Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 128 of 362
Found at i:42238770 original size:22 final size:22
Alignment explanation
Indices: 42238745--42238787 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
42238735 ATACAAGTTA
42238745 AAAAAAAT-TCAATAAAAAATTC
1 AAAAAAATCTCAA-AAAAAATTC
*
42238767 AAAAAAATCTGAAAAAAAATT
1 AAAAAAATCTCAAAAAAAATT
42238788 GAAGTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAAATCTCAAAAAAAATTC
Found at i:42239702 original size:9 final size:10
Alignment explanation
Indices: 42239695--42239751 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
42239685 ACGAGAAAAC
42239695 AAAGAAAAGA
1 AAAGAAAAGA
42239705 AAAGAAAAAGA
1 AAAG-AAAAGA
*
42239716 AAATGAAGA-A
1 AAA-GAAAAGA
42239726 AAAGAAAATGA
1 AAAGAAAA-GA
42239737 AATA-AAAAGA
1 AA-AGAAAAGA
42239747 AAAGA
1 AAAGA
42239752 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 5 0.13
10 13 0.33
11 19 0.49
12 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:42239705 original size:5 final size:5
Alignment explanation
Indices: 42239695--42239751 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
42239685 ACGAGAAAAC
*
42239695 AAAGA AAAGA AAAGAA AAAGA AAATGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAGA AAA-GA AAAGA AAAGA AAA-GA AA-AGA
42239742 AAAGA AAAGA
1 AAAGA AAAGA
42239752 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 26 0.59
6 13 0.30
7 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (5 bp):
AAAGA
Found at i:42239726 original size:15 final size:16
Alignment explanation
Indices: 42239695--42239749 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
42239685 ACGAGAAAAC
42239695 AAAGAAAA-GAAAAGAA
1 AAAGAAAATG-AAAGAA
42239711 AAAGAAAATG-AAGAA
1 AAAGAAAATGAAAGAA
*
42239726 AAAGAAAATGAAATAA
1 AAAGAAAATGAAAGAA
42239742 AAAGAAAA
1 AAAGAAAA
42239750 GAGAGGCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 15 0.42
16 20 0.56
17 1 0.03
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAGAAAATGAAAGAA
Found at i:42239852 original size:24 final size:24
Alignment explanation
Indices: 42239825--42239874 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
42239815 AAAACAAAAA
* *
42239825 GAAAATGAAAATGAAAATGAGATT
1 GAAAAGGAAAATGAAAAAGAGATT
* *
42239849 GAAAAGGAGAATGAAAAAGAGTTT
1 GAAAAGGAAAATGAAAAAGAGATT
42239873 GA
1 GA
42239875 GAGAGAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (24 bp):
GAAAAGGAAAATGAAAAAGAGATT
Found at i:42239916 original size:18 final size:19
Alignment explanation
Indices: 42239880--42239918 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
42239870 TTTGAGAGAG
*
42239880 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
42239899 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
42239917 AA
1 AA
42239919 TTGAGATAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:42243889 original size:27 final size:26
Alignment explanation
Indices: 42243859--42243923 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
42243849 GTCAAAATTA
* * *
42243859 ACCTTAGGGGTATAACGGTCATTTTGC
1 ACCTTAGGGGTAAAACGATAATTTT-C
42243886 ACC-TAGGGGTAAAACGATAATTTTC
1 ACCTTAGGGGTAAAACGATAATTTTC
*
42243911 ATACTTAGGGGTA
1 A-CCTTAGGGGTA
42243924 GTTTAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.59
27 11 0.34
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (26 bp):
ACCTTAGGGGTAAAACGATAATTTTC
Found at i:42247337 original size:91 final size:91
Alignment explanation
Indices: 42247219--42247404 Score: 318
Period size: 91 Copynumber: 2.0 Consensus size: 91
42247209 TATGAAGGGT
* ** *
42247219 AGAATTGTAATGCCCCAAATTTAGGCCTAGAAGTATTGGGTCTTGTTTATGGGAGCAGGTAGGAG
1 AGAATTGTAATGCCCCAAATTTAGGCCTAAAAGTATTGGGTCTTGTGCATGGAAGCAGGTAGGAG
*
42247284 GCGGCAAATAAATAGTTAGTTGTGGA
66 GCGACAAATAAATAGTTAGTTGTGGA
*
42247310 AGAATTGTAATGCCCCAAATTTGGGCCTAAAAGTATTGGGTCTTGTGCATGGAAGCAGGTAGGAG
1 AGAATTGTAATGCCCCAAATTTAGGCCTAAAAGTATTGGGTCTTGTGCATGGAAGCAGGTAGGAG
42247375 GCGACAAATAAATAGTTAGTTGTGGA
66 GCGACAAATAAATAGTTAGTTGTGGA
42247401 AGAA
1 AGAA
42247405 AGTGACACAA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (91 bp):
AGAATTGTAATGCCCCAAATTTAGGCCTAAAAGTATTGGGTCTTGTGCATGGAAGCAGGTAGGAG
GCGACAAATAAATAGTTAGTTGTGGA
Found at i:42249266 original size:27 final size:28
Alignment explanation
Indices: 42249167--42249267 Score: 127
Period size: 27 Copynumber: 3.7 Consensus size: 28
42249157 TCTTATGTGA
* *
42249167 TAAAATGACCGAAAT-GCCATCATAGGG
1 TAAAATGACCGAAATACCCCTCATAGGG
42249194 TAAAATGACCGAAATA-CCCTCATAGGG
1 TAAAATGACCGAAATACCCCTCATAGGG
* *
42249221 TAGAATGACCAAAATACCCCT-ATAGGG
1 TAAAATGACCGAAATACCCCTCATAGGG
* *
42249248 TAAAATGACTGTAATACCCC
1 TAAAATGACCGAAATACCCC
42249268 CGTAAGTTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 61 0.94
28 4 0.06
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (28 bp):
TAAAATGACCGAAATACCCCTCATAGGG
Found at i:42249349 original size:22 final size:24
Alignment explanation
Indices: 42249318--42249367 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
42249308 TTGTATTTGA
*
42249318 GCATGCCATGGTAT-ATG-TATGTT
1 GCATGCCAT-GTATAATGTTAAGTT
42249341 GCAT-CCATGTATAATGTTAAGTT
1 GCATGCCATGTATAATGTTAAGTT
42249364 GCAT
1 GCAT
42249368 TGCATGGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 7 0.29
23 13 0.54
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (24 bp):
GCATGCCATGTATAATGTTAAGTT
Found at i:42249681 original size:18 final size:18
Alignment explanation
Indices: 42249629--42249684 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
42249619 GCTTGCATAT
42249629 TGCACTGATTACTGTTAC
1 TGCACTGATTACTGTTAC
*
42249647 TGCATTGA--ACATGGTTAC
1 TGCACTGATTAC-T-GTTAC
42249665 TGCACTGATTACTGTTAC
1 TGCACTGATTACTGTTAC
42249683 TG
1 TG
42249685 AAATGGGCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.06
17 1 0.03
18 26 0.81
19 1 0.03
20 2 0.06
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (18 bp):
TGCACTGATTACTGTTAC
Found at i:42250639 original size:106 final size:105
Alignment explanation
Indices: 42250450--42250659 Score: 305
Period size: 106 Copynumber: 2.0 Consensus size: 105
42250440 AGGTAAATAA
* * *
42250450 TTAGTAAAATAACATTAAAGAAATAAGAAAAAAAAAGAAGTGTATCATCTTCGTTAGTTGGGGCT
1 TTAGTAAAATAACATTAAACAAATAAGAAAAAAAAAGAAGTGTATCATCTTCCTTAATTGGGGCT
*
42250515 GGCTGCCGAAAAATAGAAAGAAAAGAAGCCATTAGAGAGC
66 GGCTACCGAAAAATAGAAAGAAAAGAAGCCATTAGAGAGC
* * * *
42250555 TTAGTAAAATAACGTTAAACAAATAAGGGAAAAAAAAGAAGTTTATCATCTTCCTTAATTGGGGG
1 TTAGTAAAATAACATTAAACAAATAA-GAAAAAAAAAGAAGTGTATCATCTTCCTTAATTGGGGC
* *
42250620 TTGCTACCGAAAAGA-AGAAAGAAAAGATGCCATTAGAGAG
65 TGGCTACCGAAAA-ATAGAAAGAAAAGAAGCCATTAGAGAG
42250660 TGCTGGAAGT
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
105 24 0.26
106 68 0.73
107 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.22
Consensus pattern (105 bp):
TTAGTAAAATAACATTAAACAAATAAGAAAAAAAAAGAAGTGTATCATCTTCCTTAATTGGGGCT
GGCTACCGAAAAATAGAAAGAAAAGAAGCCATTAGAGAGC
Found at i:42251628 original size:70 final size:70
Alignment explanation
Indices: 42251511--42251653 Score: 187
Period size: 70 Copynumber: 2.0 Consensus size: 70
42251501 GGTAATTAAT
* ** * *
42251511 ATCGTCAATTCGTTCGGCTAGTGCTGGGCACATCAATAGTCTGTTATCCGACTAACGCTGGGCGC
1 ATCGTCAATTCGTTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGC
42251576 AAAAC
66 AAAAC
* * * * * *
42251581 ATCGTTAATTCGTTCGACTAGTGCTGGGCACATCCATCGTCAATTATCTAACTAGCGCTAGGTGC
1 ATCGTCAATTCGTTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGC
42251646 AAAAC
66 AAAAC
42251651 ATC
1 ATC
42251654 ATTGATTCAT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (70 bp):
ATCGTCAATTCGTTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGC
AAAAC
Found at i:42251673 original size:70 final size:70
Alignment explanation
Indices: 42251517--42251675 Score: 174
Period size: 70 Copynumber: 2.3 Consensus size: 70
42251507 TAATATCGTC
* * ** * *
42251517 AATTCGTTCGGCTAGTGCTGGGCACATCAATAGTCTGTTATCCGACTAACGCTGGGCGCAAAACA
1 AATTCATTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGCAAAACA
*
42251582 TCGTT
66 TCATT
* * * * * *
42251587 AATTCGTTCGACTAGTGCTGGGCACATCCATCGTCAATTATCTAACTAGCGCTAGGTGCAAAACA
1 AATTCATTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGCAAAACA
42251652 TCATT
66 TCATT
* * *
42251657 GATTCATTTGATTAGTGCT
1 AATTCATTCGACTAGTGCT
42251676 AGGCCATTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
70 74 1.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (70 bp):
AATTCATTCGACTAGTGCTGGGCACATCAATAGTCAATTATCCAACTAACGCTAGGCGCAAAACA
TCATT
Found at i:42258541 original size:22 final size:22
Alignment explanation
Indices: 42258466--42258541 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
42258456 ACATGCATAT
*
42258466 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
42258488 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
42258512 CATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
42258535 ATGTGAT
1 ATGTGAT
42258542 GAACGTGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.24
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:42258578 original size:47 final size:47
Alignment explanation
Indices: 42258067--42258544 Score: 650
Period size: 47 Copynumber: 10.2 Consensus size: 47
42258057 AAGATTTTAG
* ** * * * *
42258067 GTGATGGATGTGAATGTGTATACATGAGATAAGGCCGAATGGCAAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * * *
42258114 GTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * * * **
42258161 GTGATGAATGTGAACATGCATTTGTATGCTAAGGCCGAATGGAAAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * *
42258208 GTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * *
42258255 GTGATGAATGTGAACATGTATATGTGTGATAAGGGCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
*
42258302 GTGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
*
42258349 GTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * * *
42258396 CTGATGAATGTGAACATGCATATGTGTGATAAGGCCAAATGGACAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* *
42258443 GTGAAGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
* * *
42258490 GTGATAAATGTGAACATGCATACATGTGATAAGGCAGAATGGCCAAT
1 GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
42258537 GTGATGAA
1 GTGATGAA
42258545 CGTGGATGTG
Statistics
Matches: 388, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 388 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
GTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAAT
Found at i:42260122 original size:47 final size:46
Alignment explanation
Indices: 42260053--42260316 Score: 259
