Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 41 of 193
Found at i:12555325 original size:4 final size:4
Alignment explanation
Indices: 12555318--12555376 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
12555308 GAAAGAAACG
* *
12555318 AGAA AGAA AGAA AGAAA AGAA AGAA AGAA GGAGA GGAA AGAA AG-A AGAA
1 AGAA AGAA AGAA AG-AA AGAA AGAA AGAA AGA-A AGAA AGAA AGAA AGAA
* *
12555367 GGAA AAAA AG
1 AGAA AGAA AG
12555377 GTAATGTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
3 3 0.07
4 35 0.76
5 8 0.17
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:12555338 original size:13 final size:13
Alignment explanation
Indices: 12555308--12555346 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 13
12555298 GGAAGGGGAG
12555308 GAAAGAAACGAGAAA
1 GAAAGAAA-GA-AAA
12555323 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
12555336 GAAAGAAAGAA
1 GAAAGAAAGAA
12555347 GGAGAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 14 0.58
14 2 0.08
15 8 0.33
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:12555340 original size:17 final size:17
Alignment explanation
Indices: 12555308--12555363 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
12555298 GGAAGGGGAG
12555308 GAAAGAAACGAGAAAGAAA
1 GAAAGAAA--AGAAAGAAA
12555327 GAAAGAAAAGAAAGAAA
1 GAAAGAAAAGAAAGAAA
* * *
12555344 GAAGGAGAGGAAAGAAA
1 GAAAGAAAAGAAAGAAA
12555361 GAA
1 GAA
12555364 GAAGGAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
17 26 0.76
19 8 0.24
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (17 bp):
GAAAGAAAAGAAAGAAA
Found at i:12555364 original size:17 final size:15
Alignment explanation
Indices: 12555306--12555376 Score: 76
Period size: 15 Copynumber: 4.7 Consensus size: 15
12555296 TAGGAAGGGG
12555306 AGGAAAGAAACG-AGA
1 AGGAAAGAAA-GAAGA
*
12555321 AAGAAAGAAAGAA-A
1 AGGAAAGAAAGAAGA
12555335 A-GAAAGAAAGAAGGA
1 AGGAAAGAAAGAA-GA
12555350 GAGGAAAGAAAGAAGA
1 -AGGAAAGAAAGAAGA
*
12555366 AGGAAAAAAAG
1 AGGAAAGAAAG
12555377 GTAATGTGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
13 11 0.22
14 3 0.06
15 21 0.43
16 3 0.06
17 11 0.22
ACGTcount: A:0.68, C:0.01, G:0.31, T:0.00
Consensus pattern (15 bp):
AGGAAAGAAAGAAGA
Found at i:12558434 original size:20 final size:21
Alignment explanation
Indices: 12558399--12558437 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12558389 AGGGTTTATG
12558399 GTTTTAAGTTTAAGGTTTACA
1 GTTTTAAGTTTAAGGTTTACA
*
12558420 GTTTT-AGTTTTAGGTTTA
1 GTTTTAAGTTTAAGGTTTA
12558438 GGGTTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.23, C:0.03, G:0.21, T:0.54
Consensus pattern (21 bp):
GTTTTAAGTTTAAGGTTTACA
Found at i:12560721 original size:16 final size:15
Alignment explanation
Indices: 12560700--12560749 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
12560690 TGATGGTGGT
12560700 ATTATTTTAGTAATTA
1 ATTATTTT-GTAATTA
*
12560716 ATTATTTTTTATATT-
1 ATTATTTTGTA-ATTA
12560731 A-TATTTTGGTAATTA
1 ATTATTTT-GTAATTA
12560746 ATTA
1 ATTA
12560750 GCTAGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (15 bp):
ATTATTTTGTAATTA
Found at i:12561319 original size:20 final size:21
Alignment explanation
Indices: 12561294--12561336 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12561284 TACTTACTAC
*
12561294 TACTAAC-AATAAAATAAAAT
1 TACTAACTAACAAAATAAAAT
*
12561314 TACTAACTAACAAAATTAAAT
1 TACTAACTAACAAAATAAAAT
12561335 TA
1 TA
12561337 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (21 bp):
TACTAACTAACAAAATAAAAT
Found at i:12562582 original size:27 final size:29
Alignment explanation
Indices: 12562544--12562602 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 29
12562534 TAAAATTTAA
*
12562544 ATTTATTATATTTT-TGAATTTAAAT-TT
1 ATTTATTATATTTTCTAAATTTAAATATT
* *
12562571 ATTTTTTATATTTTCTAAATTTATATATT
1 ATTTATTATATTTTCTAAATTTAAATATT
12562600 ATT
1 ATT
12562603 ATTTCTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
28 9 0.33
29 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTTATTATATTTTCTAAATTTAAATATT
Found at i:12562601 original size:22 final size:23
Alignment explanation
Indices: 12562564--12562606 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
12562554 TTTTTGAATT
* *
12562564 TAAATTTATTTTTTA-TATTTTC
1 TAAATTTATATATTATTATTTTC
12562586 TAAATTTATATATTATTATTT
1 TAAATTTATATATTATTATTT
12562607 CTTTTCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TAAATTTATATATTATTATTTTC
Found at i:12562607 original size:22 final size:22
Alignment explanation
Indices: 12562541--12562608 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 22
12562531 ATATAAAATT
* *
12562541 TAAATTTATTATATTTTTGAATT-
1 TAAATTTA-TATATTATT-ATTTC
* *
12562564 TAAATTTATTTTTTA-TATTTTC
1 TAAATTTATATATTATTA-TTTC
12562586 TAAATTTATATATTATTATTTC
1 TAAATTTATATATTATTATTTC
12562608 T
1 T
12562609 TTTCAACAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 22 0.61
23 10 0.28
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.63
Consensus pattern (22 bp):
TAAATTTATATATTATTATTTC
Found at i:12564576 original size:29 final size:29
Alignment explanation
Indices: 12564514--12564578 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
12564504 TGTAAATTTG
*
12564514 AAATTTAGTTTATATATTTTTATTTTTAT
1 AAATTTAGTTTATATATTTTTAATTTTAT
* *
12564543 GAATTTAGTTT-TCTATTTTTTAGATTTTA-
1 AAATTTAGTTTATATA-TTTTTA-ATTTTAT
12564572 AAATTTA
1 AAATTTA
12564579 TATCCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 3 0.10
29 22 0.73
30 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.62
Consensus pattern (29 bp):
AAATTTAGTTTATATATTTTTAATTTTAT
Found at i:12567567 original size:17 final size:16
Alignment explanation
Indices: 12567554--12567630 Score: 84
Period size: 17 Copynumber: 4.6 Consensus size: 16
12567544 AATTTTAAAT
12567554 TTTAAA-TTATTTTAA
1 TTTAAATTTATTTTAA
12567569 GTTTAAATTTATTTTAAA
1 -TTTAAATTTATTTT-AA
* * *
12567587 TGTAAACTTATTTTGAG
1 TTTAAATTTATTTT-AA
12567604 TTTAAATTTATTTTGAA
1 TTTAAATTTATTTT-AA
12567621 TTTAAATTTA
1 TTTAAATTTA
12567631 AAATTTAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
16 6 0.12
17 44 0.85
18 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATTTTAA
Found at i:12567583 original size:34 final size:33
Alignment explanation
Indices: 12567545--12567628 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 33
12567535 AATAAACCCA
12567545 ATTTTAAATTTTAAATTATTTTAAGTTTAAATTT
1 ATTTTAAA-TTTAAATTATTTTAAGTTTAAATTT
* *
12567579 ATTTTAAATGTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAA-TTATTTTAAGTTTAAATTT
*
12567613 ATTTTGAATTTAAATT
1 ATTTTAAATTTAAATT
12567629 TAAAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
33 7 0.16
34 38 0.84
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (33 bp):
ATTTTAAATTTAAATTATTTTAAGTTTAAATTT
Found at i:12568624 original size:30 final size:30
Alignment explanation
Indices: 12568582--12568791 Score: 177
Period size: 30 Copynumber: 7.1 Consensus size: 30
12568572 TATTTGCTCA
*
12568582 TTAGACCCCTAAACTTTTCTAAAATTATATT
1 TTAGA-CCCTAAACTTTTCAAAAATTATATT
* *
12568613 TTAGACCCTAAATTTTTCCAAAATTATATT
1 TTAGACCCTAAACTTTTCAAAAATTATATT
* **
12568643 TTA-ACCCCAAAC-TACCAAAAAATTATATT
1 TTAGACCCTAAACTTTTC-AAAAATTATATT
* *
12568672 TTA-ACCCTCGAACTTCTCAAAAATTATA-T
1 TTAGACCCT-AAACTTTTCAAAAATTATATT
* *
12568701 TT-GACCCTTAACTTTTCAAAAATTACATT
1 TTAGACCCTAAACTTTTCAAAAATTATATT
* *
12568730 TT-GACCTCTTAACTTCTT-AAAAATTACATT
1 TTAGACC-CTAAACTT-TTCAAAAATTATATT
*
12568760 TT-GACCCCTAAACTTCTT-AAAAATTACATT
1 TTAGA-CCCTAAACTT-TTCAAAAATTATATT
12568790 TT
1 TT
12568792 TACCCTCAAA
Statistics
Matches: 156, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
28 18 0.12
29 40 0.26
30 87 0.56
31 11 0.07
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
TTAGACCCTAAACTTTTCAAAAATTATATT
Found at i:12568721 original size:59 final size:59
Alignment explanation
Indices: 12568588--12568940 Score: 201
Period size: 59 Copynumber: 6.0 Consensus size: 59
12568578 CTCATTAGAC
* * * * * *
12568588 CCCTAAACTTTTCTAAAATTATATTTTAGACCCT-AAATTTTTCCAAAATTATATTTTAA
1 CCCTAAACTTTTCAAAAATTACATTTTA-ACCCTCAAACTTCTCAAAAATTATATTTTGA
* ** * *
12568647 CCCCAAAC-TACCAAAAAATTATATTTTAACCCTCGAACTTCTCAAAAATTATA-TTTGA
1 CCCTAAACTTTTC-AAAAATTACATTTTAACCCTCAAACTTCTCAAAAATTATATTTTGA
* * * * *
12568705 CCCTTAACTTTTCAAAAATTACATTTTGA-CCTCTTAACTTCTTAAAAATTACATTTTGA
1 CCCTAAACTTTTCAAAAATTACATTTTAACCCTC-AAACTTCTCAAAAATTATATTTTGA
* * * * *
12568764 CCCCTAAACTTCTT-AAAAATTACATTTTTACCCTCAAA-TAC-CTAAAAATCACATTTTTGC
1 -CCCTAAACTT-TTCAAAAATTACATTTTAACCCTCAAACTTCTC-AAAAATTATA-TTTTGA
* * * * * * *
12568824 CCCTAAAC-ATCCAAAAATTACCATTTT-ACCCCCGAACTT-TCAAAGAA-CACATTTTTTA
1 CCCTAAACTTTTCAAAAATTA-CATTTTAACCCTCAAACTTCTCAAA-AATTATA-TTTTGA
* * * * *
12568882 CCCTTGAAC-ATTCAAAAATTACCATTTTGACCC-CAAACTTTTCCAAAATTACTATTTTG
1 CCC-TAAACTTTTCAAAAATTA-CATTTTAACCCTCAAACTTCTCAAAAATTA-TATTTTG
12568941 CCCCCGAGCA
Statistics
Matches: 235, Mismatches: 39, Indels: 39
0.75 0.12 0.12
Matches are distributed among these distances:
57 5 0.02
58 77 0.33
59 102 0.43
60 44 0.19
61 7 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (59 bp):
CCCTAAACTTTTCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAATTATATTTTGA
Found at i:12568809 original size:29 final size:29
Alignment explanation
Indices: 12568718--12568855 Score: 111
Period size: 30 Copynumber: 4.7 Consensus size: 29
12568708 TTAACTTTTC
* * * * *
12568718 AAAAATTACATTTTGACCTCTTAACTTCTT
1 AAAAATTACATTTTTACC-CCTAAATACCT
* * *
12568748 AAAAATTACATTTTGACCCCTAAACTTCTT
1 AAAAATTACATTTTTACCCCTAAA-TACCT
12568778 AAAAATTACATTTTTA-CCCTCAAATACCT
1 AAAAATTACATTTTTACCCCT-AAATACCT
* * *
12568807 AAAAATCACATTTTTGCCCCTAAACATCC-
1 AAAAATTACATTTTTACCCCTAAATA-CCT
12568836 AAAAATTACCA-TTTTACCCC
1 AAAAATTA-CATTTTTACCCC
12568856 CGAACTTTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
29 44 0.47
30 49 0.53
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCCTAAATACCT
Found at i:12568867 original size:29 final size:29
Alignment explanation
Indices: 12568829--12569025 Score: 159
Period size: 29 Copynumber: 6.8 Consensus size: 29
12568819 TTTGCCCCTA
*
12568829 AACATCCAAAAATTACCATTTTACCCCCG
1 AACATTCAAAAATTACCATTTTACCCCCG
* * **
12568858 AACTTTCAAAGA--ACACATTTTTTACCCTTG
1 AACATTCAAAAATTAC-CA--TTTTACCCCCG
*
12568888 AACATTCAAAAATTACCATTTTGA-CCCCA
1 AACATTCAAAAATTACCATTTT-ACCCCCG
* * * *
12568917 AACTTTTCCAAAATTACTATTTTGCCCCCG
1 AAC-ATTCAAAAATTACCATTTTACCCCCG
* *
12568947 AGCATCCAAAAATTACCATTTTACCCCCG
1 AACATTCAAAAATTACCATTTTACCCCCG
* * * *
12568976 AGCATCCAAAAATTACCATTTTGCCTCCG
1 AACATTCAAAAATTACCATTTTACCCCCG
* *
12569005 AGCA-TCCAAAATTACCATTTT
1 AACATTCAAAAATTACCATTTT
12569026 GCCCACAAAT
Statistics
Matches: 135, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
27 2 0.01
28 17 0.13
29 70 0.52
30 42 0.31
31 2 0.01
32 2 0.01
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (29 bp):
AACATTCAAAAATTACCATTTTACCCCCG
Found at i:12569026 original size:28 final size:29
Alignment explanation
Indices: 12568894--12569029 Score: 177
Period size: 29 Copynumber: 4.7 Consensus size: 29
12568884 CTTGAACATT
* * * *
12568894 CAAAAATTACCATTTTGACCCCAAACTTTTC
1 CAAAAATTACCATTTTGCCCCCGAGC--ATC
*
12568925 C-AAAATTACTATTTTGCCCCCGAGCATC
1 CAAAAATTACCATTTTGCCCCCGAGCATC
*
12568953 CAAAAATTACCATTTTACCCCCGAGCATC
1 CAAAAATTACCATTTTGCCCCCGAGCATC
*
12568982 CAAAAATTACCATTTTGCCTCCGAGCATC
1 CAAAAATTACCATTTTGCCCCCGAGCATC
12569011 C-AAAATTACCATTTTGCCC
1 CAAAAATTACCATTTTGCCC
12569030 ACAAATTTCC
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
28 20 0.21
29 53 0.56
30 20 0.21
31 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.07, T:0.29
Consensus pattern (29 bp):
CAAAAATTACCATTTTGCCCCCGAGCATC
Found at i:12574375 original size:25 final size:25
Alignment explanation
Indices: 12574321--12574378 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
12574311 TGAAAAAAAG
*
12574321 AAGAAAATAAAAAAGGAAAAAGGAAT
1 AAGAAAATAAAAAA-GAAAAAGGAAA
*
12574347 AAGAAAATAGAAAAA-AAAGAGGAAA
1 AAGAAAATA-AAAAAGAAAAAGGAAA
12574372 AAGAAAA
1 AAGAAAA
12574379 AGAGAGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 15 0.52
26 9 0.31
27 5 0.17
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (25 bp):
AAGAAAATAAAAAAGAAAAAGGAAA
Found at i:12575396 original size:50 final size:49
Alignment explanation
Indices: 12575331--12575756 Score: 423
Period size: 50 Copynumber: 8.5 Consensus size: 49
12575321 CTTAAAAGTT
*
12575331 TGAAGGGAAAGGTTGAGGCCGTAACGACGAACCCAGTACCTAAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCC-GTACCTAAGAAGATG
* * * * *
12575381 TGATGGGAAAGGTTGAGGTCACAACGGCAAACCCGATACCTAAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCG-TACCTAAGAAGATG
* * * *
12575431 TGATGGGAAAGGTTGAGGTCGCAACGACAAACCCGGTACC-ATGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCC-GTACCTAAGAAGATG
* * *
