Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 247 of 333
Found at i:81327916 original size:36 final size:35
Alignment explanation
Indices: 81327841--81327918 Score: 84
Period size: 36 Copynumber: 2.2 Consensus size: 35
81327831 GTGAACCATG
* * * * *
81327841 TTAACTTGGTGATTATATTATTACGGCGAACTGTG
1 TTAATTTGGTGATTATATTAATACGACGAAATGTA
* *
81327876 TTAATTTGGTGATCTGTATTAATATGACGAAATGTA
1 TTAATTTGGTGAT-TATATTAATACGACGAAATGTA
81327912 TTAATTT
1 TTAATTT
81327919 CCCAAACTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 12 0.34
36 23 0.66
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (35 bp):
TTAATTTGGTGATTATATTAATACGACGAAATGTA
Found at i:81328623 original size:51 final size:51
Alignment explanation
Indices: 81328554--81328662 Score: 146
Period size: 51 Copynumber: 2.1 Consensus size: 51
81328544 TATGATGGAG
* * *
81328554 TATGAAATGTTATCTTGCATAAACTATTATTCGGTATGAACTGATATTTCA
1 TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
* * * * *
81328605 TATGAATTATTATTTTGCATGAGCTATCATTTGGTATGAACTGTTATTTCA
1 TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
81328656 TATGAAT
1 TATGAAT
81328663 AGATGTTTGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (51 bp):
TATGAATTATTATCTTGCATAAACTATCATTCGGTATGAACTGATATTTCA
Found at i:81328653 original size:17 final size:17
Alignment explanation
Indices: 81328575--81328653 Score: 61
Period size: 17 Copynumber: 4.6 Consensus size: 17
81328565 ATCTTGCATA
*
81328575 AACTATTATTCGGTATG
1 AACTATTATTTGGTATG
**
81328592 AACTGA-TATTTCATATG
1 AACT-ATTATTTGGTATG
* * *
81328609 AATTATTATTTTGCATG
1 AACTATTATTTGGTATG
* *
81328626 AGCTATCATTTGGTATG
1 AACTATTATTTGGTATG
*
81328643 AACTGTTATTT
1 AACTATTATTT
81328654 CATATGAATA
Statistics
Matches: 45, Mismatches: 15, Indels: 4
0.70 0.23 0.06
Matches are distributed among these distances:
16 1 0.02
17 43 0.96
18 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (17 bp):
AACTATTATTTGGTATG
Found at i:81330293 original size:97 final size:99
Alignment explanation
Indices: 81330119--81330326 Score: 339
Period size: 97 Copynumber: 2.1 Consensus size: 99
81330109 ATGCGTCCAT
* *
81330119 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCATGAAACTATAATCATATTTT
1 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
*
81330184 ATTGATATCATAAT-ATTTGCACTGGTTTATGAA
66 ATTGATATCATAATAATTTGCACTGCTTTATGAA
*
81330217 GCATTTGCATCATTCAAGAGCATATGCATGTGGTTA-TTTAGTCACGAAACAATAATCATATTTT
1 GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
*
81330281 ATTGGTATCATAATAACATTTGCACTGCTTTATGAA
66 ATTGATATCATAAT-A-ATTTGCACTGCTTTATGAA
81330317 GCATTTGCAT
1 GCATTTGCAT
81330327 TATCTTGGAT
Statistics
Matches: 102, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
97 39 0.38
98 35 0.34
100 28 0.27
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (99 bp):
GCATTTGCATCATTCAAGAACATATGCATGTGGTTATTTTAGTCACGAAACAATAATCATATTTT
ATTGATATCATAATAATTTGCACTGCTTTATGAA
Found at i:81330819 original size:90 final size:90
Alignment explanation
Indices: 81330536--81330827 Score: 260
Period size: 90 Copynumber: 3.2 Consensus size: 90
81330526 AGAGATTCTT
* * * * * * *
81330536 GTTTCACCCAGGTTTAATTTTCAA-A-TTCTGGTTTTGACCAGGTCCATTTCTGAAATCCTGGTT
1 GTTTCACCCAGGTTT--GTTCCAAGAGTTCTAGTTTTGCCCAAGTCCATTTCTGAAGTTCTGGTT
81330599 TCGCCTAGTAAGTCCTTTCAAATTTTG
64 TCGCCTAGTAAGTCCTTTCAAATTTTG
* * * * * *
81330626 GTTCCACCCAAGTTTGTT-CAGAGATTTATAGTTTCGCCCAAGTCCATTAT-TGAAGTTATGGTT
1 GTTTCACCCAGGTTTGTTCCA-AGAGTTCTAGTTTTGCCCAAGTCCATT-TCTGAAGTTCTGGTT
**
81330689 TCATCTAGTAAGTCCTTTCAAATTCTT-
64 TCGCCTAGTAAGTCCTTTCAAATT-TTG
* *
81330716 G-TTCGGCCCAGGTTTGTTCCAA-ACGTTCTAGTTTTGCCCAAGTCCATTGTCT-AAGTTCTAGT
1 GTTTC-ACCCAGGTTTGTTCCAAGA-GTTCTAGTTTTGCCCAAGTCCATT-TCTGAAGTTCTGGT
* *
81330778 TTTGCCCAGTAAGTCCTTTCAAATTTTG
63 TTCGCCTAGTAAGTCCTTTCAAATTTTG
*
81330806 GTTTCACCTAGGTTCT-TTCCAA
1 GTTTCACCCAGGTT-TGTTCCAA
81330828 TATTTCTGGT
Statistics
Matches: 162, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
87 2 0.01
88 3 0.02
89 6 0.04
90 141 0.87
91 10 0.06
ACGTcount: A:0.21, C:0.22, G:0.17, T:0.40
Consensus pattern (90 bp):
GTTTCACCCAGGTTTGTTCCAAGAGTTCTAGTTTTGCCCAAGTCCATTTCTGAAGTTCTGGTTTC
GCCTAGTAAGTCCTTTCAAATTTTG
Found at i:81330838 original size:30 final size:29
Alignment explanation
Indices: 81330793--81330878 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
81330783 CCAGTAAGTC
81330793 CTTT-CAAATTT-TGGTTTCACCTAGGTT
1 CTTTCCAAATTTCTGGTTTCACCTAGGTT
*
81330820 CTTTCCAATATTTCTGG-TTCTGCCTAGGTT
1 CTTTCCAA-ATTTCTGGTTTC-ACCTAGGTT
** * *
81330850 AATTCTAGAATTTCTGGTTTCATCTAGGT
1 CTTTCCA-AATTTCTGGTTTCACCTAGGT
81330879 CCACTGTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 4 0.09
28 3 0.06
29 7 0.15
30 29 0.62
31 4 0.09
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.47
Consensus pattern (29 bp):
CTTTCCAAATTTCTGGTTTCACCTAGGTT
Found at i:81330973 original size:30 final size:30
Alignment explanation
Indices: 81330937--81331025 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 30
81330927 TTTTACTCAC
* *
81330937 TCTATTGTCGAAGTTCTAGTTTCACCCAGG
1 TCTATTGTCGAAGTTATGGTTTCACCCAGG
**
81330967 TCTATTGTCGAAGTTATGGTTTTGCCCAGG
1 TCTATTGTCGAAGTTATGGTTTCACCCAGG
* * *
81330997 TCCATTGTTGAAGTTTTGGTTTCACCCAG
1 TCTATTGTCGAAGTTATGGTTTCACCCAG
81331026 TAAGTCCTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.39
Consensus pattern (30 bp):
TCTATTGTCGAAGTTATGGTTTCACCCAGG
Found at i:81331512 original size:153 final size:155
Alignment explanation
Indices: 81331308--81331601 Score: 364
Period size: 152 Copynumber: 1.9 Consensus size: 155
81331298 ATTTCCAAAA
* * ***
81331308 ATGGGTTGAGCCTCGAGTTTTCATCAGGGTCCTTTTAGTTTTCTTTCATTTTATTAAAAGTTGGA
1 ATGGGTTGAGCCTCGAGTTTTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATT-AAAGTCAAA
* * * * *
81331373 TCCATTTTCGAAAATGGATCGAGCCTTGAGATTGTCATCGAGGTCATTTT-AG-TTTTCA-TTTT
65 TCCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAGTTTTTCATTTTT
81331435 ATCAAAAGTCACACTTGTTTTCTAAT
130 ATCAAAAGTCACACTTGTTTTCTAAT
* *
81331461 ATGGGTTGAGCCTCGGGATTGTT-ATTAAGGTCCTTTCAGTTTT-TTTCATTTTATTAAAGTCAA
1 ATGGGTTGAGCCTCGAG-TT-TTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATTAAAGTCAA
* * * *
81331524 ATTCATTTTCGAAAACGGGTTGAACCTCGAAATTGTCATCAAGGTCCTTTTAAGTTTTTTCATTT
64 ATCCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAG-TTTTTCATTT
*
81331589 TTATTAAAAGTCA
128 TTATCAAAAGTCA
81331602 AATCCATTTT
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
152 47 0.40
153 30 0.25
154 19 0.16
155 8 0.07
156 14 0.12
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (155 bp):
ATGGGTTGAGCCTCGAGTTTTCATCAAGGTCCTTTCAGTTTTCTTTCATTTTATTAAAGTCAAAT
CCATTTTCGAAAACGGATCGAACCTCGAAATTGTCATCAAGGTCATTTTAAGTTTTTCATTTTTA
TCAAAAGTCACACTTGTTTTCTAAT