Period size: 46 Copynumber: 5.7 Consensus size: 46
42260043 GTGCCAATGC
*
42260053 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGCCGATG
* * *
42260099 TCATGTCCCAGACATGGTCTTACACTGAC-AATCATCTCGTAGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGCCGATG
* * *
42260147 CATGTCCCAGACATGTCTTACACTGGCTTA-CGTCTCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GCCGATG
* * *
42260193 CATGTCCCAGACATGTCTTACACTAGC-CCTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GCCGATG
* * * ***
42260239 CCATGTCCCGGACATGGTCTTACACTAGCTC-TCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCAT-CTCAAGCCGATG
*
42260287 CATGTCCCAGACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTGGCTCA
42260317 CACAAGTGAC
Statistics
Matches: 186, Mismatches: 21, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 80 0.43
47 73 0.39
48 30 0.16
49 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGCCGATG
Found at i:42260305 original size:140 final size:140
Alignment explanation
Indices: 42260053--42260310 Score: 362
Period size: 140 Copynumber: 1.8 Consensus size: 140
42260043 GTGCCAATGC
* * *
42260053 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGTCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTC
*
42260118 TTACACTGACAATCATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACAATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
42260183 AAGGCTGATG
131 AAGGCTGATG
* * *
42260193 CATGTCCCAGACAT-GTCTTACACTAGC-CCTCGTCTCAATGCCGATGCCATGTCCCGGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCAA-GCCGATGCCATGTCCCAGACATGG
** *
42260256 TCTTACACT-AGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
64 TCTTACACTGA-CAATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACT
42260311 AGCTCACACA
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
138 2 0.02
139 19 0.18
140 82 0.79
141 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCAAGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACAATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
AAGGCTGATG
Found at i:42263629 original size:47 final size:47
Alignment explanation
Indices: 42263542--42263758 Score: 167
Period size: 47 Copynumber: 4.6 Consensus size: 47
42263532 TACGCTGCCA
** *
42263542 ATGCCATGTCCCAGACATGGTCTTACACTGGCCCATATCTC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACT-AACCATATCTCGAAGCCG
* * *
42263589 ATGCCATGTCCCAAACATGGTCTTACACTAACTATCATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACCAT-ATCTCGAAGCCG
* * * * * *
42263637 ATG-CATGTCCCAGATAT-GTCTTACACTAGCTTACATCTCGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC-CATATCTCGAAGCCG
* * ** * * *
42263683 AT-ACTTGTCTTAGACAT-GTCTTACACTAGCCCTTGTCTC-AATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTA-ACCATATCTCGAA-GCCG
*
42263729 ATGGCATGTCCCAGACATGGTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
42263759 GCTCTCATAA
Statistics
Matches: 134, Mismatches: 28, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
45 1 0.01
46 56 0.42
47 59 0.44
48 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACCATATCTCGAAGCCG
Found at i:42263674 original size:46 final size:47
Alignment explanation
Indices: 42263546--42263807 Score: 186
Period size: 46 Copynumber: 5.6 Consensus size: 47
42263536 CTGCCAATGC
* ** * *
42263546 CATGTCCCAGACATGGTCTTACACTGGCCCATATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAAGCCGATG
* * *
42263592 CCATGTCCCAAACATGGTCTTACACTAAC-TATCATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTA-CATCTCGAAGCCGATG
* * * *
42263640 CATGTCCCAGATAT-GTCTTACACTAGCTTACATCTCGAGGCTGATA
1 CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAAGCCGATG
* ** *
42263686 CTTGTCTTAGACAT-GTCTTACACTAGCCCTT--GTCTC-AATGCCGATGG
1 CATGTCCCAGACATGGTCTTACACTAG--CTTACATCTCGAA-GCCGAT-G
* **
42263733 CATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCGAAGCCGATG
*
42263780 CATGTCTCC-GACAT-GTCTTACTCTAGCT
1 CATGTC-CCAGACATGGTCTTACACTAGCT
42263808 CACACAAGTG
Statistics
Matches: 172, Mismatches: 30, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 71 0.41
47 68 0.40
48 31 0.18
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGAAGCCGATG
Found at i:42263786 original size:94 final size:92
Alignment explanation
Indices: 42263633--42263806 Score: 217
Period size: 94 Copynumber: 1.9 Consensus size: 92
42263623 TCATCTCGTA
* * * * *
42263633 GCCGATGCATGTCCCAGATATGTCTTACACTAGCTTACATCTCGAGGCTGATACTTGTCTTAGAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATACATGTCTCAGAC
42263698 ATGTCTTACACTAGCCCTTGTCTCAAT
66 ATGTCTTACACTAGCCCTTGTCTCAAT
* *
42263725 GCCGATGGCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATGTCTC
1 GCCGAT-GCATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATACATGTCTC
* *
42263788 CGACATGTCTTACTCTAGC
62 AGACATGTCTTACACTAGC
42263807 TCACACAAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 6 0.09
93 14 0.20
94 47 0.68
95 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATACATGTCTCAGAC
ATGTCTTACACTAGCCCTTGTCTCAAT
Found at i:42263806 original size:140 final size:140
Alignment explanation
Indices: 42263554--42263807 Score: 352
Period size: 140 Copynumber: 1.8 Consensus size: 140
42263544 GCCATGTCCC
* *
42263554 AGACATGGTCTTACACTGGCCCATATCTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTA
1 AGACATGGTCTTACACTAGCCCATATCTCAAGCCGATGCCATGTCCCAAACATGGTCTTACACTA
* *
42263619 ACTATCATCTCGTAGCCGATGCATGTCCCAGATATGTCTTACACTAGCTTACATCTCGAGGCTGA
66 ACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTGA
42263684 TACTTGTCTT
131 TACTTGTCTT
* * * *
42263694 AGACAT-GTCTTACACTAGCCCTTGTCTCAATGCCGATGGCATGTCCCAGACATGGTCTTACACT
1 AGACATGGTCTTACACTAGCCCATATCTCAA-GCCGATGCCATGTCCCAAACATGGTCTTACACT
* * * *
42263758 AGCTCTCATAAT-GTGGCCGATGCATGTCTCC-GACATGTCTTACTCTAGCT
65 AACTATCAT-ATCGTAGCCGATGCATGTC-CCAGACATGTCTTACACTAGCT
42263808 CACACAAGTG
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 21 0.21
140 75 0.76
141 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (140 bp):
AGACATGGTCTTACACTAGCCCATATCTCAAGCCGATGCCATGTCCCAAACATGGTCTTACACTA
ACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGAGGCTGA
TACTTGTCTT
Found at i:42266260 original size:39 final size:38
Alignment explanation
Indices: 42266215--42266325 Score: 100
Period size: 39 Copynumber: 2.9 Consensus size: 38
42266205 ATATACAATC
* *
42266215 TGGGCCTAAGCCCAATCCAGTGACAATTCAGTATCAGT
1 TGGGCCTAAGCCCATTACAGTGACAATTCAGTATCAGT
*
42266253 TAGGGCCTTAA-CCCATTACAGT-ATCATTATCAGTATCAGT
1 T-GGGCC-TAAGCCCATTACAGTGA-CAAT-TCAGTATCAGT
* * ** *
42266293 TGGGTCAAAGCCCATTTTAGTGACAATACAGTA
1 TGGGCCTAAGCCCATTACAGTGACAATTCAGTA
42266326 CAGATATGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
38 9 0.16
39 33 0.57
40 16 0.28
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (38 bp):
TGGGCCTAAGCCCATTACAGTGACAATTCAGTATCAGT
Found at i:42287700 original size:8 final size:8
Alignment explanation
Indices: 42287687--42287711 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
42287677 CCAGTTTCCT
42287687 ATTGTAAG
1 ATTGTAAG
42287695 ATTGTAAG
1 ATTGTAAG
42287703 ATTGTAAG
1 ATTGTAAG
42287711 A
1 A
42287712 AGCTGCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (8 bp):
ATTGTAAG
Found at i:42289820 original size:16 final size:17
Alignment explanation
Indices: 42289801--42289839 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
42289791 TCGAAATGCA
42289801 GAAAAGCT-GAAATGTT
1 GAAAAGCTAGAAATGTT
42289817 GAAAAG-TAGAAATGTT
1 GAAAAGCTAGAAATGTT
42289833 GAAAAGC
1 GAAAAGC
42289840 CAAAAGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 20 0.95
ACGTcount: A:0.49, C:0.05, G:0.26, T:0.21
Consensus pattern (17 bp):
GAAAAGCTAGAAATGTT
Found at i:42290097 original size:29 final size:29
Alignment explanation
Indices: 42290055--42290179 Score: 189
Period size: 29 Copynumber: 4.3 Consensus size: 29
42290045 GAAAGCATGT
*
42290055 ATATGAATGTGATTTGGGCCTAATGCGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
42290084 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42290113 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
42290142 ATATGAATG-AAATTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
42290170 ATATGCATGT
1 ATATGAATGT
42290180 ATGTAGACTT
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 24 0.27
29 64 0.73
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:42293150 original size:13 final size:13
Alignment explanation
Indices: 42293132--42293159 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42293122 ACAAAATTGG
42293132 AAAGATGAAAAAT
1 AAAGATGAAAAAT
42293145 AAAGATGAAAAAT
1 AAAGATGAAAAAT
42293158 AA
1 AA
42293160 TAAAAAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:42297408 original size:10 final size:10
Alignment explanation
Indices: 42297395--42297419 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42297385 TGTTATAACA
42297395 TTTTATTATG
1 TTTTATTATG
42297405 TTTTATTATG
1 TTTTATTATG
42297415 TTTTA
1 TTTTA
42297420 GGAACAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
TTTTATTATG
Found at i:42297603 original size:51 final size:50
Alignment explanation
Indices: 42297459--42297636 Score: 241
Period size: 51 Copynumber: 3.5 Consensus size: 50
42297449 ACTAGTTACT
* * *
42297459 CAAGTGTGGTACTTTGTGAAGGTCACTTTGAGAAG-AGATAGCTTTGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
* *
42297508 CAAGTGTGGTACTATGTCAAAGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTT-GTCA
* *
42297560 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTC-A
* *
42297611 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
42297637 CGGGTATCCA
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 30 0.26
50 2 0.02
51 45 0.39
52 37 0.32
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCA
Found at i:42297890 original size:14 final size:14
Alignment explanation
Indices: 42297871--42297898 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42297861 ACAGTTATAT
42297871 GACTTTGAAAAATC
1 GACTTTGAAAAATC
42297885 GACTTTGAAAAATC
1 GACTTTGAAAAATC
42297899 ACCAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
GACTTTGAAAAATC
Found at i:42305171 original size:19 final size:20
Alignment explanation
Indices: 42305131--42305171 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
42305121 TGAGTATAGG
*
42305131 AAAGCGAAAAAATGCGAGAA
1 AAAGCGAAAAAATGCGACAA
42305151 AAAG-GAAAAGAATG-GACAA
1 AAAGCGAAAA-AATGCGACAA
42305170 AA
1 AA
42305172 TAGGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.63, C:0.07, G:0.24, T:0.05
Consensus pattern (20 bp):
AAAGCGAAAAAATGCGACAA
