Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 58 of 89
Found at i:13111433 original size:16 final size:15
Alignment explanation
Indices: 13111412--13111441 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
13111402 GGAAAAATAT
13111412 TTAAATTAAATAAAAA
1 TTAAATT-AATAAAAA
13111428 TTAAATTAATAAAA
1 TTAAATTAATAAAA
13111442 TTTCCTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAATTAATAAAAA
Found at i:13111838 original size:16 final size:15
Alignment explanation
Indices: 13111817--13111846 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
13111807 AGGAAAATAT
13111817 TTAAATTAAATAAAAA
1 TTAAATT-AATAAAAA
13111833 TTAAATTAATAAAA
1 TTAAATTAATAAAA
13111847 TTTCCTCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TTAAATTAATAAAAA
Found at i:13112091 original size:405 final size:406
Alignment explanation
Indices: 13111339--13112152 Score: 1567
Period size: 405 Copynumber: 2.0 Consensus size: 406
13111329 GTGGTTCCTT
13111339 ATCATCAAGGGGGTAGAGGTTTGATTCACCCACCTCAATGCAGCACAACACCATCTGATTAGAGG
1 ATCATCAAGGGGGTAGAGGTTTGATTCACCCACCTCAATGCAGCACAACACCATCTGATTAGAGG
*
13111404 AAAAATATTTAAATTAAATAAAAATTAAATTAATAAAATTTCCTCCAATGATTTTATGACATGTG
66 AAAAATATTTAAATTAAATAAAAATTAAATTAATAAAATTTCCTCCAATGATATTATGACATGTG
*
13111469 TCATCATATAAATGAAGTATTAAATATATTAAATTAATTTAAAATTATTATCACTTTGATATATT
131 TCATCATATAAATGAAGTATTAAATATATTAAATTAATTTAAAATTATTACCACTTTGATATATT
13111534 GTGTATTAAAGTAAGGGAAATGAAAAACTTGAATCTCAGCGGCTGTATTAAACTGCCCAACCCAA
196 GTGTATTAAAGTAAGGGAAATGAAAAACTTGAATCTCAGCGGCTGTATTAAACTGCCCAACCCAA
*
13111599 TAGGGGCTTATTTAGTGGAATCCAGAACGGATGAAGTAAAGGCCAGGAAAGAGGAAATTGAAAGA
261 TAGGGGCTTATTTAGTGGAATCCAGAACGGATGAAGTAAAGACCAGGAAAGAGGAAATTGAAAGA
13111664 TGGAAAATTGGCGATTTTCCTGAAAAATCACCCTTAAAATTTTTAATTCCCTGTCAGACATCGTT
326 TGGAAAATTGGCGATTTTCCTGAAAAATCACCCTTAAAATTTTTAATTCCCTGTCAGACATCGTT
13111729 TAGACTTTATTTCCCG
391 TAGACTTTATTTCCCG
13111745 ATCATCAAGGGGGTAGAGGTTTGATTCACCCACCTCAATGCAGCACAACACCATCTGATTAGAGG
1 ATCATCAAGGGGGTAGAGGTTTGATTCACCCACCTCAATGCAGCACAACACCATCTGATTAGAGG
13111810 -AAAATATTTAAATTAAATAAAAATTAAATTAATAAAATTTCCTCCAATGATATTATGACATGTG
66 AAAAATATTTAAATTAAATAAAAATTAAATTAATAAAATTTCCTCCAATGATATTATGACATGTG
13111874 TCATCATATAAATGAAGTATTAAATATATTAAATTAATTTAAAATTATTACCACTTTGATATATT
131 TCATCATATAAATGAAGTATTAAATATATTAAATTAATTTAAAATTATTACCACTTTGATATATT
* *
13111939 GTGTATTAAAGTAAGGGAAATGAAAAATTTGAATCTCAGTGGCTGTATTAAACTGCCCAACCCAA
196 GTGTATTAAAGTAAGGGAAATGAAAAACTTGAATCTCAGCGGCTGTATTAAACTGCCCAACCCAA
13112004 TAGGGGCTTATTTAGTGGAATCCAGAACGGATGAAGTAAAGACCAGGAAAGAGGAAATTGAAAGA
261 TAGGGGCTTATTTAGTGGAATCCAGAACGGATGAAGTAAAGACCAGGAAAGAGGAAATTGAAAGA
*
13112069 TGGAAAATTGGCGATTTTCCTGAAAAATCACCCTTAAAATTTTTAATTCCCTGTCAGATATCGTT
326 TGGAAAATTGGCGATTTTCCTGAAAAATCACCCTTAAAATTTTTAATTCCCTGTCAGACATCGTT
13112134 TAGACTTTATTTCCCG
391 TAGACTTTATTTCCCG
13112150 ATC
1 ATC
13112153 TAACACCCTT
Statistics
Matches: 402, Mismatches: 6, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
405 337 0.84
406 65 0.16
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (406 bp):
ATCATCAAGGGGGTAGAGGTTTGATTCACCCACCTCAATGCAGCACAACACCATCTGATTAGAGG
AAAAATATTTAAATTAAATAAAAATTAAATTAATAAAATTTCCTCCAATGATATTATGACATGTG
TCATCATATAAATGAAGTATTAAATATATTAAATTAATTTAAAATTATTACCACTTTGATATATT
GTGTATTAAAGTAAGGGAAATGAAAAACTTGAATCTCAGCGGCTGTATTAAACTGCCCAACCCAA
TAGGGGCTTATTTAGTGGAATCCAGAACGGATGAAGTAAAGACCAGGAAAGAGGAAATTGAAAGA
TGGAAAATTGGCGATTTTCCTGAAAAATCACCCTTAAAATTTTTAATTCCCTGTCAGACATCGTT
TAGACTTTATTTCCCG
Found at i:13112428 original size:20 final size:20
Alignment explanation
Indices: 13112403--13112444 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
13112393 TCACACCAAA
13112403 TTCTCTCAAATCCTCTCAAC
1 TTCTCTCAAATCCTCTCAAC
* *
13112423 TTCTCTTAAATCCTCTTAAC
1 TTCTCTCAAATCCTCTCAAC
13112443 TT
1 TT
13112445 AAGGTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (20 bp):
TTCTCTCAAATCCTCTCAAC
Found at i:13112496 original size:21 final size:22
Alignment explanation
Indices: 13112461--13112504 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
13112451 TATTTTATTT
*
13112461 TATTTTATATTAATTATTTTAA
1 TATTTTATATTAATTAATTTAA
13112483 TATTTTAT-TTAATTAATTTAA
1 TATTTTATATTAATTAATTTAA
13112504 T
1 T
13112505 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTTTATATTAATTAATTTAA
Found at i:13112507 original size:25 final size:27
Alignment explanation
Indices: 13112456--13112513 Score: 68
Period size: 25 Copynumber: 2.2 Consensus size: 27
13112446 AGGTATATTT
*
13112456 TATTTTATTTTATATTAATTATTTTAA
1 TATTTTATTTTATATTAATTATATTAA
13112483 TATTTTA-TTTA-ATTAATT-TAATTAA
1 TATTTTATTTTATATTAATTAT-ATTAA
*
13112508 TTTTTT
1 TATTTT
13112514 TTGCAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 1 0.04
25 16 0.57
26 4 0.14
27 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TATTTTATTTTATATTAATTATATTAA
Found at i:13119059 original size:31 final size:31
Alignment explanation
Indices: 13119003--13119078 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 31
13118993 GTCTTTCAGG
* * *
13119003 ACATATGGATAGTATACATATGTTCTAAGGA
1 ACATATGGACAGTTTACATACGTTCTAAGGA
* ** *
13119034 ACATATGGACAGTTTACCTACGTTCTTCGGG
1 ACATATGGACAGTTTACATACGTTCTAAGGA
*
13119065 ACCTATGGACAGTT
1 ACATATGGACAGTT
13119079 GCCGAGGTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGTTTACATACGTTCTAAGGA
Found at i:13120941 original size:22 final size:22
Alignment explanation
Indices: 13120913--13120955 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
13120903 ACAATAAATT
13120913 TTTTACACATAAACGTAAATAA
1 TTTTACACATAAACGTAAATAA
*
13120935 TTTTACACATAAACTTAAATA
1 TTTTACACATAAACGTAAATA
13120956 TTTAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (22 bp):
TTTTACACATAAACGTAAATAA
Found at i:13131778 original size:19 final size:18
Alignment explanation
Indices: 13131756--13131796 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13131746 TTTAAATTTT
13131756 ATTTAAAAATATAAATTAA
1 ATTTAAAAAT-TAAATTAA
* *
13131775 ATTTATAAATTGAATTAA
1 ATTTAAAAATTAAATTAA
13131793 ATTT
1 ATTT
13131797 TAATATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTAAAAATTAAATTAA
Found at i:13131807 original size:18 final size:19
Alignment explanation
Indices: 13131763--13131808 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
13131753 TTTATTTAAA
13131763 AATATA-AATTAAATTTAT
1 AATATAGAATTAAATTTAT
*
13131781 AA-ATTGAATTAAATTT-T
1 AATATAGAATTAAATTTAT
13131798 AATATAGAATT
1 AATATAGAATT
13131809 GAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
AATATAGAATTAAATTTAT
Found at i:13133950 original size:148 final size:147
Alignment explanation
Indices: 13133638--13133928 Score: 402
Period size: 148 Copynumber: 2.0 Consensus size: 147
13133628 TGCTAAGATT
* * * * *
13133638 TGTGTAGTTAAGCATTTAGGGTTTTATATTTGATTCATGTCATAAATCATAAATTTGTTATAAAG
1 TGTGTA-TTAAGTATTTAGGATTTCACATTTGATTCATGTCATAAATCACAAATTTGTTATAAAG
*
13133703 AATGTGTTTTATGACACCTTAAGACCCTAAATAACTACCCACAAAATTATACATGATTTAGAATT
65 AATGTGTTTTATGACACCTTAAGACCCTAAATAACTACCCACAAAATTATACATGATTTAGAATC
**
13133768 AAACCATGGCCTAAGATT
130 AAACCATGGCCTAAGACA
* * *
13133786 TGTGTAGTTAAGTATTTAGGATTTCACATTTGATTCATGTCATAAATCACGAATTTGTTGTAAAT
1 TGTGTA-TTAAGTATTTAGGATTTCACATTTGATTCATGTCATAAATCACAAATTTGTTATAAAG
* * * * * *
13133851 CATGTGTTTTTTGACACCTTAAGACCCTAAATAACTACCCACATCAATTGTATATGATTTATAAT
65 AATGTGTTTTATGACACCTTAAGACCCTAAATAACTACCCACA-AAATTATACATGATTTAGAAT
13133916 CAAACCATGGCCT
129 CAAACCATGGCCT
13133929 TTAGAGACAT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
148 98 0.77
149 29 0.23
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (147 bp):
TGTGTATTAAGTATTTAGGATTTCACATTTGATTCATGTCATAAATCACAAATTTGTTATAAAGA
ATGTGTTTTATGACACCTTAAGACCCTAAATAACTACCCACAAAATTATACATGATTTAGAATCA
AACCATGGCCTAAGACA
Found at i:13134198 original size:22 final size:22
Alignment explanation
Indices: 13134168--13134209 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
13134158 TGGTATCGAT
*
13134168 ACTCATAGGGGTATGGATACTTG
1 ACTCATA-GGGTATCGATACTTG
13134191 ACTC-TAGGGTATCGATACT
1 ACTCATAGGGTATCGATACT
13134210 ACAAGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 2 0.11
23 4 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (22 bp):
ACTCATAGGGTATCGATACTTG
Found at i:13135308 original size:32 final size:32
Alignment explanation
Indices: 13135267--13135343 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
13135257 CTAGTCAGGG
13135267 TGCATTTAGATAATGAAC-AGTA-TATCCATGTT
1 TGCATTTAGATAATGAACAAG-AGTATCCATG-T
* * *
13135299 TGCATTTAGATGATGTACAAGAGTATTCATGT
1 TGCATTTAGATAATGAACAAGAGTATCCATGT
13135331 TGCATTTAGATAA
1 TGCATTTAGATAA
13135344 CGTGTATCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 30 0.77
33 9 0.23
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (32 bp):
TGCATTTAGATAATGAACAAGAGTATCCATGT
Found at i:13139438 original size:20 final size:20
Alignment explanation
Indices: 13139401--13139439 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13139391 TTTAAAGGCT
*
13139401 CATTTAGGACCATGTAGATG
1 CATTTAGAACCATGTAGATG
* *
13139421 CATTTAGAAGCATTTAGAT
1 CATTTAGAACCATGTAGAT
13139440 ACATGTGGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
CATTTAGAACCATGTAGATG
Found at i:13155619 original size:32 final size:33
Alignment explanation
Indices: 13155582--13155763 Score: 187
Period size: 32 Copynumber: 5.7 Consensus size: 33
13155572 AATGATGTTG
*
13155582 CTATGCATTATTTGAATGCAATACTGACCCTGT
1 CTATGCATTATCTGAATGCAATACTGACCCTGT
* *
13155615 -TATGCATTATCT-AAGAGCAATACTGACCATG-
1 CTATGCATTATCTGAA-TGCAATACTGACCCTGT
* ** *
13155646 CTATGCATTATCTGAATGCAATATTGA-TTTTT
1 CTATGCATTATCTGAATGCAATACTGACCCTGT
13155678 CTATGCATTATCTGAATGCAATACTGACCCT-T
1 CTATGCATTATCTGAATGCAATACTGACCCTGT
* * * **
13155710 CTATGCATTATCTAAATACAATAATGACTATG-
1 CTATGCATTATCTGAATGCAATACTGACCCTGT
* *
13155742 CTATGTATTAACTGAATGCAAT
1 CTATGCATTATCTGAATGCAAT
13155764 GTTAATCCTA
Statistics
Matches: 123, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
31 3 0.02
32 117 0.95
33 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
CTATGCATTATCTGAATGCAATACTGACCCTGT
Found at i:13155694 original size:96 final size:96
Alignment explanation
Indices: 13155552--13155763 Score: 284
Period size: 96 Copynumber: 2.2 Consensus size: 96
13155542 TAACCCAGCC
* * * *
13155552 ATGCATTATATGTATGTAATAATGATGTTGCTATGCATTATTTGAATGCAATACTGACCCTGT-T
1 ATGCATTATCTGAATGCAATAATGATGTTGCTATGCATTATCTGAATGCAATACTGACCCT-TCT
* *
13155616 ATGCATTATCTAAGA-GCAATACTGACCATGCT
65 ATGCATTATCTAA-ATACAATAATGACCATGCT
* * *
13155648 ATGCATTATCTGAATGCAATATTGATTTTTCTATGCATTATCTGAATGCAATACTGACCCTTCTA
1 ATGCATTATCTGAATGCAATAATGATGTTGCTATGCATTATCTGAATGCAATACTGACCCTTCTA
*
13155713 TGCATTATCTAAATACAATAATGACTATGCT
66 TGCATTATCTAAATACAATAATGACCATGCT
* *
13155744 ATGTATTAACTGAATGCAAT
1 ATGCATTATCTGAATGCAAT
13155764 GTTAATCCTA
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
95 2 0.02
96 100 0.98
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (96 bp):
ATGCATTATCTGAATGCAATAATGATGTTGCTATGCATTATCTGAATGCAATACTGACCCTTCTA
TGCATTATCTAAATACAATAATGACCATGCT
Found at i:13156154 original size:15 final size:15
Alignment explanation
Indices: 13156134--13156166 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
13156124 TTATGATATC
*
13156134 CTAGTTGTTATTGTT
1 CTAGTTGTTACTGTT
13156149 CTAGTTGTTACTGTT
1 CTAGTTGTTACTGTT
13156164 CTA
1 CTA
