Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 95 of 160
Found at i:17974085 original size:161 final size:161
Alignment explanation
Indices: 17973731--17974090 Score: 399
Period size: 161 Copynumber: 2.2 Consensus size: 161
17973721 ATCCAAAAAT
* *
17973731 TTAATTTGTATTTTTACC-TTTAAGAGGCA-AAAATAGTCCTAAATAGATGTAAACGATAACTTT
1 TTAATTTGTATTTTTACCTTTTAA-AGGCACAAAA-AGTCCTAAATAGACGTAAACAATAACTTT
* *
17973794 TTTCACACATATCAACCATAGAAATCAAGTTTAATCATTCAAACAAGTTTAATATCATGTATTGA
64 TTTCACACATATCAACCATAGAAATCAAGTTCAATCATTCAAACAAGTTTAACATCATGTATTGA
* * * * * *
17973859 AGCTATCCAAACTGTTAAAATAGAATAATAACA
129 AACTATCAAAAATATTAAAACAGAACAATAACA
** * *
17973892 ACAATTTTGTATTTTTACCTATTAATGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTT
1 TTAA-TTTGTATTTTTACCTTTTAAAGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTT
* * * * * *
17973957 TT-ATACATATCAACCGT-GACGA-CTAAGTTCAAT-ACTTTAGATAAGTTTAACATCATGTATT
65 TTCACACATATCAACCATAGA-AATC-AAGTTCAATCA-TTCAAACAAGTTTAACATCATGTATT
*
17974018 GAAACTATCAAAAATATTAAAACAGAACAATAACTG
127 GAAACTATCAAAAATATTAAAACAGAACAATAAC-A
* * *
17974054 TTAATTTGCATTTCTACCTTTTAACGGCACAAAAAGT
1 TTAATTTGTATTTTTACCTTTTAAAGGCACAAAAAGT
17974091 TCATTCATTT
Statistics
Matches: 165, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
160 4 0.02
161 103 0.62
162 50 0.30
163 8 0.05
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
TTAATTTGTATTTTTACCTTTTAAAGGCACAAAAAGTCCTAAATAGACGTAAACAATAACTTTTT
TCACACATATCAACCATAGAAATCAAGTTCAATCATTCAAACAAGTTTAACATCATGTATTGAAA
CTATCAAAAATATTAAAACAGAACAATAACA
Found at i:17978290 original size:23 final size:24
Alignment explanation
Indices: 17978263--17978309 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17978253 GAGCGAACAC
*
17978263 AAAAACAACCATGTACAAAAAATG
1 AAAACCAACCATGTACAAAAAATG
**
17978287 AAAACCAAGTATGTACAAAAAAT
1 AAAACCAACCATGTACAAAAAAT
17978310 AAACATGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.15, G:0.09, T:0.15
Consensus pattern (24 bp):
AAAACCAACCATGTACAAAAAATG
Found at i:17979451 original size:3 final size:3
Alignment explanation
Indices: 17979443--17979474 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
17979433 TTAAGAATTA
*
17979443 AAT AAT AAT AAT AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17979475 ATATAAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:17979461 original size:9 final size:9
Alignment explanation
Indices: 17979443--17979496 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 9
17979433 TTAAGAATTA
*
17979443 AATAATAAT
1 AATAAAAAT
17979452 AATAAAAAT
1 AATAAAAAT
*
17979461 AATAATAAT
1 AATAAAAAT
*
17979470 AATAAATAT
1 AATAAAAAT
*
17979479 AA-AAAGAT
1 AATAAAAAT
17979487 -ATAAAAAT
1 AATAAAAAT
17979495 AA
1 AA
17979497 AAATTAAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
7 1 0.03
8 10 0.27
9 26 0.70
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AATAAAAAT
Found at i:17979750 original size:20 final size:20
Alignment explanation
Indices: 17979710--17979750 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17979700 TTTTATTTTT
*
17979710 TATATTAAAATAATTATAAA
1 TATATTAAAATAATGATAAA
17979730 TATATTCAAAATAATGA-AAA
1 TATATT-AAAATAATGATAAA
17979750 T
1 T
17979751 TTTGACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (20 bp):
TATATTAAAATAATGATAAA
Found at i:17998786 original size:4 final size:4
Alignment explanation
Indices: 17998777--17998838 Score: 56
Period size: 4 Copynumber: 15.5 Consensus size: 4
17998767 ATATTTTTTT
* * * *
17998777 AATA AATA AATA AGTA AATA AATA AATA TAT- AATA AAGA ATTA AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
17998824 AGA-A AATAA AATA AA
1 A-ATA AAT-A AATA AA
17998839 AAAAGGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
3 3 0.07
4 38 0.83
5 5 0.11
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:18000043 original size:34 final size:34
Alignment explanation
Indices: 17999993--18000117 Score: 121
Period size: 34 Copynumber: 3.7 Consensus size: 34
17999983 TTCTTCATTG
* * *
17999993 TATCAAAAAATGCATTTTC-GAAAACTATTTTAAT
1 TATCCAAAAATACATTTTCAGAAAA-TATTGTAAT
* * * *
18000027 TATCCAAAAATTCA-TTTCTGGAAAGTATTGCAAT
1 TATCCAAAAATACATTTTC-AGAAAATATTGTAAT
* *
18000061 TATTCAAATATACATTTTCAGAAAATATTGTAAT
1 TATCCAAAAATACATTTTCAGAAAATATTGTAAT
18000095 TA-CTCAAAAATACATTTTCAGAA
1 TATC-CAAAAATACATTTTCAGAA
18000118 GTAATTTTTT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
33 4 0.05
34 62 0.84
35 8 0.11
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
TATCCAAAAATACATTTTCAGAAAATATTGTAAT
Found at i:18002098 original size:2 final size:2
Alignment explanation
Indices: 18002086--18002128 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
18002076 TCTCATCATT
* *
18002086 TA TA CA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18002128 T
1 T
18002129 GCAACATATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:18002797 original size:5 final size:5
Alignment explanation
Indices: 18002787--18002812 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18002777 ATTCGTACAA
18002787 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
18002813 CATAAAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:18007779 original size:2 final size:2
Alignment explanation
Indices: 18007772--18007818 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
18007762 TTTCTCACAA
18007772 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18007814 AG AG A
1 AG AG A
18007819 CTTAATCTGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18010977 original size:12 final size:13
Alignment explanation
Indices: 18010946--18010983 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
18010936 TGTCCTTGTG
*
18010946 TCTTCTCTCTGCCT
1 TCTTC-CTCTTCCT
18010960 TCTTCCTCTTCC-
1 TCTTCCTCTTCCT
18010972 TCTTCCTCTTCC
1 TCTTCCTCTTCC
18010984 CCTACCCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 12 0.52
13 6 0.26
14 5 0.22
ACGTcount: A:0.00, C:0.47, G:0.03, T:0.50
Consensus pattern (13 bp):
TCTTCCTCTTCCT
Found at i:18010998 original size:30 final size:30
Alignment explanation
Indices: 18010964--18011022 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
18010954 CTGCCTTCTT
* * *
18010964 CCTCTTCCTCTTCCTCTTCCCCTACCCATA
1 CCTCTACCTCTACCTCTACCCCTACCCATA
*
18010994 CCTCTACCTCTACCTCTACCTCTACCCAT
1 CCTCTACCTCTACCTCTACCCCTACCCAT
18011023 TCCCATATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.53, G:0.00, T:0.34
Consensus pattern (30 bp):
CCTCTACCTCTACCTCTACCCCTACCCATA
Found at i:18011001 original size:6 final size:6
Alignment explanation
Indices: 18010964--18011019 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
18010954 CTGCCTTCTT
* * * *
18010964 CCTCTT CCTCTT CCTCTT CCCCTA CC-CATA CCTCTA CCTCTA CCTCTA
1 CCTCTA CCTCTA CCTCTA CCTCTA CCTC-TA CCTCTA CCTCTA CCTCTA
18011012 CCTCTA CC
1 CCTCTA CC
18011020 CATTCCCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 44 0.96
7 1 0.02
ACGTcount: A:0.12, C:0.54, G:0.00, T:0.34
Consensus pattern (6 bp):
CCTCTA
Found at i:18013615 original size:31 final size:31
Alignment explanation
Indices: 18013577--18013638 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
18013567 GACGCTATGA
*
18013577 TATATAAGGTTATCATATATGAGTTTAATGG
1 TATATAAGGTTATCATATACGAGTTTAATGG
* *
18013608 TATATAAGGTTTTCATTTACGAGTTTAATGG
1 TATATAAGGTTATCATATACGAGTTTAATGG
18013639 GATTTAATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (31 bp):
TATATAAGGTTATCATATACGAGTTTAATGG
Found at i:18013788 original size:44 final size:44
Alignment explanation
Indices: 18013708--18013796 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
18013698 CTTTGATATT
* * *
18013708 TTTTAAATTTTAAATAGTTTTAACATATAAATTATGAACTTATA
1 TTTTAAATTTTAAATAATTTTAACATATAAAGTATGAACTCATA
*
18013752 TTTTAAATTTTAAATAATTTTAAC-TCATACAGTATGAACTCATA
1 TTTTAAATTTTAAATAATTTTAACAT-ATAAAGTATGAACTCATA
18013796 T
1 T
18013797 ATATGTTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (44 bp):
TTTTAAATTTTAAATAATTTTAACATATAAAGTATGAACTCATA
Found at i:18021801 original size:230 final size:235
Alignment explanation
Indices: 18021392--18022557 Score: 1244
Period size: 230 Copynumber: 5.0 Consensus size: 235
18021382 ATCTTGCCAC
* * * **
18021392 CAAA-TTTTACCGCTAAATTTATTTGGTGGAAAATTTTTTTGTGAC-ATTTTTATTTTAGGTGAC
1 CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGAC
* * * * *
18021455 GTTATAATTTTGTCACCAATTTAAAATTTTATTTGTGACAAATTTTTTCTGATAAATTTTAGATG
66 GTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTT-TGATAGATTTTAGGTG
* ** *
18021520 ACGTTATTAATTTTTG-CTACAAATTGAATACTTTAGTTAACTATTAATGACATTACAATTCCAT
130 ACGTTATTAATTTTTGTC-ACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCAT
* * *
18021584 CGTATCAATGTATAGTG-T-TAT-ATGATAACATAAATGTTA
194 CATATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
* * * * *
18021623 CAAACTTTTACCCCCAAATTCAATTGGTGGGAAA-ATTTTTGTGATGTTTTTTA-TTTAAATGAC
1 CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGAC
* *
18021686 ATTATAATTTTGTCACCAATTTAAAATTTTATCTATGATGAATTTTTTTGATAGATTTTAGGTGA
66 GTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTTTGATAGATTTTAGGTGA
* * *
18021751 CGTTATTAATTTTTGTCATAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTTATCA
131 CGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCA
* *
18021816 CATCAATGTATGGTGTTATATGATGATAACATAAATCTCA
196 TATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
* * * * ** * *
18021856 CAAACTTTTACCGCCAAATTCATTTAGTGAGAAA-TTTTTTGTGATGTTTTTTATTTTAGCTAAT
1 CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGAC
* * * * *
18021920 ATTATAATTTTGTCACCAATTTAAAATTTTATCTGTAATGAA---TTTT-ATAGATTTTAGGTTA
66 GTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTTTGATAGATTTTAGGTGA
* * * * * ** *
18021981 TGTTATTAATTTTTGTTATAAATTGAACATTTTAGTTAACTATTAATTACATAATAATTTCGTCA
131 CGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCA
* * * * *
18022046 TGTTAATATATGGCGTTATATGATGATAACACAAATGTCA
196 TATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
* * * * * * *
18022086 CAAACTTTTAACACCAACTTCGTTTGGTGTGAAATTTTTTTGTGACGATTTTTATTTTAAGTGAT
1 CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGAC
* * * * *
18022151 GTTATGATTTTATCACCAATTT---A----A--TGTGACAAATTTTTTCTGATAGATTTTAGATG
66 GTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTT-TGATAGATTTTAGGTG
* * * * * * * *
18022207 ACATTATTAATTGTTATCACAAATTAAATACTTTAATTAACTATTAATGACATTGTAATTTCGTT
130 ACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATC
* * ** *
18022272 ATGTCAATATATGGTGTTATATGACAATAACAAAAATGTCA
195 ATATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
* * * * *
18022313 CAAATTTTTACTGCCAAATTTATTTGGTGGGAAATTTTTTTGTGACAATTTTTATTTTAAA-CAG
1 CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGA-
* * *
18022377 CGTTATAATTTTGTCACCAATTTAAAATTTTATCTATGAAAAATTTTTTTCATAAATTTTAGGTG
65 CGTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTTTGATAGATTTTAGGTG
** * * ** *
18022442 ATATTATTAATTTTTGTCACAAATTGAACACTTTAGTCAACTATTAATGATATTGTAATTTTTTT
130 ACGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATC
* * * *
18022507 ACATTAATGTATGGTGTTATATAATGATAACATAAATGTTA
195 ATATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
18022548 CAAACTTTTA
1 CAAACTTTTA
18022558 AATGATGTTA
Statistics
Matches: 780, Mismatches: 132, Indels: 42
0.82 0.14 0.04
Matches are distributed among these distances:
222 6 0.01
224 1 0.00
225 3 0.00
226 2 0.00
227 170 0.22
228 1 0.00
230 217 0.28
231 114 0.15
232 33 0.04
233 64 0.08
234 47 0.06
235 109 0.14
236 13 0.02
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.45
Consensus pattern (235 bp):
CAAACTTTTACCGCCAAATTCATTTGGTGGGAAATTTTTTTGTGACGATTTTTATTTTAAATGAC
GTTATAATTTTGTCACCAATTTAAAATTTTATCTATGATAAATTTTTTTGATAGATTTTAGGTGA
CGTTATTAATTTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGTAATTTCATCA
TATCAATGTATGGTGTTATATGATGATAACATAAATGTCA
Found at i:18022349 original size:457 final size:457