Found at i:42306417 original size:17 final size:18
Alignment explanation
Indices: 42306397--42306433 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
42306387 TACTTTAGCC
42306397 ATTTTTATTTTTA-TTTA
1 ATTTTTATTTTTATTTTA
*
42306414 A-TTTTGTTTTTATTTTA
1 ATTTTTATTTTTATTTTA
42306431 ATT
1 ATT
42306434 ACTAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 3
0.81 0.05 0.14
Matches are distributed among these distances:
16 10 0.59
17 6 0.35
18 1 0.06
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
ATTTTTATTTTTATTTTA
Found at i:42306448 original size:24 final size:22
Alignment explanation
Indices: 42306398--42306452 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 22
42306388 ACTTTAGCCA
*
42306398 TTTTTATTTTTATTTAATTTTG
1 TTTTTATTTTAATTTAATTTTG
42306420 TTTTTATTTTAATTACTAATTTT-
1 TTTTTATTTTAATT--TAATTTTG
42306443 TCTTTTATTT
1 T-TTTTATTT
42306453 GCTTTTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 13 0.45
23 1 0.03
24 15 0.52
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTATTTTAATTTAATTTTG
Found at i:42311905 original size:13 final size:13
Alignment explanation
Indices: 42311887--42311912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
42311877 CGTTAAATCA
42311887 ACACGGCCGTGTG
1 ACACGGCCGTGTG
42311900 ACACGGCCGTGTG
1 ACACGGCCGTGTG
42311913 GGAACCTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGCCGTGTG
Found at i:42319490 original size:55 final size:55
Alignment explanation
Indices: 42319406--42319517 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
42319396 AAGAACTATC
*
42319406 TGTTGTATAATGTTACCCACTAGAAGATCAAAATATGCCATTATAAAGTAATGCA
1 TGTTGTATAATGTTACCCACTAGAAGATCAAAATATACCATTATAAAGTAATGCA
*
42319461 TGTTGTATAATGTTATCCACTAGAAGATCAAAATATACCATTATAAAGTAATGCA
1 TGTTGTATAATGTTACCCACTAGAAGATCAAAATATACCATTATAAAGTAATGCA
42319516 TG
1 TG
42319518 ATCAGTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.32
Consensus pattern (55 bp):
TGTTGTATAATGTTACCCACTAGAAGATCAAAATATACCATTATAAAGTAATGCA
Found at i:42323145 original size:41 final size:40
Alignment explanation
Indices: 42323026--42323174 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
42323016 GTTTGGATAA
** *
42323026 AAAAACGTAGCTATAGATCGAGCATTATAGGCGCTTTT-T
1 AAAAACGCCGCTATAGATCGAGCATTAGAGGCGCTTTTCT
* * *
42323065 GAAAAACGCCGCTATAGATCGAGAACTAGCGGCGCTTTTCT
1 -AAAAACGCCGCTATAGATCGAGCATTAGAGGCGCTTTTCT
* * *
42323106 AAAAACACCCGCTATAGATTGAGCATTAGAGGCGATTTTCT
1 AAAAAC-GCCGCTATAGATCGAGCATTAGAGGCGCTTTTCT
42323147 AAAAACGCCGCTATAGATCGAGCATTAG
1 AAAAACGCCGCTATAGATCGAGCATTAG
42323175 CGGTGCTCTA
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
40 58 0.62
41 35 0.38
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGAGGCGCTTTTCT
Found at i:42323221 original size:65 final size:64
Alignment explanation
Indices: 42323117--42323239 Score: 192
Period size: 65 Copynumber: 1.9 Consensus size: 64
42323107 AAAACACCCG
* * *
42323117 CTATAGATTGAGCATTAGAGGCGATTTTCTAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCT
1 CTATAGATCGAGAATTAGAGGCGATTTTCTAAAAACGCCG-TAAAGATCGAGCATTAGCGGTGCT
* *
42323182 CTATAGATCGAGAATTAGCGGCGCTTTTCTAAAAACGCCGTAAAGATCGAGCATTAGC
1 CTATAGATCGAGAATTAGAGGCGATTTTCTAAAAACGCCGTAAAGATCGAGCATTAGC
42323240 TGCGCTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
64 17 0.32
65 36 0.68
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (64 bp):
CTATAGATCGAGAATTAGAGGCGATTTTCTAAAAACGCCGTAAAGATCGAGCATTAGCGGTGCT
Found at i:42323245 original size:39 final size:40
Alignment explanation
Indices: 42323186--42323295 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 40
42323176 GGTGCTCTAT
* *
42323186 AGATCGAGAATTAGCGGCGCTTTTCT-AAAAACGCCG-TAA
1 AGATCGAGCATTAGCGGCGCTTTT-TAAAAAACACCGCTAA
* *
42323225 AGATCGAGCATTAGCTGCGCTTTTTAAAAAACACCGCTAG
1 AGATCGAGCATTAGCGGCGCTTTTTAAAAAACACCGCTAA
* * *
42323265 AGGTCGACCATTAGCGGCGCTTTTTGAAAAA
1 AGATCGAGCATTAGCGGCGCTTTTTAAAAAA
42323296 GGCCACAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 1 0.02
39 31 0.51
40 29 0.48
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCGCTTTTTAAAAAACACCGCTAA
Found at i:42323770 original size:7 final size:7
Alignment explanation
Indices: 42323758--42323912 Score: 80
Period size: 7 Copynumber: 21.9 Consensus size: 7
42323748 TATAGCTTAG
42323758 GGTTTAT
1 GGTTTAT
*
42323765 GGTTTAG
1 GGTTTAT
*
42323772 GGTTTAA
1 GGTTTAT
42323779 GGTTTAT
1 GGTTTAT
42323786 GAGTTACTAT
1 G-GTT--TAT
*
42323796 --TTTAA
1 GGTTTAT
42323801 GGTTTAT
1 GGTTTAT
*
42323808 GGATTAT
1 GGTTTAT
*
42323815 GGTTTAA
1 GGTTTAT
* **
42323822 GGGTTGG
1 GGTTTAT
*
42323829 GGTTTAA
1 GGTTTAT
42323836 GGTTTAT
1 GGTTTAT
* *
42323843 GGGTTAG
1 GGTTTAT
* *
42323850 GGGTTGT
1 GGTTTAT
*
42323857 GGGTTAT
1 GGTTTAT
42323864 GGGTTTAT
1 -GGTTTAT
42323872 GGTTTAT
1 GGTTTAT
*
42323879 GATTTAT
1 GGTTTAT
*
42323886 GTTTTAT
1 GGTTTAT
**
42323893 TATTTAT
1 GGTTTAT
* *
42323900 GATTTAG
1 GGTTTAT
42323907 GGTTTA
1 GGTTTA
42323913 GGGGATATGG
Statistics
Matches: 114, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
5 2 0.02
7 100 0.88
8 9 0.08
10 3 0.03
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (7 bp):
GGTTTAT
Found at i:42323771 original size:14 final size:14
Alignment explanation
Indices: 42323754--42323955 Score: 63
Period size: 14 Copynumber: 14.2 Consensus size: 14
42323744 CCATTATAGC
42323754 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
42323768 TTAGGGTTTAAGGT
1 TTAGGGTTTATGGT
*
42323782 TTATGAGTTACTAT--T
1 TTA-GGGTT--TATGGT
* *
42323797 TTAAGGTTTATGGA
1 TTAGGGTTTATGGT
* * *
42323811 TTATGGTTTAAGGG
1 TTAGGGTTTATGGT
* *
42323825 TTGGGGTTTAAGGT
1 TTAGGGTTTATGGT
*
42323839 TTATGGG-TTAGGGGT
1 TTA-GGGTTTA-TGGT
42323854 TGT-GGG-TTATGGGT
1 T-TAGGGTTTAT-GGT
* *
42323868 TTATGGTTTATGAT
1 TTAGGGTTTATGGT
* * **
42323882 TTATGTTTTATTAT
1 TTAGGGTTTATGGT
* * *
42323896 TTATGATTTAGGGT
1 TTAGGGTTTATGGT
** *
42323910 TTAGGGGATATGGG
1 TTAGGGTTTATGGT
* * *
42323924 ATAGGGATTAGGGGT
1 TTAGGGTTTA-TGGT
*
42323939 TTAGGGTTTAGGGT
1 TTAGGGTTTATGGT
42323953 TTA
1 TTA
42323956 CATTAATTAG
Statistics
Matches: 140, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
12 3 0.02
13 1 0.01
14 104 0.74
15 29 0.21
16 1 0.01
17 2 0.01
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:42326636 original size:23 final size:23
Alignment explanation
Indices: 42326604--42327122 Score: 474
Period size: 23 Copynumber: 22.7 Consensus size: 23
42326594 AAAGTGCAGC
* *
42326604 AAATTAAAGTGTTTAAATACTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
42326627 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
42326650 AAATTGAAGTG-TTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
42326672 AAATTGAAGTGTTTATATGATGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
42326695 AAATTGAAGTGCTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
** * *
42326718 AAATTGAAGTGTTTACGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
** *
42326741 AAATTGAAGTGTTTAGCTGCTGG
1 AAATTGAAGTGTTTAAATGCTGT
*
42326764 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * *
42326787 -AATTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
42326809 TAATTG-AGATG-TTAAAGTGCTGT
1 AAATTGAAG-TGTTTAAA-TGCTGT
42326832 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
42326855 AAATTGAAGTG-TTAAAGTGCTGC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
42326878 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
42326901 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* * * *
42326924 AAATTAAAGTGTTTAAGTACTGC
1 AAATTGAAGTGTTTAAATGCTGT
**
42326947 AAATTGAAGTGTTTAGCTGCTAG-
1 AAATTGAAGTGTTTAAATGCT-GT
*
42326970 AAATTG-AGATGTTT-TATCGCTGT
1 AAATTGAAG-TGTTTAAAT-GCTGT
* * * *
42326993 -AGTTGAGGTGTATAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
* *
42327015 TAATTG-AGATG-TTAAAGTGCTGC
1 AAATTGAAG-TGTTTAAA-TGCTGT
42327038 AAATTGAAGTGTTTAAATGCTGT
1 AAATTGAAGTGTTTAAATGCTGT
**
42327061 AAATTGAAGTG-TTAAAGTGCTAC
1 AAATTGAAGTGTTTAAA-TGCTGT
*
42327084 AAATTGAAGTGTTTAAATGTTGT
1 AAATTGAAGTGTTTAAATGCTGT
*
42327107 AAATTGAAGTTTTTAA
1 AAATTGAAGTGTTTAA
42327123 GTATTGCAAA
Statistics
Matches: 408, Mismatches: 62, Indels: 52
0.78 0.12 0.10
Matches are distributed among these distances:
22 73 0.18
23 310 0.76
24 25 0.06
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (23 bp):
AAATTGAAGTGTTTAAATGCTGT
Found at i:42326925 original size:137 final size:136
Alignment explanation
Indices: 42326594--42327116 Score: 467
Period size: 137 Copynumber: 3.8 Consensus size: 136
42326584 TGAAGATATG
* * * *
42326594 AAAGTGCAGCAAATTAAAGTGTTTAAATACTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAA
1 AAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAA-TGCTG-TAATTGAA
* *
42326658 GTGTTAAATGCTGTAAATTGAAGTGTTTATATGATGTAAATTGAAGTGCTTAAATGTTGTAAATT
64 GTGTTAAATGCTGTAAATTGAAGTGTTTAAATGATGTAAATTGAAGTGCTTAAATGCTGTAAATT
42326723 GAAGTGTT
129 GAAGTGTT
* * * ** * * *
42326731 TACGTACTGCAAATTGAAGTGTTTAGCTGCTGGAAATTG-AGATGTTT-TATCGCTGTAATTGAG
1 AAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG-TGTTTAAAT-GCTGTAATTGAA
* * * *
42326794 GTGTATAAATGTTGTTAATTG-AGATG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGCTGTAA
64 GTGT-TAAATGCTGTAAATTGAAG-TGTTTAAA-TGATGTAAATTGAAGTGCTTAAATGCTGTAA
42326857 ATTGAAGTGTT
126 ATTGAAGTGTT
* * *
42326868 AAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTAAAG
1 AAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGT-AATTGAAG
* * * ** * **
42326933 TGTTTAAGTACTGCAAATTGAAGTGTTTAGCTGCTAG-AAATTG-AGATG-TTTTATCGCTGT-A
65 TG-TTAAATGCTGTAAATTGAAGTGTTTAAATGAT-GTAAATTGAAG-TGCTTAAAT-GCTGTAA
* *
42326994 GTTGAGGTGTAT
126 ATTGAAGTGT-T
* ** *
42327006 AAA-TGTTGTTAATTG-AGATG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
1 AAAGTGCTGCAAATTGAAG-TGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGCTGT-AATTGA
** *
42327068 AGTGTTAAAGTGCTACAAATTGAAGTGTTTAAATGTTGTAAATTGAAGT
63 AGTGTTAAA-TGCTGTAAATTGAAGTGTTTAAATGATGTAAATTGAAGT
42327117 TTTTAAGTAT
Statistics
Matches: 312, Mismatches: 53, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
136 31 0.10
137 224 0.72
138 50 0.16
139 7 0.02
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (136 bp):
AAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAATGCTGTAATTGAAGT
GTTAAATGCTGTAAATTGAAGTGTTTAAATGATGTAAATTGAAGTGCTTAAATGCTGTAAATTGA
AGTGTT
Found at i:42326976 original size:206 final size:206
Alignment explanation
Indices: 42326623--42327122 Score: 869
Period size: 206 Copynumber: 2.4 Consensus size: 206
42326613 TGTTTAAATA
* *