13156167 ACTGTCTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (15 bp):
CTAGTTGTTACTGTT
Found at i:13157565 original size:17 final size:17
Alignment explanation
Indices: 13157531--13157576 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
13157521 GAAAATAAGA
*
13157531 AAGAGAGAAT-AA-ATG
1 AAGAGATAATAAAGATG
13157546 AAGAGGATAA-AAAGATG
1 AAGA-GATAATAAAGATG
13157563 AAGAGATAATAAAG
1 AAGAGATAATAAAG
13157577 TCTTCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 11 0.42
17 11 0.42
ACGTcount: A:0.61, C:0.00, G:0.26, T:0.13
Consensus pattern (17 bp):
AAGAGATAATAAAGATG
Found at i:13161028 original size:32 final size:32
Alignment explanation
Indices: 13160962--13161200 Score: 190
Period size: 32 Copynumber: 7.5 Consensus size: 32
13160952 CTATTGGGCT
* * * * * *
13160962 TTATCTAAATGTGATATTGGCCCTGCTATACA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* ** *
13160994 TTATTTGAATGTAATACTGAAGCTATTATGCA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* **
13161026 TTATCTGAATGCAATACTGACCCTGTTATGCA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* ** * *
13161058 TTATTTGAATACAATACTGACTCTGCTATGCA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* *
13161090 TTATATGAATGTAATACTGACCCTACTATGCT
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* * * **
13161122 TTATCTGAATGTAATATTGAACTTGGTATGCA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
* ** * * * *
13161154 TTATCTAAATACAATACTAACCATGCTATGTA
1 TTATCTGAATGTAATACTGACCCTACTATGCA
13161186 TTATCTGAATGTAAT
1 TTATCTGAATGTAAT
13161201 GGTAATCCTA
Statistics
Matches: 163, Mismatches: 44, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 163 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (32 bp):
TTATCTGAATGTAATACTGACCCTACTATGCA
Found at i:13161060 original size:64 final size:62
Alignment explanation
Indices: 13160982--13161200 Score: 224
Period size: 64 Copynumber: 3.4 Consensus size: 62
13160972 GTGATATTGG
* *
13160982 CCCTGCTATACATTATTTGAATGTAATACTGAAGCTATTATGCATTATCTGAATGCAATACTGA
1 CCCTGCTATGCATTATCTGAATGTAATACTGAA-CT-TTATGCATTATCTGAATGCAATACTGA
* * ** * *
13161046 CCCTGTTATGCATTATTTGAATACAATACTG-ACTCTGCTATGCATTATATGAATGTAATACTGA
1 CCCTGCTATGCATTATCTGAATGTAATACTGAACT-T--TATGCATTATCTGAATGCAATACTGA
* * * * * *
13161110 CCCTACTATGCTTTATCTGAATGTAATATTGAACTTGGTATGCATTATCTAAATACAATACTAA
1 CCCTGCTATGCATTATCTGAATGTAATACTGAACTT--TATGCATTATCTGAATGCAATACTGA
* *
13161174 CCATGCTATGTATTATCTGAATGTAAT
1 CCCTGCTATGCATTATCTGAATGTAAT
13161201 GGTAATCCTA
Statistics
Matches: 128, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
62 3 0.02
63 1 0.01
64 121 0.95
65 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37
Consensus pattern (62 bp):
CCCTGCTATGCATTATCTGAATGTAATACTGAACTTTATGCATTATCTGAATGCAATACTGA
Found at i:13161152 original size:96 final size:95
Alignment explanation
Indices: 13160983--13161217 Score: 274
Period size: 96 Copynumber: 2.5 Consensus size: 95
13160973 TGATATTGGC
* * * * *
13160983 CCTGCTATACATTATTTGAATGTAATACTGAAGCTATTATGCATTATCTGAATGCAATACTGACC
1 CCTGCTATGCATTATATGAATGTAATACTGAACCTACTATGCATTATCTGAATGCAATACTGAAC
* * * *
13161048 CTGTTATGCATTATTTGAATACAATACTGA
66 CTGGTATGCATTATCTAAATACAATACTAA
* * * *
13161078 CTCTGCTATGCATTATATGAATGTAATACTGACCCTACTATGCTTTATCTGAATGTAATATTGAA
1 C-CTGCTATGCATTATATGAATGTAATACTGAACCTACTATGCATTATCTGAATGCAATACTGAA
*
13161143 CTTGGTATGCATTATCTAAATACAATACTAA
65 CCTGGTATGCATTATCTAAATACAATACTAA
* * **
13161174 CCATGCTATGTATTATCTGAATGTAATGGT-AATCCTACTATGCA
1 CC-TGCTATGCATTATATGAATGTAATACTGAA-CCTACTATGCA
13161218 CCACACAAGT
Statistics
Matches: 117, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
95 3 0.03
96 114 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (95 bp):
CCTGCTATGCATTATATGAATGTAATACTGAACCTACTATGCATTATCTGAATGCAATACTGAAC
CTGGTATGCATTATCTAAATACAATACTAA
Found at i:13165072 original size:14 final size:14
Alignment explanation
Indices: 13165053--13165091 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
13165043 AGATAAATTA
*
13165053 CAACTTTGATCACT
1 CAACTTTAATCACT
13165067 CAACTTTAATCACT
1 CAACTTTAATCACT
13165081 CAACTTTAATC
1 CAACTTTAATC
13165092 TTATTCGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (14 bp):
CAACTTTAATCACT
Found at i:13173325 original size:19 final size:18
Alignment explanation
Indices: 13173285--13173336 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
13173275 AAAATGAACT
13173285 AAAAAGAAACAATACAGG
1 AAAAAGAAACAATACAGG
* *
13173303 AAAAAGAAACATTATAGG
1 AAAAAGAAACAATACAGG
13173321 AAAAA-AGAACAATACA
1 AAAAAGA-AACAATACA
13173337 TATTTAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.67, C:0.10, G:0.13, T:0.10
Consensus pattern (18 bp):
AAAAAGAAACAATACAGG
Found at i:13174815 original size:2 final size:2
Alignment explanation
Indices: 13174808--13174837 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13174798 TGTTAAAAGA
13174808 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13174838 AATGGTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13191428 original size:9 final size:9
Alignment explanation
Indices: 13191414--13191469 Score: 85
Period size: 9 Copynumber: 6.2 Consensus size: 9
13191404 TATATATTAT
*
13191414 AAGAAAAAA
1 AAGAAAAAG
13191423 AAGAAAAAG
1 AAGAAAAAG
*
13191432 AAGAAGAAG
1 AAGAAAAAG
*
13191441 AAGAAGAAG
1 AAGAAAAAG
13191450 AAGAAAAAG
1 AAGAAAAAG
13191459 AAGAAAAAG
1 AAGAAAAAG
13191468 AA
1 AA
13191470 AAGAAAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 44 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAGAAAAAG
Found at i:13191431 original size:6 final size:6
Alignment explanation
Indices: 13191420--13191477 Score: 57
Period size: 6 Copynumber: 9.8 Consensus size: 6
13191410 TTATAAGAAA
* * * *
13191420 AAAAAG AAAAAG AAGAAG AAGAAG AAGAAG AAGAAA- AAGAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG
13191468 -AAAAG AAAAA
1 AAAAAG AAAAA
13191478 AATGAGAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
5 7 0.16
6 36 0.80
7 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:13191435 original size:3 final size:3
Alignment explanation
Indices: 13191423--13191474 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
13191413 TAAGAAAAAA
* * *
13191423 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAA AAG AA-
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
13191470 AAG AA
1 AAG AA
13191475 AAAAATGAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13193215 original size:20 final size:20
Alignment explanation
Indices: 13193187--13193232 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
13193177 AAATGGATTT
* *
13193187 ATTTAGTGACCAAATTATAA
1 ATTTGGTGACCAAAGTATAA
13193207 ATTTGGTGACCAAAGTATAA
1 ATTTGGTGACCAAAGTATAA
13193227 ACTTTG
1 A-TTTG
13193233 AAAAGTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (20 bp):
ATTTGGTGACCAAAGTATAA
Found at i:13203438 original size:8 final size:8
Alignment explanation
Indices: 13203425--13203481 Score: 114
Period size: 8 Copynumber: 7.1 Consensus size: 8
13203415 CAAGGCCTTC
13203425 GGCAAATA
1 GGCAAATA
13203433 GGCAAATA
1 GGCAAATA
13203441 GGCAAATA
1 GGCAAATA
13203449 GGCAAATA
1 GGCAAATA
13203457 GGCAAATA
1 GGCAAATA
13203465 GGCAAATA
1 GGCAAATA
13203473 GGCAAATA
1 GGCAAATA
13203481 G
1 G
13203482 TGAGAAAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 49 1.00
ACGTcount: A:0.49, C:0.12, G:0.26, T:0.12
Consensus pattern (8 bp):
GGCAAATA
Found at i:13214281 original size:23 final size:24
Alignment explanation
Indices: 13214229--13214282 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
13214219 TTATTATATA
13214229 TTGTATTAGTTTGTAATAACTTTT
1 TTGTATTAGTTTGTAATAACTTTT
* * *
13214253 AT-TATTATTTTGTAAT-ATTTTT
1 TTGTATTAGTTTGTAATAACTTTT
13214275 TTGTATTA
1 TTGTATTA
13214283 AACCATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 6 0.24
23 18 0.72
24 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (24 bp):
TTGTATTAGTTTGTAATAACTTTT
Found at i:13228264 original size:7 final size:7
Alignment explanation
Indices: 13228241--13228285 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
13228231 GGTCAAAGGA
13228241 GGTCAAC
1 GGTCAAC
13228248 GGTC-AC
1 GGTCAAC
*
13228254 GGTCAAT
1 GGTCAAC
*
13228261 GGTCAAA
1 GGTCAAC
13228268 GGTCAAC
1 GGTCAAC
*
13228275 GGTCAAT
1 GGTCAAC
13228282 GGTC
1 GGTC
13228286 GGGTCGGGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (7 bp):
GGTCAAC
Found at i:13228278 original size:21 final size:20
Alignment explanation
Indices: 13228241--13228285 Score: 72
Period size: 21 Copynumber: 2.2 Consensus size: 20
13228231 GGTCAAAGGA
*
13228241 GGTCAACGGTCACGGTCAAT
1 GGTCAAAGGTCACGGTCAAT
13228261 GGTCAAAGGTCAACGGTCAAT
1 GGTCAAAGGTC-ACGGTCAAT
13228282 GGTC
1 GGTC
13228286 GGGTCGGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (20 bp):
GGTCAAAGGTCACGGTCAAT
Found at i:13234739 original size:18 final size:18
Alignment explanation
Indices: 13234718--13234758 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
13234708 CAAGAGTCAC
13234718 ATTAGGCCCATTCTGTTT
1 ATTAGGCCCATTCTGTTT
13234736 ATTAGGCCCATTCTGTTT
1 ATTAGGCCCATTCTGTTT
13234754 ATTAG
1 ATTAG
13234759 CTTGATCAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.44
Consensus pattern (18 bp):
ATTAGGCCCATTCTGTTT
Found at i:13235652 original size:20 final size:21
Alignment explanation
Indices: 13235619--13235657 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
13235609 GAAACCGATC
13235619 AAACCAGTCAAAATCGGTTCA
1 AAACCAGTCAAAATCGGTTCA
*
13235640 AAACCGGTC-AAATCGGTT
1 AAACCAGTCAAAATCGGTT
13235658 TTCCAGCTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (21 bp):
AAACCAGTCAAAATCGGTTCA
Found at i:13239560 original size:26 final size:27
Alignment explanation
Indices: 13239531--13239591 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
13239521 CATTCGGTTC
13239531 TAGAAAATAATTTT-ATTTTTTA-TTTT
1 TAGAAAATAATTTTCA-TTTTTAGTTTT
*
13239557 TAGAAAATAGTTTTCATTTTTAGTTTT
1 TAGAAAATAATTTTCATTTTTAGTTTT
*
13239584 TTGAAAAT
1 TAGAAAAT
13239592 TAGAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 19 0.61
27 12 0.39
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.56
Consensus pattern (27 bp):
TAGAAAATAATTTTCATTTTTAGTTTT
Found at i:13239900 original size:2 final size:2
Alignment explanation
Indices: 13239895--13239920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13239885 AGTGACATGA
13239895 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13239921 GGTATTTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13243111 original size:18 final size:18
Alignment explanation
Indices: 13243064--13243120 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
13243054 TTTGGAGTGC
*
13243064 AAAAAG-AAAGAAAAAGAG
1 AAAAAGAAAAG-AAAAGAA
**
13243082 AAAAA-ATCAGAAAAGAA
1 AAAAAGAAAAGAAAAGAA
13243099 AAAAAGAAAAGAAATAGAA
1 AAAAAGAAAAGAAA-AGAA
13243118 AAA
1 AAA
13243121 TTCAAAAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.35
18 13 0.42
19 7 0.23
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAGAA
Found at i:13243118 original size:34 final size:34
Alignment explanation
Indices: 13243064--13243132 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
13243054 TTTGGAGTGC
13243064 AAAAAGAAAGAAAAAGAGAAAAAATCAGAAAAGAA
1 AAAAAGAAAGAAAAAGAGAAAAAATCA-AAAAGAA
* * *
13243099 AAAAAGAAA-AGAAATAGAAAAATTCAAAAAGAA
1 AAAAAGAAAGAAAAAGAGAAAAAATCAAAAAGAA
13243132 A
1 A
13243133 GCAAGCCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 8 0.26
