Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 94 of 207
Found at i:27724299 original size:64 final size:64
Alignment explanation
Indices: 27724220--27724347 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
27724210 AAAGAGTCGT
27724220 TTTAGGCTTTTTCATATGGCAACAATTTTATATAGTTGGTAAAGGTATAACAAATGTCAGCATA
1 TTTAGGCTTTTTCATATGGCAACAATTTTATATAGTTGGTAAAGGTATAACAAATGTCAGCATA
27724284 TTTAGGCTTTTTCATATGGCAACAATTTTATATAGTTGGTAAAGGTATAACAAATGTCAGCATA
1 TTTAGGCTTTTTCATATGGCAACAATTTTATATAGTTGGTAAAGGTATAACAAATGTCAGCATA
27724348 GTTTTGGGCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (64 bp):
TTTAGGCTTTTTCATATGGCAACAATTTTATATAGTTGGTAAAGGTATAACAAATGTCAGCATA
Found at i:27726957 original size:5 final size:5
Alignment explanation
Indices: 27726947--27726984 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
27726937 TTATTTTGCA
27726947 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAA
27726985 AGGTAATGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AAATT
Found at i:27727237 original size:35 final size:35
Alignment explanation
Indices: 27727191--27727261 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
27727181 TATAGAATCT
27727191 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
27727226 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
1 GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
27727261 G
1 G
27727262 TTCTAAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.24, T:0.17
Consensus pattern (35 bp):
GGAAACTCGGGAAGAACATCAAGAGATTTAACTAA
Found at i:27727559 original size:62 final size:62
Alignment explanation
Indices: 27727485--27727673 Score: 378
Period size: 62 Copynumber: 3.0 Consensus size: 62
27727475 GTATTATCTG
27727485 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
1 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
27727547 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
1 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
27727609 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
1 TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
27727671 TGT
1 TGT
27727674 AAGGTTCCTC
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 127 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (62 bp):
TGTTTTTCTAGTGATGTCACCTTCTACCCTAGAGATATCATAGGCAGTAATCATACCTCTAT
Found at i:27730059 original size:25 final size:25
Alignment explanation
Indices: 27730020--27730238 Score: 167
Period size: 25 Copynumber: 8.8 Consensus size: 25
27730010 GTTCAGACCC
* * *
27730020 ACAGCTCGTGTGAGCATACTGATTT
1 ACAGCTCGTGAGAGCATACCGATCT
*
27730045 ACAGCTTGTGAGAGCATACC-AGTCT
1 ACAGCTCGTGAGAGCATACCGA-TCT
* ** *
27730070 ACAGCTCGTGTGAGCATACTAATTT
1 ACAGCTCGTGAGAGCATACCGATCT
* * **
27730095 ACAGCTCATTAGATTATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
*
27730120 AAAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
* * * *
27730145 ACAACTCATGTGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATCT
* * *
27730170 ACAGCTCTTGAGATCATATCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
* * *
27730195 AAAACTCG-AATGAGCATACCGAT-T
1 ACAGCTCGTGA-GAGCATACCGATCT
27730219 CACAGCTCGT-ATGAGCATAC
1 -ACAGCTCGTGA-GAGCATAC
27730239 ATGTACAGGA
Statistics
Matches: 149, Mismatches: 40, Indels: 10
0.75 0.20 0.05
Matches are distributed among these distances:
24 3 0.02
25 145 0.97
26 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATCT
Found at i:27730147 original size:75 final size:75
Alignment explanation
Indices: 27730020--27730238 Score: 230
Period size: 75 Copynumber: 2.9 Consensus size: 75
27730010 GTTCAGACCC
* * * * * * *
27730020 ACAGCTCGTGTGAGCATACTGATTTACAGCTTGTGAGAGCATACC-AGTCTACAGCTCGTGTGAG
1 ACAGCTCTTGAGATCATACCGATCTAAAGCTCGTGAGAGCATACCGA-TCTACAGCTCGTGTGAG
*
27730084 CATACTAATTT
65 CATACCAATTT
* * *
27730095 ACAGCTCATT-AGATTATACCGATCTAAAGCTCGTGAGAGCATACCGATCTACAACTCATGTGAG
1 ACAGCTC-TTGAGATCATACCGATCTAAAGCTCGTGAGAGCATACCGATCTACAGCTCGTGTGAG
*
27730159 CATACCGATTT
65 CATACCAATTT
* * * *
27730170 ACAGCTCTTGAGATCATATCGATCTAAAACTCG-AATGAGCATACCGAT-TCACAGCTCGTATGA
1 ACAGCTCTTGAGATCATACCGATCTAAAGCTCGTGA-GAGCATACCGATCT-ACAGCTCGTGTGA
27730233 GCATAC
64 GCATAC
27730239 ATGTACAGGA
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
74 4 0.03
75 114 0.95
76 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (75 bp):
ACAGCTCTTGAGATCATACCGATCTAAAGCTCGTGAGAGCATACCGATCTACAGCTCGTGTGAGC
ATACCAATTT
Found at i:27731367 original size:20 final size:20
Alignment explanation
Indices: 27731334--27731372 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27731324 GCCATATGGT
27731334 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTATGGTATC
27731354 TTGG-TTGTGATTATGGTAT
1 TTGGCTTGTG-TTATGGTAT
27731373 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (20 bp):
TTGGCTTGTGTTATGGTATC
Found at i:27736116 original size:25 final size:25
Alignment explanation
Indices: 27736052--27736197 Score: 105
Period size: 25 Copynumber: 5.8 Consensus size: 25
27736042 ATTTTGACCC
* * *
27736052 ACAGCTCGTGTGAGCATACTGATTT
1 ACAGCTCATGTGAGCATACCGATCT
* * **
27736077 ATAGCTCGTAAGAGCATACCGATCT
1 ACAGCTCATGTGAGCATACCGATCT
* ** *
27736102 ACAACTCATGTGAGCATATTGATTT
1 ACAGCTCATGTGAGCATACCGATCT
*** * * *
27736127 ACAGCTTGCGAGAGCATATCAATCT
1 ACAGCTCATGTGAGCATACCGATCT
* *
27736152 ACAGCTCATGTGAGCATACCAATTT
1 ACAGCTCATGTGAGCATACCGATCT
27736177 ACAGCTCGA-GTGAGCATACCG
1 ACAGCTC-ATGTGAGCATACCG
27736198 GTTCACAGCT
Statistics
Matches: 92, Mismatches: 28, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
25 91 0.99
26 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
ACAGCTCATGTGAGCATACCGATCT
Found at i:27736205 original size:25 final size:26
Alignment explanation
Indices: 27736138--27736209 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
27736128 CAGCTTGCGA
*
27736138 GAGCATATCAA-TCTACAGCTC-ATGT
1 GAGCATACCAATTC-ACAGCTCGATGT
*
27736163 GAGCATACCAATTTACAGCTCGA-GT
1 GAGCATACCAATTCACAGCTCGATGT
**
27736188 GAGCATACCGGTTCACAGCTCG
1 GAGCATACCAATTCACAGCTCG
27736210 TATGATCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 38 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (26 bp):
GAGCATACCAATTCACAGCTCGATGT
Found at i:27736208 original size:50 final size:50
Alignment explanation
Indices: 27736052--27736197 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 50
27736042 ATTTTGACCC
* *
27736052 ACAGCTCGTGTGAGCATACTGATTTATAGCTCGTA-AGAGCATACCGATCT
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCG-AGAGAGCATACCGATCT
* * * * * *
27736102 ACAACTCATGTGAGCATATTGATTTACAGCTTGCGAGAGCATATCAATCT
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACCGATCT
** *
27736152 ACAGCTCATGTGAGCATACCAATTTACAGCTCGAGTGAGCATACCG
1 ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACCG
27736198 GTTCACAGCT
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (50 bp):
ACAGCTCATGTGAGCATACTGATTTACAGCTCGAGAGAGCATACCGATCT
Found at i:27737341 original size:20 final size:20
Alignment explanation
Indices: 27737316--27737354 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27737306 GCCATATGGT
27737316 TTGGTTTGTG-TTATGGTATC
1 TTGG-TTGTGATTATGGTATC
27737336 TTGGTTGTGATTATGGTAT
1 TTGGTTGTGATTATGGTAT
27737355 TTTGAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.03, G:0.31, T:0.54
Consensus pattern (20 bp):
TTGGTTGTGATTATGGTATC
Found at i:27740714 original size:16 final size:17
Alignment explanation
Indices: 27740677--27740719 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
27740667 TATCGACAAC
*
27740677 TAAAAATAAAATGAAAT
1 TAAAAATTAAATGAAAT
27740694 T-AAAATTAAA-GAAAT
1 TAAAAATTAAATGAAAT
27740709 TAAAAATTAAA
1 TAAAAATTAAA
27740720 AATAAGGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 6 0.25
16 17 0.71
17 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAAAATTAAATGAAAT
Found at i:27747465 original size:15 final size:15
Alignment explanation
Indices: 27747445--27747475 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
27747435 CGCGTAGCAG
27747445 TTACTAAATTAATTA
1 TTACTAAATTAATTA
27747460 TTACTAAATTAATTA
1 TTACTAAATTAATTA
27747475 T
1 T
27747476 AAAATGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (15 bp):
TTACTAAATTAATTA
Found at i:27748876 original size:100 final size:100
Alignment explanation
Indices: 27748640--27748876 Score: 255
Period size: 100 Copynumber: 2.4 Consensus size: 100
27748630 AATAATAACA
* * * * *
27748640 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TATTTCCTGTACTGCCAATGTCATATC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACTATCTCATCTACTGCCAACGCCATATC
** **
27748704 CCAGATATGGTCTTACAAGGGAGTTCTCATATTTG
66 CCAGATATGGTCTTACAAGGGACCTCTCATATCGG
* * * ** *
27748739 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACT-TCTCATCT-CGGTGCCAACGCCATG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACTATCTCATCTAC--TGCCAACGCCATA
* * *
27748802 TCCCAGATATGGTCTTACATGGGACCTCTTATCTCGG
64 TCCCAGATATGGTCTTACAAGGGACCTCTCATATCGG
* *
27748839 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGAC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAC
27748877 CTATTTACCC
Statistics
Matches: 111, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
98 1 0.01
99 37 0.33
100 73 0.66
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACTATCTCATCTACTGCCAACGCCATATC
CCAGATATGGTCTTACAAGGGACCTCTCATATCGG
Found at i:27748877 original size:50 final size:50
Alignment explanation
Indices: 27748640--27748878 Score: 230
Period size: 50 Copynumber: 4.8 Consensus size: 50
27748630 AATAATAACA
* ** * * *
27748640 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * ** * **
27748689 TGCCAATGTCATATCCCAGATATGGTCTTACAAGGGAGTTCTCATATTTG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * ** *
27748739 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
27748789 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
27748839 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCT
27748879 ATTTACCCAA
Statistics
Matches: 158, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
49 37 0.23
50 121 0.77
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:27750961 original size:40 final size:40
Alignment explanation