12575480 TAAAGGGAAAGGTTGAGACCGCAACGACGAACCCAGTGCCTAAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCC-GTACCTAAGAAGATG
* * *
12575530 TGAAGGGAAAGGTTGAGGCCGTAACGACGAACTCGATACCTAAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCG-TACCTAAGAAGATG
* * * *
12575580 TGATGGGAAAGGTTGAGGCCGCAACGGCGAACCTAGTACC-ATGAAGA-G
1 TGAAGGGAAAGGTTGAGGCCGCAACGACGAACC-CGTACCTAAGAAGATG
* * * *
12575628 ATGACAGGG-GAGGATTAAGGCCGCAACGACGAATCCGATACCTTAAAAAGATG
1 -TGA-AGGGAAAGG-TTGAGGCCGCAACGACGAACCCG-TACC-TAAGAAGATG
* *
12575681 TAAAGGGAAAGGTTGAGGCCGCAACTG-CGAACCCGGCACCTAAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAAC-GACGAACCC-GTACCTAAGAAGATG
* * *
12575731 CGATGGG-AAGGATTGAGGTCGCAACG
1 TGAAGGGAAAGG-TTGAGGCCGCAACG
12575757 GTAAATCCGA
Statistics
Matches: 312, Mismatches: 48, Indels: 33
0.79 0.12 0.08
Matches are distributed among these distances:
48 1 0.00
49 60 0.19
50 211 0.68
51 27 0.09
52 12 0.04
53 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.15
Consensus pattern (49 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGTACCTAAGAAGATG
Found at i:12575584 original size:149 final size:149
Alignment explanation
Indices: 12575333--12575756 Score: 525
Period size: 149 Copynumber: 2.8 Consensus size: 149
12575323 TAAAAGTTTG
* *
12575333 AAGGGAAAGGTTGAGGCCGTAACGACGAACCCAGTACCTAAGAAGATGTGATGGGAAAGGTTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGGTTGAG
* * *
12575398 GTCACAACGGCAAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGACAAAC
66 GCCGCAAC-GCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGACAAAC
*
12575463 CCGGTACCATG-A-AGATGTA
130 CCAGTACCATGAAGAGATG-A
* *
12575482 AAGGGAAAGGTTGAGACCGCAACGACGAACCCAGTGCCTAAGAAGATGTGAAGGGAAAGGTTGAG
1 AAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGGTTGAG
* * * * * *
12575547 GCCGTAACGACGAACTCGATACCTAAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAAC
66 GCCGCAACG-CGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGACAAAC
*
12575612 CTAGTACCATGAAGAGATGA
130 CCAGTACCATGAAGAGATGA
* * * * * *
12575632 CAGGG-GAGGATTAAGGCCGCAACGACGAATCC-GATACCTTAAAAAGATGTAAAGGGAAAGGTT
1 AAGGGAAAGG-TTGAGGCCGCAACGACGAACCCAG-TACC-TAAGAAGATGTGAAGGGAAAGGTT
** *
12575695 GAGGCCGCAACTGCGAACCCGGCACCTAAGAAGATGCGATGGG-AAGGATTGAGGTCGCAACG
63 GAGGCCGCAAC-GCGAACCCGATACCTAAGAAGATGTGATGGGAAAGG-TTGAGGTCGCAACG
12575757 GTAAATCCGA
Statistics
Matches: 237, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
148 1 0.00
149 128 0.54
150 32 0.14
151 75 0.32
152 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (149 bp):
AAGGGAAAGGTTGAGGCCGCAACGACGAACCCAGTACCTAAGAAGATGTGAAGGGAAAGGTTGAG
GCCGCAACGCGAACCCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGTCGCAACGACAAACC
CAGTACCATGAAGAGATGA
Found at i:12576241 original size:38 final size:39
Alignment explanation
Indices: 12576123--12576233 Score: 127
Period size: 39 Copynumber: 2.9 Consensus size: 39
12576113 CACCATCAGC
*
12576123 CAATCTCTTACCTCGAGCC-TAGGGCAGATTGCAGCCATT
1 CAATCTCTTACCTCGA-CCATGGGGCAGATTGCAGCCATT
** * * **
12576162 TGATCTTTTACCCCGACCATGGGGCAGATCACAGCCATT
1 CAATCTCTTACCTCGACCATGGGGCAGATTGCAGCCATT
*
12576201 CAATCTCTTA-CTCGATCATGGGGCAGATTGCAG
1 CAATCTCTTACCTCGACCATGGGGCAGATTGCAG
12576234 TTATTCAAAG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
38 21 0.37
39 36 0.63
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (39 bp):
CAATCTCTTACCTCGACCATGGGGCAGATTGCAGCCATT
Found at i:12576605 original size:208 final size:209
Alignment explanation
Indices: 12576241--12577154 Score: 1112
Period size: 208 Copynumber: 4.4 Consensus size: 209
12576231 CAGTTATTCA
* * *
12576241 AAGCACTAAAATGGTTGTCTTCCTGATGAGATACAGAGAAGT-AGACCAAATCCGTCTT-CTCGA
1 AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCT-GA
* * ** * * * *
12576304 TGAGATATAGAGAAGTGGATTAAAACAAGTGATACGATCATCTTCCTAATGAGACACAAATAAGT
64 TGAGATACAGAGAAGTGGATTAAAACAA-CGAGGCGATCATCTTCCTGATGAGATACAGAGAAGT
* * *
12576369 ATACCAAATCAATAAAACAAAGCTCAATGTGAGCGAAA-CTTCGAACCCCAGCTTCCT-ATGAGA
128 AGACCAAATCAATGAAACAAAGCTCAAAGTGAGCGAAATCTTCGAACCCCAGCTTCCTGATGAGA
12576432 TACTGAGAAGCAGGTCG
193 TACTGAGAAGCAGGTCG
* ** * * *
12576449 AAGCAATAAAATGGTCGTCTTCTTGATGAGATATAGAGAAGTGGACCAAATCCGTCTTCCTGATG
1 AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATG
* * * * * * *
12576514 AGATACAAAGAAGTGGATTAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACAGAGTAGTAT
66 AGATACAGAGAAGTGGATTAAAACAA-CGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAG
* *
12576579 ACCAAATCAATGAAACAAAGCTCAATGTGAGCG-AATCTTCGAACCCCAGCTTCCTGATGTGATA
130 ACCAAATCAATGAAACAAAGCTCAAAGTGAGCGAAATCTTCGAACCCCAGCTTCCTGATGAGATA
12576643 CTGAGAAGCAGGT-G
195 CTGAGAAGCAGGTCG
* *
12576657 AAGCAATAAAGTGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
1 AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATG
* * * *
12576722 AGATACAGAGAAGTGGATGAAAATAACGAGGCAATCATCTTCCTGATGAGGTACAGAGAAGTAGA
66 AGATACAGAGAAGTGGATTAAAACAACGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAGA
* *
12576787 CCAAATCAATGAAACCAAA-CTCAAAGTGAG-AAAATCTTCGAACCCCAGCTTCCTGATCAGATA
131 CCAAATCAATGAAA-CAAAGCTCAAAGTGAGCGAAATCTTCGAACCCCAGCTTCCTGATGAGATA
*
12576850 TTGAGAAGCAGGTCG
195 CTGAGAAGCAGGTCG
* * * * * **
12576865 AAGTAATAAAGCGGTTACCTTTCTGATGAGATACAGAGAAGTGAATCAAATCTATCTTCCTGATG
1 AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATG
* * * * *
12576930 AGATACAGAGAAGTGGATCAAAACAACGAGGCGATCATCTTCTTGATGAGAT-CTTGAGAAATGG
66 AGATACAGAGAAGTGGATTAAAACAACGAGGCGATCATCTTCCTGATGAGATAC-AGAGAAGTAG
* * * * * *
12576994 ACTAAATCAATGTAAC-CAGACTCAAAGTGAGC-AAATATTTGAACCCCAGCTTTCTGATGAGAT
130 ACCAAATCAATGAAACAAAG-CTCAAAGTGAGCGAAATCTTCGAACCCCAGCTTCCTGATGAGAT
* *
12577057 ACTAAGAAGCAAGTCG
194 ACTGAGAAGCAGGTCG
* * * * * *
12577073 AAACAATAAAGTGGTTACCTTCCTGATGAGACACAGAGAAGTGAACCAGATCCGTCTTCCCGATA
1 AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATG
12577138 AGATACAGAGAAGTGGA
66 AGATACAGAGAAGTGGA
12577155 CCAAAAAATG
Statistics
Matches: 620, Mismatches: 75, Indels: 22
0.86 0.10 0.03
Matches are distributed among these distances:
206 1 0.00
207 101 0.16
208 496 0.80
209 22 0.04
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (209 bp):
AAGCAATAAAGTGGTTATCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATG
AGATACAGAGAAGTGGATTAAAACAACGAGGCGATCATCTTCCTGATGAGATACAGAGAAGTAGA
CCAAATCAATGAAACAAAGCTCAAAGTGAGCGAAATCTTCGAACCCCAGCTTCCTGATGAGATAC
TGAGAAGCAGGTCG
Found at i:12577546 original size:7 final size:7
Alignment explanation
Indices: 12577534--12577558 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12577524 TAATAAACCC
12577534 AATTTTA
1 AATTTTA
12577541 AATTTTA
1 AATTTTA
12577548 AATTTTA
1 AATTTTA
12577555 AATT
1 AATT
12577559 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:12577581 original size:34 final size:33
Alignment explanation
Indices: 12577542--12577625 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 33
12577532 CCAATTTTAA
12577542 ATTTTAAATTTTAAATTATTTTAAGTTTAAAGTT
1 ATTTTAAA-TTTAAATTATTTTAAGTTTAAAGTT
* *
12577576 ATTTTAAATTTAAACTTATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAA-TTATTTTAAGTTTAAAGTT
*
12577610 ATTTTGAATTTAAATT
1 ATTTTAAATTTAAATT
12577626 TAAAATTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 8 0.17
34 38 0.83
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (33 bp):
ATTTTAAATTTAAATTATTTTAAGTTTAAAGTT
Found at i:12577624 original size:17 final size:17
Alignment explanation
Indices: 12577551--12577627 Score: 95
Period size: 17 Copynumber: 4.6 Consensus size: 17
12577541 AATTTTAAAT
12577551 TTTAAA-TTATTTT-AA
1 TTTAAATTTATTTTGAA
* *
12577566 GTTTAAAGTTATTTTAAA
1 -TTTAAATTTATTTTGAA
* *
12577584 TTTAAACTTATTTTGAG
1 TTTAAATTTATTTTGAA
12577601 TTTAAATTTATTTTGAA
1 TTTAAATTTATTTTGAA
12577618 TTTAAATTTA
1 TTTAAATTTA
12577628 AAATTTAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
16 6 0.11
17 46 0.85
18 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTGAA
Found at i:12588437 original size:18 final size:18
Alignment explanation
Indices: 12588403--12588437 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12588393 CATCTAATAC
**
12588403 TGTTCCTTGTACTTATTT
1 TGTTCCTTGTAAATATTT
12588421 TGTTCCTTGTAAATATT
1 TGTTCCTTGTAAATATT
12588438 CGGCAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTCCTTGTAAATATTT
Found at i:12588994 original size:49 final size:48
Alignment explanation
Indices: 12588869--12589388 Score: 322
Period size: 49 Copynumber: 10.6 Consensus size: 48
12588859 CGAAACATGG
* * * * *
12588869 AGGGAAATGTTTAAGTCGCAACGGTGAA-CCTTATACCTCAGAAG-CATGAA
1 AGGGAAA-GATTAAGTCGCAACGGCGAATCC-AATACCAC-GAAGACA-CAA
** * * *
12588919 AGGGAAAGATTTAAACCGTAATGGTGAATCCAATACCACGAAGACACAA
1 AGGGAAAGA-TTAAGTCGCAACGGCGAATCCAATACCACGAAGACACAA
* ** * *
12588968 AGGGAAAGGATTAAGTCGCAACGGTGAA-CGTTATACCTC-AGAGACATAA
1 AGGGAAA-GATTAAGTCGCAACGGCGAATC-CAATACCACGA-AGACACAA
* *
12589017 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGACACAA
1 AGGGAAAGA-TTAAGTCGCAACGGCGAATCCAATACCACGAAGACACAA
* * * * * **
12589066 AAGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTATACCA-TAGAGACATGA
1 AGGGAAA-GATTAAGTCGCAACGGCGAATCC-AATACCACGA-AGACACAA
* * *
12589115 AGGGAAAGATTTAAGCCACAACGGCGAATCCAGTACCACGAAGACACAA
1 AGGGAAAGA-TTAAGTCGCAACGGCGAATCCAATACCACGAAGACACAA
* * * * * *
12589164 AGGGAAAGGTTTAAGTCGCAACGAC-AAACCTTATACCTC-AGAGACATAA
1 AGGGAAA-GATTAAGTCGCAACGGCGAATCC-AATACCACGA-AGACACAA
* * *
12589213 AGGGAAAGATTTAAGCCGCAACGGCGAATCCAGTACCACGAAGATACAA
1 AGGGAAAGA-TTAAGTCGCAACGGCGAATCCAATACCACGAAGACACAA
* * * * **
12589262 AGGGAAAGGTTTAAGTCGCAATGGCGAA-CCTTATACCTCAGAA-ACATGA
1 AGGGAAA-GATTAAGTCGCAACGGCGAATCC-AATACCAC-GAAGACACAA
* * * * *
12589311 AGGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGACGCAAA
1 AGGGAAAGA-TTAAGTCGCAACGGCGAATCCAATACCACGAAGACAC-AA
* *
12589361 AGGGAAAGGTTTAAGTCGCAATGGCGAA
1 AGGGAAA-GATTAAGTCGCAACGGCGAA
12589389 CCTTACACCT
Statistics
Matches: 361, Mismatches: 80, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
48 19 0.05
49 265 0.73
50 74 0.20
51 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (48 bp):
AGGGAAAGATTAAGTCGCAACGGCGAATCCAATACCACGAAGACACAA
Found at i:12589055 original size:98 final size:98
Alignment explanation
Indices: 12588851--12589446 Score: 808
Period size: 98 Copynumber: 6.1 Consensus size: 98
12588841 CTACAGGTCT
*** * *
12588851 CAGTACCACGAA-ACATGGAGGGAAATGTTTAAGTCGCAACGGTGAACCTTATACCTCAGA-AGC
1 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-C
* * * *
12588914 ATGAAAGGGAAAGATTTAAACCGTAATGGTGAATC
65 AT-AAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * * *
12588949 CAATACCACGAAGACACAAAGGGAAAGGATTAAGTCGCAACGGTGAACGTTATACCTCAGAGACA
1 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACA
12589014 TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
66 TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* *
12589047 CAGTACCACGAAGACACAAAAGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCAT-AGAGAC
1 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACC-TCAGAGAC
* *
12589111 ATGAAGGGAAAGATTTAAGCCACAACGGCGAATC
65 ATAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* *
12589145 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGACAAACCTTATACCTCAGAGACA
1 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACA
12589210 TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
66 TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * *
12589243 CAGTACCACGAAGATACAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTATACCTCAGAAACA
1 CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACA
* *
12589308 TGAAGGGAAAGATTTAAGCCGCAATGGCGAATC
66 TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
* * * *
12589341 CAGTACCACAAAGACGCAAAAGGGAAAGGTTTAAGTCGCAATGGCGAACCTTACACCTCAGA-AG
1 CAGTACCACGAAGACAC-AAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGA-
* * *
12589405 CGTGAAA-GGAAA-ATTTAAGCTGCAACGGCGAATT
64 CAT-AAAGGGAAAGATTTAAGCCGCAACGGCGAATC
*
12589439 TAGTACCA
1 CAGTACCA
12589447 TGCAGATTGA
Statistics
Matches: 449, Mismatches: 42, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
97 1 0.00
98 349 0.78
99 96 0.21
100 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (98 bp):
CAGTACCACGAAGACACAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTATACCTCAGAGACA
TAAAGGGAAAGATTTAAGCCGCAACGGCGAATC
Found at i:12589855 original size:12 final size:12
Alignment explanation
Indices: 12589834--12589876 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
12589824 TTTAAATTGG
*
12589834 TTTTACATTTAT
1 TTTTAAATTTAT
*
12589846 TTTTAAATTTAA
1 TTTTAAATTTAT
*
12589858 ATTTAAATTTAT
1 TTTTAAATTTAT
12589870 TTTTAAA
1 TTTTAAA
12589877 ATTAAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTAAATTTAT
Found at i:12589856 original size:6 final size:6
Alignment explanation
