Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 70 of 204
Found at i:22078660 original size:15 final size:15
Alignment explanation
Indices: 22078625--22078676 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22078615 TTAAGAATTT
*
22078625 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22078639 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22078653 TATTTAATAATAAT-
1 TATTTAATTATAATA
22078667 TATGTTAATT
1 TAT-TTAATT
22078677 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22078702 original size:120 final size:121
Alignment explanation
Indices: 22078500--22078797 Score: 519
Period size: 120 Copynumber: 2.5 Consensus size: 121
22078490 AATTATTTTA
* * * *
22078500 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
22078564 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
22078620 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
*
22078684 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
22078740 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
22078798 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 164 0.97
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (121 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:22078775 original size:16 final size:16
Alignment explanation
Indices: 22078754--22078795 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
22078744 TTATTAAATT
*
22078754 ATATATTTTAATTATA
1 ATATATTTTAATAATA
22078770 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
22078785 AT-TATGTTTAA
1 ATATAT-TTTAA
22078796 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:22078780 original size:15 final size:15
Alignment explanation
Indices: 22078745--22078786 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22078735 TTAAGAATTT
*
22078745 TATTAAATTAT-ATA
1 TATTTAATTATAATA
22078759 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
22078773 TATTTAATAATAAT
1 TATTTAATTATAAT
22078787 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:22079038 original size:16 final size:16
Alignment explanation
Indices: 22079012--22079060 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
22079002 TTGATTTGCT
*
22079012 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
22079028 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
22079044 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
22079060 A
1 A
22079061 ATACAGCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:22083912 original size:41 final size:41
Alignment explanation
Indices: 22083849--22083946 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
22083839 TGTTTTGTAG
* * * *
22083849 GTCTTGAGACTTAGGGGTTATGTTTCGAGACCTA-TC-CTCAT
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTAGTCGC-C-T
*
22083890 GTCTCGAGACTTAGGGGGTATGTCTAGATACCTAGTCGCCT
1 GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTAGTCGCCT
22083931 GTCTCGAGACTTAGGG
1 GTCTCGAGACTTAGGG
22083947 TCTTTAAGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 46 0.92
42 3 0.06
43 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.29, T:0.32
Consensus pattern (41 bp):
GTCTCGAGACTTAGGGGGTATGTCTAGAGACCTAGTCGCCT
Found at i:22087380 original size:19 final size:20
Alignment explanation
Indices: 22087329--22087380 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
22087319 TTTGGGTCTT
*
22087329 GGTCTCAATTTTTGGTTCTCA
1 GGTC-CAATTTTTGATTCTCA
* *
22087350 GTTCCAACTTTTGATT-TCA
1 GGTCCAATTTTTGATTCTCA
22087369 GGTCCAATTTTT
1 GGTCCAATTTTT
22087381 AAGTTCAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 13 0.50
20 10 0.38
21 3 0.12
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (20 bp):
GGTCCAATTTTTGATTCTCA
Found at i:22089330 original size:43 final size:43
Alignment explanation
Indices: 22089277--22089392 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
22089267 TATGTGTTTT
* *
22089277 CATGTAAGACCACGTCTGGGACGTTGGCATCGA-CTTGTGTTTA
1 CATGTAAGACCACGTCTGGGACGTTGGCATCGATC-TGTGATCA
** *
22089320 TGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGATCTGTGATCA
1 CATGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATCTGTGATCA
* *
22089363 CATGTAAGACCACGTATGGGACATTGGCAT
1 CATGTAAGACCACGTCTGGGACGTTGGCAT
22089393 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.02
43 54 0.93
44 3 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACGTTGGCATCGATCTGTGATCA
Found at i:22093176 original size:23 final size:23
Alignment explanation
Indices: 22093150--22093195 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22093140 GCGTAACTAC
22093150 TGTATAGTAATAGGGTGCCCGAA
1 TGTATAGTAATAGGGTGCCCGAA
* *
22093173 TGTATAGTTATAGGGTGCGCGAA
1 TGTATAGTAATAGGGTGCCCGAA
22093196 GCCCACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (23 bp):
TGTATAGTAATAGGGTGCCCGAA
Found at i:22093451 original size:23 final size:23
Alignment explanation
Indices: 22093420--22093465 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
22093410 GGAGGTGGGC
22093420 TTCGCGCACCCTATAACTATACA
1 TTCGCGCACCCTATAACTATACA
* *
22093443 TTCGGGCACCCTATTACTATACA
1 TTCGCGCACCCTATAACTATACA
22093466 GCAGTTACGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (23 bp):
TTCGCGCACCCTATAACTATACA
Found at i:22096682 original size:8 final size:7
Alignment explanation
Indices: 22096672--22096696 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22096662 TTAAAAGAAA
22096672 AAAAGCT
1 AAAAGCT
22096679 AAAAGCT
1 AAAAGCT
22096686 AAAAGCT
1 AAAAGCT
22096693 AAAA
1 AAAA
22096697 TTACAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.12, T:0.12
Consensus pattern (7 bp):
AAAAGCT
Found at i:22097829 original size:587 final size:587
Alignment explanation
Indices: 22096711--22097888 Score: 2239
Period size: 587 Copynumber: 2.0 Consensus size: 587
22096701 AAAGAAAACT
*
22096711 TAAAGCATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGTCG
1 TAAAGCATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
22096776 TCATCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACACA
66 TCATCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACACA
*
22096841 CTTGGCTTGTAAGTGCTTCCCGTACAAGACTGATGTTACGACACCATAGTCTTTGTGTCACAACA
131 CTTGGCTTGTAAGTGCTTCCCGTACAAGACCGATGTTACGACACCATAGTCTTTGTGTCACAACA
*
22096906 TTAACGATAGTATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
196 TTAACGACAGTATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
*
22096971 TTTTGCTCCTTATGTTGTGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
261 TTTTGCTCCTTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
* *
22097036 TATGCCTTTGAATGGTCTCTTGCACACTTACTAAGTATGTTAGCGTGCCTTCAGGCCTCATTCGG
326 TATGCCTTTGAATGGTCTCTTGCACACTTACTAAGTATGTTAGCATGCCTTCAGGCCTCATTCGA
22097101 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
391 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
22097166 GACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
456 GACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
22097231 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
521 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
22097296 AA
586 AA
*
22097298 TAAAGTATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
1 TAAAGCATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
* * * *
22097363 TCATCCTCAACCCAAGGTTAGCTGATGTTCTCGTGTTTAATTTTTATTGTGTATACCAAAATACC
66 TCATCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACACA
*
22097428 CTTGGCTTGTAAGTGCTTCCCGTACAGGACCGATGTTACGACACCATAGTCTTTGTGTCACAACA
131 CTTGGCTTGTAAGTGCTTCCCGTACAAGACCGATGTTACGACACCATAGTCTTTGTGTCACAACA
*
22097493 TTAATGACAGTATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
196 TTAACGACAGTATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
22097558 TTTTGCTCCTTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
261 TTTTGCTCCTTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
22097623 TATGCCTTTGAATGGTCTCTTGCACACTTACTAAGTATGTTAGCATGCCTTCAGGCCTCATTCGA
326 TATGCCTTTGAATGGTCTCTTGCACACTTACTAAGTATGTTAGCATGCCTTCAGGCCTCATTCGA
22097688 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
391 CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
22097753 GACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
456 GACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
22097818 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
521 ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
22097883 AA
586 AA
22097885 TAAA
1 TAAA
22097889 ATAAAAGCAT
Statistics
Matches: 578, Mismatches: 13, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
587 578 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (587 bp):
TAAAGCATGAAAAACTATCATTCAACAAGTGTTTTAAGAGCCTATTTATAGAGTTAGGGTTGCCG
TCATCCTCAACCCAAGGTTAGCTGACGTTCTCGTGTTTAATTTCTATTGTGTATACCAAAACACA
CTTGGCTTGTAAGTGCTTCCCGTACAAGACCGATGTTACGACACCATAGTCTTTGTGTCACAACA
TTAACGACAGTATACGTGGTTCAGGGGTGTGTAGTGACACCCAAGGCACTGTAGATATTCTAGAA
TTTTGCTCCTTATGTTGCGACATTGAACTCCTCGTGTTTCAACACAACGACCAGCTTTAAGTTCT
TATGCCTTTGAATGGTCTCTTGCACACTTACTAAGTATGTTAGCATGCCTTCAGGCCTCATTCGA
CCCCTAAGGTCAATAAAAGACTCAAACTACACTTTTTACTGAATTTAACTAAACTAATAAAACAT
GACTAAAACATACTAAAATTGCTCGTAATCAACCTCATTAAATATGAAAACTAGTTTAATCTGCT
ACACCAAATTATGACAGATCAAACTCCCCCACACTTAAGTCATTGCTTGTCTTCAAGCAAAGCAA
AA
Found at i:22100856 original size:21 final size:20
Alignment explanation
Indices: 22100828--22100866 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
22100818 GAAATTAGGG
*
22100828 TTTGAAGAATTTTGAGATAA
1 TTTGAAGAATTTAGAGATAA
*
22100848 TTTGAAAGAGTTTAGAGAT