Indices: 27750916--27751024 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
27750906 GCAAACTCAA
27750916 GCTTAACATGCTTATGGTAACATATTCAATTC-AATGGCAT
1 GCTTAACATGCTTATGGTAACATATTCAATTCAAAT-GCAT
* * * * *
27750956 GCTTAACATGATTATGGTAACATAATCATTTCAAAATTCGT
1 GCTTAACATGCTTATGGTAACATATTCAATTC-AAATGCAT
*
27750997 GCTTAACATGCTTACGGTAACATATTCA
1 GCTTAACATGCTTATGGTAACATATTCA
27751025 GTACATGGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
40 29 0.49
41 27 0.46
42 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (40 bp):
GCTTAACATGCTTATGGTAACATATTCAATTCAAATGCAT
Found at i:27755512 original size:26 final size:26
Alignment explanation
Indices: 27755483--27755532 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
27755473 GTTATGCGTG
*
27755483 GGAATAAAGAGAGGAAATGAGAGAAT
1 GGAAGAAAGAGAGGAAATGAGAGAAT
* * *
27755509 GGAAGAATGATATGAAATGAGAGA
1 GGAAGAAAGAGAGGAAATGAGAGA
27755533 TGCGAGATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14
Consensus pattern (26 bp):
GGAAGAAAGAGAGGAAATGAGAGAAT
Found at i:27758293 original size:16 final size:16
Alignment explanation
Indices: 27758274--27758326 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
27758264 ATAACAGTCC
27758274 TTAAATTTTAAAGTAA
1 TTAAATTTTAAAGTAA
*
27758290 TTAAATAATTAAA-TAA
1 TTAAAT-TTTAAAGTAA
27758306 TT-AATTTTAAAGTAA
1 TTAAATTTTAAAGTAA
27758321 TTAAAT
1 TTAAAT
27758327 AATTATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 14 0.44
17 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (16 bp):
TTAAATTTTAAAGTAA
Found at i:27758300 original size:8 final size:8
Alignment explanation
Indices: 27758281--27758331 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
27758271 TCCTTAAATT
27758281 TTAAAGTAA
1 TTAAA-TAA
27758290 TTAAATAA
1 TTAAATAA
27758298 TTAAATAA
1 TTAAATAA
*
27758306 TT-AAT-T
1 TTAAATAA
27758312 TTAAAGTAA
1 TTAAA-TAA
27758321 TTAAATAA
1 TTAAATAA
27758329 TTA
1 TTA
27758332 TTAGTGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 2 0.05
7 5 0.14
8 20 0.54
9 10 0.27
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (8 bp):
TTAAATAA
Found at i:27761567 original size:21 final size:21
Alignment explanation
Indices: 27761533--27761573 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
27761523 GAGGGAAAGT
*
27761533 GGGAAGAAGTAAAAGTTTTGA
1 GGGAAGAAGTAAAAGGTTTGA
27761554 GGGAA-AAGTAAAAAGGTTTG
1 GGGAAGAAGT-AAAAGGTTTG
27761574 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.44, C:0.00, G:0.34, T:0.22
Consensus pattern (21 bp):
GGGAAGAAGTAAAAGGTTTGA
Found at i:27761628 original size:9 final size:9
Alignment explanation
Indices: 27761614--27761647 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
27761604 AGTTTGATAC
27761614 TCGAATTAT
1 TCGAATTAT
27761623 TCGAATTAT
1 TCGAATTAT
*
27761632 TCGAGTTAT
1 TCGAATTAT
27761641 TCGAATT
1 TCGAATT
27761648 CGAAAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (9 bp):
TCGAATTAT
Found at i:27761838 original size:15 final size:15
Alignment explanation
Indices: 27761818--27761846 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27761808 GTATTGTTGT
27761818 TTGATAACACGGTGA
1 TTGATAACACGGTGA
27761833 TTGATAACACGGTG
1 TTGATAACACGGTG
27761847 TGTAAGGCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:27763754 original size:18 final size:18
Alignment explanation
Indices: 27763728--27763763 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
27763718 ATTTTGTTGT
*
27763728 ACTGAAAAATTAAACTAA
1 ACTGAAAAACTAAACTAA
*
27763746 ACTGGAAAACTAAACTAA
1 ACTGAAAAACTAAACTAA
27763764 TTAGTACTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.14, G:0.08, T:0.19
Consensus pattern (18 bp):
ACTGAAAAACTAAACTAA
Found at i:27769881 original size:3 final size:3
Alignment explanation
Indices: 27769873--27769897 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
27769863 AAACAAACCT
27769873 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
27769898 TGTAATACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:27770064 original size:19 final size:19
Alignment explanation
Indices: 27770040--27770150 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
27770030 AATCTTCAGG
27770040 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27770059 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
27770078 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27770097 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
27770116 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27770135 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27770151 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27770090 original size:38 final size:38
Alignment explanation
Indices: 27770047--27770150 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
27770037 AGGGATATGC
27770047 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
27770085 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
27770123 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
27770151 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:27770176 original size:22 final size:21
Alignment explanation
Indices: 27770040--27770176 Score: 114
Period size: 19 Copynumber: 6.9 Consensus size: 21
27770030 AATCTTCAGG
*
27770040 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27770059 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
27770078 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27770097 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27770116 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
27770135 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
27770157 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
27770177 TTAATTTGTA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
19 79 0.77
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:27770343 original size:46 final size:47
Alignment explanation
Indices: 27770283--27770373 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 47
27770273 CATTGTAGAA
*
27770283 AAAAAAAGAAAGGAGGAATAAAAAAGGAGAACGATTGGCAGTTTTAG
1 AAAAAAAGAAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTTAG
27770330 AAAAAAA-AAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
1 AAAAAAAGAAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
27770374 TTAAAGGTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 36 0.84
47 7 0.16
ACGTcount: A:0.55, C:0.04, G:0.25, T:0.15
Consensus pattern (47 bp):
AAAAAAAGAAAGGAGGAATAAAAAAAGAGAACGATTGGCAGTTTTAG
Found at i:27777196 original size:132 final size:132
Alignment explanation
Indices: 27776949--27777198 Score: 344
Period size: 132 Copynumber: 1.9 Consensus size: 132
27776939 TTGATAGCGA
27776949 AGCAGATAGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATAGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
27777014 TCTACTTCCTTGGACAATAGTGGAATAGATTAAAGATTCCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTCAAGATCCTATCTCCCTAAGCAGTAGT
27777079 GG
131 GG
* *
27777081 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-
1 AGCAGATAGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * *
27777145 TCATA-TCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTAAG-TCCTATCTCC
66 TC-TACT-TCCCTGGACAACAGTGGAATAGATTAAAGATT-CAAGATCCTATCTCC
27777199 TTGATATTGC
Statistics
Matches: 103, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 3 0.03
132 98 0.95
133 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AGCAGATAGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTAAAGATTCAAGATCCTATCTCCCTAAGCAGTAGT
GG
Found at i:27777534 original size:19 final size:19
Alignment explanation
Indices: 27777510--27777601 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
27777500 AATCTTCAGG
27777510 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27777529 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
27777548 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27777567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
27777586 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
27777602 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:27777627 original size:22 final size:22
Alignment explanation
Indices: 27777510--27777624 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 22
27777500 AATCTTCAGG
27777510 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
27777529 GATATGCAATCTTAG-ATATAAT
1 GATATGCAATCTTAGAAGAT-AT
27777551 -ATAT--AATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
27777567 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
27777586 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
27777608 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
27777625 GATTTAATAT
Statistics
Matches: 82, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.02
17 7 0.09
19 44 0.54
21 7 0.09
22 10 0.12
23 12 0.15
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:27777799 original size:43 final size:43
Alignment explanation
Indices: 27777738--27777823 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
27777728 GTAGACAAAA
* * * *
27777738 AGAAAGAAAGGAGGAATAAAAAAGGAGAACGATTGGTAGTTTT
1 AGAAAAAAAAGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
27777781 AGAAAAAAAAGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
1 AGAAAAAAAAGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
27777824 TTAAAGGTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.52, C:0.03, G:0.27, T:0.17
Consensus pattern (43 bp):
AGAAAAAAAAGAGGAATAAAAAAAGAGAACGATTGGCAGTTTT
Found at i:27780574 original size:6 final size:6
Alignment explanation
Indices: 27780560--27780596 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
27780550 ATATTGGACC
*
27780560 ATTACA ATTATA ATTATA ATTATA ATTA-A ATT-TA ATT
1 ATTATA ATTATA ATTATA ATTATA ATTATA ATTATA ATT
27780597 TATAGTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
5 8 0.28
6 21 0.72
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTATA
Found at i:27789760 original size:17 final size:17
Alignment explanation
Indices: 27789706--27789763 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
27789696 CAATATTGCT
* *
27789706 TGGCGAACAGTATCACC
1 TGGCGGACAGTATTACC
* * *
27789723 TAGCGGACAGCATTGCC
1 TGGCGGACAGTATTACC
*
27789740 TGGCGGACAGTATTACT