Alignment explanation
Indices: 18021392--18022558 Score: 1301
Period size: 457 Copynumber: 2.5 Consensus size: 457
18021382 ATCTTGCCAC
* * * * *
18021392 CAAATTTTACCGCTAAATTTATTTGGTGGAAAATTTTTTTGTGACATTTTTATTTTAGGTGACGT
1 CAAATTTTACCGCCAAATTTATTTGGTGGGAAATTTTTTTGTGAAATTTTTATTTTAGCTAACGT
* * * *
18021457 TATAATTTTGTCACCAATTTAAAATTTTATTTGTGACAAATTTTTTCTGATAAATTTTAGATGAC
66 TATAATTTTGTCACCAATTTAAAATTTTATCTGT-A-AAAATTTTTC--ATAAATTTTAGGTGAT
* * * * *
18021522 GTTATTAATTTTTGCTACAAATTGAATACTTTAGTTAACTATTAATGACATTACAATTCCATCGT
127 GTTATTAATTTTTGTTACAAATTGAACACTTTAGTTAACTATTAATGACATTATAATTTCATCAT
* * * *
18021587 ATCAATGTATAGTG-T-TATATGATAACATAAATGTTACAAACTTTTACCCCCAAATTCAATTGG
192 ATTAATGTATGGTGTTATATATGATAACATAAATGTTACAAACTTTTAACACCAAATTCAATTGG
* * * *
18021650 TGGGAAAATTTTTGTGATGTTTTTTATTTAAATGACATTATAATTTTGTCACCAATTTAAAATTT
257 TGGGAAAATTTTTGTGACGATTTTTATTTAAATGACATTATAATTTTATCACCAATTT-AAATGT
* * * * * * *
18021715 TATCTATGATGAATTTTTTTGATAGATTTTAGGTGACGTTATTAATTTTTGTCATAAATTGAACA
321 GATC--T-A-GAATTTTTTTGATAGATTTTAGATGACATTATTAATTGTTATCACAAATTAAACA
* * * **
18021780 CTTTAGTTAACTATTAATGACATTGCAATTTTATCACATCAATGTATGGTGTTATATGATGATAA
382 CTTTAATTAACTATTAATGACATTGCAATTTCATCACATCAATATATGGTGTTATATGACAATAA
*
18021845 CATAAATCTCA
447 CAAAAATCTCA
* * * ** *
18021856 CAAACTTTTACCGCCAAATTCATTTAGTGAGAAA-TTTTTTGTGATGTTTTTTATTTTAGCTAAT
1 CAAA-TTTTACCGCCAAATTTATTTGGTGGGAAATTTTTTTGTGA-AATTTTTATTTTAGCTAAC
* * * *
18021920 ATTATAATTTTGTCACCAATTTAAAATTTTATCTGTAATGAA-TTTT-ATAGATTTTAGGTTATG
64 GTTATAATTTTGTCACCAATTTAAAATTTTATCTGTAA-AAATTTTTCATAAATTTTAGGTGATG
* * * * * *
18021983 TTATTAATTTTTGTTATAAATTGAACATTTTAGTTAACTATTAATTACATAATAATTTCGTCATG
128 TTATTAATTTTTGTTACAAATTGAACACTTTAGTTAACTATTAATGACATTATAATTTCATCATA
* * * * * **
18022048 TTAATATATGGCGTTATATGATGATAACACAAATGTCACAAACTTTTAACACCAACTTCGTTTGG
193 TTAATGTATGGTGTTATAT-ATGATAACATAAATGTTACAAACTTTTAACACCAAATTCAATTGG
* * * ** *
18022113 TGTGAAATTTTTTTGTGACGATTTTTATTTTAAGTGATGTTATGATTTTATCACCAATTT-AATG
257 TGGGAAA-ATTTTTGTGACGATTTTTA-TTTAAATGACATTATAATTTTATCACCAATTTAAATG
*
18022177 TGA-C-A-AATTTTTTCTGATAGATTTTAGATGACATTATTAATTGTTATCACAAATTAAATACT
320 TGATCTAGAATTTTTT-TGATAGATTTTAGATGACATTATTAATTGTTATCACAAATTAAACACT
* * * **
18022239 TTAATTAACTATTAATGACATTGTAATTTCGTTATGTCAATATATGGTGTTATATGACAATAACA
384 TTAATTAACTATTAATGACATTGCAATTTCATCACATCAATATATGGTGTTATATGACAATAACA
*
18022304 AAAATGTCA
449 AAAATCTCA
* * *
18022313 CAAATTTTTACTGCCAAATTTATTTGGTGGGAAATTTTTTTGTGACAATTTTTATTTTAAAC-AG
1 CAAA-TTTTACCGCCAAATTTATTTGGTGGGAAATTTTTTTGTGA-AATTTTTATTTT-AGCTAA
*
18022377 CGTTATAATTTTGTCACCAATTTAAAATTTTATCTATGAAAAATTTTTTTCATAAATTTTAGGTG
63 CGTTATAATTTTGTCACCAATTTAAAATTTTATCTGT-AAAAA--TTTTTCATAAATTTTAGGTG
* * * * * ** *
18022442 ATATTATTAATTTTTGTCACAAATTGAACACTTTAGTCAACTATTAATGATATTGTAATTTTTTT
125 ATGTTATTAATTTTTGTTACAAATTGAACACTTTAGTTAACTATTAATGACATTATAATTTCATC
*
18022507 ACATTAATGTATGGTGTTATATAATGATAACATAAATGTTACAAACTTTTAA
190 ATATTAATGTATGGTGTTATAT-ATGATAACATAAATGTTACAAACTTTTAA
18022559 ATGATGTTAT
Statistics
Matches: 582, Mismatches: 105, Indels: 34
0.81 0.15 0.05
Matches are distributed among these distances:
456 8 0.01
457 132 0.23
458 58 0.10
459 4 0.01
460 76 0.13
461 5 0.01
462 114 0.20
463 54 0.09
464 32 0.05
465 99 0.17
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.45
Consensus pattern (457 bp):
CAAATTTTACCGCCAAATTTATTTGGTGGGAAATTTTTTTGTGAAATTTTTATTTTAGCTAACGT
TATAATTTTGTCACCAATTTAAAATTTTATCTGTAAAAATTTTTCATAAATTTTAGGTGATGTTA
TTAATTTTTGTTACAAATTGAACACTTTAGTTAACTATTAATGACATTATAATTTCATCATATTA
ATGTATGGTGTTATATATGATAACATAAATGTTACAAACTTTTAACACCAAATTCAATTGGTGGG
AAAATTTTTGTGACGATTTTTATTTAAATGACATTATAATTTTATCACCAATTTAAATGTGATCT
AGAATTTTTTTGATAGATTTTAGATGACATTATTAATTGTTATCACAAATTAAACACTTTAATTA
ACTATTAATGACATTGCAATTTCATCACATCAATATATGGTGTTATATGACAATAACAAAAATCT
CA
Found at i:18028833 original size:208 final size:203
Alignment explanation
Indices: 18028365--18029083 Score: 681
Period size: 205 Copynumber: 3.5 Consensus size: 203
18028355 TTGTGTCATT
* * * *
18028365 AATACTATGATGATTTACCTTTCGTCACTAATATATCATATTTTATCA-TTTATTTTATGCTGAT
1 AATACTGTGATGATTTACCTTTCATCACTAATATATCAAATTTTATCATTTTATTTT-TGATGAT
* * * * *
18028429 TATAACATTTAATGACCTTTTTTTTTCATATATAGCTGATGAAATCTAATGTCACAAAAAAAAAA
65 TATAGC-TTTAATGACCTTTTTTTTTCATAAATAGTTGATGAAAACTAATGTTAC---AAAAAAA
* * * * * *
18028494 AAAACATAAGGTGGCATTTGATTTTATTATCTCATTTGACATTATCTTAAAATCATTTGTGACGC
126 AAATCATAAGGTGACATTTGATTTTATTATCACATTTGACATTATCTTAAAATCATTGGTGATGA
* ** *
18028559 TAATTGTAAGATC
191 TAATTATGTGACC
* * *
18028572 AATATTGTGATGATTTATCTTTCATCACTAATATATCTAATTTTATCATTTTATTTTGTGATGAT
1 AATACTGTGATGATTTACCTTTCATCACTAATATATCAAATTTTATCATTTTATTTT-TGATGAT
* * *
18028637 TATAGCTTTCAATGACCCTTTTTTTTCATAAATAGTTGATGAAAACCAACGTTACAAAAAAAAAA
65 TATAGCTTT-AATGACCTTTTTTTTTCATAAATAGTTGATGAAAACTAATGTTACAAAAAAAAAA
* * *
18028702 TCATAAGGTGACATTTGATTTTATTATCACATTTGATATTATCTTATAATCATTGGTGATAATAA
129 TCATAAGGTGACATTTGATTTTATTATCACATTTGACATTATCTTAAAATCATTGGTGATGATAA
*
18028767 TTATGTTACC
194 TTATGTGACC
* * * * **
18028777 AATACTGTAATGATTTACCTTTCATCTCTATTATATCAAAATTT-TCA-TTTATTTTATGACAAT
1 AATACTGTGATGATTTACCTTTCATCACTAATATATCAAATTTTATCATTTTATTTT-TGATGAT
* * * * *
18028840 TATAGCTTTTACTGACATTTTTTTTTCATAAATAATTGACGAAAACTAATG-T-CACAAAAAAAA
65 TATAGC-TTTAATGACCTTTTTTTTTCATAAATAGTTGATGAAAACTAATGTTACAAAAAAAAAA
** * * * * * * *
18028903 TCATAAAATAACGTTTGCTTTTATTGTCACGTTTGACATTATTTTGCAAA-CATTGGTGATGATA
129 TCATAAGGTGACATTTGATTTTATTATCACATTTGACATTATCTT-AAAATCATTGGTGATGATA
* *
18028967 AATATGT--CA
193 ATTATGTGACC
* * ** ** * *
18028976 AATACTATGAAGATTTATGTTTTGTCACTAAAATATCAAATTTTATCA-TTTATTTTGTGA-AAT
1 AATACTGTGATGATTTACCTTTCATCACTAATATATCAAATTTTATCATTTTATTTT-TGATGAT
* * *
18029039 TATAGCCTTTAATGA--TTTTTTTCT-ATAAATAGCTGATGAATACTA
65 TATAG-CTTTAATGACCTTTTTTTTTCATAAATAGTTGATGAAAACTA
18029084 TTATAAAAAG
Statistics
Matches: 426, Mismatches: 80, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
196 17 0.04
197 8 0.02
199 49 0.12
200 15 0.04
201 65 0.15
202 3 0.01
203 53 0.12
204 6 0.01
205 108 0.25
207 45 0.11
208 57 0.13
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (203 bp):
AATACTGTGATGATTTACCTTTCATCACTAATATATCAAATTTTATCATTTTATTTTTGATGATT
ATAGCTTTAATGACCTTTTTTTTTCATAAATAGTTGATGAAAACTAATGTTACAAAAAAAAAATC
ATAAGGTGACATTTGATTTTATTATCACATTTGACATTATCTTAAAATCATTGGTGATGATAATT
ATGTGACC
Found at i:18030030 original size:101 final size:102
Alignment explanation
Indices: 18029855--18030063 Score: 291
Period size: 101 Copynumber: 2.1 Consensus size: 102
18029845 AAAATGTTTG
* * * * *
18029855 AAAAA-TTAATATGAGTGTAATTTCGTTTTGATTGTTGTTTTTGGAACTTGTTTTATATATTCAA
1 AAAAATTTAAGATGAGTGTAATTTCGTTTTAATTGTAGTTTTTGGAACTTGTTTGACATATTCAA
18029919 AACTCATATTTATACTTACATGAATGAAGAAGGAAAC
66 AACTCATATTTATACTTACATGAATGAAGAAGGAAAC
18029956 AAAAATTTAAGATGAGTGTAATTGT-GTTTTAATTGTAG-TTTTGGAACTTAG-TTGACATATTC
1 AAAAATTTAAGATGAGTGTAATT-TCGTTTTAATTGTAGTTTTTGGAACTT-GTTTGACATATTC
* * * *
18030018 AAAATTTATATTTATATTTACATGAATGAAGGAGGAAAC
64 AAAACTCATATTTATACTTACATGAATGAAGAAGGAAAC
18030057 AAAAATT
1 AAAAATT
18030064 GTAGGAAGTT
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
101 67 0.70
102 28 0.29
103 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (102 bp):
AAAAATTTAAGATGAGTGTAATTTCGTTTTAATTGTAGTTTTTGGAACTTGTTTGACATATTCAA
AACTCATATTTATACTTACATGAATGAAGAAGGAAAC
Found at i:18035077 original size:15 final size:17
Alignment explanation
Indices: 18035057--18035093 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
18035047 CTCTTTATGA
18035057 TTTTTCCTCT-T-AGAC
1 TTTTTCCTCTATAAGAC
*
18035072 TTTTTCTTCTATAAGAC
1 TTTTTCCTCTATAAGAC
18035089 TTTTT
1 TTTTT
18035094 ACAAAACTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 9 0.47
16 1 0.05
17 9 0.47
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTTTCCTCTATAAGAC
Found at i:18035615 original size:94 final size:94
Alignment explanation
Indices: 18035450--18035625 Score: 237
Period size: 94 Copynumber: 1.9 Consensus size: 94
18035440 ATCTTCCTAA
* * * * *
18035450 TCTTGAGTGTAAGTGTTTGGGTAAGAATTGGATTGTCGAGCGTATCTATCACTATAGTATTCCCT
1 TCTTGAGTGGAAGTGTTTGGGTAAAAATTGAATTGTCGAGCATACCTATCACTATAGTATTCCCT
18035515 TAATAACCCTGACAATTGTAAAATATGCG
66 TAATAACCCTGACAATTGTAAAATATGCG
* * * * *
18035544 TCTTGAGTGGAGGTGTTTGGGTAAAAATTGAATTGTTGGGCATACCTATCACTTTATTATTCCCT
1 TCTTGAGTGGAAGTGTTTGGGTAAAAATTGAATTGTCGAGCATACCTATCACTATAGTATTCCCT
*
18035609 CT-ATAACTCTGACAATT
66 -TAATAACCCTGACAATT
18035626 ACAAAATGTG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
94 69 0.99
95 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.37
Consensus pattern (94 bp):
TCTTGAGTGGAAGTGTTTGGGTAAAAATTGAATTGTCGAGCATACCTATCACTATAGTATTCCCT
TAATAACCCTGACAATTGTAAAATATGCG
Found at i:18035887 original size:23 final size:23
Alignment explanation
Indices: 18035861--18035906 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
18035851 ATAAAAATTA
18035861 AACATA-AAGAAAGAAAAAAAAAT
1 AACATATAA-AAAGAAAAAAAAAT
* *
18035884 AACATATAACAGGAAAAAAAAAT
1 AACATATAAAAAGAAAAAAAAAT
18035907 CTAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.11
Consensus pattern (23 bp):
AACATATAAAAAGAAAAAAAAAT
Found at i:18047183 original size:51 final size:51
Alignment explanation
Indices: 18047104--18047203 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
18047094 GTACGATTAA
* * * *
18047104 TGAAGGTGTTTTTGGTCAAAAAAACCTTGAATTATCCCTTTCAATTTTTAT
1 TGAAGGTGTTTCTGGTCAAAAAAACCTTGAATAACCCCATTCAATTTTTAT
**
18047155 TGAAGGTGTTTCT-GTGCAAAAACGCCTTGAATAACCCCATTCAATTTTT
1 TGAAGGTGTTTCTGGT-CAAAAAAACCTTGAATAACCCCATTCAATTTTT
18047204 TGTAACAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (51 bp):
TGAAGGTGTTTCTGGTCAAAAAAACCTTGAATAACCCCATTCAATTTTTAT
Found at i:18047641 original size:62 final size:60
Alignment explanation
Indices: 18047515--18047820 Score: 217
Period size: 62 Copynumber: 5.2 Consensus size: 60
18047505 TTTTCAAGGA
* ** * *
18047515 ATTATTCAAGGCATTTTCT-GACCAAAAATGCCTTGAATAATCCCCCAAAAAATGTAAGGGG
1 ATTATTCAAGGCATTTTCTAG-CAAAAAACACCTTGAATAATCTCTCAAAAAAT-TAAGGGG
* *
18047576 ATTATTGAAGGCATTTT-TAGCAAAAAGCACCTTGAATAATTCTCTCATAAAAATTAAAGGGG
1 ATTATTCAAGGCATTTTCTAGCAAAAAACACCTTGAATAA-TCTCTCA-AAAAATT-AAGGGG
* * * *
18047638 ATTATTAAAGGCATTTTGTA-CAAAAAATACCTCGAATAA-C-C-C----AATTAA-GGG
1 ATTATTCAAGGCATTTTCTAGCAAAAAACACCTTGAATAATCTCTCAAAAAATTAAGGGG
* *** *
18047689 ATTATTCAAGGCATTTTTCTAGTC-AAAAATACCTTGAATAATCTAAAAAAAAAGTGAA-GGG
1 ATTATTCAAGGCA-TTTTCTAG-CAAAAAACACCTTGAATAATCTCTCAAAAAA-TTAAGGGG
* * * * *
18047750 ATTATTGAAGGTATTTT-TAGCAAAAAACGCATTGAATAATACTCTCATAAAAATTAAAGAGG
1 ATTATTCAAGGCATTTTCTAGCAAAAAACACCTTGAATAAT-CTCTCA-AAAAATT-AAGGGG
*
18047812 ATTACTCAA
1 ATTATTCAA
18047821 ACCGTTTTGG
Statistics
Matches: 195, Mismatches: 29, Indels: 41
0.74 0.11 0.15
Matches are distributed among these distances:
51 15 0.08
52 8 0.04
53 20 0.10
54 2 0.01
58 2 0.01
59 19 0.10
60 27 0.14
61 47 0.24
62 53 0.27
63 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (60 bp):
ATTATTCAAGGCATTTTCTAGCAAAAAACACCTTGAATAATCTCTCAAAAAATTAAGGGG
Found at i:18047741 original size:113 final size:112
Alignment explanation
Indices: 18047573--18047776 Score: 254
Period size: 112 Copynumber: 1.8 Consensus size: 112
18047563 AAAATGTAAG
* ** * *
18047573 GGGATTATTGAAGGCATTTTTAGCAAAAAGCACCTTGAATAATTCTCTCATAAAAATTAAAGGGG
1 GGGATTATTCAAGGCATTTTTAGCAAAAAGCACCTTGAATAATTCTCAAAAAAAAAGTAAA-GGG
18047638 ATTATTAAAGGCATTTTGTA-CAAAAAATACCTCGAATAACCCAATTAA
65 ATTATTAAAGGCATTTT-TAGCAAAAAATACCTCGAATAACCCAATTAA
* *
18047686 GGGATTATTCAAGGCATTTTTCTAGTCAAAAA-TACCTTGAATAA-TCT-AAAAAAAAAGTGAAG
1 GGGATTATTCAAGGCA-TTTT-TAG-CAAAAAGCACCTTGAATAATTCTCAAAAAAAAAGTAAAG
* *
18047748 GGATTATTGAAGGTATTTTTAGCAAAAAA
63 GGATTATTAAAGGCATTTTTAGCAAAAAA
18047777 CGCATTGAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
111 2 0.03
112 25 0.32
