGCTTAGAGCATATTTCAACT
129 AATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAGTATA-GGGCTTAGAGCATATTTCAACT
* *
44178401 AGTATAATAATAAACAATAATATATAATAATATGTAGTATATAATGTACTACTATTATATA
193 AG--T-ATAAT----AAT-A-A-ATAATAATATGTAATATATAATGTACTACTATTAT-TG
* *
44178462 TAACTATCATTATATTATAGATTATAATAAAAAATATAATATTATATGATATTATAAT-GTTTAA
1 TAACTATCATTATATTATAGATTATAATAAAATATAT-ATATTACATGATATTAT-ATCGTTTAA
* * * *
44178526 TCATTTATGCATATGTATAAACTATTAATATTTTATATACTATACT-ATATGATATACCATTATA
64 TAATTGATGCATATATATAAACTATTAATATTTTATATACTATA-TGATATGATATAACATTATA
* *
44178590 TAATATAATAGGAGAGATAACTTTCAAATGTACGAAAAGTATAGGGACTTA-AGGCATATTTCAT
128 TAATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAGTATAGGG-CTTAGA-GCATATTTCAA
*
44178654 CCAGTATAATAATAAATAATAATATGTAATATATAATGTACTACTATTATTG
191 CTAGTATAATAATAAATAATAATATGTAATATATAATGTACTACTATTATTG
* *
44178706 TAACTATCATTATATTATATATTATAATAAAATATATAGTATTACATGATATTATATCGCTTAAT
1 TAACTATCATTATATTATAGATTATAATAAAATATATA-TATTACATGATATTATATCGTTTAAT
* * *
44178771 AATTGATGCACATATATAAACTATTAATATATTATATACTATATGATATGATATAATATTATATA
65 AATTGATGCATATATATAAACTATTAATATTTTATATACTATATGATATGATATAACATTATATA
* * * * *
44178836 ATATAGTA--AGA-CTAATTTTCAAATGTACGAAAAGTATAAGGGCATAGAACATA-TTCAACTG
130 ATATAGTAGGAGAGATAACTTTCAAATGTACGAAAAGTAT-AGGGCTTAGAGCATATTTCAACTA
* *
44178897 GTATAATAATAAACAATAATATAGT-ATA-ATAAT-TAATA-TA-TA-TG
194 GTATAATAATAAATAATAATAT-GTAATATATAATGTACTACTATTATTG
* * * *
44178941 ATGAACTA-CTATTATATTATAGAATA-ACATAAAAGGTAT-TATATTACGTGATATTATAACAT
1 -T-AACTATC-ATTATATTATAGATTATA-ATAAAA--TATATATATTACATGATATTATATCGT
*
44179003 TTAATCATTAATGCATATGCATATATATAAACTATTAATATATTT-TATACTATATGATATGATA
60 TTAAT-A--ATTG---ATGCATATATATAAACTATTAATAT-TTTATATACTATATGATATGATA
* *
44179067 TAACATTATATAATATAGTAGGAGAGCA-AACTTTCAAATGTAGGAAAAATATAG
118 TAACATTATATAATATAGTAGGAGAG-ATAACTTTCAAATGTACGAAAAGTATAG
44179121 AGATTTAGAG
Statistics
Matches: 757, Mismatches: 78, Indels: 120
0.79 0.08 0.13
Matches are distributed among these distances:
221 6 0.01
222 3 0.00
223 1 0.00
224 5 0.01
225 46 0.06
226 19 0.03
227 1 0.00
229 1 0.00
231 3 0.00
232 1 0.00
233 71 0.09
235 5 0.01
236 5 0.01
237 49 0.06
238 8 0.01
239 13 0.02
240 34 0.04
241 33 0.04
242 107 0.14
243 67 0.09
244 122 0.16
245 39 0.05
246 22 0.03
247 1 0.00
248 5 0.01
250 3 0.00
251 3 0.00
252 6 0.01
253 2 0.00
254 33 0.04
255 43 0.06
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.38
Consensus pattern (242 bp):
TAACTATCATTATATTATAGATTATAATAAAATATATATATTACATGATATTATATCGTTTAATA
ATTGATGCATATATATAAACTATTAATATTTTATATACTATATGATATGATATAACATTATATAA
TATAGTAGGAGAGATAACTTTCAAATGTACGAAAAGTATAGGGCTTAGAGCATATTTCAACTAGT
ATAATAATAAATAATAATATGTAATATATAATGTACTACTATTATTG
Found at i:44179501 original size:27 final size:27
Alignment explanation
Indices: 44179458--44179511 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
44179448 GGTATTAGAC
* *
44179458 TTGAGATTTGGGCATAATTAGTTTATT
1 TTGAGATTTGGGCATAATGAGTATATT
*
44179485 TTGAG-TTTGGGTGATAATGAGTATATT
1 TTGAGATTTGGG-CATAATGAGTATATT
44179512 GTTTGGTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (27 bp):
TTGAGATTTGGGCATAATGAGTATATT
Found at i:44180649 original size:44 final size:44
Alignment explanation
Indices: 44180599--44180686 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
44180589 CCCTAAGGGA
44180599 AAACTCCAAAAACCGTAAGCTTTTAGCCATTAAATTTGTGAGTT
1 AAACTCCAAAAACCGTAAGCTTTTAGCCATTAAATTTGTGAGTT
44180643 AAACTCCAAAAACCGTAAGCTTTTAGCCATTAAATTTGTGAGTT
1 AAACTCCAAAAACCGTAAGCTTTTAGCCATTAAATTTGTGAGTT
44180687 CAATTAGGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (44 bp):