1 TTTG-AAGAATTTAGAGAT
22100867 TGAAAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGAAGAATTTAGAGATAA
Found at i:22107703 original size:21 final size:21
Alignment explanation
Indices: 22107660--22107703 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
22107650 CCAGATAAGG
* *
22107660 GAATTATAATCAACAATAGCA
1 GAATTACAATCAACAACAGCA
22107681 GAATTACAATCAACACACA-CA
1 GAATTACAATCAACA-ACAGCA
22107702 GA
1 GA
22107704 TGCATCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.52, C:0.20, G:0.09, T:0.18
Consensus pattern (21 bp):
GAATTACAATCAACAACAGCA
Found at i:22114832 original size:17 final size:17
Alignment explanation
Indices: 22114810--22114843 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22114800 GATAAGTATA
*
22114810 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
22114827 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
22114844 CATATTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:22121408 original size:12 final size:12
Alignment explanation
Indices: 22121391--22121452 Score: 51
Period size: 12 Copynumber: 5.1 Consensus size: 12
22121381 AATTTAATAG
22121391 ATTTAATATTAA
1 ATTTAATATTAA
22121403 ATTTAATA-TAA
1 ATTTAATATTAA
22121414 TATTT-ATATTGATA
1 -ATTTAATATT-A-A
22121428 AGTATT-ATATT-A
1 A-T-TTAATATTAA
22121440 ATTTAATATTAA
1 ATTTAATATTAA
22121452 A
1 A
22121453 GTGATTAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 16
0.72 0.00 0.28
Matches are distributed among these distances:
10 2 0.05
11 12 0.29
12 17 0.40
13 2 0.05
14 2 0.05
15 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:22121447 original size:58 final size:58
Alignment explanation
Indices: 22121333--22121447 Score: 151
Period size: 58 Copynumber: 1.9 Consensus size: 58
22121323 AATGATTATC
*
22121333 TTAATATTAAATTAAATTAATATTTATCTTATAGAAAAATATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATTAATATTTA--TTATAGAAAAATATTATATTAATTTAATAGAT
* * * *
22121393 TTAATATTAAATTTAATATAATATTTA-TATTGATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAAT-TAATATTTATTATAGAAAAATATTATATTAATTTAATA
22121448 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
58 24 0.49
60 16 0.33
61 9 0.18
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (58 bp):
TTAATATTAAATTAAATTAATATTTATTATAGAAAAATATTATATTAATTTAATAGAT
Found at i:22123199 original size:5 final size:5
Alignment explanation
Indices: 22123185--22123297 Score: 118
Period size: 5 Copynumber: 22.6 Consensus size: 5
22123175 CTTTAATATT
*
22123185 TCATA CCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
* * * * ** * * ***
22123235 TCATA TGATA ACGTA ACGGA TCATG TCATA TCATA TCATA CCATA TTGGA
1 TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA TCATA
22123285 TCATA TCATA TCA
1 TCATA TCATA TCA
22123298 CATAATGTCC
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 88 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.35
Consensus pattern (5 bp):
TCATA
Found at i:22124317 original size:17 final size:16
Alignment explanation
Indices: 22124276--22124333 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 16
22124266 AGCAAAAATC
*
22124276 AAAGAAGAAG-G-AGA
1 AAAGAAGAAGAGAAAA
*
22124290 AAAGAA-AAGA-AAAT
1 AAAGAAGAAGAGAAAA
22124304 AAAGAAGAAGAGAAAA
1 AAAGAAGAAGAGAAAA
*
22124320 AAATAGAGAAGAGA
1 AAAGA-AGAAGAGA
22124334 GGGAGAGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 3 0.09
14 13 0.37
15 4 0.11
16 7 0.20
17 8 0.23
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAGAGAAAA
Found at i:22124322 original size:20 final size:20
Alignment explanation
Indices: 22124287--22124331 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
22124277 AAGAAGAAGG
22124287 AGAA-AAGAAAAGAAAATAA
1 AGAAGAAGAAAAGAAAATAA
*
22124306 AGAAGAAGAGAAA-AAAATAG
1 AGAAGAAGA-AAAGAAAATAA
22124326 AGAAGA
1 AGAAGA
22124332 GAGGGAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
21 3 0.13
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (20 bp):
AGAAGAAGAAAAGAAAATAA
Found at i:22126940 original size:25 final size:25
Alignment explanation
Indices: 22126894--22126955 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
22126884 ATGGAACAAC
* *
22126894 AGAAAGAAAAAATCAAAGAAGAAGGAG
1 AGAAAGAAAACA--AAAGAAGAAGAAG
*
22126921 A-AAAGAAAACAAAAGAAAGAATAAG
1 AGAAAGAAAACAAAAG-AAGAAGAAG
22126946 AGAAAGAAAA
1 AGAAAGAAAA
22126956 TAGAGAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 4 0.13
25 8 0.27
26 17 0.57
27 1 0.03
ACGTcount: A:0.73, C:0.03, G:0.21, T:0.03
Consensus pattern (25 bp):
AGAAAGAAAACAAAAGAAGAAGAAG
Found at i:22129558 original size:14 final size:14
Alignment explanation
Indices: 22129539--22129577 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
22129529 TCACACACAT
22129539 ATATAAATATTATA
1 ATATAAATATTATA
22129553 ATAT-AA-A--ATA
1 ATATAAATATTATA
22129563 ATATAAATATTATA
1 ATATAAATATTATA
22129577 A
1 A
22129578 ACAATTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 8
0.72 0.00 0.28
Matches are distributed among these distances:
10 7 0.33
11 2 0.10
12 2 0.10
13 2 0.10
14 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATATAAATATTATA
Found at i:22129571 original size:16 final size:16
Alignment explanation
Indices: 22129537--22129578 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22129527 TCTCACACAC
*
22129537 ATATATAAATATTATA
1 ATATATAAATAATATA
22129553 ATATA-AAATAATATAA
1 ATATATAAATAATAT-A
22129569 ATATTATAAA
1 ATA-TATAAA
22129579 CAATTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 8 0.36
16 9 0.41
17 2 0.09
18 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATAAATAATATA
Found at i:22137189 original size:42 final size:41
Alignment explanation
Indices: 22137105--22137281 Score: 203
Period size: 42 Copynumber: 4.2 Consensus size: 41
22137095 TCTGGCACTT
* * *
22137105 AGCCTGCTAGACATATAGTTTGA-AATGTTTCAACGACATTA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTC-ACGACATTA
* * *
22137146 AGCCTGCTAGACGTAAAGTTTGATATTGTTTCATCGGCATTA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCA-CGACATTA
* * *
22137188 AGCCTACTAGACATAAAGTCTGAAATTATTTCACCGACATTA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCA-CGACATTA
* * *
22137230 AGCCTGCTAGACGTAAAGTCTGATATTGTTTCACTGGCAATA
1 AGCCTGCTAGACATAAAGTCTGATATTGTTTCAC-GACATTA
22137272 AGCCTGCTAG
1 AGCCTGCTAG
22137282 GCGCTAAGCT
Statistics
Matches: 116, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 23 0.20
42 93 0.80
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGATATTGTTTCACGACATTA
Found at i:22137212 original size:83 final size:84
Alignment explanation
Indices: 22137096--22137281 Score: 268
Period size: 84 Copynumber: 2.2 Consensus size: 84
22137086 ATTCAGTACT
* * * * *
22137096 CTGGCACTTAGCCTGCTAGACATATAGTTTGAAA-TGTTTCAACGACATTAAGCCTGCTAGACGT
1 CTGGCAATAAGCCTGCTAGACATAAAGTCTGAAATTATTTCAACGACATTAAGCCTGCTAGACGT
*
22137160 AAAGTTTGATATTGTTTCA
66 AAAGTCTGATATTGTTTCA
* * *
22137179 -TCGGCATTAAGCCTACTAGACATAAAGTCTGAAATTATTTCACCGACATTAAGCCTGCTAGACG
1 CT-GGCAATAAGCCTGCTAGACATAAAGTCTGAAATTATTTCAACGACATTAAGCCTGCTAGACG
22137243 TAAAGTCTGATATTGTTTCA
65 TAAAGTCTGATATTGTTTCA
22137263 CTGGCAATAAGCCTGCTAG
1 CTGGCAATAAGCCTGCTAG
22137282 GCGCTAAGCT
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
82 1 0.01
83 27 0.30
84 61 0.68
85 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (84 bp):
CTGGCAATAAGCCTGCTAGACATAAAGTCTGAAATTATTTCAACGACATTAAGCCTGCTAGACGT
AAAGTCTGATATTGTTTCA
Found at i:22138952 original size:5 final size:5
Alignment explanation
Indices: 22138942--22138972 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22138932 TTTAATTAAC
22138942 ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
22138973 GGCTATTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:22148217 original size:6 final size:6
Alignment explanation
Indices: 22148208--22148238 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
22148198 AATTACACTC
22148208 TTTATT TTTA-T TTTATT TTTATT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT
22148239 GTAGGTAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:22148224 original size:11 final size:12
Alignment explanation
Indices: 22148208--22148238 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
22148198 AATTACACTC
22148208 TTTATTTTTA-T
1 TTTATTTTTATT
22148219 TTTATTTTTATT
1 TTTATTTTTATT
22148231 TTTATTTT
1 TTTATTTT
22148239 GTAGGTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:22148508 original size:22 final size:22
Alignment explanation
Indices: 22148483--22148530 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
22148473 AGAAAAAAAA
22148483 CCTAACCTTTCACCCATCAAAT
1 CCTAACCTTTCACCCATCAAAT
* * *
22148505 CCTAATCTTTCACCTATCACAT
1 CCTAACCTTTCACCCATCAAAT
22148527 CCTA
1 CCTA
22148531 GCCATCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTAACCTTTCACCCATCAAAT
Found at i:22156915 original size:42 final size:42
Alignment explanation
Indices: 22156836--22157009 Score: 206
Period size: 42 Copynumber: 4.2 Consensus size: 42
22156826 GACACTTAGT
* * * * *
22156836 CTGCTAGACATATAGTCTGA-AATGTTTCAGCGGCATTAAGT
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
*
22156877 TTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * * * *
22156919 CTGCTACACGTAAAGTCTAAAATTATTTCACTGGCATTAAGC
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
* * * *
22156961 CTGCTAAACGTAAAGTCTGATATTGTTTCACTGGCAATAAGT
1 CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
22157003 CTGCTAG
1 CTGCTAG