Found at i:81331552 original size:77 final size:79
Alignment explanation
Indices: 81331287--81331639 Score: 305
Period size: 79 Copynumber: 4.6 Consensus size: 79
81331277 TCATTTTATC
* * * * * * *
81331287 AAGTGAAATCTATTTCCAAAAATGGGTTGAGCCTCGAG-TTTTCATCAGGGTCCTTTT-AGTTTT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAG-TTT
81331350 CTTTCA-TTTTATTAA
65 -TTTCATTTTTATTAA
*** * * * * * *
81331365 AAGTTGGATCCATTTTCGAAAATGGATCGAGCCTTGAGATTGTCATCGAGGTCATTTT-AG--TT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
*
81331427 TTCA-TTTTATCAA
66 TTCATTTTTATTAA
* ** * * * * * * *
81331440 AAGTCACA-CTTGTTTTCTAATATGGGTTGAGCCTCGGGATTGTTATTAAGGTCC-TTTCAGTTT
1 AAGTCAAATC-CATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAG-TT
81331503 TTTTCA-TTTTATT-A
64 TTTTCATTTTTATTAA
* * *
81331517 AAGTCAAATTCATTTTCGAAAACGGGTTGAACCTCGAAATTGTCATCAAGGTCCTTTTAAGTTTT
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
81331582 TTCATTTTTATTAA
66 TTCATTTTTATTAA
* *
81331596 AAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGATTGTC
1 AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTC
81331640 GTCGAGTTTC
Statistics
Matches: 217, Mismatches: 48, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
74 4 0.02
75 52 0.24
76 1 0.00
77 50 0.23
78 53 0.24
79 57 0.26
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (79 bp):
AAGTCAAATCCATTTTCGAAAACGGGTTGAGCCTCGAGATTGTCATCAAGGTCCTTTTAAGTTTT
TTCATTTTTATTAA
Found at i:81331658 original size:78 final size:77
Alignment explanation
Indices: 81331266--81332007 Score: 436
Period size: 75 Copynumber: 9.8 Consensus size: 77
81331256 TTCATGGAGG
* * * * *
81331266 CTTTTAG-TTTTTCATTTTA-T-CAAGTGAAATCTATTTCCAAAAATGGGTTGAGCCTCGAG-TT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
* *
81331327 TTCATCAGGGTC
66 GTCATCAAGGTC
*** * * *
81331339 CTTTTAGTTTTCTTTCATTTTATTAAAAGTTGGATCCATTTTCGAAAATGGATCGAGCCTTGAGA
1 CTTTTAG-TTT-TTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGA
*
81331404 TTGTCATCGAGGTC
64 TTGTCATCAAGGTC
* * * ** * * *
81331418 ATTTTAG--TTTTCATTTTATCAAAAGTCACA-CTTGTTTTCTAATATGGGTTGAGCCTCGGGAT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATC-CATTTTCGAAAATGGGTTGAGCCTCGAGAT
* *
81331480 TGTTATTAAGGTC
65 TGTCATCAAGGTC
* * * * *
81331493 CTTTCAGTTTTTTTCATTTTATT-AAAGTCAAATTCATTTTCGAAAACGGGTTGAACCTCGAAAT
1 CTTTTAG-TTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGAT
81331557 TGTCATCAAGGTC
65 TGTCATCAAGGTC
*
81331570 CTTTTAAGTTTTTTCATTTTTATTAAAAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGA
1 CTTTT-AGTTTTTTCA-TTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGA
* * * *
81331635 TTGTCGTCGAGTTT
64 TTGTCATCAAGGTC
* * * * * * * * *
81331649 CTTTTAG---TTTAATTTTGTCAAAATTTGAACAT--GTTTTCAAAAAATGGGTTGAACCTCGGG
1 CTTTTAGTTTTTTCATTTTATTAAAA-GTCAA-ATCCATTTTC-GAAAATGGGTTGAGCCTCGAG
* **
81331709 GTTG-CTATTGAGGTC
63 ATTGTC-ATCAAGGTC
* * * *
81331724 CTTTTAGTTTTTTTTTCATTTTATTAAAAGTCGAATTCATTTTCGAAAATGGGTCGAACCTCGAG
1 CTTTTAG---TTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAG
* * * *
81331789 ATTTTCGTCGAGATC
63 ATTGTCATCAAGGTC
* * * * * * **
81331804 CTTTTAG--TTTTAAATTTATCAAAAGTCGAATCTATTTTCAAAAATGGGTTGAG-CTTTAGGAT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGA-GAT
* * *
81331866 TGCCGTCGAGGTC
65 TGTCATCAAGGTC
* * * *** * ** *
81331879 CTTTCA-ATTTTTCATTTTGTTAAAAGTCAAATTTGTTTTC-AGAATGGGTCAAGCCTTGAGATT
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
* *
81331942 ATCAT-TA--T-
66 GTCATCAAGGTC
* * * * *
81331950 -TTTTAG-TTTTTCATTTTATCAAAAATCAAATCTATTTTCAAGAAATAGGTTGAGCCTC
1 CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGA-AAATGGGTTGAGCCTC
81332008 AATATTAACA
Statistics
Matches: 511, Mismatches: 124, Indels: 69
0.73 0.18 0.10
Matches are distributed among these distances:
70 32 0.06
71 1 0.00
72 12 0.02
73 7 0.01
74 20 0.04
75 168 0.33
76 42 0.08
77 54 0.11
78 52 0.10
79 69 0.14
80 35 0.07
81 19 0.04
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (77 bp):
CTTTTAGTTTTTTCATTTTATTAAAAGTCAAATCCATTTTCGAAAATGGGTTGAGCCTCGAGATT
GTCATCAAGGTC
Found at i:81331877 original size:155 final size:156
Alignment explanation
Indices: 81331535--81331882 Score: 386
Period size: 155 Copynumber: 2.2 Consensus size: 156
81331525 TTCATTTTCG
* * * *
81331535 AAAACGGGTTGAACCTC-GAAATTGTCATCAAGGTCCTTTTAAG---TTTTTTCATTTTTATTAA
1 AAAATGGGTTGAACCTCAG-GATTGCCATCGAGGTCCTTTT-AGTTTTTTTTTCATTTTTATTAA
* * * *
81331596 AAGTCAAATCCATTTTCGAAAATGGATTGAGCCTCGAGATTGTCGTCGAGTTTCTTTTAGTTTAA
64 AAGTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAGTTTAA
* * * * *
81331661 TTTTGTCAAAATTTGAACATGTTTTCAA
129 ATTTATCAAAAGTCGAACATATTTTCAA
* * * *
81331689 AAAATGGGTTGAACCTCGGGGTTGCTATTGAGGTCCTTTTAGTTTTTTTTTCA-TTTTATTAAAA
1 AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTTTAGTTTTTTTTTCATTTTTATTAAAA
* * * *
81331753 GTCGAATTCATTTTCGAAAATGGGTCGAACCTCGAGATTTTCGTCGAGATCCTTTTAGTTTTAAA
66 GTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAG-TTTAAA
81331818 TTTATCAAAAGTCGAATC-TATTTTC-A
130 TTTATCAAAAGTCGAA-CATATTTTCAA
* * * *
81331844 AAAATGGGTTGAGCTTTAGGATTGCCGTCGAGGTCCTTT
1 AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTT
81331883 CAATTTTTCA
Statistics
Matches: 160, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
153 2 0.01
154 31 0.19
155 94 0.59
156 32 0.20
157 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (156 bp):
AAAATGGGTTGAACCTCAGGATTGCCATCGAGGTCCTTTTAGTTTTTTTTTCATTTTTATTAAAA
GTCAAATCCATTTTCGAAAATGGATCGAACCTCGAGATTGTCGTCGAGATCCTTTTAGTTTAAAT
TTATCAAAAGTCGAACATATTTTCAA
Found at i:81333312 original size:21 final size:21
Alignment explanation
Indices: 81333271--81333312 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
81333261 TAATGTTAAA
* * *
81333271 ATATATATAATATATACATAT
1 ATATATATAAAAAATAAATAT
81333292 ATATATATAAAAAATAAATAT
1 ATATATATAAAAAATAAATAT
81333313 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATATATAAAAAATAAATAT
Found at i:81333610 original size:3 final size:3
Alignment explanation
Indices: 81333602--81334112 Score: 123
Period size: 3 Copynumber: 167.7 Consensus size: 3
81333592 AAGTACCTAT
81333602 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
81333650 TAA TAA TAA TCAA -AA TACA AAA GAA -AG T-A TGACG TAA TAA TGAGG
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA T-A-A TAA TAA T-A-A
* *
81333695 TAA GGAA -AA TAA -AA T-A TAA T-A TAT TAGA T-A TACA -AA T-A TAA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA
* ** *
81333736 TAG TAA -ATA TAA TAA TGT TAA -AA -AA TACCA TACG TAA -AGA GT-A
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA--A TA-A TAA TA-A -TAA
* * *
81333779 TATA TAA -ACA TATA TAA TAA AAA T-A TACA CTAA TAT TTA TAAA TAA