Indices: 12589847--12589886 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
12589837 TACATTTATT
** *
12589847 TTTAAA TTTAAA TTTAAA TTTATT TTTAAA ATTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA
12589887 GTTTAAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:12589862 original size:24 final size:24
Alignment explanation
Indices: 12589835--12589886 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
12589825 TTAAATTGGT
* *
12589835 TTTACATTTATTTTTAAATTTAAA
1 TTTAAATTTATTTTTAAAATTAAA
12589859 TTTAAATTTATTTTTAAAATTAAA
1 TTTAAATTTATTTTTAAAATTAAA
12589883 TTTA
1 TTTA
12589887 GTTTAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTAAATTTATTTTTAAAATTAAA
Found at i:12590580 original size:9 final size:9
Alignment explanation
Indices: 12590568--12590632 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
12590558 TTAATTATTT
12590568 TAATATTAA
1 TAATATTAA
12590577 TAATATTAA
1 TAATATTAA
*
12590586 TCTAATAATAA
1 --TAATATTAA
12590597 TAA-A-T-A
1 TAATATTAA
12590603 TAATATTAA
1 TAATATTAA
12590612 TTAATATTAA
1 -TAATATTAA
* *
12590622 AAATAATAA
1 TAATATTAA
12590631 TA
1 TA
12590633 GCTGAAAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
6 4 0.09
7 2 0.04
8 2 0.04
9 21 0.46
10 9 0.20
11 8 0.17
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (9 bp):
TAATATTAA
Found at i:12590585 original size:15 final size:15
Alignment explanation
Indices: 12590547--12590632 Score: 77
Period size: 15 Copynumber: 5.7 Consensus size: 15
12590537 TAAATATCAT
12590547 TAATATTAATATTAA
1 TAATATTAATATTAA
* *
12590562 TTATTTTAATATTAA
1 TAATATTAATATTAA
*
12590577 TAATATTAAT-CTAA
1 TAATATTAATATTAA
*
12590591 TAATAATAA-ATATAA
1 TAATATTAATAT-TAA
*
12590606 TATTAATTAATATTAA
1 TAAT-ATTAATATTAA
* *
12590622 AAATAATAATA
1 TAATATTAATA
12590633 GCTGAAAAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.20
15 33 0.60
16 9 0.16
17 2 0.04
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATATTAATATTAA
Found at i:12591595 original size:29 final size:30
Alignment explanation
Indices: 12591528--12591991 Score: 195
Period size: 29 Copynumber: 16.1 Consensus size: 30
12591518 CCCTAAAGGT
* * *
12591528 CCCT-AAACTATCCAAAAATCATATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTGA
* * *
12591557 CCCCCGAACTTTCCAAAAATTACA-TTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTGA
* *
12591586 CCCTCAAACTTTTCAAAAATTACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTGA
* * * * *
12591616 CCTTTAGAC-TTCTAAAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTGA
**
12591646 CCC-CAATTTTTACC-AAAATTACCATTTT-A
1 CCCTCAAACTTT-CCAAAAATTA-CATTTTGA
* * *
12591675 CCCTCGAAC-TGCCAAAAATTCCATTTTTTGA
1 CCCTCAAACTTTCCAAAAATTACA--TTTTGA
* *
12591706 CCC-CGAACTTTCTAAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATTA-CATTTTGA
12591735 CCC-CAAA-TTTCCAAAAATT-CATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTGA
12591762 ----C---C---CCAAAA-TTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATTA-CATTTTGA
* *
12591781 CCCTCAAACTTTCC-AAAATTCCATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTGA
** *** **
12591810 ATCTCGATTTTTTTCCAAAAATTACCATTTTCC
1 CCCTC-A-AACTTTCCAAAAATTA-CATTTTGA
* *
12591843 CCCT-AAAC-TTCAAAAAATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTGA
*
12591872 CCCT-AAACTTTCTAAAAATTACCATTTT-A
1 CCCTCAAACTTTCCAAAAATTA-CATTTTGA
* *
12591901 TCCTCAAAC-TTCCAAAAATTTCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTGA
*
12591931 -CCTCGAAC-TTCCTAAAAATTACCATTTT-A
1 CCCTCAAACTTTCC-AAAAATTA-CATTTTGA
* * * *
12591960 CCCCCGAAC-TTCCAAAGATTCCATTTTTGA
1 CCCTCAAACTTTCCAAAAATTACA-TTTTGA
12591990 CC
1 CC
12591992 TCGAAGTGTC
Statistics
Matches: 329, Mismatches: 62, Indels: 87
0.69 0.13 0.18
Matches are distributed among these distances:
18 2 0.01
19 7 0.02
20 6 0.02
23 1 0.00
24 1 0.00
26 7 0.02
27 1 0.00
28 30 0.09
29 128 0.39
30 104 0.32
31 26 0.08
32 8 0.02
33 8 0.02
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTACATTTTGA
Found at i:12591749 original size:59 final size:58
Alignment explanation
Indices: 12591623--12591996 Score: 346
Period size: 59 Copynumber: 6.5 Consensus size: 58
12591613 TTACCTTTAG
* * *
12591623 ACTTCTAAAAATTCCATTTTTGACCCC-AA-TTTTTACCAAAATTACCATTTTACCCTCGA
1 ACTTCCAAAAATTCCATTTTTGACCCCGAACTTTCTA--AAAATTACCATTTTACCC-CAA
*
12591682 ACTGCCAAAAATTCCATTTTTTGACCCCGAACTTTCTAAAAATTACCATTTTACCCCAA
1 ACTTCCAAAAATTCCA-TTTTTGACCCCGAACTTTCTAAAAATTACCATTTTACCCCAA
*
12591741 ATTTCCAAAAATT-CA-TTTTGA--CC---C---C--AAAATTACCATTTTACCCTCAA
1 ACTTCCAAAAATTCCATTTTTGACCCCGAACTTTCTAAAAATTACCATTTTACCC-CAA
* * * ** * *
12591788 ACTTTCC-AAAATTCCATTTTTAATCTCGATTTTTTTCCAAAAATTACCATTTTCCCCCTAA
1 AC-TTCCAAAAATTCCATTTTTGACCCCGA--ACTTTCTAAAAATTACCATTTTACCCC-AA
* ** *
12591849 ACTTCAAAAAATTCCATTTTTGACCCTAAACTTTCTAAAAATTACCATTTTATCCTCAA
1 ACTTCCAAAAATTCCATTTTTGACCCCGAACTTTCTAAAAATTACCATTTTA-CCCCAA
* * * *
12591908 ACTTCCAAAAATTTCATTTTTGACCTCGAACTTCCTAAAAATTACCATTTTACCCCCGA
1 ACTTCCAAAAATTCCATTTTTGACCCCGAACTTTCTAAAAATTACCATTTTA-CCCCAA
* *
12591967 ACTTCCAAAGATTCCATTTTTGACCTCGAA
1 ACTTCCAAAAATTCCATTTTTGACCCCGAA
12591997 GTGTCCAAAA
Statistics
Matches: 260, Mismatches: 33, Indels: 44
0.77 0.10 0.13
Matches are distributed among these distances:
46 18 0.07
47 10 0.04
48 7 0.03
49 5 0.02
51 2 0.01
54 2 0.01
56 6 0.02
58 2 0.01
59 127 0.49
60 36 0.14
61 40 0.15
62 5 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (58 bp):
ACTTCCAAAAATTCCATTTTTGACCCCGAACTTTCTAAAAATTACCATTTTACCCCAA
Found at i:12592016 original size:29 final size:28
Alignment explanation
Indices: 12591886--12592017 Score: 110
Period size: 29 Copynumber: 4.5 Consensus size: 28
12591876 AAACTTTCTA
*
12591886 AAAATTACCATTTT-ATCCTCAAACTTCC
1 AAAATTACCATTTTGA-CCTCGAACTTCC
*
12591914 AAAAATT-TCATTTTTGACCTCGAACTTCC
1 -AAAATTACCA-TTTTGACCTCGAACTTCC
*
12591943 TAAAAATTACCATTTT-ACCCCCGAACTTCC
1 --AAAATTACCATTTTGA-CCTCGAACTTCC
*
12591973 AAAGATT-CCATTTTTGACCTCGAAGTGTCC
1 AAA-ATTACCA-TTTTGACCTCGAACT-TCC
*
12592003 AAAATTACCGTTTTG
1 AAAATTACCATTTTG
12592018 CCCCCAGGTA
Statistics
Matches: 86, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
28 8 0.09
29 44 0.51
30 32 0.37
31 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTGACCTCGAACTTCC
Found at i:12592043 original size:58 final size:58
Alignment explanation
Indices: 12591766--12592044 Score: 244
Period size: 59 Copynumber: 4.7 Consensus size: 58
12591756 TTTTGACCCC
* * * * **
12591766 AAAATTACCATTTTACCCTCAAACTTTCC-AAAATTCCATTTTTAATCTCGATTTTTTTCCA
1 AAAATTACCATTTTACCCCCGAAC-TTCCAAAAATTCCATTTTTGACCTCGA---ACTTCCA
* * * *
12591827 AAAATTACCATTTT-CCCCCTAAACTTCAAAAAATTCCATTTTTGACC-CTAAACTTTCTA
1 AAAATTACCATTTTACCCCC-GAACTTCCAAAAATTCCATTTTTGACCTC-GAAC-TTCCA
* * * *
12591886 AAAATTACCATTTTATCCTCAAACTTCCAAAAATTTCATTTTTGACCTCGAACTTCCTA
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTCC-A
* *
12591945 AAAATTACCATTTTACCCCCGAACTTCCAAAGATTCCATTTTTGACCTCGAAGTGTCC-
1 AAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAACT-TCCA
* * ** *
12592003 AAAATTACCGTTTTGCCCCC-AGGTATCCAAAAATTGCATTTT
1 AAAATTACCATTTTACCCCCGAACT-TCCAAAAATTCCATTTT
12592045 ATCCCGTCTG
Statistics
Matches: 183, Mismatches: 26, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
57 2 0.01
58 36 0.20
59 95 0.52
60 15 0.08
61 35 0.19
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCGAACTTCCAAAAATTCCATTTTTGACCTCGAACTTCCA
Found at i:12592363 original size:97 final size:97
Alignment explanation
Indices: 12592245--12592438 Score: 275
Period size: 97 Copynumber: 2.0 Consensus size: 97
12592235 AAAACCTTTA
* *
12592245 AAATCGAGGCAATATTCCTTTATTTC-GAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCACGA
1 AAATCGAGGCAATATTCCTTTATCTCTGA-TTCTGAAAATTTGTGCCTTAACTTACTAGGCACGA
* *
12592309 TTTTTCTTCAAATCG-GAATAATCGAATACCCTT
65 CTTCTCTTCAAATCGAG-ATAATCGAATACCCTT
* * **
12592342 AAATCGAGGCAATGTTTCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGTGCGAC
1 AAATCGAGGCAATATTCCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGCACGAC
*
12592407 TTCTCTTCAAATCGAGATAATCGAATATCCTT
66 TTCTCTTCAAATCGAGATAATCGAATACCCTT
12592439 TTCCAATGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
97 83 0.97
98 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATCTCTGATTCTGAAAATTTGTGCCTTAACTTACTAGGCACGAC
TTCTCTTCAAATCGAGATAATCGAATACCCTT
Found at i:12596447 original size:30 final size:30
Alignment explanation
Indices: 12596413--12596477 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
12596403 TATTGCATTA
* *
12596413 TTAAAATTA-AAAAAAATATTTAAAAGAATT
1 TTAAAAATATAAAAAAA-ATTTAAAAAAATT
*
12596443 TTAAAAATATAAAAAGAATTTAAAAAAATT
1 TTAAAAATATAAAAAAAATTTAAAAAAATT
*
12596473 ATAAA
1 TTAAA
12596478 TTATTGGAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (30 bp):
TTAAAAATATAAAAAAAATTTAAAAAAATT
Found at i:12596457 original size:20 final size:20
Alignment explanation
Indices: 12596424--12596473 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
12596414 TAAAATTAAA
*
12596424 AAAAATATTTAAAAGAATTTT
1 AAAAATATTAAAAAGAA-TTT
12596445 AAAAATA-TAAAAAGAATTT
1 AAAAATATTAAAAAGAATTT
*
12596464 AAAAAAATTA
1 AAAAATATTA
12596474 TAAATTATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 10 0.38
21 7 0.27
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
AAAAATATTAAAAAGAATTT
Found at i:12596871 original size:6 final size:6
Alignment explanation
Indices: 12596860--12596899 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
12596850 CCAGTAAATC
* *
12596860 AAATTT AAATTT AAATTT -ATTTT TAATTT AAATTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATT
12596900 ATCCATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
AAATTT
Found at i:12597462 original size:21 final size:21
Alignment explanation
Indices: 12597438--12597480 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
12597428 ATTCTAAATA
12597438 TATATTAATAT-ATTTAGTTAT
1 TATATTAATATCATTTA-TTAT
*
12597459 TATATTATTATCATTTATTAT
1 TATATTAATATCATTTATTAT
12597480 T
1 T
12597481 TTTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TATATTAATATCATTTATTAT
Found at i:12598480 original size:30 final size:30
Alignment explanation
Indices: 12598444--12598818 Score: 302
Period size: 30 Copynumber: 12.7 Consensus size: 30
12598434 CCCCGTTTTG
* * *
12598444 TTCTAAAATTATATTTTGACCCTCAAACTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* *
12598474 TTCTAAAATCATATTTTGACCC-CTAAAC-T
1 TTCTAAAATCACATTTTAACCCTC-AAACTT
*
12598503 TTCTTAAAATCACATTTTAACCCTAAAACTT
1 TTC-TAAAATCACATTTTAACCCTCAAACTT
* * *
12598534 TTCTAAAATCA-AATTTAACCGTTAAACTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* *
12598563 TTCCAAAATCACA-ATTAACTCC-CAAACTT
1 TTCTAAAATCACATTTTAAC-CCTCAAACTT
* * *
12598592 CTCCAAAATCACATTTTGACCCT-AAACTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* * **
12598621 TCCTAAAATCACATTTTAA-CCTTAAAAAT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* * * * * *
12598650 GTCCAAAATTACATTTTAACCCTTATATTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* * *
12598680 TTCCAAAATTACATTTTGACCCTCAAACTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* * *
12598710 CTCTAAAATCACATTTTAACTCTCAAACCT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
*
12598740 CTCTAAAATCACATTTTAA-CC-CAAACTT
1 TTCTAAAATCACATTTTAACCCTCAAACTT
* * * *
12598768 TCCCAAAATTACATTGTT-ACCCTTAAACTT
1 TTCTAAAATCACATT-TTAACCCTCAAACTT
* * *
12598798 TTCCAAAATTATATTTTAACC
1 TTCTAAAATCACATTTTAACC
12598819 TCGAATTCTT
Statistics
Matches: 284, Mismatches: 47, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
28 21 0.07
29 102 0.36
30 157 0.55
31 4 0.01
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
TTCTAAAATCACATTTTAACCCTCAAACTT
Found at i:12598540 original size:60 final size:60
Alignment explanation
Indices: 12598447--12598798 Score: 262
Period size: 58 Copynumber: 6.0 Consensus size: 60
12598437 CGTTTTGTTC
* * * * *
12598447 TAAAATTATATTTTGACCCTCAAACTTTTCTAAAATCATATTTTGACCCCTAAACTTTCT
1 TAAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTCT
* * **
12598507 TAAAATCACATTTTAACCCTAAAACTTTTCTAAAATCA-AATTTAACCGTTAAACTTT-T
1 TAAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTCT
* * * * * *
12598565 CCAAAATCACA-ATTAACTCC-CAAACTTCTCCAAAATCACATTTTGA-CCCTAAACTTTCC
1 -TAAAATCACATTTTAAC-CCTCAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTCT
* ** * * * * *
12598624 TAAAATCACATTTTAA-CCTTAAAAATGTCCAAAATTACATTTTAACCCTTATA-TTT-T
1 TAAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTCT
* * * * *
12598681 TCCAAAATTACATTTTGACCCTCAAACTTCTCTAAAATCACATTTTAA-CTCTCAAAC-CTCT
1 T--AAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATTTTAACCCCT-AAACTTTCT
* * * *
12598742 CTAAAATCACATTTTAA-CC-CAAACTTTCCCAAAATTACATTGTT-ACCCTTAAACTTT
1 -TAAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATT-TTAACCCCTAAACTTT
12598799 TCCAAAATTA