113 24 0.31
114 7 0.09
115 14 0.18
116 6 0.08
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (112 bp):
GGGATTATTCAAGGCATTTTTAGCAAAAAGCACCTTGAATAATTCTCAAAAAAAAAGTAAAGGGA
TTATTAAAGGCATTTTTAGCAAAAAATACCTCGAATAACCCAATTAA
Found at i:18047838 original size:174 final size:174
Alignment explanation
Indices: 18047510--18047838 Score: 432
Period size: 174 Copynumber: 1.9 Consensus size: 174
18047500 AGAATTTTTC
* ***
18047510 AAGGAATTATTCAAGGCATTTTCTGACCAAAAATGCCTTGAATAATCCCCCAAAAAATGTAAGGG
1 AAGGAATTATTCAAGGCATTTTCTGACCAAAAATACCTTGAATAATCCAAAAAAAAATGTAAGGG
* * * *
18047575 GATTATTGAAGGCATTTTTAGCAAAAAGCACCTTGAATAATTCTCTCATAAAAATTAAAGGGGAT
66 GATTATTGAAGGCATTTTTAGCAAAAAACACATTGAATAATACTCTCATAAAAATTAAAGAGGAT
* * *
18047640 TATTAAAGGCATTTTGTACAAAAAATACCTCGAATAACCCAATT
131 TATCAAAGCCATTTTGGACAAAAAATACCTCGAATAACCCAATT
* * *
18047684 AAGGGATTATTCAAGGCATTTTTCT-AGTCAAAAATACCTTGAATAATCTAAAAAAAAA-GTGAA
1 AAGGAATTATTCAAGGCA-TTTTCTGA-CCAAAAATACCTTGAATAATCCAAAAAAAAATGT-AA
* *
18047747 -GGGATTATTGAAGGTATTTTTAGCAAAAAACGCATTGAATAATACTCTCATAAAAATTAAAGAG
63 GGGGATTATTGAAGGCATTTTTAGCAAAAAACACATTGAATAATACTCTCATAAAAATTAAAGAG
* *
18047811 GATTACTCAAA-CCGTTTTGGCCAAAAAA
128 GATTA-TCAAAGCCATTTTGGACAAAAAA
18047839 CGCCTTGAAT
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
174 96 0.72
175 37 0.28
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (174 bp):
AAGGAATTATTCAAGGCATTTTCTGACCAAAAATACCTTGAATAATCCAAAAAAAAATGTAAGGG
GATTATTGAAGGCATTTTTAGCAAAAAACACATTGAATAATACTCTCATAAAAATTAAAGAGGAT
TATCAAAGCCATTTTGGACAAAAAATACCTCGAATAACCCAATT
Found at i:18048164 original size:24 final size:24
Alignment explanation
Indices: 18048136--18048183 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18048126 CTTTGGAACC
*
18048136 TTATTTCTA-CTATTCCTTCATTCT
1 TTATTTC-AGCTATTACTTCATTCT
*
18048160 TTATTTCAGCTTTTACTTCATTCT
1 TTATTTCAGCTATTACTTCATTCT
18048184 ACTATTCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.17, C:0.23, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATTTCAGCTATTACTTCATTCT
Found at i:18054047 original size:21 final size:21
Alignment explanation
Indices: 18054021--18054062 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18054011 GGCAACATTT
18054021 TTTGAGCTGAAAGCTGTTGTG
1 TTTGAGCTGAAAGCTGTTGTG
* *
18054042 TTTGAGCTGGAAGTTGTTGTG
1 TTTGAGCTGAAAGCTGTTGTG
18054063 AGTTCTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.07, G:0.36, T:0.40
Consensus pattern (21 bp):
TTTGAGCTGAAAGCTGTTGTG
Found at i:18055806 original size:322 final size:321
Alignment explanation
Indices: 18055215--18056211 Score: 1114
Period size: 322 Copynumber: 3.1 Consensus size: 321
18055205 TAAATTTATA
* * * * ** * *
18055215 ATATTAAACTTATCCAAATAAATGAACTTGG-TTTCTATTGTTGATATATATGTCATTACTT-GC
1 ATATTAAACTTATCCAAATAATTGAACTTGGTTTTC-ATAGTTGATATGTATG-AAAAAGTTAAC
** * *
18055278 AATTTATGTCTATTTATGAC-TTTTGTGCCATTAAAAGGTAAAAATACAAATTTA-TAGTTATTA
64 AA-TTACATCTATTTAGGACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTACT-GTTATTG
* * * ** ** *
18055341 TTCTATTTTAATAGTTTTGATAATTTCAATACATGATATTAAACTTGTTTGAATAATTGAACTTG
127 TTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTG
* **** * ** * *
18055406 GATTCTGCGATTGATATGTATGAAAAAGTTATTGTTTATGCTTGTTTAGGACTTTTTAAGCTGCT
192 GTTTCCATAATTGATATGTATGAAAAAGTTATCGTTTATATTTGTTTAAGACTTTTTATGCTG-T
* * * * * *
18055471 GAA-ATGCAAAAATGCAAATTTGCTATTGTTGTTCTGTTTTAACAGTTTAG-ATAG-TTTCAATA
256 TAAGA-GGAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAACAGTTT-GCATAGCTTT-AATA
18055533 CATG
318 CATG
* *
18055537 ATATTAAACTTATCCAAATTATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTATCAA
1 ATATTAAACTTATCCAAATAATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAACAA
* * * *
18055602 TTACATCTATTTAGGACTTTTTGTGTCGTTAATAGGTAAAAATAAAAATTTACTGTTATTGTTCT
66 TTACATCTATTTAGGACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTACTGTTATTGTTCT
*
18055667 ATTTTAACAATTTGGATAGCTTCAATACATGATATTAAGCTTGTCCGAATGATT-AAGCTTGGTT
131 ATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAA-CTTGGTT
* *
18055731 TCCATAATTGATATGTATGATAAAGTTATCGTTTATATTTGTCTAAGACTTTTTATGCTGTTAAG
195 TCCATAATTGATATGTATGAAAAAGTTATCGTTTATATTTGTTTAAGACTTTTTATGCTGTTAAG
*
18055796 AGGTAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAATAGTTTGCATAGCTTTAATACATG
260 AGG-AAAAATGCAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGCATAGCTTTAATACATG
* * * * * * * *
18055859 ATACTAAACTTATCGAAATAATTGAACTTGATTTTCAGAATTGATATGCATGAAAAAGCTAACAT
1 ATATTAAACTTATCCAAATAATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAACAA
** * * * * *
18055924 TTACATCGGTTTAGGACTTTTTATGCCATGAAAAGG-CAAAATACAAATTTGCTATTATTGTTCT
66 TTACATCTATTTAGGACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTACTGTTATTGTTCT
* * *
18055988 GTTTTAACAATTTGGGTAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTT
131 ATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTT
* * * * * * * * * *
18056053 TCATAATTGATATTTGTGACAAAGTTATCGTTTACATCTATTTAAGACTTTTTGTGCTATTACGA
196 CCATAATTGATATGTATGAAAAAGTTATCGTTTATATTTGTTTAAGACTTTTTATGCTGTTAAGA
* * *
18056118 GGCAAAATGCAAAATTGTTGTTATTGTTCTATTTTAACAGTTTGCATAGCTTT-ATATATG
261 GGAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGCATAGCTTTAATACATG
** *
18056178 ATATTAAACTTATCGGAATAATTAAACTTGGTTT
1 ATATTAAACTTATCCAAATAATTGAACTTGGTTT
18056212 CCACATCTGT
Statistics
Matches: 576, Mismatches: 89, Indels: 23
0.84 0.13 0.03
Matches are distributed among these distances:
319 36 0.06
320 48 0.08
321 163 0.28
322 321 0.56
323 8 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (321 bp):
ATATTAAACTTATCCAAATAATTGAACTTGGTTTTCATAGTTGATATGTATGAAAAAGTTAACAA
TTACATCTATTTAGGACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTTACTGTTATTGTTCT
ATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTT
CCATAATTGATATGTATGAAAAAGTTATCGTTTATATTTGTTTAAGACTTTTTATGCTGTTAAGA
GGAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGCATAGCTTTAATACATG
Found at i:18056029 original size:160 final size:161
Alignment explanation
Indices: 18055290--18056211 Score: 860
Period size: 161 Copynumber: 5.8 Consensus size: 161
18055280 TTTATGTCTA
* * * * *
18055290 TTTATGAC-TTTTGTGCCATTAAAAGGTAAAAATACAAATTT-ATAGTTATTATTCTATTTTAAT
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTA-TTATTGTTCTATTTTAAC
* ** * * * *
18055353 AGTTTTGATAATTTCAATACATGATATTAAACTTGTTTG-AATAATTGAACTTGG-ATTC-TGCG
65 AGTTTGGATAGCTTCAATACATGATATTAAACTT-ATCGAAATAATTGAACTTGGTTTTCAT--A
*
18055415 ATTGATATGTATGAAAAAGTTATTGTTT--ATGCTTG
127 ATTGATATGTATGAAAAAGTTATCGTTTACAT-C-TG
* *** * * * * * *
18055450 TTTAGGACTTTTTAAGCTGCTGAAATGCAAAAATGCAAATTTGCTATTGTTGTTCTGTTTTAACA
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
* * * * *
18055515 GTTTAGATAGTTTCAATACATGATATTAAACTTATCCAAATTATTGAACTTGGTTTTCATAGTTG
66 GTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAATAATTGAACTTGGTTTTCATAATTG
** *
18055580 ATATGTATGAAAAAGTTATCAATTACATCTA
131 ATATGTATGAAAAAGTTATCGTTTACATCTG
* * * * * * *
18055611 TTTAGGACTTTTTGTGTCGTTAATAGGTAAAAATAAAAATTTACTGTTATTGTTCTATTTTAACA
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
* * * * *
18055676 ATTTGGATAGCTTCAATACATGATATTAAGCTTGTCCG-AATGATT-AAGCTTGGTTTCCATAAT
66 GTTTGGATAGCTTCAATACATGATATTAAACTTAT-CGAAATAATTGAA-CTTGGTTTTCATAAT
* * *
18055739 TGATATGTATGATAAAGTTATCGTTTATATTTG
129 TGATATGTATGAAAAAGTTATCGTTTACATCTG
* * ** * * * * *
18055772 TCTAAGACTTTTTATGCTGTTAAGAGGTAAAAATGCAAATTTGTTGTTATTGTTCTATTTTAATA
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
* * * * *
18055837 GTTTGCATAGCTTTAATACATGATACTAAACTTATCGAAATAATTGAACTTGATTTTCAGAATTG
66 GTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAATAATTGAACTTGGTTTTCATAATTG
* * * * *
18055902 ATATGCATGAAAAAGCTAACATTTACATCGG
131 ATATGTATGAAAAAGTTATCGTTTACATCTG
* * *
18055933 TTTAGGACTTTTTATGCCATGAAAAGG-CAAAATACAAATTTGCTATTATTGTTCTGTTTTAACA
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
* * * * *
18055997 ATTTGGGTAGCTTCAATACATGATATTAAACTTGTCCAAATGATTGAACTTGGTTTTCATAATTG
66 GTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAATAATTGAACTTGGTTTTCATAATTG
* * * *
18056062 ATATTTGTGACAAAGTTATCGTTTACATCTA
131 ATATGTATGAAAAAGTTATCGTTTACATCTG
* * * ** * * * * *
18056093 TTTAAGACTTTTTGTGCTATTACGAGG-CAAAATGCAAAATTGTTGTTATTGTTCTATTTTAACA
1 TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
* * * * *
18056157 GTTTGCATAGCTT-TATATATGATATTAAACTTATCGGAATAATTAAACTTGGTTT
66 GTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAATAATTGAACTTGGTTT
18056212 CCACATCTGT
Statistics
Matches: 612, Mismatches: 139, Indels: 23
0.79 0.18 0.03
Matches are distributed among these distances:
159 35 0.06
160 183 0.30
161 382 0.62
162 9 0.01
163 3 0.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (161 bp):
TTTAGGACTTTTTATGCCATTAAAAGGTAAAAATACAAATTTGCTATTATTGTTCTATTTTAACA
GTTTGGATAGCTTCAATACATGATATTAAACTTATCGAAATAATTGAACTTGGTTTTCATAATTG
ATATGTATGAAAAAGTTATCGTTTACATCTG
Found at i:18056490 original size:161 final size:159
Alignment explanation
Indices: 18056214--18057148 Score: 956
Period size: 161 Copynumber: 5.8 Consensus size: 159
18056204 CTTGGTTTCC
*** ** * *
18056214 ACATCTGTTTAGGACT-TTTTATGTTGTT-AAAGGGTAAAATGCAAATTTGTTATTATTGTTTTA
1 ACATCTGTTTAGGACTATTTT-TACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTA
* * * * * *
18056277 TTTTAATAGTTTGGATAGCTTCAATGCATGATACTAAAC-TTGTCTAAATGATTGAACTTGATTT
65 TTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTC-GAATGATTGAACTTGGTTT
** * *
18056341 TTACAGTTGATTTGTGTAAAGTAGTTATTGTTT
129 CCACAGTTGATTTGTG-AAA-AAGTTACTGTTT
* * * * *
18056374 ACGTCTATTTAGGACTATTTTTACCGTTAAAAGGTAAAAATACAAATTTGTTGTTATTATTCTAT
1 ACATCTGTTTAGGACTATTTTTACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTAT
* *
18056439 TTTAACAGTTTGGATGGCTTCAATATATGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCC
66 TTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCC
* *
18056504 ACAGTTGATATATGTGAAAAAGCTAAC-ATTT
131 ACAGTTGAT-T-TGTGAAAAAG-TTACTGTTT
* * * * * * * *
18056535 ACATTTGTTTAGGACTATTTATACTGTTAAAAAGCCAAAATGCAATTTTGCTATTATTGTTCTAT
1 ACATCTGTTTAGGACTATTTTTACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTAT
* * *
18056600 TTTAACAGTTTGGATAGCTTCAATATATGATAATAAAC-TTGTCTGAATGATTGAACTTGGTTTC
66 TTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTC-GAATGATTGAACTTGGTTTC
* * *
18056664 TACAGTTAATATGTATGAAAAAGTTA-TCGTTT
130 CACAGTTGAT-T-TGTGAAAAAGTTACT-GTTT
* * *
18056696 ACATCTATTTAGGACTATTTTTGCCGTTAAAAGGCAAAAATACAAATTTGTTGTTATTGTTCTAT
1 ACATCTGTTTAGGACTATTTTTACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTAT
* * * *
18056761 TTTAACAGTTTTGATGGCTTTAATACATGATATTAAATTTTTTCGAATGATTGAACTTGGTTTCC
66 TTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCC
* * * **
18056826 ACAATTGACATATGTGAAAAAGTTGCTACTT
131 ACAGTTG--ATTTGTGAAAAAGTTACTGTTT
* * * *
18056857 ACCTTTGTTTAGGA-T-TTTTTATGCCGTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCT
1 ACATCTGTTTAGGACTATTTTTA--CCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCT
* *
18056920 ATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTTTTCAAATGATTGAACTTGGCTT
64 ATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTCGAATGATTGAACTTGG-TT
*
18056985 T-CACAGTTGATATATATGAAAAAGTTACTGTTT
128 TCCACAGTTGAT-T-TGTGAAAAAGTTACTGTTT
* * * ** * *
18057018 ACCTCTGTTTAGGACT-TTTTGAACCATTAAAAGGCAAAAATACAAATTTACTATTGTTGTTCTG
1 ACATCTGTTTAGGACTATTTT-TACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTA
* ** * * * *
18057082 TTTTAATAGTTTGGATAATTTTAATACATGATATTAAAC-TTGTCTAAATGATTGAATTTGGTTT
65 TTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTC-GAATGATTGAACTTGGTTT
18057146 CCA
129 CCA
18057149 TGATTGATAT
Statistics
Matches: 651, Mismatches: 102, Indels: 43
0.82 0.13 0.05
Matches are distributed among these distances:
159 7 0.01
160 32 0.05
161 582 0.89
162 23 0.04
163 7 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (159 bp):