1 TGGCGGACAGTATTACC
27789757 TGGCGGA
1 TGGCGGA
27789764 TACTATTGCT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (17 bp):
TGGCGGACAGTATTACC
Found at i:27790635 original size:35 final size:35
Alignment explanation
Indices: 27790589--27790728 Score: 156
Period size: 35 Copynumber: 4.0 Consensus size: 35
27790579 TTGAGGAAAA
*
27790589 ATCCCACCACAACACCAATACTTC-TTTCATAACAC
1 ATCCCACCACAACACCAATACTTCATTT-ATCACAC
* *
27790624 ATCCCACCACAACATCAATACTTCATTTATCATAC
1 ATCCCACCACAACACCAATACTTCATTTATCACAC
** *
27790659 ATCCCACCACAACACTGATACTTCACTTATCACAC
1 ATCCCACCACAACACCAATACTTCATTTATCACAC
*** * **
27790694 ATCTTGCCACAACATCAATACTTCATCCATCACAC
1 ATCCCACCACAACACCAATACTTCATTTATCACAC
27790729 TTCTTTCATA
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 84 0.97
36 3 0.03
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (35 bp):
ATCCCACCACAACACCAATACTTCATTTATCACAC
Found at i:27790704 original size:70 final size:70
Alignment explanation
Indices: 27790589--27790719 Score: 183
Period size: 70 Copynumber: 1.9 Consensus size: 70
27790579 TTGAGGAAAA
*
27790589 ATCCCACCACAACACCAATACTTCTTTCATAACACATCCCACCACAACATCAATACTTCATTTAT
1 ATCCCACCACAACACCAATACTTCCTTCATAACACATCCCACCACAACATCAATACTTCATTTAT
27790654 CATAC
66 CATAC
** * ***
27790659 ATCCCACCACAACACTGATACTTCACTT-ATCACACATCTTGCCACAACATCAATACTTCAT
1 ATCCCACCACAACACCAATACTTC-CTTCATAACACATCCCACCACAACATCAATACTTCAT
27790720 CCATCACACT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
70 51 0.96
71 2 0.04
ACGTcount: A:0.36, C:0.37, G:0.02, T:0.26
Consensus pattern (70 bp):
ATCCCACCACAACACCAATACTTCCTTCATAACACATCCCACCACAACATCAATACTTCATTTAT
CATAC
Found at i:27796908 original size:27 final size:27
Alignment explanation
Indices: 27796826--27796910 Score: 93
Period size: 30 Copynumber: 3.1 Consensus size: 27
27796816 AACTAGTTAG
* * *
27796826 GAAAGAATAGCC-TTGTGACAAACTCT
1 GAAAGAATAACCTTTGTGGCGAACTCT
27796852 GAAAGAAT-ACCTTTTGTAGTGGCGAACTCT
1 GAAAGAATAACC--TT-T-GTGGCGAACTCT
27796882 GAAAGAATAACCTTTGTGGCGAACTCT
1 GAAAGAATAACCTTTGTGGCGAACTCT
27796909 GA
1 GA
27796911 GAAAATAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
25 2 0.04
26 8 0.16
27 14 0.28
28 2 0.04
29 3 0.06
30 18 0.36
31 3 0.06
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAAGAATAACCTTTGTGGCGAACTCT
Found at i:27796927 original size:27 final size:28
Alignment explanation
Indices: 27796846--27796927 Score: 91
Period size: 27 Copynumber: 2.9 Consensus size: 28
27796836 CCTTGTGACA
27796846 AACTCTGAAAGAAT-ACCTTTTGTAGTGGCG
1 AACTCTGAAAGAATAACC--TT-TAGTGGCG
27796876 AACTCTGAAAGAATAACCTTT-GTGGCG
1 AACTCTGAAAGAATAACCTTTAGTGGCG
*
27796903 AACTCTGAGAA-AAT-AGCTTTAGTGG
1 AACTCTGA-AAGAATAACCTTTAGTGG
27796928 TGAATTATGA
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
26 5 0.10
27 21 0.44
28 3 0.06
29 2 0.04
30 14 0.29
31 3 0.06
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (28 bp):
AACTCTGAAAGAATAACCTTTAGTGGCG
Found at i:27844507 original size:29 final size:29
Alignment explanation
Indices: 27844441--27844518 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
27844431 CTTAATAATC
*
27844441 AACCACGCACACTTAGTG-CATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTTA
*
27844470 AACTCGCACACTTAGTGCCATGCA-TTTCA
1 AACCCGCACACTTAGTGCCATGCACTTT-A
*
27844499 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
27844519 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 16 0.37
29 27 0.63
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTTA
Found at i:27844977 original size:12 final size:12
Alignment explanation
Indices: 27844960--27844985 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
27844950 TGGGCATACT
27844960 TATGTATATATA
1 TATGTATATATA
27844972 TATGTATATATA
1 TATGTATATATA
27844984 TA
1 TA
27844986 CTTCGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:27848495 original size:12 final size:13
Alignment explanation
Indices: 27848469--27848501 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
27848459 AGTTTCGAAG
27848469 AAAAAAATTCGTGA
1 AAAAAAATTC-TGA
27848483 AAAAAAATT-TGA
1 AAAAAAATTCTGA
27848495 AAAAAAA
1 AAAAAAA
27848502 AGGATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.03, G:0.09, T:0.18
Consensus pattern (13 bp):
AAAAAAATTCTGA
Found at i:27852155 original size:23 final size:22
Alignment explanation
Indices: 27852103--27852155 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
27852093 TCCACGTCTT
*
27852103 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
27852125 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
27852148 TTTCTTTT
1 TTTCTTTT
27852156 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:27871335 original size:79 final size:79
Alignment explanation
Indices: 27871103--27871335 Score: 457
Period size: 79 Copynumber: 2.9 Consensus size: 79
27871093 AGTTTTACCT
27871103 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
1 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
*
27871168 TAGATTCTACCCAC
66 TAGATTCTATCCAC
27871182 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
1 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
27871247 TAGATTCTATCCAC
66 TAGATTCTATCCAC
27871261 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
1 TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
27871326 TAGATTCTAT
66 TAGATTCTAT
27871336 TCACCAACCC
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 153 1.00
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.45
Consensus pattern (79 bp):
TTAATTCTTTATTTTCTGTTGCGTAACCTGATTTAAGGAAACAATGTTGATTACTATTTTGAATC
TAGATTCTATCCAC
Found at i:27874401 original size:100 final size:100
Alignment explanation
Indices: 27874222--27874418 Score: 297
Period size: 100 Copynumber: 2.0 Consensus size: 100
27874212 CCTCAGGTCA
* * *
27874222 AAGGCAGGAAACCTATATTGCCTTTCCTACTTCCTTACCCCAAGTTCCACTTTCTCCTCCCTATC
1 AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
*
27874287 TTCTACTTCAACCACCCTAGTAGATGGCTCTTCGC
66 TTCTACTTCAACCACCCTAGTAGACGGCTCTTCGC
* * * *
27874322 AAGGCAAGCAACCTCTATTTCCTCTCCTACTTCCTTACTCCAAGTTCCACTTGCTCCTCCCTATC
1 AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
*
27874387 TTCTA-TTCCGACCACCCTAGTAGACGGCTCTT
66 TTCTACTT-CAACCACCCTAGTAGACGGCTCTT
27874419 TGCCCTATCT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
99 2 0.02
100 85 0.98
ACGTcount: A:0.20, C:0.37, G:0.11, T:0.32
Consensus pattern (100 bp):
AAGGCAAGAAACCTATATTGCCTCTCCTACTTCCTTACCCCAAGTTCCACTTGCTCCTCCCTATC
TTCTACTTCAACCACCCTAGTAGACGGCTCTTCGC
Found at i:27877156 original size:16 final size:17
Alignment explanation
Indices: 27877137--27877171 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
27877127 ATTGTGATCG
*
27877137 AAGTTAAAT-TTAAAAA
1 AAGTAAAATGTTAAAAA
27877153 AAGTAAAATGTTAAAAA
1 AAGTAAAATGTTAAAAA
27877170 AA
1 AA
27877172 TAATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAGTAAAATGTTAAAAA
Found at i:27885550 original size:4 final size:4
Alignment explanation
Indices: 27885541--27885567 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
27885531 GTTTATACCT
27885541 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
27885568 TTATATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:27891646 original size:7 final size:7
Alignment explanation
Indices: 27891634--27891676 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
27891624 AAAAAGGGGG
27891634 TGAAAAA
1 TGAAAAA
27891641 TGAAAAA
1 TGAAAAA
27891648 TGAAAAA
1 TGAAAAA
27891655 TG-AAAA
1 TGAAAAA
27891661 TGAAAAA
1 TGAAAAA
27891668 -GTAAAAA
1 TG-AAAAA
27891675 TG
1 TG
27891677 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 7 0.21
7 25 0.76
8 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:27891660 original size:20 final size:20
Alignment explanation
Indices: 27891637--27891676 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27891627 AAGGGGGTGA
27891637 AAAATGAAAAA-TGAAAAATG
1 AAAATGAAAAAGT-AAAAATG
27891657 AAAATGAAAAAGTAAAAATG
1 AAAATGAAAAAGTAAAAATG
27891677 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAAGTAAAAATG
Found at i:27893024 original size:87 final size:87
Alignment explanation
Indices: 27892878--27893272 Score: 610
Period size: 87 Copynumber: 4.5 Consensus size: 87
27892868 CAGATCAGTG
* * ** *
27892878 AAGATAGCAGATCTTGCCTTCCTGCATCGACAGCAAAATAGATCGAAAGCAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
27892943 TCGGTTGCAGTGGAGCGGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* *
27892965 AAGATAGCAGATCTTGCCTTCTTACATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
27893030 TCAGTTGCAGTGGAGCGGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
*
27893052 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
27893117 TCGGTTGCAGTGGAGCAAGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* *
27893139 AAGATTGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCC
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
27893204 TCGGTTGCAGTGGAGCAGGTTA
66 TCGGTTGCAGTGGAGCAGGTTA
* * * * * *
27893226 AAGATAGCAAATCTTGCCTTTCTACGTCGACAGTGAAGCAGATCGAA
1 AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAA
27893273 GATTACAAGT
Statistics
Matches: 283, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 283 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (87 bp):
AAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTGGAGCAGGTTA
Found at i:27893026 original size:43 final size:42
Alignment explanation
Indices: 27892977--27893200 Score: 109
Period size: 43 Copynumber: 5.2 Consensus size: 42
27892967 GATAGCAGAT
*
27892977 CTTGCCTTCTTACATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCAT-CATTGACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
27893020 CTTGCCTCCATCAGTTG-CAGTGGAGCGGGT-TAAAGATAGCAGAT
1 CTTGCCTTCATCA-TTGACAGCGAAGCAGATCGAAA-ACA-AAG-C
* *
27893064 CTTGCCTTCCTGCATTGACAGCGAAACAGATCGAAAACAAAGC
1 CTTGCCTTCAT-CATTGACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * *
27893107 CTTGCCTCCATCGGTTG-CAGTGGAGCA-AGT-TAAAGATTGCAGA-T
1 CTTGCCTTCATC-ATTGACAGCGAAGCAGA-TCGAAA-A---CAAAGC
*
27893151 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCAT-CATTGACAGCGAAGCAGATCGAAAACAAAGC
27893194 CTTGCCT
1 CTTGCCT
27893201 CCCTCGGTTG
Statistics