1 TA-A TAA TA-A TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA T-AA TAA
* *
81333825 TAA TAG TAA T-G TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
81333872 TAT TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA
* *
81333919 GTAA CAA TAA TAA TAA TAA -CA TAGA -AA TTCAA -AA -AA GTAA -ACA
1 -TAA TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA TAA TAA -TAA TA-A
* * * *
81333962 TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA CTAA TAT TTA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA T-AA
* * *
81334006 TAA TAA TAG TAA -ATA TAA TAA TAA TAA TGA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
81334051 GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA
1 -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA
*
81334096 CAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
81334113 TAGAAATTCA
Statistics
Matches: 372, Mismatches: 70, Indels: 132
0.65 0.12 0.23
Matches are distributed among these distances:
2 48 0.13
3 258 0.69
4 55 0.15
5 11 0.03
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:81334170 original size:16 final size:16
Alignment explanation
Indices: 81334137--81334169 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
81334127 AACTAAACAT
*
81334137 AATATAATAATATTAA
1 AATAAAATAATATTAA
81334153 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
81334168 AA
1 AA
81334170 AATACTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:81334737 original size:20 final size:20
Alignment explanation
Indices: 81334712--81334762 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
81334702 ATTTGGTGAA
81334712 GAGAGAAAGAAAAAAAAAGG
1 GAGAGAAAGAAAAAAAAAGG
* * * *
81334732 GAGAGAAGGAAGAGAGAAGG
1 GAGAGAAAGAAAAAAAAAGG
81334752 GAGAGAGAAGA
1 GAGAGA-AAGA
81334763 GGACTTCCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (20 bp):
GAGAGAAAGAAAAAAAAAGG
Found at i:81334748 original size:11 final size:11
Alignment explanation
Indices: 81334732--81334761 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
81334722 AAAAAAAAGG
81334732 GAGAGAAGGAA
1 GAGAGAAGGAA
*
81334743 GAGAGAAGGGA
1 GAGAGAAGGAA
81334754 GAGAGAAG
1 GAGAGAAG
81334762 AGGACTTCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAGAGAAGGAA
Found at i:81335857 original size:26 final size:26
Alignment explanation
Indices: 81335828--81335879 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
81335818 ACAAATTGAG
81335828 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
81335854 AATGGGTTAGGTAAATGTTCCATGAT
1 AATGGGTTAGGTAAATGTTCCATGAT
81335880 TGGAATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (26 bp):
AATGGGTTAGGTAAATGTTCCATGAT
Found at i:81337419 original size:26 final size:25
Alignment explanation
Indices: 81337367--81337419 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
81337357 TTTACAGTTT
81337367 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
81337393 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
81337419 T
1 T
81337420 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:81339060 original size:14 final size:15
Alignment explanation
Indices: 81339036--81339064 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
81339026 CTTTTTTTTT
81339036 GAAAGGCAGAAATTG
1 GAAAGGCAGAAATTG
81339051 GAAA-GCAGAAATTG
1 GAAAGGCAGAAATTG
81339065 AAAATACCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.31, T:0.14
Consensus pattern (15 bp):
GAAAGGCAGAAATTG
Found at i:81339681 original size:77 final size:72
Alignment explanation
Indices: 81339358--81343248 Score: 2625
Period size: 72 Copynumber: 51.1 Consensus size: 72
81339348 ATAAATTAAG
* ** * ** ** *
81339358 AAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81339423 TTTTTTTTGA
66 ---TTTTTGA
* * **
81339433 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81339497 TTGATTTTTGA
62 TTGATTTTTGA
* * * * *
81339508 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTGCTCACAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81339573 ATTTTGA
66 TTTTTGA
* * ** *
81339580 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAGCTCTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81339645 TTTTTTTTTGAA
66 ----TTTTTG-A
* *
81339657 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81339722 ATTTTGA
66 TTTTTGA
* *
81339729 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81339794 ATTTTG-
66 TTTTTGA
* * ** * * ** * * * ** *
81339800 AAACATAAATTAAGAAACAAAAAT-TGTCAATACCTCAGCGTGCCCGAGGCTCAACTCACCTCCC
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-GCTC-A-----A-CTCATTTCTC
* *
81339864 GCATTATGAGTTAATTTTTTTTTGA
52 GCAATATGAGTTGA----TTTTTGA
* * * **
81339889 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTTACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81339953 TTGATTTTTGA
62 TTGATTTTTGA
* ** * * * *
81339964 AAACATAAATTGAAAATACCTCAATGTGTCTTAAGGTTCAACTCATTACTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81340029 TTTTTTTTTGAA
66 ----TTTTTG-A
* * ** *
81340041 AAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81340106 TTTTTTTTTTGAA
66 -----TTTTTG-A
* *
81340119 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81340184 ATTTTGA
66 TTTTTGA
* * *
81340191 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81340256 ATTTT--
66 TTTTTGA
* * ** * * ** * * * * * *
81340261 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCT
* *
81340325 CGCATTATGAGTTAATTTTTTTTTGA
51 CGCAATATGAGTTGA----TTTTTGA
* * **
81340351 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81340415 TTGATTTTTGA
62 TTGATTTTTGA
* * * * *
81340426 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81340491 TTTTTTTTTGAA
66 ----TTTTTG-A
* * ** *
81340503 AAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81340568 TTTTTTTTTGAA
66 ----TTTTTG-A
* *
81340580 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81340645 ATTTTGA
66 TTTTTGA
* *
81340652 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81340717 ATTTTG-
66 TTTTTGA
* * ** * * ** * * * * **
81340723 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T-TTCT-C
* *
81340787 TGCATTATGAGTTAATTTTGTTTTTTGA
52 -GCAATATGAG------TTGATTTTTGA
* * * **
81340815 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81340879 TTGATTTTTGA
62 TTGATTTTTGA
* * * * *
81340890 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81340955 TTTTTTTCTGAA
66 ---TTTT-TG-A
* * *
81340967 AAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81341032 ATTTTGA
66 TTTTTGA
* * *
81341039 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
**
81341104 ACTTTG-
66 TTTTTGA
* * ** * * ** * * * * * *
81341110 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCT
* *
81341174 CGCATTATGAGTTAATTTTGTTTTTGA
51 CGCAATATGAGTTGA-----TTTTTGA