22157010 GCGCTAAGCC
Statistics
Matches: 113, Mismatches: 19, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
41 17 0.15
42 96 0.85
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
CTGCTAGACGTAAAGTCTGATATTGTTTCACCGGCATTAAGC
Found at i:22159979 original size:43 final size:43
Alignment explanation
Indices: 22159795--22159967 Score: 217
Period size: 43 Copynumber: 4.1 Consensus size: 43
22159785 ATGTTCCAAT
** * * * *
22159795 ATCGATTTGAGATCCCGTATAAGATCATATCTGGGATA-TGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
22159837 AAT-GATTTGGGA-TTCATGTAAGACCATAGCTAGGCTATTGGC
1 -ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
22159879 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
22159922 ATCGATTTGAGATTTTGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
22159965 ATC
1 ATC
22159968 AATACGAGAT
Statistics
Matches: 112, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 19 0.17
42 20 0.18
43 73 0.65
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:22166839 original size:85 final size:85
Alignment explanation
Indices: 22166736--22166909 Score: 348
Period size: 85 Copynumber: 2.0 Consensus size: 85
22166726 CATCTATAAT
22166736 TTTATATCATCACATCATATACATAAGTATCATATAAAAATACTTCAAAAAAGGAAAAGTCTAGA
1 TTTATATCATCACATCATATACATAAGTATCATATAAAAATACTTCAAAAAAGGAAAAGTCTAGA
22166801 TAGTGGGAATAATTTTCTGG
66 TAGTGGGAATAATTTTCTGG
22166821 TTTATATCATCACATCATATACATAAGTATCATATAAAAATACTTCAAAAAAGGAAAAGTCTAGA
1 TTTATATCATCACATCATATACATAAGTATCATATAAAAATACTTCAAAAAAGGAAAAGTCTAGA
22166886 TAGTGGGAATAATTTTCTGG
66 TAGTGGGAATAATTTTCTGG
22166906 TTTA
1 TTTA
22166910 GGCTATAGAG
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 89 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (85 bp):
TTTATATCATCACATCATATACATAAGTATCATATAAAAATACTTCAAAAAAGGAAAAGTCTAGA
TAGTGGGAATAATTTTCTGG
Found at i:22169588 original size:14 final size:14
Alignment explanation
Indices: 22169569--22169596 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
22169559 ACATCATACT
22169569 ATAAAATCAATAAC
1 ATAAAATCAATAAC
22169583 ATAAAATCAATAAC
1 ATAAAATCAATAAC
22169597 TTGAGATAAA
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:0.64, C:0.14, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAATCAATAAC
Found at i:22174436 original size:13 final size:13
Alignment explanation
Indices: 22174408--22174459 Score: 61
Period size: 13 Copynumber: 4.0 Consensus size: 13
22174398 ACTTATTACT
22174408 AATATATATA-TTA
1 AATATAT-TACTTA
*
22174421 AATTTATTACTTA
1 AATATATTACTTA
*
22174434 AATATGTTACTTA
1 AATATATTACTTA
*
22174447 AATACATTACTTA
1 AATATATTACTTA
22174460 CTAAAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:22174530 original size:36 final size:35
Alignment explanation
Indices: 22174488--22174597 Score: 103
Period size: 36 Copynumber: 3.3 Consensus size: 35
22174478 TACTTATATG
22174488 TAAAATTTAAGCATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAG-ATGTTACTTAAATACATTACTTAC
* * *
22174524 TAAAATTT-A-A-GTAAGTT---TAC-TTA--TATG
1 TAAAATTTAAGATGTTACTTAAATACATTACTTA-C
22174551 TAAAATTTAAGTATGTTACTTAAATACATTACTTAC
1 TAAAATTTAAG-ATGTTACTTAAATACATTACTTAC
22174587 TAAAATTTAAG
1 TAAAATTTAAG
22174598 TAAGTTTACA
Statistics
Matches: 57, Mismatches: 6, Indels: 22
0.67 0.07 0.26
Matches are distributed among these distances:
26 2 0.04
27 8 0.14
28 4 0.07
29 3 0.05
30 1 0.02
31 5 0.09
32 5 0.09
33 1 0.02
34 3 0.05
35 4 0.07
36 19 0.33
37 2 0.04
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (35 bp):
TAAAATTTAAGATGTTACTTAAATACATTACTTAC
Found at i:22174536 original size:63 final size:63
Alignment explanation
Indices: 22174437--22174617 Score: 344
Period size: 63 Copynumber: 2.9 Consensus size: 63
22174427 TTACTTAAAT
22174437 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAGC
1 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAGC
*
22174500 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAGT
1 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAGC
*
22174563 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACATATATGTAAA
1 ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAA
22174618 CTTACATAAT
Statistics
Matches: 116, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 116 1.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (63 bp):
ATGTTACTTAAATACATTACTTACTAAAATTTAAGTAAGTTTACTTATATGTAAAATTTAAGC
Found at i:22174642 original size:23 final size:23
Alignment explanation
Indices: 22174616--22174659 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
22174606 CATATATGTA
*
22174616 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
22174639 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
22174660 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:22174742 original size:9 final size:9
Alignment explanation
Indices: 22174677--22175149 Score: 311
Period size: 9 Copynumber: 52.0 Consensus size: 9
22174667 TTTTTATATA
22174677 AACTTACAT
1 AACTTACAT
22174686 AA--TACATTT
1 AACTTACA--T
*
22174695 AACTTACAC
1 AACTTACAT
22174704 AACTTACAT
1 AACTTACAT
22174713 AACCTT-CAT
1 AA-CTTACAT
22174722 AA--TACATTT
1 AACTTACA--T
*
22174731 AACTTGCAT
1 AACTTACAT
22174740 AACTTACAT
1 AACTTACAT
22174749 AACTTACAT
1 AACTTACAT
* *
22174758 AA--TGCAA
1 AACTTACAT
22174765 AACTTACAT
1 AACTTACAT
22174774 AACAACTTACAT
1 ---AACTTACAT
22174786 AACAACTTACAT
1 ---AACTTACAT
*
22174798 AACATACAT
1 AACTTACAT
* **
22174807 TACTTTGAT
1 AACTTACAT
22174816 AACTTACAT
1 AACTTACAT
22174825 AACTTACAT
1 AACTTACAT
* *
22174834 AA--TGCAA
1 AACTTACAT
22174841 AACTTACAT
1 AACTTACAT
*
22174850 AAC-AAC-T
1 AACTTACAT
*
22174857 TACTTACAT
1 AACTTACAT
*
22174866 AACATACAT
1 AACTTACAT
* *
22174875 TACTTAAAT
1 AACTTACAT
* *
22174884 TATTTACAT
1 AACTTACAT
22174893 AA--TACAT
1 AACTTACAT
22174900 AACTTAGTACAT
1 AAC-T--TACAT
*
22174912 AATTTACAT
1 AACTTACAT
22174921 AA--TACAT
1 AACTTACAT
22174928 AACTTAGTACAT
1 AAC-T--TACAT
22174940 AACTTACAT
1 AACTTACAT
* *
22174949 AATTTTTTC-T
1 AA--CTTACAT
22174959 AAATTGCTTACAT
1 -AA---CTTACAT
* *
22174972 AAATTATAT
1 AACTTACAT
22174981 AACTTACAT
1 AACTTACAT
22174990 AACTTACATT
1 AACTTACA-T
*
22175000 AA-TTAAAT
1 AACTTACAT
22175008 AACTTACAT
1 AACTTACAT
*
22175017 AACTTAAAT
1 AACTTACAT
22175026 AACTTACAT
1 AACTTACAT
22175035 AACTTACAT
1 AACTTACAT
*
22175044 ATCTTACAT
1 AACTTACAT
22175053 AACTTACAT
1 AACTTACAT
* *
22175062 AAATTAAAT
1 AACTTACAT
*
22175071 AACTTGCAT
1 AACTTACAT
22175080 AACTTACAT
1 AACTTACAT
22175089 AACTTACAT
1 AACTTACAT
*
22175098 AAATTACAT
1 AACTTACAT
22175107 AACTTACAT
1 AACTTACAT
22175116 AACTTACAT
1 AACTTACAT
22175125 AA--TACAT
1 AACTTACAT
*
22175132 AACCTT-CCT
1 AA-CTTACAT
22175141 AACTTACAT
1 AACTTACAT
22175150 TATTGTTTAA
Statistics
Matches: 367, Mismatches: 57, Indels: 80
0.73 0.11 0.16
Matches are distributed among these distances:
6 1 0.00
7 40 0.11
8 10 0.03
9 251 0.68
10 8 0.02
11 14 0.04
12 42 0.11
13 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.35
Consensus pattern (9 bp):
AACTTACAT
Found at i:22174782 original size:12 final size:12
Alignment explanation
Indices: 22174765--22174859 Score: 79
Period size: 12 Copynumber: 7.6 Consensus size: 12
22174755 CATAATGCAA
22174765 AACTTACATAAC
1 AACTTACATAAC
22174777 AACTTACATAAC
1 AACTTACATAAC
22174789 AACTTACATAAC
1 AACTTACATAAC
* * *
22174801 ATACATTACTTTGAT
1 A-AC-TTAC-ATAAC
22174816 AACTTACAT---
1 AACTTACATAAC
22174825 AACTTACATAATGC
1 AACTTACATAA--C
22174839 AAAACTTACATAAC
1 --AACTTACATAAC
22174853 AACTTAC
1 AACTTAC
22174860 TTACATAACA
Statistics
Matches: 69, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
9 9 0.13
12 33 0.48
13 6 0.09
14 7 0.10
15 3 0.04
16 11 0.16
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.29
Consensus pattern (12 bp):
AACTTACATAAC
Found at i:22174800 original size:85 final size:76
Alignment explanation
Indices: 22174702--22174859 Score: 247
Period size: 76 Copynumber: 2.1 Consensus size: 76
22174692 TTTAACTTAC
22174702 ACAACTTACATAAC--CTT-CAT-A-ATACATTTAAC-TTGCATAACTTACATAACTTACATAAT
1 ACAACTTACATAACAACTTACATAACATACA-TT-ACTTTG-ATAACTTACATAACTTACATAAT
22174761 GCAAAACTTACATA
63 GCAAAACTTACATA
22174775 ACAACTTACATAACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATAATGCA
1 ACAACTTACATAACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATAATGCA
22174840 AAACTTACATA
66 AAACTTACATA
22174851 ACAACTTAC
1 ACAACTTAC
22174860 TTACATAACA
Statistics
Matches: 79, Mismatches: 0, Indels: 9
0.90 0.00 0.10
Matches are distributed among these distances:
73 14 0.18
75 3 0.04
76 51 0.65
77 6 0.08
78 5 0.06
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (76 bp):
ACAACTTACATAACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATAATGCA
AAACTTACATA
Found at i:22174825 original size:27 final size:26
Alignment explanation
Indices: 22174740--22174853 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 26
22174730 TAACTTGCAT
*
22174740 AACTTACATAACTTACA-TA-ATGCAA-
1 AACTTACATAACATACATTACAT--AAC
22174765 AACTTACATAACA-AC-TTACATAAC
1 AACTTACATAACATACATTACATAAC
* * *
22174789 AACTTACATAACATACATTACTTTGAT
1 AACTTACATAACATACATTAC-ATAAC
*
22174816 AACTTACATAACTTACA-TA-ATGCAA-
1 AACTTACATAACATACATTACAT--AAC
22174841 AACTTACATAACA
1 AACTTACATAACA
22174854 ACTTACTTAC
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
23 2 0.03
24 18 0.25
25 28 0.38
26 7 0.10
27 18 0.25
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (26 bp):
AACTTACATAACATACATTACATAAC