34 14 0.45
35 9 0.29
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (34 bp):
AAAAAGAAAGAAAAAGAGAAAAAATCAAAAAGAA
Found at i:13255885 original size:67 final size:68
Alignment explanation
Indices: 13255691--13255876 Score: 243
Period size: 68 Copynumber: 2.8 Consensus size: 68
13255681 TAAAAGAATA
* * * *
13255691 AAGGCCTAACTGTGCATATGATAG--AAATGTCATTTTTGCCAATTAGATGAAAGACTAAGTGTC
1 AAGGCCTAACTGTGCATATGACAGAAAAATCTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
13255754 TTT
66 TTT
** * * *
13255757 AAGGCCTAACTGTGCATATGACAGAAATGTTTCATTTATGTCAGTTAGATGAAAGACTAAGTTTC
1 AAGGCCTAACTGTGCATATGACAGAAAAATCTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
13255822 TTT
66 TTT
* * *
13255825 GAGGCCTAACTGTGCAT-TGACAGAAAAATCTCAATTATGCCAGTTAAATGAA
1 AAGGCCTAACTGTGCATATGACAGAAAAATCTCATTTATGCCAGTTAGATGAA
13255877 CGGTTAAGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
66 23 0.22
67 29 0.28
68 51 0.50
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (68 bp):
AAGGCCTAACTGTGCATATGACAGAAAAATCTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:13255962 original size:80 final size:80
Alignment explanation
Indices: 13255827--13256037 Score: 296
Period size: 80 Copynumber: 2.6 Consensus size: 80
13255817 GTTTCTTTGA
* *
13255827 GGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTT
1 GGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTT
13255892 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* * * * * *
13255907 GTCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACTGTT
1 GGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTT
13255972 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* * * * *
13255987 GGCCTAACTGTGTATATGACATAAATGTGTCATTTATGCCAGTTATATGAA
1 GGCCTAACTGTGCAT-TGACAGAAAAGTGTCAATTATGCCAGTTAAATGAA
13256038 AGACTAAGTG
Statistics
Matches: 115, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 85 0.74
81 30 0.26
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (80 bp):
GGCCTAACTGTGCATTGACAGAAAAGTGTCAATTATGCCAGTTAAATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAAT
Found at i:13256190 original size:67 final size:68
Alignment explanation
Indices: 13255987--13256172 Score: 293
Period size: 68 Copynumber: 2.8 Consensus size: 68
13255977 AAAGAATAAT
* *
13255987 GGCCTAACTGTGTATATGACATAAATGTGTCATTTATGCCAGTTATATGAAAGACTAAGTGTCTT
1 GGCCTAACTGTGCATATGACATAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTT
*
13256052 TAA
66 TGA
* * *
13256055 GGGCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTT
1 GGCCTAACTGTGCATATGACATAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTT
13256120 TGA
66 TGA
* *
13256123 GGCCTAACTGTGCAT-TGGCATAAATGTGTCAATTATGCCAGTTAGATGAA
1 GGCCTAACTGTGCATATGACATAAATGTGTCATTTATGCCAGTTAGATGAA
13256173 CGGTTAAGTA
Statistics
Matches: 107, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
67 32 0.30
68 75 0.70
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (68 bp):
GGCCTAACTGTGCATATGACATAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTCTT
TGA
Found at i:13256252 original size:296 final size:295
Alignment explanation
Indices: 13255679--13256342 Score: 1037
Period size: 296 Copynumber: 2.3 Consensus size: 295
13255669 ACTGCTCTAA
* * * *
13255679 AGTAAAAGAATAAAGGCCTAACTGTGCATATGATAGAAA-TGTCATTTTTGCCAATTAGATGAAA
1 AGTAAAAGAATAATGGCCTAACTGTGCATATGACAGAAAGTGTCATTTATGCCAGTTAGATGAAA
* * *
13255743 GACTAAGTGTCTTTAAGGCCTAACTGTGCATATGACAGAAATGTTTCATTTATGTCAGTTAGATG
66 GACTAAGTGTCTTTAAGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATG
*
13255808 AAAGACTAAGTTTCTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAA
131 AAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAA
*
13255873 TGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGTCCTAACTGTGCATTGGCAGAAAGGTGTCA
196 TGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGTCCTAACTGTGCATTGGAAGAAAGGTGTCA
* *
13255938 ATTATGCCAGTTAGATGAATGGTTAAGTACTGTTG
261 ATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
* * *
13255973 AGTAAAAGAATAATGGCCTAACTGTGTATATGACATAAATGTGTCATTTATGCCAGTTATATGAA
1 AGTAAAAGAATAATGGCCTAACTGTGCATATGACAGAAA-GTGTCATTTATGCCAGTTAGATGAA
*
13256038 AGACTAAGTGTCTTTAAGGGCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGAT
65 AGACTAAGTGTCTTTAAGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGAT
* * ** * *
13256103 GAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATTGGCATAAATGTGTCAATTATGCCAGTTAG
130 GAAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAA
*
13256168 ATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGGT-CTAACTGTGCATTGGAAGAAATGTGT
195 ATGAACGGTTAAGTACCGTTGAGTAAAAGAATAAT-GTCCTAACTGTGCATTGGAAGAAAGGTGT
13256232 CAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
259 CAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
* * *
13256269 AGTAAAAGAATAATGGCCTAACTGTGCAT-TGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGAATAATGGCCTAACTGTGCATATGACAGAAA-GTGTCATTTATGCCAGTTAGATGAA
* *
13256333 AAATTAAGTG
65 AGACTAAGTG
13256343 CCGTTGAGTA
Statistics
Matches: 336, Mismatches: 31, Indels: 5
0.90 0.08 0.01
Matches are distributed among these distances:
294 35 0.10
295 37 0.11
296 262 0.78
297 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (295 bp):
AGTAAAAGAATAATGGCCTAACTGTGCATATGACAGAAAGTGTCATTTATGCCAGTTAGATGAAA
GACTAAGTGTCTTTAAGGCCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATG
AAAGACTAAGTGTCTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAA
TGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGTCCTAACTGTGCATTGGAAGAAAGGTGTCA
ATTATGCCAGTTAGATGAACGGTTAAGTACCGTTG
Found at i:13256259 original size:80 final size:80
Alignment explanation
Indices: 13256123--13256486 Score: 566
Period size: 80 Copynumber: 4.5 Consensus size: 80
13256113 GTGTCTTTGA
*
13256123 GGCCTAACTGTGCATTGGCATAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
13256188 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* *
13256203 GGTCTAACTGTGCATTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
13256268 GAGTAAAAGAATAAT
66 GAGTAAAAGAATAAT
* * *** *
13256283 GGCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAAAAATTAAGTGCCGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
*
13256348 GAGTAAAAGAATAAC
66 GAGTAAAAGAATAAT
** * * * * *
13256363 AACCTAATTGTGCAATTAGTAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGT
1 GGCCTAACTGTGC-ATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGT
13256428 TGAGTAAAAGAATAAT
65 TGAGTAAAAGAATAAT
13256444 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTT
13256487 TGACGAACAT
Statistics
Matches: 254, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 185 0.73
81 69 0.27
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (80 bp):
GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
GAGTAAAAGAATAAT
Found at i:13256402 original size:376 final size:362
Alignment explanation
Indices: 13255691--13256413 Score: 921
Period size: 376 Copynumber: 2.0 Consensus size: 362
13255681 TAAAAGAATA
* * *
13255691 AAGGCCTAACTGTGCATATGATAGAAATGTCATTTTTGCCAATTAGATGAAAGACTAAGTGTCTT
1 AAGGCCTAACTATGCATATGACAGAAATGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTT
* * * **
13255756 TAAGGCCTAACTGTGCATATGACAGAAATGTTTCATTTATGTCAGTTAGATGAAAGACTAAGTTT
66 TAAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTAC
13255821 CTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAATGAACGGTTAAGT
131 CTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAATGAACGGTTAAGT
*
13255886 ACCGTTGAGTAAAAGAATAATGTCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCCAGTTA
196 ACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCCAGTTA
*** * *** * * *
13255951 GATGAATGGTTAAGTACTGTTGAGTAAAAGAATAATGGCCTAACTGTGTATATGACATAAATGTG
261 GATGAAAAATTAAGTACCGTTGAGTAAAAGAATAACAACCTAACTGTGCATATGACAGAAAGGTG
* *
13256016 TCATTTATGCCAGTTATATGAAAGACTAAGTGTCTTT
326 TCAATTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
* *
13256053 AAGGGCTAACTATGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 AAGGCCTAACTATGCATATGACAGAAA--TGTCATTTATGCCAATTAGATGAAAGACTAAGTGTC
* * * * **
13256118 TTTGAGGCCTAACTGTGCAT-TGGCATAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGT
64 TTTAAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGT
* ** *
13256182 ACCGTTGAGTAAAAGAATAATGGTCTAACTGTGCATTGGA-AGAAATGTGTCAATTATGCCAGTT
129 ACC-TT---T----G----A-GGCCTAACTGTGCATT-GACAGAAAAATCTCAATTATGCCAGTT
*
13256246 AGATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCATTGGCAGAAAGGTG
180 AAATGAACGGTTAAGTACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCATTGGCAGAAAGGTG
* * *
13256311 TCAATTATGCTAGTTAGATGAAAAATTAAGTGCCGTTGAGTAAAAGAATAACAACCTAATTGTGC
245 TCAATTATGCCAGTTAGATGAAAAATTAAGTACCGTTGAGTAAAAGAATAACAACCTAACTGTGC
* *
13256376 A-ATTAGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
310 ATATGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAA
13256414 TGGTTAAGTA
Statistics
Matches: 305, Mismatches: 39, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
362 24 0.08
363 37 0.12
364 55 0.18
367 1 0.00
371 1 0.00
375 4 0.01
376 181 0.59
377 2 0.01
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (362 bp):
AAGGCCTAACTATGCATATGACAGAAATGTCATTTATGCCAATTAGATGAAAGACTAAGTGTCTT
TAAGGCCTAACTGTGCATATGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGACTAAGTAC
CTTTGAGGCCTAACTGTGCATTGACAGAAAAATCTCAATTATGCCAGTTAAATGAACGGTTAAGT
ACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCCAGTTA
GATGAAAAATTAAGTACCGTTGAGTAAAAGAATAACAACCTAACTGTGCATATGACAGAAAGGTG
TCAATTATGCCAGTTAGATGAAAGACTAAGTGTCTTT
Found at i:13256452 original size:161 final size:160
Alignment explanation
Indices: 13256123--13256486 Score: 575
Period size: 161 Copynumber: 2.3 Consensus size: 160
13256113 GTGTCTTTGA
* ***
13256123 GGCCTAACTGTGCATTGGCATAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAAAATTAAGTACCGTT
**** * *
13256188 GAGTAAAAGAATAATGGTCTAACTGTGCATTGGAAGAAATGTGTCAATTATGCCAGTTAGATGAA
66 GAGTAAAAGAATAACAACCTAACTGTGCATTAGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
13256253 CGGTTAAGTACCGTTGAGTAAAAGAATAAT
131 CGGTTAAGTACCGTTGAGTAAAAGAATAAT
* * *
13256283 GGCCTAACTGTGCATTGGCAGAAAGGTGTCAATTATGCTAGTTAGATGAAAAATTAAGTGCCGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAAAATTAAGTACCGTT
* *
13256348 GAGTAAAAGAATAACAACCTAATTGTGCAATTAGTAGAAAGGTGTCAATTATGCCAGTTAGATGA
66 GAGTAAAAGAATAACAACCTAACTGTGC-ATTAGAAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
13256413 ATGGTTAAGTACCGTTGAGTAAAAGAATAAT
130 ACGGTTAAGTACCGTTGAGTAAAAGAATAAT
13256444 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTT
1 GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTT
13256487 TGACGAACAT
Statistics
Matches: 185, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
160 81 0.44
161 104 0.56
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (160 bp):
GGCCTAACTGTGCATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAAAAATTAAGTACCGTT
GAGTAAAAGAATAACAACCTAACTGTGCATTAGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
CGGTTAAGTACCGTTGAGTAAAAGAATAAT
Found at i:13260985 original size:21 final size:21
Alignment explanation
Indices: 13260960--13261002 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13260950 AACTTCTTTT
13260960 TCTTTGCAATTTCTTTTCTTC
1 TCTTTGCAATTTCTTTTCTTC
***
13260981 TCTTTTTGATTTCTTTTCTTC
1 TCTTTGCAATTTCTTTTCTTC
13261002 T
1 T