Statistics
Matches: 225, Mismatches: 50, Indels: 35
0.73 0.16 0.11
Matches are distributed among these distances:
57 3 0.01
58 85 0.38
59 62 0.28
60 73 0.32
61 1 0.00
62 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (60 bp):
TAAAATCACATTTTAACCCTCAAACTTTTCTAAAATCACATTTTAACCCCTAAACTTTCT
Found at i:12598605 original size:88 final size:86
Alignment explanation
Indices: 12598478--12598819 Score: 323
Period size: 88 Copynumber: 3.9 Consensus size: 86
12598468 AAACTTTTCT
* * * *
12598478 AAAATCATATTTTGACCCCTAAACTTTCTTAAAATCACATTTTAACCCTAAAACTTTTCTAAAAT
1 AAAATCACATTTTAACCCC-AAACTTTC-CAAAATCACATTTTGACCCT-AAACTTTTCTAAAAT
* * *
12598543 CA-AATTTAACCGTTAAACTTTTCC
63 CACATTTTAACC-TTAAACATCTCC
* *
12598567 AAAATCACA-ATTAACTCCCAAACTTCTCCAAAATCACATTTTGACCCTAAACTTTCCTAAAATC
1 AAAATCACATTTTAAC-CCCAAACTT-TCCAAAATCACATTTTGACCCTAAACTTTTCTAAAATC
* *
12598631 ACATTTTAACCTTAAAAATGTCC
64 ACATTTTAACCTTAAACATCTCC
* * ** * *
12598654 AAAATTACATTTTAACCCTTATATTTTTCCAAAATTACATTTTGACCCTCAAACTTCTCTAAAAT
1 AAAATCACATTTTAACCC-CA-AACTTTCCAAAATCACATTTTGACCCT-AAACTTTTCTAAAAT
* * *
12598719 CACATTTTAACTCTCAAACCTCTCT
63 CACATTTTAAC-CTTAAACATCTCC
* *
12598744 AAAATCACATTTTAA-CCCAAACTTTCCCAAAATTACATTGTT-ACCCTTAAACTTTTCCAAAAT
1 AAAATCACATTTTAACCCCAAACTTT-CCAAAATCACATT-TTGACCC-TAAACTTTTCTAAAAT
* *
12598807 TATATTTTAACCT
63 CACATTTTAACCT
12598820 CGAATTCTTC
Statistics
Matches: 211, Mismatches: 31, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
87 41 0.19
88 103 0.49
89 45 0.21
90 22 0.10
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (86 bp):
AAAATCACATTTTAACCCCAAACTTTCCAAAATCACATTTTGACCCTAAACTTTTCTAAAATCAC
ATTTTAACCTTAAACATCTCC
Found at i:12598833 original size:58 final size:59
Alignment explanation
Indices: 12598448--12598842 Score: 258
Period size: 58 Copynumber: 6.7 Consensus size: 59
12598438 GTTTTGTTCT
* * * * * * *
12598448 AAAATTATATTTTGACCCTCAAACTT-TTCTAAAATCATATTTTGACCCCTAAAC-TTTCTT
1 AAAATTACATTTT-AACCTCAAACTTCTTC-AAAATTACATTTTAACCCTTAAACTTTTC-C
* * * * *
12598508 AAAATCACATTTTAACCCTAAAACTT-TTCTAAAATCA-AATTTAACCGTTAAACTTTTCC
1 AAAATTACATTTTAA-CCTCAAACTTCTTC-AAAATTACATTTTAACCCTTAAACTTTTCC
* * * * * *
12598567 AAAATCACA-ATTAACTCCCAAACTTCTCCAAAATCACATTTTGACCC-TAAAC-TTTCC
1 AAAATTACATTTTAAC-CTCAAACTTCTTCAAAATTACATTTTAACCCTTAAACTTTTCC
* * ** * * * *
12598624 TAAAATCACATTTTAACCTTAAAAATGTCCAAAATTACATTTTAACCCTTATATTTTTCC
1 -AAAATTACATTTTAACCTCAAACTTCTTCAAAATTACATTTTAACCCTTAAACTTTTCC
* * * * * * *
12598684 AAAATTACATTTTGACCCTCAAACTTC-TCTAAAATCACATTTTAACTCTCAAACCTCTCT
1 AAAATTACATTTT-AACCTCAAACTTCTTC-AAAATTACATTTTAACCCTTAAACTTTTCC
* *
12598744 AAAATCACATTTTAACC-CAAACTT-TCCCAAAATTACATTGTT-ACCCTTAAACTTTTCC
1 AAAATTACATTTTAACCTCAAACTTCT-TCAAAATTACATT-TTAACCCTTAAACTTTTCC
* *
12598802 AAAATTATATTTTAACCTCGAA-TTCTTCAAAACTT-CATTTT
1 AAAATTACATTTTAACCTCAAACTTCTTCAAAA-TTACATTTT
12598843 CGACCCCGTT
Statistics
Matches: 264, Mismatches: 54, Indels: 37
0.74 0.15 0.10
Matches are distributed among these distances:
57 8 0.03
58 110 0.42
59 64 0.24
60 82 0.31
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTAACCTCAAACTTCTTCAAAATTACATTTTAACCCTTAAACTTTTCC
Found at i:12607018 original size:49 final size:49
Alignment explanation
Indices: 12606955--12607653 Score: 185
Period size: 49 Copynumber: 14.1 Consensus size: 49
12606945 ACAGGGAGGA
* *
12606955 TTGAGGCCGCAACGGCAAATCTAATACCCTGGAGATATGAAGGGAAAGG
1 TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* * * * *
12607004 TTGAGGCCGCAACGGCGAA-CTCGATACCTTAGA-AGATGTAATAGGAAAGG
1 TTGAGGCCGCAACGGCAAATCT-GATACCATGGAGATATG-AA-GGGAAAGG
* * * * *
12607054 TTGAGGCAGCAATGGCAAATCCGATACCATGAAGATTTGAAGGG-AAGG
1 TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* ** * ** * * * *
12607102 ATTGAGGTCGTGATGGTGAATCTGGTACCATGAAGATTTGAAGGGAAAGA
1 -TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* ** * * ** * * *
12607152 TTGAGGCCGCGACGGTGAATCCGATACCTTAAAAGATGTGATGGGAAAGA
1 TTGAGGCCGCAACGGCAAATCTGATACCAT-GGAGATATGAAGGGAAAGG
* * * * * * *
12607202 TTGAGGCCGCGATGACAAAT-TCGATACCTTTGAAGACATGATGGGAAAGG
1 TTGAGGCCGCAACGGCAAATCT-GATACC-ATGGAGATATGAAGGGAAAGG
* ** * ** * *
12607252 TTGAGGCCACAACAACGAA-CCAAGTACCATGAAGATTTGAAGGG-AAGG
1 TTGAGGCCGCAACGGCAAATCTGA-TACCATGGAGATATGAAGGGAAAGG
* * ** * * * * *
12607300 ATTAAGGCCGCGACGGTGAATCTGGTACCTTAGAAGATGTGATGGGAAAGG
1 -TTGAGGCCGCAACGGCAAATCTGATACCAT-GGAGATATGAAGGGAAAGG
** *** ** * * * * * * *
12607351 TTGAGGCCTTAACGATGAGCCCGGTACAATGAATATACGAAGGGAAAAG
1 TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* ** * * * * * *
12607400 TTGAGGCCGTAACGGTGAACCCGGTACCATGAAGATTTAAAGGG-AAGG
1 TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* * * * * * * * * *
12607448 ATTGAGGCCACGACGACGAATCCGGTACCTTAGAAGATGTGATGGGAAAGG
1 -TTGAGGCCGCAACGGCAAATCTGATACCAT-GGAGATATGAAGGGAAAGG
* * ** * * *
12607499 TTAAGGCCGCAACGACAAGCCTGGTTCCACGGAGATATGAAGGGAAAGG
1 TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
* * * * *** * *
12607548 TTG-GGACTGTAACGGCGAA-CTCGGTACCTAAAAAGATGTGATGGGAAAGG
1 TTGAGG-CCGCAACGGCAAATCT-GATACC-ATGGAGATATGAAGGGAAAGG
* ** * **
12607598 TTGAGGCTGCAACGGCGAACCCTG-TAGCATGGAGGCATGAAGGGAAAGG
1 TTGAGGCCGCAACGGC-AAATCTGATACCATGGAGATATGAAGGGAAAGG
12607647 TTGAGGC
1 TTGAGGC
12607654 TGTAACGGTG
Statistics
Matches: 489, Mismatches: 136, Indels: 50
0.72 0.20 0.07
Matches are distributed among these distances:
48 21 0.04
49 246 0.50
50 202 0.41
51 18 0.04
52 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (49 bp):
TTGAGGCCGCAACGGCAAATCTGATACCATGGAGATATGAAGGGAAAGG
Found at i:12607079 original size:50 final size:49
Alignment explanation
Indices: 12606955--12607358 Score: 249
Period size: 50 Copynumber: 8.2 Consensus size: 49
12606945 ACAGGGAGGA
* * * ** * * * *
12606955 TTGAGGCCGCAACGGCAAATCTAATACCCTGGAGATATGAAGGGAAAGG
1 TTGAGGCCGCGATGGCGAATCCGATACCTTGAAGATGTGATGGGAAAGG
* * * *
12607004 TTGAGGCCGCAACGGCGAA-CTCGATACCTTAGAAGATGTAATAGGAAAGG
1 TTGAGGCCGCGATGGCGAATC-CGATACCTT-GAAGATGTGATGGGAAAGG
* * * * * *
12607054 TTGAGGCAGCAATGGCAAATCCGATACCATGAAGATTTGAAGGG-AAGG
1 TTGAGGCCGCGATGGCGAATCCGATACCTTGAAGATGTGATGGGAAAGG
* * * * * * * * *
12607102 ATTGAGGTCGTGATGGTGAATCTGGTACCATGAAGATTTGAAGGGAAAGA
1 -TTGAGGCCGCGATGGCGAATCCGATACCTTGAAGATGTGATGGGAAAGG
* * * *
12607152 TTGAGGCCGCGACGGTGAATCCGATACCTTAAAAGATGTGATGGGAAAGA
1 TTGAGGCCGCGATGGCGAATCCGATACCTT-GAAGATGTGATGGGAAAGG
* * * **
12607202 TTGAGGCCGCGATGACAAATTCGATACCTTTGAAGACATGATGGGAAAGG
1 TTGAGGCCGCGATGGCGAATCCGATACC-TTGAAGATGTGATGGGAAAGG
* * *** * * * *
12607252 TTGAGGCCACAACAACGAA-CCAAGTACCATGAAGATTTGAAGGG-AAGG
1 TTGAGGCCGCGATGGCGAATCCGA-TACCTTGAAGATGTGATGGGAAAGG
* * * * *
12607300 ATTAAGGCCGCGACGGTGAATCTGGTACCTTAGAAGATGTGATGGGAAAGG
1 -TTGAGGCCGCGATGGCGAATCCGATACCTT-GAAGATGTGATGGGAAAGG
12607351 TTGAGGCC
1 TTGAGGCC
12607359 TTAACGATGA
Statistics
Matches: 275, Mismatches: 68, Indels: 23
0.75 0.19 0.06
Matches are distributed among these distances:
48 9 0.03
49 126 0.46
50 133 0.48
51 7 0.03
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (49 bp):
TTGAGGCCGCGATGGCGAATCCGATACCTTGAAGATGTGATGGGAAAGG
Found at i:12607221 original size:148 final size:148
Alignment explanation
Indices: 12606987--12607616 Score: 536
Period size: 148 Copynumber: 4.2 Consensus size: 148
12606977 AATACCCTGG
* * * * *
12606987 AGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAA-CTCGATACCTTAGAAGATGTAATAGGAA
1 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAATC-CGATACCTTAGAAGATGTGATGGGAA
* * * * * *
12607051 AGGTTGAGGCAGCAATGGCAAATCCGATACCATGAAGATTTGAAGGGAAGGATTGAGGTCGTGAT
65 AGGTTGAGGCCGCAATGACAAATCCGATACCATGAAGATATGAAGGGAAGGATTGAGGCCGTAAC
* *
12607116 GGTGAATCTGGTACCATGA
130 GGTGAACCAGGTACCATGA
* *
12607135 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGTGAATCCGATACCTTAAAAGATGTGATGGGAAA
1 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAATCCGATACCTTAGAAGATGTGATGGGAAA
* * * * * * **
12607200 GATTGAGGCCGCGATGACAAATTCGATACCTTTGAAGACATGATGGGAAAGG-TTGAGGCCACAA
66 GGTTGAGGCCGCAATGACAAATCCGATACC-ATGAAGATATGAAGGG-AAGGATTGAGGCCGTAA
*** *
12607264 CAACGAACCAAGTACCATGA
129 CGGTGAACCAGGTACCATGA
* * * * *
12607284 AGATTTGAAGGGAAGGATTAAGGCCGCGACGGTGAATCTGGTACCTTAGAAGATGTGATGGGAAA
1 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAATCCGATACCTTAGAAGATGTGATGGGAAA
** * ** ** * * * * *
12607349 GGTTGAGGCCTTAACGATGAGCCCGGTACAATGAATATACGAAGGGAA-AAGTTGAGGCCGTAAC
66 GGTTGAGGCCGCAATGACAAATCCGATACCATGAAGATATGAAGGGAAGGA-TTGAGGCCGTAAC
*
12607413 GGTGAACCCGGTACCATGA
130 GGTGAACCAGGTACCATGA
* * * * *
12607432 AGATTTAAAGGGAAGGATTGAGGCCACGACGACGAATCCGGTACCTTAGAAGATGTGATGGGAAA
1 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAATCCGATACCTTAGAAGATGTGATGGGAAA
* * * * * * * *
12607497 GGTTAAGGCCGCAACGAC-AAGCCTGGTTCCACGGAGATATGAAGGGAAAGG-TTG-GGACTGTA
66 GGTTGAGGCCGCAATGACAAATCC-GATACCATGAAGATATGAAGGG-AAGGATTGAGG-CCGTA
* **
12607559 ACGGCGAACTC-GGTACCTAAAA
128 ACGGTGAAC-CAGGTACC-ATGA
* * * * *
12607581 AGATGTGATGGGAAAGGTTGAGGCTGCAACGGCGAA
1 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAA
12607617 CCCTGTAGCA
Statistics
Matches: 382, Mismatches: 89, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
147 7 0.02
148 227 0.59
149 144 0.38
150 4 0.01
ACGTcount: A:0.33, C:0.16, G:0.32, T:0.19
Consensus pattern (148 bp):
AGATTTGAAGGGAAAGATTGAGGCCGCGACGGCGAATCCGATACCTTAGAAGATGTGATGGGAAA
GGTTGAGGCCGCAATGACAAATCCGATACCATGAAGATATGAAGGGAAGGATTGAGGCCGTAACG
GTGAACCAGGTACCATGA
Found at i:12607329 original size:99 final size:99
Alignment explanation
Indices: 12606972--12607358 Score: 291
Period size: 99 Copynumber: 3.9 Consensus size: 99
12606962 CGCAACGGCA
* * * * * * * * *
12606972 AATCTAATACCCTGGAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAA-CTCGATACCTTA
1 AATCCAATACCATGAAGATTTGAAGGG-AAGGATTGAGGCCGCGATGGTGAATCT-GGTACCTTT
* * * *** *
12607035 GAAGATGTAATAGGAAAGGTTGAGG-CAGCAATGGCA
64 GAAGATATGATGGGAAAGGTTGAGGCCA-CAACAACG
* * * *
12607071 AATCCGATACCATGAAGATTTGAAGGGAAGGATTGAGGTCGTGATGGTGAATCTGGTACC-ATGA
1 AATCCAATACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTTTGA
* * * * * ***
12607135 AGATTTGAAGGGAAAGATTGAGGCCGCGACGGTG
66 AGATATGATGGGAAAGGTTGAGGCCACAACAACG
* * * * * * *** *
12607169 AATCCGATACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCGATGACAAAT-TCGATACCTTT
1 AATCCAATACCAT-GAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCT-GGTACCTTT
*
12607233 GAAGACATGATGGGAAAGGTTGAGGCCACAACAACG
64 GAAGATATGATGGGAAAGGTTGAGGCCACAACAACG
* * *
12607269 AA-CCAAGTACCATGAAGATTTGAAGGGAAGGATTAAGGCCGCGACGGTGAATCTGGTACCTTAG
1 AATCCAA-TACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTTTG
*
12607333 AAGATGTGATGGGAAAGGTTGAGGCC
65 AAGATATGATGGGAAAGGTTGAGGCC
12607359 TTAACGATGA
Statistics
Matches: 221, Mismatches: 59, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
98 41 0.19
99 142 0.64
100 38 0.17
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (99 bp):
AATCCAATACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTTTGA
AGATATGATGGGAAAGGTTGAGGCCACAACAACG
Found at i:12607383 original size:99 final size:98
Alignment explanation
Indices: 12607078--12607508 Score: 294
Period size: 99 Copynumber: 4.4 Consensus size: 98
12607068 GCAAATCCGA
* * * *
12607078 TACCATGAAGATTTGAAGGGAAGGATTGAGGTCGTGATGGTGAATCTGGTACCATGAAGATTTGA
1 TACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTTGAAGATATGA
* * * * * * *
12607143 AGGGAAAGATTGAGGCCGCGACGGTGAATCCGA
66 TGGGAAAGGTTGAGGCCACAACGATGAACCCGG
* * * * * *** * *
12607176 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCGATGACAAAT-TCGATACCTTTGAAGACA
1 TACCAT-GAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCT-GGTACC-TTGAAGATA
* * **
12607240 TGATGGGAAAGGTTGAGGCCACAACAACGAACCAAG
63 TGATGGGAAAGGTTGAGGCCACAACGATGAACCCGG
* * *
12607276 TACCATGAAGATTTGAAGGGAAGGATTAAGGCCGCGACGGTGAATCTGGTACCTTAGAAGATGTG
1 TACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTT-GAAGATATG
** *
12607341 ATGGGAAAGGTTGAGGCCTTAACGATGAGCCCGG
65 ATGGGAAAGGTTGAGGCCACAACGATGAACCCGG
* * ** * ** * * * * * *
12607375 TACAATGAATATACGAAGGGAA-AAGTTGAGGCCGTAACGGTGAACCCGGTACCATGAAGATTTA
1 TACCATGAAGATTTGAAGGGAAGGA-TTGAGGCCGCGATGGTGAATCTGGTACCTTGAAGATATG
* * * *
12607439 AAGGG-AAGGATTGAGGCCACGACGACGAATCCGG
65 ATGGGAAAGG-TTGAGGCCACAACGATGAACCCGG
* * * *
12607473 TACCTTAGAAGATGTGATGGGAAAGG-TTAAGGCCGC
1 TACCAT-GAAGATTTGAAGGG-AAGGATTGAGGCCGC
12607509 AACGACAAGC
Statistics
Matches: 249, Mismatches: 74, Indels: 19
0.73 0.22 0.06
Matches are distributed among these distances:
97 4 0.02
98 42 0.17
99 164 0.66
100 39 0.16
ACGTcount: A:0.33, C:0.15, G:0.32, T:0.20
Consensus pattern (98 bp):
TACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGATGGTGAATCTGGTACCTTGAAGATATGA
TGGGAAAGGTTGAGGCCACAACGATGAACCCGG
Found at i:12607585 original size:99 final size:99
Alignment explanation