Found at i:22174923 original size:28 final size:28
Alignment explanation
Indices: 22174885--22174951 Score: 125
Period size: 28 Copynumber: 2.4 Consensus size: 28
22174875 TACTTAAATT
22174885 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
22174913 ATTTACATAATACATAACTTAGTACATA
1 ATTTACATAATACATAACTTAGTACATA
*
22174941 ACTTACATAAT
1 ATTTACATAAT
22174952 TTTTTCTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (28 bp):
ATTTACATAATACATAACTTAGTACATA
Found at i:22181649 original size:21 final size:21
Alignment explanation
Indices: 22181623--22181691 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
22181613 CAACAACTTA
* *
22181623 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
**
22181644 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
*
22181665 AAGCAAAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
22181686 AAGCAG
1 AAGCAG
22181692 CGATAGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.42, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:22182229 original size:85 final size:82
Alignment explanation
Indices: 22182140--22182385 Score: 295
Period size: 85 Copynumber: 3.0 Consensus size: 82
22182130 TTTGTGAAAT
* *
22182140 AAGCGCCGCTAAAGAACAGTA-CTATTAGCGGCGTTTTTGAACAAGCGCCGCTATAGAACATTA-
1 AAGCGCCGCTAAAGAACAGTATCT-TTAGCGGCGTTTTT-AACAAGCGCCGCTAAAGAACATGAT
*
22182203 CTTTTTGCGGCGTTTTCCTCCA
64 C-TTTAGCGGCGTTTT--TCCA
** * *
22182225 AAGCGCCGCTAAAGAACACG-ATCTTTAGCGGCGTTTTTTTCAAAGCGCCGCTAAAGTACACGAT
1 AAGCGCCGCTAAAGAACA-GTATCTTTAGCGGCGTTTTTAAC-AAGCGCCGCTAAAGAACATGAT
*
22182289 CTTTAGCGGCGTTTTTTCA
64 CTTTAGCGGCGTTTTTCCA
* *
22182308 AAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTTCATAAGCGCCG-TAAAGAACATGATC
1 AAGCGCCGCTAAAGAACAGT-ATCTTTAGCGGCGTTTTTAACAAGCGCCGCTAAAGAACATGATC
22182371 TTTAGCGGCGTTTTT
65 TTTAGCGGCGTTTTT
22182386 TTCTGTAAGC
Statistics
Matches: 142, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
81 27 0.19
82 8 0.06
83 39 0.27
84 1 0.01
85 63 0.44
86 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (82 bp):
AAGCGCCGCTAAAGAACAGTATCTTTAGCGGCGTTTTTAACAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTCCA
Found at i:22182316 original size:41 final size:41
Alignment explanation
Indices: 22182140--22182386 Score: 306
Period size: 42 Copynumber: 6.0 Consensus size: 41
22182130 TTTGTGAAAT
**
22182140 AAGCGCCGCTAAAGAACA-G-TACTATTAGCGGCGTTTTTGAA
1 AAGCGCCGCTAAAGAACATGAT-CT-TTAGCGGCGTTTTTTCA
* * * *
22182181 CAAGCGCCGCTATAGAACATTA-CTTTTTGCGGCGTTTTCCTCCA
1 -AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT--TTCA
*
22182225 AAGCGCCGCTAAAGAACACGATCTTTAGCGGCGTTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCA
* *
22182267 AAGCGCCGCTAAAGTACACGATCTTTAGCGGCGTTTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCA
22182308 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTCA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCA
22182348 TAAGCGCCG-TAAAGAACATGATCTTTAGCGGCGTTTTTT
1 -AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
22182387 TCTGTAAGCG
Statistics
Matches: 183, Mismatches: 13, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
40 31 0.17
41 52 0.28
42 65 0.36
43 28 0.15
44 7 0.04
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCA
Found at i:22185179 original size:7 final size:7
Alignment explanation
Indices: 22185169--22185194 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
22185159 ATTATTTTTA
22185169 ATTTAAT
1 ATTTAAT
22185176 ATTTAAT
1 ATTTAAT
22185183 ATTTAAT
1 ATTTAAT
22185190 ATTTA
1 ATTTA
22185195 TTAAAATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTTAAT
Found at i:22185198 original size:24 final size:25
Alignment explanation
Indices: 22185171--22185218 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
22185161 TATTTTTAAT
* *
22185171 TTAATATTTAATATTTAA-TATTTA
1 TTAAAATTTAATATATAAGTATTTA
*
22185195 TTAAAATTTCATATATAAGTATTT
1 TTAAAATTTAATATATAAGTATTT
22185219 TAACATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (25 bp):
TTAAAATTTAATATATAAGTATTTA
Found at i:22185977 original size:93 final size:92
Alignment explanation
Indices: 22185790--22185977 Score: 270
Period size: 93 Copynumber: 2.0 Consensus size: 92
22185780 TAGATAAAAA
* * *
22185790 AACAATTTTAAGAGTACTTGCTTCACTCAATATAAATTTATAGAAAATTTTAAAAAATAATAAGA
1 AACAATTTTAAGAATACTTGCTTCACTCAATATAAACTTATAGAAAATTTTAAAAAATAATAACA
22185855 TAATATTATATTACCTTATCATTAATT
66 TAATATTATATTACCTTATCATTAATT
* * * * *
22185882 AACAATTTTAAGAATGCTTGTTTCACTCAGTATAAACTTATAGAAAAATTTTAAAAATTAATATC
1 AACAATTTTAAGAATACTTGCTTCACTCAATATAAACTTATAG-AAAATTTTAAAAAATAATAAC
*
22185947 ATAATATTATATTA-CTTCATTATTAATT
65 ATAATATTATATTACCTT-ATCATTAATT
22185975 AAC
1 AAC
22185978 GTCTCCTTGA
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 41 0.48
93 44 0.52
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (92 bp):
AACAATTTTAAGAATACTTGCTTCACTCAATATAAACTTATAGAAAATTTTAAAAAATAATAACA
TAATATTATATTACCTTATCATTAATT
Found at i:22187443 original size:12 final size:13
Alignment explanation
Indices: 22187414--22187446 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
22187404 GAGGTTACAC
22187414 GGCCGTGTGGCCA
1 GGCCGTGTGGCCA
*
22187427 GGCCGTGT-GCTA
1 GGCCGTGTGGCCA
22187439 GGCCGTGT
1 GGCCGTGT
22187447 AATAGTTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.06, C:0.27, G:0.45, T:0.21
Consensus pattern (13 bp):
GGCCGTGTGGCCA
Found at i:22188492 original size:20 final size:19
Alignment explanation
Indices: 22188465--22188506 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
22188455 CCTTTCAAAT
22188465 TTTCTTATTTT-CATTTGCA
1 TTTCTTATTTTCCATTT-CA
22188484 TTTCATTATTTTCCATTTCA
1 TTTC-TTATTTTCCATTTCA
22188504 TTT
1 TTT
22188507 ACTATCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 12 0.57
21 5 0.24
ACGTcount: A:0.17, C:0.17, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTCTTATTTTCCATTTCA
Found at i:22193158 original size:15 final size:15
Alignment explanation
Indices: 22193116--22193160 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
22193106 TTAATCGACA
*
22193116 AAACTTTTC-TCTAAT
1 AAACTTTTCAT-TTAT
22193131 AAACTTTTCATTTAT
1 AAACTTTTCATTTAT
22193146 AAACTTTTCATTTAT
1 AAACTTTTCATTTAT
22193161 CATATCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 27 0.96
16 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (15 bp):
AAACTTTTCATTTAT
Found at i:22200570 original size:16 final size:16
Alignment explanation
Indices: 22200544--22200582 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
22200534 CATGAGATAG
22200544 AAAAA-AATAA-GGAA
1 AAAAAGAATAAGGGAA
22200558 AAAACAGAATAAGGGAA
1 AAAA-AGAATAAGGGAA
22200575 AAAAAGAA
1 AAAAAGAA
22200583 GAATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 9 0.41
17 8 0.36
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (16 bp):
AAAAAGAATAAGGGAA
Found at i:22204919 original size:22 final size:23
Alignment explanation
Indices: 22204866--22204921 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
22204856 CCTAATTAAA
* * *
22204866 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
22204889 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
22204911 ATTAAAATTAA
1 ATTAAAATTAA
22204922 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:22204934 original size:16 final size:16
Alignment explanation
Indices: 22204897--22204936 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
22204887 TTAATAAAAT
* *
22204897 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
22204913 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
22204929 TAAAATTA
1 TAAAATTA
22204937 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:22205043 original size:68 final size:68
Alignment explanation
Indices: 22204947--22205141 Score: 367
Period size: 68 Copynumber: 2.9 Consensus size: 68
22204937 TCAAATTATT
22204947 AATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
22205010 TCA
66 TCA
22205013 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
1 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
22205078 TCA
66 TCA
*
22205081 AATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
22205142 ACAAACTTGA
Statistics
Matches: 126, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
66 12 0.10
68 114 0.90
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
AATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTA
TCA
Found at i:22205049 original size:9 final size:9
Alignment explanation
Indices: 22205016--22205043 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22205006 TTTATCAAAT
22205016 TATTAATTG
1 TATTAATTG
22205025 TATTAATTG
1 TATTAATTG
22205034 TATTAATTG
1 TATTAATTG
22205043 T
1 T
22205044 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:22205096 original size:9 final size:9
Alignment explanation
Indices: 22205084--22205111 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
22205074 TTTATCAAAT
22205084 TATTAATTG
1 TATTAATTG
22205093 TATTAATTG
1 TATTAATTG
22205102 TATTAATTG
1 TATTAATTG
22205111 T
1 T
22205112 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:22205248 original size:22 final size:24
Alignment explanation
Indices: 22205208--22205251 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22205198 AAATAAACTT
22205208 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
22205232 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
22205252 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:22206457 original size:24 final size:24