* * * **
81341201 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81341265 TTGATTTTTGA
62 TTGATTTTTGA
* * *
81341276 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTACTCGCAATATGAGTCAA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG----
**
81341341 TTTTTTTTTGAA
62 TTGATTTTTG-A
* *
81341353 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81341418 ATTTTGA
66 TTTTTGA
* * * *
81341425 AAACAGAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCATTTCTCACAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81341490 ATTTTG-
66 TTTTTGA
* * ** * *** * * * * * *
81341496 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCC
1 AAACAGAAATT--GAAA-ATACCTCAGCGTGT-CTTGAG-G----CTCA-ACTC-A-T---TTCT
* *
81341560 CGCATTATGAGTTAATTTTTTTTTGA
51 CGCAATATGAGTTGA----TTTTTGA
* * * **
81341586 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81341650 TTGA-TTTTGA
62 TTGATTTTTGA
* * * * *
81341660 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTTATTACTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81341725 TTTTTGA
66 TTTTTGA
* * ** *
81341732 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81341797 TTTTTTTCTGAA
66 ---TTTT-TG-A
* *
81341809 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81341874 ATTTTGA
66 TTTTTGA
* *
81341881 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81341946 ATTTTGA
66 TTTTTGA
* * * * ** * *
81341953 AAATAGAAA-TAAAAATTACCTCAACGTGTCTTGGGGCTCAACTCACCTCCCGCATTATGAGTTA
1 AAACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG---
*
81342017 ATTTTGTTTTTTGA
62 ---TTGATTTTTGA
* * * *
81342031 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACTTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81342095 TTGATTTTTGA
62 TTGATTTTTGA
* * * *
81342106 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTCAA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG----
**
81342171 TTTTTTTTTGAA
62 TTGATTTTTG-A
* *
81342183 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342248 ATTTTGA
66 TTTTTGA
* **
81342255 AAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342320 ATTTTG-
66 TTTTTGA
* * ** * * ** * * * * * *
81342326 AAACATAAATTAAGAAACAAAAATTGC-CCATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC
1 AAACAGAAATT--G-AA-AATACCT-CAGCGTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCT
* *
81342390 CGCATTATGAGTTAATTTTGTTTTTTGA
51 CGCAATATGAG------TTGATTTTTGA
* * **
81342418 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81342482 TTGATTTTTGA
62 TTGATTTTTGA
* * * *
81342493 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342558 ATTTTGA
66 TTTTTGA
* * * *
81342565 AAATAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTGCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342630 ATTTTGA
66 TTTTTGA
* *
81342637 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342702 ATTTTG-
66 TTTTTGA
* * ** * * ** * * * * * *
81342708 AAACATAAATTAAGAAACAAAAAT-TGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCC
1 AAACAGAAATT--GAAA-ATACCTCAG-C-GTGTCT-TGAG-G-CTC-A-ACTC-A-T---TTCT
* *
81342772 CGCATTATGAGTTAATTTTTTTTTGA
51 CGCAATATGAGTTGA----TTTTTGA
* * **
81342798 AAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAATATGAG
1 AA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAG
81342862 TTGATTTTTGA
62 TTGATTTTTGA
* * * *
81342873 AAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81342938 ATTTTGA
66 TTTTTGA
* * ** * *
81342945 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
81343010 TTTTTTTTTTGAA
66 -----TTTTTG-A
* * *
81343023 AAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATCTGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81343088 ATTTTGA
66 TTTTTGA
* *
81343095 AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
*
81343160 ATTTTGA
66 TTTTTGA
* * * * *
81343167 AAATAGAAA-TAAAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTG
1 AAACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
81343231 AATTTTGA
65 ATTTTTGA
*
81343239 AAATAGAAAT
1 AAACAGAAAT
81343249 AAAAATATCA
Statistics
Matches: 3025, Mismatches: 546, Indels: 492
0.74 0.13 0.12
Matches are distributed among these distances:
70 11 0.00
71 107 0.04
72 1230 0.41
73 84 0.03
74 195 0.06
75 112 0.04
76 68 0.02
77 488 0.16
78 187 0.06
79 94 0.03
80 37 0.01
81 56 0.02
82 7 0.00
83 8 0.00
84 45 0.01
85 76 0.03
86 14 0.00
87 12 0.00
88 36 0.01
89 45 0.01
90 37 0.01
91 49 0.02
92 13 0.00
93 14 0.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
TTTTTGA
Found at i:81339698 original size:149 final size:148
Alignment explanation
Indices: 81339056--81343248 Score: 3374
Period size: 149 Copynumber: 27.5 Consensus size: 148
81339046 AATTGGAAAG
* * * * * *
81339056 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
** *
81339121 TTGAAAAACAGAAATTGAAATTACCTCAGCGCATCCTGAGGCTCAACTCACCTCTCGC-A-ATGA
65 TTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
81339184 GTTGA--TTTTTTTGAAAGA
129 GTTGATTTTTTTTTGAAAAA
* * * *
81339202 CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAATTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA--A
* * **
81339267 TTTTGAAAACAGAAATTGAAATTACCTCAACGCGTCTTGAGGCTCAACTCATTTCTCGCAATATG
63 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
**
81339332 AGTTGAATTTTGAAACATAAATT-AAGAAA
128 AGTTG-ATTTT------T-TTTTGAA-AAA
* ** * ** * *
81339361 CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA---
* * * *
81339426 TTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCA
62 ATTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCA
81339490 ATATGAGTTGA----TTTTTG-AAAA
123 ATATGAGTTGATTTTTTTTTGAAAAA
* * * *
81339511 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTGCTCACAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAATT
* *
81339576 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAGCTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
81339641 TCGATTTTTTTTTGAAAAA
130 TTGATTTTTTTTTGAAAAA
* *
81339660 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* **
81339725 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
81339790 TTGAATTTTGAAACATAAATT-AAGAAA
130 TTG-ATTTT------T-TTTTGAA-AAA
* ** ** * * *
81339817 CAAAAATTGTCAATACCTCAGCGTG-CCCGAGGCTCAACTCACCTCCCGCATTATGAGTT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA--
* * * *
81339880 TTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTTACCTCTCG
63 ---TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCG
81339944 CAATATGAGTTGA----TTTTTG-AAAA
121 CAATATGAGTTGATTTTTTTTTGAAAAA
* ** * * *
81339967 CATAAATTGAAAATACCTCAATGTGTCTTAAGGTTCAACTCATTACTCGCAATATGAGTCGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGA---
* * * *
81340032 TTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAAT
62 -ATTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
81340097 ATGAGTCGATTTTTTTTTTGAAAAA
125 ATGAGTTGA-TTTTTTTTTGAAAAA
* *
81340122 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* * **
81340187 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGTTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
81340252 TTGAATTTTAAACATAAATT-AAGAAA
130 TTG-ATTTT-----T-TTTTGAA-AAA
* ** * ** * * *
81340278 CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCATTATGAGTT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA--
* * *
81340342 TTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCG
63 ---TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCG
81340406 CAATATGAGTTGA----TTTTTG-AAAA
121 CAATATGAGTTGATTTTTTTTTGAAAAA
* * * *
81340429 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTCGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGA---
* * * *
81340494 TTTTTTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAAT
62 -ATTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
*
81340559 ATGAGTCGATTTTTTTTTGAAAAA
125 ATGAGTTGATTTTTTTTTGAAAAA
* *
81340583 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* **
81340648 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
81340713 TTGAATTTTGAAACATAAATT-AAGAAA
130 TTG-ATTTT------T-TTTTGAA-AAA
* ** * ** * *
81340740 CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCA-CCTCCTGCATTATGAGTT-AAT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTCT-C-GCAATATGAGTTGAA-
* * * *
81340803 TTTGTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTC
63 ------TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTC
81340867 TCGCAATATGAGTTGA----TTTTTG-AAAA
118 TCGCAATATGAGTTGATTTTTTTTTGAAAAA
* * * *
81340893 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTCGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGA---
* * * * **
81340958 TTTTCTGAAAAATAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAAT
62 ATTT-TG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAAT
* *
81341023 CTGAGTTGA----ATTTTG-AAAA
125 ATGAGTTGATTTTTTTTTGAAAAA
* * * *
81341042 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTGAACT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* * **
81341107 TTG-AAACATAAATTAAGAAACAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACC
65 TTGAAAACAGAAATT--G------AAA-T-----TACCTCAGCGTGTCTTGAGGCTCAACTCACC
* * * *
81341171 TCCCGCATTATGAGTTAATTTTGTTTTTGAAAGA
116 TCTCGCAATATGAGTTGATTTT-TTTTTGAAAAA
* * * *
81341205 TAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA
* * * * *
81341269 TTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA-TTACTCGCAATA
62 ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCT-CTCGCAATA
**
81341333 TGAGTCAATTTTTTTTTGAAAAA
126 TGAGTTGATTTTTTTTTGAAAAA
* *
81341356 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* * ** *
81341421 TTGAAAACAGAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCATTTCTCACAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
81341486 TTGAATTTTGAAACATAAATT-AAGAAA
130 TTG-ATTTT------T-TTTTGAA-AAA
* ** ** * * * *
81341513 CAAAAATTGCCAATACCTCAGCGTACCCTGAGGCTCAACTCACCTCCCGCATTATGAGTT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA--
* * * *
81341577 TTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCG
63 ---TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCG
81341641 CAATATGAGTTGA-----TTTTG-AAAA
121 CAATATGAGTTGATTTTTTTTTGAAAAA
* * * * *
81341663 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTTATTACTCGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAATT
*
81341728 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
* *
81341793 TCGATTTTTTTCTGAAAAA
130 TTGATTTTTTTTTGAAAAA
* *
81341812 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* **
81341877 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
81341942 TTGA----ATTTTG-AAAA
130 TTGATTTTTTTTTGAAAAA
* * * * * * *
81341956 TAGAAA-TAAAAATTACCTCAACGTGTCTTGGGGCTCAACTCACCTCCCGCATTATGAGTT-AAT
1 CAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA-
* * * * *
81342019 TTTGTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACTTC
63 ------TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTC
81342083 TCGCAATATGAGTTGA----TTTTTG-AAAA
118 TCGCAATATGAGTTGATTTTTTTTTGAAAAA
* * * *
81342109 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAG-TCAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAA--
* * **
81342173 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAA
63 ---TTTTG-AAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAA
* *
81342238 TCTGAGTTGA----ATTTTG-AAAA
124 TATGAGTTGATTTTTTTTTGAAAAA
* **
81342258 CAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* * **
81342323 TTG-AAACATAAATTAAGAAACAAAAATTGCCCATACCTCAGCGTGCCCCGAGGCTCAACTCACC
65 TTGAAAACAGAAATT--G------AAA-T-----TACCTCAGCGTGTCTTGAGGCTCAACTCACC
* * * *
81342387 TCCCGCATTATGAGTTAATTTTGTTTTTTGAAAGA
116 TCTCGCAATATGAGTTGA-TTT-TTTTTTGAAAAA
* * *
81342422 TAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGA
* * * * * *
81342486 TTTTTGAAAACATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCA-TTACTCGCAATA
62 ATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCT-CTCGCAATA
*
81342550 TGAGTTGA----ATTTTG-AAAA
126 TGAGTTGATTTTTTTTTGAAAAA
* * *
81342568 TAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTGCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAATT
* **
81342633 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
**
81342698 TTGAATTTTGAAACATAAATT-AAGAAA
130 TTG-ATTTT------T-TTTTGAA-AAA
* ** * ** * * *
81342725 CAAAAATTGCCAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCCCGCATTATGAGTT-AATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAA--
* * *
81342789 TTTTTTTGAAAGATAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCG
63 ---TTTTGAAA-ACAGAAATTGAAATTACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCG
81342853 CAATATGAGTTGA----TTTTTG-AAAA
121 CAATATGAGTTGATTTTTTTTTGAAAAA
* * *
81342876 CATAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCATTACTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATT-CTCGCAATATGAGTTGAATT
* *
81342941 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
81343006 TCGATTTTTTTTTTGAAAAA
130 TTGA-TTTTTTTTTGAAAAA
* *
81343026 CAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACTTCTCGCAATCTGAGTTGAATT
1 CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAATT
* **
81343091 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
65 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
*
81343156 TTGA----ATTTTG-AAAA
130 TTGATTTTTTTTTGAAAAA
* * * * *
81343170 TAGAAA-TAAAAATTACCTCAACATGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGAAT
1 CAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGAAT
*
81343234 TTTGAAAATAGAAAT
64 TTTGAAAACAGAAAT
81343249 AAAAATATCA
Statistics
Matches: 3312, Mismatches: 466, Indels: 540
0.77 0.11 0.13
Matches are distributed among these distances:
142 1 0.00
143 70 0.02
144 285 0.09
145 42 0.01
146 129 0.04
147 70 0.02
148 22 0.01
149 670 0.20
150 357 0.11
151 311 0.09
152 72 0.02
153 181 0.05
154 74 0.02
155 69 0.02
156 101 0.03
157 256 0.08
158 7 0.00
159 59 0.02
160 27 0.01
161 76 0.02
162 48 0.01
163 136 0.04
164 111 0.03
165 40 0.01
166 85 0.03
167 13 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.31
Consensus pattern (148 bp):
CAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTCTCGCAATATGAGTTGAATTT
TGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTTTGAAAAA
Found at i:81355267 original size:17 final size:19
Alignment explanation
Indices: 81355226--81355267 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
81355216 CTAGTAATGT
81355226 TAAA-ATATATATAATATA
1 TAAATATATATATAATATA
*
81355244 TACATATATATATAA-A-A
1 TAAATATATATATAATATA
81355261 TAAATAT
1 TAAATAT
81355268 TGAAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 7 0.33
18 4 0.19
19 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAATATATATATAATATA
Found at i:81355577 original size:3 final size:3
Alignment explanation
Indices: 81355553--81355851 Score: 124
Period size: 3 Copynumber: 97.7 Consensus size: 3
81355543 AAGTACCTAT
* * * *
81355553 TAA TAA TAT TATA TAA -ATA TAA TAA TAA TAT TTA TAAA TAA TAA TAG
1 TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* * *
81355600 TAA T-G TAA TAA TAA TAA TAT TAA GT-A TAA T-A TAAA TAA TATG TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA T-AA TAA TA-A TA-A
* * *
81355646 TAA CAT TAA TAA TAA TAA GTAA CAA TAA TAA TAA T-A TAGA -AA TTCAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA
* *
81355693 -AA -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
81355734 CTAA TAT TTA TAAA TAA TAA TAA TAA TAA TAA TAA TAA CAT TAA GT-A
1 -TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* * * *
81355781 TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA TAA TAA
1 TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA TAA TAA
81355829 TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
81355852 TAGAAATTCA
Statistics
Matches: 221, Mismatches: 42, Indels: 66
0.67 0.13 0.20
Matches are distributed among these distances:
2 23 0.10
3 161 0.73
4 33 0.15
5 4 0.02
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:81355808 original size:23 final size:22
Alignment explanation
Indices: 81355788--81355846 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
81355778 GTATAGTATA
*
81355788 AATAATATGTACATAACAGTAAT
1 AATAATAAGTA-ATAACAGTAAT
* *
81355811 AATAATAAGTAATAATAATAAT
1 AATAATAAGTAATAACAGTAAT
81355833 AATAATAA-TAATAA
1 AATAATAAGTAATAA
81355847 TAATATAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 6 0.18
22 17 0.52
23 10 0.30
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (22 bp):
AATAATAAGTAATAACAGTAAT
Found at i:81355909 original size:16 final size:16
Alignment explanation
Indices: 81355876--81355908 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
81355866 AACTAAACAT
*
81355876 AATATAATAATATTAA
1 AATAAAATAATATTAA
81355892 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
81355907 AA
1 AA
81355909 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:81360693 original size:25 final size:25
Alignment explanation
Indices: 81360665--81360779 Score: 124
Period size: 25 Copynumber: 4.6 Consensus size: 25
81360655 CTAATACTTG
*
81360665 GCTCTCATGAGTTTCTCGATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* * *
81360690 GCTCTCTTGAGCTTCCCAATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* * *
81360715 GCTCTCTTGAGCTTCTCGATAAATG
1 GCTCTCATGAGCTTCTCGATTAATA
* *
81360740 GCTCGCATGAGCTTCTCGA-TATACA
1 GCTCTCATGAGCTTCTCGATTA-ATA
*
81360765 GCTCACATGAGCTTC
1 GCTCTCATGAGCTTC
81360780 CCGTTATATG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
24 1 0.01
25 74 0.99
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCTCGATTAATA
Found at i:81360768 original size:50 final size:50
Alignment explanation
Indices: 81360665--81360794 Score: 127
Period size: 50 Copynumber: 2.6 Consensus size: 50
81360655 CTAATACTTG
* * * * * *
81360665 GCTCTCATGAGTTTCTCGATTAATAGCTCTCTTGAGCTTCCCAATTAATA
1 GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTAACA
* * *
81360715 GCTCTCTTGAGCTTCTCGATAAATGGCTCGCATGAGCTTCTCGA-TATACA
1 GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTA-ACA
* * * *
81360765 GCTCACATGAGCTTCCCGTTATATGGCTCG
1 GCTCTCATGAGCTTCTCGATAAATGGCTCG
81360795 GAAGAGCTCC
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
49 2 0.03
50 63 0.97
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (50 bp):
GCTCTCATGAGCTTCTCGATAAATGGCTCGCATGAGCTTCCCAATTAACA
Found at i:81360793 original size:25 final size:25
Alignment explanation
Indices: 81360722--81360794 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
81360712 ATAGCTCTCT
* *
81360722 TGAGCTTCTCGATAAATGGCTCGCA
1 TGAGCTTCCCGATATATGGCTCGCA
* ** *
81360747 TGAGCTTCTCGATATACAGCTCACA
1 TGAGCTTCCCGATATATGGCTCGCA
*
81360772 TGAGCTTCCCGTTATATGGCTCG
1 TGAGCTTCCCGATATATGGCTCG
81360795 GAAGAGCTCC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (25 bp):
TGAGCTTCCCGATATATGGCTCGCA
Found at i:81361259 original size:47 final size:47
Alignment explanation
Indices: 81361208--81361301 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
81361198 GATGCCTAAG
81361208 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
81361255 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
81361302 TACTATTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.45
Consensus pattern (47 bp):
GGTATATTGGTTGTATGTGAATATACTACATGTTTAGGGATTGATTT
Found at i:81369693 original size:30 final size:30
Alignment explanation
Indices: 81369657--81369716 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
81369647 GCTTGAGAAT
81369657 ACTATCAGGGTATTTGATGAGTT-TCATGTA
1 ACTATCAGGGTA-TTGATGAGTTATCATGTA
81369687 ACTATCAGGGTATTGATGAGTTATCATGTA
1 ACTATCAGGGTATTGATGAGTTATCATGTA
81369717 CCCGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (30 bp):
ACTATCAGGGTATTGATGAGTTATCATGTA
Found at i:81376948 original size:18 final size:17
Alignment explanation
Indices: 81376925--81376959 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
81376915 TCGGTGATAA
81376925 AGTATTTCTGAAAGTATC
1 AGTATTTCTGAAA-TATC
81376943 AGTATTTCTGAAATATC
1 AGTATTTCTGAAATATC
81376960 TTCGTGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (17 bp):
AGTATTTCTGAAATATC
Found at i:81389797 original size:24 final size:25