42326623 CTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTAAA-TGCTGTAAATTGAAGTGTTT
1 CTGTAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTT
* * * * *
42326686 ATATGATGTAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTTACGTACTGCAAATTGAAGT
65 AAATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTAAAGTGTTTAAGTACTGCAAATTGAAGT
*
42326751 GTTTAGCTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGA
130 GTTTAGCTGCTAGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGA
42326816 GATGTTAAAGTG
195 GATGTTAAAGTG
42326828 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
42326893 AATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTG
66 AATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTG
*
42326958 TTTAGCTGCTAGAAATTGAGATGTTTTATCGCTGTAGTTGAGGTGTATAAATGTTGTTAATTGAG
131 TTTAGCTGCTAGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAG
42327023 ATGTTAAAGTG
196 ATGTTAAAGTG
* *
42327034 CTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTACAAATTGAAGTGTTTA
1 CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
*
42327099 AATGTTGTAAATTGAAGTTTTTAA
66 AATGTTGTAAATTGAAGTGTTTAA
42327123 GTATTGCAAA
Statistics
Matches: 281, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
205 36 0.13
206 245 0.87
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (206 bp):
CTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTA
AATGTTGTAAATTGAAGTGTTTAAATGTTGTAAATTAAAGTGTTTAAGTACTGCAAATTGAAGTG
TTTAGCTGCTAGAAATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAG
ATGTTAAAGTG
Found at i:42327867 original size:42 final size:43
Alignment explanation
Indices: 42327823--42328093 Score: 273
Period size: 43 Copynumber: 6.4 Consensus size: 43
42327813 GAACATGATT
* * * *
42327823 TTTAGTGGCGTTT-TTGGGAAAGCGTCGCTAAAAGTCAAGTTT
1 TTTAGCGGCGTTTGTTGGGAAAGCGTCGCTAAAGGTCATGTTC
* * * * * * *
42327865 TTTAGTGACGTTTATAGAGAGAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTTGGGAAAGCGTCGCTAAAGGTCATGTTC
* * * * *
42327908 TTTAGCGGTGTTT-TTAGGAAAGCG-CTGGTAAAAGTCAAGTTC
1 TTTAGCGGCGTTTGTTGGGAAAGCGTC-GCTAAAGGTCATGTTC
* *
42327950 TTTAGCGGCGTTTG-TGGAGAAAGTGCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTTGG-GAAAGCGTCGCTAAAGGTCATGTTC
* *
42327993 TTTAGCGGCATTTGTAGGGAAAGCGTCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTTGGGAAAGCGTCGCTAAAGGTCATGTTC
* * * *
42328036 TTTAG-TGCGTTTGTGGGGAAAGTGTCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTTGGGAAAGCGTCGCTAAAGGTCATGTTC
42328078 TTTAGCGGCGTTTGTT
1 TTTAGCGGCGTTTGTT
42328094 CACATAAATG
Statistics
Matches: 187, Mismatches: 35, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 83 0.44
43 100 0.53
44 3 0.02
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTTGGGAAAGCGTCGCTAAAGGTCATGTTC
Found at i:42327928 original size:85 final size:84
Alignment explanation
Indices: 42327823--42328090 Score: 340
Period size: 85 Copynumber: 3.2 Consensus size: 84
42327813 GAACATGATT
* * * * * *
42327823 TTTAGTGGCGTTTTTGGGAAAGCGTCGCTAAAAGTCAAGTTTTTTAGTGACGTTTATAGAGAGAG
1 TTTAGCGGCGTTTTTAGGAAAGCGTCGCTAAAAGTCAAGTTCTTTAGTG-CGTTTGTGGAGAAAG
*
42327888 CGCCGCTAAAGGTCATGTTC
65 TGCCGCTAAAGGTCATGTTC
* * *
42327908 TTTAGCGGTGTTTTTAGGAAAGCG-CTGGTAAAAGTCAAGTTCTTTAGCGGCGTTTGTGGAGAAA
1 TTTAGCGGCGTTTTTAGGAAAGCGTC-GCTAAAAGTCAAGTTCTTTAG-TGCGTTTGTGGAGAAA
42327972 GTGCCGCTAAAGGTCATGTTC
64 GTGCCGCTAAAGGTCATGTTC
* * * * *
42327993 TTTAGCGGCATTTGTAGGGAAAGCGTCGCTAAAGGTCATGTTCTTTAGTGCGTTTGTGGGGAAAG
1 TTTAGCGGCGTTTTTA-GGAAAGCGTCGCTAAAAGTCAAGTTCTTTAGTGCGTTTGTGGAGAAAG
* *
42328058 TGTCGCTAAAGGTTATGTTC
65 TGCCGCTAAAGGTCATGTTC
42328078 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
42328091 GTTCACATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
84 1 0.01
85 129 0.82
86 27 0.17
87 1 0.01
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (84 bp):
TTTAGCGGCGTTTTTAGGAAAGCGTCGCTAAAAGTCAAGTTCTTTAGTGCGTTTGTGGAGAAAGT
GCCGCTAAAGGTCATGTTC
Found at i:42328056 original size:128 final size:127
Alignment explanation
Indices: 42327823--42328092 Score: 292
Period size: 128 Copynumber: 2.1 Consensus size: 127
42327813 GAACATGATT
* * * * * * *
42327823 TTTAGTGGCGTTTTTGGGAAAGCGTCGCTAAAAGTCAAGTTTTTTAGTGACGTTTATAGAGAGAG
1 TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAAGTCAAGTTCTTTAGCGACATTTATAGAGAAAG
* * *
42327888 CGCCGCTAAAGGTCATGTTCTTTAGCGGTGTTTTTAGGAAAGCG-CTGGTAAAAGTCAAGTTC
66 CGCCGCTAAAGGTCATGTTCTTTAGCGGTGTTGTGAGGAAAGCGTC-GCTAAAAGTCAAGTTC
* * * * * *
42327950 TTTAGCGGCGTTTGTGGAGAAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTAGGGAAA
1 TTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAAGTCAAGTTCTTTAGCGACATTTATAGAGAAA
* * * * * * *
42328015 GCGTCGCTAAAGGTCATGTTCTTTAGTGCGT-TTGTGGGGAAAGTGTCGCTAAAGGTTATGTTC
65 GCGCCGCTAAAGGTCATGTTCTTTAGCG-GTGTTGTGAGGAAAGCGTCGCTAAAAGTCAAGTTC
42328078 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
42328093 TCACATAAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
127 15 0.13
128 99 0.85
129 3 0.03
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.34
Consensus pattern (127 bp):
TTTAGCGGCGTTTGTGGGAAAGCGCCGCTAAAAGTCAAGTTCTTTAGCGACATTTATAGAGAAAG
CGCCGCTAAAGGTCATGTTCTTTAGCGGTGTTGTGAGGAAAGCGTCGCTAAAAGTCAAGTTC
Found at i:42332857 original size:14 final size:16
Alignment explanation
Indices: 42332825--42332862 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
42332815 CTGTATGTTC
42332825 TTTATTTTATATTAGT
1 TTTATTTTATATTAGT
*
42332841 TTTATTTTAT-TT-TT
1 TTTATTTTATATTAGT
42332855 TTTATTTT
1 TTTATTTT
42332863 CATAAATATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 2 0.10
16 10 0.48
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTATTTTATATTAGT
Found at i:42332862 original size:6 final size:5
Alignment explanation
Indices: 42332825--42332862 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
42332815 CTGTATGTTC
*
42332825 TTTAT TTTAT ATTAGT TTTAT TTTAT TTT-T TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
42332863 CATAAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 21 0.72
6 4 0.14
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:42337261 original size:16 final size:15
Alignment explanation
Indices: 42337240--42337278 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
42337230 CTGTGTGTTC
42337240 TTTATTTTAGTTTAGT
1 TTTATTTTAGTTTA-T
*
42337256 TTTATTTTATTTTAT
1 TTTATTTTAGTTTAT
42337271 TTTATTTT
1 TTTATTTT
42337279 CACATCACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (15 bp):
TTTATTTTAGTTTAT
Found at i:42337263 original size:5 final size:5
Alignment explanation
Indices: 42337240--42337278 Score: 60
Period size: 5 Copynumber: 7.6 Consensus size: 5
42337230 CTGTGTGTTC
*
42337240 TTTAT TTTAG TTTAGT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTT
42337279 CACATCACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 27 0.87
6 4 0.13
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:42337608 original size:19 final size:19
Alignment explanation
Indices: 42337584--42337622 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
42337574 TTCATTGGCA
42337584 TTTCTTAGGATTTCTCCAT
1 TTTCTTAGGATTTCTCCAT
*
42337603 TTTCTTGGGATTTCTCCAT
1 TTTCTTAGGATTTCTCCAT
42337622 T
1 T
42337623 CTCCATAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.13, C:0.21, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTCTTAGGATTTCTCCAT
Found at i:42339032 original size:46 final size:47
Alignment explanation
Indices: 42338940--42339157 Score: 209
Period size: 46 Copynumber: 4.7 Consensus size: 47
42338930 TGAGAGGCAT
* * *
42338940 TGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGA-AGCTAG
42338988 TGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACG-AAGCTAG
* * * *
42339034 TGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACAAGATGATAG-TCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGA-AGCT-AG
* * *
42339080 TGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGA-TATGAGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGA--AGCTAG
* *
42339127 TATAAGACCATGTTTGGGACATGGCATCGGC
1 TGTAAGACCATGTCTGGGACATGGCATCGGC
42339158 ACCATACCTA
Statistics
Matches: 144, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.03
46 63 0.44
47 61 0.42
48 16 0.11
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGAAGCTAG
Found at i:42339097 original size:93 final size:94
Alignment explanation
Indices: 42338988--42339157 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 94
42338978 CGAGAGCTAG
* * *
42338988 TGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGACGTAAGCTAGTGTAAGA-CATGTCTAGG
1 TGTAAGACATGTCTGGGACATGGCATC-GACTCGAGACATAAGCTAGTATAAGACCATGTCTAGG
42339051 ACAT-GCATCGGCTACAAGATGATAGTCAA
65 ACATGGCATCGGCTACAAGATGATAGTCAA
* * * * *
42339080 TGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATATGAGCTAGTATAAGACCATGTTTGGG
1 TGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGACATAAGCTAGTATAAGACCATGTCTAGG
42339145 ACATGGCATCGGC
65 ACATGGCATCGGC
42339158 ACCATACCTA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 7 0.11
93 34 0.52
94 17 0.26
95 8 0.12
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGGCATCGACTCGAGACATAAGCTAGTATAAGACCATGTCTAGGA
CATGGCATCGGCTACAAGATGATAGTCAA
Found at i:42339133 original size:47 final size:47
Alignment explanation
Indices: 42338886--42339155 Score: 222
Period size: 47 Copynumber: 5.8 Consensus size: 47
42338876 TATTTGTTTG
* *
42338886 TGAGCTAGTGTAAGA-CATATCTGGGACAT-GCATCGAC-C-ACATTA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGA-TA
* * *
42338930 TGAGAGGC-ATTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGA
1 T--GA-GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGA-TA
* **
42338981 -GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATA
* * * *
42339026 TAAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTACAAGATGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT-A
* *
42339073 T-AG-TCAATGTAAGACCATGTCTGGGACATGGCATCGACTTGAGATA
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
* *
42339119 TGAGCTAGTATAAGACCATGTTTGGGACATGGCATCG
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
42339156 GCACCATACC
Statistics
Matches: 183, Mismatches: 25, Indels: 33
0.76 0.10 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.02
46 67 0.37
47 81 0.44
48 27 0.15
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATA
Found at i:42339145 original size:140 final size:141
Alignment explanation
Indices: 42338888--42339157 Score: 393
Period size: 140 Copynumber: 1.9 Consensus size: 141
42338878 TTTGTTTGTG
* ** *