Alignment explanation
Indices: 22206424--22206477 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
22206414 TATTTATACA
22206424 ATTTTATATATCAAAT-ATTAAATT
1 ATTTTATATAT-AAATAATTAAATT
* *
22206448 ATTTTTTATATAAATAATTAAAAT
1 ATTTTATATATAAATAATTAAATT
22206472 -TTTTAT
1 ATTTTAT
22206478 TTAAAACTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 9 0.35
24 17 0.65
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTTTATATATAAATAATTAAATT
Found at i:22206561 original size:15 final size:16
Alignment explanation
Indices: 22206534--22206563 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22206524 GGAAACATAA
22206534 TAATTTGAATATAAAG
1 TAATTTGAATATAAAG
22206550 TAATTT-AATATAAA
1 TAATTTGAATATAAA
22206564 ATTTAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (16 bp):
TAATTTGAATATAAAG
Found at i:22214772 original size:12 final size:12
Alignment explanation
Indices: 22214743--22214791 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
22214733 AATCATTTAA
*
22214743 TAATAAAATTA-
1 TAATAAAAATAT
* *
22214754 TACTAAAAATCT
1 TAATAAAAATAT
22214766 TAAT-AAAATAT
1 TAATAAAAATAT
22214777 TAAT-AAAATAT
1 TAATAAAAATAT
22214788 TAAT
1 TAAT
22214792 TAATTAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 29 0.91
12 3 0.09
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATAAAAATAT
Found at i:22214773 original size:11 final size:11
Alignment explanation
Indices: 22214759--22214791 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
22214749 AATTATACTA
*
22214759 AAAATCTTAAT
1 AAAATATTAAT
22214770 AAAATATTAAT
1 AAAATATTAAT
22214781 AAAATATTAAT
1 AAAATATTAAT
22214792 TAATTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATATTAAT
Found at i:22214783 original size:23 final size:23
Alignment explanation
Indices: 22214743--22214812 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
22214733 AATCATTTAA
* *
22214743 TAATAAAAT-TATACTAAAAATCT
1 TAATAAAATAT-TAATAAAAATAT
22214766 TAATAAAATATTAAT-AAAATAT
1 TAATAAAATATTAATAAAAATAT
* *
22214788 TAATTAATTAATTAATTAAAAATAT
1 TAATAAAAT-ATTAA-TAAAAATAT
22214813 CACAAACATC
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.33
23 17 0.44
24 2 0.05
25 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (23 bp):
TAATAAAATATTAATAAAAATAT
Found at i:22220532 original size:20 final size:20
Alignment explanation
Indices: 22220516--22220575 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
22220506 ACCAAAAATT
22220516 TATTTTAAAAATTAAAAAAG
1 TATTTTAAAAATTAAAAAAG
*
22220536 TATTTTAAAAATATTTTAAAAA-
1 TATTTT-AAAA-A-TTAAAAAAG
22220558 TATTTT-AAAATTAAAAAA
1 TATTTTAAAAATTAAAAAA
22220576 ATTTAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 7 0.20
19 1 0.03
20 9 0.26
21 4 0.11
22 7 0.20
23 7 0.20
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TATTTTAAAAATTAAAAAAG
Found at i:22220550 original size:11 final size:11
Alignment explanation
Indices: 22220530--22220643 Score: 87
Period size: 11 Copynumber: 10.4 Consensus size: 11
22220520 TTAAAAATTA
22220530 AAAAAGTATTTT
1 AAAAA-TATTTT
22220542 AAAAATATTTT
1 AAAAATATTTT
22220553 AAAAATATTTT
1 AAAAATATTTT
22220564 --AAA-A--TT
1 AAAAATATTTT
*
22220570 AAAAA-AATTT
1 AAAAATATTTT
22220580 AAAAAGTATTTT
1 AAAAA-TATTTT
22220592 AAAAATATTTT
1 AAAAATATTTT
* * **
22220603 AAAATAAAAAATAA
1 --AA-AAATATTTT
22220617 AAAAAGTATTTT
1 AAAAA-TATTTT
22220629 AAAAATATTTT
1 AAAAATATTTT
22220640 AAAA
1 AAAA
22220644 TTAAAAAATT
Statistics
Matches: 83, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.02
8 5 0.06
9 3 0.04
10 7 0.08
11 36 0.43
12 23 0.28
13 2 0.02
14 5 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:22220584 original size:28 final size:28
Alignment explanation
Indices: 22220540--22220595 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
22220530 AAAAAGTATT
* *
22220540 TTAAAAATATTTTAAAAATATTTTAAAA
1 TTAAAAAAATTTAAAAAATATTTTAAAA
*
22220568 TTAAAAAAATTTAAAAAGTATTTTAAAA
1 TTAAAAAAATTTAAAAAATATTTTAAAA
22220596 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAAAAAATTTAAAAAATATTTTAAAA
Found at i:22220621 original size:37 final size:38
Alignment explanation
Indices: 22220542--22220652 Score: 181
Period size: 37 Copynumber: 2.9 Consensus size: 38
22220532 AAAGTATTTT
**
22220542 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATTT
1 AAAAAGTATTTTAAAAATATTTTAAAATT-AAAAAATAA
22220580 AAAAAGTATTTTAAAAATATTTTAAAA-TAAAAAATAA
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
22220617 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAT
22220653 TTAAAAAATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
37 34 0.49
38 14 0.20
39 21 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (38 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAATAA
Found at i:22220654 original size:16 final size:17
Alignment explanation
Indices: 22220519--22220672 Score: 69
Period size: 17 Copynumber: 8.2 Consensus size: 17
22220509 AAAAATTTAT
22220519 TTTAAAAATTAAAAAAGTA
1 TTTAAAAATT-AAAAA-TA
22220538 TTTTAAAAATATTTTAAAAATA
1 -TTT-AAAA-A--TTAAAAATA
* *
22220560 TTTTAAAATTAAAAAAA
1 TTTAAAAATTAAAAATA
22220577 TTTAAAAAGTATTTTAAAAATA
1 TTT-AAAA--A--TTAAAAATA
* *
22220599 TTTTAAAATAAAAAATA
1 TTTAAAAATTAAAAATA
**
22220616 -AAAAAAGTATTTTAAAAATA
1 TTTAAAA--A--TTAAAAATA
*
22220636 TTTTAAAATTAAAAA-A
1 TTTAAAAATTAAAAATA
* *
22220652 TTTAAAAAATAAATATA
1 TTTAAAAATTAAAAATA
22220669 TTTA
1 TTTA
22220673 TTATATCGGG
Statistics
Matches: 103, Mismatches: 16, Indels: 33
0.68 0.11 0.22
Matches are distributed among these distances:
16 16 0.16
17 31 0.30
18 4 0.04
19 3 0.03
20 15 0.15
21 13 0.13
22 14 0.14
23 5 0.05
24 2 0.02
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
TTTAAAAATTAAAAATA
Found at i:22220672 original size:17 final size:16
Alignment explanation
Indices: 22220630--22220672 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22220620 AAGTATTTTA
* *
22220630 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
*
22220646 AAAAAATTTAAAAAAT
1 AAAATATTTAAAAAAT
22220662 AAATATATTTA
1 AAA-ATATTTA
22220673 TTATATCGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATTTAAAAAAT
Found at i:22225377 original size:13 final size:13
Alignment explanation
Indices: 22225359--22225398 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
22225349 AGTTCTTCAC
22225359 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
22225372 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
22225385 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
22225398 T
1 T
22225399 TTAGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22235333 original size:40 final size:41
Alignment explanation
Indices: 22235289--22235374 Score: 122
Period size: 40 Copynumber: 2.1 Consensus size: 41
22235279 AGGAGTATCG
* *
22235289 AAGTACT-AACAGGGGCTCGTATATGCATTCAGGGGTACCA
1 AAGTACTAAACAGGGGCACGCATATGCATTCAGGGGTACCA
* *
22235329 AAGTA-TAAACAGGGGCACGCATGTGCATTTAGGGGTACCA
1 AAGTACTAAACAGGGGCACGCATATGCATTCAGGGGTACCA
22235369 AAGTAC
1 AAGTAC
22235375 AAATTGGGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.21
Consensus pattern (41 bp):
AAGTACTAAACAGGGGCACGCATATGCATTCAGGGGTACCA
Found at i:22235393 original size:40 final size:40
Alignment explanation
Indices: 22235312--22235399 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
22235302 GGCTCGTATA
* * *
22235312 TGCATTCAGGGGTACCAAAGTATAAACAGGGGCACGCATG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGACACACATG
* ** *
22235352 TGCATTTAGGGGTACCAAAGTACAAATTGGGACACATATG
1 TGCATTCAGGGGTACCAAAGTACAAACAGGGACACACATG
22235392 TGCATTCA
1 TGCATTCA
22235400 TACAATAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (40 bp):
TGCATTCAGGGGTACCAAAGTACAAACAGGGACACACATG
Found at i:22250103 original size:15 final size:15
Alignment explanation
Indices: 22250085--22250119 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22250075 AGCTTTCCAC
* *
22250085 TCTTTTACTTTCTTT
1 TCTTTTAATTTCCTT
22250100 TCTTTTAATTTCCTT
1 TCTTTTAATTTCCTT
22250115 TCTTT
1 TCTTT
22250120 CCCTTTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTTTAATTTCCTT
Found at i:22251689 original size:23 final size:25
Alignment explanation
Indices: 22251662--22251732 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
22251652 ACGTCGTATA
*
22251662 TCATATTTCAATCA-C-AATTCATC
1 TCATATATCAATCAGCTAATTCATC
* *
22251685 TCATATATCATTTAGCTAATTCATC
1 TCATATATCAATCAGCTAATTCATC
* *
22251710 TCATATATCATTTAGCTAATTCA
1 TCATATATCAATCAGCTAATTCA
22251733 CATAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 11 0.26
24 1 0.02
25 31 0.72
ACGTcount: A:0.34, C:0.21, G:0.03, T:0.42
Consensus pattern (25 bp):
TCATATATCAATCAGCTAATTCATC
Found at i:22251705 original size:25 final size:25
Alignment explanation
Indices: 22251677--22251732 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
22251667 TTTCAATCAC
22251677 AATTCATCTCATATATCATTTAGCT
1 AATTCATCTCATATATCATTTAGCT
22251702 AATTCATCTCATATATCATTTAGCT
1 AATTCATCTCATATATCATTTAGCT
22251727 AATTCA
1 AATTCA
22251733 CATAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.43
Consensus pattern (25 bp):
AATTCATCTCATATATCATTTAGCT
Found at i:22252988 original size:21 final size:19
Alignment explanation
Indices: 22252963--22253010 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
22252953 GTTGATTAAT
* *
22252963 TTAATTAATTATGTTTTTATC
1 TTAATTAATCAT-ATTTTA-C
22252984 TTAATTAATCATATTTTAC
1 TTAATTAATCATATTTTAC
22253003 TTAATTAA
1 TTAATTAA