13261003 TGAATTCTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.21, G:0.05, T:0.67
Consensus pattern (21 bp):
TCTTTGCAATTTCTTTTCTTC
Found at i:13269946 original size:2 final size:2
Alignment explanation
Indices: 13269939--13270311 Score: 236
Period size: 2 Copynumber: 187.5 Consensus size: 2
13269929 TGTTCTGATA
13269939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13269981 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
13270023 AGT AT AT AA ACT AT A- AA AT AT AT AA AGT AT AA AT AT A- AGT AT
1 A-T AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT
* * *
13270065 AT AA ACT AT AT AGT AT AT AT AT AA ACT AT A- AT AT AT TT AT AT
1 AT AT A-T AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * **
13270107 AT AT A- AGT AT AA AA ACT AT AT AGT AT A- AGT AT AT AT AT GC AT
1 AT AT AT A-T AT AT AT A-T AT AT A-T AT AT A-T AT AT AT AT AT AT
* * * * * ** *
13270149 GT AT GT AC GT AT GT AT A- AT GC AT AT AT AT AT AT AT AT GT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * * * * * * *
13270191 A- AT TT AT -T A- AA AA AT A- AA AG AA AA AA AT A- AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
13270228 AT AT GT AT AT AT AA AT AT AA AT A- AT AT AT A- AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
13270267 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT -T AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
13270309 AT A
1 AT A
13270312 ATTAAACATG
Statistics
Matches: 292, Mismatches: 51, Indels: 56
0.73 0.13 0.14
Matches are distributed among these distances:
1 15 0.05
2 260 0.89
3 17 0.06
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (2 bp):
AT
Found at i:13270736 original size:2 final size:2
Alignment explanation
Indices: 13270729--13270753 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13270719 ACTCACTTGA
13270729 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13270754 ATCTCAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13270951 original size:149 final size:152
Alignment explanation
Indices: 13270693--13270995 Score: 513
Period size: 149 Copynumber: 2.0 Consensus size: 152
13270683 AAAAATAATC
* * *
13270693 TTTCTTTTAAAAAGCTTTCTCCCACCACTCACTTGAATATATATATATATATATATATATAATCT
1 TTTCTTTTAAAAAACTTTATCCCACCACTCACTTG-A-ATATATATATACATATATATATAATCT
*
13270758 CAAATAAATTCATCTTATATGTATATCTTAAATTTTATGATAAATTATATTTAAATTATTAATTA
64 CAAATAAATTCATCCTATATGTATATCTTAAATTTTATGATAAATTATATTTAAATTATTAATTA
13270823 ATTATTACATGAGAAATAAATTAA
129 ATTATTACATGAGAAATAAATTAA
*
13270847 TTTCTTTTAAAAAACTTTATCCCACTACTCACTTG-A-ATATATATACATATATAT-TAATCTCA
1 TTTCTTTTAAAAAACTTTATCCCACCACTCACTTGAATATATATATACATATATATATAATCTCA
*
13270909 AATAAATTTATCCTATATGTATATCTTAAATTTTATGATAAATTATATTTAAATTATTAATTAAT
66 AATAAATTCATCCTATATGTATATCTTAAATTTTATGATAAATTATATTTAAATTATTAATTAAT
13270974 TATTACATGAGAAATAAATTAA
131 TATTACATGAGAAATAAATTAA
13270996 ACTTATAAAT
Statistics
Matches: 143, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
149 93 0.65
150 17 0.12
151 1 0.01
154 32 0.22
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.44
Consensus pattern (152 bp):
TTTCTTTTAAAAAACTTTATCCCACCACTCACTTGAATATATATATACATATATATATAATCTCA
AATAAATTCATCCTATATGTATATCTTAAATTTTATGATAAATTATATTTAAATTATTAATTAAT
TATTACATGAGAAATAAATTAA
Found at i:13271022 original size:21 final size:20
Alignment explanation
Indices: 13270988--13271031 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
13270978 ACATGAGAAA
13270988 TAAATTAAACTTATAAATATT
1 TAAATTAAACTTATAAA-ATT
** *
13271009 TAAATTAATTTTATATAATT
1 TAAATTAAACTTATAAAATT
13271029 TAA
1 TAA
13271032 TAAAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATTAAACTTATAAAATT
Found at i:13271115 original size:14 final size:13
Alignment explanation
Indices: 13271090--13271127 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
13271080 TAATTTAATT
13271090 ATTATAATTAA-G
1 ATTATAATTAAGG
13271102 ATTTATAATATAAGG
1 A-TTATAAT-TAAGG
13271117 ATTATAATTAA
1 ATTATAATTAA
13271128 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (13 bp):
ATTATAATTAAGG
Found at i:13272721 original size:2 final size:2
Alignment explanation
Indices: 13272714--13272789 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
13272704 GTTGACACTG
13272714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13272756 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13272790 TACATCATTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13277350 original size:22 final size:25
Alignment explanation
Indices: 13277299--13277357 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
13277289 GTCTGGATCC
* *
13277299 TTATTTTTATTAATATTATATATTT
1 TTATTTTTATTTATATTATACATTT
13277324 TTATTTTTATTTA-ATTAT-CA-TT
1 TTATTTTTATTTATATTATACATTT
13277346 TTA-TTTTATTTA
1 TTATTTTTATTTA
13277358 CATGCTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 9 0.28
22 5 0.16
23 1 0.03
24 5 0.16
25 12 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (25 bp):
TTATTTTTATTTATATTATACATTT
Found at i:13280269 original size:23 final size:24
Alignment explanation
Indices: 13280243--13280291 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
13280233 AATAAAACAT
13280243 GGATGTA-AAAACATGTATGGGTA
1 GGATGTACAAAACATGTATGGGTA
* *
13280266 GGATGTACTAAATCATGTTTGGGTA
1 GGATGTAC-AAAACATGTATGGGTA
13280291 G
1 G
13280292 ACAACATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.32
25 15 0.68
ACGTcount: A:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (24 bp):
GGATGTACAAAACATGTATGGGTA
Found at i:13284198 original size:90 final size:89
Alignment explanation
Indices: 13284040--13284217 Score: 302
Period size: 90 Copynumber: 2.0 Consensus size: 89
13284030 CCTAACACAC
13284040 CCTTTTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
1 CCTTTTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
* *
13284105 TTTAATTAATTGGAATTTAATAAT
66 TTTAATTAATTGAAATTAAATAAT
* * *
13284129 CCTTTTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTTAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTAACCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTAT
13284194 ATTTAATTAATTGAAATTAAATAA
65 ATTTAATTAATTGAAATTAAATAA
13284218 ATCTATATTT
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 33 0.40
90 50 0.60
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (89 bp):
CCTTTTATAGCCAAGTTAACCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATA
TTTAATTAATTGAAATTAAATAAT
Found at i:13284211 original size:30 final size:30
Alignment explanation
Indices: 13284177--13284246 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
13284167 TTATTATTTT
*
13284177 AAATTAATTAAATCTATATTTAATTAATTG
1 AAATTAAATAAATCTATATTTAATTAATTG
13284207 AAATTAAATAAATCTATATTTAATTAATTG
1 AAATTAAATAAATCTATATTTAATTAATTG
13284237 AAATTAAATA
1 AAATTAAATA
13284247 TTCGAGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (30 bp):
AAATTAAATAAATCTATATTTAATTAATTG
Found at i:13287493 original size:21 final size:19
Alignment explanation
Indices: 13287468--13287514 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 19
13287458 CTTTGTGGAG
*
13287468 GCCATGAAATCTTTCGTCGAA
1 GCCATGAAA--TTTCATCGAA
*
13287489 GCCAT-AAATTTCATCGAG
1 GCCATGAAATTTCATCGAA
13287507 GCCATGAA
1 GCCATGAA
13287515 TTAGTATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.57
19 2 0.09
20 3 0.13
21 5 0.22
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (19 bp):
GCCATGAAATTTCATCGAA
Found at i:13298459 original size:18 final size:17
Alignment explanation
Indices: 13298430--13298471 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
13298420 ATTTCACTTG
13298430 AATAAAAATAAAAAAAT
1 AATAAAAATAAAAAAAT
13298447 AATAAATAATAAAAAAAT
1 AATAAA-AATAAAAAAAT
13298465 -ATAAAAA
1 AATAAAAA
13298472 GAATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.08
17 11 0.46
18 11 0.46
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AATAAAAATAAAAAAAT
Found at i:13298470 original size:26 final size:25
Alignment explanation
Indices: 13298433--13298524 Score: 89
Period size: 26 Copynumber: 3.5 Consensus size: 25
13298423 TCACTTGAAT
*
13298433 AAAAATAAAAAAATAATAAATAATAA
1 AAAAATATAAAAATAATAAATAA-AA
*
13298459 AAAAATATAAAAAGAATAAATAAAA
1 AAAAATATAAAAATAATAAATAAAA
*
13298484 AAGGAATGA-AAAAGATAA-ATAATAAAA
1 AA-AAAT-ATAAAA-ATAATA-AATAAAA
13298511 GAAAAATATAAAAA
1 -AAAAATATAAAAA
13298525 GGTGTTTCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
25 4 0.07
26 31 0.56
27 18 0.33
28 2 0.04
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (25 bp):
AAAAATATAAAAATAATAAATAAAA
Found at i:13298490 original size:15 final size:15
Alignment explanation
Indices: 13298429--13298525 Score: 54
Period size: 14 Copynumber: 7.1 Consensus size: 15
13298419 TATTTCACTT
*
13298429 GAATAAAAATAAAAA
1 GAATAAATATAAAAA
* *
13298444 -AATAATAAATAATAA
1 GAATAA-ATATAAAAA
13298459 -AA-AAATATAAAAA
1 GAATAAATATAAAAA
13298472 GAATAAATA-AAAAA
1 GAATAAATATAAAAA
* *
13298486 G---GAAT-GAAAAA
1 GAATAAATATAAAAA
13298497 G-ATAAATA-ATAAAA
1 GAATAAATATA-AAAA
13298511 GAA-AAATATAAAAA
1 GAATAAATATAAAAA
13298525 G
1 G
13298526 GTGTTTCAAG
Statistics
Matches: 67, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
11 9 0.13
13 11 0.16
14 30 0.45
15 17 0.25
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.16
Consensus pattern (15 bp):
GAATAAATATAAAAA
Found at i:13302588 original size:19 final size:20
Alignment explanation
Indices: 13302564--13302618 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
13302554 GCTATTTTTG
*
13302564 GTATCGATACTC-AGGGTGA
1 GTATCGATACTCAAGGGTCA
* *
13302583 GTATCGATACCCAAGGGTCT
1 GTATCGATACTCAAGGGTCA
13302603 GTATCGATACTACAAG
1 GTATCGATACT-CAAG
13302619 CAAAGTATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.37
20 15 0.50
21 4 0.13
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (20 bp):
GTATCGATACTCAAGGGTCA
Found at i:13311118 original size:15 final size:15
Alignment explanation
Indices: 13311095--13311124 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13311085 TCAACCCACT
13311095 GCAAAAAAATTATTA
1 GCAAAAAAATTATTA
*
13311110 GCAACAAAATTATTA
1 GCAAAAAAATTATTA
13311125 TCAGCAGCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.27
Consensus pattern (15 bp):
GCAAAAAAATTATTA
Found at i:13313107 original size:66 final size:66
Alignment explanation
Indices: 13312935--13313160 Score: 326
Period size: 66 Copynumber: 3.4 Consensus size: 66
13312925 GAATACCAGG
* * *
13312935 AGTGGCACCTTTTATGCCGATAATGCATCGTTATACATTAATCAAATTCGATCGATAATTTTTCA
1 AGTGGAACCTTTTATGCCGATAATGCATCATTATACATTAATCAAAATCGATCGATAA-TTTTCA
13313000 TT
65 TT
* * * * * *
13313002 ACTGGCACCTTTTATGCCGATAATGTACCATCATGCATTAATCAAAATCGATCGATAATTTTCAT
1 AGTGGAACCTTTTATGCCGATAATGCATCATTATACATTAATCAAAATCGATCGATAATTTTCAT
13313067 T
66 T
* * *
13313068 AGTGGAATCTTTTATGCCGATAATGCATCTTTATACATTAATCAAAATCGATCAATAATTTTCAT
1 AGTGGAACCTTTTATGCCGATAATGCATCATTATACATTAATCAAAATCGATCGATAATTTTCAT
13313133 T
66 T
*
13313134 AGTTGAACCTTTTATGCCGATAATGCA
1 AGTGGAACCTTTTATGCCGATAATGCA
13313161 CCTATGACTC
Statistics
Matches: 141, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 90 0.64
67 51 0.36
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (66 bp):
AGTGGAACCTTTTATGCCGATAATGCATCATTATACATTAATCAAAATCGATCGATAATTTTCAT
T
Found at i:13314618 original size:138 final size:138
Alignment explanation
Indices: 13314462--13314711 Score: 378
Period size: 139 Copynumber: 1.8 Consensus size: 138