Alignment explanation
Indices: 81389705--81389796 Score: 109
Period size: 24 Copynumber: 3.8 Consensus size: 25
81389695 CTAATACTTG
*
81389705 GCTCTCATGAGTTTCTCGATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* *
81389730 GCTCT-TTGAGCTTC-CCATTAATA
1 GCTCTCATGAGCTTCTCGATTAATA
* *
81389753 GCTCTCTTGAGCTTCTCGA-TAATG
1 GCTCTCATGAGCTTCTCGATTAATA
*
81389777 GCTCGCATGAGCTTCTCGAT
1 GCTCTCATGAGCTTCTCGAT
81389797 ATATCAGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
23 13 0.23
24 37 0.65
25 7 0.12
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (25 bp):
GCTCTCATGAGCTTCTCGATTAATA
Found at i:81390304 original size:44 final size:43
Alignment explanation
Indices: 81390230--81390316 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
81390220 AAGATGCTAG
81390230 GGTATATTGGTGTATGTGATTACTACATGTTTAGGGATTGATTT
1 GGTATATTGGTGTATGTGATTACTACATGTTT-GGGATTGATTT
81390274 GGTATATTGGTTGTATGTG-TTA-TACTATGTTTGGGATTGATTT
1 GGTATATTGG-TGTATGTGATTACTAC-ATGTTTGGGATTGATTT
81390317 TACTTATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
43 14 0.34
44 19 0.46
45 8 0.20
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (43 bp):
GGTATATTGGTGTATGTGATTACTACATGTTTGGGATTGATTT
Found at i:81393334 original size:31 final size:31
Alignment explanation
Indices: 81393296--81393354 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
81393286 CAAAAACTAA
81393296 GGAACAATATCAAATTTTACTTAAGTCCTAG
1 GGAACAATATCAAATTTTACTTAAGTCCTAG
81393327 GGAACAATATCAAATTTTACTTAAGTCC
1 GGAACAATATCAAATTTTACTTAAGTCC
81393355 GATATCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (31 bp):
GGAACAATATCAAATTTTACTTAAGTCCTAG
Found at i:81398372 original size:20 final size:22
Alignment explanation
Indices: 81398347--81398388 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
81398337 TGTATAGTGG
81398347 AAAATTTTCT-AAGTT-TTGGT
1 AAAATTTTCTAAAGTTCTTGGT
81398367 AAAATTTTCTAAAGTTCTTGGT
1 AAAATTTTCTAAAGTTCTTGGT
81398389 TTGGTTCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 5 0.25
22 5 0.25
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
AAAATTTTCTAAAGTTCTTGGT
Found at i:81399101 original size:31 final size:31
Alignment explanation
Indices: 81399063--81399124 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
81399053 GCTTGAGAAT
81399063 ACTATCAGGGTATTTGATGAGTTATCATGTA
1 ACTATCAGGGTATTTGATGAGTTATCATGTA
81399094 ACTATCAGGGTATTTGATGAGTTATCATGTA
1 ACTATCAGGGTATTTGATGAGTTATCATGTA
81399125 CACCCGAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (31 bp):
ACTATCAGGGTATTTGATGAGTTATCATGTA
Found at i:81406543 original size:18 final size:18
Alignment explanation
Indices: 81406520--81406555 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
81406510 TCGGTGATAA
*
81406520 AGTATTTCTGAAAGTATC
1 AGTATTTCTGAAAATATC
81406538 AGTATTTCTGAAAATATC
1 AGTATTTCTGAAAATATC
81406556 TTCGTGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (18 bp):
AGTATTTCTGAAAATATC
Found at i:81412175 original size:79 final size:81
Alignment explanation
Indices: 81412039--81412221 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
81412029 TCGAATGATG
* *
81412039 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
81412103 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
81412118 TTCCGGGCTAAG-CCCGAAGGCATTGGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
81412180 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
81412198 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
81412222 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:81412230 original size:40 final size:39
Alignment explanation
Indices: 81412040--81412223 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
81412030 CGAATGATGT
* * * *
81412040 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
81412080 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
81412120 CCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
81412158 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
81412199 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
81412224 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:81412245 original size:79 final size:79
Alignment explanation
Indices: 81412092--81412256 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
81412082 GGACTAAGAT
* ***
81412092 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
81412157 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
81412171 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
81412234 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
81412250 CCGAAGG
1 CCGAAGG
81412257 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:81420057 original size:29 final size:29
Alignment explanation
Indices: 81419992--81420109 Score: 134
Period size: 29 Copynumber: 4.1 Consensus size: 29
81419982 ACATACATAC
*
81419992 ATATGGCCCACTAGGCCC-AATC-TCA-TT
1 ATATGGCCCATTAGGCCCAAATCAT-ATTT
*
81420019 CTATGGCCCATTAGGCCCAAATCATATTT
1 ATATGGCCCATTAGGCCCAAATCATATTT
* * *
81420048 GTATGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCATATTT
* * *
81420077 ATATGGCCCATTAGACCCAAATCACATTC
1 ATATGGCCCATTAGGCCCAAATCATATTT
81420106 ATAT
1 ATAT
81420110 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.20
28 5 0.06
29 60 0.74
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCATATTT
Found at i:81420096 original size:58 final size:56
Alignment explanation
Indices: 81419993--81420100 Score: 171
Period size: 58 Copynumber: 1.9 Consensus size: 56
81419983 CATACATACA
* *
81419993 TATGGCCCACTAGGCCCAATCTCATTCTATGGCCCATTAGGCCCAAATCATATTTG
1 TATGGCCCACTAGGCCCAATCACATTCTATGGCCCATTAGACCCAAATCATATTTG
*
81420049 TATGGCCCATTAGGCCCAAATCACATTCATATGGCCCATTAGACCCAAATCA
1 TATGGCCCACTAGGCCC-AATCACATTC-TATGGCCCATTAGACCCAAATCA
81420101 CATTCATATA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 16 0.34
57 9 0.19
58 22 0.47
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.26
Consensus pattern (56 bp):
TATGGCCCACTAGGCCCAATCACATTCTATGGCCCATTAGACCCAAATCATATTTG
Found at i:81424491 original size:29 final size:29
Alignment explanation
Indices: 81424459--81424514 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
81424449 ATTCGTATGG
81424459 CCCAGCAGGCCCAAATAACATTCATATCA
1 CCCAGCAGGCCCAAATAACATTCATATCA
** **
81424488 CCCATTAGGCCCAAATCCCATTCATAT
1 CCCAGCAGGCCCAAATAACATTCATAT
81424515 ACATGCTTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.36, G:0.09, T:0.21
Consensus pattern (29 bp):
CCCAGCAGGCCCAAATAACATTCATATCA
Found at i:81426147 original size:17 final size:18
Alignment explanation
Indices: 81426125--81426165 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
81426115 GTGAAAAATC
*
81426125 ATATTTCTATTGATC-TT
1 ATATTTCCATTGATCTTT
81426142 ATATTTCCATTGATCTTT