AAACTCCAAAAACCGTAAGCTTTTAGCCATTAAATTTGTGAGTT
Found at i:44181380 original size:21 final size:21
Alignment explanation
Indices: 44181356--44181411 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
44181346 AACAGCGGTG
* *
44181356 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
44181377 GCGGTGAGACTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
44181398 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
44181412 AACAATGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:44183554 original size:20 final size:20
Alignment explanation
Indices: 44183529--44183574 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44183519 ATTGGGCCTT
44183529 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
44183549 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
44183568 GCCCATA
1 GCCCATA
44183575 ACAAAATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:44185378 original size:180 final size:180
Alignment explanation
Indices: 44185076--44185438 Score: 681
Period size: 180 Copynumber: 2.0 Consensus size: 180
44185066 GAAGGAAGAA
44185076 TTCGGTACTTAGGAGATCTAACTTTGCATTTTTCGGCTTTTTGAGATACTGAGAAGAGAATAGAA
1 TTCGGTACTTAGGAGATCTAACTTTGCATTTTTCGGCTTTTTGAGATACTGAGAAGAGAATAGAA
*
44185141 TGAAAGGGAAGGCTCTAGGTGGCTAACCCTAATTCGGTAAAACAAAAAGAAAATAAAGCTTGCCC
66 TAAAAGGGAAGGCTCTAGGTGGCTAACCCTAATTCGGTAAAACAAAAAGAAAATAAAGCTTGCCC
44185206 TAATGGCCATTCAAACCCACAGCCCAACCTTCCTAAAGCCCTAATCAAAT
131 TAATGGCCATTCAAACCCACAGCCCAACCTTCCTAAAGCCCTAATCAAAT
44185256 TTCGGTACTTAGGAGATCTAACTTTGCATTTTTCGGCTTTTTGAGATACTGAGAAGAGAATAGAA
1 TTCGGTACTTAGGAGATCTAACTTTGCATTTTTCGGCTTTTTGAGATACTGAGAAGAGAATAGAA
*
44185321 TAAAAGGGAAGGCTCTAGGTGGCTAACCTTAATTCGGTAAAACAAAAAGAAAATAAAGCTTGCCC
66 TAAAAGGGAAGGCTCTAGGTGGCTAACCCTAATTCGGTAAAACAAAAAGAAAATAAAGCTTGCCC
* * *
44185386 TAATGGCCATTCAAACCCACGGCTCAACCTTCCTAAAGCCCTAATCGAAT
131 TAATGGCCATTCAAACCCACAGCCCAACCTTCCTAAAGCCCTAATCAAAT
44185436 TTC
1 TTC
44185439 CACTTAAGCT
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 178 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (180 bp):
TTCGGTACTTAGGAGATCTAACTTTGCATTTTTCGGCTTTTTGAGATACTGAGAAGAGAATAGAA
TAAAAGGGAAGGCTCTAGGTGGCTAACCCTAATTCGGTAAAACAAAAAGAAAATAAAGCTTGCCC
TAATGGCCATTCAAACCCACAGCCCAACCTTCCTAAAGCCCTAATCAAAT
Found at i:44189774 original size:32 final size:32
Alignment explanation
Indices: 44189735--44189862 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
44189725 CATAAAAAAT
44189735 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
44189767 ATCATACATTAGGTTTACATATAAAAAAGTTG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
44189799 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
44189831 ATCATACATTAGTTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
44189863 TATAGTTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 90 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:44190595 original size:7 final size:7
Alignment explanation
Indices: 44190583--44190616 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
44190573 CCTACAAAAC
44190583 ATGTTAA
1 ATGTTAA
44190590 ATGTTAA
1 ATGTTAA
44190597 ATGTTAA
1 ATGTTAA
44190604 ATGTTAA
1 ATGTTAA
44190611 ATGTTA
1 ATGTTA
44190617 TACTCAGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (7 bp):
ATGTTAA
Found at i:44192152 original size:24 final size:22
Alignment explanation
Indices: 44192107--44192155 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
44192097 TTTAGATCGA
*
44192107 TTTAATTTTTTGTTTTTATTAT
1 TTTAATTTTTTGTATTTATTAT
44192129 TTTAATTTGTTTAGTATTTATTAT