42338888 AGCTAGTGTAAGACATATCTGGGACATGCATCGACCACATTATGAGAGGCATTGTAAGACCATGT
1 AGCTAGTGTAAGACATATCTAGGACATGCATCGACCACAAGATGAGAGGCAATGTAAGACCATGT
*
42338953 CTGGGACATGGCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC
66 CTGGGACATGGCATCGACATTGAGACGAGAGCTAGTATAAGACATGTCTGGGACATGGCATCGGC
42339017 CTCGAGACGTA
131 CTCGAGACGTA
* * * * *
42339028 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGATAGTCAATGTAAGACCATGT
1 AGCTAGTGTAAGACATATCTAGGACATGCATCGACCACAAGATGAGAGGCAATGTAAGACCATGT
* *
42339093 CTGGGACATGGCATCGAC-TTGAGA-TATGAGCTAGTATAAGACCATGTTTGGGACATGGCATCG
66 CTGGGACATGGCATCGACATTGAGACGA-GAGCTAGTATAAGA-CATGTCTGGGACATGGCATCG
42339156 GC
129 GC
42339158 ACCATACCTA
Statistics
Matches: 115, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
138 1 0.01
139 19 0.17
140 87 0.76
141 8 0.07
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGCTAGTGTAAGACATATCTAGGACATGCATCGACCACAAGATGAGAGGCAATGTAAGACCATGT
CTGGGACATGGCATCGACATTGAGACGAGAGCTAGTATAAGACATGTCTGGGACATGGCATCGGC
CTCGAGACGTA
Found at i:42343669 original size:46 final size:45
Alignment explanation
Indices: 42343610--42343785 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
42343600 TATTTGGGCA
42343610 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *** * *
42343656 TCTGAACTTGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
42343703 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
42343749 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42343786 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.63
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:42343765 original size:93 final size:93
Alignment explanation
Indices: 42343606--42343777 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
42343596 AGGATATTTG
* * * *
42343606 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42343671 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
42343699 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42343764 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42343778 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:42346662 original size:15 final size:15
Alignment explanation
Indices: 42346643--42346710 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
42346633 TATCTTGGGA
42346643 TTCTTTATCCTGGAT
1 TTCTTTATCCTGGAT
* *
42346658 CTCTTTATTCTGGAT
1 TTCTTTATCCTGGAT
* *
42346673 TTCTTTATTCTGGGT
1 TTCTTTATCCTGGAT
* *
42346688 TTCTCTATCTTGGAT
1 TTCTTTATCCTGGAT
42346703 TTCTTTAT
1 TTCTTTAT
42346711 TCGGTTTTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.12, C:0.18, G:0.13, T:0.57
Consensus pattern (15 bp):
TTCTTTATCCTGGAT
Found at i:42346711 original size:30 final size:30
Alignment explanation
Indices: 42346633--42346720 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
42346623 CATAGTATCG
* * *
42346633 TATCTTGGGA-TTCTTTATCCTGGATCTCTT
1 TATCTT-GGATTTCTTTATTCTGGATTTCTC
*
42346663 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
42346693 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
42346721 TGTTACCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.22
30 38 0.76
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:42349712 original size:46 final size:46
Alignment explanation
Indices: 42349662--42349836 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
42349652 TGGTTGAGCA
42349662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42349708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42349753 CATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42349800 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42349837 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 20
0.78 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 22 0.20
46 50 0.46
47 24 0.22
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42349817 original size:92 final size:93
Alignment explanation
Indices: 42349659--42349829 Score: 308
Period size: 92 Copynumber: 1.8 Consensus size: 93
42349649 GGATGGTTGA
* *
42349659 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42349724 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42349752 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42349816 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
42349830 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 51 0.68
93 24 0.32
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42351583 original size:15 final size:15
Alignment explanation
Indices: 42351563--42351593 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
42351553 CTCCAATAAC
42351563 CCTTGCAACCAATGG
1 CCTTGCAACCAATGG
42351578 CCTTGCAACCAATGG
1 CCTTGCAACCAATGG
42351593 C
1 C
42351594 AGTCCTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (15 bp):
CCTTGCAACCAATGG
Found at i:42356772 original size:17 final size:18
Alignment explanation
Indices: 42356738--42356775 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
42356728 TAGAAATTTC
42356738 AAATATTTTTAAATTAAA
1 AAATATTTTTAAATTAAA
*
42356756 AAATATTTTTGAA-TAAA
1 AAATATTTTTAAATTAAA
42356773 AAA
1 AAA
42356776 GGATCAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAATATTTTTAAATTAAA
Found at i:42357546 original size:30 final size:30
Alignment explanation
Indices: 42357512--42357573 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
42357502 TATTTTATTA
* *
42357512 TTAATTTTGTTATTATTTTAAAGATATTTG
1 TTAATTTTATTATTATCTTAAAGATATTTG
* *
42357542 TTAATTTTATTATTATCTTAGAGGTATTTG
1 TTAATTTTATTATTATCTTAAAGATATTTG
42357572 TT
1 TT
42357574 TGTTAAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.02, G:0.11, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATCTTAAAGATATTTG
Found at i:42357935 original size:22 final size:22
Alignment explanation
Indices: 42357910--42357952 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
42357900 TATCCAAACA
42357910 ATAACA-ATAAAATAGTAGCAAC
1 ATAACAGA-AAAATAGTAGCAAC
* *
42357932 ATAATAGAAAAATGGTAGCAA
1 ATAACAGAAAAATAGTAGCAA
42357953 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (22 bp):
ATAACAGAAAAATAGTAGCAAC
Found at i:42360458 original size:46 final size:46
Alignment explanation
Indices: 42360343--42360450 Score: 130
Period size: 46 Copynumber: 2.3 Consensus size: 46
42360333 TGGGTAAGGT
*
42360343 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTAACATCTCGTA
* *
42360391 GCCGATGCATCTCCCAGACATGTCTTACACTGGCTTAAC-TCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC-TAACATCTCGTA
*
42360436 GGCTGATGCATGTCC
1 -GCCGATGCATGTCC
42360451 TAAACATGGC
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.02
46 29 0.55
47 16 0.30
48 7 0.13
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTAACATCTCGTA
Found at i:42625121 original size:39 final size:39
Alignment explanation
Indices: 42624927--42625141 Score: 234
Period size: 40 Copynumber: 5.4 Consensus size: 39
42624917 ACCCAAGTTT
* * * * *
42624927 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATA-AATCACTAGCACAAATGC
* * * * * *
42624966 CTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAATC-ACTAGCACAAATGC
* * *
42625006 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAATC-ACTAGCACAAATGC
* *
42625046 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGAT-AAATCACTAGCACAAATGC
*
42625086 CTTCGGGACTTAGCCCGGATAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAATCACTAGCACAAATGC
42625125 CTTCGGGACTTAGCCCG
1 CTTCGGGACTTAGCCCG
42625142 ATATCATTCA
Statistics
Matches: 156, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
39 47 0.30
40 105 0.67
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATAAATCACTAGCACAAATGC
Found at i:42633165 original size:40 final size:40
Alignment explanation
Indices: 42633048--42633227 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
42633038 ACCCAAGTTT
* * * * * *
42633048 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
* * * * * *
42633087 CTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGC
* *
42633127 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
*
42633167 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
42633207 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATA
42633228 TCATTCAAAT
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 11 0.09
40 106 0.88
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGC
Found at i:42636500 original size:20 final size:20
Alignment explanation
Indices: 42636475--42636515 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
42636465 AAAACTTGGG
*
42636475 TTAGTTAGATTAAGGTACAA
1 TTAGTTAGATTAAGCTACAA
42636495 TTAGTTAGATTAAGCTACAA
1 TTAGTTAGATTAAGCTACAA
42636515 T
1 T
42636516 GATATCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (20 bp):
TTAGTTAGATTAAGCTACAA
Found at i:42639866 original size:25 final size:25
Alignment explanation
Indices: 42639838--42639901 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
42639828 CACATAAGTT
*
42639838 ATGTAATTCATATATCATAAAATCC
1 ATGTAATTCATATAACATAAAATCC
* * * *
42639863 ATGTAATTCATGTAACTTATAATTC
1 ATGTAATTCATATAACATAAAATCC
*
42639888 ATGTAAATCATATA
1 ATGTAATTCATATA
42639902 GCTCTTATAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (25 bp):
ATGTAATTCATATAACATAAAATCC
Found at i:42640108 original size:22 final size:23
Alignment explanation
Indices: 42640080--42640133 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
42640070 GCTGATAAAT
*
42640080 GGTAAGCTCCGAAGAGCT-GAAC
1 GGTAAGCTCCGAAGAGCTAAAAC
*
42640102 GGTAAGCTCCGTAGAGCTAAAAC
1 GGTAAGCTCCGAAGAGCTAAAAC
42640125 GGTAAGCTC
1 GGTAAGCTC
42640134 ATACAAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (23 bp):
GGTAAGCTCCGAAGAGCTAAAAC
Found at i:42640142 original size:23 final size:23
Alignment explanation
Indices: 42640099--42640143 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
42640089 CGAAGAGCTG
* *
42640099 AACGGTAAGCTCCGTAGAGCTAA
1 AACGGTAAGCTCCATAAAGCTAA
42640122 AACGGTAAGCT-CATACAAGCTA
1 AACGGTAAGCTCCATA-AAGCTA
42640144 TGGTGAGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (23 bp):
AACGGTAAGCTCCATAAAGCTAA
Found at i:42641777 original size:24 final size:26
Alignment explanation
Indices: 42641715--42641783 Score: 88
Period size: 24 Copynumber: 2.7 Consensus size: 26
42641705 GGACTCACTG
*
42641715 CAGCTCATATGAGCTTACTGATATAT
1 CAGCTCATAAGAGCTTACTGATATAT
*
42641741 CAGCTCATAAGAGCTTACTG-T-TCT
1 CAGCTCATAAGAGCTTACTGATATAT
* *
42641765 CAGCTCGTTAGAGCTTACT
1 CAGCTCATAAGAGCTTACT
42641784 ATTTCCAGCT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 19 0.49
25 1 0.03
26 19 0.49
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (26 bp):