13314452 CATTAAATAA
13314462 AAAATTCAAGTTTTTTGTAATAAATTATTTTT-TACTTATATATTTTAATCATTATGAAAAATTA
1 AAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
*
13314526 TACTATCA-AAACCATTTCACCGTATTTTTTAGTGTCAAAAATGTTATATAATAACAAAATATAT
66 TACTATCAGAAA-CATTTCACCCTATTTTTTAGTG-CAAAAATGTTATATAATAACAAAATATAT
13314590 TGTAATTAAT
129 TGTAATTAAT
* * * * *
13314600 AAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATTATTATGAAAACTTA
1 AAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
* * * *
13314665 TACTATTAGAAATATTTCTCCCTATTTTTTGGTGCAAAAATGTTATA
66 TACTATCAGAAACATTTCACCCTATTTTTTAGTGCAAAAATGTTATA
13314712 GTGACAAGTT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
138 43 0.43
139 54 0.54
140 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.07, T:0.47
Consensus pattern (138 bp):
AAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
TACTATCAGAAACATTTCACCCTATTTTTTAGTGCAAAAATGTTATATAATAACAAAATATATTG
TAATTAAT
Found at i:13315207 original size:242 final size:238
Alignment explanation
Indices: 13314910--13315392 Score: 826
Period size: 242 Copynumber: 2.0 Consensus size: 238
13314900 TTTTTACTAA
13314910 TAATAATATATATATATATAATTAAATGGCATTTTCAAATAAAATATAATAACAAAAATATATTA
1 TAATAATATATATATATATAATTAAATGGCATTTTCAAATAAAATATAATAACAAAAATATATTA
* *
13314975 TCAAAAAGTTCAGGGGCTTGTTTATTTATTAAAAAATCATTATTCTAAATTTAAAATCTAAAACA
66 TCAAAAAGTTCAGGAGCTTATTTATTTATTAAAAAATCATTATTCTAAATTTAAAATCTAAAACA
** * *
13315040 CACAAATTATAAAATA-TAAAAAATAGTAAAAGTGAAAATTAAATTGCTAAAAAAAATTGAACTA
131 CACAAAAAATAAAATAGT-AAAAATAGTAAAAATGAAAATTAAATTACT--AAAAAATTGAAC-A
13315104 TATATATATATTGAGTTGGGGAATGAACAAGCTAACTTAAGCCCTCAGG
192 -ATATATATATTGAGTT-GGGAATGAACAAGCTAACTTAAGCCCTCAGG
* *
13315153 TAAT-ATATATATATATATTATTAAATGGTATTTTCAAATAAAATATAATAACAAAAATATATTA
1 TAATAATATATATATATATAATTAAATGGCATTTTCAAATAAAATATAATAACAAAAATATATTA
13315217 TCAAAAAGTTCAGGAGCTTATTTATTTATTAAAAAATCATTATTCTAAATTTAAAATCTAAAACA
66 TCAAAAAGTTCAGGAGCTTATTTATTTATTAAAAAATCATTATTCTAAATTTAAAATCTAAAACA
13315282 CACAAAAAATAAAATAGTAAAAATAGTAAAAATGAAAATTAAATTACTAAAAAATTGAACAATAT
131 CACAAAAAATAAAATAGTAAAAATAGTAAAAATGAAAATTAAATTACTAAAAAATTGAACAATAT
13315347 ATATATTGAGTTGGGAATGAACAAGCTAACTTAAGCCCTCAGG
196 ATATATTGAGTTGGGAATGAACAAGCTAACTTAAGCCCTCAGG
13315390 TAA
1 TAA
13315393 AGCGGTTCGT
Statistics
Matches: 231, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
237 34 0.15
238 16 0.07
239 1 0.00
240 12 0.05
242 163 0.71
243 5 0.02
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.32
Consensus pattern (238 bp):
TAATAATATATATATATATAATTAAATGGCATTTTCAAATAAAATATAATAACAAAAATATATTA
TCAAAAAGTTCAGGAGCTTATTTATTTATTAAAAAATCATTATTCTAAATTTAAAATCTAAAACA
CACAAAAAATAAAATAGTAAAAATAGTAAAAATGAAAATTAAATTACTAAAAAATTGAACAATAT
ATATATTGAGTTGGGAATGAACAAGCTAACTTAAGCCCTCAGG
Found at i:13318634 original size:21 final size:21
Alignment explanation
Indices: 13318608--13318647 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13318598 TCACAATAAC
13318608 ATATTAAATTTAATAAAAAAT
1 ATATTAAATTTAATAAAAAAT
*
13318629 ATATTAAATTTAATCAAAA
1 ATATTAAATTTAATAAAAA
13318648 TAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATTAAATTTAATAAAAAAT
Found at i:13319709 original size:22 final size:22
Alignment explanation
Indices: 13319683--13319745 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
13319673 ATCGGTACCC
*
13319683 ATACTATGGTATCAATACTTCT
1 ATACTATGGTACCAATACTTCT
*
13319705 ATACTATGGTACCGATACTTCT
1 ATACTATGGTACCAATACTTCT
13319727 ATACTATGGTACCAATACT
1 ATACTATGGTACCAATACT
13319746 CCCTTCAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (22 bp):
ATACTATGGTACCAATACTTCT
Found at i:13324898 original size:44 final size:44
Alignment explanation
Indices: 13324824--13324925 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
13324814 GATGAGAGGT
** *
13324824 CTTAGGAAATAAGTTGGGTAATGCTGGTAATAGCTCCAACATAG
1 CTTAGGAAATAAGTCAGGTAATGCTAGTAATAGCTCCAACATAG
* * *
13324868 CTTAGGAAATAAGTCAGGTAGTGCTAGTAATAGGTCCAATATAG
1 CTTAGGAAATAAGTCAGGTAATGCTAGTAATAGCTCCAACATAG
*
13324912 -TGAGAGAAATAAGT
1 CTTAG-GAAATAAGT
13324926 TGGAATTATA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTAGGAAATAAGTCAGGTAATGCTAGTAATAGCTCCAACATAG
Found at i:13327867 original size:111 final size:111
Alignment explanation
Indices: 13327673--13327895 Score: 446
Period size: 111 Copynumber: 2.0 Consensus size: 111
13327663 TTAGTGAAGG
13327673 TTTTGTGTAGAAACAATGGCGTAGAGAAGGTGACATGGGAACTCAAGGAGGATATGCAACTTTAG
1 TTTTGTGTAGAAACAATGGCGTAGAGAAGGTGACATGGGAACTCAAGGAGGATATGCAACTTTAG
13327738 TACCCATACCTCTTCTATTCAGGTAAATTTTGAGTACGAAATTTCT
66 TACCCATACCTCTTCTATTCAGGTAAATTTTGAGTACGAAATTTCT
13327784 TTTTGTGTAGAAACAATGGCGTAGAGAAGGTGACATGGGAACTCAAGGAGGATATGCAACTTTAG
1 TTTTGTGTAGAAACAATGGCGTAGAGAAGGTGACATGGGAACTCAAGGAGGATATGCAACTTTAG
13327849 TACCCATACCTCTTCTATTCAGGTAAATTTTGAGTACGAAATTTCT
66 TACCCATACCTCTTCTATTCAGGTAAATTTTGAGTACGAAATTTCT
13327895 T
1 T
13327896 CTTGGGATGG
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 112 1.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (111 bp):
TTTTGTGTAGAAACAATGGCGTAGAGAAGGTGACATGGGAACTCAAGGAGGATATGCAACTTTAG
TACCCATACCTCTTCTATTCAGGTAAATTTTGAGTACGAAATTTCT
Found at i:13329634 original size:111 final size:111
Alignment explanation
Indices: 13329440--13329648 Score: 330
Period size: 111 Copynumber: 1.9 Consensus size: 111
13329430 GGTGCCACTA
* *
13329440 ATGAAAGTAATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTCAGCATAAAAGGTGCCACC
1 ATGAAAGTAATCGATCGATATTGTTTAATACATAACAGTGCATTTTCAGCATAAAAGGTGCCACC
*
13329505 CATGGTATCCATAAAAGGTGAATTACCATTTTTACATACTTCATGT
66 CATGGTATCCATAAAAGGTGAATGACCATTTTTACATACTTCATGT
* * *
13329551 ATGAAAGTTATCGATCGATATTGTTTAATACATAACGGTGCATTTTC-GACATAAAATGTGCCAC
1 ATGAAAGTAATCGATCGATATTGTTTAATACATAACAGTGCATTTTCAG-CATAAAAGGTGCCAC
* *
13329615 CCATGGTATTCATTAAAGGTGAATGACCATTTTT
65 CCATGGTATCCATAAAAGGTGAATGACCATTTTT
13329649 GCACTTCGGT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
110 1 0.01
111 88 0.99
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (111 bp):
ATGAAAGTAATCGATCGATATTGTTTAATACATAACAGTGCATTTTCAGCATAAAAGGTGCCACC
CATGGTATCCATAAAAGGTGAATGACCATTTTTACATACTTCATGT
Found at i:13330398 original size:3 final size:3
Alignment explanation
Indices: 13330390--13330416 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13330380 CTAACTTGAG
13330390 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
13330417 GTCCTATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13331892 original size:22 final size:21
Alignment explanation
Indices: 13331864--13331916 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
13331854 GTATGAACAA
13331864 TATCGATACCATATAAA-AGAGG
1 TATCGATACC-TATAAAGAG-GG
**
13331886 TATCGATACCTATATGGAGGG
1 TATCGATACCTATAAAGAGGG
13331907 TATCGATACC
1 TATCGATACC
13331917 CGAGGAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.57
22 12 0.43
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (21 bp):
TATCGATACCTATAAAGAGGG
Found at i:13332818 original size:157 final size:158
Alignment explanation
Indices: 13332643--13332957 Score: 614
Period size: 157 Copynumber: 2.0 Consensus size: 158
13332633 ATAAATATAA
13332643 CTGATAATACCAAAATATAAGATAAATATTTACTTATAAGATAATATGATATTATATGAACAGAT
1 CTGATAATACCAAAATATAAGATAAATATTTACTTATAAGATAATATGATATTATATGAACAGAT
13332708 AGTATAACTTTATGAGGAATACTTAGGTGTTATATGATTTAGGTATGGAAATGATTTATGTGTGA
66 AGTATAACTTTATGAGGAATACTTAGGTGTTATATGATTTAGGTATGGAAATGATTTATGTGTGA
*
13332773 AATGGAGTAAA-TAGGTAATTATAAAGT
131 AATGGAGTAAACAAGGTAATTATAAAGT
13332800 CTGATAATACCAAAATATAAGATAAATATTTACTTATAAGATAATATGATATTATATGAACAGAT
1 CTGATAATACCAAAATATAAGATAAATATTTACTTATAAGATAATATGATATTATATGAACAGAT
13332865 AGTATAACTTTATGAGGAATACTTAGGTGTTATATGATTTAGGTATGGAAATGATTTATGTGTGA
66 AGTATAACTTTATGAGGAATACTTAGGTGTTATATGATTTAGGTATGGAAATGATTTATGTGTGA
13332930 AATGGAGTAAACAAGGTAATTATAAAGT
131 AATGGAGTAAACAAGGTAATTATAAAGT
13332958 ATATAAATAT
Statistics
Matches: 156, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
157 141 0.90
158 15 0.10
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (158 bp):
CTGATAATACCAAAATATAAGATAAATATTTACTTATAAGATAATATGATATTATATGAACAGAT
AGTATAACTTTATGAGGAATACTTAGGTGTTATATGATTTAGGTATGGAAATGATTTATGTGTGA
AATGGAGTAAACAAGGTAATTATAAAGT
Found at i:13333262 original size:32 final size:31
Alignment explanation
Indices: 13333220--13333309 Score: 119
Period size: 32 Copynumber: 2.9 Consensus size: 31
13333210 GAGTCGAGGG
13333220 TTACCTATGTCCTTCGAGACATATGGACAGTA
1 TTACCTATGTCCTTCGAGACATATGGACAG-A
* * *
13333252 TTACCCATGTCCTTC-AGGACATATGGATAGG
1 TTACCTATGTCCTTCGA-GACATATGGACAGA
*
13333283 TTACCTATGTCCTTCGGGACATATGGA
1 TTACCTATGTCCTTCGAGACATATGGA
13333310 TAGTGGTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 25 0.49
32 26 0.51
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (31 bp):
TTACCTATGTCCTTCGAGACATATGGACAGA
Found at i:13333293 original size:31 final size:30
Alignment explanation
Indices: 13333218--13333312 Score: 127
Period size: 31 Copynumber: 3.0 Consensus size: 30
13333208 AAGAGTCGAG
*
13333218 GGTTACCTATGTCCTTCGAGACATATGGACA
1 GGTTACCTATGTCCTTCG-GACATATGGATA
* *
13333249 GTATTACCCATGTCCTTCAGGACATATGGATA
1 G-GTTACCTATGTCCTTC-GGACATATGGATA
13333281 GGTTACCTATGTCCTTCGGGACATATGGATA
1 GGTTACCTATGTCCTTC-GGACATATGGATA
13333312 G
1 G
13333313 TGGTCCTTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
31 29 0.52
32 26 0.46
33 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (30 bp):
GGTTACCTATGTCCTTCGGACATATGGATA
Found at i:13333595 original size:16 final size:17
Alignment explanation
Indices: 13333564--13333596 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13333554 AAGATATAGA
13333564 ATATGAACATAAGAGATT
1 ATATGAACA-AAGAGATT
13333582 ATATGAAC-AAGAGAT
1 ATATGAACAAAGAGAT
13333597 AAGAGATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (17 bp):
ATATGAACAAAGAGATT
Found at i:13339566 original size:65 final size:65
Alignment explanation
Indices: 13339459--13339614 Score: 258
Period size: 65 Copynumber: 2.4 Consensus size: 65
13339449 GAGTGATAGG
* *
13339459 TGCATTTCGGTATAAAATATGCCACTAATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGA
1 TGCATTTCGGCATAAAATGTGCCACTAATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGA
* *
13339524 TGTATTTCGGCATAAAATGTGCCACTAATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGG
1 TGCATTTCGGCATAAAATGTGCCACTAATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGA
*
13339589 TGCATTTTCGGCATAAAAGGTGCCAC
1 TGCA-TTTCGGCATAAAATGTGCCAC
13339615 CCATGGTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 64 0.76
66 20 0.24
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (65 bp):
TGCATTTCGGCATAAAATGTGCCACTAATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGA
Found at i:13339745 original size:111 final size:111
Alignment explanation
Indices: 13339551--13339758 Score: 362
Period size: 111 Copynumber: 1.9 Consensus size: 111
13339541 TGTGCCACTA
* *
13339551 ATGAAAGTAATCGATCGATTTTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACC
1 ATGAAAGTAATCGATAGATATTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACC
*
13339616 CATGGTATTCATAAAAGGTGAATTACCATTTCGACATACTTGTTGT
66 CATGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTGTTGT
* * *
13339662 ATGAAAGTTATCGATAGATATTGTTTAATGCATAATGGTGCATTTTGGGCATAAAAGGTGCCACC
1 ATGAAAGTAATCGATAGATATTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACC
13339727 CATGGTATTCATAAAAGGTGAATGACCATTTC
66 CATGGTATTCATAAAAGGTGAATGACCATTTC
13339759 TGCACTTCGG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
111 91 1.00
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (111 bp):
ATGAAAGTAATCGATAGATATTGTTTAATGCATAACGGTGCATTTTCGGCATAAAAGGTGCCACC
CATGGTATTCATAAAAGGTGAATGACCATTTCGACATACTTGTTGT
Found at i:13349556 original size:44 final size:44
Alignment explanation
Indices: 13349356--13349761 Score: 442
Period size: 44 Copynumber: 9.0 Consensus size: 44
13349346 CCAGGAGTGA
*
13349356 CACCTTTCTGCCAA-AATGCACCGTTATGCATTAAAGTTTCATTTGTGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCA-T----TTTCATTTATGG
* * *
13349404 CATCTTTCTGCC-ACAATGCACCGTTATGCATTTAAGTTTCATTTGTGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCA--T---TTTCATTTATGG
* *
13349452 AACCTTTCTGCCAA-AATACACCGTTATGCATTTAATTTTCA-TTAGTGG
1 CACCTTTCTGCCAATAATGCACCGTTATGC-----ATTTTCATTTA-TGG
*
13349500 CACCTTTTTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
* * * *
13349544 TATCTTTCTGCCAATCATGCACCGTTATGTATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
* * *
13349588 CACCTTTATGCCAATAATGCACCGTTATGCATTTTCGTTTCTGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
* * *
13349632 CGCTTTTCTGCCAATAATGCACCATTATGCATTTTCATTTATGG
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
* *
13349676 CACCTTTCTACCAATAATGCACCGTTATGCATTTTCATTTATGC
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
* * *
13349720 CATCTTTTTGCCAATAATGCACTGTTATGCATTTTCATTTAT
1 CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
13349762 TCATTCATTT
Statistics
Matches: 312, Mismatches: 35, Indels: 26
0.84 0.09 0.07
Matches are distributed among these distances:
44 201 0.64
45 3 0.01
47 3 0.01
48 86 0.28
49 17 0.05
51 1 0.00
53 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (44 bp):
CACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGG
Found at i:13359210 original size:25 final size:26
Alignment explanation
Indices: 13359168--13359216 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
13359158 TAAATTTGAT
*
13359168 GATTTTAAATAAATAAAT-TTTTACC
1 GATTTTAAATAAAGAAATGTTTTACC
* *
13359193 GATTTTCAATTAAGAAATGTTTTA
1 GATTTTAAATAAAGAAATGTTTTA
13359217 AATGTTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (26 bp):
GATTTTAAATAAAGAAATGTTTTACC
Found at i:13364444 original size:18 final size:20
Alignment explanation
Indices: 13364417--13364453 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13364407 TCCAAACAAA
13364417 AAAAAGATAAATAT-TAAAT
1 AAAAAGATAAATATATAAAT
13364436 AAAAA-ATAAATATATAAA
1 AAAAAGATAAATATATAAA
13364454 ATTTAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAAAGATAAATATATAAAT
Found at i:13370491 original size:104 final size:106
Alignment explanation
Indices: 13370274--13370495 Score: 283
Period size: 112 Copynumber: 2.1 Consensus size: 106
13370264 GTTTTAGGTG
* * * *
13370274 CATTTTGACATACTTTGTGTATGATAGTATCGATCGATTTTGTTTAATGCATAACATTGCATTTT
1 CATTTTGACATACATCGTGTATGAAAGTATCAATCGATTTTGTTTAATGCATAACATTGCATTTT
*
13370339 CAGCATAAAAGGTGCCACCCATAGTATTCATAATTAGGAGAATTAC
66 CAGCATAAAA---G--ACCCATAGTATTCATAATGAGGAGAATTAC
13370385 CATTTTGACATACATCGTGTATGAAAGTTATCAATCGATTTT-TCTTAATGCATAACGA-TGCAT
1 CATTTTGACATACATCGTGTATGAAAG-TATCAATCGATTTTGT-TTAATGCATAAC-ATTGCAT
*
13370448 TTTCAGCAT-AAA-ACCCAT-GTATTCATAATGAGGTGAATTAC
63 TTTCAGCATAAAAGACCCATAGTATTCATAATGAGGAGAATTAC
13370489 CATTTTG
1 CATTTTG
13370496 GCACTTCGGT
Statistics
Matches: 102, Mismatches: 6, Indels: 13
0.84 0.05 0.11
Matches are distributed among these distances:
104 28 0.27
105 6 0.06
111 28 0.27
112 39 0.38
113 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (106 bp):
CATTTTGACATACATCGTGTATGAAAGTATCAATCGATTTTGTTTAATGCATAACATTGCATTTT
CAGCATAAAAGACCCATAGTATTCATAATGAGGAGAATTAC
Found at i:13372114 original size:145 final size:145
Alignment explanation
Indices: 13371851--13372142 Score: 521
Period size: 145 Copynumber: 2.0 Consensus size: 145
13371841 TACAAGGCTA
*
13371851 AGTACAACAAGCTGAGTCGTTTTCCTACTAAGGTAGTTCCCAATGACAAGGCTTGACATGATTGG
1 AGTACAACAAGCTGAGTCGTTTTCCTACTAAGGTAGTTCCCAATGACAAGGCTTGACATGATTAG
* *
13371916 TTCATTGAAGGTTTGAGGCCAAATTTGAAAGAGATGATGTTGGTTTTGAACTTGACTAGCTTACA
66 TTCATTGAAGGTTTGAGGCCAAATTTGAAAGAGATGATGTTGGCTTTGAACTTGACTAGCTTAAA
13371981 AGAAGTTATAAACTG
131 AGAAGTTATAAACTG
13371996 AGTACAACAAGCTGAGTCGTTTTCCTACTAAGGTAGTTCCCAATGACAAGGCTTGACATGATTAG
1 AGTACAACAAGCTGAGTCGTTTTCCTACTAAGGTAGTTCCCAATGACAAGGCTTGACATGATTAG
* * *
13372061 TTCATTGAAGGTTTGAGGCTAAATTTGAAAGATATGATGTTGGCTTTGAACTTGTCTAGCTTAAA
66 TTCATTGAAGGTTTGAGGCCAAATTTGAAAGAGATGATGTTGGCTTTGAACTTGACTAGCTTAAA
*
13372126 AGAAGTTATAAATTG
131 AGAAGTTATAAACTG
13372141 AG
1 AG
13372143 ATAAGGCTAT
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (145 bp):
AGTACAACAAGCTGAGTCGTTTTCCTACTAAGGTAGTTCCCAATGACAAGGCTTGACATGATTAG
TTCATTGAAGGTTTGAGGCCAAATTTGAAAGAGATGATGTTGGCTTTGAACTTGACTAGCTTAAA
AGAAGTTATAAACTG
Found at i:13381462 original size:687 final size:687
Alignment explanation
Indices: 13379838--13381894 Score: 4015
Period size: 687 Copynumber: 3.0 Consensus size: 687
13379828 CGAAAGGGTC
13379838 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
1 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
*
13379903 TAAGCTATTTTTTGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
66 TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
13379968 ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
131 ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
13380033 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
196 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
13380098 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
261 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
13380163 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACCAGTGCAGCTATCGACTACAG
326 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACCAGTGCAGCTATCGACTACAG
13380228 TAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
391 TAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
13380293 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
456 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
13380358 GTTTATAAATTGATTTTATGATTTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATT
521 GTTTATAAATTGATTTTATGA-TTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATT
*
13380423 TTTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATAGACGACTAT
585 TTTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTAT
*
13380488 AACTCAAGCAACACAGTGTTGTTACATGTCACCGTTGA
650 AACTCAAGCAACACAGTGTTGTTACATGTCACCATTGA
13380526 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
1 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
*
13380591 TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATCTGGTTTCTCAATTGAGTTCAGTTTCTG
66 TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
*
13380656 ACGTAATTTCAGTTGCTTTGTATCTGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
131 ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
13380721 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
196 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
13380786 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
261 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
*
13380851 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACTAGTGCAGCTATCGACTACAG
326 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACCAGTGCAGCTATCGACTACAG
*
13380916 GAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
391 TAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
13380981 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
456 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
*
13381046 GTTTATAAATTGATTTTATGATTTTTTTGAATGTTTCAATAAAAAATTTAATTTTTCTGAGATTT
521 GTTTATAAATTGATTTTATGATTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATTT
13381111 TTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTATA
586 TTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTATA
13381176 ACTCAAGCAACACAGTGTTGTTACATGTCACCATTGA
651 ACTCAAGCAACACAGTGTTGTTACATGTCACCATTGA
13381213 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
1 CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
13381278 TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
66 TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
13381343 ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
131 ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
13381408 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
196 GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
13381473 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
261 TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
*
13381538 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCAGTACCAGTGCAGCTATCGACTACAG
326 TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACCAGTGCAGCTATCGACTACAG
*
13381603 TAATGGAGTTCCTCCGGCGTTGCATGCAGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
391 TAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
13381668 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
456 ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
13381733 GTTTATAAATTGATTTTATGATTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATTT
521 GTTTATAAATTGATTTTATGATTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATTT
13381798 TTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTATA
586 TTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTATA
13381863 ACTCAAGCAACACAGTGTTGTTACATGTCACC
651 ACTCAAGCAACACAGTGTTGTTACATGTCACC
13381895 GTTTGTCACC
Statistics
Matches: 1354, Mismatches: 15, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
687 818 0.60
688 536 0.40
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (687 bp):
CCATTTTATGTTTTTCGACATGTTGAGTCCAAATCCGAAGTACGTTTTTCCAAATTCACACCCGG
TAAGCTATTTTTCGATGTTTTACCTTCGAAATTCAATGTGGTTTCTCAATTGAGTTCAGTTTCTG
ACGTAATTTCAGTTGCTTTGTATCCGAGGGATTATTGGACATTGAATTTAAGTTCGAGGGTGATT
GAATGGATTTTAAATGGTCGATTGGTGTGGCATAAAATCGAGGTAATACATTTCTACCTGTTTCA
TGCTTTATGGAACATGTTAGTATTGAGTTATGCATGGATAAGTATAATTGGTCACATGTAAGTAG
TGATTATTTCTTAACTCGATATGAAAACTATAAAGAGTCGGTACCAGTGCAGCTATCGACTACAG
TAATGGAGTTCCTCCGGCGTTGCATGCGGAGTACGGTAAATGTGATTAGGGGGCATGTAACTTTT
ATTTTGTTTTTATATCCGAGTTTGGGATCTGTTTTATTTTTGAATAATATTAATTTTACTGTTAT
GTTTATAAATTGATTTTATGATTTTTTTGCATGTTTCAATAAAAAATTTAATTTTTCTGAGATTT
TTATGGTGGGTTGCTTAATTGGCCATAATGTGTACCATTTGATGCATCTTCAATCGACGACTATA
ACTCAAGCAACACAGTGTTGTTACATGTCACCATTGA
Found at i:13382367 original size:15 final size:15
Alignment explanation
Indices: 13382347--13382386 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
13382337 GAGTTAACCC
13382347 ATCTGAGTCAACTCG
1 ATCTGAGTCAACTCG
13382362 ATCTGAGTCAACTCG
1 ATCTGAGTCAACTCG
*
13382377 -TCCGAGTCAA
1 ATCTGAGTCAA
13382387 TTCGTTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (15 bp):
ATCTGAGTCAACTCG
Found at i:13382385 original size:14 final size:14
Alignment explanation
Indices: 13382351--13382391 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13382341 TAACCCATCT
*
13382351 GAGTCAACTCGATCT
1 GAGTCAACTCG-TCC
13382366 GAGTCAACTCGTCC
1 GAGTCAACTCGTCC
*
13382380 GAGTCAATTCGT
1 GAGTCAACTCGT
13382392 TGACTTTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (14 bp):
GAGTCAACTCGTCC
Found at i:13385250 original size:18 final size:18