ACATCTGTTTAGGACTATTTTTACCGTTAAAAGGCAAAAATACAAATTTGTTATTATTGTTCTAT
TTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCC
ACAGTTGATTTGTGAAAAAGTTACTGTTT
Found at i:18056841 original size:322 final size:321
Alignment explanation
Indices: 18056214--18057166 Score: 1184
Period size: 322 Copynumber: 3.0 Consensus size: 321
18056204 CTTGGTTTCC
* * ** *
18056214 ACATCTGTTTAGGACTTTTTATGTTGTT-AAAGGGTAAAATGCAAATTTGTTATTATTGTTTTAT
1 ACATTTGTTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAATTTGTTATTATTGTTCTAT
* * * * *
18056278 TTTAATAGTTTGGATAGCTTCAATGCATGATACTAAACTTGTCTAAATGATTGAACTTGATTTTT
66 TTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCTAAATGATTGAACTTGGTTTCT
* * * * * *
18056343 ACAGTTGATTTGTGT-AAAGTAGTTATTGTTTACGTCTATTTAGGACTATTTTTACCGTTAAAAG
131 ACAGTTGATATGTATGAAA-AAGTTATCGTTTACATCTATTTAGGACTATTTTTGCCGTTAAAAG
* * * *
18056407 GTAAAAATACAAATTTGTTGTTATTATTCTATTTTAACAGTTTGGATGGCTTCAATATATGATAT
195 GCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTTAATACATGATAT
* *
18056472 TAAACTTTTTCGAATGATTGAACTTGGTTTCCACAGTTGATATATGTGAAAAAGCTAAC-ATTT
260 TAAA-TTTTTCGAATGATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAG-TAACTACTT
* * * * * *
18056535 ACATTTGTTTAGGACTATTTATACTGTTAAAAAGCCAAAATGCAATTTTGCTATTATTGTTCTAT
1 ACATTTGTTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAATTTGTTATTATTGTTCTAT
* *
18056600 TTTAACAGTTTGGATAGCTTCAATATATGATAATAAACTTGTCTGAATGATTGAACTTGGTTTCT
66 TTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCTAAATGATTGAACTTGGTTTCT
*
18056665 ACAGTTAATATGTATGAAAAAGTTATCGTTTACATCTATTTAGGACTATTTTTGCCGTTAAAAGG
131 ACAGTTGATATGTATGAAAAAGTTATCGTTTACATCTATTTAGGACTATTTTTGCCGTTAAAAGG
*
18056730 CAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTTGATGGCTTTAATACATGATATT
196 CAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTTAATACATGATATT
* **
18056795 AAATTTTTTCGAATGATTGAACTTGGTTTCCACAATTGACATATGTGAAAAAGTTGCTACTT
261 AAA-TTTTTCGAATGATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAGTAACTACTT
* * * * * *
18056857 ACCTTTGTTTAGGATTTTTTATGCCGTTAAAAGGCAAAAATACAAATTTATTGTTATTGTTCTAT
1 ACATTTGTTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAATTTGTTATTATTGTTCTAT
* * *
18056922 TTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTT-TTTCAAATGATTGAACTTGGCTTT
66 TTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCT-AAATGATTGAACTTGG-TTT
* * * *
18056986 C-ACAGTTGATATATATGAAAAAGTTA-CTGTTTACCTCTGTTTAGGAC--TTTTTGAACCATTA
129 CTACAGTTGATATGTATGAAAAAGTTATC-GTTTACATCTATTTAGGACTATTTTTG--CCGTTA
** * * * * ***
18057047 AAAGGCAAAAATACAAATTTACTATTGTTGTTCTGTTTTAATAGTTTGGATAATTTTAATACATG
191 AAAGGCAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTTAATACATG
* * * * ** *
18057112 ATATTAAACTTGTCTAAATGATTGAATTTGGTTTCCATGATTGATATGTGTGAAA
256 ATATTAAATTTTTC-GAATGATTGAACTTGGTTTCCACAATTGATATATGTGAAA
18057167 GGGCAAAATG
Statistics
Matches: 548, Mismatches: 75, Indels: 17
0.86 0.12 0.03
Matches are distributed among these distances:
320 6 0.01
321 33 0.06
322 502 0.92
323 7 0.01
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (321 bp):
ACATTTGTTTAGGACTTTTTATGCTGTTAAAAGGCAAAAATGCAAATTTGTTATTATTGTTCTAT
TTTAACAGTTTGGATAGCTTCAATACATGATAATAAACTTGTCTAAATGATTGAACTTGGTTTCT
ACAGTTGATATGTATGAAAAAGTTATCGTTTACATCTATTTAGGACTATTTTTGCCGTTAAAAGG
CAAAAATACAAATTTGTTGTTATTGTTCTATTTTAACAGTTTGGATGGCTTTAATACATGATATT
AAATTTTTCGAATGATTGAACTTGGTTTCCACAATTGATATATGTGAAAAAGTAACTACTT
Found at i:18059200 original size:13 final size:12
Alignment explanation
Indices: 18059184--18059218 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
18059174 AAATTGAGAG
18059184 AAAAAAAAAGTA
1 AAAAAAAAAGTA
*
18059196 AAAAAAAAATTA
1 AAAAAAAAAGTA
18059208 AAAAAAGAAAG
1 AAAAAA-AAAG
18059219 AAGAGTTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 17 0.85
13 3 0.15
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAAAAAGTA
Found at i:18066209 original size:19 final size:19
Alignment explanation
Indices: 18066171--18066210 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
18066161 TTGTTGTTGG
*
18066171 ATTATTAAAATTTTAAAAA
1 ATTATTAAAATTTAAAAAA
18066190 ATTATTAAAA-TTAAATAAA
1 ATTATTAAAATTTAAA-AAA
18066209 AT
1 AT
18066211 CTTTTAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTATTAAAATTTAAAAAA
Found at i:18067763 original size:2 final size:2
Alignment explanation
Indices: 18067758--18067782 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18067748 ATATTCATGA
18067758 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
18067783 AATAAACATA
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:18067824 original size:19 final size:19
Alignment explanation
Indices: 18067780--18067826 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
18067770 ATATATATAT
*
18067780 ATAAATAAACATATTCATA
1 ATAAATAAACATAATCATA
18067799 A-ACAATAAACA-AATCATA
1 ATA-AATAAACATAATCATA
18067817 ATTAAATAAA
1 A-TAAATAAA
18067827 TTTAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 8 0.33
19 15 0.62
20 1 0.04
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAATAAACATAATCATA
Found at i:18072486 original size:27 final size:27
Alignment explanation
Indices: 18072450--18072502 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
18072440 ATTATATATT
* *
18072450 TAAATTATTTAACATTTATAAAATTAA
1 TAAATAATTTAAAATTTATAAAATTAA
*
18072477 TAAATAATTTAAAATTTATTAAATTA
1 TAAATAATTTAAAATTTATAAAATTA
18072503 CTTTAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TAAATAATTTAAAATTTATAAAATTAA
Found at i:18079175 original size:30 final size:30
Alignment explanation
Indices: 18079139--18079204 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
18079129 CAGAGACCTT
* *
18079139 TTATATATGTGAAAAATAAAAGGGATAAAA
1 TTATATATGTGAAAAATAAAAGGAACAAAA
* *
18079169 TTATATATGTGAATAATAAAAGTAACAAAA
1 TTATATATGTGAAAAATAAAAGGAACAAAA
18079199 TTATAT
1 TTATAT
18079205 GATAAATCTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.55, C:0.02, G:0.12, T:0.32
Consensus pattern (30 bp):
TTATATATGTGAAAAATAAAAGGAACAAAA
Found at i:18079687 original size:14 final size:14
Alignment explanation
Indices: 18079668--18079695 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18079658 CACAGAAGGA
18079668 TCGTTCCACCTTTT
1 TCGTTCCACCTTTT
18079682 TCGTTCCACCTTTT
1 TCGTTCCACCTTTT
18079696 GTTACCATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.36, G:0.07, T:0.50
Consensus pattern (14 bp):
TCGTTCCACCTTTT
Found at i:18090677 original size:13 final size:13
Alignment explanation
Indices: 18090656--18090694 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18090646 TGTTAAACTT
*
18090656 AAATTAAAAATAA
1 AAATAAAAAATAA
18090669 AAATAAAAAATAA
1 AAATAAAAAATAA
* *
18090682 AATTAACAAATAA
1 AAATAAAAAATAA
18090695 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAAAAATAA
Found at i:18099230 original size:19 final size:19
Alignment explanation
Indices: 18099203--18099244 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
18099193 CATGAGAACG
18099203 ATATAATTAACT-TATTTAA
1 ATATAATTAA-TATATTTAA
* *
18099222 ATATGATTAATATGTTTAA
1 ATATAATTAATATATTTAA
18099241 ATAT
1 ATAT
18099245 TATGTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
ATATAATTAATATATTTAA
Found at i:18114939 original size:3 final size:3
Alignment explanation
Indices: 18114931--18114979 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
18114921 AATCTGATGA
* *
18114931 AGT AGT AGT AGT AGT AGC AGC AGT AGT AGT AGT AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
18114979 A
1 A
18114980 ATAATAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.35, C:0.04, G:0.33, T:0.29
Consensus pattern (3 bp):
AGT
Found at i:18114984 original size:3 final size:3
Alignment explanation
Indices: 18114978--18115010 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18114968 GTAGTAGTAG
18114978 TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
18115011 TCTATGCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:18116080 original size:14 final size:15
Alignment explanation
Indices: 18116058--18116091 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18116048 TTTTCAGTTT
18116058 TTAAAAAT-AAGATA
1 TTAAAAATAAAGATA
*
18116072 TTAATAATAAAGATA
1 TTAAAAATAAAGATA
18116087 TTAAA
1 TTAAA
18116092 CTTTATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TTAAAAATAAAGATA
Found at i:18116340 original size:2 final size:2
Alignment explanation
Indices: 18116333--18116357 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18116323 AAAATTTTCA
18116333 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
18116358 AACACTTTTC
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:18116871 original size:15 final size:15
Alignment explanation
Indices: 18116837--18116888 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
18116827 AATTATTTTA
18116837 AATTTAAACTCTAAT
1 AATTTAAACTCTAAT
*
18116852 CATTTAAA-TCTAAAT
1 AATTTAAACTCT-AAT
18116867 AATTTCAAACT-TAAT
1 AATTT-AAACTCTAAT
*
18116882 AAATTAA
1 AATTTAA
18116889 TTTTCATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 21 0.68
16 4 0.13
17 1 0.03
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTTAAACTCTAAT
Found at i:18117543 original size:25 final size:26
Alignment explanation
Indices: 18117525--18117586 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
18117515 TTTAAAATTA
18117525 TAATTAAATATTAT-ATTTATATAAT
1 TAATTAAATATTATAATTTATATAAT
*
18117550 TAATTATATATTATAATTTAGTTATAAT
1 TAATTAAATATTATAATTTA--TATAAT
18117578 T-ATTAAATA
1 TAATTAAATA
18117587 ATAGATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 13 0.41
26 5 0.16
27 7 0.22
28 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATTAAATATTATAATTTATATAAT
Found at i:18117548 original size:21 final size:20
Alignment explanation
Indices: 18117523--18117561 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18117513 TTTTTAAAAT
18117523 TATAATTAAATATTATATTTA
1 TATAATTAAATA-TATATTTA
*
18117544 TATAATTAATTATATATT
1 TATAATTAAATATATATT
18117562 ATAATTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATAATTAAATATATATTTA
Found at i:18117574 original size:18 final size:19
Alignment explanation
Indices: 18117523--18117604 Score: 60
Period size: 20 Copynumber: 4.1 Consensus size: 19
18117513 TTTTTAAAAT
*
18117523 TATAATTAAATATTATATTTA
1 TATAATTAATTA-TATA-TTA
18117544 TATAATTAATTATATATTA
1 TATAATTAATTATATATTA
* *
18117563 TA-ATTTAGTTATAATTATTA
1 TATAATTAATTAT-A-TATTA
*
18117583 AATAA-TAGATTAATATATTA
1 TATAATTA-ATT-ATATATTA
18117603 TA
1 TA
18117605 ATATAATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
18 8 0.16
19 6 0.12
20 18 0.37
21 15 0.31
22 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TATAATTAATTATATATTA
Found at i:18118286 original size:17 final size:17
Alignment explanation
Indices: 18118264--18118298 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18118254 ACATACAACA
18118264 TTTAAAATTCAAATAAT
1 TTTAAAATTCAAATAAT
*
18118281 TTTAAAATTTAAATAAT
1 TTTAAAATTCAAATAAT
18118298 T
1 T
18118299 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAAATTCAAATAAT
Found at i:18118305 original size:16 final size:17
Alignment explanation
Indices: 18118263--18118305 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
18118253 TACATACAAC
18118263 ATTT-AAAATTCAAATA
1 ATTTAAAAATTCAAATA
* *
18118279 ATTTTAAAATTTAAATA
1 ATTTAAAAATTCAAATA
18118296 A-TTAAAAATT
1 ATTTAAAAATT
18118306 ATTTATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAAATTCAAATA
Found at i:18119495 original size:3 final size:3
Alignment explanation
Indices: 18119487--18119513 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18119477 ATGATATTTG
18119487 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
18119514 TACCGTTACT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18120053 original size:16 final size:15
Alignment explanation