CAGCTCATAAGAGCTTACTGATATAT
Found at i:42650648 original size:3 final size:3
Alignment explanation
Indices: 42650640--42650670 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
42650630 TTTTCATTGG
42650640 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
42650671 AAAGTTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:42659813 original size:43 final size:43
Alignment explanation
Indices: 42659765--42659849 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
42659755 ACGTATACAA
42659765 ACGTAGCCAAAGCTACCACATAACATGTAACACATCCATCATT
1 ACGTAGCCAAAGCTACCACATAACATGTAACACATCCATCATT
42659808 ACGTAGCCAAAGCTACCACATAACATGTAACACATCCATCAT
1 ACGTAGCCAAAGCTACCACATAACATGTAACACATCCATCAT
42659850 GAACTCAGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (43 bp):
ACGTAGCCAAAGCTACCACATAACATGTAACACATCCATCATT
Found at i:42669369 original size:20 final size:20
Alignment explanation
Indices: 42669344--42669397 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
42669334 ATATATATAC
42669344 TAAATAAAATAATAAAATAA
1 TAAATAAAATAATAAAATAA
*** * *
42669364 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAA
42669384 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
42669398 TTATCTAATT
Statistics
Matches: 25, Mismatches: 9, Indels: 1
0.71 0.26 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAA
Found at i:42678362 original size:42 final size:43
Alignment explanation
Indices: 42678314--42678425 Score: 138
Period size: 43 Copynumber: 2.7 Consensus size: 43
42678304 TAAGACTTTG
* * **
42678314 TGTAAGACTATATCTTGGATATGA-CATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGAGCATCGATATGAGATCCCA
* * * *
42678356 TGTAAGACCATAGCTGGGCTATGAGTATTGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATATGAGCATCGATATGAGATCCCA
42678399 TGTAAGACCATATCTGGGATATG-GCAT
1 TGTAAGACCATATCTGGGATATGAGCAT
42678426 TGGTATGGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 23 0.40
43 35 0.60
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATATGAGCATCGATATGAGATCCCA
Found at i:42680636 original size:23 final size:23
Alignment explanation
Indices: 42680606--42680656 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
42680596 TATGCTCGAG
42680606 AGTGTGTTTCCACCAAGGCTATC
1 AGTGTGTTTCCACCAAGGCTATC
*
42680629 AGTGTGTTTCCACCGAGGCTATC
1 AGTGTGTTTCCACCAAGGCTATC
42680652 A-TGTG
1 AGTGTG
42680657 CAAGAGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (23 bp):
AGTGTGTTTCCACCAAGGCTATC
Found at i:42694481 original size:98 final size:100
Alignment explanation
Indices: 42694306--42694572 Score: 327
Period size: 98 Copynumber: 2.7 Consensus size: 100
42694296 GTACCAATGG
* * *
42694306 CATGTCCCAGACGTGGTCTTACATTAATC-TACATATCATCA---CCGATGCCATGTCCTAGACA
1 CATGTCCCAGACATGGTCTTACA-CAAGCATACATAT-ATCAGTGCCGATGCCATGTCCTAGACA
* *
42694367 TGGTCTTACACTGGCACATATATCATCA-T-C-GATGC
64 TGGTCTTACACAGGCACACATAT-ATCAGTGCTGATGC
* * *
42694402 CATGTGCCAGACATGGTCTTACACAAGCATACATATATCAGTGCCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACATGGTCTTACACAAGCATACATATATCAGTGCCGATGCCATGTCCTAGACATG
*
42694467 GTCTTTCACAGGCACACATATATCAGTGCTGATGC
66 GTCTTACACAGGCACACATATATCAGTGCTGATGC
* * * *
42694502 CATG-CCCAGACATGATCTTACACAGGCACAAATATATCAGTGCCGATGCCATGT-CTAGACATG
1 CATGTCCCAGACATGGTCTTACACAAGCATACATATATCAGTGCCGATGCCATGTCCTAGACATG
42694565 GTCTTACA
66 GTCTTACA
42694573 TTGGTACACA
Statistics
Matches: 147, Mismatches: 17, Indels: 12
0.84 0.10 0.07
Matches are distributed among these distances:
95 7 0.05
96 28 0.19
97 4 0.03
98 53 0.36
99 46 0.31
100 9 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
CATGTCCCAGACATGGTCTTACACAAGCATACATATATCAGTGCCGATGCCATGTCCTAGACATG
GTCTTACACAGGCACACATATATCAGTGCTGATGC
Found at i:42694537 original size:49 final size:50
Alignment explanation
Indices: 42694347--42694572 Score: 300
Period size: 49 Copynumber: 4.6 Consensus size: 50
42694337 CATATCATCA
* * *
42694347 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCACATATATCATCA-T-
1 CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACATAT-ATCAGTG
* * *
42694396 -CGATGCCATGTGCCAGACATGGTCTTACACAAGCATACATATATCAGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATATCAGTG
* *
42694445 CCGATGCCATGTCCCAAACATGGTCTTTCACAGGCACACATATATCAGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATATCAGTG
* * *
42694495 CTGATGCCATG-CCCAGACATGATCTTACACAGGCACAAATATATCAGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATATCAGTG
*
42694544 CCGATGCCATGT-CTAGACATGGTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
42694573 TTGGTACACA
Statistics
Matches: 154, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
47 4 0.03
48 37 0.24
49 59 0.38
50 54 0.35
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATATCAGTG
Found at i:42703801 original size:29 final size:29
Alignment explanation
Indices: 42703769--42703827 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
42703759 TGTATTTGTC
42703769 TTATTTATGTAAACTATTATTATTCAATT
1 TTATTTATGTAAACTATTATTATTCAATT
42703798 TTATTTATGTAAACTATTATTATTCAATT
1 TTATTTATGTAAACTATTATTATTCAATT
42703827 T
1 T
42703828 ACCTAACCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (29 bp):
TTATTTATGTAAACTATTATTATTCAATT
Found at i:42703817 original size:16 final size:16
Alignment explanation
Indices: 42703769--42703818 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
42703759 TGTATTTGTC
42703769 TTATTTATGTAAACTA
1 TTATTTATGTAAACTA
* *
42703785 TTA-TTAT-TCAA-TT
1 TTATTTATGTAAACTA
42703798 TTATTTATGTAAACTA
1 TTATTTATGTAAACTA
42703814 TTATT
1 TTATT
42703819 ATTCAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.15
14 7 0.26
15 7 0.26
16 9 0.33
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (16 bp):
TTATTTATGTAAACTA
Found at i:42706788 original size:40 final size:40
Alignment explanation
Indices: 42706729--42706946 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
42706719 TGGATGATAA
42706729 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
42706769 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
*
42706809 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* * **
42706849 CCAGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
* *
42706889 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATTT
**
42706929 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42706947 TACTTGGTTG
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTT
Found at i:42710611 original size:42 final size:41
Alignment explanation
Indices: 42710564--42710693 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 41
42710554 TAAGATGCCA
*
42710564 ATGCCATATCCCAGATATGGTCTTACATGAGATCACATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCACATAT-G
* * * **
42710606 ATGCCAATAGCCCCA-CTACGGTCTTACACGATG-TGTCATAATG
1 ATGCC-ATA-TCCCAGATATGGTCTTACACGA-GATCACAT-ATG
* * *
42710649 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCACATAT-G
42710691 ATG
1 ATG
42710694 TCGATGCCAT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
41 6 0.09
42 28 0.42
43 26 0.39
44 7 0.10
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCACATATG
Found at i:42710611 original size:48 final size:48
Alignment explanation
Indices: 42710557--42710874 Score: 227
Period size: 48 Copynumber: 6.9 Consensus size: 48
42710547 CATATAATAA
* *
42710557 GATGCCAATGCCATATCCCAGATATGGTCTTACATGAGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
* * * **
42710605 GATGCCAAT---A-G-CCC-CACTACGGTCTTACACGATG-TGTCATA--
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGA-GATCACATATC
* * *
42710646 -ATG---ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
* * * * **
42710690 GATGTCGATGCCATGTCCCAGACATTGTCTTACATTG-GCTCACACGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGATCACATATC
* *
42710738 GAGGCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCA-CACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAG-ATCACATATC
* * * * * *
42710786 AACGCCGATGCCATGTCCCAGACATGGTCTTATATGAGATCTCATCTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
* * * *
42710834 AATGCCAATGCTATGTCCTAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATC
42710875 TCACATGTAG
Statistics
Matches: 213, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
37 2 0.01
40 4 0.02
41 1 0.00
42 22 0.10
43 22 0.10
44 1 0.00
45 4 0.02
47 2 0.01
48 154 0.72
49 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATC
Found at i:42710850 original size:96 final size:96
Alignment explanation
Indices: 42710649--42710867 Score: 257
Period size: 96 Copynumber: 2.3 Consensus size: 96
42710639 TGTCATAATG
* *
42710649 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATAGATGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATAGACGCCGATGCCATGTCCCAGACA
* * * *
42710714 TTGTCTTACATTGGCTCACACGTCGAGGCCG
66 TGGTCTTACATTGGATCACACGTCAAGGCCA
* *
42710745 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCA-ACGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACGA-AATCACATAT-AGACGCCGATGCCATGTCCCAGA
* * *
42710808 CATGGTCTTATA-TGAGATCTCATC-TCAATGCCA
64 CATGGTCTTACATTG-GATCACA-CGTCAAGGCCA
* *
42710841 ATGCTATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
42710868 TGGGATCTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
95 2 0.02
96 101 0.95
97 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATATAGACGCCGATGCCATGTCCCAGACA
TGGTCTTACATTGGATCACACGTCAAGGCCA
Found at i:42723012 original size:18 final size:19
Alignment explanation
Indices: 42722989--42723025 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
42722979 CAATACTTTC
42722989 ATCTAGATAG-TAAAAAAT
1 ATCTAGATAGTTAAAAAAT
42723007 ATCTAGATAGTTAAAAAAT
1 ATCTAGATAGTTAAAAAAT
42723026 TTTTGTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (19 bp):
ATCTAGATAGTTAAAAAAT
Found at i:42724119 original size:28 final size:28
Alignment explanation
Indices: 42724074--42724179 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 28
42724064 GGTCGCCAGA
* *
42724074 ACAGATAA-TGTGACAGAGTCACCAAAT
1 ACAGATAATTGTGGCAGAGCCACCAAAT
*
42724101 ACAGATAATTGTGGCAGAGCCACCATA-
1 ACAGATAATTGTGGCAGAGCCACCAAAT
* * *
42724128 ACAGA-AATATGTGGTAGAGCCACTAGAT
1 ACAGATAAT-TGTGGCAGAGCCACCAAAT
* *
42724156 -CAGATAATTGTGGCATAGCAACCA
1 ACAGATAATTGTGGCAGAGCCACCA
42724180 GGACGCTTCC
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 3 0.05
27 44 0.68
28 18 0.28
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.20
Consensus pattern (28 bp):
ACAGATAATTGTGGCAGAGCCACCAAAT
Found at i:42725630 original size:24 final size:24
Alignment explanation