Indices: 12607470--12607666 Score: 254
Period size: 99 Copynumber: 2.0 Consensus size: 99
12607460 ACGACGAATC
* * * *
12607470 CGGTACCTTAGAAGATGTGATGGGAAAGGTTAAGGCCGCAACGAC-AAGCCTGGTTCCACGGAGA
1 CGGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCT-GTACCACGGAGA
*
12607534 TATGAAGGGAAAGGTTG-GGACTGTAACGGCGAACT
65 CATGAAGGGAAAGGTTGAGG-CTGTAACGGCGAACT
* * * * * *
12607569 CGGTACCTAAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGGCGAACCCTGTAGCATGGAGGC
1 CGGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCTGTACCACGGAGAC
*
12607634 ATGAAGGGAAAGGTTGAGGCTGTAACGGTGAAC
66 ATGAAGGGAAAGGTTGAGGCTGTAACGGCGAAC
12607667 CTAGCACCTT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
99 77 0.92
100 7 0.08
ACGTcount: A:0.30, C:0.16, G:0.36, T:0.18
Consensus pattern (99 bp):
CGGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACGACGAACCCTGTACCACGGAGAC
ATGAAGGGAAAGGTTGAGGCTGTAACGGCGAACT
Found at i:12609816 original size:89 final size:87
Alignment explanation
Indices: 12609686--12609993 Score: 295
Period size: 89 Copynumber: 3.5 Consensus size: 87
12609676 GACCTCTAAG
* * * *
12609686 CTTTCCCAAAATCACATTTTGA-CCGTAAAACTTTTCTAAAATTACATTTTGACTCC-CAAACTT
1 CTTT-CCAAAATCACATTTT-ACCCCTAAAACTTTCCCAAAATCACATTTTGAC-CCTCAAACTT
*
12609749 TTCCAAAATCACATTTGACCCCTAAA
63 TTCCAAAATCACATTTAACCCC-AAA
* * *
12609775 GTTCTCCAAAATCACATTTTGACCCCT-AAACTTTCCCAAAATCACATTTTAACCCTAAAACTTT
1 CTT-TCCAAAATCACATTTT-ACCCCTAAAACTTTCCCAAAATCACATTTTGACCCTCAAACTTT
* *
12609839 TCTAAAATTACATTTTAACCCCAAA
64 TCCAAAATCACA-TTTAACCCCAAA
* * * * * *
12609864 CTTTTCCAAAATTACATTTTAACCCTCATAC-TTCTCCAAAATCACATTTTGACCCTCAAACCTC
1 C-TTTCCAAAATCACATTTTACCCCTAAAACTTTC-CCAAAATCACATTTTGACCCTCAAACTTT
12609928 TCCAAAATCACATTTTAA-CCCAAA
64 TCCAAAATCACA-TTTAACCCCAAA
* * *
12609952 CTTTCCTAAAATTACACTTTTA-CCCTTAAACTTTTCCAAAAT
1 CTTTCC-AAAATCACA-TTTTACCCCTAAAACTTTCCCAAAAT
12609994 TATATTTCAA
Statistics
Matches: 186, Mismatches: 23, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
87 5 0.03
88 40 0.22
89 127 0.68
90 14 0.08
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (87 bp):
CTTTCCAAAATCACATTTTACCCCTAAAACTTTCCCAAAATCACATTTTGACCCTCAAACTTTTC
CAAAATCACATTTAACCCCAAA
Found at i:12609819 original size:119 final size:117
Alignment explanation
Indices: 12609663--12610037 Score: 440
Period size: 119 Copynumber: 3.2 Consensus size: 117
12609653 ATTTTGTTCT
* * * *
12609663 AAAATTACATTTTGACCTCTAAGCTTTCCCAAAATCACATTTTGACCGTAAAACTTTTCTAAAAT
1 AAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTTAACC-TAAAACTTTTCTAAAAT
* *
12609728 TACATTTTGACTCCCAAACTTTTCCAAAATCACATTTGACCCCT-AAAGTTCTCC
65 TACATTTT-AC-CCCAAACTTTTCCAAAATCACATTTGAACCCTCAAACTTCTCC
12609782 AAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTTAACCCTAAAACTTTTCTAAAAT
1 AAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTTAA-CCTAAAACTTTTCTAAAAT
* * *
12609847 TACATTTTAACCCCAAACTTTTCCAAAATTACATTTTAACCCTCATACTTCTCC
65 TACATTTT-ACCCCAAACTTTTCCAAAATCACATTTGAACCCTCAAACTTCTCC
* * *
12609901 AAAATCACATTTTGA-CCCTCAAAC-CTCTCCAAAATCACATTTTAACC-CAAACTTTCCTAAAA
1 AAAATCACATTTTGACCCCT-AAACTTTC-CCAAAATCACATTTTAACCTAAAACTTTTCTAAAA
* * * * *
12609963 TTACACTTTTACCCTTAAACTTTTCCAAAATTATATTTCAACCC-CAAA-TTCTCT
64 TTACA-TTTTACCC-CAAACTTTTCCAAAATCACATTTGAACCCTCAAACTTCTCC
*
12610017 AAAA-CTTCATTTTCGACCCCT
1 AAAATC-ACATTTT-GACCCCT
12610038 TTTTTTTCCT
Statistics
Matches: 228, Mismatches: 19, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
115 1 0.00
116 15 0.07
117 27 0.12
118 71 0.31
119 112 0.49
120 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (117 bp):
AAAATCACATTTTGACCCCTAAACTTTCCCAAAATCACATTTTAACCTAAAACTTTTCTAAAATT
ACATTTTACCCCAAACTTTTCCAAAATCACATTTGAACCCTCAAACTTCTCC
Found at i:12609995 original size:30 final size:30
Alignment explanation
Indices: 12609663--12609993 Score: 322
Period size: 30 Copynumber: 11.2 Consensus size: 30
12609653 ATTTTGTTCT
* * *
12609663 AAAATTACATTTTGA-CCTCTAAGCTTTCCC
1 AAAATCACATTTTGACCCTC-AAACTTTTCC
* * *
12609693 AAAATCACATTTTGACCGTAAAACTTTTCT
1 AAAATCACATTTTGACCCTCAAACTTTTCC
*
12609723 AAAATTACATTTTGACTCC-CAAACTTTTCC
1 AAAATCACATTTTGAC-CCTCAAACTTTTCC
* *
12609753 AAAATCACA-TTTGACCC-CTAAAGTTCTCC
1 AAAATCACATTTTGACCCTC-AAACTTTTCC
*
12609782 AAAATCACATTTTGACCC-CTAAACTTTCCC
1 AAAATCACATTTTGACCCTC-AAACTTTTCC
* * *
12609812 AAAATCACATTTTAACCCTAAAACTTTTCT
1 AAAATCACATTTTGACCCTCAAACTTTTCC
* *
12609842 AAAATTACATTTTAACCC-CAAACTTTTCC
1 AAAATCACATTTTGACCCTCAAACTTTTCC
* * * *
12609871 AAAATTACATTTTAACCCTCATACTTCTCC
1 AAAATCACATTTTGACCCTCAAACTTTTCC
* *
12609901 AAAATCACATTTTGACCCTCAAACCTCTCC
1 AAAATCACATTTTGACCCTCAAACTTTTCC
*
12609931 AAAATCACATTTT-AACC-CAAAC-TTTCC
1 AAAATCACATTTTGACCCTCAAACTTTTCC
* *
12609958 TAAAATTACACTTTT-ACCCTTAAACTTTTCC
1 -AAAATCACA-TTTTGACCCTCAAACTTTTCC
12609989 AAAAT
1 AAAAT
12609994 TATATTTCAA
Statistics
Matches: 257, Mismatches: 34, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.02
28 16 0.06
29 60 0.23
30 169 0.66
31 8 0.03
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAATCACATTTTGACCCTCAAACTTTTCC
Found at i:12611922 original size:17 final size:18
Alignment explanation
Indices: 12611895--12611940 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
12611885 GTGATTTGAC
12611895 AAAAATATAAATTAAAT-A
1 AAAAAT-TAAATTAAATGA
12611913 AAAAATTAAA-TAAATGA
1 AAAAATTAAATTAAATGA
12611930 ATAAAA-TAAAT
1 A-AAAATTAAAT
12611941 CAAGGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.20
17 10 0.40
18 10 0.40
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAAATTAAATTAAATGA
Found at i:12617857 original size:25 final size:26
Alignment explanation
Indices: 12617820--12617869 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
12617810 TTCTCATCCT
12617820 AATTTTACCCTAG-TAAAATTTTGAC
1 AATTTTACCCTAGATAAAATTTTGAC
* *
12617845 AATTTTGCTCTAGATAAAATTTTGA
1 AATTTTACCCTAGATAAAATTTTGA
12617870 GAAAATTCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (26 bp):
AATTTTACCCTAGATAAAATTTTGAC
Found at i:12624149 original size:40 final size:43
Alignment explanation
Indices: 12624103--12624221 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
12624093 GCTTGAATTA
* * *
12624103 ATACACCGACTTATAGCCTACTAAGCCAAT-GCTTGAGTTT-T
1 ATACACCGGCTTATAGCCTGCTAAGCCAATAGCTTGAATTTCT
* **
12624144 A-ACACCGGCATATAGCCTGCTAAG-CTGTAGCTTGAATTTCT
1 ATACACCGGCTTATAGCCTGCTAAGCCAATAGCTTGAATTTCT
*
12624185 ATTACACCGGCTTATAGCCTGCTAAGCC-GTAGCTTGA
1 A-TACACCGGCTTATAGCCTGCTAAGCCAATAGCTTGA
12624222 GTTGATTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 2 0.03
40 29 0.44
41 3 0.05
43 31 0.47
44 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
ATACACCGGCTTATAGCCTGCTAAGCCAATAGCTTGAATTTCT
Found at i:12624201 original size:43 final size:40
Alignment explanation
Indices: 12624093--12624221 Score: 136
Period size: 40 Copynumber: 3.1 Consensus size: 40
12624083 CCTTAGTTTG
* * * **
12624093 GCTTGAA-TTAATACACCGACTTATAGCCTACTAAGCCAA
1 GCTTGAATTTTATACACCGGCTTATAGCCTGCTAAGCGTA
* *
12624132 TGCTTGAGTTTTA-ACACCGGCATATAGCCTGCTAAGCTGTA
1 -GCTTGAATTTTATACACCGGCTTATAGCCTGCTAAGC-GTA
12624173 GCTTGAATTTCTATTACACCGGCTTATAGCCTGCTAAGCCGTA
1 GCTTGAATTT-TA-TACACCGGCTTATAGCCTGCTAAG-CGTA
12624216 GCTTGA
1 GCTTGA
12624222 GTTGATTAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
40 36 0.49
41 6 0.08
43 31 0.42
44 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (40 bp):
GCTTGAATTTTATACACCGGCTTATAGCCTGCTAAGCGTA
Found at i:12625110 original size:21 final size:20
Alignment explanation
Indices: 12625064--12625102 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
12625054 AACAAAACCA
*
12625064 AATGCAGCCACACTAGAATCG
1 AATGCAGCCACAC-ACAATCG
12625085 AATGCAGCCACA-ACAATC
1 AATGCAGCCACACACAATC
12625103 TGCAATGCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.31, G:0.15, T:0.13
Consensus pattern (20 bp):
AATGCAGCCACACACAATCG
Found at i:12640692 original size:27 final size:27
Alignment explanation
Indices: 12640641--12640697 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
12640631 CCCGATTGAC
12640641 TTGGTTCAATTGATTTGGGTGTTGGGT
1 TTGGTTCAATTGATTTGGGTGTTGGGT
*
12640668 TTGGTTCAATTAGGTTTGGGT-TTGGGT
1 TTGGTTCAATT-GATTTGGGTGTTGGGT
12640695 TTG
1 TTG
12640698 TAGTTTGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.11, C:0.04, G:0.37, T:0.49
Consensus pattern (27 bp):
TTGGTTCAATTGATTTGGGTGTTGGGT
Found at i:12649358 original size:11 final size:10
Alignment explanation
Indices: 12649338--12649369 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
12649328 ATTTTGATGG
12649338 ATTATCATTT
1 ATTATCATTT
12649348 ATTATTCATTT
1 ATTA-TCATTT
12649359 ATTATCATTT
1 ATTATCATTT
12649369 A
1 A
12649370 GATGGACATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (10 bp):
ATTATCATTT
Found at i:12654660 original size:15 final size:15
Alignment explanation
Indices: 12654640--12654687 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
12654630 TTAGGTTTGA
*
12654640 GTTTAAGGTTTTAAG
1 GTTTAAGATTTTAAG
12654655 GTTTAAGATTTTAAG
1 GTTTAAGATTTTAAG
* *
12654670 ATTTAAAATTTT-AG
1 GTTTAAGATTTTAAG
12654684 GTTT
1 GTTT
12654688 TAGGGGTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (15 bp):
GTTTAAGATTTTAAG
Found at i:12656062 original size:87 final size:85
Alignment explanation
Indices: 12655957--12656114 Score: 253
Period size: 87 Copynumber: 1.8 Consensus size: 85
12655947 TGCATAAGAA
* *
12655957 TGAGTTTTTATTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGACGGACTTGAT
1 TGAGTTTTTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGA-AGACTTGAT
12656022 GAATTCATCGACTTGAGAGGT
65 GAATTCATCGACTTGAGAGGT
* * *
12656043 TGAGTTTATTACTCTTAATGAGTTCATATCCCAGATTTTGGGTGGTCCTATTGAGAAGACTTGAT
1 TGAGTTT-TTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGAAGACTTGAT
12656108 GAATTCA
65 GAATTCA
12656115 CCGAACTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
86 22 0.33
87 44 0.67
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (85 bp):
TGAGTTTTTACTCTTAATGAATTCATAGCCCAAATTTTGGGTGGTCCTATTGAGAAGACTTGATG
AATTCATCGACTTGAGAGGT
Found at i:12664183 original size:45 final size:44
Alignment explanation
Indices: 12664112--12664232 Score: 134
Period size: 45 Copynumber: 2.7 Consensus size: 44
12664102 ATGGTTGAAG
* * * *
12664112 GATGCCATGGTGTCTTGCAACCATGGTCTTATTTATTCTCGACTC
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCTC-ACTA
* *
12664157 GATGCCATAGTGTCTTTCAACTATGGTATTATTTATTTTCACTA
1 GATGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCTCACTA
* ** *
12664201 TAGTATCATAGTGTCTTTCAATTATGGTCTTA
1 GA-TGCCATAGTGTCTTTCAACTATGGTCTTA
12664233 ATCATTTACT
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 4 0.06
45 60 0.94
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (44 bp):
GATGCCATAGTGTCTTTCAACTATGGTCTTATTTATTCTCACTA
Found at i:12665057 original size:21 final size:22
Alignment explanation
Indices: 12665014--12665055 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
12665004 TTTATTCATT
*
12665014 TATTAATATTTTAACATTAAAA
1 TATTAATACTTTAACATTAAAA
12665036 TATT-ATACTTTAAC-TTAAAA
1 TATTAATACTTTAACATTAAAA
12665056 ATCCTACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TATTAATACTTTAACATTAAAA
Found at i:12666926 original size:31 final size:31
Alignment explanation
Indices: 12666888--12666956 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
12666878 ATATGATATT
*
12666888 TAAACTTGACA-TTTTTTGCTAATTTGGTACC
1 TAAACTTGACACTTTTTT-CTAAGTTGGTACC
* *
12666919 TAAACTTGACACTTTTTTTTAAGTTGGTACT
1 TAAACTTGACACTTTTTTCTAAGTTGGTACC
12666950 TAAACTT
1 TAAACTT
12666957 TTTGGGGTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (31 bp):
TAAACTTGACACTTTTTTCTAAGTTGGTACC
Found at i:12667221 original size:32 final size:29
Alignment explanation
Indices: 12667163--12667237 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
12667153 TTTAATAAAT
*
12667163 TTAGGTACCAAATTGAATCTAAAAAAAAAAGC
1 TTAGGTACCAAATTGAATC---CAAAAAAAGC
* * *
12667195 TTAGGTACCAAATTGAGTCCATAAAAAGT
1 TTAGGTACCAAATTGAATCCAAAAAAAGC
12667224 TTAGGTACCAAATT
1 TTAGGTACCAAATT
12667238 TAAAAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
29 21 0.54
32 18 0.46
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (29 bp):
TTAGGTACCAAATTGAATCCAAAAAAAGC
Found at i:12667593 original size:27 final size:28
Alignment explanation
Indices: 12667563--12667623 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
12667553 TGGCATTCTT
* *
12667563 TAATAAAAACATAT-TTTTTAAAAATTA
1 TAATAAAAACATATATTATAAAAAATTA
*
12667590 TAAT-ATAACATATATTATAAAAAATTA
1 TAATAAAAACATATATTATAAAAAATTA
12667617 TATATAA
1 TA-ATAA
12667624 TTAAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
26 8 0.29
27 17 0.61
28 2 0.07
29 1 0.04
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (28 bp):
TAATAAAAACATATATTATAAAAAATTA