1 TTTAATTT-TTT-GTATTTATTAT
44192153 TTT
1 TTT
44192156 TACCAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 8 0.33
23 3 0.12
24 13 0.54
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTAATTTTTTGTATTTATTAT
Found at i:44193416 original size:28 final size:28
Alignment explanation
Indices: 44193384--44193441 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
44193374 TTGATTTTGA
44193384 GTTTTATAATCTGGGTATTTGCAGAATT
1 GTTTTATAATCTGGGTATTTGCAGAATT
44193412 GTTTTATAATCTGGGTATTTGCAGAATT
1 GTTTTATAATCTGGGTATTTGCAGAATT
44193440 GT
1 GT
44193442 AAGTTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (28 bp):
GTTTTATAATCTGGGTATTTGCAGAATT
Found at i:44195277 original size:42 final size:41
Alignment explanation
Indices: 44195214--44195348 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 41
44195204 CAGTTCAGCC
*
44195214 GATGATGC-ATTACGTGCCAGTATAATTGCTTTGGTATATTT
1 GATGATGCAATTACATGCCAGTATAATTG-TTTGGTATATTT
* * * * * *
44195255 GATGATGCAATTACATGTCAGTATATTTTTTTTAGTACATCT
1 GATGATGCAATTACATGCCAGTATA-ATTGTTTGGTATATTT
* * * *
44195297 GATGATGCACTTTGCATGCCAGTATGATTGTTTCGGTTTATTT
1 GATGATGCA-ATTACATGCCAGTATAATTGTTT-GGTATATTT
44195340 GATGATGCA
1 GATGATGCA
44195349 CTATGTGTGC
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
41 8 0.11
42 37 0.51
43 28 0.38
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (41 bp):
GATGATGCAATTACATGCCAGTATAATTGTTTGGTATATTT
Found at i:44195397 original size:43 final size:43
Alignment explanation
Indices: 44195293--44195399 Score: 151
Period size: 43 Copynumber: 2.5 Consensus size: 43
44195283 TTTTTAGTAC
* ** * *
44195293 ATCTGATGATGCACTTTGCATGCCAGTATGATTGTTTCGGTTT
1 ATCTGATGATGCACTATGTGTGCCAATATGATTGGTTCGGTTT
*
44195336 ATTTGATGATGCACTATGTGTGCCAATATGATTGGTTCGGTTT
1 ATCTGATGATGCACTATGTGTGCCAATATGATTGGTTCGGTTT
*
44195379 GTCTGATGATGCACTATGTGT
1 ATCTGATGATGCACTATGTGT
44195400 TCCAGTATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (43 bp):
ATCTGATGATGCACTATGTGTGCCAATATGATTGGTTCGGTTT
Found at i:44195469 original size:43 final size:43
Alignment explanation
Indices: 44195383--44195480 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
44195373 CGGTTTGTCT
44195383 GATGATGCACTATGTGTTCCAGTATACATTTTTTGGTACATCC
1 GATGATGCACTATGTGTTCCAGTATACATTTTTTGGTACATCC
* * * **
44195426 GGTGATGCACTATGTGTGT-CAGTATA-TTTTCTTTTGTTTATCC
1 GATGATGCACTATGTGT-TCCAGTATACATTT-TTTGGTACATCC
44195469 GATGATGCACTA
1 GATGATGCACTA
44195481 CAGTGCAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.06
43 43 0.91
44 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (43 bp):
GATGATGCACTATGTGTTCCAGTATACATTTTTTGGTACATCC
Found at i:44199086 original size:11 final size:12
Alignment explanation
Indices: 44199066--44199103 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
44199056 CGATATATGA
44199066 TAAATATTAA-AT
1 TAAAT-TTAATAT
44199078 TAAATTTAATAT
1 TAAATTTAATAT
44199090 T-AATTTAATAT
1 TAAATTTAATAT
44199101 TAA
1 TAA
44199104 GATAATCGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAATTTAATAT
Found at i:44206315 original size:20 final size:18
Alignment explanation
Indices: 44206290--44206339 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
44206280 CGGGCTGAGG
44206290 ACACGGGCGTGTCCAGAGCC
1 ACACGGGCGTGT-CAGA-CC
* *
44206310 ACACGGGTGTGTGAGACC
1 ACACGGGCGTGTCAGACC
*
44206328 ATACGGGCGTGT
1 ACACGGGCGTGT
44206340 GACTCTCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 3 0.12
20 11 0.42
ACGTcount: A:0.20, C:0.26, G:0.38, T:0.16
Consensus pattern (18 bp):
ACACGGGCGTGTCAGACC
Found at i:44211731 original size:10 final size:9