22253011 GCAACAAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.36
20 5 0.20
21 11 0.44
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAATTAATCATATTTTAC
Found at i:22255756 original size:17 final size:17
Alignment explanation
Indices: 22255730--22255763 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22255720 GGATTGTTGG
*
22255730 ATTTTTTTATTGTTATT
1 ATTTTCTTATTGTTATT
*
22255747 ATTTTCTTATTTTTATT
1 ATTTTCTTATTGTTATT
22255764 TTAATTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTCTTATTGTTATT
Found at i:22258350 original size:2 final size:2
Alignment explanation
Indices: 22258343--22258390 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
22258333 NNNNNNNNNN
22258343 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22258385 TA TA TA
1 TA TA TA
22258391 AAACAGATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22261557 original size:50 final size:50
Alignment explanation
Indices: 22261386--22261679 Score: 266
Period size: 50 Copynumber: 5.7 Consensus size: 50
22261376 ACATGCCATA
** * ** *
22261386 GCCATGTCCCAGACATGGTCTTACATGGGATATTTTCTATACTATACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTC-AT-CT-TGGTGCCAAC
* * * * * ** * * *
22261440 GCCATATCCCAAATATGCTCTTACATTGGAGTTCTCATATCGGTGCC-AT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
**
22261489 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
22261539 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
* * * * *
22261589 GCCAAGCCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--A-TCT---TGGTGCCAAC
* *
22261645 GCCATGTCCTAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
22261680 TTACCCAAAT
Statistics
Matches: 198, Mismatches: 35, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
49 38 0.19
50 86 0.43
51 1 0.01
52 3 0.02
53 7 0.04
54 25 0.13
56 38 0.19
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAC
Found at i:22261564 original size:99 final size:101
Alignment explanation
Indices: 22261379--22261679 Score: 302
Period size: 99 Copynumber: 2.9 Consensus size: 101
22261369 GATAATAACA
** *
22261379 TGCCATAGCCATGTCCCAGACATGGTCTTACATGGGATATTTTCTATACTAT-ACTGCCAATGCC
1 TGCCAT-GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCTAT-CTATGA-TGCCAATGCC
* * * * * **
22261443 ATATCCCAAATATGCTCTTACATTGGAGTTCTCATATCGG
62 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * *
22261483 TGCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTC-ATCT-TGGTGCCAACGCCATGT
1 TGCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTATCTATGATGCCAATGCCATGT
* *
22261546 CCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
66 CCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
22261582 TGCCAACGCCAAGCCCCAGACATGGTCTTACATGAGACCTCTCATAGTCTCAATGATGCCAATGC
1 TGCC-ATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-TA-TCT--ATGATGCCAATGC
* *
22261647 CATGTCCTAGACATGGTCTTACATGGGATCTCT
61 CATGTCCCAGACATGGTCTTACATGGGACCTCT
22261680 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
99 45 0.28
100 34 0.21
101 2 0.01
102 4 0.02
103 31 0.19
104 6 0.04
106 41 0.25
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (101 bp):
TGCCATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCTATCTATGATGCCAATGCCATGT
CCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:22266906 original size:18 final size:18
Alignment explanation
Indices: 22266883--22266930 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
22266873 AAAATGATGC
*
22266883 AAAAATATTATAATTAAA
1 AAAAATATAATAATTAAA
* *
22266901 AAAAAT-TAATATTTATA
1 AAAAATATAATAATTAAA
22266918 AAAAATATAATAA
1 AAAAATATAATAA
22266931 AATATTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATATAATAATTAAA
Found at i:22282455 original size:17 final size:17
Alignment explanation
Indices: 22282433--22282493 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
22282423 TATAACCATG
22282433 TGGGCCACAAGGGCATA
1 TGGGCCACAAGGGCATA
* *
22282450 TGGGCCACACA-GGAATG
1 TGGGCCACA-AGGGCATA
* *
22282467 TGGGCCCACATGGGCGTA
1 TGGG-CCACAAGGGCATA
22282485 TGGGCCACA
1 TGGGCCACA
22282494 CGAGAGCGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 22 0.63
18 13 0.37
ACGTcount: A:0.25, C:0.26, G:0.36, T:0.13
Consensus pattern (17 bp):
TGGGCCACAAGGGCATA
Found at i:22282487 original size:35 final size:35
Alignment explanation
Indices: 22282430--22282521 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
22282420 GGGTATAACC
*
22282430 ATGTGGG-CCACAAGGGCATATGGGCCACAC-AGGA
1 ATGTGGGCCCACAAGGGCGTATGGGCCACACGA-GA
*
22282464 ATGTGGGCCCACATGGGCGTATGGGCCACACGAGA
1 ATGTGGGCCCACAAGGGCGTATGGGCCACACGAGA
** *
22282499 GCGTGGGCCCACAAGAGCGTATG
1 ATGTGGGCCCACAAGGGCGTATG
22282522 TGTTTGGGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 7 0.14
35 42 0.84
36 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.37, T:0.13
Consensus pattern (35 bp):
ATGTGGGCCCACAAGGGCGTATGGGCCACACGAGA
Found at i:22283894 original size:24 final size:22
Alignment explanation
Indices: 22283863--22283906 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
22283853 TATTACATTC
22283863 AAAATTAAAATATTTATAATTTA
1 AAAATTAAAATATTTA-AATTTA
*
22283886 AAAATTTAAATTATTTAAATT
1 AAAA-TTAAAATATTTAAATT
22283907 CCTCAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATTAAAATATTTAAATTTA
Found at i:22283896 original size:23 final size:23
Alignment explanation
Indices: 22283863--22283906 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
22283853 TATTACATTC
22283863 AAAATTAAAA-TATTTATAATTTA
1 AAAATTAAAATTATTTA-AATTTA
*
22283886 AAAATTTAAATTATTTAAATT
1 AAAATTAAAATTATTTAAATT
22283907 CCTCAAAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATTAAAATTATTTAAATTTA
Found at i:22283975 original size:15 final size:15
Alignment explanation
Indices: 22283957--22284001 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
22283947 AACTTTAACT
*
22283957 CAAAAAATCCAAACC
1 CAAAAAATTCAAACC
22283972 CAAAAAATTTCAAA-C
1 CAAAAAA-TTCAAACC
22283987 CAAAAGAATTCAAAC
1 CAAAA-AATTCAAAC
22284002 AAAATCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.60, C:0.24, G:0.02, T:0.13
Consensus pattern (15 bp):
CAAAAAATTCAAACC
Found at i:22290315 original size:11 final size:11
Alignment explanation
Indices: 22290299--22290334 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
22290289 CCACCCCAAA
22290299 CATATACATAT
1 CATATACATAT
22290310 CATATACATAT
1 CATATACATAT
* *
22290321 CTTATACTTAT
1 CATATACATAT
22290332 CAT
1 CAT
22290335 GATCATAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (11 bp):
CATATACATAT
Found at i:22299550 original size:18 final size:20
Alignment explanation
Indices: 22299528--22299565 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22299518 ATAAAAAATT
22299528 AAAAAAA-TTAATTGAGCTA
1 AAAAAAACTTAATTGAGCTA
22299547 AAAAAAACTTAATTGAGCT
1 AAAAAAACTTAATTGAGCT
22299566 TTCAATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (20 bp):
AAAAAAACTTAATTGAGCTA
Found at i:22300043 original size:3 final size:3
Alignment explanation
Indices: 22300035--22300071 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
22300025 AATAACTACA
22300035 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22300072 TGAACTTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:22302120 original size:71 final size:70
Alignment explanation
Indices: 22302033--22302170 Score: 168
Period size: 71 Copynumber: 2.0 Consensus size: 70
22302023 CCCCATATGT
* * * * * *
22302033 TTTAATTTGTGAACCCTAATATGATTTAGTATGTGAACCCCCATATGTTTTATTATGTGAACCCT
1 TTTAATATGCGAACCCTAATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGT-AAACCT
22302098 TATGGA
65 TATGGA
* * * * *
22302104 TTTAATATGCGAACCCTTATGTGATTTATTATGCGAACCCTCATGTGATTTAGTATGTAAACCTT
1 TTTAATATGCGAACCCTAATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGTAAACCTT
22302169 AT
66 AT
22302171 ATGCGAACCA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
70 8 0.14
71 48 0.86
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (70 bp):
TTTAATATGCGAACCCTAATATGATTTAGTATGCGAACCCCCATATGATTTAGTATGTAAACCTT
ATGGA
Found at i:22302132 original size:47 final size:47
Alignment explanation
Indices: 22302001--22302160 Score: 171
Period size: 48 Copynumber: 3.4 Consensus size: 47
22301991 CATGCAAACA
* * *
22302001 CTTATGGATTTGGTATACGAACCCCCATATGTTTTAATT-TGTGAACC
1 CTTATGGATTTAGTATGCGAACCCCCATATGATTT-ATTATGTGAACC
* *
22302048 CTAATAT-GATTTAGTATGTGAACCCCCATATGTTTTATTATGTGAACC
1 CT--TATGGATTTAGTATGCGAACCCCCATATGATTTATTATGTGAACC
* ** * *
22302096 CTTATGGATTTAATATGCGAACCCTTATGTGATTTATTATGCGAACC
1 CTTATGGATTTAGTATGCGAACCCCCATATGATTTATTATGTGAACC
*
22302143 CTCATGTGATTTAGTATG
1 CTTATG-GATTTAGTATG
22302161 TAAACCTTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.03
47 44 0.46
48 46 0.48
49 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (47 bp):
CTTATGGATTTAGTATGCGAACCCCCATATGATTTATTATGTGAACC
Found at i:22302136 original size:24 final size:24
Alignment explanation
Indices: 22302007--22302160 Score: 121
Period size: 24 Copynumber: 6.5 Consensus size: 24
22301997 AACACTTATG
* * * *
22302007 GATTTGGTATACGAACCCCCATAT
1 GATTTAGTATGCGAACCCTCATGT
* * * * * *
22302031 GTTTTAATTTGTGAACCCTAATAT
1 GATTTAGTATGCGAACCCTCATGT
* * *
22302055 GATTTAGTATGTGAACCCCCATAT
1 GATTTAGTATGCGAACCCTCATGT
* * * *
22302079 GTTTTATTATGTGAACCCTTATG-
1 GATTTAGTATGCGAACCCTCATGT
* *
22302102 GATTTAATATGCGAACCCTTATGT
1 GATTTAGTATGCGAACCCTCATGT
*
22302126 GATTTATTATGCGAACCCTCATGT
1 GATTTAGTATGCGAACCCTCATGT