Found at i:12667619 original size:17 final size:17
Alignment explanation
Indices: 12667599--12667632 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12667589 ATAATATAAC
*
12667599 ATATATTATAAAAAATT
1 ATATATAATAAAAAATT
*
12667616 ATATATAATTAAAAATT
1 ATATATAATAAAAAATT
12667633 TTAAAAATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATAATAAAAAATT
Found at i:12667796 original size:35 final size:35
Alignment explanation
Indices: 12667756--12667831 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 35
12667746 GACCAAATTC
* *
12667756 TCATTATGTACAAAGACAAA-TGTAGAAATTTTATA
1 TCATTATGTACAAAGACAAACT-CAGAAAATTTATA
12667791 TCATTA--TACAAAGACAAACTCAGAAAATTTATA
1 TCATTATGTACAAAGACAAACTCAGAAAATTTATA
*
12667824 TCAATATG
1 TCATTATG
12667832 CAATGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 28 0.80
34 1 0.03
35 6 0.17
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (35 bp):
TCATTATGTACAAAGACAAACTCAGAAAATTTATA
Found at i:12667849 original size:33 final size:33
Alignment explanation
Indices: 12667764--12667857 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
12667754 TCTCATTATG
* * *
12667764 TACAAAG-ACAAATGTAGAAATTTTATATCATTA
1 TACAAAGAAAAAAT-TAGAAAATTTATATCAATA
* * *
12667797 TACAAAGACAAACTCAGAAAATTTATATCAATA
1 TACAAAGAAAAAATTAGAAAATTTATATCAATA
* * *
12667830 TGCAATGAAAAAATTAGAAAATTCATAT
1 TACAAAGAAAAAATTAGAAAATTTATAT
12667858 TACTATGAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
33 45 0.94
34 3 0.06
ACGTcount: A:0.52, C:0.11, G:0.09, T:0.29
Consensus pattern (33 bp):
TACAAAGAAAAAATTAGAAAATTTATATCAATA
Found at i:12668766 original size:22 final size:20
Alignment explanation
Indices: 12668725--12668837 Score: 76
Period size: 20 Copynumber: 5.8 Consensus size: 20
12668715 AATGATAAAA
*
12668725 AATAAAAAATATTAAAATTT
1 AATAAAAAATATAAAAATTT
12668745 AATAAAAAATATAAAAATATT
1 AATAAAAAATATAAAAAT-TT
** *
12668766 --TAAAATTTATTTAAAATTT
1 AATAAAAAATA-TAAAAATTT
*
12668785 AA-AAAAATTATAAAAA--T
1 AATAAAAAATATAAAAATTT
* * * *
12668802 CATAAAATATATAGAAATAT
1 AATAAAAAATATAAAAATTT
12668822 AA-AAAAAATTATAAAA
1 AATAAAAAA-TATAAAA
12668838 TTATAAAATT
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
17 2 0.03
18 11 0.15
19 19 0.26
20 38 0.53
21 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (20 bp):
AATAAAAAATATAAAAATTT
Found at i:12668789 original size:28 final size:29
Alignment explanation
Indices: 12668719--12668774 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 29
12668709 GGCAAAAATG
12668719 ATAAAAAATA-AAAAATA-TTAAAATTTA
1 ATAAAAAATATAAAAATATTTAAAATTTA
12668746 ATAAAAAATATAAAAATATTTAAAATTTA
1 ATAAAAAATATAAAAATATTTAAAATTTA
12668775 TTTAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 10 0.37
28 7 0.26
29 10 0.37
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAAAAAATATAAAAATATTTAAAATTTA
Found at i:12669416 original size:86 final size:88
Alignment explanation
Indices: 12669319--12669568 Score: 242
Period size: 90 Copynumber: 2.8 Consensus size: 88
12669309 CAAAAAGGCT
* *
12669319 TTTTTTATGCATTTGACAGTTCAAGTACCCAATTGAGTG-AAAAAAATCAAGAATTTAATT-TTT
1 TTTTTAATGCATTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAATCAAGAAGTTAATTCTTT
12669382 ATTTTTTTTT-AAGTTTGAG-GAC
66 -TTTTTTTTTAAAGTTTGAGTGAC
* * * ** **
12669404 ATTTTTAATGCATTTGAAAGTTTAAGCACCCAATTGAGTGCAAAAAAGGCAAGGGGTTAATTGCT
1 -TTTTTAATGCATTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAATCAAGAAGTTAATT-CT
*
12669469 TTTTTTTTTTTAAAAGTTTGAGTGTC
64 TTTTTTTTTTT-AAAGTTTGAGTGAC
* * * * * *
12669495 TTTTTAATACATTTTGGCAATTCAAATATCCAATTGAGTGCAAAAAAAT-AA-AGGCTTAATTGC
1 TTTTTAATGCA-TTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAATCAAGAAG-TTAATT-C
*
12669558 CTTTTTTTTTT
63 TTTTTTTTTTT
12669569 AATTTGAGGG
Statistics
Matches: 134, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
86 35 0.26
87 16 0.12
88 9 0.07
89 5 0.04
90 39 0.29
91 30 0.22
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (88 bp):
TTTTTAATGCATTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAATCAAGAAGTTAATTCTTT
TTTTTTTTTAAAGTTTGAGTGAC
Found at i:12669508 original size:90 final size:86
Alignment explanation
Indices: 12669319--12669508 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 86
12669309 CAAAAAGGCT
* * * * *
12669319 TTTTTTATGCATTTGACAGTTCAAGTACCCAATTGAGTGAAAAAAATCAAGAATTTAATTTTTAT
1 TTTTTAATGCATTTGAAAGTTCAAGCACCCAATTGAGTGAAAAAAAGCAAGAAGTTAATTTTTAT
12669384 TTTTTTTTAAGTTTGAGGACA
66 TTTTTTTTAAGTTTGAGGACA
* * **
12669405 TTTTTAATGCATTTGAAAGTTTAAGCACCCAATTGAGTGCAAAAAAGGCAAGGGGTTAATTGCTT
1 TTTTTAATGCATTTGAAAGTTCAAGCACCCAATTGAGTG-AAAAAAAGCAAGAAGTTAATT--TT
*
12669470 T-TTTTTTTTTAAAAGTTTGAGTGTC-
63 TATTTTTTTTT--AAGTTTGAG-GACA
*
12669495 TTTTTAATACATTT
1 TTTTTAATGCATTT
12669509 TGGCAATTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
86 35 0.40
87 16 0.18
88 9 0.10
89 3 0.03
90 22 0.25
91 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (86 bp):
TTTTTAATGCATTTGAAAGTTCAAGCACCCAATTGAGTGAAAAAAAGCAAGAAGTTAATTTTTAT
TTTTTTTTAAGTTTGAGGACA
Found at i:12674594 original size:24 final size:22
Alignment explanation
Indices: 12674568--12674610 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
12674558 ACAGTTGGTT
12674568 TTTTTTTATAAAAATCAAAATTA
1 TTTTTTTATAAAAAT-AAAATTA
*
12674591 TTTTTTTATTAAAATAAAAT
1 TTTTTTTATAAAAATAAAAT
12674611 ATAAAACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTTTTATAAAAATAAAATTA
Found at i:12681870 original size:14 final size:14
Alignment explanation
Indices: 12681851--12681880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12681841 GAATAGATTT
12681851 TTAATTAAATAAAA
1 TTAATTAAATAAAA
*
12681865 TTAATTAATTAAAA
1 TTAATTAAATAAAA
12681879 TT
1 TT
12681881 TTTAAATCTA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATTAAATAAAA
Found at i:12697529 original size:23 final size:23
Alignment explanation
Indices: 12697502--12697545 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
12697492 TTTAATATTT
12697502 TAATTA-ATATTTTTATAAAAAAA
1 TAATTATATATTTTTA-AAAAAAA
12697525 TAATTATATATTTTTAAAAAA
1 TAATTATATATTTTTAAAAAA
12697546 TATTATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTATATATTTTTAAAAAAAA
Found at i:12698168 original size:31 final size:31
Alignment explanation
Indices: 12698128--12698212 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
12698118 GTTAAAAGTG
*
12698128 TATAATTGAATTAAAATCAAAGTTTCATATA
1 TATAATTGAACTAAAATCAAAGTTTCATATA
* * * *
12698159 TATATTTGAACTACAATCAAAGTTTCATGTG
1 TATAATTGAACTAAAATCAAAGTTTCATATA
*
12698190 TATAATT--ACATCAAATCAAAGTT
1 TATAATTGAAC-TAAAATCAAAGTT
12698213 GATGAACAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
29 2 0.04
30 11 0.24
31 32 0.71
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (31 bp):
TATAATTGAACTAAAATCAAAGTTTCATATA
Found at i:12703121 original size:23 final size:25
Alignment explanation
Indices: 12703095--12703140 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12703085 CCAATTAGGG
12703095 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
12703118 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
12703141 TGAATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:12706390 original size:20 final size:19
Alignment explanation
Indices: 12706365--12706405 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
12706355 ACATAAATGT
* *
12706365 AATAAATAAATAAAACCACA
1 AATAAAGAAAGAAAACC-CA
12706385 AATAAAGAAAGAAAACCCA
1 AATAAAGAAAGAAAACCCA
12706404 AA
1 AA
12706406 AGACAGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.71, C:0.15, G:0.05, T:0.10
Consensus pattern (19 bp):
AATAAAGAAAGAAAACCCA
Found at i:12713221 original size:42 final size:42
Alignment explanation
Indices: 12713108--12713224 Score: 144
Period size: 42 Copynumber: 2.8 Consensus size: 42
12713098 CGAGTGTTAT
***
12713108 AGATTATGTTTAAAAGGAAGACTTGTGACTTAAAAAGAGCATG
1 AGATTATGTTT-AAAGGAAGACTTGTGACTCGGAAAGAGCATG
* * * *
12713151 AGATTATGTTTTAAGGAAGACTCGTGACTCGGGATGAGCATG
1 AGATTATGTTTAAAGGAAGACTTGTGACTCGGAAAGAGCATG
* *
12713193 AGATTACGTTTAAAGGAAGACTTATGACTCGG
1 AGATTATGTTTAAAGGAAGACTTGTGACTCGG
12713225 TTGTTATATG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 52 0.83
43 11 0.17
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.28
Consensus pattern (42 bp):
AGATTATGTTTAAAGGAAGACTTGTGACTCGGAAAGAGCATG
Found at i:12719925 original size:40 final size:41
Alignment explanation
Indices: 12719865--12720041 Score: 248
Period size: 41 Copynumber: 4.3 Consensus size: 41
12719855 ACTTGATGTA
* * *
12719865 TAAATGGAAGACTCATGTCTCGGGATGAGCAT-AAACTACAT
1 TAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGAGTATAT
*
12719906 TAAAGGAAGATTCATGTCTCGGGATGAGCATGAGAGTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAGTATAT
*
12719947 TAAAAGAAGACTCATGTCTCGGGATGAGCATGAGAGTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAGTATAT
* * *
12719988 TAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATGTT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAGTAT-AT
12720030 TAAAAGGAAGAC
1 T-AAAGGAAGAC
12720042 GTGACTCGAA
Statistics
Matches: 123, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 26 0.21
41 85 0.69
42 2 0.02
43 10 0.08
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGAGTATAT
Found at i:12720062 original size:82 final size:84
Alignment explanation
Indices: 12719904--12720134 Score: 229
Period size: 82 Copynumber: 2.8 Consensus size: 84
12719894 CATAAACTAC
* * * *
12719904 ATTAAAGGAAGATTCATGTCTCGGGATGAGCATGAGAGTAT-ATTAAAA-GAAGACTCATGTCTC
1 ATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTTAAAAGGAAGAC-CATGACTC
** * *
12719967 GGGATGAGCATGAGAGTAT-
65 GAAAAGAGAATGAGAGTATG
* *
12719986 ATTAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATGTTTAAAAGGAAGA-CGTGACTCG
1 ATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTTAAAAGGAAGACCATGACTCG
*
12720050 AAAAGAGAATGAGATTATG
66 AAAAGAGAATGAGAGTATG
* * * * ** * * *
12720069 TTTTAAGGAAGACTCTTGACTTAGGATGAGCATGAGATTACGTTT-AAAGGAATACTTATGACTC
1 ATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTTAAAAGGAAGAC-CATGACTC
12720133 GA
65 GA
12720135 TTATTTTATG
Statistics
Matches: 122, Mismatches: 22, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
82 66 0.54
83 43 0.35
84 13 0.11
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.27
Consensus pattern (84 bp):
ATTAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTTAAAAGGAAGACCATGACTCG
AAAAGAGAATGAGAGTATG
Found at i:12723900 original size:13 final size:13
Alignment explanation
Indices: 12723884--12723921 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
12723874 ATTTATTAAT
12723884 AATATTTTT-TATA
1 AATATTTTTGT-TA
12723897 AATATTTTTGTTA
1 AATATTTTTGTTA
*
12723910 AATAATTTTGTT
1 AATATTTTTGTT
12723922 TTTCATCTAT
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:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (13 bp):
AATATTTTTGTTA
Found at i:12727604 original size:31 final size:29
Alignment explanation
Indices: 12727524--12727612 Score: 97
Period size: 31 Copynumber: 2.9 Consensus size: 29
12727514 TAGGGAGGGT
*
12727524 TTAATCAAACTTTCAAAAACTTTCAGAGGC
1 TTAATAAAACTTTCAAAAA-TTTCAGAGGC
* * *
12727554 TTAATAAGAATTTTTAAAAATTATGAGAGGC
1 TTAATAA-AACTTTCAAAAATT-TCAGAGGC
*
12727585 TTAATTTAAACTTTCAAAAATTTCAGAG
1 TTAA-TAAAACTTTCAAAAATTTCAGAG
12727613 CCGTAATGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
30 13 0.27
31 33 0.69
32 2 0.04
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (29 bp):
TTAATAAAACTTTCAAAAATTTCAGAGGC
Found at i:12736692 original size:24 final size:24
Alignment explanation
Indices: 12736629--12736683 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
12736619 AATCTGTCTA
*
12736629 GGCTCATAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
12736653 GGCTCGTAAGAGCTAATCATTCTG
1 GGCTCGTAAGAGCTAATCATTCTG
12736677 GGCTCGT
1 GGCTCGT
12736684 GTGGGCTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (24 bp):
GGCTCGTAAGAGCTAATCATTCTG
Found at i:12738351 original size:102 final size:98
Alignment explanation
Indices: 12738179--12738370 Score: 276
Period size: 102 Copynumber: 1.9 Consensus size: 98
12738169 GTGTTACAAT
* * ** * *
12738179 GGAACATTTAGTAGTATTCTGAGGATCCCAAAGGAGGCGTGAGTTAATAGTGAATTAAATCCCTG
1 GGAACACTTAGTAGTATTCTGAGGATCCCAAAAGAGGCGTGAGGCAATAGTGAATTAAATACCTA
12738244 CAAAGAATAGAAGTAATTAGTAATCACTATAAC
66 CAAAGAATAGAAGTAATTAGTAATCACTATAAC
* *
12738277 GGAACACTTGGTAGTATTCTGAGGATCGTACCCAAAAGAGGGGTGAGGCAATAGTGAATTAAATA
1 GGAACACTTAGTAGTATTCTGAGGA---T-CCCAAAAGAGGCGTGAGGCAATAGTGAATTAAATA
12738342 CCTACAAAGAATAGAAGTAATTAGTAATC
62 CCTACAAAGAATAGAAGTAATTAGTAATC
12738371 GATTTAGGGA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 23 0.28
101 1 0.01
102 58 0.71
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.25
Consensus pattern (98 bp):