Indices: 18120030--18120059 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18120020 TATTATTTAA
18120030 TAAATATATTAAACT
1 TAAATATATTAAACT
18120045 TAAATTATATTAAAC
1 TAAA-TATATTAAAC
18120060 ATTTAGTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATATATTAAACT
Found at i:18124213 original size:56 final size:55
Alignment explanation
Indices: 18124136--18124257 Score: 122
Period size: 56 Copynumber: 2.2 Consensus size: 55
18124126 AAATTACTTT
* * * * *
18124136 TTTTTTAAATGATAAACTACTA-AATGCCCTTCTTTTCTTAAATGATAAAAATACAC
1 TTTTATAAATGATAAACTACTATAATACCCTT-ATGTCTTAAATGACAAAAATAC-C
* * *
18124192 TTTTATAAAT-ATCAAATTACTATAATATCCTTATGTCTTAAATTACAAAAATACC
1 TTTTATAAATGAT-AAACTACTATAATACCCTTATGTCTTAAATGACAAAAATACC
18124247 TTCTTATAAAT
1 TT-TTATAAAT
18124258 CTATAACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
55 5 0.09
56 43 0.78
57 7 0.13
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (55 bp):
TTTTATAAATGATAAACTACTATAATACCCTTATGTCTTAAATGACAAAAATACC
Found at i:18124471 original size:59 final size:57
Alignment explanation
Indices: 18124366--18124513 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 57
18124356 CCCTCCTATA
*** * * * * * *
18124366 TTAAATGATAAAAATACTTTTTTTAAAAATAATAAATTACTTTAATGCCC-TTTTGTTC
1 TTAAATGATAAAAATACACCTTTTATAAAT-GTAAATCACTATAATGCCCATTAT-ATC
18124424 TTAAAATGATAAAAATACACCTTTTATAAATGTCAAATCACTATAATGCCCATTATATC
1 TT-AAATGATAAAAATACACCTTTTATAAATGT-AAATCACTATAATGCCCATTATATC
* *
18124483 TTAAATGATAAAAATACCCCTCTTATAAATG
1 TTAAATGATAAAAATACACCTTTTATAAATG
18124514 ACGAAATACT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
58 30 0.39
59 43 0.57
60 3 0.04
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (57 bp):
TTAAATGATAAAAATACACCTTTTATAAATGTAAATCACTATAATGCCCATTATATC
Found at i:18124641 original size:36 final size:34
Alignment explanation
Indices: 18124600--18124672 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
18124590 TCTTTCATAT
*
18124600 AATTACAAAAATATCTCTACTATCATGATTGATAAA
1 AATTACAAAAATATCT-TACTATCATAATT-ATAAA
* * *
18124636 AATTACTATAATATCTTTCTATCATAATTATAAA
1 AATTACAAAAATATCTTACTATCATAATTATAAA
18124670 AAT
1 AAT
18124673 GTCCTTAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 8 0.24
35 11 0.33
36 14 0.42
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (34 bp):
AATTACAAAAATATCTTACTATCATAATTATAAA
Found at i:18135542 original size:9 final size:9
Alignment explanation
Indices: 18135510--18135591 Score: 56
Period size: 9 Copynumber: 8.4 Consensus size: 9
18135500 ATTCAAGGAA
*
18135510 AAAAAAAAC
1 AAAAAAAAG
18135519 AAAAAAAAGG
1 AAAAAAAA-G
*
18135529 TAAAAAAAG
1 AAAAAAAAG
18135538 AAAAATGAAAG
1 AAAAA--AAAG
18135549 AAAAAAAAG
1 AAAAAAAAG
*
18135558 AGGAAGAAACAG
1 A--AA-AAAAAG
*
18135570 AAGAAAAAG
1 AAAAAAAAG
* *
18135579 AAAGATAAG
1 AAAAAAAAG
18135588 AAAA
1 AAAA
18135592 GAAATGAATG
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
9 32 0.56
10 8 0.14
11 11 0.19
12 6 0.11
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:18135588 original size:24 final size:23
Alignment explanation
Indices: 18135546--18135594 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
18135536 AGAAAAATGA
18135546 AAGAAAAAAAAGAGGAAGAAACAG
1 AAGAAAAAAAAGAGGAAGAAA-AG
*
18135570 AAGAAAAAGAAAGA-TAAGAAAAG
1 AAGAAAAA-AAAGAGGAAGAAAAG
18135593 AA
1 AA
18135595 ATGAATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (23 bp):
AAGAAAAAAAAGAGGAAGAAAAG
Found at i:18137115 original size:41 final size:41
Alignment explanation
Indices: 18137022--18137220 Score: 184
Period size: 41 Copynumber: 4.8 Consensus size: 41
18137012 GAATCCTTCC
** * * *
18137022 AACTATGAATCATTGCCTCTATTGTGAATCGAGAGTCATTTA
1 AACTATGAATTGTTGCCTCTATTGTGAATCCAAAATC-TTTA
* * * *
18137064 AATTGTGAATTGTTGCATCTGTTGTGAATCCAAAATCTTTA
1 AACTATGAATTGTTGCCTCTATTGTGAATCCAAAATCTTTA
* * * * *
18137105 AACTATGAATTGTTTCCT-TTTCTGTAAATCTAGAATCTTTA
1 AACTATGAATTGTTGCCTCTAT-TGTGAATCCAAAATCTTTA
* * * *
18137146 AACTATTAATTGTTGTCTTTATTGTGAATCCAAAGTCTTTA
1 AACTATGAATTGTTGCCTCTATTGTGAATCCAAAATCTTTA
* * *
18137187 AAATATGAATTGTTGCCTCTGTTGTGAATTCAAA
1 AACTATGAATTGTTGCCTCTATTGTGAATCCAAA
18137221 GTTTTTCAAC
Statistics
Matches: 124, Mismatches: 31, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
40 2 0.02
41 92 0.74
42 30 0.24
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.42
Consensus pattern (41 bp):
AACTATGAATTGTTGCCTCTATTGTGAATCCAAAATCTTTA
Found at i:18137256 original size:20 final size:20
Alignment explanation
Indices: 18137231--18137280 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
18137221 GTTTTTCAAC
18137231 TGTGAATCATTTA-CTTTT-GG
1 TGTGAATC--TTACCTTTTCGG
18137251 TGTGAATCTTAGCCTTTTCGG
1 TGTGAATCTTA-CCTTTTCGG
18137272 TGTGAATCT
1 TGTGAATCT
18137281 CGAACCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.11
20 13 0.48
21 11 0.41
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (20 bp):
TGTGAATCTTACCTTTTCGG
Found at i:18137333 original size:51 final size:52
Alignment explanation
Indices: 18137245--18137349 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 52
18137235 AATCATTTAC
* * * * * *
18137245 TTTTGGTGTGAATCTTAGCCTTTTCGGTGTGAATCTCGAACCTTTTGAAGAA
1 TTTTAGTGTGAATCTCAACCATTTCGATGTGAATCTCGAACCTTTTAAAGAA
*
18137297 TTTTAGTGTGAATCTCAACCATTT-GATGTGAGTCTCGAACCTTTTAAAGAA
1 TTTTAGTGTGAATCTCAACCATTTCGATGTGAATCTCGAACCTTTTAAAGAA
18137348 TT
1 TT
18137350 CTAATGTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 26 0.57
52 20 0.43
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (52 bp):
TTTTAGTGTGAATCTCAACCATTTCGATGTGAATCTCGAACCTTTTAAAGAA
Found at i:18137414 original size:52 final size:52
Alignment explanation
Indices: 18137250--18137465 Score: 177
Period size: 52 Copynumber: 4.2 Consensus size: 52
18137240 TTTACTTTTG
* * * * * * * * *
18137250 GTGTGAATCTTAGCCTTTTCGGTGTGAATCTCGAACCTTTTGAAGAATTTTA
1 GTGTGAACCTTAACCCTTTCAGTATGAATCTCAAACTTTTTAAAGAATTCTA
* * * * * * * *
18137302 GTGTGAATCTCAACCATTTGA-TGTGAGTCTCGAACCTTTTAAAGAATTCTA
1 GTGTGAACCTTAACCCTTTCAGTATGAATCTCAAACTTTTTAAAGAATTCTA
* * * *
18137353 ATGTAAACCTTAGCCCTTTCAGTATGATTCTCAAACTTTTTAAAGAATTC-A
1 GTGTGAACCTTAACCCTTTCAGTATGAATCTCAAACTTTTTAAAGAATTCTA
* * *
18137404 TGTGTGAACCTTAACCCTTTTAGTGTGAATCAT-AAACTTTTTAAAGAATTCTG
1 -GTGTGAACCTTAACCCTTTCAGTATGAATC-TCAAACTTTTTAAAGAATTCTA
18137457 GTGTGAACC
1 GTGTGAACC
18137466 CCAGCCTTTT
Statistics
Matches: 134, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
51 42 0.31
52 91 0.68
53 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (52 bp):
GTGTGAACCTTAACCCTTTCAGTATGAATCTCAAACTTTTTAAAGAATTCTA
Found at i:18137499 original size:51 final size:51
Alignment explanation
Indices: 18137385--18137519 Score: 173
Period size: 51 Copynumber: 2.6 Consensus size: 51
18137375 TATGATTCTC
**
18137385 AAACTTTTTAAAGAATTCAT-GTGTGAACCTTAACCCTTTTAGTGTGAATCAT
1 AAACTTTTTAAAGAATTC-TGGTGTGAACC-CCACCCTTTTAGTGTGAATCAT
* * *
18137437 AAACTTTTTAAAGAATTCTGGTGTGAACCCCAGCCTTTTAGTTTGAATCCT
1 AAACTTTTTAAAGAATTCTGGTGTGAACCCCACCCTTTTAGTGTGAATCAT
* * *
18137488 AAACTTCTTAAAAAATTTTGGTGTGAACCCCA
1 AAACTTTTTAAAGAATTCTGGTGTGAACCCCA
18137520 ACTTTTTTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 47 0.64
52 27 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (51 bp):
AAACTTTTTAAAGAATTCTGGTGTGAACCCCACCCTTTTAGTGTGAATCAT
Found at i:18137611 original size:102 final size:102
Alignment explanation
Indices: 18137468--18137700 Score: 283
Period size: 102 Copynumber: 2.3 Consensus size: 102
18137458 TGTGAACCCC
* * * *
18137468 AGCCTTTTAGTTTGAATCCTAAA-CTTCTTAAAAAATTTTGGTGTGAACCCCAACTTTTTTGGTG
1 AGCCTTTTAGTGTGAATCCTAAACCTT-TTAAAAAATCTTGGTGTGAACCACAACCTTTTTGGTG
*
18137532 TGAACCTCAAACCTTTG-A-AAGATCTTAGTATGAATCCT
65 TGAACCTCAAACCTTTGTAGAAG--CTTAGTATAAATCCT
* * * *
18137570 AGCCTTTCAGTGTGAATCCTAAACCTTTTGAAAGATCTTGGTGTGAACCACGACCTTTTTGGTGT
1 AGCCTTTTAGTGTGAATCCTAAACCTTTTAAAAAATCTTGGTGTGAACCACAACCTTTTTGGTGT
* * *
18137635 GAATCTCAAACCTTTGTAGAAGCTTGGTATAAATCTT
66 GAACCTCAAACCTTTGTAGAAGCTTAGTATAAATCCT
* *
18137672 AGCCTTTTGGTGTGAATCCCAAAACCTTT
1 AGCCTTTTAGTGTGAAT-CCTAAACCTTT
18137701 GAAGAATTTT
Statistics
Matches: 112, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
102 95 0.85
103 14 0.12
104 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (102 bp):
AGCCTTTTAGTGTGAATCCTAAACCTTTTAAAAAATCTTGGTGTGAACCACAACCTTTTTGGTGT
GAACCTCAAACCTTTGTAGAAGCTTAGTATAAATCCT
Found at i:18137627 original size:51 final size:51
Alignment explanation
Indices: 18137419--18137649 Score: 174
Period size: 51 Copynumber: 4.5 Consensus size: 51
18137409 GAACCTTAAC
* * *
18137419 CCTTTTAGTGTGAATCATAAA-CTTTTTAAAGAAT-TCTGGTGTGAACC-CCA
1 CCTTTTAGTGTGAATCCTAAACCTTTTGAAAG-ATCT-TGGTGTGAACCACGA
* * * * * *
18137469 GCCTTTTAGTTTGAATCCTAAA-CTTCTTAAAAAATTTTGGTGTGAACCCCAA
1 -CCTTTTAGTGTGAATCCTAAACCTT-TTGAAAGATCTTGGTGTGAACCACGA
* * * *
18137521 CTTTTTTGGTGTGAA-CCTCAAACC-TTTGAAAGATCTTAGTATGAATCCTA-G-
1 C-CTTTTAGTGTGAATCCT-AAACCTTTTGAAAGATCTTGGTGTGAA-CC-ACGA
*
18137572 CCTTTCAGTGTGAATCCTAAACCTTTTGAAAGATCTTGGTGTGAACCACGA
1 CCTTTTAGTGTGAATCCTAAACCTTTTGAAAGATCTTGGTGTGAACCACGA
*
18137623 CCTTTTTGGTGTGAAT-CTCAAACCTTT
1 CC-TTTTAGTGTGAATCCT-AAACCTTT
18137650 GTAGAAGCTT
Statistics
Matches: 144, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
49 1 0.01
50 18 0.12
51 81 0.56
52 43 0.30
53 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.36
Consensus pattern (51 bp):
CCTTTTAGTGTGAATCCTAAACCTTTTGAAAGATCTTGGTGTGAACCACGA
Found at i:18137697 original size:51 final size:50
Alignment explanation
Indices: 18137524--18137740 Score: 174
Period size: 51 Copynumber: 4.3 Consensus size: 50
18137514 ACCCCAACTT
* *
18137524 TTTTGGTGTGAA-CCTCAAACCTTTGAA-AGATCTTAGTATGAATCCTAGCC
1 TTTTGGTGTGAATCC-CAAACCTTTGAAGA-AGCTTAGTATAAATCCTAGCC
** * * * * *
18137574 TTTCAGTGTGAATCCTAAACCTTTTGAA-AGATCTTGGTGTGAA-CC-ACGACC
1 TTTTGGTGTGAATCCCAAACC-TTTGAAGA-AGCTTAGTATAAATCCTA-G-CC
* * * *
18137625 TTTTTGGTGTGAATCTCAAACCTTTGTAGAAGCTTGGTATAAATCTTAGCC
1 -TTTTGGTGTGAATCCCAAACCTTTGAAGAAGCTTAGTATAAATCCTAGCC
**
18137676 TTTTGGTGTGAATCCCAAAACCTTTGAAGAATTTTAGTATAAATCCTAGCC
1 TTTTGGTGTGAATCCC-AAACCTTTGAAGAAGCTTAGTATAAATCCTAGCC
* *
18137727 TTTCGATGTGAATC
1 TTTTGGTGTGAATC
18137741 TTGAAACCTT
Statistics
Matches: 136, Mismatches: 22, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
49 1 0.01
50 33 0.24
51 81 0.60
52 20 0.15
53 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (50 bp):
TTTTGGTGTGAATCCCAAACCTTTGAAGAAGCTTAGTATAAATCCTAGCC
Found at i:18137748 original size:51 final size:50
Alignment explanation
Indices: 18137530--18137796 Score: 161
Period size: 51 Copynumber: 5.3 Consensus size: 50
18137520 ACTTTTTTGG
* * *
18137530 TGTGAACCTCAAACCTTTGAA-AGATCTTAGTATGAATCCTAGCCTTTC-A
1 TGTGAATCTAAAACCTTTGAAGA-ATCTTAGTATAAATCCTAGCCTTTCGA
* * * * *
18137579 GTGTGAATCCT-AAACCTTTTGAA-AGATCTTGGTGTGAA-CC-ACGACCTTTTTGG
1 -TGTGAAT-CTAAAACC-TTTGAAGA-ATCTTAGTATAAATCCTA-G-CC-TTTCGA
* * * * * * *
18137632 TGTGAATCTCAAACCTTTGTAGAAGCTTGGTATAAATCTTAGCCTTTTGG
1 TGTGAATCTAAAACCTTTGAAGAATCTTAGTATAAATCCTAGCCTTTCGA
* *
18137682 TGTGAATCCCAAAACCTTTGAAGAATTTTAGTATAAATCCTAGCCTTTCGA
1 TGTGAAT-CTAAAACCTTTGAAGAATCTTAGTATAAATCCTAGCCTTTCGA
* * * * * * * *
18137733 TGTGAATCTTGAAACCTTTAAAGAATCATGGTATGAGTCATA-CCTTTCGT
1 TGTGAATC-TAAAACCTTTGAAGAATCTTAGTATAAATCCTAGCCTTTCGA
*
18137783 TGTGAATCTCAAAC
1 TGTGAATCTAAAAC
18137797 TTTTTGAAAA
Statistics
Matches: 175, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
49 6 0.03
50 43 0.25
51 107 0.61
52 18 0.10
53 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (50 bp):
TGTGAATCTAAAACCTTTGAAGAATCTTAGTATAAATCCTAGCCTTTCGA
Found at i:18138511 original size:116 final size:116
Alignment explanation
Indices: 18138307--18138579 Score: 474
Period size: 116 Copynumber: 2.4 Consensus size: 116
18138297 AAAGTTTGTT
18138307 GCACCATCTCAAAGTCCTCTGGGCATAACTTCAAAGATTTCCAATACCTCCGAGCAAAATCTTAA
1 GCACCATCTCAAAGTCCTCTGGGCATAACTTCAAAGATTTCCAATACCTCCGAGCAAAATCTTAA