Alignment explanation
Indices: 13385204--13385250 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13385194 AATGCAAGTA
* *
13385204 GTATCAATACAGTTATGG
1 GTATCGATACTGTTATGG
*
13385222 GTATCGATACTGTTGTGG
1 GTATCGATACTGTTATGG
13385240 GTATCGATACT
1 GTATCGATACT
13385251 AAGAGGAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (18 bp):
GTATCGATACTGTTATGG
Found at i:13387508 original size:40 final size:40
Alignment explanation
Indices: 13387463--13387578 Score: 142
Period size: 40 Copynumber: 2.9 Consensus size: 40
13387453 TACAGTTTAC
* * *
13387463 TAGGTGGGTAAATCCCGACCTCAGCACTACGGTGCATTAT
1 TAGGTGAGTAAAACTCGACCTCAGCACTACGGTGCATTAT
* * * *
13387503 TAGGTGAATAAAACTCGACCTCAGAACTATGGTGCTTTAT
1 TAGGTGAGTAAAACTCGACCTCAGCACTACGGTGCATTAT
* * *
13387543 TAGGTGAGCAAAGCTCGACCTCAGCACTTCGGTGCA
1 TAGGTGAGTAAAACTCGACCTCAGCACTACGGTGCA
13387579 ACATTTGACT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (40 bp):
TAGGTGAGTAAAACTCGACCTCAGCACTACGGTGCATTAT
Found at i:13389147 original size:111 final size:111
Alignment explanation
Indices: 13388937--13389149 Score: 304
Period size: 111 Copynumber: 1.9 Consensus size: 111
13388927 GTTATAGGTG
* *
13388937 CATTTCGACATACTTTGTGTATGATAGTATCGATCGATTTTGTTCAATGCATAACGATGCATTTC
1 CATTTCGACATACTTCGTGTATGAAAGTATCGATCGATTTTGTTCAATGCATAACGATGCATTTC
* * *
13389002 TGGCATAAAAGGTGTCACCCTTGGTATTTATAATGAGACGAACTAC
66 TAGCATAAAAGGTGTCACCCATGGTATTCATAATGAGACGAACTAC
* * *
13389048 CATTTTGATATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTT-AATGCATAACGGTGCATT
1 CATTTCGACATACTTCGTGTATGAAAG-TATCGATCGATTTTG-TTCAATGCATAACGATGCATT
* *
13389112 TTTAGCAT-AAAGTTGTCACCCATGGTATTCATAATGAG
64 TCTAGCATAAAAGGTGTCACCCATGGTATTCATAATGAG
13389150 GTGAATTACA
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
111 50 0.56
112 38 0.42
113 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (111 bp):
CATTTCGACATACTTCGTGTATGAAAGTATCGATCGATTTTGTTCAATGCATAACGATGCATTTC
TAGCATAAAAGGTGTCACCCATGGTATTCATAATGAGACGAACTAC
Found at i:13390553 original size:47 final size:47
Alignment explanation
Indices: 13390501--13390706 Score: 321
Period size: 47 Copynumber: 4.5 Consensus size: 47
13390491 ATCATTTATC
* * *
13390501 TCATAAGCTCTTAAGCTTATTTTACCAAAATACTTACCATTTAAATT
1 TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
**
13390548 TCATAAGCTCGTAAGCTTATTTTATCAACGTACTTACCATTTAAATT
1 TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
13390595 TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
1 TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
* *
13390642 CCATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCA-TT--A-T
1 TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
13390685 TCATAAGCTCGTAAGCTTATTT
1 TCATAAGCTCGTAAGCTTATTT
13390707 GCATACTTAC
Statistics
Matches: 150, Mismatches: 9, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
43 22 0.15
44 1 0.01
46 2 0.01
47 125 0.83
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.41
Consensus pattern (47 bp):
TCATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATT
Found at i:13390937 original size:61 final size:61
Alignment explanation
Indices: 13390816--13390937 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 61
13390806 ATAGTGCTAA
* * *
13390816 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCGAATATGACACATAAGGTAGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGAACATGACACATAAGGTAGTACCCACC
* * * * *
13390877 ACCTACACTAAGCTTACGCTATAGTGCTAATCC-AGACATGATACATTAGGTCGTATCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGA-ACATGACACATAAGGTAGTACCCACC
13390938 TTACCGCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
60 1 0.02
61 51 0.98
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCGAACATGACACATAAGGTAGTACCCACC
Found at i:13394504 original size:6 final size:5
Alignment explanation
Indices: 13394485--13394630 Score: 77
Period size: 5 Copynumber: 27.4 Consensus size: 5
13394475 TTCTCTCATT
*
13394485 TTTTC TTTTC TTTTC ATTTTC TGTTT- TTCTC TTTTC ATTTTC TGTTTTC
1 TTTTC TTTTC TTTTC -TTTTC T-TTTC TTTTC TTTTC -TTTTC --TTTTC
*
13394534 TTTTTC TTTTC TTTTTC ATTTTC TTATT- TTTCCTA TTTTC TTTTC TTTT-
1 -TTTTC TTTTC -TTTTC -TTTTC TT-TTC TTT--TC TTTTC TTTTC TTTTC
* * * *
13394583 TCTTC -TTTC TTTTT TTTTGT TTATTC ATTTC TATTT- TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTT-C TT-TTC TTTTC T-TTTC TTTTC TTTTC
13394629 TT
1 TT
13394631 ATATAATATT
Statistics
Matches: 113, Mismatches: 12, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
4 12 0.11
5 53 0.47
6 38 0.34
7 10 0.09
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:13394519 original size:21 final size:21
Alignment explanation
Indices: 13394493--13394549 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
13394483 TTTTTTCTTT
13394493 TCTTTTCATTTTCTGTTTTTC
1 TCTTTTCATTTTCTGTTTTTC
13394514 TCTTTTCATTTTCTG-TTTTC
1 TCTTTTCATTTTCTGTTTTTC
13394534 T-TTTTC-TTTTCT-TTTT
1 TCTTTTCATTTTCTGTTTT
13394550 CATTTTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 6 0.17
21 15 0.43
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.75
Consensus pattern (21 bp):
TCTTTTCATTTTCTGTTTTTC
Found at i:13394525 original size:13 final size:12
Alignment explanation
Indices: 13394509--13394586 Score: 60
Period size: 11 Copynumber: 6.8 Consensus size: 12
13394499 CATTTTCTGT
13394509 TTTTCTCTTTTC
1 TTTTCTCTTTTC
*
13394521 ATTTTCTGTTTTC
1 -TTTTCTCTTTTC
13394534 TTTT-TCTTTTC
1 TTTTCTCTTTTC
13394545 TTTT-TCATTTTC
1 TTTTCTC-TTTTC
* *
13394557 TTAT-T-TTTCC
1 TTTTCTCTTTTC
13394567 TATTT-TCTTTTC
1 T-TTTCTCTTTTC
13394579 TTTT-TCTT
1 TTTTCTCTT
13394587 CTTTCTTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
10 5 0.09
11 22 0.39
12 18 0.32
13 11 0.20
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:13394555 original size:51 final size:51
Alignment explanation
Indices: 13394484--13394600 Score: 161
Period size: 51 Copynumber: 2.3 Consensus size: 51
13394474 TTTCTCTCAT
* *
13394484 TTTTTCTTTTC-TTTTCATTTTC-TGTTTTT-CTCTTTTCATTTTCTGTTTTC
1 TTTTTCTTTTCTTTTTCATTTTCTTATTTTTCCTATTTTC-TTTTCT-TTTTC
13394534 TTTTTCTTTTCTTTTTCATTTTCTTATTTTTCCTATTTTCTTTTCTTTTTC
1 TTTTTCTTTTCTTTTTCATTTTCTTATTTTTCCTATTTTCTTTTCTTTTTC
13394585 TTCTTTCTTTT-TTTTT
1 TT-TTTCTTTTCTTTTT
13394601 GTTTATTCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
50 11 0.18
51 23 0.38
52 20 0.33
53 7 0.11
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (51 bp):
TTTTTCTTTTCTTTTTCATTTTCTTATTTTTCCTATTTTCTTTTCTTTTTC
Found at i:13394593 original size:7 final size:6
Alignment explanation
Indices: 13394484--13394600 Score: 86
Period size: 6 Copynumber: 19.7 Consensus size: 6
13394474 TTTCTCTCAT
* *
13394484 TTTTTC -TTTTC -TTTTC ATTTTCTG TTTTTC TCTTTTC ATTTTC TGTTTTC
1 TTTTTC TTTTTC TTTTTC -TTTT-TC TTTTTC T-TTTTC TTTTTC T-TTTTC
* * *
13394534 TTTTTC -TTTTC TTTTTC ATTTTC -TTAT- TTTTCC TATTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC
13394579 TTTTTC TTCTTTC TTTTT- TTTT
1 TTTTTC TT-TTTC TTTTTC TTTT
13394601 GTTTATTCAT
Statistics
Matches: 91, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
5 29 0.32
6 33 0.36
7 28 0.31
8 1 0.01
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:13394599 original size:22 final size:23
Alignment explanation
Indices: 13394569--13394627 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
13394559 ATTTTTCCTA
*
13394569 TTTTCTTTTCTTTTTCTTC-TTTC
1 TTTT-TTTTCTTTTTATTCATTTC
*
13394592 TTTTTTTT-TGTTTATTCATTTC
1 TTTTTTTTCTTTTTATTCATTTC
13394614 TATTTTTTTCTTTT
1 T-TTTTTTTCTTTT
13394628 CTTATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 7 0.23
22 9 0.30
23 11 0.37
24 3 0.10
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTTTTTCTTTTTATTCATTTC
Found at i:13394614 original size:35 final size:35
Alignment explanation
Indices: 13394535--13394632 Score: 92
Period size: 35 Copynumber: 2.8 Consensus size: 35
13394525 TCTGTTTTCT
* *
13394535 TTTTCTTTTCTTTTTCAT-TTTCTTATTTTTCCTA
1 TTTTCATTTCTTTTTCTTCTTTCTTATTTTTCCTA
* * **
13394569 TTTTCTTTTCTTTTTCTTCTTTCTTTTTTTTTGT-
1 TTTTCATTTCTTTTTCTTCTTTCTTATTTTTCCTA
*
13394603 TTATTCATTTCTATTTTTTTCTTTTCTTAT
1 TT-TTCATTTCT-TTTTCTTC-TTTCTTAT
13394633 ATAATATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
34 19 0.36
35 20 0.38
36 7 0.13
37 7 0.13
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.77
Consensus pattern (35 bp):
TTTTCATTTCTTTTTCTTCTTTCTTATTTTTCCTA
Found at i:13394627 original size:45 final size:44
Alignment explanation
Indices: 13394484--13394600 Score: 112
Period size: 50 Copynumber: 2.5 Consensus size: 44
13394474 TTTCTCTCAT
* *
13394484 TTTTTCTTTTCTTTTCATTTTCTGT-TTTTCTCTTTTCATTTTCTGTTTTC
1 TTTTTCTTTTCTTTTTATTTTCT-TATTTT-TC--CT-ATTTTC--TTTTC
13394534 TTTTTCTTTTCTTTTTCATTTTCTTATTTTTCCTATTTTCTTTTC
1 TTTTTCTTTTCTTTTT-ATTTTCTTATTTTTCCTATTTTCTTTTC
13394579 TTTTTCTTCTTTCTTTTT-TTTT
1 TTTTTC-T-TTTCTTTTTATTTT
13394601 GTTTATTCAT
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
45 15 0.25
46 1 0.02
47 15 0.25
48 1 0.02
50 18 0.30
51 11 0.18
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (44 bp):
TTTTTCTTTTCTTTTTATTTTCTTATTTTTCCTATTTTCTTTTC
Found at i:13397547 original size:47 final size:47
Alignment explanation
Indices: 13397495--13397699 Score: 301
Period size: 47 Copynumber: 4.4 Consensus size: 47
13397485 TCATTTATCT
* * *
13397495 CATAAGCTCGTAAGCTTATTTTACCAAAATAATTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
*
13397542 CATAAGCTCGTAAGCTTATTTTATCAACATACTTACCATTTAAATTC
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
* * *
13397589 CATAAGCTCATATGCTTATTTTATCAATATACTTACCATTTAAATTA
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
*
13397636 CATAAGCTCGTAAGCTTATTTTATCAATATACTTGCCA-TT--ATT-
1 CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
*
13397679 AATAAGCTCGTAAGCTTATTT
1 CATAAGCTCGTAAGCTTATTT
13397700 GCATACTTAC
Statistics
Matches: 147, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
43 20 0.14
44 3 0.02
46 2 0.01
47 122 0.83
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.40
Consensus pattern (47 bp):
CATAAGCTCGTAAGCTTATTTTATCAATATACTTACCATTTAAATTC
Found at i:13397707 original size:38 final size:42
Alignment explanation
Indices: 13397486--13397719 Score: 179
Period size: 47 Copynumber: 5.2 Consensus size: 42
13397476 AATCTTTTAT
* * *
13397486 CATTTATCTCATAAGCTCGTAAGCTTATTTTACCAAAATAATTAC
1 CATTTAT-TAATAAGCTCGTAAGCTTATTTTAGC--AATACTTAC
* *
13397531 CATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAACATACTTAC
1 CATTT--ATT-AATAAGCTCGTAAGCTTATTTTAGC-A-ATACTTAC
* * * *
13397578 CATTTAAATTCCATAAGCTCATATGCTTATTTTATCAATATACTTAC
1 CATTT--ATT-AATAAGCTCGTAAGCTTATTTTAGC-A-ATACTTAC
* *
13397625 CATTTAAATTACATAAGCTCGTAAGCTTATTTTATCAATATACTTGC
1 CATTT--ATTA-ATAAGCTCGTAAGCTTATTTTAGC-A-ATACTTAC
13397672 CA-TTATTAATAAGCTCGTAAGCTTA-TTT-GC-ATACTTAC
1 CATTTATTAATAAGCTCGTAAGCTTATTTTAGCAATACTTAC
13397710 CATTTATTAA
1 CATTTATTAA
13397720 CCAATAAACC
Statistics
Matches: 172, Mismatches: 11, Indels: 18
0.86 0.05 0.09
Matches are distributed among these distances:
38 9 0.05
39 7 0.04
41 1 0.01
42 3 0.02
43 17 0.10
44 4 0.02
45 5 0.03
46 5 0.03
47 121 0.70
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (42 bp):
CATTTATTAATAAGCTCGTAAGCTTATTTTAGCAATACTTAC
Found at i:13397930 original size:61 final size:61
Alignment explanation
Indices: 13397809--13397930 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