GGAACACTTAGTAGTATTCTGAGGATCCCAAAAGAGGCGTGAGGCAATAGTGAATTAAATACCTA
CAAAGAATAGAAGTAATTAGTAATCACTATAAC
Found at i:12751262 original size:86 final size:87
Alignment explanation
Indices: 12751152--12751313 Score: 245
Period size: 86 Copynumber: 1.9 Consensus size: 87
12751142 TCCTATTACG
* * *
12751152 GATTAAAAGTCCGATGATGAAAATCTTGCAATTGTTGCGGATTTT-TATGGTATCGTGAGTTATC
1 GATTAAAAGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTTCTATGGCATCGTGAGTTATC
*
12751216 AAATTGGGCCTACGATGGTCGA
66 AAATTAGGCCTACGATGGTCGA
* * * *
12751238 GATTAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTATT
1 GATTAAAAGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTTCTATGGCATCGTGAGTTATC
12751303 AAATTAGGCCT
66 AAATTAGGCCT
12751314 TTGATGACCG
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 40 0.60
87 27 0.40
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (87 bp):
GATTAAAAGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTTCTATGGCATCGTGAGTTATC
AAATTAGGCCTACGATGGTCGA
Found at i:12751333 original size:87 final size:86
Alignment explanation
Indices: 12751155--12751339 Score: 237
Period size: 87 Copynumber: 2.2 Consensus size: 86
12751145 TATTACGGAT
* * *
12751155 TAAAA-GTCCGATGATGAAAATCTTGCAATTGTTGCGGATTTTTATGGTATCGTGAGTTATCAAA
1 TAAAAGGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTTTATGGCATCGTGAGTTATCAAA
* ** *
12751219 TTGGGCCTACGATGGTCGAGA
66 TTAGGCCTACGATGACCGACA
* * * *
12751240 TTAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTATTAA
1 TAAAAGGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTT-TATGGCATCGTGAGTTATCAA
**
12751305 ATTAGGCCTTTGATGACCGACA
65 ATTAGGCCTACGATGACCGACA
12751327 TAAAAGGTCCGAT
1 TAAAAGGTCCGAT
12751340 ATCGGAGGTT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 4 0.05
86 33 0.39
87 47 0.56
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (86 bp):
TAAAAGGTCCGATGACGAAAATCCTGCAATTGTTGCGGATTTTTATGGCATCGTGAGTTATCAAA
TTAGGCCTACGATGACCGACA
Found at i:12751359 original size:87 final size:87
Alignment explanation
Indices: 12751155--12751393 Score: 236
Period size: 87 Copynumber: 2.8 Consensus size: 87
12751145 TATTACGGAT
* * * * * *
12751155 TAAAA-GTCCGATGATGAAAATCTTGCAATTGTTGCGGATTTT-TATGGTATCGTGAGTTATCAA
1 TAAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGAATCGTGAGTTATTAA
* ** *
12751218 ATTGGGCCTACGATGGTCGAGA
66 ATTAGGCCTACGATGACCGACA
* *
12751240 TTAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGCATCGTGAGTTATTAA
1 TAAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGAATCGTGAGTTATTAA
**
12751305 ATTAGGCCTTTGATGACCGACA
66 ATTAGGCCTACGATGACCGACA
** * * * *
12751327 TAAAAGGTCCGAT-ATCGGAGGTTTCC-GC-TTTGTTGAGGATTCTCTACGAAATCGTGAGTTAT
1 TAAAAGGTCCGATGA-CGGA--AATCCTGCATTTGTTGCGGATTTTCTATGGAATCGTGAGTTAT
12751389 TAAAT
63 TAAAT
12751394 GTGAATTGAA
Statistics
Matches: 128, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
85 4 0.03
86 34 0.27
87 85 0.66
88 2 0.02
89 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (87 bp):
TAAAAGGTCCGATGACGGAAATCCTGCATTTGTTGCGGATTTTCTATGGAATCGTGAGTTATTAA
ATTAGGCCTACGATGACCGACA
Found at i:12759994 original size:29 final size:29
Alignment explanation
Indices: 12759939--12760034 Score: 138
Period size: 29 Copynumber: 3.2 Consensus size: 29
12759929 ACATCAATGA
* * *
12759939 TTCACATACCAAATAGCTCGCACATAAACAG
1 TTCACATA-C-AATAGTTTGCATATAAACAG
12759970 TTCACATACAATAGTTTGCATATAAACAG
1 TTCACATACAATAGTTTGCATATAAACAG
*
12759999 TTCACATACAATAGTTTGTATATAAACAG
1 TTCACATACAATAGTTTGCATATAAACAG
12760028 TTCACAT
1 TTCACAT
12760035 GTAGGTGGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 52 0.85
30 1 0.02
31 8 0.13
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (29 bp):
TTCACATACAATAGTTTGCATATAAACAG
Found at i:12762522 original size:17 final size:17
Alignment explanation
Indices: 12762492--12762549 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
12762482 CTCAATATAT
*
12762492 TGACAAATGGAAATGCAA
1 TGAC-AATGAAAATGCAA
* * *
12762510 TGATAATGCAAATGCAG
1 TGACAATGAAAATGCAA
*
12762527 TGACAATTAAAATGCAA
1 TGACAATGAAAATGCAA
12762544 TGACAA
1 TGACAA
12762550 AGGAAATATG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
17 30 0.91
18 3 0.09
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (17 bp):
TGACAATGAAAATGCAA
Found at i:12762556 original size:17 final size:17
Alignment explanation
Indices: 12762492--12762556 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
12762482 CTCAATATAT
12762492 TGACAAATGGAAATGCAA
1 TGACAAA-GGAAATGCAA
* * * *
12762510 TGATAATGCAAATGCAG
1 TGACAAAGGAAATGCAA
***
12762527 TGACAATTAAAATGCAA
1 TGACAAAGGAAATGCAA
12762544 TGACAAAGGAAAT
1 TGACAAAGGAAAT
12762557 ATGGTGACAA
Statistics
Matches: 36, Mismatches: 11, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
17 31 0.86
18 5 0.14
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (17 bp):
TGACAAAGGAAATGCAA
Found at i:12766259 original size:24 final size:24
Alignment explanation
Indices: 12766229--12766301 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
12766219 TGCAAGCAAT
12766229 AGAGCTCGCAATGCAAAATTCAC-
1 AGAGCTCGCAATGCAAAATTCACA
* * *
12766252 AGAAGCTCGCAATGCATAGTTCGCA
1 AG-AGCTCGCAATGCAAAATTCACA
* *
12766277 AGAGCTCGCAATACACAATTCACA
1 AGAGCTCGCAATGCAAAATTCACA
12766301 A
1 A
12766302 TGGTTATACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.05
24 37 0.90
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (24 bp):
AGAGCTCGCAATGCAAAATTCACA
Found at i:12771562 original size:17 final size:17
Alignment explanation
Indices: 12771540--12771590 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
12771530 AATTTTCAAA
12771540 AATTTTGAGTTTAGGTT
1 AATTTTGAGTTTAGGTT
* *
12771557 AATTTTGGGTTATA-GAT
1 AATTTTGAGTT-TAGGTT
* *
12771574 AATTTTAAGTTAAGGTT
1 AATTTTGAGTTTAGGTT
12771591 GTTTTGGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
16 1 0.04
17 23 0.88
18 2 0.08
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (17 bp):
AATTTTGAGTTTAGGTT
Found at i:12777210 original size:34 final size:32
Alignment explanation
Indices: 12777139--12777211 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
12777129 GGTCTATTTG
* * *
12777139 TGCAATTGATCCTTTCGCATTTTTTATTTGCT
1 TGCAATTTATCCTTTCGCATTTTTTAATTACT
* *
12777171 T-CAATTTAGTCCTTTATGCATTTTTTAATTATT
1 TGCAATTTA-TCCTTT-CGCATTTTTTAATTACT
12777204 TGCAATTT
1 TGCAATTT
12777212 TGCCATGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
31 6 0.18
32 7 0.21
33 14 0.42
34 6 0.18
ACGTcount: A:0.21, C:0.15, G:0.10, T:0.55
Consensus pattern (32 bp):
TGCAATTTATCCTTTCGCATTTTTTAATTACT
Found at i:12777417 original size:161 final size:162
Alignment explanation
Indices: 12777240--12777551 Score: 581
Period size: 162 Copynumber: 1.9 Consensus size: 162
12777230 TCTTTTCGAT
*
12777240 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCA-TTTTTGGATTATTTATGCA
1 TTAGTCCTCTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
* *
12777304 TTTAGTCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
66 TTTAGCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
12777369 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
131 AATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
12777401 TTAGTCCTCTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTCTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
12777466 TTTAGCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
66 TTTAGCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
12777531 AATTGGCCCAAGAATTTTTCA
131 AATTGGCCCAAGAATTTTTCA
12777552 AGATTTACAA
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
161 43 0.29
162 103 0.71
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.45
Consensus pattern (162 bp):
TTAGTCCTCTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
TTTAGCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:12777596 original size:161 final size:160
Alignment explanation
Indices: 12777244--12777606 Score: 523
Period size: 162 Copynumber: 2.2 Consensus size: 160
12777234 TTCGATTTAG
* * * *
12777244 TCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTGGATTATTTATGCATTTAG
1 TCCTCTGACTGCTGGACTG-ACCAGGGGCTGCCACGTGTCATTTTTGGATTATTTATGCATTTAG
* *
12777309 TCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGAAATTG
65 CCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAAATTG
* * * * *
12777374 GCCCAAGAATTTTTCATGGTTTATAAATTAG
130 GCCCAAGAATTTTTCAAGATTTACAAACTAA
* *
12777405 TCCTCTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCATTTA
1 TCCTCTGACTGCTGGACTG-ACCAGGGGCTGCCACGTGTCA-TTTTTGGATTATTTATGCATTTA
12777470 GCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAAATT
64 GCCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAAATT
*
12777535 GGCCCAAGAATTTTTCAAGATTTACAACCTAA
129 GGCCCAAGAATTTTTCAAGATTTACAAACTAA
* *
12777567 TCCTTTGACTGCTGGA-TG-CCTGTGGGGCTGCCACGTGTCA
1 TCCTCTGACTGCTGGACTGACC--AGGGGCTGCCACGTGTCA
12777607 CCCACTCTTT
Statistics
Matches: 185, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
159 2 0.01
161 58 0.31
162 125 0.68
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (160 bp):
TCCTCTGACTGCTGGACTGACCAGGGGCTGCCACGTGTCATTTTTGGATTATTTATGCATTTAGC
CCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAAATTGG
CCCAAGAATTTTTCAAGATTTACAAACTAA
Found at i:12777685 original size:30 final size:30
Alignment explanation
Indices: 12777651--12777707 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
12777641 AACAACCTAA
*
12777651 AAATTGCATTTCGACCCCAAAAATTTTAAG
1 AAATTACATTTCGACCCCAAAAATTTTAAG
* * *
12777681 AAATTACATTTTGACCCTAAAACTTTT
1 AAATTACATTTCGACCCCAAAAATTTT
12777708 CCAAAATGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (30 bp):
AAATTACATTTCGACCCCAAAAATTTTAAG
Found at i:12777723 original size:52 final size:52
Alignment explanation
Indices: 12777663--12777766 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
12777653 ATTGCATTTC
*
12777663 GACCCCAAAAATTTT-AAGAAATTACATTTTGACCCTAAAACTTTTCCAAAAT
1 GACCCCAAAAATTTTCAA-AAATTACATTTTAACCCTAAAACTTTTCCAAAAT
* * *
12777715 GACCCCAAAACTTTTCTAAAATTATATTTTAACCCTAAAACTTTTCCAAAAT
1 GACCCCAAAAATTTTCAAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
12777767 TACATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
52 46 0.98
53 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (52 bp):
GACCCCAAAAATTTTCAAAAATTACATTTTAACCCTAAAACTTTTCCAAAAT
Found at i:12777724 original size:22 final size:22
Alignment explanation
Indices: 12777692--12777736 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
12777682 AATTACATTT
*
12777692 TGACCCTAAAACTTTTCCAAAA
1 TGACCCCAAAACTTTTCCAAAA
*
12777714 TGACCCCAAAACTTTTCTAAAA
1 TGACCCCAAAACTTTTCCAAAA
12777736 T
1 T
12777737 TATATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (22 bp):
TGACCCCAAAACTTTTCCAAAA
Found at i:12777756 original size:30 final size:30
Alignment explanation
Indices: 12777716--12777873 Score: 210
Period size: 30 Copynumber: 5.3 Consensus size: 30
12777706 TTCCAAAATG
* *
12777716 ACCCCAAAACTTTTCTAAAATTATATTTTA
1 ACCCCAAAACTTTTCCAAAATTACATTTTA
*
12777746 ACCCTAAAACTTTTCCAAAATTACATTTTA
1 ACCCCAAAACTTTTCCAAAATTACATTTTA
*
12777776 ACCCCAAAACTTTTCCAAAATTACATTTTG
1 ACCCCAAAACTTTTCCAAAATTACATTTTA
* *
12777806 ACCCCAAAATTTTTCCAAAATTACATTTTG
1 ACCCCAAAACTTTTCCAAAATTACATTTTA
* * *
12777836 ACCACAAAAC-TTTCAAAAACTATCATTTTA
1 ACCCCAAAACTTTTCCAAAATTA-CATTTTA
*
12777866 CCCCCAAA
1 ACCCCAAA
12777874 CTTCCCTAAA
Statistics
Matches: 114, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 10 0.09
30 104 0.91
ACGTcount: A:0.40, C:0.25, G:0.01, T:0.34
Consensus pattern (30 bp):
ACCCCAAAACTTTTCCAAAATTACATTTTA
Found at i:12777913 original size:60 final size:57
Alignment explanation
Indices: 12777849--12778102 Score: 226
Period size: 60 Copynumber: 4.3 Consensus size: 57
12777839 ACAAAACTTT
* * * * *
12777849 CAAAAACTATCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTTAACCTAGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTT--ATAAATTCCA-TTTTTAACCCAGATTTCAC
* * * * *
12777909 CAAAATTTACCATTTTACCCTCGAATCTATTAAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCC-CCAAAC--TTATAAATTCCATTTTTAACCCAGATTTCAC
* *
12777969 CAAAAATTACCATTTTACCCCCGAAGCTTTTAAAATTCCATTTTTAACCCCA-ATTTCAC
1 CAAAAATTACCATTTTACCCCC-AAACTTAT-AAATTCCATTTTTAA-CCCAGATTTCAC
* * * *
12778028 CGAAAATTACCATTTTACCCCCCGAATCTTTTAAAATTCCATTTTTAACCTC-GATTACAC
1 CAAAAATTACCATTTTA-CCCCC-AAACTTAT-AAATTCCATTTTTAACC-CAGATTTCAC
12778088 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
12778103 TGCCCCCCGA
Statistics
Matches: 166, Mismatches: 19, Indels: 19
0.81 0.09 0.09
Matches are distributed among these distances:
58 2 0.01
59 55 0.33
60 96 0.58
61 11 0.07
63 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.35
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCCAAACTTATAAATTCCATTTTTAACCCAGATTTCAC