*
18138372 ATTTTTGAAAGATTTTCGAAGTCTTTTGGGCACAATTTCAAAATCATATGG
66 ATTTTTGAAAGATTTTCGAAGTCTTTCGGGCACAATTTCAAAATCATATGG
* *
18138423 GCACCATCTCAAAGTCCTCTGGGCATAACTTCCAAGATTTCCAATACCTCCGGGCAAAATCTTAA
1 GCACCATCTCAAAGTCCTCTGGGCATAACTTCAAAGATTTCCAATACCTCCGAGCAAAATCTTAA
18138488 ATTTTTGAAAGATTTTCGAAGTCTTTCGGGCACAATTTCAAAATCATATGG
66 ATTTTTGAAAGATTTTCGAAGTCTTTCGGGCACAATTTCAAAATCATATGG
* * * * *
18138539 GCACAATCTCAAAGTACTCTAGGCAAAATTTCAAAGATTTC
1 GCACCATCTCAAAGTCCTCTGGGCATAACTTCAAAGATTTC
18138580 TAAAGTCCTC
Statistics
Matches: 148, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 148 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (116 bp):
GCACCATCTCAAAGTCCTCTGGGCATAACTTCAAAGATTTCCAATACCTCCGAGCAAAATCTTAA
ATTTTTGAAAGATTTTCGAAGTCTTTCGGGCACAATTTCAAAATCATATGG
Found at i:18138628 original size:22 final size:22
Alignment explanation
Indices: 18138581--18138671 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
18138571 AAAGATTTCT
* ** *
18138581 AAAGTCCTCCAGGCACATTCTT
1 AAAGTCTTCCAGGCACAACCTC
*
18138603 AAAGTCTTCCGGGCACAACCTC
1 AAAGTCTTCCAGGCACAACCTC
* * **
18138625 AAAGTTTTCTAGGCACAATTTC
1 AAAGTCTTCCAGGCACAACCTC
* *
18138647 AAAGTCCTT-TAGGCACAATCTC
1 AAAGT-CTTCCAGGCACAACCTC
18138669 AAA
1 AAA
18138672 ATCCTTTGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 54 0.96
23 2 0.04
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (22 bp):
AAAGTCTTCCAGGCACAACCTC
Found at i:18138676 original size:22 final size:22
Alignment explanation
Indices: 18138634--18138737 Score: 102
Period size: 22 Copynumber: 4.7 Consensus size: 22
18138624 CAAAGTTTTC
*
18138634 TAGGCACAATTTCAAAGTCCTT
1 TAGGCACAATTTCAAAATCCTT
*
18138656 TAGGCACAATCTCAAAATCCTT
1 TAGGCACAATTTCAAAATCCTT
* * * *
18138678 T-GAACATAATTTCAAAAGCCTC
1 TAG-GCACAATTTCAAAATCCTT
* * *
18138700 TAGGTACAATCTCAAAGTCCTT
1 TAGGCACAATTTCAAAATCCTT
*
18138722 TAGGCATAATTTCAAA
1 TAGGCACAATTTCAAA
18138738 TATTTTCAAA
Statistics
Matches: 63, Mismatches: 17, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
21 1 0.02
22 61 0.97
23 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (22 bp):
TAGGCACAATTTCAAAATCCTT
Found at i:18138689 original size:44 final size:43
Alignment explanation
Indices: 18138641--18138737 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 43
18138631 TTCTAGGCAC
*
18138641 AATTTCAAAGTCCTTTAGGCACAATCTCAAAATCCTTT-GAACAT
1 AATTTCAAAG-CCTCTAGGCACAATCTCAAAATCCTTTAG-ACAT
* * *
18138685 AATTTCAAAAGCCTCTAGGTACAATCTCAAAGTCCTTTAGGCAT
1 AATTTC-AAAGCCTCTAGGCACAATCTCAAAATCCTTTAGACAT
18138729 AATTTCAAA
1 AATTTCAAA
18138738 TATTTTCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.06
44 39 0.83
45 5 0.11
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.31
Consensus pattern (43 bp):
AATTTCAAAGCCTCTAGGCACAATCTCAAAATCCTTTAGACAT
Found at i:18141201 original size:26 final size:27
Alignment explanation
Indices: 18141152--18141207 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
18141142 TATTTTTGTG
18141152 AAACCCCAAATCTAAACCCCAAACCCC
1 AAACCCCAAATCTAAACCCCAAACCCC
* * *
18141179 AAACCCCACATC-AAACCCTAAACTCC
1 AAACCCCAAATCTAAACCCCAAACCCC
18141205 AAA
1 AAA
18141208 TCCGAACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.46, C:0.45, G:0.00, T:0.09
Consensus pattern (27 bp):
AAACCCCAAATCTAAACCCCAAACCCC
Found at i:18141253 original size:13 final size:13
Alignment explanation
Indices: 18141219--18141318 Score: 62
Period size: 13 Copynumber: 7.6 Consensus size: 13
18141209 CCGAACCCTA
*
18141219 AACCCTAAACTTT
1 AACCCTAAACCTT
* *
18141232 AGCCTTAAACCTT
1 AACCCTAAACCTT
18141245 AACCCTAAAACC-T
1 AACCCT-AAACCTT
* *
18141258 AATCTCAAAACC-T
1 AA-CCCTAAACCTT
*
18141271 AACCCTAAAACTT
1 AACCCTAAACCTT
* *
18141284 AA-CCTTAGCCTT
1 AACCCTAAACCTT
*
18141296 AAACCCTAAAACCCT
1 -AACCCT-AAACCTT
18141311 AACCCTAA
1 AACCCTAA
18141319 CCTAGACCAA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
12 13 0.20
13 32 0.49
14 16 0.25
15 4 0.06
ACGTcount: A:0.41, C:0.34, G:0.02, T:0.23
Consensus pattern (13 bp):
AACCCTAAACCTT
Found at i:18141492 original size:13 final size:13
Alignment explanation
Indices: 18141474--18141499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18141464 CATCTCATGC
18141474 ATTATTTTTTAAA
1 ATTATTTTTTAAA
18141487 ATTATTTTTTAAA
1 ATTATTTTTTAAA
18141500 GTAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATTTTTTAAA
Found at i:18142402 original size:16 final size:16
Alignment explanation
Indices: 18142365--18142403 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18142355 GTGAAAATTT
*
18142365 TGAAAAATTAAAAAAT
1 TGAAAAATTAAAAAAA
*
18142381 TAAAAAATTAAAAAAA
1 TGAAAAATTAAAAAAA
18142397 TGAAAAA
1 TGAAAAA
18142404 AAAATTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
TGAAAAATTAAAAAAA
Found at i:18142404 original size:8 final size:8
Alignment explanation
Indices: 18142367--18142395 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
18142357 GAAAATTTTG
18142367 AAAAATTA
1 AAAAATTA
18142375 AAAAATTA
1 AAAAATTA
18142383 AAAAATTA
1 AAAAATTA
18142391 AAAAA
1 AAAAA
18142396 ATGAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAAATTA
Found at i:18142463 original size:17 final size:17
Alignment explanation
Indices: 18142435--18142481 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
18142425 GTTTTCCCAC
18142435 AAAAAATG-AAAAAGGG
1 AAAAAATGAAAAAAGGG
*
18142451 AAAAAATGAAAAAAGTG
1 AAAAAATGAAAAAAGGG
*
18142468 AAAAAAAGAAAAAA
1 AAAAAATGAAAAAA
18142482 AAATATTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
16 8 0.29
17 20 0.71
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (17 bp):
AAAAAATGAAAAAAGGG
Found at i:18142482 original size:8 final size:8
Alignment explanation
Indices: 18142435--18142481 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
18142425 GTTTTCCCAC
18142435 AAAAAATG
1 AAAAAATG
**
18142443 AAAAAGGG
1 AAAAAATG
18142451 AAAAAATG
1 AAAAAATG
18142459 AAAAAAGTG
1 AAAAAA-TG
*
18142468 AAAAAAAG
1 AAAAAATG
18142476 AAAAAA
1 AAAAAA
18142482 AAATATTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
8 25 0.76
9 8 0.24
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (8 bp):
AAAAAATG
Found at i:18142555 original size:25 final size:25
Alignment explanation
Indices: 18142517--18142621 Score: 131
Period size: 25 Copynumber: 4.2 Consensus size: 25
18142507 GTGTGTTTTA
* * *
18142517 CATTTCATGGATATTTTAATCATGT
1 CATTTCATGCATATTTAAATTATGT
*
18142542 CATTTCATGCATATTGTAAA-TATTT
1 CATTTCATGCATATT-TAAATTATGT
*
18142567 CATTTCATGCATATTTTAATTATGT
1 CATTTCATGCATATTTAAATTATGT
* *
18142592 CATTTTATGCATAGTTAAATTATGT
1 CATTTCATGCATATTTAAATTATGT
18142617 CATTT
1 CATTT
18142622 ATTTTATATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 3 0.04
25 63 0.91
26 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.50
Consensus pattern (25 bp):
CATTTCATGCATATTTAAATTATGT
Found at i:18142631 original size:50 final size:50
Alignment explanation
Indices: 18142517--18142621 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
18142507 GTGTGTTTTA
* * *
18142517 CATTTCATGGATATTTTAATCATGTCATTTCATGCATATTGTAAATATTT
1 CATTTCATGCATATTTTAATCATGTCATTTCATGCATAGTGTAAATATGT
* *
18142567 CATTTCATGCATATTTTAATTATGTCATTTTATGCATAGT-TAAATTATGT
1 CATTTCATGCATATTTTAATCATGTCATTTCATGCATAGTGTAAA-TATGT
18142617 CATTT
1 CATTT
18142622 ATTTTATATT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 4 0.08
50 45 0.92
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.50
Consensus pattern (50 bp):
CATTTCATGCATATTTTAATCATGTCATTTCATGCATAGTGTAAATATGT
Found at i:18143700 original size:35 final size:34
Alignment explanation
Indices: 18143629--18143764 Score: 119
Period size: 35 Copynumber: 3.9 Consensus size: 34
18143619 CATGCACATT
* * *
18143629 ATAATAGGATAATACATGCATTCTAGCTCATCCAC
1 ATAATA-GATAGTACATGCATTCCATCTCATCCAC
* * *
18143664 ATCAATAGATAGTATATGCATTCCATTTCATTCAC
1 AT-AATAGATAGTACATGCATTCCATCTCATCCAC
* * * *
18143699 ATATTTAGATGGTACATACATTCCATCCCATCCAC
1 ATA-ATAGATAGTACATGCATTCCATCTCATCCAC
* * *
18143734 ATTAATAGATAGCACATGCATTTCGTCTCAT
1 A-TAATAGATAGTACATGCATTCCATCTCAT
18143765 TGTATATCTT
Statistics
Matches: 78, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
34 1 0.01
35 71 0.91
36 6 0.08
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (34 bp):
ATAATAGATAGTACATGCATTCCATCTCATCCAC
Found at i:18152916 original size:19 final size:18
Alignment explanation
Indices: 18152894--18152932 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 18
18152884 TACTATGCTT
18152894 AAAAAAATGAAAAAATGAA
1 AAAAAAATG-AAAAATGAA
18152913 AAAAAAATGAAAAATGAA
1 AAAAAAATGAAAAATGAA
18152931 AA
1 AA
18152933 TCGAAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAAATGAAAAATGAA
Found at i:18154087 original size:45 final size:44
Alignment explanation
Indices: 18153995--18154166 Score: 184
Period size: 45 Copynumber: 3.9 Consensus size: 44
18153985 TTGTTAACAA
* * *
18153995 GAGCATCTATTTAGAAGAGCTTTATTTATTTTTCAAAAGTCATT
1 GAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAAGTCAGT
* * * *
18154039 GAGCCTCTATTTAGAGGAGTTTTTTTTTTTTTTTCAAAAGTCGGT
1 GAGCCTCTATTTAGAGGAG-CTTTATTTATTTTTCAAAAGTCAGT
* * * * * *
18154084 GAGCCTCTGTTTAGAGGAGCCTTCTATATTTTTTAAAAGTTA-T
1 GAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAAGTCAGT
** *
18154127 GAAACTCTATTTAGAGGAACTTTATTTATTTTTCAAAAGT
1 GAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAAGT
18154167 TATAAATCCT
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
43 33 0.32
44 32 0.31
45 38 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (44 bp):
GAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAAGTCAGT
Found at i:18155251 original size:13 final size:13
Alignment explanation
Indices: 18155233--18155270 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
18155223 TTTTGGTATT
18155233 TTTATTT-TATTTA
1 TTTATTTAT-TTTA
*
18155246 TTTATTTATTTTG
1 TTTATTTATTTTA
18155259 TTTATTTATTTT
1 TTTATTTATTTT
18155271 TAAAATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:18155255 original size:17 final size:17
Alignment explanation
Indices: 18155233--18155269 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
18155223 TTTTGGTATT
18155233 TTTATTTTATTTATTTA
1 TTTATTTTATTTATTTA
*
18155250 TTTATTTTGTTTATTTA
1 TTTATTTTATTTATTTA
18155267 TTT
1 TTT
18155270 TTAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTATTTTATTTATTTA
Found at i:18156805 original size:31 final size:31
Alignment explanation
Indices: 18156771--18156828 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
18156761 TGGTACAAAA
18156771 AAAAATT-AGCTCAAATTAGTTAACATTAAG
1 AAAAATTAAGCTCAAATTAGTTAACATTAAG
18156801 AAAAATTAAGCTCAAATTAGTTAACATT
1 AAAAATTAAGCTCAAATTAGTTAACATT
18156829 GAGGATAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.50, C:0.10, G:0.09, T:0.31
Consensus pattern (31 bp):
AAAAATTAAGCTCAAATTAGTTAACATTAAG
Found at i:18157626 original size:16 final size:16
Alignment explanation
Indices: 18157600--18157645 Score: 74
Period size: 16 Copynumber: 2.8 Consensus size: 16
18157590 GGGGACATAT
*
18157600 AAAGAAAAAAAAAACAA
1 AAAGAAAAAAAATA-AA
18157617 AAAGAAAAAAAATAAA
1 AAAGAAAAAAAATAAA
18157633 AAAGAAAAAAAAT
1 AAAGAAAAAAAAT
18157646 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.87, C:0.02, G:0.07, T:0.04
Consensus pattern (16 bp):
AAAGAAAAAAAATAAA
Found at i:18158111 original size:25 final size:26
Alignment explanation
Indices: 18158049--18158120 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 26
18158039 TCACTCAAGG
*
18158049 AAAA-AAGAAAACAAAAAGAATGTGAGA
1 AAAAGAAGAAAA-AAAAAGAA-GAGAGA
18158076 AAAAGAGAGAAAAAAAAAGAA-AGAGA
1 AAAAGA-AGAAAAAAAAAGAAGAGAGA
* *
18158102 AATAGAAGAAAAAGAAAGA
1 AAAAGAAGAAAAAAAAAGA
18158121 TAAAAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 12 0.30
26 9 0.22
27 4 0.10
28 9 0.22
29 6 0.15
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.04