Matches: 125, Mismatches: 38, Indels: 36
0.63 0.19 0.18
Matches are distributed among these distances:
41 7 0.06
42 26 0.21
43 33 0.26
44 26 0.21
45 26 0.21
46 7 0.06
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (42 bp):
CTTGCCTTCATCATTGACAGCGAAGCAGATCGAAAACAAAGC
Found at i:27893478 original size:131 final size:130
Alignment explanation
Indices: 27893277--27893770 Score: 661
Period size: 131 Copynumber: 3.8 Consensus size: 130
27893267 ATCGAAGATT
* * * * * *
27893277 ACAAGTCCTATATCCCTGGCCAACACTGGAATAGGTTGGGAAATTACAAATCTTGTCT-CTCTAA
1 ACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTT-GGAAATTGCAGATCTTGTCTCCT-TAA
* *
27893341 GCAATAGTGGAGCAGATCGAGGACGGCGGATCTTATCTTCCCCAGAAGTAGGGAAACAGATTTAA
64 GCAATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAG-AGTAGGGAAACAGATTTAA
27893406 GCC
128 GCC
* * *
27893409 ACAAGTCCTATGTCCTTGACCAGCAGTAGAATAGGTTGGAAATTGCAGATCTTATCTCCTTAAGC
1 ACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCTTAAGC
* *
27893474 AATAGTGGAGCAGATCGAAGATGGCGGATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
66 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCA-GAGTAGGGAAACAGATTTAAGC
27893539 C
130 C
* **
27893540 ACAAGTCCTATGTCCCTGACCAGTAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCAGAAGC
1 ACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCTTAAGC
* * * * * * * *
27893605 AGTAGTAGAGCAGATCGAGGACGGCGAATCTTATCTT--CAAGTGTAAGGAAGCAAATTTAAGCC
66 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAGTAGGGAAACAGATTTAAGCC
* * * *
27893668 ACAAGTCCTATGTCCCTGACCAGTAGTGAAATAGTTTGGAAATTGCAGATCTTGTCTCCCTAAGC
1 ACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCTTAAGC
* *
27893733 AGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
66 AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTC
27893771 AAGTGTAAAG
Statistics
Matches: 325, Mismatches: 34, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
128 114 0.35
129 2 0.01
131 175 0.54
132 34 0.10
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (130 bp):
ACAAGTCCTATGTCCCTGACCAGCAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCTTAAGC
AATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGAGTAGGGAAACAGATTTAAGCC
Found at i:27893745 original size:259 final size:262
Alignment explanation
Indices: 27893277--27893770 Score: 701
Period size: 259 Copynumber: 1.9 Consensus size: 262
27893267 ATCGAAGATT
* *
27893277 ACAAGTCCTATATCCCTGGCCAACACTGGAATAGGTTGGGAAATTACAAATCTTGTCTCTCTAAG
1 ACAAGTCCTATATCCCTGACCAACACTGGAATAGGTTGGGAAATTACAAATCTTGTCTCTCGAAG
* * * * *
27893342 CAATAGTGGAGCAGATCGAGGACGGCGGATCTTATCTTCCCCAGAAGTAGGGAAACAGATTTAAG
66 CAATAGTAGAGCAGATCGAGGACGGCGAATCTTATCTT-CCAAGAAGTAAGGAAACAAATTTAAG
* *
27893407 CCACAAGTCCTATGTCCTTGACCAGCAGTAGAATAGGTTGGAAATTGCAGATCTTATCTCCTTAA
130 CCACAAGTCCTATGTCCCTGACCAGCAGTAGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAA
* * *
27893472 GCAATAGTGGAGCAGATCGAAGATGGCGGATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAA
195 GCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAA
27893537 GCC
260 GCC
* ** * * *
27893540 ACAAGTCCTATGTCCCTGACCAGTAGTGGAATAGGTT-GGAAATTGCAGATCTTGTCTC-CAGAA
1 ACAAGTCCTATATCCCTGACCAACACTGGAATAGGTTGGGAAATTACAAATCTTGTCTCTC-GAA
* * *
27893603 GCAGTAGTAGAGCAGATCGAGGACGGCGAATCTTATCTT-CAAG-TGTAAGGAAGCAAATTTAAG
65 GCAATAGTAGAGCAGATCGAGGACGGCGAATCTTATCTTCCAAGAAGTAAGGAAACAAATTTAAG
* * *
27893666 CCACAAGTCCTATGTCCCTGACCAGTAGT-GAAATAGTTTGGAAATTGCAGATCTTGTCTCCCTA
130 CCACAAGTCCTATGTCCCTGACCAGCAGTAG-AATAGGTTGGAAATTGCAGATCTTATCTCCCTA
*
27893730 AGCAGTAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
194 AGCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTC
27893771 AAGTGTAAAG
Statistics
Matches: 204, Mismatches: 25, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
258 1 0.00
259 110 0.54
260 3 0.01
261 1 0.00
262 57 0.28
263 32 0.16
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (262 bp):
ACAAGTCCTATATCCCTGACCAACACTGGAATAGGTTGGGAAATTACAAATCTTGTCTCTCGAAG
CAATAGTAGAGCAGATCGAGGACGGCGAATCTTATCTTCCAAGAAGTAAGGAAACAAATTTAAGC
CACAAGTCCTATGTCCCTGACCAGCAGTAGAATAGGTTGGAAATTGCAGATCTTATCTCCCTAAG
CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAG
CC
Found at i:27893848 original size:128 final size:127
Alignment explanation
Indices: 27893350--27893814 Score: 351
Period size: 128 Copynumber: 3.6 Consensus size: 127
27893340 AGCAATAGTG
* * * * ** * * *
27893350 GAGCAGATCGAGGACGGCGGATCTTATCTTCCCCAGAAGTAGGGAAACAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACGGCGAATCTTATCTT--CAAG-TGTAAAGAAGCAAATTGAAGCCACAAGT
* * * ** * ** *
27893415 CCTATGTCCTTGACCAGCAGTAGAATAG-G-TTGGAAATTGCAGATCTTATCTCCTTAAGCAATA
63 CCTATCTCCCTGACCAGTAGT-GAA-AGAGATT-GAAATAACAGATCTTGTCTCCAGAAGCAGTA
**
27893478 GTG
125 GCA
* * * * ** * * *
27893481 GAGCAGATCGAAGATGGCGGATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACAAGT
1 GAGCAGATCGAAGACGGCGAATCTTATCTT---CAAGTGTAAAGAAGCAAATTGAAGCCACAAGT
* * * * ** *
27893546 CCTATGTCCCTGACCAGTAGTGGAATAGGTTGGAAATTGCAGATCTTGTCTCCAGAAGCAGTAGT
63 CCTATCTCCCTGACCAGTAGTGAAAGAGATT-GAAATAACAGATCTTGTCTCCAGAAGCAGTAGC
27893611 A
127 A
* * *
27893612 GAGCAGATCGAGGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAAATTTAAGCCACAAGTCCT
1 GAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAAGAAGCAAATTGAAGCCACAAGTCCT
* * * ** ** *
27893677 ATGTCCCTGACCAGTAGTGAAATAGTTTGGAAATTGCAGATCTTGTCTCCCTAAGCAGTAGCG
66 ATCTCCCTGACCAGTAGTGAAAGAGATT-GAAATAACAGATCTTGTCTCCAGAAGCAGTAGCA
* * *
27893740 GAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAAGAAGCAGATTGAAGTCGATAA-TCC
1 GAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAAGAAGCAAATTGAAG-CCACAAGTCC
27893804 TATCTCCCTGA
65 TATCTCCCTGA
27893815 AGTTGTAGTG
Statistics
Matches: 296, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
128 150 0.51
129 5 0.02
130 3 0.01
131 134 0.45
132 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (127 bp):
GAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAAGAAGCAAATTGAAGCCACAAGTCCT
ATCTCCCTGACCAGTAGTGAAAGAGATTGAAATAACAGATCTTGTCTCCAGAAGCAGTAGCA
Found at i:27901585 original size:15 final size:15
Alignment explanation
Indices: 27901553--27901590 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27901543 AGATTAATTC
*
27901553 TTAATTAAGATTTTA
1 TTAATTAAGATTTGA
27901568 TTAACTTAAG-TTTGA
1 TTAA-TTAAGATTTGA
27901583 TTAATTAA
1 TTAATTAA
27901591 CAAAAGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (15 bp):
TTAATTAAGATTTGA
Found at i:27909285 original size:51 final size:50
Alignment explanation
Indices: 27909152--27909337 Score: 221
Period size: 51 Copynumber: 3.7 Consensus size: 50
27909142 GTGAAAGTGA
* * *
27909152 TGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATA-AT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-AGATAGTT
* * *
27909202 AGGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT
* * * * * * *
27909253 TGATTACGTGTGTAGTACTATGTGCAGGCTACTACGTGCATCGGATAGTGA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT-T
27909304 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTA
27909338 GTATCATTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
49 4 0.04
50 39 0.34
51 71 0.62
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:27916765 original size:25 final size:25
Alignment explanation
Indices: 27916737--27916848 Score: 120
Period size: 25 Copynumber: 4.5 Consensus size: 25
27916727 CAAGTAACTA
27916737 GCCACAAAAGCTTCCCAAATAAATC
1 GCCACAAAAGCTTCCCAAATAAATC
* * * *
27916762 GCCACAAAGGTTTCCCAAACAATTC
1 GCCACAAAAGCTTCCCAAATAAATC
* *
27916787 GCCACAAAGGCTT-CCAAGTAAATC
1 GCCACAAAAGCTTCCCAAATAAATC
* *
27916811 ACCAC-AAAGACTTCCCAAATAATTC
1 GCCACAAAAG-CTTCCCAAATAAATC
*
27916836 ACCACAAAAGCTT
1 GCCACAAAAGCTT
27916849 GGTTTGGTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 3 0.04
24 15 0.21
25 50 0.69
26 4 0.06
ACGTcount: A:0.41, C:0.31, G:0.10, T:0.18
Consensus pattern (25 bp):
GCCACAAAAGCTTCCCAAATAAATC
Found at i:27916819 original size:49 final size:50
Alignment explanation
Indices: 27916737--27916848 Score: 154
Period size: 49 Copynumber: 2.3 Consensus size: 50
27916727 CAAGTAACTA
* **
27916737 GCCACAAAAGCTTCCCAAATAAATCGCCACAAAGGTTTCCCAAACAATTC
1 GCCACAAAAGCTTCCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
* * *
27916787 GCCACAAAGGCTT-CCAAGTAAATCACCACAAAGACTTCCCAAATAATTC
1 GCCACAAAAGCTTCCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
*
27916836 ACCACAAAAGCTT
1 GCCACAAAAGCTT
27916849 GGTTTGGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
49 42 0.78
50 12 0.22
ACGTcount: A:0.41, C:0.31, G:0.10, T:0.18
Consensus pattern (50 bp):
GCCACAAAAGCTTCCCAAATAAATCACCACAAAGACTTCCCAAACAATTC
Found at i:27922025 original size:25 final size:25
Alignment explanation
Indices: 27921992--27922051 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
27921982 TACCAAAAAA
*
27921992 GCTTCCCAAATAAATCGT-CATAAAG
1 GCTTTCCAAATAAATC-TCCATAAAG
*
27922017 GCTTTCCAACTAAATCTCCATAAAG
1 GCTTTCCAAATAAATCTCCATAAAG
27922042 GCTTTCCAAA
1 GCTTTCCAAA
27922052 CAATTTGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (25 bp):
GCTTTCCAAATAAATCTCCATAAAG
Found at i:27935695 original size:20 final size:20
Alignment explanation
Indices: 27935666--27935706 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
27935656 TAACATAGAA
27935666 TTTTTTTTAATTTTT-TTGT
1 TTTTTTTTAATTTTTATTGT
27935685 TTTTGTTTTAATTTTTATTGT
1 TTTT-TTTTAATTTTTATTGT
27935706 T
1 T
27935707 AATTGTGTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTTTTAATTTTTATTGT
Found at i:27935700 original size:21 final size:19
Alignment explanation
Indices: 27935666--27935706 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
27935656 TAACATAGAA
*
27935666 TTTTTTTTAATTTTTTTGT
1 TTTTTTTTAATTTTATTGT
27935685 TTTTGTTTTAATTTTTATTGT
1 TTTT-TTTTAA-TTTTATTGT
27935706 T
1 T
27935707 AATTGTGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 9 0.47
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTTTTTTAATTTTATTGT
Found at i:27953133 original size:18 final size:19
Alignment explanation
Indices: 27953088--27953136 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
27953078 GAATATTTAC
*
27953088 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