Alignment explanation
Indices: 44211716--44211766 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
44211706 TATCAAAATT
44211716 ATAATATAA
1 ATAATATAA
44211725 CATAATATAA
1 -ATAATATAA
*
44211735 ATATTATAA
1 ATAATATAA
*
44211744 AGAATTATAA
1 ATAA-TATAA
44211754 A-ACATATAA
1 ATA-ATATAA
44211763 ATAA
1 ATAA
44211767 GGAGCTGAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 18 0.51
10 17 0.49
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAATATAA
Found at i:44214832 original size:13 final size:12
Alignment explanation
Indices: 44214816--44214864 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 12
44214806 AAGTCTAGAG
44214816 AAAAAGAGAAAGA
1 AAAAAGA-AAAGA
44214829 AAAAAGAAAAAGA
1 AAAAAG-AAAAGA
44214842 AAAGAAGAAAGAGA
1 AAA-AAGAAA-AGA
44214856 AAAAA-AAAA
1 AAAAAGAAAA
44214865 TATAATGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 1 0.03
12 3 0.09
13 19 0.58
14 10 0.30
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:44214838 original size:6 final size:6
Alignment explanation
Indices: 44214814--44214863 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
44214804 TAAAGTCTAG
*
44214814 AGAAAA AGAGAA AGAAAAA AGAAAA AG-AAA AGAAGAA AGAGAAA A-AAAA
1 AGAAAA AGAAAA AG-AAAA AGAAAA AGAAAA AGAA-AA AGA-AAA AGAAAA
44214863 A
1 A
44214864 ATATAATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 9 0.24
6 15 0.39
7 13 0.34
8 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:44214850 original size:25 final size:24
Alignment explanation
Indices: 44214817--44214864 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
44214807 AGTCTAGAGA
44214817 AAAAGAGAAAGA-AAAAAGAAAAAG
1 AAAAGAGAAAGAGAAAAA-AAAAAG
44214841 AAAAGAAGAAAGAGAAAAAAAAAA
1 AAAAG-AGAAAGAGAAAAAAAAAA
44214865 TATAATGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 5 0.23
25 12 0.55
26 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (24 bp):
AAAAGAGAAAGAGAAAAAAAAAAG
Found at i:44221145 original size:16 final size:16
Alignment explanation
Indices: 44221124--44221155 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
44221114 ACAAAAATCG
44221124 GGCTATAAAAGTTTTT
1 GGCTATAAAAGTTTTT
44221140 GGCTATAAAAGTTTTT
1 GGCTATAAAAGTTTTT
44221156 CCTTCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
GGCTATAAAAGTTTTT
Found at i:44230302 original size:17 final size:17
Alignment explanation
Indices: 44230280--44230312 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44230270 TTCTTATCAT
*
44230280 TTATTATTTATCGGGCA
1 TTATTATTGATCGGGCA
44230297 TTATTATTGATCGGGC
1 TTATTATTGATCGGGC
44230313 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.45
Consensus pattern (17 bp):
TTATTATTGATCGGGCA
Found at i:44242252 original size:31 final size:31
Alignment explanation
Indices: 44242209--44242272 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
44242199 CCTTTTCATA
44242209 TTTCATAATTCATAACACTGGGCCAAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
* ** *
44242240 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
44242271 TT
1 TT
44242273 ACGGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCAAAGCCT
Found at i:44242512 original size:24 final size:24
Alignment explanation
Indices: 44242465--44242632 Score: 234
Period size: 24 Copynumber: 7.0 Consensus size: 24
44242455 GCTTTTTCAT
*
44242465 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
44242490 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
44242515 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44242538 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