22302150 GATTTAGTATG
1 GATTTAGTATG
22302161 TAAACCTTAT
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
23 20 0.19
24 85 0.81
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (24 bp):
GATTTAGTATGCGAACCCTCATGT
Found at i:22302166 original size:24 final size:24
Alignment explanation
Indices: 22302040--22302166 Score: 130
Period size: 24 Copynumber: 5.3 Consensus size: 24
22302030 TGTTTTAATT
* *
22302040 TGTGAACCCTAATATGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
* * * *
22302064 TGTGAACCCCCATATGTTTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
* *
22302088 TGTGAACCCTTATG-GATTTAATA
1 TGTGAACCCTCATGTGATTTAGTA
* * *
22302111 TGCGAACCCTTATGTGATTTATTA
1 TGTGAACCCTCATGTGATTTAGTA
*
22302135 TGCGAACCCTCATGTGATTTAGTA
1 TGTGAACCCTCATGTGATTTAGTA
*
22302159 TGTAAACC
1 TGTGAACC
22302167 TTATATGCGA
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 20 0.23
24 67 0.77
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
TGTGAACCCTCATGTGATTTAGTA
Found at i:22302169 original size:47 final size:47
Alignment explanation
Indices: 22302043--22302173 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
22302033 TTTAATTTGT
* ** * *
22302043 GAACCCTAATATGATTTAGTATGTGAACCCCCATATGTTTTATTATGT
1 GAACCCTAATGTGATTTAGTATGT-AACCCTTATATGATTTATTATGC
* * * *
22302091 GAACCCTTATG-GATTTAATATGCGAACCCTTATGTGATTTATTATGC
1 GAACCCTAATGTGATTTAGTATG-TAACCCTTATATGATTTATTATGC
* *
22302138 GAACCCTCATGTGATTTAGTATGTAAACCTTATATG
1 GAACCCTAATGTGATTTAGTATGTAACCCTTATATG
22302174 CGAACCATGT
Statistics
Matches: 67, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
47 48 0.72
48 19 0.28
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (47 bp):
GAACCCTAATGTGATTTAGTATGTAACCCTTATATGATTTATTATGC
Found at i:22303612 original size:37 final size:40
Alignment explanation
Indices: 22303566--22303657 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 40
22303556 AAATTTGTGC
*
22303566 TTAAAAATAACAT-ATAATAA-ATAATAAA-ATGTATGAT-
1 TTAAAAATAA-ATAATAATAACACAATAAATATGTATGATA
* *
22303603 TTAAAAATAATTAATAATAACACATTAAATATGTATGATA
1 TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
22303643 TT-AAAATAAA-AATAA
1 TTAAAAATAAATAATAA
22303658 ATTAAATTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
36 1 0.02
37 17 0.36
38 11 0.23
39 16 0.34
40 2 0.04
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (40 bp):
TTAAAAATAAATAATAATAACACAATAAATATGTATGATA
Found at i:22311428 original size:42 final size:43
Alignment explanation
Indices: 22311348--22311433 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 43
22311338 TTATGTTCTA
*
22311348 GAACCACACGGGTATAGGACAAAGGCATGTGCCTAGGCCGTGT
1 GAACCACACGGGTAAAGGACAAAGGCATGTGCCTAGGCCGTGT
** *
22311391 GAACCACACGGG-AAAGGACATGGGCGTGTGTCC-AGGCCGTGT
1 GAACCACACGGGTAAAGGACAAAGGCATGTG-CCTAGGCCGTGT
22311433 G
1 G
22311434 GCATATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.63
43 14 0.37
ACGTcount: A:0.26, C:0.23, G:0.36, T:0.15
Consensus pattern (43 bp):
GAACCACACGGGTAAAGGACAAAGGCATGTGCCTAGGCCGTGT
Found at i:22320360 original size:31 final size:32
Alignment explanation
Indices: 22320325--22320393 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
22320315 GTATAACAAT
22320325 ATTTTGAGATAAATATTA-AATTT-ATACATAA
1 ATTTTGAGATAAATA-TACAATTTAATACATAA
* *
22320356 ATTTTG-GTTTAATATACAATTTAATACATAA
1 ATTTTGAGATAAATATACAATTTAATACATAA
22320387 ATTTTGA
1 ATTTTGA
22320394 TTTGACGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 2 0.06
30 11 0.33
31 20 0.61
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.45
Consensus pattern (32 bp):
ATTTTGAGATAAATATACAATTTAATACATAA
Found at i:22323285 original size:19 final size:19
Alignment explanation
Indices: 22323243--22323286 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
22323233 AATTGAACTT
*
22323243 AAAAATTGGACTTGAGATC
1 AAAAATTGGACTTGAGAAC
22323262 AAAAATTGGA-TCTGAGAACC
1 AAAAATTGGACT-TGAGAA-C
22323282 AAAAA
1 AAAAA
22323287 CCAAGACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.68
20 6 0.27
ACGTcount: A:0.50, C:0.11, G:0.18, T:0.20
Consensus pattern (19 bp):
AAAAATTGGACTTGAGAAC
Found at i:22323716 original size:61 final size:61
Alignment explanation
Indices: 22323581--22323713 Score: 200
Period size: 61 Copynumber: 2.2 Consensus size: 61
22323571 TTCAAAAATA
* *
22323581 ATATTATTTTAATAGTTTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATT
* * *
22323642 CTATTAATTTAATAGATTTAATATTAAATTTAATCTAATATTTGTC-T-T-GATAAGTATT
1 ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATT
22323700 ATATTAATTTAATA
1 ATATTAATTTAATA
22323714 ATAAAGTGAT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
58 23 0.35
59 1 0.02
60 1 0.02
61 41 0.62
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (61 bp):
ATATTAATTTAATAGATTTAATATTAAATTTAATCTAATAATTATCTTATAGATAAGTATT
Found at i:22324749 original size:34 final size:34
Alignment explanation
Indices: 22324711--22324817 Score: 83
Period size: 34 Copynumber: 3.1 Consensus size: 34
22324701 AAAATAGGAT
22324711 CATATTGTGTAAGACCACAACTAGGCTATGGCAA
1 CATATTGTGTAAGACCACAACTAGGCTATGGCAA
*** ** * ** * *
22324745 CATATAAAGTCCG-CCAGAACAATAAAC-ATGGGAT
1 CATATTGTGTAAGACCACAAC--TAGGCTATGGCAA
*
22324779 CATATTGTGTAAGACCACAACTAGGCTATAGCAA
1 CATATTGTGTAAGACCACAACTAGGCTATGGCAA
22324813 CATAT
1 CATAT
22324818 AAAGTTCGCC
Statistics
Matches: 48, Mismatches: 21, Indels: 8
0.62 0.27 0.10
Matches are distributed among these distances:
33 9 0.19
34 30 0.62
35 9 0.19
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (34 bp):
CATATTGTGTAAGACCACAACTAGGCTATGGCAA
Found at i:22324885 original size:68 final size:68
Alignment explanation
Indices: 22324629--22324877 Score: 399
Period size: 68 Copynumber: 3.7 Consensus size: 68
22324619 TCCGTTAGGT
* **
22324629 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATGAAGTTTTCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
*
22324694 GAC
66 AAC
* * * *
22324697 AACAAAAATAGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTCCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
22324762 AAC
66 AAC
*
22324765 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATAGCAACATATAAAGTTCGCCAG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
22324830 AAC
66 AAC
* *
22324833 AGTAAACATGGGATCATATTGTGTAAGACCACAGCTAGGCTATGG
1 AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGG
22324878 TGCCATATGA
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 165 1.00
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (68 bp):
AATAAACATGGGATCATATTGTGTAAGACCACAACTAGGCTATGGCAACATATAAAGTTCGCCAG
AAC
Found at i:22327576 original size:21 final size:21
Alignment explanation
Indices: 22327551--22327607 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
22327541 ACCAAGACGT
*
22327551 GGTATCAATACTTTGGGTA-AG
1 GGTATCAATACTTT-GATAGAG
* * *
22327572 GGTATTATTACCTT-ATAGAG
1 GGTATCAATACTTTGATAGAG
22327592 GGTATCAATACTTTGA
1 GGTATCAATACTTTGA
22327608 CCCTTGGGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 12 0.44
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.37
Consensus pattern (21 bp):
GGTATCAATACTTTGATAGAG
Found at i:22331414 original size:23 final size:25
Alignment explanation
Indices: 22331373--22331420 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
22331363 TTATCTTTTG
* *
22331373 TATTATTATATTAAGTTTCTTCATA
1 TATTAATATATTAAGTTTCATCATA
22331398 TATTAATAT-TTAA-TTTCATCATA
1 TATTAATATATTAAGTTTCATCATA
22331421 AATCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (25 bp):
TATTAATATATTAAGTTTCATCATA
Found at i:22334664 original size:24 final size:24
Alignment explanation
Indices: 22334632--22334680 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22334622 CAAAAAAACA
22334632 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
22334656 CATAAAAAATTTCTTTCTATTCTT
1 CATAAAAAATTTCTTTCTATTCTT
22334680 C
1 C
22334681 CACTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (24 bp):
CATAAAAAATTTCTTTCTATTCTT
Found at i:22336291 original size:21 final size:21
Alignment explanation
Indices: 22336266--22336316 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
22336256 CTTGCACAAA
22336266 GTATCAATATCTTTGTAATAC
1 GTATCAATATCTTTGTAATAC
* * * * *
22336287 GTATCGATATTTTTTTATTAG
1 GTATCAATATCTTTGTAATAC
22336308 GTATCAATA
1 GTATCAATA
22336317 CCAAATTAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
GTATCAATATCTTTGTAATAC
Found at i:22338947 original size:17 final size:17
Alignment explanation
Indices: 22338921--22338954 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22338911 AAAATTAAAT
* *
22338921 ATTTTGATATGACACTA
1 ATTTTAATATAACACTA
22338938 ATTTTAATATAACACTA
1 ATTTTAATATAACACTA
22338955 TGACTTTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATTTTAATATAACACTA
Found at i:22339751 original size:26 final size:26
Alignment explanation
Indices: 22339695--22339751 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
22339685 GTGAATATGT
*
22339695 ATTATCCACACAAACATCTTTCATTC
1 ATTATCCACACAAACATCTTTCATCC
* *
22339721 ATTATCCACTCACACA-CTTTTCATCC
1 ATTATCCACACAAACATC-TTTCATCC
*
22339747 TTTAT
1 ATTAT
22339752 AGAGGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTATCCACACAAACATCTTTCATCC
Found at i:22346404 original size:35 final size:35
Alignment explanation
Indices: 22346365--22346434 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
22346355 TTTTATCCCC
* *
22346365 AAGAAACTTCTTAGCACCTATTTTACGAATTTCTT