Found at i:12777974 original size:30 final size:31
Alignment explanation
Indices: 12777890--12778103 Score: 117
Period size: 30 Copynumber: 7.2 Consensus size: 31
12777880 TAAATCCCAT
** *
12777890 TTTTTAACCTAGATTTCACCAAAATTTACCA
1 TTTTTAACCCCGATTTCACCAAAAATTACCA
* **
12777921 -TTTT-ACCCTCGA-ATCTATTAAAAATT-CCA
1 TTTTTAACCC-CGATTTC-ACCAAAAATTACCA
12777950 TTTTTAACCCCGATTTCACCAAAAATTACCA
1 TTTTTAACCCCGATTTCACCAAAAATTACCA
* ** ****
12777981 -TTTTACCCCCGA-AGCTTTTAAAATT-CCA
1 TTTTTAACCCCGATTTCACCAAAAATTACCA
* *
12778009 TTTTTAACCCCAATTTCACCGAAAATTACCA
1 TTTTTAACCCCGATTTCACCAAAAATTACCA
* * ****
12778040 -TTTTACCCCCCGA-ATCTTTTAAAATT-CCA
1 TTTTTA-ACCCCGATTTCACCAAAAATTACCA
* *
12778069 TTTTTAACCTCGATTACACC-AAAATTACCA
1 TTTTTAACCCCGATTTCACCAAAAATTACCA
12778099 TTTTT
1 TTTTT
12778104 GCCCCCCGAG
Statistics
Matches: 132, Mismatches: 38, Indels: 27
0.67 0.19 0.14
Matches are distributed among these distances:
28 3 0.02
29 39 0.30
30 73 0.55
31 17 0.13
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (31 bp):
TTTTTAACCCCGATTTCACCAAAAATTACCA
Found at i:12778112 original size:60 final size:59
Alignment explanation
Indices: 12777881--12778102 Score: 311
Period size: 60 Copynumber: 3.7 Consensus size: 59
12777871 AAACTTCCCT
* ** * * *
12777881 AAATCCCATTTTTTAACCTAGATTTCACCAAAATTTACCATTTTACCCTCGAATCTATTAA
1 AAATTCCA-TTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCT-TTTA
*
12777942 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTTTA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTA
* *
12778001 AAATTCCATTTTTAACCCCAATTTCACCGAAAATTACCATTTTACCCCCCGAATCTTTTA
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCCCGAATCTTTTA
* *
12778061 AAATTCCATTTTTAACCTCGATTACACC-AAAATTACCATTTT
1 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT
12778103 TGCCCCCCGA
Statistics
Matches: 147, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
59 59 0.40
60 81 0.55
61 7 0.05
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (59 bp):
AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAATCTTTTA
Found at i:12789847 original size:68 final size:68
Alignment explanation
Indices: 12789738--12790227 Score: 784
Period size: 68 Copynumber: 7.0 Consensus size: 68
12789728 CTGCAGGTCT
*
12789738 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
12789803 GAG
66 GAG
12789806 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
12789871 GAG
66 GAG
*
12789874 CAACGTCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
12789939 GAG
66 GAG
12789942 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
12790007 GAG
66 GAG
* * *
12790010 CAACGTCATCTCCTCGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAA
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
12790075 GAG
66 GAG
* * *
12790078 CAACGTCATCCCCTCGGAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGTTGAAG
1 CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAA---TTGAAG
12790143 TAAGAG
63 TAAGAG
*
12790149 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAA
1 CAACG-TCA--T-C---CC-CTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAA
12790213 TTGAAGTAAGAG
57 TTGAAGTAAGAG
12790225 CAA
1 CAA
12790228 GATCATTTTC
Statistics
Matches: 398, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
68 320 0.80
70 1 0.00
71 18 0.05
73 1 0.00
74 1 0.00
76 15 0.04
77 2 0.01
78 16 0.04
79 24 0.06
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (68 bp):
CAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAA
GAG
Found at i:12790268 original size:77 final size:75
Alignment explanation
Indices: 12789750--12790303 Score: 594
Period size: 68 Copynumber: 7.7 Consensus size: 75
12789740 ACGTCATTCC
*
12789750 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACG-TCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA-GATCA
12789814 --T-C---CC-
65 TTTCCTATCCT
*
12789818 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACG-TCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA-GATCA
12789882 -----T-TCC-
65 TTTCCTATCCT
*
12789886 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACG-TCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA-GATCA
12789950 --T-C---CC-
65 TTTCCTATCCT
*
12789954 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACG-TCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA-GATCA
12790018 --T-C--TCCT
65 TTTCCTATCCT
* *
12790024 C--GAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACG-TCA
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA-GATCA
12790086 --TCC---CCT
65 TTTCCTATCCT
* * *
12790092 C--GGAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGTTGAAGTAAGAGCAAGAT
1 CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAA---TTGAAGTAAGAGCAAGAT
12790155 CATTTCCTATCCT
63 CATTTCCTATCCT
12790168 CTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAGATCA
1 CTTGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAGATCA
12790233 TTTTCCTATCCT
65 -TTTCCTATCCT
* * **
12790245 CTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGCCCCTCTGAAATTGAAGTAAGAG
1 CTTGAAATTGAAGTAGAG-TGGATAACAAGTCTT--CATCTCTGAAATTGAAGTAAGAG
12790304 AGTAAGATAA
Statistics
Matches: 454, Mismatches: 10, Indels: 33
0.91 0.02 0.07
Matches are distributed among these distances:
68 303 0.67
69 3 0.01
70 2 0.00
71 18 0.04
73 3 0.01
76 24 0.05
77 42 0.09
78 14 0.03
79 45 0.10
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (75 bp):
CTTGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAAGATCAT
TTCCTATCCT
Found at i:12790651 original size:17 final size:17
Alignment explanation
Indices: 12790625--12790707 Score: 103
Period size: 17 Copynumber: 4.9 Consensus size: 17
12790615 AACCATTTTG
* *
12790625 AATTTGTTTTAAAATTA
1 AATTTATTTTAAATTTA
12790642 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* *
12790659 AATTTAATTTAAATTTG
1 AATTTATTTTAAATTTA
* *
12790676 GATTTAATTTAAATTTA
1 AATTTATTTTAAATTTA
*
12790693 AATTTATTATAAATT
1 AATTTATTTTAAATT
12790708 CAAAGTCCAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 57 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:12790658 original size:6 final size:6
Alignment explanation
Indices: 12790632--12790698 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
12790622 TTGAATTTGT
* * **
12790632 TTTAAA ATTAAA TTT-AT TTTAAA TTTAAA TTT-AA TTTAAA TTTGGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
12790678 TTT-AA TTTAAA TTTAAA TTTA
1 TTTAAA TTTAAA TTTAAA TTTA
12790699 TTATAAATTC
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 13 0.25
6 38 0.75
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:12790667 original size:11 final size:12
Alignment explanation
Indices: 12790632--12790698 Score: 77
Period size: 11 Copynumber: 5.8 Consensus size: 12
12790622 TTGAATTTGT
*
12790632 TTTAAAATTAAA
1 TTTAAATTTAAA
*
12790644 TTT-ATTTTAAA
1 TTTAAATTTAAA
12790655 TTTAAATTT-AA
1 TTTAAATTTAAA
**
12790666 TTTAAATTTGGA
1 TTTAAATTTAAA
12790678 TTT-AATTTAAA
1 TTTAAATTTAAA
12790689 TTTAAATTTA
1 TTTAAATTTA
12790699 TTATAAATTC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
11 29 0.63
12 17 0.37
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:12791760 original size:17 final size:17
Alignment explanation
Indices: 12791740--12791773 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12791730 ATGAAACATT
*
12791740 TAAGGAAAAAGAAAGAA
1 TAAGAAAAAAGAAAGAA
*
12791757 TAAGAAAAAAGGAAGAA
1 TAAGAAAAAAGAAAGAA
12791774 AAAAAATGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.06
Consensus pattern (17 bp):
TAAGAAAAAAGAAAGAA
Found at i:12792187 original size:34 final size:32
Alignment explanation
Indices: 12792116--12792188 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 32
12792106 GGTCTATTTG
* * *
12792116 TGCAATTGATCCTTTCGCATTTTTTATTTGCT
1 TGCAATTTATCCTTTCGCATTTTTTAATTACT
* *
12792148 T-CAATTTAGTCCTTTCTGTATTTTTTAATTATT
1 TGCAATTTA-TCCTTTC-GCATTTTTTAATTACT
12792181 TGCAATTT
1 TGCAATTT
12792189 TGCCATGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
31 6 0.18
32 8 0.24
33 13 0.39
34 6 0.18
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.56
Consensus pattern (32 bp):
TGCAATTTATCCTTTCGCATTTTTTAATTACT
Found at i:12792396 original size:162 final size:162
Alignment explanation
Indices: 12792217--12792529 Score: 565
Period size: 162 Copynumber: 1.9 Consensus size: 162
12792207 TATTTTCGAT
12792217 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
* * *
12792282 TTTAGT-CCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACG
66 TTTA-TCCCTTTTTATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACA
12792346 AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
130 AAATTGGCCCAAGAATTTTTCATGGTTTATAAA
*
12792379 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACGTGTCATTTTTTGGATTATTTATGCA
1 TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
12792444 TTTATCCCTTTTTATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAA
66 TTTATCCCTTTTTATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAA
*
12792509 AATTGGCCCAATAATTTTTCA
131 AATTGGCCCAAGAATTTTTCA
12792530 AGATTTACAA
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
161 1 0.01
162 144 0.99
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGTACCAGGGGCTGCCACATGTCATTTTTTGGATTATTTATGCA
TTTATCCCTTTTTATTTTTAATTTATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAA
AATTGGCCCAAGAATTTTTCATGGTTTATAAA
Found at i:12792759 original size:30 final size:30
Alignment explanation
Indices: 12792626--12792764 Score: 176
Period size: 30 Copynumber: 4.7 Consensus size: 30
12792616 TCAAACAACC
* *
12792626 CAAAAATTACATTTCGACCCCAAAAATTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
12792656 -AAGAAATTACATTTTGACCCCAAAACTTTT
1 CAA-AAATTACATTTTGACCCCAAAACTTTT
* *
12792686 CCAAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
* *
12792716 CCAAAATTACATTTTGACCTCAAAAC-TTT
1 CAAAAATTACATTTTGACCCCAAAACTTTT
*
12792745 CAAAAACTATCATTTT-ACCC
1 CAAAAATTA-CATTTTGACCC
12792765 TTAAACTTCC
Statistics
Matches: 97, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.15
30 81 0.84
31 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.33
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCCAAAACTTTT
Found at i:12792808 original size:59 final size:59
Alignment explanation
Indices: 12792745--12792936 Score: 208
Period size: 59 Copynumber: 3.3 Consensus size: 59
12792735 TCAAAACTTT
* * ** **
12792745 CAAAAACTATCATTTTACCCTTAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCGAAACTTCCAAAAATCCCATTTTTAACCCCGATTTCAC
* * ** *
12792804 CAAAATTTACCATTTTACCCCGAATCTTTTAAAAATTCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCGAAACTTCCAAAAATCCCATTTTTAACCCCGATTTCAC
* ** * * *
12792863 CAAAAATTACCATTTTACCCCCGAATCTT-TTAAAATTCCATTTTTAACCTCGATTACAC
1 CAAAAATTACCATTTTA-CCCCGAAACTTCCAAAAATCCCATTTTTAACCCCGATTTCAC
12792922 C-AAAATTACCATTTT
1 CAAAAATTACCATTTT
12792937 GTCCCCCAGG
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
58 14 0.12
59 92 0.79
60 11 0.09
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCGAAACTTCCAAAAATCCCATTTTTAACCCCGATTTCAC
Found at i:12792809 original size:29 final size:30
Alignment explanation
Indices: 12792782--12792936 Score: 130
Period size: 30 Copynumber: 5.2 Consensus size: 30
12792772 TCCCTAAATC
12792782 CCATTTTTAACCCCGATTTCACCAAAATTTA
1 CCATTTTTAACCCCGATTTCACCAAAA-TTA
*
12792813 CCA-TTTT-ACCCCGAATCTTTTA--AAAATT-
1 CCATTTTTAACCCCG-A--TTTCACCAAAATTA
12792841 CCATTTTTAACCCCGATTTCACCAAAAATTA
1 CCATTTTTAACCCCGATTTCACC-AAAATTA
* **
12792872 CCA-TTTTACCCCCGAATCTT--TTAAAATT-
1 CCATTTTTAACCCCG-AT-TTCACCAAAATTA
* *
12792900 CCATTTTTAACCTCGATTACACCAAAATTA
1 CCATTTTTAACCCCGATTTCACCAAAATTA
12792930 CCATTTT
1 CCATTTT
12792937 GTCCCCCAGG
Statistics
Matches: 99, Mismatches: 10, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
27 5 0.05
28 8 0.08
29 34 0.34
30 38 0.38
31 8 0.08
32 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (30 bp):
CCATTTTTAACCCCGATTTCACCAAAATTA
Found at i:12792936 original size:30 final size:28
Alignment explanation
Indices: 12792777--12792936 Score: 101
Period size: 29 Copynumber: 5.4 Consensus size: 28
12792767 AAACTTCCCT
*
12792777 AAATCCCATTTTTAACCCCGATTTCACCA
1 AAATTCCATTTTTAACCCCGA-TTCACCA
****
12792806 AAATTTACCA-TTTT-ACCCCGAATCTTTTAA
1 AAA-TT-CCATTTTTAACCCCG-AT-TCACCA
12792836 AAATTCCATTTTTAACCCCGATTTCACCAA
1 AAATTCCATTTTTAACCCCGA-TTCACC-A
* * ***
12792866 AAATTACCA-TTTTACCCCCGAATCTTTTA
1 AAATT-CCATTTTTAACCCCGATTC-ACCA
*
12792895 AAATTCCATTTTTAACCTCGATTACACCA
1 AAATTCCATTTTTAACCCCGATT-CACCA
12792924 AAATTACCATTTT
1 AAATT-CCATTTT
12792937 GTCCCCCAGG
Statistics
Matches: 98, Mismatches: 20, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
28 6 0.06
29 43 0.44
30 43 0.44
31 6 0.06
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (28 bp):
AAATTCCATTTTTAACCCCGATTCACCA
Done.