***
44242562 ATAACTAAAGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
44242586 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44242610 ATAATTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44242633 GCACTTCCTC
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
23 24 0.18
24 75 0.58
25 25 0.19
26 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44242703 original size:9 final size:9
Alignment explanation
Indices: 44242689--44242765 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
44242679 ATCTCATGTG
44242689 CATATCATA
1 CATATCATA
*
44242698 CATATCATGTG
1 CATATCA--TA
44242709 CATATCATA
1 CATATCATA
* *
44242718 CATGTCATGTG
1 CATATCA--TA
44242729 CATATCATA
1 CATATCATA
*
44242738 CATATCATGTG
1 CATATCA--TA
44242749 CATATCATA
1 CATATCATA
44242758 CATATCAT
1 CATATCAT
44242766 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44242705 original size:20 final size:20
Alignment explanation
Indices: 44242677--44242767 Score: 164
Period size: 20 Copynumber: 4.5 Consensus size: 20
44242667 GCATTTATGA
*
44242677 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44242697 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
44242717 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44242737 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
44242757 ACATATCATGT
1 ACATATCATGT
44242768 TTATCAAAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:44242712 original size:11 final size:11
Alignment explanation
Indices: 44242682--44242756 Score: 72
Period size: 11 Copynumber: 7.4 Consensus size: 11
44242672 TATGAACATC
44242682 TCATGTGCATA
1 TCATGTGCATA
*
44242693 TCA--TACATA
1 TCATGTGCATA
44242702 TCATGTGCATA
1 TCATGTGCATA
* *
44242713 TCA--TACATG
1 TCATGTGCATA
44242722 TCATGTGCATA
1 TCATGTGCATA
*
44242733 TCA--TACATA
1 TCATGTGCATA
44242742 TCATGTGCATA
1 TCATGTGCATA
44242753 TCAT
1 TCAT
44242757 ACATATCATG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 23 0.46
11 27 0.54
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:44250391 original size:31 final size:31
Alignment explanation
Indices: 44250348--44250411 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
44250338 CCTTTTCATA
44250348 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
44250379 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
44250410 TT
1 TT
44250412 ACGGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:44250653 original size:25 final size:24
Alignment explanation
Indices: 44250600--44250719 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
44250590 GCTTTATCAT
* *
44250600 ATAACTGGAGCCT-AGCCTCTTTTA
1 ATAACTGGGGCATAAGCC-CTTTTA
44250624 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
44250649 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44250673 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
44250697 ATAACTGGGGCATATGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44250720 GCACCTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
23 1 0.01
24 63 0.72
25 17 0.20
26 6 0.07
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:44250671 original size:49 final size:48
Alignment explanation
Indices: 44250600--44250719 Score: 163
Period size: 49 Copynumber: 2.5 Consensus size: 48
44250590 GCTTTATCAT
* *
44250600 ATAACTGGAGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCC--TTTTA
*
44250649 ATAACTGGGGCATAAGCCCTTTTAATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
44250697 ATAACTGGGGCATATGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
44250720 GCACCTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
48 27 0.42
49 28 0.43