13397799 GTAGTGCTAA
* *
13397809 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACATAAGGTAGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTAGTACCCACC
* * * * * *
13397870 ACCTATACTAAGCTTACGCTATAGTGCTAATCCGGACATGATACATTAGGTCGTATCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTAGTACCCACC
13397931 TTACCGCACT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCGGACATGACACATAAGGTAGTACCCACC
Found at i:13398852 original size:30 final size:30
Alignment explanation
Indices: 13398818--13398884 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 30
13398808 AACCCATAAA
* * *
13398818 TTTTCTAGAATTTACAAATTAATCCCCAAC
1 TTTTCTAAAACTTACAAAATAATCCCCAAC
** *
13398848 TTTTC-AAAACTTACAAAATGGTCCCCAAT
1 TTTTCTAAAACTTACAAAATAATCCCCAAC
13398877 TTTTCTAA
1 TTTTCTAA
13398885 GGCTTGTGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.37
Consensus pattern (30 bp):
TTTTCTAAAACTTACAAAATAATCCCCAAC
Found at i:13403753 original size:21 final size:21
Alignment explanation
Indices: 13403729--13403797 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
13403719 GACAATATAG
* *
13403729 ATACTCCCCTAGGAAATATCA
1 ATACTCCCCTTGGAAGTATCA
*
13403750 ATACTCCCCTTGGCAGTATCA
1 ATACTCCCCTTGGAAGTATCA
*
13403771 ATACTCTCCTTGGAAGTATCA
1 ATACTCCCCTTGGAAGTATCA
13403792 ATACTC
1 ATACTC
13403798 AGTCAAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (21 bp):
ATACTCCCCTTGGAAGTATCA
Found at i:13405616 original size:26 final size:26
Alignment explanation
Indices: 13405587--13405702 Score: 139
Period size: 26 Copynumber: 4.5 Consensus size: 26
13405577 TATAGTGTCC
* *
13405587 TTTATCACTTGCACTCGAAATTTCTA
1 TTTATCACTCGCACTCGAAAGTTCTA
*
13405613 TTTATCACTCGCACAT-GAAAGTTCCA
1 TTTATCACTCGCAC-TCGAAAGTTCTA
*
13405639 TTTATCACTCGCACTCGAAAGTGCTA
1 TTTATCACTCGCACTCGAAAGTTCTA
*
13405665 TTTATCACTCGCACT-AAAATGTGT-TA
1 TTTATCACTCGCACTCGAAA-GT-TCTA
13405691 TTTATCACTCGC
1 TTTATCACTCGC
13405703 TTAAAAATTC
Statistics
Matches: 79, Mismatches: 7, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.05
26 74 0.94
27 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (26 bp):
TTTATCACTCGCACTCGAAAGTTCTA
Found at i:13405694 original size:52 final size:52
Alignment explanation
Indices: 13405587--13405702 Score: 155
Period size: 52 Copynumber: 2.2 Consensus size: 52
13405577 TATAGTGTCC
* * * *
13405587 TTTATCACTTGCACTCGAAATTTCTATTTATCACTCGCACATGAAAGTTCCA
1 TTTATCACTCGCACTCGAAAGTGCTATTTATCACTCGCACATAAAAGTTCCA
*
13405639 TTTATCACTCGCACTCGAAAGTGCTATTTATCACTCGCAC-TAAAATGTGT-TA
1 TTTATCACTCGCACTCGAAAGTGCTATTTATCACTCGCACATAAAA-GT-TCCA
13405691 TTTATCACTCGC
1 TTTATCACTCGC
13405703 TTAAAAATTC
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
51 4 0.07
52 52 0.91
53 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (52 bp):
TTTATCACTCGCACTCGAAAGTGCTATTTATCACTCGCACATAAAAGTTCCA
Found at i:13406474 original size:20 final size:20
Alignment explanation
Indices: 13406431--13406478 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13406421 CAAACTGGCC
*
13406431 CAATTTC-ACATTCTAACTT
1 CAATTTCAACATTCTAAATT
13406450 CAATTTCAACATTCTAAAATT
1 CAATTTCAACATTCT-AAATT
13406471 -AATTTCAA
1 CAATTTCAA
13406479 GAATAGACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 15 0.58
21 4 0.15
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
CAATTTCAACATTCTAAATT
Found at i:13407453 original size:21 final size:21
Alignment explanation
Indices: 13407427--13407494 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
13407417 GTTGCATTTT
13407427 GCGTTGCGATAATTGAAAATC
1 GCGTTGCGATAATTGAAAATC
* ** **
13407448 GCGTTGCGAT-TTTCCATTTC
1 GCGTTGCGATAATTGAAAATC
*
13407468 GCGTTGCGATAGTTGAAAATC
1 GCGTTGCGATAATTGAAAATC
13407489 GCGTTG
1 GCGTTG
13407495 TGATTTTCCA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (21 bp):
GCGTTGCGATAATTGAAAATC
Found at i:13407466 original size:41 final size:41
Alignment explanation
Indices: 13407421--13407519 Score: 162
Period size: 41 Copynumber: 2.4 Consensus size: 41
13407411 ATTCGCGTTG
*
13407421 CATTTTGCGTTGCGATAATTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGATTTTC
* *
13407462 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGTGATTTTC
1 CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGATTTTC
*
13407503 CATTTCACGTTGCGATA
1 CATTTCGCGTTGCGATA
13407520 GTCTACAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAATTGAAAATCGCGTTGCGATTTTC
Found at i:13407471 original size:20 final size:20
Alignment explanation
Indices: 13407446--13407546 Score: 76
Period size: 20 Copynumber: 4.9 Consensus size: 20
13407436 TAATTGAAAA
13407446 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
13407466 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
*
13407487 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * * *
13407507 TCACGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCATT
*
13407529 TCTCGTTGCGATTTTCCA
1 TCGCGTTGCGATTTTCCA
13407547 AATAACCTAC
Statistics
Matches: 59, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
20 29 0.49
21 14 0.24
22 16 0.27
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:13407578 original size:19 final size:20
Alignment explanation
Indices: 13407531--13407578 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
13407521 TCTACAGTTC
13407531 TCGTTGCGATTTTCCAAATA
1 TCGTTGCGATTTTCCAAATA
* * *
13407551 AC-CTACGATTTTCCAAAT-
1 TCGTTGCGATTTTCCAAATA
13407569 TCGTTGCGAT
1 TCGTTGCGAT
13407579 AGTCTACTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 3
0.70 0.20 0.10
Matches are distributed among these distances:
18 1 0.05
19 19 0.90
20 1 0.05
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (20 bp):
TCGTTGCGATTTTCCAAATA
Found at i:13407594 original size:22 final size:22
Alignment explanation
Indices: 13407569--13407622 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
13407559 TTTTCCAAAT
*
13407569 TCGTTGCGATAGTCTACTGTTA
1 TCGTTGCGATAGTCTACAGTTA
*
13407591 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTA
13407613 TCGTTGCGAT
1 TCGTTGCGAT
13407623 TTTCCAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTA
Found at i:13407745 original size:6 final size:6
Alignment explanation
Indices: 13407734--13407766 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
13407724 GACACGTATT
13407734 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
13407767 CTGACCCGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:13408452 original size:22 final size:22
Alignment explanation
Indices: 13408425--13408477 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
13408415 AATTTGGAAA
13408425 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
13408447 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
13408469 ATCGCAACG
1 ATCGCAACG
13408478 CGAAATGGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:13408515 original size:41 final size:41
Alignment explanation
Indices: 13408466--13408768 Score: 525
Period size: 41 Copynumber: 7.4 Consensus size: 41
13408456 ACAACTGTAG
13408466 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
13408507 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* *
13408548 ACTATCGCAACGCGAAATGGAAAAGCGTAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
13408589 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
13408630 ACTATCGCAACGCGAAATGGAAAAGCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
13408671 ACTATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
* * * *
13408712 ACTATCGCAACGTGAAATGGAAAATCGCAATGTGGTTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
13408753 ACTATCGCAACGCGAA
1 ACTATCGCAACGCGAA
13408769 TTTGCAATAG
Statistics
Matches: 251, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 251 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:13411440 original size:46 final size:46
Alignment explanation
Indices: 13411362--13411856 Score: 702
Period size: 46 Copynumber: 10.7 Consensus size: 46
13411352 TAATATACCA
* * * * *
13411362 TTATGTATTTTCATTTGGTGGCATCCTTTCATGCCAATTATGCACTG
1 TTATGCATTTTCATTT-ATGGCATCCTTTCATGCCTATAATGCACCG
* *
13411409 TTAAGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
*
13411455 TTATGCATTTTCATTTATGTCATCCTTTCATGCCTATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * *
13411501 TTATGCATTTTCTTTTATGGCATCTTTTCATGCCTAGAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * *
13411547 TTATGCATATTCATTTATGGCATCCTTTTATGCCTATAATGCACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * * **
13411593 TTATGCATTTTCTTTTATGGCATCCTTTTATGACTATAATGCACTA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
*
13411639 TTATGCATTTTCATTTATGGTATCCTTTCATGCCTATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * *
13411685 TTATGCATTTTCTTTTATGGCATGCTTTCATGCCTATAATGCACTG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
*
13411731 TTATGCATTTTCATTTATGGCATCCTTTCACGCCTATAATGCACCG
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * * *
13411777 TTATGTATTTTCTTTTATGACATCCTTTCATGCCTATAATGCACCA
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
* * *
13411823 TTATGAATTTTCTTTTATGGCATCCTTTAATGCC
1 TTATGCATTTTCATTTATGGCATCCTTTCATGCC
13411857 AAAGGCATTT
Statistics
Matches: 404, Mismatches: 44, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 390 0.97
47 14 0.03
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (46 bp):
TTATGCATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG
Found at i:13411991 original size:81 final size:81
Alignment explanation
Indices: 13411856--13412015 Score: 198
Period size: 81 Copynumber: 2.0 Consensus size: 81
13411846 CCTTTAATGC
* ** * * **
13411856 CAAAGGCATTTAACCTTTCATCTAACGTGAATTATTGGTACCTTTCTTCCAAATGCATAGTTAGG
1 CAAAGGCATTTAAACTTTCATCTAACGTGAATTATTGACACATTTCTTCCAAATGCACAGTTAAA
13411921 CAATTAATCTTTTACT
66 CAATTAATCTTTTACT
* * *
13411937 CAAAGGTATTTAAACTTTCATCTAA-TTGGCATTATTGACACATTTCTGT-CAAATGCACAGTTA
1 CAAAGGCATTTAAACTTTCATCTAACGT-GAATTATTGACACATTTCT-TCCAAATGCACAGTTA
13412000 AACAATTAATCTTTTA
64 AACAATTAATCTTTTA
13412016 TTTAAAACTG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 65 0.97
82 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (81 bp):
CAAAGGCATTTAAACTTTCATCTAACGTGAATTATTGACACATTTCTTCCAAATGCACAGTTAAA
CAATTAATCTTTTACT
Found at i:13412548 original size:18 final size:18
Alignment explanation
Indices: 13412525--13412571 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
13412515 ATATCTTCTT
13412525 TTAGTATCGATTCCCACA
1 TTAGTATCGATTCCCACA
13412543 TTAGTATCGATTCCCACA
1 TTAGTATCGATTCCCACA
13412561 TTAGTATCGAT
1 TTAGTATCGAT
13412572 ACTATTCATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (18 bp):
TTAGTATCGATTCCCACA
Found at i:13421313 original size:3 final size:3
Alignment explanation
Indices: 13421307--13421332 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13421297 CTAACTATCC
13421307 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
13421333 ACTCGGGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13426994 original size:35 final size:35
Alignment explanation
Indices: 13426955--13427021 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
13426945 GATTTCCCCT
* *
13426955 AACTTTATTCTCCAATGCCCTTAACAATGTTGTCC
1 AACTTGATTCTCCAATGACCTTAACAATGTTGTCC
* *
13426990 AACTTGATTCTCCAATTACCTTTACAATGTTG
1 AACTTGATTCTCCAATGACCTTAACAATGTTG
13427022 AATGAATTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (35 bp):
AACTTGATTCTCCAATGACCTTAACAATGTTGTCC
Done.