27953108 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
27953126 ATAAAAATAAA
1 ATAAAAATAAA
27953137 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:27959555 original size:18 final size:19
Alignment explanation
Indices: 27959510--27959558 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
27959500 GAATATTTAC
*
27959510 ATAAAAATTAAACTAAGTAA
1 ATAAAAA-TAAACTAAATAA
27959530 A-AATAAATAAA-TAAATAA
1 ATAA-AAATAAACTAAATAA
27959548 ATAAAAATAAA
1 ATAAAAATAAA
27959559 AATAAAACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 8 0.31
20 4 0.15
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
ATAAAAATAAACTAAATAA
Found at i:27960091 original size:27 final size:27
Alignment explanation
Indices: 27960041--27960152 Score: 136
Period size: 27 Copynumber: 4.1 Consensus size: 27
27960031 ACACTTTAAA
* * *
27960041 AAAAGGAAGCCTTTGAGGCGATCTATG
1 AAAAGGAAGCTTTTGTGGCAATCTATG
*
27960068 AAAAGGAAG-TTGTTGTGGTAATCTATG
1 AAAAGGAAGCTT-TTGTGGCAATCTATG
* * *
27960095 AAAAGGAAGCCTTTGTGGCGATCTATT
1 AAAAGGAAGCTTTTGTGGCAATCTATG
*
27960122 AAAAAGAAGCTTTTGTGGCAATCTATG
1 AAAAGGAAGCTTTTGTGGCAATCTATG
27960149 AAAA
1 AAAA
27960153 AATAAAGAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (27 bp):
AAAAGGAAGCTTTTGTGGCAATCTATG
Found at i:27960138 original size:54 final size:54
Alignment explanation
Indices: 27960041--27960222 Score: 186
Period size: 54 Copynumber: 3.3 Consensus size: 54
27960031 ACACTTTAAA
* * * *
27960041 AAAAGGAAGCCTTTGAGGCGATCTATGAAAAGGAAG-TTGTTGTGGTAATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATTAAAAAGAAGCTT-TTGTGGCAATCTATG
27960095 AAAAGGAAGCCTTTGTGGCGATCTATTAAAAAGAAGCTTTTGTGGCAATCTATG
1 AAAAGGAAGCCTTTGTGGCGATCTATTAAAAAGAAGCTTTTGTGGCAATCTATG
** ** * * * * * **
27960149 AAAAAATAAAGAATTTATGGCGATCTATTAAAAATAAACCTTTATGGCGGTCTATG
1 --AAAAGGAAGCCTTTGTGGCGATCTATTAAAAAGAAGCTTTTGTGGCAATCTATG
*
27960205 AAAATGAAGCCTTTGTGG
1 AAAAGGAAGCCTTTGTGG
27960223 AAAACCCTAT
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
54 61 0.58
55 2 0.02
56 43 0.41
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (54 bp):
AAAAGGAAGCCTTTGTGGCGATCTATTAAAAAGAAGCTTTTGTGGCAATCTATG
Found at i:27960153 original size:27 final size:27
Alignment explanation
Indices: 27960040--27960222 Score: 134
Period size: 27 Copynumber: 6.7 Consensus size: 27
27960030 AACACTTTAA
* *
27960040 AAAAAGGAAGCCTTTGAGGCGATCTATG
1 AAAAA-GAAGCCTTTGTGGCAATCTATG
* * *
27960068 AAAAGGAAG-TTGTTGTGGTAATCTATG
1 AAAAAGAAGCCT-TTGTGGCAATCTATG
* * *
27960095 AAAAGGAAGCCTTTGTGGCGATCTATT
1 AAAAAGAAGCCTTTGTGGCAATCTATG
*
27960122 AAAAAGAAGCTTTTGTGGCAATCTATG
1 AAAAAGAAGCCTTTGTGGCAATCTATG
* ** * * *
27960149 AAAAAATAAAGAATTTATGGCGATCTATT
1 -AAAAA-GAAGCCTTTGTGGCAATCTATG
* * * **
27960178 AAAAATAAACCTTTATGGCGGTCTATG
1 AAAAAGAAGCCTTTGTGGCAATCTATG
*
27960205 AAAATGAAGCCTTTGTGG
1 AAAAAGAAGCCTTTGTGG
27960223 AAAACCCTAT
Statistics
Matches: 122, Mismatches: 29, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
26 1 0.01
27 90 0.74
28 15 0.12
29 16 0.13
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAAAGAAGCCTTTGTGGCAATCTATG
Found at i:27971616 original size:22 final size:23
Alignment explanation
Indices: 27971588--27971632 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
27971578 CTTTTGAGCT
*
27971588 ATAAAAATAATAA-AATATTTTA
1 ATAAAAATAATAATAAAATTTTA
*
27971610 ATAAAAATACTAATAAAATTTTA
1 ATAAAAATAATAATAAAATTTTA
27971633 GTTTTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
ATAAAAATAATAATAAAATTTTA
Found at i:27973256 original size:44 final size:44
Alignment explanation
Indices: 27973193--27973280 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
27973183 TTCAAACTGG
27973193 AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
1 AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
27973237 AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
1 AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
27973281 CTTACTTCAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (44 bp):
AGATAAGTGACATTGTAAGAACGTTTACATTGCGAAAAAGACAA
Found at i:27974861 original size:68 final size:69
Alignment explanation
Indices: 27974780--27974914 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
27974770 TTTTAATAGT
* * *
27974780 TTAATATTAAATTTAATTTAATACTTATATTAAT-AATATTTTATTAATTTAAAATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
27974844 TATC
66 TATC
* * * **
27974848 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTATTATTAAAGCGAT
1 TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
27974913 TA
66 TA
27974915 AGTTTAATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 30 0.52
69 28 0.48
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATACTTATATTAATAAATATTATATTAATTTAAAATTAAAGCGAT
TATC
Found at i:27975461 original size:24 final size:24
Alignment explanation
Indices: 27975412--27975466 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
27975402 TAAAGTAGGT
* *
27975412 TATA-TATTATTTTTATAATATTA
1 TATATTATAATTTTTATAATATCA
27975435 TATATTATAATTTTTATTAAT-TCA
1 TATATTATAATTTTTA-TAATATCA
*
27975459 TATTTTAT
1 TATATTAT
27975467 TAATAATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTATAATTTTTATAATATCA
Found at i:27975520 original size:15 final size:14
Alignment explanation
Indices: 27975506--27975552 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 14
27975496 TATATATTAT
27975506 TTTAATAAATTTTA
1 TTTAATAAATTTTA
27975520 TTTAATTAAATTTTA
1 TTTAA-TAAATTTTA
27975535 TTTAATAATAATTTTA
1 TTTAAT-A-AATTTTA
27975551 TT
1 TT
27975553 AAAATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.20
15 15 0.50
16 9 0.30
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTAATAAATTTTA
Found at i:27975527 original size:30 final size:31
Alignment explanation
Indices: 27975487--27975555 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
27975477 ATTAAGAATG
*
27975487 TTATTAAATTATATATTATTT--TAATAAATT
1 TTATTAAATTAAATATTATTTAATAAT-AATT
* *
27975517 TTATTTAATTAAATTTTATTTAATAATAATT
1 TTATTAAATTAAATATTATTTAATAATAATT
27975548 TTATTAAA
1 TTATTAAA
27975556 ATTTAATAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 18 0.55
31 11 0.33
32 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATTAAATTAAATATTATTTAATAATAATT
Found at i:27980987 original size:33 final size:35
Alignment explanation
Indices: 27980950--27981046 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
27980940 ATGGTTATAT
27980950 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
27980983 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
27981018 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
27981047 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:27981251 original size:13 final size:13
Alignment explanation
Indices: 27981228--27981290 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
27981218 AAAACAAACA
27981228 TTTCAAAAGCACT
1 TTTCAAAAGCACT
* *
27981241 TCTCCAAAGCACT
1 TTTCAAAAGCACT
* * * *
27981254 TTTCCACATCACC
1 TTTCAAAAGCACT
27981267 TTTCAAAAGCACT
1 TTTCAAAAGCACT
27981280 TTTCAAAAGCA
1 TTTCAAAAGCA
27981291 TTCCTAAACT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.35, C:0.30, G:0.06, T:0.29
Consensus pattern (13 bp):
TTTCAAAAGCACT
Found at i:27983975 original size:16 final size:16
Alignment explanation
Indices: 27983954--27983984 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27983944 TTCACTATTA
*
27983954 TGTCTTTTGTATTTTT
1 TGTCTTTTATATTTTT
27983970 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
27983985 ACATACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTT
Found at i:27985734 original size:204 final size:204
Alignment explanation
Indices: 27985384--27985785 Score: 714
Period size: 204 Copynumber: 2.0 Consensus size: 204
27985374 TACTAGGGAA
*
27985384 TTTGATTTCAGATTAACCATTACAGAAATAATATTATTTTAATCTTTTAATATTAAATTTAATGT
1 TTTGATTTCAGATTAACCATTACAGAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
* **
27985449 AATACTTATTTTAATAGTATTTTATTAATTTAATATTAAAATTTTTATCTTAATATTAAATTTAA
66 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAATGATTATCTTAATATTAAATTTAA
27985514 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
131 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
27985579 ATTGTTTAT
196 ATTGTTTAT
* * *
27985588 TTTGATTTTAGATTAACTATTACAGAAATAATCTTATTTTAATATTTTAATATTAAATTTAATGT
1 TTTGATTTCAGATTAACCATTACAGAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
*
27985653 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAGTGATTATCTTAATATTAAATTTAA
66 AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAATGATTATCTTAATATTAAATTTAA
* *
27985718 TTTAATGTTTATCTTGTAGATAAATATTATATTATTTTAATAAGATTTAATATTAAATTTAATCT
131 TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
27985783 ATT
196 ATT
27985786 ATTTTTCTTG
Statistics
Matches: 188, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
204 188 1.00
ACGTcount: A:0.39, C:0.04, G:0.05, T:0.51
Consensus pattern (204 bp):
TTTGATTTCAGATTAACCATTACAGAAATAATATTATTTTAATATTTTAATATTAAATTTAATGT
AATACTTATTTTAATAGTATTTTATTAATCTAATATTAAAATGATTATCTTAATATTAAATTTAA
TTTAATGTTTATCTTGTAGATAAAAATTATATTATTTTAATAAGATTTAATATTAAATTTAACCT
ATTGTTTAT
Found at i:27985817 original size:59 final size:62
Alignment explanation
Indices: 27985702--27985818 Score: 168
Period size: 62 Copynumber: 1.9 Consensus size: 62
27985692 AGTGATTATC
* * *
27985702 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTATATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
* *
27985764 TTAATATTAAATTTAATCTATTATTTTTC-T-T-GATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATA
27985819 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 23 0.46
60 1 0.02
61 1 0.02
62 25 0.50
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:27990157 original size:28 final size:30
Alignment explanation
Indices: 27990106--27990167 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
27990096 CATAATTTAA
*
27990106 CATAAAAATTCCTAAATGAAAAT-AAAGTC
1 CATAAAAATTCCTAAATCAAAATAAAAGTC
27990135 CATAAAAA-TCC-AAATCATAAATAAAAGTC
1 CATAAAAATTCCTAAATCA-AAATAAAAGTC
27990164 CATA
1 CATA
27990168 TATATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.17
28 7 0.23
29 18 0.60