Consensus pattern (26 bp):
AAAAGAAGAAAAAAAAAGAAGAGAGA
Found at i:18159666 original size:42 final size:41
Alignment explanation
Indices: 18159599--18159789 Score: 151
Period size: 41 Copynumber: 4.6 Consensus size: 41
18159589 TCTTTCCAAC
* * *
18159599 TATGAATTGTTGCCTTTGTTGTGAATCCAAAGTCCTTCAAAT
1 TATGAATTGTTGTCTCTGTTATGAATCCAAAGT-CTTCAAAT
*
18159641 TATGAATTGTTGTCTCTGTTATGAATCCAAAATCTTCAAAT
1 TATGAATTGTTGTCTCTGTTATGAATCCAAAGTCTTCAAAT
* * *
18159682 TATGAATCGTT-TC-CT-TTATTGTAAATCTAGAA-TCTTTC-AAC
1 TATGAATTGTTGTCTCTGTTA-TG--AATCCA-AAGTC-TTCAAAT
* * * * *
18159723 TATGAATCGTTGTCTCTATTGTGAATTCAAAGTCTTTAAACT
1 TATGAATTGTTGTCTCTGTTATGAATCCAAAGTCTTCAAA-T
**
18159765 T-TGAATTGTTACCTCTGTTATGAAT
1 TATGAATTGTTGTCTCTGTTATGAAT
18159790 TTAGAGTCTT
Statistics
Matches: 121, Mismatches: 17, Indels: 23
0.75 0.11 0.14
Matches are distributed among these distances:
38 3 0.02
39 4 0.03
40 6 0.05
41 65 0.54
42 37 0.31
43 4 0.03
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (41 bp):
TATGAATTGTTGTCTCTGTTATGAATCCAAAGTCTTCAAAT
Found at i:18159800 original size:82 final size:83
Alignment explanation
Indices: 18159586--18159800 Score: 209
Period size: 82 Copynumber: 2.6 Consensus size: 83
18159576 TAATGCTTGC
* * * * * * * *
18159586 AAATCTTTCCAACTATGAATTGTTGCCTTTGTTGTGAATCCAAAGTCCTTCAAATTATGAATTGT
1 AAATC-TTCAAACTTTGAATTGTTACCTTTGTTGTGAATCTAGAGTCTTTCAAACTATGAATCGT
*
18159651 TGTCTCTGTTATGAATCCA
65 TGTCTCTATTATGAATCCA
* * * * *
18159670 AAATCTTCAAA-TTATGAATCGTTTCCTTTATTGTAAATCTAGAATCTTTC-AACTATGAATCGT
1 AAATCTTCAAACTT-TGAATTGTTACCTTTGTTGTGAATCTAGAGTCTTTCAAACTATGAATCGT
* *
18159733 TGTCTCTATTGTGAATTCA
65 TGTCTCTATTATGAATCCA
* * * * *
18159752 AAGTCTTTAAACTTTGAATTGTTACCTCTGTTATGAATTTAGAGTCTTT
1 AAATCTTCAAACTTTGAATTGTTACCTTTGTTGTGAATCTAGAGTCTTT
18159801 TAATTGTGAA
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
82 64 0.62
83 35 0.34
84 5 0.05
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (83 bp):
AAATCTTCAAACTTTGAATTGTTACCTTTGTTGTGAATCTAGAGTCTTTCAAACTATGAATCGTT
GTCTCTATTATGAATCCA
Found at i:18159981 original size:51 final size:51
Alignment explanation
Indices: 18159854--18159981 Score: 125
Period size: 51 Copynumber: 2.5 Consensus size: 51
18159844 AAAAAATCTT
* * * *
18159854 AGTGTGAATTCTGAACCTTTTG-AAGAATTTTGGTGTGAATCACAGCCTTTC
1 AGTGTGAATCCCGAACC-TTTGAAAAAATTTTGGTGTGAATCACAACCTTTC
* * * * * * *
18159905 GGTGTGAATCTCAAATCTTTTAAAAAATTTTGGTGTGAA-CCCAACTTTTTC
1 AGTGTGAATCCCGAACCTTTGAAAAAATTTTGGTGTGAATCACAAC-CTTTC
18159956 AGTGTGAATCCCGAACCTTTGAAAAA
1 AGTGTGAATCCCGAACCTTTGAAAAA
18159982 TTCTATTATG
Statistics
Matches: 59, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
50 7 0.12
51 52 0.88
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (51 bp):
AGTGTGAATCCCGAACCTTTGAAAAAATTTTGGTGTGAATCACAACCTTTC
Found at i:18160124 original size:51 final size:51
Alignment explanation
Indices: 18160064--18160196 Score: 162
Period size: 51 Copynumber: 2.6 Consensus size: 51
18160054 TTCAATGTGA
* * *
18160064 AATCTTGGTATAAATCCTAGCCTTTTGGTGTGAATTTTGAAA-TCTTTAAAC
1 AATCTTGGTATAAATCCTAGCCTTTCGGTGTGAATCTTAAAACT-TTTAAAC
* * *
18160115 AATCTTGGTATAAATCCCAACCTTTCGGTGTGAATCTTAAAACTTTTAAAG
1 AATCTTGGTATAAATCCTAGCCTTTCGGTGTGAATCTTAAAACTTTTAAAC
* *
18160166 AATCTTAGTATAAA-CCATAGCCTTTCAGTGT
1 AATCTTGGTATAAATCC-TAGCCTTTCGGTGT
18160197 AAACCCTAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 2 0.03
51 67 0.96
52 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (51 bp):
AATCTTGGTATAAATCCTAGCCTTTCGGTGTGAATCTTAAAACTTTTAAAC
Found at i:18160207 original size:51 final size:50
Alignment explanation
Indices: 18160107--18160220 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 50
18160097 ATTTTGAAAT
* * * * * *
18160107 CTTTAAACAATCTTGGTATAAATCCCAACCTTTCGGTGTGAATCTTAAAAC
1 CTTTAAAGAATCTTAGTATAAA-CCCAACCTTTCAGTGTAAACCCTAAAAC
*
18160158 TTTTAAAGAATCTTAGTATAAA-CCATAGCCTTTCAGTGTAAACCCTAAAAC
1 CTTTAAAGAATCTTAGTATAAACCCA-A-CCTTTCAGTGTAAACCCTAAAAC
*
18160209 CTTTGAAGAATC
1 CTTTAAAGAATC
18160221 CCGGTATGGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
49 3 0.06
50 1 0.02
51 48 0.92
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.32
Consensus pattern (50 bp):
CTTTAAAGAATCTTAGTATAAACCCAACCTTTCAGTGTAAACCCTAAAAC
Found at i:18160875 original size:31 final size:31
Alignment explanation
Indices: 18160831--18160905 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
18160821 ACACAATATC
*
18160831 AAAG-TCTTCCAAGCATAATTTTCAAGATTTTT-
1 AAAGATCTT-CAAGCAAAATTTT-AA-ATTTTTG
18160863 AAA-ATCTTCAAGCAAAATTTTAAATTTTTG
1 AAAGATCTTCAAGCAAAATTTTAAATTTTTG
*
18160893 AAAGATTTTCAAG
1 AAAGATCTTCAAG
18160906 ACTTCTGGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 6 0.16
30 5 0.13
31 20 0.53
32 7 0.18
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (31 bp):
AAAGATCTTCAAGCAAAATTTTAAATTTTTG
Found at i:18160900 original size:40 final size:41
Alignment explanation
Indices: 18160854--18160950 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
18160844 CATAATTTTC
* * *
18160854 AAGATTTTTAAAATCTTC-AAGCAAAATTTTAAATTTTTGA
1 AAGATTTTCAAAATCTTCTAAGCAAAATATTAAATTTTTAA
* **
18160894 AAGATTTTCAAGA-CTTCTGGGCAAAATATTAAATTTTTAA
1 AAGATTTTCAAAATCTTCTAAGCAAAATATTAAATTTTTAA
*
18160934 AAGATTTTCATAATCTT
1 AAGATTTTCAAAATCTT
18160951 TCAGGCACAA
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.09
40 40 0.85
41 3 0.06
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (41 bp):
AAGATTTTCAAAATCTTCTAAGCAAAATATTAAATTTTTAA
Found at i:18161025 original size:22 final size:21
Alignment explanation
Indices: 18160991--18161056 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
18160981 AATCTCAAAT
18160991 ATTTTCAAAGTCCTTCGGGCAC
1 ATTTT-AAAGTCCTTCGGGCAC
*
18161013 ATTCTTAAAGTCC-TCTGGGCATA
1 ATT-TTAAAGTCCTTC-GGGCA-C
*
18161036 ATTTTAAA-TCCTTCAGGCAC
1 ATTTTAAAGTCCTTCGGGCAC
18161056 A
1 A
18161057 ACCTTCCGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
20 1 0.03
21 9 0.24
22 22 0.59
23 5 0.14
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (21 bp):
ATTTTAAAGTCCTTCGGGCAC
Found at i:18161200 original size:54 final size:54
Alignment explanation
Indices: 18161072--18161211 Score: 140
Period size: 54 Copynumber: 2.6 Consensus size: 54
18161062 CCGGGTAAAA
* * * * *
18161072 TTTCAAAATCCTTCAAGTATAATCTCAAAATTCTTCGAAAACAATTTTAAAGAT
1 TTTCAAAATCTTTCAAGCACAATCTCAAAGTCCTTCGAAAACAATTTTAAAGAT
* * * * *
18161126 TTCCAAAGT-TCTTCAGGCACAATCTCAAAGTCCTTTGAATACAATTTTAAA-ATT
1 TTTCAAAATCT-TTCAAGCACAATCTCAAAGTCCTTCGAAAACAATTTTAAAGA-T
* *
18161180 TTTCAAAATCTTTTAAGCACATTCTCAAAGTC
1 TTTCAAAATCTTTCAAGCACAATCTCAAAGTC
18161212 TTTCAAGCAT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 66 0.97
55 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (54 bp):
TTTCAAAATCTTTCAAGCACAATCTCAAAGTCCTTCGAAAACAATTTTAAAGAT
Found at i:18163695 original size:7 final size:7
Alignment explanation
Indices: 18163683--18163763 Score: 66
Period size: 7 Copynumber: 12.4 Consensus size: 7
18163673 CCCCACACCT
18163683 TAAACCC
1 TAAACCC
18163690 TAAACCC
1 TAAACCC
*
18163697 T-AACCT
1 TAAACCC
18163703 TAAACCC
1 TAAACCC
*
18163710 TAAAACC
1 TAAACCC
*
18163717 -AAATCC
1 TAAACCC
18163723 TAAACCC
1 TAAACCC
18163730 T-AA-CC
1 TAAACCC
*
18163735 AAAACCC
1 TAAACCC
*
18163742 TAAAACC
1 TAAACCC
*
18163749 -AAA-TC
1 TAAACCC
18163754 TAAACCC
1 TAAACCC
18163761 TAA
1 TAA
18163764 CCTTAAAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 3 0.05
6 20 0.34
7 35 0.60
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:18163702 original size:20 final size:20
Alignment explanation
Indices: 18163679--18163732 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
18163669 CATACCCCAC
* *
18163679 ACCTTAAACCCTAAACCCTA
1 ACCTTAAACCCTAAAACCAA
18163699 ACCTTAAACCCTAAAACCAA
1 ACCTTAAACCCTAAAACCAA
18163719 ATCC-TAAACCCTAA
1 A-CCTTAAACCCTAA
18163733 CCAAAACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (20 bp):
ACCTTAAACCCTAAAACCAA
Found at i:18163706 original size:13 final size:13
Alignment explanation
Indices: 18163685--18163770 Score: 52
Period size: 13 Copynumber: 6.7 Consensus size: 13
18163675 CCACACCTTA
18163685 AACCCTAAACCCT
1 AACCCTAAACCCT
*
18163698 AACCTTAAACCCT
1 AACCCTAAACCCT
* *
18163711 AAAACC-AAATCCT
1 -AACCCTAAACCCT
**
18163724 AAACCCT-AACCAA
1 -AACCCTAAACCCT
*
18163737 AACCCTAAAACC-
1 AACCCTAAACCCT
**
18163749 AAATCTAAACCCT
1 AACCCTAAACCCT
*
18163762 AACCTTAAA
1 AACCCTAAA
18163771 ACATAACTTT
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
12 15 0.28
13 35 0.66
14 3 0.06
ACGTcount: A:0.48, C:0.36, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:18167863 original size:20 final size:19
Alignment explanation
Indices: 18167839--18167877 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18167829 ATTTTTCTCT
18167839 GTTTTTCCTTTTTTTTTTC
1 GTTTTTCCTTTTTTTTTTC
* *
18167858 TTTTTTCTTTTTATTTTTTC
1 GTTTTTCCTTTT-TTTTTTC
18167878 AAAGTACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.82
Consensus pattern (19 bp):
GTTTTTCCTTTTTTTTTTC
Found at i:18168460 original size:27 final size:27
Alignment explanation
Indices: 18168426--18168479 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18168416 CGGATAATCA
18168426 TTGAATTTTGATATTTTAATAAATAAT
1 TTGAATTTTGATATTTTAATAAATAAT
18168453 TTGAATTTTGATATTTTAATAAATAAT
1 TTGAATTTTGATATTTTAATAAATAAT
18168480 AAGATTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (27 bp):
TTGAATTTTGATATTTTAATAAATAAT
Found at i:18169319 original size:14 final size:14
Alignment explanation
Indices: 18169300--18169329 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18169290 AAAATAAAAT
18169300 AATCAATCAAGTAA
1 AATCAATCAAGTAA
*
18169314 AATCAATCAATTAA
1 AATCAATCAAGTAA
18169328 AA
1 AA
18169330 AAATTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.23
Consensus pattern (14 bp):
AATCAATCAAGTAA
Found at i:18170606 original size:12 final size:11
Alignment explanation
Indices: 18170581--18170618 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
18170571 GTAAGTTTCC
18170581 TTTT-TTTTATT
1 TTTTATTTTA-T
18170592 TTTTATTTTGAT
1 TTTTATTTT-AT
18170604 TTTTATTTTAT
1 TTTTATTTTAT
18170615 TTTT
1 TTTT
18170619 GTTGCTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.40
12 14 0.56
13 1 0.04
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:18171051 original size:16 final size:18
Alignment explanation
Indices: 18171012--18171052 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
18171002 ATTGGGATAA
18171012 TTAAA-AAATTATTTATG
1 TTAAATAAATTATTTATG
*
18171029 CTAAATAAATT-TTTAT-
1 TTAAATAAATTATTTATG
18171045 TTAAATAA
1 TTAAATAA
18171053 TAAAAATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAATAAATTATTTATG
Found at i:18175828 original size:40 final size:38
Alignment explanation
Indices: 18175798--18175983 Score: 158
Period size: 40 Copynumber: 4.7 Consensus size: 38
18175788 CATTCACATT
**
18175798 ATGATAAAGACATTCGCATTTGCATCATTGCATATGTGTC
1 ATGATAAAGACATTCGCATTTGCATCATTGC--ATGCATC
** ** *
18175838 ACAATAAAGACATTCATATTTGCATCATTACATGCATC
1 ATGATAAAGACATTCGCATTTGCATCATTGCATGCATC
* *
18175876 ATGA-AAAGGACATTCGCATTTACATCATTGCATATGTATC
1 ATGATAAA-GACATTCGCATTTGCATCATTGC--ATGCATC
** * **
18175916 ACAATAAAGACATTCACATTTGTGTCATTGCATCTGCATC
1 ATGATAAAGACATTCGCATTTGCATCATTGCA--TGCATC
* *
18175956 ATGAGAAGGACATTCGCATTTGCATCAT
1 ATGATAAAGACATTCGCATTTGCATCAT
18175984 GAAAAACATT
Statistics
Matches: 112, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
37 3 0.03
38 27 0.24
40 79 0.71
41 3 0.03
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (38 bp):
ATGATAAAGACATTCGCATTTGCATCATTGCATGCATC
Found at i:18175908 original size:78 final size:75
Alignment explanation
Indices: 18175736--18175983 Score: 270
Period size: 78 Copynumber: 3.2 Consensus size: 75
18175726 AGCCAAAAAG
** * * * *
18175736 TTCGCATTTATGTCATTGCATATGTATTACAATAAAGGCATTCGTATAATTG-CATTCA--CATT