1 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
22346400 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
1 AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
22346435 TCATAAGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (35 bp):
AAGAAACTTATTAGCACCTATTTTACAAATTTCTT
Found at i:22351864 original size:28 final size:28
Alignment explanation
Indices: 22351833--22351897 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
22351823 ATTTAAGAAA
**
22351833 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
22351861 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
22351890 TAAAATAA
1 TAAAATAA
22351898 GTTGAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Found at i:22351888 original size:29 final size:28
Alignment explanation
Indices: 22351848--22351944 Score: 108
Period size: 29 Copynumber: 3.5 Consensus size: 28
22351838 ATAATATATG
*
22351848 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
*
22351876 TAAATTAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAATTGAAA
* * *
22351905 TGAATTAAAGATGTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATATTAAAATAAATTGAAA
*
22351933 GAAA-TAAAATAT
1 TAAATTAAAATAT
22351945 CTATATAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 18 0.31
29 34 0.58
ACGTcount: A:0.59, C:0.01, G:0.07, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:22353758 original size:100 final size:100
Alignment explanation
Indices: 22353633--22353815 Score: 276
Period size: 100 Copynumber: 1.8 Consensus size: 100
22353623 CGCTGCCTTC
* *
22353633 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTT
1 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
* *
22353698 CACTGCAACATCGGGGAAGTAAGATACGCTGTTGT
66 CACTACAACATCGAGGAAGTAAGATACGCTGTTGT
* ** * *
22353733 AGCTTTAGTCTATTTTACTGTAACGTCGGAGAAGTAAGATTCGCTATTGTAGCTTTAACCTGCTT
1 AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
*
22353798 CACTACAACGTCGAGGAA
66 CACTACAACATCGAGGAA
22353816 ATAAAATTCG
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 73 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (100 bp):
AGCTTTAATCTATTTTACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCCGCTT
CACTACAACATCGAGGAAGTAAGATACGCTGTTGT
Found at i:22353828 original size:50 final size:50
Alignment explanation
Indices: 22353649--22353830 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
22353639 AATCTATTTT
* * *
22353649 ACTACAACGTCGGAGAAGTAAAATTCGTTGTTGTAGCTTTAACCCGCTTC
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
* * * * * * ** ** *
22353699 ACTGCAACATCGGGGAAGTAAGATACGCTGTTGTAGCTTTAGTCTATTTT
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
** *
22353749 ACTGTAACGTCGGAGAAGTAAGATTCGCTATTGTAGCTTTAACCTGCTTC
1 ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
*
22353799 ACTACAACGTC-GAGGAAATAAAATTCGCTATT
1 ACTACAACGTCGGA-GAAGTAAAATTCGCTATT
22353831 ATAACCTCAA
Statistics
Matches: 105, Mismatches: 26, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
49 2 0.02
50 103 0.98
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (50 bp):
ACTACAACGTCGGAGAAGTAAAATTCGCTATTGTAGCTTTAACCTGCTTC
Found at i:22354085 original size:132 final size:132
Alignment explanation
Indices: 22353862--22354233 Score: 582
Period size: 132 Copynumber: 2.8 Consensus size: 132
22353852 ATTGCTCAGA
* *
22353862 GAGACATGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGTTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * *
22353927 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
22353992 GG
131 GG
* * * * *
22353994 GAGACGGGATCTACATTCTTTAACCTACTCCACTGTTGCTCAGGGAGATAGGATTGGTGGCTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * *
22354059 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATATTGGATCTGCTCTACTATTACTTA
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
22354124 GG
131 GG
* * *
22354126 GAGACAGGATCCACAATCTTCAACCTACTCCACTGCTGCTTAGGGAGACAGGACTGGTGGCTTAA
1 GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* *
22354191 ATCTGCTTCCCAACTACCTCGGGAAGATAAGATTCACCATCTT
66 ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTT
22354234 CTTCAATCCA
Statistics
Matches: 216, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 216 1.00
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (132 bp):
GAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
ATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCATCTTGGATCTGCTCCACTACTACTTA
GG
Found at i:22355230 original size:26 final size:26
Alignment explanation
Indices: 22355177--22355230 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
22355167 GTATCTTGAG
* * *
22355177 AAGAATAAATTATTCCAAGAATAGCA
1 AAGAATAAAGTATTCCAAGAACAACA
*
22355203 AAGAATAAAGTATTCCAAGGACAACA
1 AAGAATAAAGTATTCCAAGAACAACA
22355229 AA
1 AA
22355231 ATCAATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.56, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
AAGAATAAAGTATTCCAAGAACAACA
Found at i:22357795 original size:50 final size:50
Alignment explanation
Indices: 22357692--22357932 Score: 243
Period size: 50 Copynumber: 4.7 Consensus size: 50
22357682 AAAGAGATCA
* *
22357692 CATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCA-CC--GAG---ATGAGAGGTCC
**
22357748 CATGTAAGACCATGTCAGGGACATGGTGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * *
22357798 CATGGAAGACCATGTCTA-CGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTC-AGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** * * * * **
22357848 CCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAACATCC
1 CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAG-AGGTCC
*
22357899 CATGTAAGACCATGTCTA-GGACATGGCTTTGGCA
1 CATGTAAGACCATGTC-AGGGACATGGCATTGGCA
22357933 TGTTATGATT
Statistics
Matches: 158, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
50 90 0.57
51 33 0.21
53 3 0.02
55 2 0.01
56 30 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCAGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:22357891 original size:100 final size:103
Alignment explanation
Indices: 22357692--22357933 Score: 285
Period size: 100 Copynumber: 2.3 Consensus size: 103
22357682 AAAGAGATCA
*
22357692 CATGTAAGACCATGTCTGAGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATGTAAGA
1 CATGTAAGACCATGTCT-AGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCACGTAAGA
** * **
22357757 CCATGTCAGGGACATGGTGTTGGCACCGAGATGAG-AGGTCC
62 CCATGTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
* * *
22357798 CATGGAAGACCATGTCTACGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCGTAAGACCA
1 CATGTAAGACCATGTCTA-GACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACGTAAGACCA
* * *
22357860 TGTCTGGGACATGGCATGGGCATCGATATGAGAACATCC
65 TGTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
*
22357899 CATGTAAGACCATGTCTAGGACATGGCTTTGGCAT
1 CATGTAAGACCATGTCTA-GACATGGCATTGGCAT
22357934 GTTATGATTA
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
100 47 0.40
101 35 0.30
103 3 0.03
105 3 0.03
106 30 0.25
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (103 bp):
CATGTAAGACCATGTCTAGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCACGTAAGACCAT
GTCAGGGACATGGCATGGGCACCGAGATGAGAACATCC
Found at i:22365408 original size:50 final size:50
Alignment explanation
Indices: 22365276--22365469 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
22365266 GGTAAAGAGA
* * * *
22365276 TCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCCTTGAAATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--G--A-GATGAAAGG
22365332 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
* ** * **
22365382 TCCCATGGAAGACCATGTCTACGACATGGCGTTGGCACCGATATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGA-AAGG
*
22365433 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22365470 TGTTATGATC
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 49 0.40
51 36 0.29
53 1 0.01
55 2 0.02
56 35 0.28
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAAAGG
Found at i:22375443 original size:16 final size:16
Alignment explanation
Indices: 22375422--22375456 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
22375412 CTTTTAGGAT
* *
22375422 AAAATGCTATGCAGTC
1 AAAATGCCATGCAATC
22375438 AAAATGCCATGCAATC
1 AAAATGCCATGCAATC
22375454 AAA
1 AAA
22375457 GCAAAACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.20, G:0.14, T:0.20
Consensus pattern (16 bp):
AAAATGCCATGCAATC
Found at i:22375748 original size:34 final size:34
Alignment explanation
Indices: 22375705--22375772 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
22375695 TTATGGCTGC
* *
22375705 ATTTCGAAAGCAGTCCACTATCCTGCATGGAGGT
1 ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
*
22375739 ATTTCGAAAGCGGCCCACTATCCTGCACGGAGGT
1 ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
22375773 GAAAACCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (34 bp):
ATTTCGAAAGCAGCCCACTATCCTGCACGGAGGT
Found at i:22376888 original size:28 final size:28
Alignment explanation
Indices: 22376857--22376921 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
22376847 ATTTAAGAAA
**
22376857 TAAATATAATATATGTAAATTAA-AATAT
1 TAAA-ATAATATAAATAAATTAACAATAT
*
22376885 TAAAATAAATTTAAATAAATTAACAATAT
1 TAAAAT-AATATAAATAAATTAACAATAT
22376914 TAAAATAA
1 TAAAATAA
22376922 GTTGAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 19 0.59
29 11 0.34
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
TAAAATAATATAAATAAATTAACAATAT
Done.