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (30 bp):
CATAAAAATTCCTAAATCAAAATAAAAGTC
Found at i:27994262 original size:6 final size:6
Alignment explanation
Indices: 27994253--27994285 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
27994243 AAAAAGAAAA
27994253 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGG
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGG
27994286 TGTAAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.52, T:0.30
Consensus pattern (6 bp):
AGGGTT
Found at i:27995844 original size:22 final size:22
Alignment explanation
Indices: 27995803--27995844 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27995793 CAGATAAAAC
*
27995803 AATTAAAATAAATAACTAAGAT
1 AATTAAAATAAACAACTAAGAT
27995825 AATTAAAATAGAACAA-TAAG
1 AATTAAAATA-AACAACTAAG
27995845 GAAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
AATTAAAATAAACAACTAAGAT
Found at i:27997868 original size:17 final size:17
Alignment explanation
Indices: 27997846--27997878 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27997836 CCCATTACTG
27997846 AAATAAACT-AAATAAAC
1 AAATAAA-TAAAATAAAC
27997863 AAATAAATAAAATAAA
1 AAATAAATAAAATAAA
27997879 ACCAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAATAAATAAAATAAAC
Found at i:27998250 original size:5 final size:5
Alignment explanation
Indices: 27998240--27998267 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27998230 TTTGTTTGGA
27998240 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
27998268 TATTCTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:28022810 original size:27 final size:28
Alignment explanation
Indices: 28022726--28022823 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
28022716 CATGAGATTG
* * * *
28022726 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
28022755 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
28022783 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
28022810 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
28022824 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:28022834 original size:27 final size:27
Alignment explanation
Indices: 28022754--28022836 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
28022744 TAAATTGTAC
* *
28022754 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
28022782 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
28022809 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
28022836 A
1 A
28022837 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:28022837 original size:29 final size:27
Alignment explanation
Indices: 28022726--28022837 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
28022716 CATGAGATTG
** * *
28022726 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
28022755 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
28022783 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
28022810 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
28022838 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:28025097 original size:174 final size:174
Alignment explanation
Indices: 28024807--28025162 Score: 658
Period size: 174 Copynumber: 2.0 Consensus size: 174
28024797 CTCAATCTAA
*
28024807 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTATGCAGAACCCCTT
1 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
*
28024872 CAATTGAACAATGAACAATGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
66 CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
* *
28024937 AAAAGAAAACCAAAAGTGAAAAAAAAACAGTAACCAGAACCTAG
131 AAAAGAAAACCAAAAGTAAAAAAAAAACAGTAACCAAAACCTAG
28024981 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
1 AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
*
28025046 CAATTGAATAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
66 CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
*
28025111 AAAAGAAAACCAAAAGTAAAAAAAAAATAGTAACCAAAACCTAG
131 AAAAGAAAACCAAAAGTAAAAAAAAAACAGTAACCAAAACCTAG
28025155 AAAAGAAC
1 AAAAGAAC
28025163 GTAGAAGAAA
Statistics
Matches: 176, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 176 1.00
ACGTcount: A:0.51, C:0.18, G:0.14, T:0.17
Consensus pattern (174 bp):
AAAAGAACAGATGAAATCTCACGAATTAGAAGTAGACAACAAGAACAACTTACGCAGAACCCCTT
CAATTGAACAATGAACAACGCTGAACCTTCAATTTAATTCAATAGTAAAATCACGGGGACAAGTA
AAAAGAAAACCAAAAGTAAAAAAAAAACAGTAACCAAAACCTAG
Found at i:28033095 original size:27 final size:26
Alignment explanation
Indices: 28033019--28033083 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
28033009 AAACTTTTCT
*
28033019 AAAAG-AAACTCAAGAGAAATTCTTG
1 AAAAGAAAACTCAAGAGAAATTATTG
* *
28033044 AAAAAAAAACTTAAGAGAAATTATTG
1 AAAAGAAAACTCAAGAGAAATTATTG
28033070 AAAAGAAAACTCAA
1 AAAAGAAAACTCAA
28033084 AAAGAATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.18
Consensus pattern (26 bp):
AAAAGAAAACTCAAGAGAAATTATTG
Found at i:28037466 original size:13 final size:13
Alignment explanation
Indices: 28037450--28037475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
28037440 AATTTAAGTT
28037450 TTTTAATTAAATA
1 TTTTAATTAAATA
28037463 TTTTAATTAAATA
1 TTTTAATTAAATA
28037476 AATATAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTTAATTAAATA
Found at i:28042327 original size:16 final size:16
Alignment explanation
Indices: 28042306--28042338 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28042296 AATGTAAATC
28042306 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
28042322 AAGAGTTGCAAAATTA
1 AAGAGTTGCAAAATTA
28042338 A
1 A
28042339 CACTTAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AAGAGTTGCAAAATTA
Found at i:28042918 original size:5 final size:5
Alignment explanation
Indices: 28042898--28042938 Score: 55
Period size: 5 Copynumber: 8.0 Consensus size: 5
28042888 ATATTGTGGA
* *
28042898 ATTTAT ATTTT GTTTT TTTTT ATTTT ATTTT ATTTT ATTTT
1 ATTT-T ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
28042939 TTCTCTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:28048324 original size:41 final size:41
Alignment explanation
Indices: 28048267--28048346 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
28048257 ACTATTCCAC
28048267 AATTTTGCGTTCTCCTCAACTTCTCGCGATATTTTGTATAA
1 AATTTTGCGTTCTCCTCAACTTCTCGCGATATTTTGTATAA
28048308 AATTTTGCGTTCTCCTCAACTTCTCGCGATATTTTGTAT
1 AATTTTGCGTTCTCCTCAACTTCTCGCGATATTTTGTAT
28048347 TAACCAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (41 bp):
AATTTTGCGTTCTCCTCAACTTCTCGCGATATTTTGTATAA
Found at i:28051577 original size:7 final size:7
Alignment explanation
Indices: 28051567--28051612 Score: 56
Period size: 7 Copynumber: 6.0 Consensus size: 7
28051557 TGATATATTT
28051567 TTATGTA
1 TTATGTA
28051574 TTATGTAA
1 TTATGT-A
28051582 GTTATGTAA
1 -TTATGT-A
28051591 GTTATGTA
1 -TTATGTA
28051599 TTATGTA
1 TTATGTA
28051606 TTATGTA
1 TTATGTA
28051613 AGTACTGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 20 0.54
8 2 0.05
9 15 0.41
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (7 bp):
TTATGTA
Found at i:28051588 original size:9 final size:9
Alignment explanation
Indices: 28051574--28052067 Score: 477
Period size: 9 Copynumber: 57.4 Consensus size: 9
28051564 TTTTTATGTA
28051574 TTATGTAAG
1 TTATGTAAG
28051583 TTATGTAAG
1 TTATGTAAG
28051592 TTATGT-A-
1 TTATGTAAG
28051599 TTATGT-A-
1 TTATGTAAG
28051606 TTATGTAAG
1 TTATGTAAG
28051615 -TACTGTAAG
1 TTA-TGTAAG
*
28051624 TAATGTAAG
1 TTATGTAAG
28051633 TTATGTAAG
1 TTATGTAAG
*
28051642 TAATGT-A-
1 TTATGTAAG
28051649 TTATGTAAG
1 TTATGTAAG
*
28051658 TTGTGTATA-
1 TTATGTA-AG
*
28051667 ATAT-TAA-
1 TTATGTAAG
28051674 TTATGTAAG
1 TTATGTAAG
*
28051683 TTGTGT-A-
1 TTATGTAAG
*
28051690 TAATGTAAG
1 TTATGTAAG
*
28051699 TTAAG-AAGG
1 TTATGTAA-G
28051708 TTATGT-A-
1 TTATGTAAG
28051715 TTATGTAAG
1 TTATGTAAG
* *
28051724 TTATTTAAT
1 TTATGTAAG
28051733 TTATGTAAG
1 TTATGTAAG
28051742 TTATGTAAG
1 TTATGTAAG
28051751 TTATGTAAG
1 TTATGTAAG
*
28051760 TTATTTAAG
1 TTATGTAAG
28051769 TTATGTAAG
1 TTATGTAAG
*
28051778 TTATGGAAG
1 TTATGTAAG
* *
28051787 TTATTTAAT
1 TTATGTAAG
28051796 TTATGTAAG
1 TTATGTAAG
28051805 TTATGTAAG
1 TTATGTAAG
*
28051814 TTAAT-TAAT
1 TT-ATGTAAG
28051823 TTATGTAAG
1 TTATGTAAG
*
28051832 CTATGTAAG
1 TTATGTAAG
28051841 TTATGTAAG
1 TTATGTAAG
* *
28051850 TTATTTAAT
1 TTATGTAAG
28051859 TTATGTAAG
1 TTATGTAAG
28051868 TTATGTAAG
1 TTATGTAAG
28051877 TTATGTAAG
1 TTATGTAAG
* *
28051886 TTATTTAAT
1 TTATGTAAG
28051895 TTATGTAAG
1 TTATGTAAG
28051904 TTA--T-A-
1 TTATGTAAG
28051909 -TATGTAAG
1 TTATGTAAG
*
28051917 TTATGTAGG
1 TTATGTAAG
*
28051926 TAATGT-A-
1 TTATGTAAG
*
28051933 TTATGTAAA
1 TTATGTAAG
*
28051942 TAATGTAAG
1 TTATGTAAG
*
28051951 TTA-GAAAGG
1 TTATGTAA-G
28051960 TTATGT-A-
1 TTATGTAAG
28051967 TTATGTAAG
1 TTATGTAAG
*
28051976 TTATTTAAG
1 TTATGTAAG
28051985 TTATGTAAG
1 TTATGTAAG
28051994 TTATGTAAG
1 TTATGTAAG
28052003 TTATGTAAG
1 TTATGTAAG
* *
28052012 TTATTTAAT
1 TTATGTAAG
28052021 TTATGTAAG
1 TTATGTAAG
28052030 TTATGTAAG
1 TTATGTAAG
*
28052039 TTATGTAGG
1 TTATGTAAG
*
28052048 CTATGT-A-
1 TTATGTAAG
*
28052055 TTATGTTAG
1 TTATGTAAG
28052064 TTAT
1 TTAT
28052068 TATGTTATTA
Statistics
Matches: 398, Mismatches: 57, Indels: 60
0.77 0.11 0.12
Matches are distributed among these distances:
4 2 0.01
6 2 0.01
7 50 0.13
8 24 0.06
9 315 0.79
10 5 0.01
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:28051914 original size:13 final size:13
Alignment explanation
Indices: 28051896--28051920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28051886 TTATTTAATT
28051896 TATGTAAGTTATA
1 TATGTAAGTTATA
28051909 TATGTAAGTTAT
1 TATGTAAGTTAT
28051921 GTAGGTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TATGTAAGTTATA
Found at i:28052085 original size:20 final size:19
Alignment explanation
Indices: 28052049--28052087 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
28052039 TTATGTAGGC
* *
28052049 TATGTATTATGTTAGTTAT
1 TATGTATTATATAAGTTAT
28052068 TATGTTATTATATAAGTTAT
1 TATG-TATTATATAAGTTAT
28052088 GCAAGTTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (19 bp):
TATGTATTATATAAGTTAT
Found at i:28052203 original size:17 final size:18
Alignment explanation
Indices: 28052171--28052204 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28052161 TGATTGATAA