Indices: 42725603--42725649 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
42725593 CTAGATTTCC
**
42725603 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
42725627 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
42725650 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:42732845 original size:55 final size:53
Alignment explanation
Indices: 42732758--42733012 Score: 214
Period size: 55 Copynumber: 4.8 Consensus size: 53
42732748 ATTAGGGTTT
* *
42732758 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTATAAGGC
* * * *
42732813 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGTA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TATAAGG-C
* * * * * *
42732869 AAGG-TCCCATGTAAGACCATACCAAGGCATGGCATTGTTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
* * ** * *
42732921 AAGGATAACATGTAAGACCATGTCTCGACATGGAAATGGTAAGTTTA-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
** * * * *
42732970 AAGGATACCGCGAAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
42733013 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 36, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
49 34 0.21
52 6 0.04
53 39 0.24
54 7 0.04
55 70 0.44
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTATAAGGC
Found at i:42732964 original size:108 final size:110
Alignment explanation
Indices: 42732765--42732965 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 110
42732755 TTTAAGGATA
* ** *
42732765 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTGTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGATAACATGTAAGA
* *
42732830 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGTAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGTAAAGGTC
* *
42732875 CCATGTAAGACCATACCAAGGCATGGC-ATTGTTGA-GTTCATAAGGCAAGGATAACATGTAAGA
1 CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGATAACATGTAAGA
** *
42732938 CCATGTCTCGACATGGAAATGGTAAGTT
66 CCATGTCAAGACATGGAAATGATAAGTT
42732966 TAAAAAGGAT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 48 0.60
109 6 0.08
110 26 0.32
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.24
Consensus pattern (110 bp):
CCATGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTCATAAGGCAAGGATAACATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGTAAAGGTC
Found at i:42739797 original size:40 final size:40
Alignment explanation
Indices: 42739713--42739896 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
42739703 TTGAATGCTG
* * * *
42739713 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
42739752 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
42739793 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
42739833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
42739873 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42739897 GAATGAGTTA
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 111 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:42739850 original size:80 final size:81
Alignment explanation
Indices: 42739713--42739893 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
42739703 TTGAATGCTG
* * *
42739713 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
42739777 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
42739793 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
42739854 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
42739873 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
42739894 ATTGAATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:42739917 original size:39 final size:38
Alignment explanation
Indices: 42739794--42739943 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
42739784 GTTATTAATT
* ** * *
42739794 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAA-A
** *
42739834 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACT-AAA
*
42739873 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
42739913 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42739944 GAGCTAAATC
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 30 0.32
40 63 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:42747658 original size:39 final size:39
Alignment explanation
Indices: 42747526--42747705 Score: 183
Period size: 39 Copynumber: 4.6 Consensus size: 39
42747516 TTGAATGCTG
* *
42747526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTA-A
** *
42747566 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGAT--TAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
*
42747603 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
* **
42747643 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TTTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT-AA
42747682 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42747706 GAATGAGTTA
Statistics
Matches: 121, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
37 2 0.02
38 32 0.26
39 56 0.46
40 20 0.17
41 10 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:42747726 original size:39 final size:38
Alignment explanation
Indices: 42747605--42747752 Score: 145
Period size: 39 Copynumber: 3.8 Consensus size: 38
42747595 GAGATTAATT
* ** * *
42747605 CCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 CCGGGTTAAGTCCCGAAGG-CATTGAACGAGTTACTAAA
** *
42747644 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTACTAAA
*
42747682 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTA-AA
* *
42747722 CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 CCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
42747753 GAGCTAATCC
Statistics
Matches: 93, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
38 12 0.13
39 71 0.76
40 10 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGAACGAGTTACTAAA
Found at i:42747726 original size:78 final size:77
Alignment explanation
Indices: 42747526--42747742 Score: 222
Period size: 78 Copynumber: 2.8 Consensus size: 77
42747516 TTGAATGCTG
* ** * * * *
42747526 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCTTTG-AATGAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATT
* *
42747590 TGTGCGAGATTAAT
64 CGTGCGAGATTAAA
*** * *
42747604 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-ATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CTTTGAATGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTC
*
42747668 GTGCGAGTTTTAAA
65 GTGCGAG-ATTAAA
* * *
42747682 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCTTTGAATGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
42747743 CTTGAACGAG
Statistics
Matches: 114, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
76 1 0.01
77 39 0.34
78 69 0.61
79 5 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (77 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGAATGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATTAAA
Found at i:42763289 original size:2 final size:2
Alignment explanation
Indices: 42763282--42763306 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42763272 AGAATCTTTA
42763282 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
42763307 CAATCCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:42763916 original size:55 final size:55
Alignment explanation
Indices: 42763849--42763965 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 55
42763839 GTATGTCCTC
* * * *
42763849 CCGTGTGAGTATTCGAA-ATAGGATCACAC-GTCCGTGTTGTAGGCCATGTGCCAGA
1 CCGTGTGAGTATTCGAAGATAAG-TCACACAGT-CGTATCGCAGGCCATGTGCCAGA
* * * *
42763904 CCGTGTGTGTATTTGAAGTTAAGTCACACAGTCGTATCGCAGGCCATGTGCCAGC
1 CCGTGTGAGTATTCGAAGATAAGTCACACAGTCGTATCGCAGGCCATGTGCCAGA
42763959 CCGTGTG
1 CCGTGTG
42763966 GCAAACTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
55 47 0.90
56 5 0.10
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.26
Consensus pattern (55 bp):
CCGTGTGAGTATTCGAAGATAAGTCACACAGTCGTATCGCAGGCCATGTGCCAGA
Found at i:42784573 original size:69 final size:70
Alignment explanation
Indices: 42784491--42784637 Score: 215
Period size: 70 Copynumber: 2.1 Consensus size: 70
42784481 TAGTTTATTA
* ** * *
42784491 CTAATTAATATGCTATTGTAATACTGT-AATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCAATCCAAATTAGGACAAAATCATGGTG
42784555 CTTAG
66 CTTAG
* *
42784560 CTAATTAATATGCTGCTGTAATACTTTAAATTATTGGCAATCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCAATCCAAATTAGGACAAAATCATGGTG
*
42784625 TTTAG
66 CTTAG
42784630 CTAATTAA
1 CTAATTAA
42784638 AATGTGTTGT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
69 24 0.35
70 45 0.65
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCAATCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:42785168 original size:43 final size:42
Alignment explanation
Indices: 42785019--42785169 Score: 135
Period size: 43 Copynumber: 3.5 Consensus size: 42
42785009 ATCATGCAAG
* * *
42785019 ACCACGTCTAGGACGTTGGCATCGACTTTTGTTTTACGTGTAAG
1 ACCACGTCTGGGACGTTGGCATCGA-TTTTG-ATTACGTGTAAA
* * * * * *
42785063 ACCATGTCTGGGACATTGGCGTCGAATCTGATTTCGTGTAAA
1 ACCACGTCTGGGACGTTGGCATCGATTTTGATTACGTGTAAA
* * *
42785105 ACC-CTGTCAGAGACAG-TGGCATCGATGTTTGATTACATGTAAA
1 ACCAC-GTCTGGGAC-GTTGGCATCGAT-TTTGATTACGTGTAAA
42785148 ACCACGTCTGGGACGTTGGCAT
1 ACCACGTCTGGGACGTTGGCAT
42785170 TGTATATGCT
Statistics
Matches: 82, Mismatches: 20, Indels: 11
0.73 0.18 0.10
Matches are distributed among these distances:
42 28 0.34
43 32 0.39
44 22 0.27
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (42 bp):
ACCACGTCTGGGACGTTGGCATCGATTTTGATTACGTGTAAA
Found at i:42797743 original size:40 final size:40
Alignment explanation
Indices: 42797638--42797894 Score: 387
Period size: 40 Copynumber: 6.5 Consensus size: 40
42797628 CGGATGATAA
* *
42797638 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
42797678 CTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42797717 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
42797757 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
42797797 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
42797837 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
42797877 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42797895 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 12, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
39 50 0.25
40 152 0.75
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42797875 original size:120 final size:119
Alignment explanation
Indices: 42797634--42797894 Score: 393
Period size: 119 Copynumber: 2.2 Consensus size: 119
42797624 TATTCGGATG
* *
42797634 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