50 10 0.15
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:44250790 original size:9 final size:9
Alignment explanation
Indices: 44250776--44250852 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
44250766 ATCTCGTGTG
44250776 CATATCATA
1 CATATCATA
*
44250785 CATATCATGTG
1 CATATCA--TA
44250796 CATATCATA
1 CATATCATA
* *
44250805 CATGTCATGTG
1 CATATCA--TA
44250816 CATATCATA
1 CATATCATA
*
44250825 CATATCATGTG
1 CATATCA--TA
44250836 CATATCATA
1 CATATCATA
44250845 CATATCAT
1 CATATCAT
44250853 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44250795 original size:20 final size:20
Alignment explanation
Indices: 44250772--44250854 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
44250762 GAACATCTCG
44250772 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
44250792 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
44250812 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
44250832 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
44250852 TGT
1 TGT
44250855 TTATCAAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:44250801 original size:11 final size:11
Alignment explanation
Indices: 44250772--44250843 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
44250762 GAACATCTCG
44250772 TGTGCATATCA
1 TGTGCATATCA
*
44250783 --TACATATCA
1 TGTGCATATCA
44250792 TGTGCATATCA
1 TGTGCATATCA
* *
44250803 --TACATGTCA
1 TGTGCATATCA
44250812 TGTGCATATCA
1 TGTGCATATCA
*
44250823 --TACATATCA
1 TGTGCATATCA
44250832 TGTGCATATCA
1 TGTGCATATCA
44250843 T
1 T
44250844 ACATATCATG
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:44250919 original size:25 final size:25
Alignment explanation
Indices: 44250891--44250938 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44250881 ATATATAAAC
* *
44250891 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
44250916 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
44250939 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:44260566 original size:46 final size:45
Alignment explanation
Indices: 44260462--44260628 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
44260452 AAGCTGACGC
* * * * * *
44260462 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC---TCTCTCTCAATGCCGATG
*
44260510 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGCCGATG
* *
44260556 CATGTCCCAGACATGTCTTACACTAGCTCTC-AT-AATGTGATCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAA--TG-CCGATG
44260602 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
44260629 ACACATATCA
Statistics
Matches: 105, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
43 2 0.02
44 1 0.01
45 4 0.04
46 73 0.70
48 25 0.24
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGCCGATG
Found at i:44263761 original size:41 final size:43
Alignment explanation
Indices: 44263687--44263805 Score: 122
Period size: 41 Copynumber: 2.8 Consensus size: 43
44263677 TGGCATCAAT
* * *
44263687 ATATGTGATTACGTATAATACCA-TGTCTGGGACATCGACATC-
1 ATATGTGATTACATGTAAGACCACTGTCTGGGACAT-GACATCG
* ** *
44263729 ATATTTGATT-TGTGTAAGACC-CTGTCTGGGACAGTGGCATCG
1 ATATGTGATTACATGTAAGACCACTGTCTGGGACA-TGACATCG
44263771 ATATGTGATTACATGTAAGACCAC-GTCTGGGACAT
1 ATATGTGATTACATGTAAGACCACTGTCTGGGACAT
44263806 TGGCATTGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
41 24 0.38
42 20 0.31
43 19 0.30
44 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCACTGTCTGGGACATGACATCG
Found at i:44269040 original size:81 final size:82
Alignment explanation
Indices: 44268893--44269120 Score: 241
Period size: 81 Copynumber: 2.8 Consensus size: 82
44268883 GATTATGCAT
* ** * * * *