28052171 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
28052189 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
28052205 CATTAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:28052302 original size:22 final size:22
Alignment explanation
Indices: 28052241--28052314 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
28052231 GTTATTATAA
*
28052241 GTAATGTATTTCGGTAAGTAAT
1 GTAATATATTTCGGTAAGTAAT
* * *** *
28052263 G-AATTTATATATTTAAGTTAT
1 GTAATATATTTCGGTAAGTAAT
28052284 GTAATATATTTCGGTAAGTAAT
1 GTAATATATTTCGGTAAGTAAT
28052306 GTAATATAT
1 GTAATATAT
28052315 AGCGGAAAAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
21 15 0.38
22 24 0.62
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.45
Consensus pattern (22 bp):
GTAATATATTTCGGTAAGTAAT
Found at i:28054348 original size:13 final size:13
Alignment explanation
Indices: 28054330--28054372 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
28054320 TGTTAACTTT
28054330 TAACCCCTAACCC
1 TAACCCCTAACCC
*
28054343 TAACCCCTAAACCT
1 TAACCCCT-AACCC
* *
28054357 TAAACCCAAACCC
1 TAACCCCTAACCC
28054370 TAA
1 TAA
28054373 ATCCATACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
TAACCCCTAACCC
Found at i:28055445 original size:114 final size:113
Alignment explanation
Indices: 28055037--28055465 Score: 583
Period size: 114 Copynumber: 3.8 Consensus size: 113
28055027 GCTTACCCAT
* *
28055037 AAACGCCACTAAATCCCCTGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTATTTTTGCGCCG
1 AAACGCCACTAAATCCCC-GAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCG
28055102 CCTTCTC-AAAATCGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
65 -CTTCTCAAAAAT-GCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
* *
28055152 AAACACTACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
* * *
28055217 ATTCCCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTGAC-TAA
66 -TTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCG-TTTACTTAA
* * * ** *
28055266 AAACGTCGCTAAATCCCCGAAAGCTCAGAAAATGGTATCGTTGGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
**
28055331 TGTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGATGTTTACTTAA
66 T-TCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
* ** *
28055380 AAATGCCACTAAATCCTTGAAAGCTCAGCAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
1 AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
* * *
28055445 TTACTTAAAAACGCCGTTAAA
66 TT-CTCAAAAATGCCGCTAAA
28055466 TCGCCAAAAG
Statistics
Matches: 275, Mismatches: 33, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
113 7 0.03
114 243 0.88
115 25 0.09
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (113 bp):
AAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTAGGCTTAGGTATTTTTGCGGCGC
TTCTCAAAAATGCCGCTAAAGCCCTGGGCATTAGCGGCGTTTACTTAA
Found at i:28055819 original size:114 final size:113
Alignment explanation
Indices: 28055438--28055880 Score: 494
Period size: 114 Copynumber: 3.9 Consensus size: 113
28055428 AGGTATTTTT
** * * * * *
28055438 GCGGCGCTTACTTAAAAACGCCGTTAAATCGCCAAAAGCTCAAAAAATGGCGTCGTTAGGCTTAG
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * ** **
28055503 GTATTTTCGCGGCGCATTCGCAAAAACGCTGCTAAAGCCCTGAGCATTA
66 GT-TTTTTGCGGCGCTTTATCAAAAACGCCACTAAAGCCCTGAGCATTA
* *
28055552 GCGGCGCTTGAC-TAAAAACGCCACCAAATCCCCGAAAAGCTCAGAAAACGGCGTCGCTGGGCTT
1 GCGGCGCTT-ACTTAAAAACGCCACTAAATCCCCG-AAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * * *
28055616 AGGTTCTTTTTGCGGCGCTTTACCATAAACGCCGCTAAAGCCCTGAGCGTTA
64 AGG-T-TTTTTGCGGCGCTTTATCAAAAACGCCACTAAAGCCCTGAGCATTA
* * * * *
28055668 ACGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAGCTTAG-AAACGACGTCGTTGGGCTTAC
1 GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
** * *
28055732 GTTTTTCTGTTGCGCTTTTTCAAAAACGCCACTAAAGCCCTGAGCTTTA
66 GTTTTT-TGCGGCGCTTTATCAAAAACGCCACTAAAGCCCTGAGCATTA
* * * * *
28055781 GCAGCGCTTTCTTAAAAAACGCCACTAAATCCCCGAAAGCTCGGAAAACGGCGTTGTTGGGATTA
1 GCGGCGCTTACTT-AAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
28055846 GGTATTTTGCGGCGCTTTATGAAAAACGCCACTAA
65 GGTTTTTTGCGGCGCTTTATCAAAAACGCCACTAA
28055881 TGGTTATTTT
Statistics
Matches: 276, Mismatches: 46, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
112 4 0.01
113 46 0.17
114 96 0.35
115 62 0.22
116 68 0.25
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (113 bp):
GCGGCGCTTACTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
GTTTTTTGCGGCGCTTTATCAAAAACGCCACTAAAGCCCTGAGCATTA
Found at i:28056105 original size:26 final size:27
Alignment explanation
Indices: 28056050--28056120 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
28056040 TATATCTATG
* *
28056050 TATACATACATACATTTTGATAATACA
1 TATATATACATATATTTTGATAATACA
* **
28056077 TATATGTACATATATTTT-ATAATTTA
1 TATATATACATATATTTTGATAATACA
*
28056103 TATATATACATATGTTTT
1 TATATATACATATATTTT
28056121 TGTTATATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 22 0.59
27 15 0.41
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.48
Consensus pattern (27 bp):
TATATATACATATATTTTGATAATACA
Found at i:28058607 original size:41 final size:41
Alignment explanation
Indices: 28058562--28058680 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
28058552 CCAAAAATGA
** * * **
28058562 TACACCGGCACCAAGCCTACTAGGCATAAAGCCTGATAGGG
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
* * *
28058603 TACACCGGCATGAAGCCTGCTAGGCATAAAGCTTGATACAT
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
*
28058644 TTCACCGGCATAAAGCCTGCTAGGCATAAAGCATGAT
1 TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGAT
28058681 GCATTAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (41 bp):
TACACCGGCATAAAGCCTGCTAGGCATAAAGCATGATACAG
Found at i:28059852 original size:14 final size:14
Alignment explanation
Indices: 28059835--28059862 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
28059825 ATTTCACGAA
28059835 AATTTCACACATAT
1 AATTTCACACATAT
28059849 AATTTCACACATAT
1 AATTTCACACATAT
28059863 TTAACACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:28063237 original size:24 final size:24
Alignment explanation
Indices: 28063203--28063264 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
28063193 CGTTGTAATT
*
28063203 GTATCACGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
28063227 GTATCATGAATACAATGGTGAAGC
1 GTATCATGAATACAATGGTGAAGC
28063251 -TCATCATGAA-ACAA
1 GT-ATCATGAATACAA
28063265 AAGGTATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 5 0.14
24 31 0.86
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (24 bp):
GTATCATGAATACAATGGTGAAGC
Found at i:28067204 original size:14 final size:16
Alignment explanation
Indices: 28067174--28067206 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
28067164 AACAATGTAT
28067174 AAATCATATATCAAGA
1 AAATCATATATCAAGA
28067190 AAATCATA-A-CAAGA
1 AAATCATATATCAAGA
28067204 AAA
1 AAA
28067207 GAGATTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATCATATATCAAGA
Found at i:28069329 original size:30 final size:30
Alignment explanation
Indices: 28069293--28069360 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
28069283 ACTTTTCTCA
28069293 ACTAGCCACATC-TTTTCCACCACCAACTCC
1 ACTAGCCAC-TCATTTTCCACCACCAACTCC
28069323 ACTAGCCACTCATTTTCCACCACCAACTCC
1 ACTAGCCACTCATTTTCCACCACCAACTCC
28069353 ACTAGCCA
1 ACTAGCCA
28069361 ACACCAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.28, C:0.46, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACTCATTTTCCACCACCAACTCC
Found at i:28069478 original size:28 final size:28
Alignment explanation
Indices: 28069446--28069540 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
28069436 ACTTTTCTCA
28069446 ACTAGCCACACTTTTCCACCACAACTCC
1 ACTAGCCACACTTTTCCACCACAACTCC
28069474 ACTAGCCAC-CATTTTCCAACCACAACT-C
1 ACTAGCCACAC-TTTTCC-ACCACAACTCC
* *
28069502 ACTAGCCA-ACTTCT-CACCACCAAATCC
1 ACTAGCCACACTTTTCCACCA-CAACTCC
28069529 ACTAG-CACACTT
1 ACTAGCCACACTT
28069541 GCTCCATTAC
Statistics
Matches: 59, Mismatches: 2, Indels: 13
0.80 0.03 0.18
Matches are distributed among these distances:
25 4 0.07
26 7 0.12
27 14 0.24
28 25 0.42
29 9 0.15
ACGTcount: A:0.32, C:0.43, G:0.04, T:0.21
Consensus pattern (28 bp):
ACTAGCCACACTTTTCCACCACAACTCC
Found at i:28069698 original size:27 final size:27
Alignment explanation
Indices: 28069660--28069711 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
28069650 TTTTATAAAA
28069660 GGGGGAGATTTTTTTGGAGAGTTTTGG
1 GGGGGAGATTTTTTTGGAGAGTTTTGG
28069687 GGGGGA-ATTTTTTTTGGAGAGTTTT
1 GGGGGAGA-TTTTTTTGGAGAGTTTT
28069712 TGGGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.44
Consensus pattern (27 bp):
GGGGGAGATTTTTTTGGAGAGTTTTGG
Found at i:28070129 original size:23 final size:23
Alignment explanation
Indices: 28070092--28070221 Score: 74
Period size: 23 Copynumber: 5.5 Consensus size: 23
28070082 CCTTTTTTGT
28070092 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
28070115 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
28070137 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
28070160 TATTACGTATATATATTTTATACTATTT
1 TATTA--TATATAT-TCTTA-A-TATTA
28070188 TATT-TATATA-TCTTTAATATTA
1 TATTATATATATTC-TTAATATTA
*
28070210 TATTATTTATAT
1 TATTATATATAT
28070222 ATATATATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 27
0.68 0.10 0.22
Matches are distributed among these distances:
21 3 0.04
22 23 0.28
23 25 0.31
24 7 0.09
25 11 0.14
26 1 0.01
27 3 0.04
28 6 0.07
29 1 0.01
30 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:28070185 original size:25 final size:25
Alignment explanation
Indices: 28070106--28070312 Score: 86
Period size: 25 Copynumber: 8.2 Consensus size: 25
28070096 ATTATATTTC
* * *
28070106 TTAATATTATATTATATATAT-TCT
1 TTAATACTATATTATGTATATATAT
* *
28070130 TT--TAATATATTAGGTATAT-T-T
1 TTAATACTATATTATGTATATATAT
* * *
28070151 TAAATTCTATATTACGTATATATAT
1 TTAATACTATATTATGTATATATAT
* * * *
28070176 TTTATACTATTTTATTTATATATCT
1 TTAATACTATATTATGTATATATAT
* *
28070201 TTAATATTATATTATTTATATATAT
1 TTAATACTATATTATGTATATATAT
** * * *
28070226 ATATTTTTCTACATGTTATCTTATGTATATAT
1 -T-TAATACT--ATATTAT-GTA--TATATAT
*
28070258 CTT-A-ACTATATTATGTATATATTT
1 -TTAATACTATATTATGTATATATAT