1 TTCGCATTTACATCATTGCATATGTATCACAATAAAGACATTC--ATATTTGTCATTCATGCATC
18175798 ATGATAAA-GACA
64 ATGA-AAAGGACA
* *
18175810 TTCGCATTTGCATCATTGCATATGTGTCACAATAAAGACATTCATATTTGCATCATTACATGCAT
1 TTCGCATTTACATCATTGCATATGTATCACAATAAAGACATTCATATTTG--TCATT-CATGCAT
18175875 CATGAAAAGGACA
63 CATGAAAAGGACA
*
18175888 TTCGCATTTACATCATTGCATATGTATCACAATAAAGACATTCACATTTGTGTCATTGCATCTGC
1 TTCGCATTTACATCATTGCATATGTATCACAATAAAGACATTCATA-TT-TGTCATT-CA--TGC
*
18175953 ATCATGAGAAGGACA
61 ATCATGAAAAGGACA
*
18175968 TTCGCATTTGCATCAT
1 TTCGCATTTACATCAT
18175984 GAAAAACATT
Statistics
Matches: 149, Mismatches: 14, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
72 6 0.04
74 37 0.25
75 4 0.03
76 2 0.01
77 3 0.02
78 61 0.41
79 2 0.01
80 34 0.23
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (75 bp):
TTCGCATTTACATCATTGCATATGTATCACAATAAAGACATTCATATTTGTCATTCATGCATCAT
GAAAAGGACA
Found at i:18176192 original size:171 final size:171
Alignment explanation
Indices: 18175900--18176240 Score: 475
Period size: 171 Copynumber: 2.0 Consensus size: 171
18175890 CGCATTTACA
** * * *
18175900 TCATTGCATATGTATCACAATAAAGACATTCACATTTGTGTCATTGCATCTGCATCATGAGAAGG
1 TCATTGCATATGTATCACAATAAAGACATTCACATTTGCATAATTGCATCTACATCATGAAAAGG
** * *
18175965 ACATTCGCATTTGCATCATGAAAAACATTTACATAATCATATTTACATCATTGCATATGTATCAT
66 ACATTCAAATTTGCATCATGAAAAACATTTACATAATCATATTTACATCATTGCATATGCATCAC
* * *
18176030 AATAAAGACATTCATATTTACGTCATTTTTTCACATTTGCG
131 AATAAAAACATTCACATTTACATCATTTTTTCACATTTGCG
* *
18176071 TCATTGTATATGTATCACAATAAAGACATTCACATTTGCATAATTGCATTTACATCATGAAAAGG
1 TCATTGCATATGTATCACAATAAAGACATTCACATTTGCATAATTGCATCTACATCATGAAAAGG
* * * * * *
18176136 ACATTTAAATTTGCATTATGAAAGATATTTGCATAATCATTTTTACATCATTGCATATGCATCAC
66 ACATTCAAATTTGCATCATGAAAAACATTTACATAATCATATTTACATCATTGCATATGCATCAC
* **
18176201 AATAAAAACATTCACATTTGCATCATTTTTTTGCATTTGC
131 AATAAAAACATTCACATTTACATCATTTTTTCACATTTGC
18176241 ATAATTTTTT
Statistics
Matches: 147, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
171 147 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (171 bp):
TCATTGCATATGTATCACAATAAAGACATTCACATTTGCATAATTGCATCTACATCATGAAAAGG
ACATTCAAATTTGCATCATGAAAAACATTTACATAATCATATTTACATCATTGCATATGCATCAC
AATAAAAACATTCACATTTACATCATTTTTTCACATTTGCG
Found at i:18176239 original size:19 final size:19
Alignment explanation
Indices: 18176215--18176265 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
18176205 AAAACATTCA
18176215 CATTTGCATCATTTTTTTG
1 CATTTGCATCATTTTTTTG
* *
18176234 CATTTGCATAATTTTTTTT
1 CATTTGCATCATTTTTTTG
**
18176253 TTTTTGCATCATT
1 CATTTGCATCATT
18176266 GCATGTTCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.18, C:0.14, G:0.08, T:0.61
Consensus pattern (19 bp):
CATTTGCATCATTTTTTTG
Found at i:18176303 original size:40 final size:39
Alignment explanation
Indices: 18176255--18176471 Score: 147
Period size: 40 Copynumber: 5.3 Consensus size: 39
18176245 TTTTTTTTTT
* *
18176255 TTTGCATCATTGCATGTTCATCATAATAAAGACATTCGTA
1 TTTGCATCATTGCAT-TTCATCATAAGAAAGACATTCGCA
* * * *
18176295 TTTGCATCATTGCATCTTCATTATAAGAATGATATTTGCA
1 TTTGCATCATTGCAT-TTCATCATAAGAAAGACATTCGCA
*
18176335 TTTCCATCATTGCATTTGCATCAT--GAAAGACATTCGCATCATCA
1 TTTGCATCATTGCATTT-CATCATAAGAAAGACATTCG------CA
* * * *
18176379 CGTTTACATCATTGCATATGCATCACAATAAAGACATTTAC-CA
1 --TTTGCATCATTGCAT-TTCATCATAAGAAAGACA-TT-CGCA
*
18176422 -TTGCATCATTGCATTTATATCATAAGAAAGACACTT-GCA
1 TTTGCATCATTGCATTT-CATCATAAGAAAGACA-TTCGCA
18176461 TTTGCATCATT
1 TTTGCATCATT
18176472 TCATCTACAC
Statistics
Matches: 138, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
38 9 0.07
39 5 0.04
40 90 0.65
43 2 0.01
44 2 0.01
46 19 0.14
47 1 0.01
48 7 0.05
49 2 0.01
50 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (39 bp):
TTTGCATCATTGCATTTCATCATAAGAAAGACATTCGCA
Found at i:18176488 original size:126 final size:125
Alignment explanation
Indices: 18176259--18176488 Score: 279
Period size: 126 Copynumber: 1.8 Consensus size: 125
18176249 TTTTTTTTTG
* * * *
18176259 CATCATTGCATGTTCATCATAATAAAGACATTCGTATTTGCATCATTGCATCTTCATTATAAGAA
1 CATCATTGCATATGCATCACAATAAAGACATTC-TAATTGCATCATTGCATCTTCATTATAAGAA
* * * * *
18176324 TGATATTTGCATTTCCATCATTGCATTTGCATCATGAAAGACATTCGCATCATCACGTTTA
65 AGACACTTGCATTTCCATCATTGCATCTACATCATGAAAGACATTCGCATCATCACGTTTA
18176385 CATCATTGCATATGCATCACAATAAAGACATT-TACCATTGCATCATTGCAT-TT-ATATCATAA
1 CATCATTGCATATGCATCACAATAAAGACATTCTA--ATTGCATCATTGCATCTTCAT-T-ATAA
* *
18176447 GAAAGACACTTGCATTTGCATCATTTCATCTACA-CATTGAAA
62 GAAAGACACTTGCATTTCCATCATTGCATCTACATCA-TGAAA
18176489 AAGTATTTAT
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
124 4 0.05
125 5 0.06
126 79 0.90
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (125 bp):
CATCATTGCATATGCATCACAATAAAGACATTCTAATTGCATCATTGCATCTTCATTATAAGAAA
GACACTTGCATTTCCATCATTGCATCTACATCATGAAAGACATTCGCATCATCACGTTTA
Found at i:18177182 original size:30 final size:29
Alignment explanation
Indices: 18177148--18177251 Score: 69
Period size: 30 Copynumber: 3.7 Consensus size: 29
18177138 TTCATAAAAG
18177148 ATAAATTTCAGTGTGAATCTCAAACTTGAT
1 ATAAATTTC-GTGTGAATCTCAAACTTGAT
* * *
18177178 ATAAA--TC-T-TG-ATATGAATCTTGA-
1 ATAAATTTCGTGTGAATCTCAAACTTGAT
*
18177201 A-AACCTTTCGATGTGAATCTCAAACTTGAT
1 ATAA-ATTTCG-TGTGAATCTCAAACTTGAT
* *
18177231 ATAAATCTCAATGTGAATCTC
1 ATAAATTTC-GTGTGAATCTC
18177252 GAAAATCTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 10 0.19
25 4 0.07
26 1 0.02
27 1 0.02
28 4 0.07
29 10 0.19
30 19 0.35
31 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (29 bp):
ATAAATTTCGTGTGAATCTCAAACTTGAT
Found at i:18177248 original size:53 final size:53
Alignment explanation
Indices: 18177153--18177294 Score: 196
Period size: 53 Copynumber: 2.6 Consensus size: 53
18177143 AAAAGATAAA
** *
18177153 TTTCAGTGTGAATCTCAAACTTGATATAAATCTTGATATGAATCTTGAAAACC
1 TTTCAGTGTGAATCTCAAACTTGATATAAATCTCAATATGAATCTCGAAAACC
* *
18177206 TTTC-GATGTGAATCTCAAACTTGATATAAATCTCAATGTGAATCTCGAAAATC
1 TTTCAG-TGTGAATCTCAAACTTGATATAAATCTCAATATGAATCTCGAAAACC
*
18177259 TTTCAGTGTGAATCTCAAATCTTAGATGTAAATCTC
1 TTTCAGTGTGAATCTCAAA-CTT-GATATAAATCTC
18177295 GAGAATCCTT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
52 1 0.01
53 63 0.80
54 4 0.05
55 11 0.14
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (53 bp):
TTTCAGTGTGAATCTCAAACTTGATATAAATCTCAATATGAATCTCGAAAACC
Found at i:18177270 original size:23 final size:23
Alignment explanation
Indices: 18177233--18177315 Score: 81
Period size: 23 Copynumber: 3.8 Consensus size: 23
18177223 AACTTGATAT
18177233 AAATC-TCA-ATGTGAATCTCGA
1 AAATCTTCAGATGTGAATCTCGA
18177254 AAATCTTTCAG-TGTGAATCTC--
1 AAATC-TTCAGATGTGAATCTCGA
*
18177275 AAATCTT-AGATGTAAATCTCGA
1 AAATCTTCAGATGTGAATCTCGA
*
18177297 GAATCCTTC-GATGTGAATC
1 AAAT-CTTCAGATGTGAATC
18177316 CCAAACTTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
19 2 0.04
20 11 0.22
21 10 0.20
22 3 0.06
23 25 0.49
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.33
Consensus pattern (23 bp):
AAATCTTCAGATGTGAATCTCGA
Found at i:18177294 original size:43 final size:42
Alignment explanation
Indices: 18177233--18177335 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 42
18177223 AACTTGATAT
* * * *
18177233 AAATCTCAATGTGAATCTCGAAAATCTTTC-AGTGTGAATCTC
1 AAATCTTAATGTAAATCTCGAAAATCCTTCGA-TGTGAATCCC
*
18177275 AAATCTTAGATGTAAATCTCGAGAATCCTTCGATGTGAATCCC
1 AAATCTTA-ATGTAAATCTCGAAAATCCTTCGATGTGAATCCC
* *
18177318 AAA-CTTAATATGAATCTC
1 AAATCTTAATGTAAATCTC
18177336 AATAGGAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
41 9 0.17
42 11 0.21
43 31 0.60
44 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (42 bp):
AAATCTTAATGTAAATCTCGAAAATCCTTCGATGTGAATCCC
Found at i:18177365 original size:96 final size:96
Alignment explanation
Indices: 18177207--18177383 Score: 259
Period size: 96 Copynumber: 1.8 Consensus size: 96
18177197 TTGAAAACCT
* * *
18177207 TTCGATGTGAATCTCAAACTTGATATAAATCTCAATGTGAATCTCGAAAATCTTTCAGTGTGAAT
1 TTCGATGTGAATCCCAAACTTAATATAAATCTCAATGTGAATCTCGAAAATCTTTCAATGTGAAT
*
18177272 CTCAAATCTTAGATGTAAATCTCGAGAATCC
66 CTCAAACCTTAGATGTAAATCTCGAGAATCC
* *
18177303 TTCGATGTGAATCCCAAACTTAATATGAATCTCAATAG-GAATCTTGAAAA-CTTTGCAATGTGA
1 TTCGATGTGAATCCCAAACTTAATATAAATCTCAAT-GTGAATCTCGAAAATCTTT-CAATGTGA
*
18177366 ATCTCAAACCTTTGATGT
64 ATCTCAAACCTTAGATGT
18177384 GAATATAGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 4 0.06
96 67 0.93
97 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (96 bp):
TTCGATGTGAATCCCAAACTTAATATAAATCTCAATGTGAATCTCGAAAATCTTTCAATGTGAAT
CTCAAACCTTAGATGTAAATCTCGAGAATCC
Found at i:18177417 original size:96 final size:96
Alignment explanation
Indices: 18177199--18177430 Score: 256
Period size: 96 Copynumber: 2.4 Consensus size: 96
18177189 TATGAATCTT
*
18177199 GAAAA-CCTTTCGATGTGAATCTCAAACTTGATATAAATCTCAATGTGAATCTCGAAAATCTTTC
1 GAAAATCC-TTCGATGTGAATCTCAAACTTGATATGAATCTCAATGTGAATCTCGAAAATCTTTC
* * * *
18177263 AGTGTGAATCTCAAATCTTAGATGTAAATCTC
65 AATGTGAATCTCAAACCTTAGATGTAAATATA
* * * *
18177295 GAGAATCCTTCGATGTGAATCCCAAACTTAATATGAATCTCAATAG-GAATCTTGAAAA-CTTTG
1 GAAAATCCTTCGATGTGAATCTCAAACTTGATATGAATCTCAAT-GTGAATCTCGAAAATCTTT-
* *
18177358 CAATGTGAATCTCAAACCTTTGATGTGAATATA
64 CAATGTGAATCTCAAACCTTAGATGTAAATATA
** * * *
18177391 GAAAACTTTTTTG-TGTGGATCTCAAACTTGACATGAATCT
1 GAAAA-TCCTTCGATGTGAATCTCAAACTTGATATGAATCT
18177431 TGATCCGAAT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
95 4 0.04
96 102 0.90
97 7 0.06
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (96 bp):
GAAAATCCTTCGATGTGAATCTCAAACTTGATATGAATCTCAATGTGAATCTCGAAAATCTTTCA
ATGTGAATCTCAAACCTTAGATGTAAATATA
Found at i:18177480 original size:20 final size:23
Alignment explanation
Indices: 18177457--18177593 Score: 112
Period size: 23 Copynumber: 6.3 Consensus size: 23
18177447 ACCCTTTTGG
18177457 TGTGAATCTT-A-AAC-TTTTAA
1 TGTGAATCTTGAGAACTTTTTAA
**
18177477 TGTGAATCTTGAGAACTTTTTGG
1 TGTGAATCTTGAGAACTTTTTAA
*
18177500 TGTGAATCCT-A-AAC-TTTTAA
1 TGTGAATCTTGAGAACTTTTTAA
**
18177520 TGTGAATCTTGAGAACTTTTTGG
1 TGTGAATCTTGAGAACTTTTTAA
* *
18177543 TGTGAATCCT-A-AAC-CTTTAA
1 TGTGAATCTTGAGAACTTTTTAA
** * *
18177563 TACGAATCTTAAGAACTTTTTAG
1 TGTGAATCTTGAGAACTTTTTAA
18177586 TGTGAATC
1 TGTGAATC
18177594 CTGAACTTGA
Statistics
Matches: 89, Mismatches: 19, Indels: 15
0.72 0.15 0.12
Matches are distributed among these distances:
20 33 0.37
21 9 0.10
22 11 0.12
23 36 0.40
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (23 bp):
TGTGAATCTTGAGAACTTTTTAA
Found at i:18177498 original size:43 final size:43
Alignment explanation
Indices: 18177451--18177601 Score: 239
Period size: 43 Copynumber: 3.5 Consensus size: 43
18177441 CTCAATACCC
*
18177451 TTTTGGTGTGAATCTTAAACTTTTAATGTGAATCTTGAGAACT
1 TTTTGGTGTGAATCCTAAACTTTTAATGTGAATCTTGAGAACT
18177494 TTTTGGTGTGAATCCTAAACTTTTAATGTGAATCTTGAGAACT
1 TTTTGGTGTGAATCCTAAACTTTTAATGTGAATCTTGAGAACT
* ** *
18177537 TTTTGGTGTGAATCCTAAACCTTTAATACGAATCTTAAGAACT
1 TTTTGGTGTGAATCCTAAACTTTTAATGTGAATCTTGAGAACT
* *
18177580 TTTTAGTGTGAATCCTGAACTT
1 TTTTGGTGTGAATCCTAAACTT
18177602 GATATGAATC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (43 bp):
TTTTGGTGTGAATCCTAAACTTTTAATGTGAATCTTGAGAACT
Found at i:18177503 original size:23 final size:20
Alignment explanation
Indices: 18177450--18177556 Score: 106
Period size: 20 Copynumber: 5.0 Consensus size: 20
18177440 TCTCAATACC
18177450 CTTTTGGTGTGAATCTTAAA
1 CTTTTGGTGTGAATCTTAAA
**
18177470 CTTTTAATGTGAATCTTGAGAA
1 CTTTTGGTGTGAATCTT-A-AA
*
18177492 CTTTTTGGTGTGAATCCTAAA
1 C-TTTTGGTGTGAATCTTAAA
**
18177513 CTTTTAATGTGAATCTTGAGAA
1 CTTTTGGTGTGAATCTT-A-AA
*
18177535 CTTTTTGGTGTGAATCCTAAA
1 C-TTTTGGTGTGAATCTTAAA
18177556 C
1 C
18177557 CTTTAATACG
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
20 28 0.40
21 8 0.11
22 8 0.11
23 26 0.37
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (20 bp):
CTTTTGGTGTGAATCTTAAA
Done.