* * *
42797699 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
*
42797753 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAG-CCCGAAGGC
42797817 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CT
* * *
42797873 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
42797895 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
118 2 0.02
119 64 0.49
120 64 0.49
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACT
Found at i:42801489 original size:17 final size:17
Alignment explanation
Indices: 42801467--42801500 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42801457 GTGATTATTT
42801467 TAAATGCATGCATGTAA
1 TAAATGCATGCATGTAA
42801484 TAAATGCATGCATGTAA
1 TAAATGCATGCATGTAA
42801501 CCTCTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
TAAATGCATGCATGTAA
Found at i:42802232 original size:20 final size:20
Alignment explanation
Indices: 42802171--42802233 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
42802161 ATCCAATGCA
** *
42802171 AAACAGAGGCACTGAAGTAC
1 AAACAGAGGCACCAAAGTGC
*
42802191 AGACA-AGG-ACACAAATGTGC
1 AAACAGAGGCAC-CAAA-GTGC
42802211 AAACAGAGGCACCAAAGTGC
1 AAACAGAGGCACCAAAGTGC
42802231 AAA
1 AAA
42802234 TCCCGTACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
18 2 0.06
19 5 0.15
20 18 0.53
21 7 0.21
22 2 0.06
ACGTcount: A:0.48, C:0.21, G:0.24, T:0.08
Consensus pattern (20 bp):
AAACAGAGGCACCAAAGTGC
Found at i:42810861 original size:20 final size:18
Alignment explanation
Indices: 42810824--42810874 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
42810814 CTATAGCAAC
42810824 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
42810841 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
42810861 TTACAACTTTACAA
1 TCACAA-TTTACAA
42810875 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:42811086 original size:13 final size:13
Alignment explanation
Indices: 42811068--42811092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42811058 TCAAAAGTGT
42811068 AAAAGTCATCAAG
1 AAAAGTCATCAAG
42811081 AAAAGTCATCAA
1 AAAAGTCATCAA
42811093 AATCACTTAC
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:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AAAAGTCATCAAG
Found at i:42817325 original size:12 final size:12
Alignment explanation
Indices: 42817308--42817341 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
42817298 ATTTCACACA
42817308 TTTACAACTTAT
1 TTTACAACTTAT
42817320 TTTACAACTTAT
1 TTTACAACTTAT
42817332 TTTACAACTT
1 TTTACAACTT
42817342 TACAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (12 bp):
TTTACAACTTAT
Found at i:42820152 original size:17 final size:17
Alignment explanation
Indices: 42820130--42820162 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42820120 AAGGTACAAA
*
42820130 CCTTTACCCCATTTATC
1 CCTTTACCACATTTATC
42820147 CCTTTACCACATTTAT
1 CCTTTACCACATTTAT
42820163 GGTTCAACAA
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:0.36, G:0.00, T:0.42
Consensus pattern (17 bp):
CCTTTACCACATTTATC
Found at i:42822723 original size:27 final size:26
Alignment explanation
Indices: 42822687--42822741 Score: 101
Period size: 27 Copynumber: 2.1 Consensus size: 26
42822677 AAAGGAAGGC
42822687 CCATTTACTTATGCCCTTATTGGATGG
1 CCATTTACTTATGCCCTTATTGG-TGG
42822714 CCATTTACTTATGCCCTTATTGGTGG
1 CCATTTACTTATGCCCTTATTGGTGG
42822740 CC
1 CC
42822742 TTGCATTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (26 bp):
CCATTTACTTATGCCCTTATTGGTGG
Found at i:42825081 original size:40 final size:40
Alignment explanation
Indices: 42824987--42825131 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
42824977 TACTCGAATG
*
42824987 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
42825028 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
42825068 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
42825108 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
42825132 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:42833066 original size:40 final size:39
Alignment explanation
Indices: 42832989--42833132 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 39
42832979 TACTCGAATG
*
42832989 ATATCCGGGCTAAGTCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCT-AGCGACT
* *
42833029 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGCGACT
* * *
42833069 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGCGACT
* *
42833109 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAG-TCCGAAGGC
42833133 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 73 0.80
41 17 0.19
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGCGACT
Found at i:42837887 original size:39 final size:40
Alignment explanation
Indices: 42837842--42838049 Score: 125
Period size: 40 Copynumber: 5.2 Consensus size: 40
42837832 CGGGGTTTAG
* * *
42837842 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
42837881 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
42837921 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
42837961 CCGGATGTAGTCGCTTAGCACAAAAGCCTTC-GGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * *
42838001 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
42838042 CCGGATAT
1 CCGGATAT
42838050 CATTCGAGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 18 0.12
40 95 0.64
41 35 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:42837992 original size:41 final size:41
Alignment explanation
Indices: 42837865--42838049 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 41
42837855 CTCGCACAAG
* * * * * *
42837865 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
42837905 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
42837945 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
42837986 GCCTTC-GGACTTAGCCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
42838026 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42838050 CATTCGAGTA
Statistics
Matches: 131, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 93 0.71
41 35 0.27
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:42838032 original size:81 final size:81
Alignment explanation
Indices: 42837829--42838047 Score: 241
Period size: 80 Copynumber: 2.7 Consensus size: 81
42837819 AATCAAGCAT
** ** * * * * * *
42837829 CTTCGGGGTTTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAACCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATGTAGT
* * *
42837892 CAC-TAGCATAAATGC
66 CGCTTAGCACAAAAGC
* * *
42837907 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGTCCGGATGTAG
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGA-CTTAGCCCGGATGTAG
42837971 TCGCTTAGCACAAAAGC
65 TCGCTTAGCACAAAAGC
42837988 CTTC-GGACTTAGCCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
1 CTTCGGGACTTAGCCCGGATATAGTCAC-TAGCACAAAAGCCTTCGGGACTTAGCCCGGAT
42838048 ATCATTCGAG
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
78 11 0.09
79 18 0.15
80 45 0.38
81 40 0.34
82 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATGTAGT
CGCTTAGCACAAAAGC
Found at i:42845963 original size:39 final size:40
Alignment explanation
Indices: 42845918--42846125 Score: 116
Period size: 40 Copynumber: 5.2 Consensus size: 40
42845908 CGGGGTTTAG
* * *
42845918 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
42845957 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
42845997 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
42846037 CCGGATGTAGTCGCTTAGCACAAAAGCCTTC-GGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * * * *
42846077 CCGGATATAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
42846118 CCGGATAT
1 CCGGATAT
42846126 CATTCGAGTA
Statistics
Matches: 149, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
39 18 0.12
40 96 0.64
41 35 0.23
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:42846068 original size:41 final size:41
Alignment explanation
Indices: 42845941--42846125 Score: 252
Period size: 40 Copynumber: 4.6 Consensus size: 41
42845931 CTCGCACAAG
* * * * * *
42845941 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
42845981 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
42846021 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
42846062 GCCTTC-GGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
42846102 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
42846126 CATTCGAGTA
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 3 0.02
40 94 0.71
41 35 0.27
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:42872136 original size:46 final size:46
Alignment explanation
Indices: 42871923--42872145 Score: 295
Period size: 46 Copynumber: 4.9 Consensus size: 46
42871913 GTCTTGTGCA
** *
42871923 TTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGTCATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACG
* *
42871968 TTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCTTGTCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACG
* *
42872014 TTGCCATGGTATCTTTCAACCATGGTCTTGTTCTTTTCATGTCACG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACG
* * ** * *
42872060 TTGTCATGGTATCTTTCAACCACGGTCTTACACATTTCATATCATG
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACG
* **
42872106 TTTCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
42872146 TTCAGAAAAC
Statistics
Matches: 160, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
45 33 0.21
46 127 0.79
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACG
Found at i:42873027 original size:51 final size:51
Alignment explanation
Indices: 42872951--42873101 Score: 275
Period size: 51 Copynumber: 3.0 Consensus size: 51
42872941 CTCAAACTTA
* *
42872951 CTTCATACTTCATCCGGAATTATTACTTTGTTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
*
42873002 CTTCATATTTCATCCGAAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
1 CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
42873053 CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAG
1 CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAG
42873102 GCTAGCTGAA
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATTATTACTTTATTGCTCTAGCTTCAACAAGAG
Found at i:42877844 original size:18 final size:18
Alignment explanation
Indices: 42877817--42877864 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
42877807 TTCACTTTCG
42877817 AAAAAGAAAAAGAAAAAAT
1 AAAAA-AAAAAGAAAAAAT
*
42877836 AAAAAAAAAATAAAAAAT
1 AAAAAAAAAAGAAAAAAT
*
42877854 ATAATAAAAAA
1 A-AAAAAAAAA
42877865 TATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.10
Consensus pattern (18 bp):
AAAAAAAAAAGAAAAAAT
Done.