* * *
28070282 TTAACACTATATTATGTACATATTT
1 TTAATACTATATTATGTATATATAT
28070307 TTAATA
1 TTAATA
28070313 TTATCATGTA
Statistics
Matches: 139, Mismatches: 31, Indels: 25
0.71 0.16 0.13
Matches are distributed among these distances:
21 2 0.01
22 15 0.11
23 16 0.12
24 10 0.07
25 64 0.46
26 3 0.02
27 9 0.06
29 8 0.06
30 3 0.02
31 1 0.01
32 8 0.06
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (25 bp):
TTAATACTATATTATGTATATATAT
Found at i:28070195 original size:14 final size:13
Alignment explanation
Indices: 28070176--28070232 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 13
28070166 GTATATATAT
28070176 TTTATACTATTTTA
1 TTTATA-TATTTTA
28070190 TTTATATATCTTTAA
1 TTTATATAT-TTT-A
28070205 TATTATATTATTTATA
1 T-TTATA-TATTT-TA
*
28070221 TATATATATTTT
1 TTTATATATTTT
28070233 TCTACATGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 14 0.38
15 6 0.16
16 9 0.24
17 4 0.11
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATATATTTTA
Found at i:28070328 original size:23 final size:24
Alignment explanation
Indices: 28070248--28070338 Score: 82
Period size: 23 Copynumber: 3.9 Consensus size: 24
28070238 ATGTTATCTT
*
28070248 ATGTATATA-TCTTAACTATAT-T-
1 ATGTATATATTTTTAA-TATATATC
* *
28070270 ATGTATATATTTTTAACACTATATT
1 ATGTATATATTTTTAATA-TATATC
*
28070295 ATGTACATATTTTTAATAT-TATC
1 ATGTATATATTTTTAATATATATC
* *
28070318 ATGTATTTATTTTTTATATAT
1 ATGTATATATTTTTAATATAT
28070339 GTACATATTG
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
22 10 0.18
23 27 0.48
24 3 0.05
25 16 0.29
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (24 bp):
ATGTATATATTTTTAATATATATC
Found at i:28070450 original size:16 final size:16
Alignment explanation
Indices: 28070383--28070511 Score: 70
Period size: 16 Copynumber: 7.5 Consensus size: 16
28070373 TTAAACATCG
28070383 TTATTATTTCTAATATAT
1 TTATTATTT-TAATAT-T
* *
28070401 ATATTA-TGTACATATT
1 TTATTATTTTA-ATATT
*
28070417 TT-TTATTTCTATTTTATT
1 TTATTATTT-TA--ATATT
28070435 TT-TTATTTTCAATATT
1 TTATTATTTT-AATATT
28070451 AATTATTATTATTCTAATATT
1 --TTATTA-T-TT-TAATATT
28070472 TTGA-TATTTTAATATT
1 TT-ATTATTTTAATATT
28070488 TTA-TATTTTATATATT
1 TTATTATTTTA-ATATT
28070504 TTATTATT
1 TTATTATT
28070512 CACATCATTG
Statistics
Matches: 90, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
15 11 0.12
16 26 0.29
17 14 0.16
18 21 0.23
19 7 0.08
20 2 0.02
21 8 0.09
22 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (16 bp):
TTATTATTTTAATATT
Found at i:28070478 original size:8 final size:7
Alignment explanation
Indices: 28070467--28070500 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
28070457 TATTATTCTA
28070467 ATATTTT
1 ATATTTT
28070474 GATATTTT
1 -ATATTTT
28070482 AATATTTT
1 -ATATTTT
28070490 ATATTTT
1 ATATTTT
28070497 ATAT
1 ATAT
28070501 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:28070495 original size:7 final size:7
Alignment explanation
Indices: 28070412--28070500 Score: 53
Period size: 7 Copynumber: 12.6 Consensus size: 7
28070402 TATTATGTAC
28070412 ATATTTT
1 ATATTTT
*
28070419 TTA-TTT
1 ATATTTT
*
28070425 CTATTTT
1 ATATTTT
28070432 AT-TTTT
1 ATATTTT
28070438 -TATTTT
1 ATATTTT
*
28070444 CA-ATATT
1 -ATATTTT
28070451 A-ATTATT
1 ATATT-TT
*
28070458 ATTATTCTA
1 A-TATT-TT
28070467 ATATTTT
1 ATATTTT
28070474 GATATTTT
1 -ATATTTT
28070482 AATATTTT
1 -ATATTTT
28070490 ATATTTT
1 ATATTTT
28070497 ATAT
1 ATAT
28070501 ATTTTATTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 1 0.02
6 16 0.25
7 25 0.38
8 18 0.28
9 5 0.08
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (7 bp):
ATATTTT
Found at i:28080596 original size:69 final size:69
Alignment explanation
Indices: 28080422--28080596 Score: 217
Period size: 70 Copynumber: 2.5 Consensus size: 69
28080412 CTTTTCAAGG
* ** *
28080422 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
28080487 TTTT
66 TTTT
* ** * *
28080491 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTT-
28080556 TGTTTT
64 TGTTTT
** *
28080562 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
28080597 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
69 31 0.34
70 55 0.60
71 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
TTTT
Found at i:28080728 original size:75 final size:72
Alignment explanation
Indices: 28080600--28080950 Score: 452
Period size: 75 Copynumber: 4.7 Consensus size: 72
28080590 TAAGCCTTTT
* ** *
28080600 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
28080665 TAATTTC
66 TAATTTC
**
28080672 AATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
1 AATTTCTGTT-TT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
28080737 AGGTAATTTC
63 AGGTAATTTC
* * * ** * *
28080747 AATTTCTTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTC-TGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
28080812 GTAATTTTC
65 GTAA-TTTC
*
28080821 AATTTCTGTTTTCAAAAAATCAACTCATTATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGC
1 AATTTCTGTTTT-AAAAAATCAACTCA-TATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGC
*
28080885 TGAGGTATTTTC
61 TGAGGTAATTTC
*
28080897 AATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AATTTCTG-TTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
28080951 ATTACACACT
Statistics
Matches: 246, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
72 9 0.04
73 59 0.24
74 22 0.09
75 110 0.45
76 31 0.13
77 15 0.06
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:28080867 original size:148 final size:148
Alignment explanation
Indices: 28080600--28080945 Score: 479
Period size: 148 Copynumber: 2.3 Consensus size: 148
28080590 TAAGCCTTTT
* *
28080600 AATTT-TTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
28080664 GTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG
66 GTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GG
28080729 -ACACGCTGAGGTAATTTC
130 TACACGCTGAGGTAATTTC
* ** *
28080747 AATTTCTTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 AATTTCTTGTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
* **
28080811 GGTAATTTTCAATTTCTGTT-TT-CAAAAAATCAACTCATTATTGCGAGAGGTGAGTTGAGCCTC
65 GGTAA-TTTCAATTTCTGTTGTTAAAAAAAATCAACTCA-TATTGCGAGAAATGAGTTGAGCCTC
* *
28080874 GGTTCACATGCTGAGGTATTTTC
128 GG-T-ACACGCTGAGGTAATTTC
*
28080897 AATTTC-TGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTTGTTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
28080946 TTCAGATTAC
Statistics
Matches: 175, Mismatches: 15, Indels: 15
0.85 0.07 0.07
Matches are distributed among these distances:
147 30 0.17
148 72 0.41
149 16 0.09
150 53 0.30
151 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (148 bp):
AATTTCTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
GTAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGT
ACACGCTGAGGTAATTTC
Found at i:28081384 original size:72 final size:71
Alignment explanation
Indices: 28081255--28081509 Score: 370
Period size: 72 Copynumber: 3.5 Consensus size: 71
28081245 TTGTTCAAAA
* *
28081255 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-GACGCTGAGGTAATTTCAATTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTTT
28081319 GTTTGTC
66 GTTT-TC
* *
28081326 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGATATTTTCAATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTTT
*
28081391 ATTTTC
66 GTTTTC
* *
28081397 AAAAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA-
1 --AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTATTTTCAAT
*
28081461 TTTTGCTTTTT
62 TTTTG-TTTTC
28081472 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
28081510 GGGCACACGT
Statistics
Matches: 166, Mismatches: 12, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
71 42 0.25
72 55 0.33
73 10 0.06
74 35 0.21
75 24 0.14
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (71 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTATTTTCAATTTTT
GTTTTC
Found at i:28081635 original size:84 final size:82
Alignment explanation
Indices: 28081540--28081698 Score: 205
Period size: 84 Copynumber: 1.9 Consensus size: 82
28081530 TCAAATTCTA
* *
28081540 TTTTTCATTTCTTTTTTTAATTTATGTGT-TTCAAAAAATCAACTCATATTGCGAGAGGTGAG-T
1 TTTTTCATTTC--TATTTAATTTATGTGTATTCAAAAAATCAACTCATATTGCG-GAGATGAGTT
28081603 GAACCTCAAGACGCTGAGTG
63 GAACCTCAAGACGCTGAGTG
* * *
28081623 TTTTTCCATTTCTATTTCATTTCTGTTTAATTCAAAAAATCAACTCATATTGCGGAGATGAGTTG
1 TTTTT-CATTTCTATTTAATTTATGTGT-ATTCAAAAAATCAACTCATATTGCGGAGATGAGTTG
*
28081688 AGCCTCAAGAC
64 AACCTCAAGAC
28081699 ACATTGAGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
82 12 0.18
83 12 0.18
84 42 0.64
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (82 bp):
TTTTTCATTTCTATTTAATTTATGTGTATTCAAAAAATCAACTCATATTGCGGAGATGAGTTGAA
CCTCAAGACGCTGAGTG
Found at i:28081974 original size:74 final size:73
Alignment explanation
Indices: 28081798--28082160 Score: 420
Period size: 74 Copynumber: 4.9 Consensus size: 73
28081788 TTTATGTTTT
*
28081798 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT--C-ACATGCTGAGGTGTTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGCTACATGCTGAGGTCTTTTCAATT
28081860 TCTATTT-
66 TCTATTTG
28081867 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGCTACATGCTGAGGT-TTTTCAATT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGCTACATGCTGAGGTCTTTTCAATT
*
28081931 TCTGTTTG
66 TCTATTTG
* * * *
28081939 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGCTCACATGCTGAGGTCTTTTTA
1 TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGCT-ACATGCTGAGGTCTTTTCA
*
28082004 ATTTCTTTCAATGATATTTT
63 A----TTTC-----TATTTG
* * **
28082024 TCAAAAATCAACTCATATTGC-AAAGGTGAGTTGAGCCTCGG--ACACGCTGA-GTAATTTCAAT
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGCTACATGCTGAGGTCTTTTCAAT
28082085 TTCTATTTG
65 TTCTATTTG
*
28082094 TCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGCT-ACATGCTGAGGTCTTTTCAA
28082159 TT
64 TT
28082161 CTGTTCTTCA
Statistics
Matches: 250, Mismatches: 21, Indels: 40
0.80 0.07 0.13
Matches are distributed among these distances:
69 39 0.16
70 25 0.10
71 35 0.14
72 14 0.06
74 46 0.18
75 26 0.10
76 6 0.02
79 7 0.03
80 12 0.05
82 15 0.06
83 19 0.08
85 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGCTACATGCTGAGGTCTTTTCAATT
TCTATTTG
Done.