44268893 TAGCGGCGTTTGTAATA-AAACGCC-ATAAAAAATGAGTAATAGCGGCGTTTTTATTCAAATCGC
1 TAGCGGCGTTTTTGGTACAAACGCCGCTAAAAATTGAGAAATAGCGGCGTTTTTATCCAAATCGC
* *
44268956 CACTAAAAACTGAGCAA
66 CACTAAAAACTAAGAAA
* * *
44268973 TAGCGGCGTTTTTGGTCCAAACGCCGCTAAAAATTGAGAAATAGTGGCGTTTTTGTCCAAA-CGC
1 TAGCGGCGTTTTTGGTACAAACGCCGCTAAAAATTGAGAAATAGCGGCGTTTTTATCCAAATCGC
44269037 CACTAAAAACTAAGAAA
66 CACTAAAAACTAAGAAA
* * *** *
44269054 TAGCGGCGTTTTTGTTACAAACGCTGC-AAAAAGTTGATCTACAGCGGCGTTTTTTATCCAAA-C
1 TAGCGGCGTTTTTGGTACAAACGCCGCTAAAAA-TTGAGAAATAGCGGCG-TTTTTATCCAAATC
44269117 GCCA
64 GCCA
44269121 TAAGAAGTTG
Statistics
Matches: 123, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 18 0.15
81 60 0.49
82 45 0.37
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (82 bp):
TAGCGGCGTTTTTGGTACAAACGCCGCTAAAAATTGAGAAATAGCGGCGTTTTTATCCAAATCGC
CACTAAAAACTAAGAAA
Found at i:44269085 original size:40 final size:41
Alignment explanation
Indices: 44268910--44269077 Score: 216
Period size: 41 Copynumber: 4.1 Consensus size: 41
44268900 GTTTGTAATA
* * *
44268910 AAACGCCA-TAAAAAATGAGTAATAGCGGCGTTTTTATT-C
1 AAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTGTTCC
* *
44268949 AAATCGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
1 AAA-CGCCACTAAAAACTGAGAAATAGCGGCGTTTTTGTTCC
* * *
44268991 AAACGCCGCTAAAAATTGAGAAATAGTGGCGTTTTTG-TCC
1 AAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTGTTCC
* *
44269031 AAACGCCACTAAAAACTAAGAAATAGCGGCGTTTTTGTTAC
1 AAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTGTTCC
44269072 AAACGC
1 AAACGC
44269078 TGCAAAAAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 41 0.37
41 64 0.57
42 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGAAATAGCGGCGTTTTTGTTCC
Found at i:44269445 original size:21 final size:22
Alignment explanation
Indices: 44269396--44269445 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
44269386 GTATGGCTTT
*
44269396 TTCTAAACCCCTAAACATTAAA
1 TTCTAAACCCCTAAACACTAAA
*
44269418 TAT-TAAA-CCCTAAACCCTAAA
1 T-TCTAAACCCCTAAACACTAAA
44269439 TTCTAAA
1 TTCTAAA
44269446 AACATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 17 0.71
22 5 0.21
23 1 0.04
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (22 bp):
TTCTAAACCCCTAAACACTAAA
Found at i:44269890 original size:7 final size:7
Alignment explanation
Indices: 44269875--44269983 Score: 62
Period size: 7 Copynumber: 15.7 Consensus size: 7
44269865 GTTCATGGAA
*
44269875 TTAGTGT
1 TTAGGGT
44269882 TTAGGGT
1 TTAGGGT
***
44269889 TTAAAAT
1 TTAGGGT
44269896 TTA-GGT
1 TTAGGGT
* *
44269902 TTAAGTT
1 TTAGGGT
*
44269909 TTAAGGT
1 TTAGGGT
44269916 TTAGGGT
1 TTAGGGT
44269923 GTT-GGGT
1 -TTAGGGT
*
44269930 TTATGGT
1 TTAGGGT
*
44269937 TTA-GTT
1 TTAGGGT
44269943 TATAGGGT
1 T-TAGGGT
44269951 TTAGGGT
1 TTAGGGT
**
44269958 TTAGTCT
1 TTAGGGT
*
44269965 ATAGGGT
1 TTAGGGT
*
44269972 TTTGGGT
1 TTAGGGT
44269979 TTAGG
1 TTAGG
44269984 ATATTGGGTA
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
6 9 0.12
7 63 0.82
8 5 0.06
ACGTcount: A:0.19, C:0.01, G:0.32, T:0.48
Consensus pattern (7 bp):
TTAGGGT
Found at i:44269950 original size:21 final size:21
Alignment explanation
Indices: 44269926--44269982 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
44269916 TTAGGGTGTT
*
44269926 GGGTTTATGGTTTAGTTTATA
1 GGGTTTATGGTTTAGTCTATA
*
44269947 GGGTTTAGGGTTTAGTCTATA
1 GGGTTTATGGTTTAGTCTATA
44269968 GGGTTT-TGGGTTTAG
1 GGGTTTAT-GGTTTAG
44269983 GATATTGGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.16, C:0.02, G:0.35, T:0.47
Consensus pattern (21 bp):
GGGTTTATGGTTTAGTCTATA
Done.