1 ATATTTCCATTGATCTTT
81426160 ATATTT
1 ATATTT
81426166 TACATATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTTCCATTGATCTTT
Found at i:81428619 original size:6 final size:6
Alignment explanation
Indices: 81428608--81428634 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
81428598 GCAGTAACCA
81428608 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
81428635 TCTAAATAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:81432245 original size:28 final size:28
Alignment explanation
Indices: 81432182--81432387 Score: 281
Period size: 28 Copynumber: 7.4 Consensus size: 28
81432172 ATATTAAGTC
* *
81432182 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
81432209 CGCACACTTAGTGCTATATAATCTAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
81432237 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
81432265 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
81432293 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
81432321 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
81432348 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
81432377 CGCACACTTAG
1 CGCACACTTAG
81432388 CGCCAATCTC
Statistics
Matches: 163, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
27 43 0.26
28 107 0.66
29 13 0.08
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:81434622 original size:56 final size:56
Alignment explanation
Indices: 81434536--81434652 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
81434526 TAATCCAAAA
81434536 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
1 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
81434592 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
1 AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
81434648 AGTAA
1 AGTAA
81434653 GTTCGTATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (56 bp):
AGTAATTATTTACTCTAAAACAGGGGAAAATAAAACAGAGTAAGCATAAAATTCTT
Found at i:81450629 original size:22 final size:22
Alignment explanation
Indices: 81450603--81450647 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
81450593 ATTATATGTA
81450603 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
81450625 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
81450647 T
1 T
81450648 GGGTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:81451038 original size:18 final size:19
Alignment explanation
Indices: 81451015--81451055 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
81451005 CATTCACATC
81451015 TTTTCTCTCTTCTCT-CCA
1 TTTTCTCTCTTCTCTGCCA
*
81451033 TTTTCTCTCTTCTTTGCCA
1 TTTTCTCTCTTCTCTGCCA
81451052 TTTT
1 TTTT
81451056 AAATTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.05, C:0.32, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTCTCTCTTCTCTGCCA
Found at i:81452185 original size:37 final size:37
Alignment explanation
Indices: 81452079--81452187 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
81452069 AGCTCAGATG
* * *
81452079 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
81452116 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
81452153 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
81452188 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:81452472 original size:50 final size:50
Alignment explanation
Indices: 81452337--81452472 Score: 238
Period size: 50 Copynumber: 2.7 Consensus size: 50
81452327 CATCGCCTAC
* *
81452337 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
81452387 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
81452437 ATATTTCACATTGACCATTCGGCTTTACCACATATG
1 ATATTTCACATTGACCATTCGGCTTTACCACATATG
81452473 AATGTTCATA
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
50 82 0.99
51 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:81452547 original size:22 final size:22
Alignment explanation
Indices: 81452519--81452641 Score: 74
Period size: 22 Copynumber: 5.3 Consensus size: 22
81452509 GCTCACATTC
81452519 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
81452541 ATCACATATATG-CATGCTC-ACATT
1 ATCACAT-T-GGCCAT--TCGGCCTT
81452565 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
81452588 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
81452612 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
81452635 ATCACAT
1 ATCACAT
81452642 ATATGCATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 28
0.65 0.10 0.24
Matches are distributed among these distances:
22 26 0.35
23 15 0.20
24 15 0.20
25 19 0.25
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:81452560 original size:47 final size:47
Alignment explanation
Indices: 81452506--81452666 Score: 304
Period size: 47 Copynumber: 3.4 Consensus size: 47
81452496 CCATTCGGCT
81452506 CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
1 CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
81452553 CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
1 CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
*
81452600 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
1 CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
*
81452647 CATGTTCACATTCATCACAT
1 CATGCTCACATTCATCACAT
81452667 AAAATCCTAA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 113 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATG
Found at i:81452698 original size:94 final size:91
Alignment explanation
Indices: 81452505--81452687 Score: 228
Period size: 94 Copynumber: 2.0 Consensus size: 91
81452495 GCCATTCGGC
*
81452505 TCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCA
1 TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCA
** * * *
81452570 CATTGGCCATTCGGCCTTATCACATATAT
66 CATT-GAAAAT--GCCTAATCAAATATAT
* *
81452599 GCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
1 TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCA
81452664 CA-T-AAAAT-CCTAAATCAAAATATA
66 CATTGAAAATGCCT-AATC-AAATATA
81452688 AATTTTCATG
Statistics
Matches: 79, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
88 3 0.04
89 3 0.04
90 6 0.08
91 2 0.03
93 1 0.01
94 64 0.81
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.32
Consensus pattern (91 bp):
TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCA
CATTGAAAATGCCTAATCAAATATAT
Found at i:81456782 original size:24 final size:25
Alignment explanation
Indices: 81456750--81456807 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
81456740 AATTTTTCTC
*
81456750 CTAAATTTT-AATTTATTCAATTAT
1 CTAATTTTTCAATTTATTCAATTAT
*
81456774 CTAATTTTTCAATTTATTGAATTAT
1 CTAATTTTTCAATTTATTCAATTAT
81456799 -TAATATTTT
1 CTAAT-TTTT
81456808 TTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (25 bp):
CTAATTTTTCAATTTATTCAATTAT
Found at i:81460093 original size:18 final size:19
Alignment explanation
Indices: 81460070--81460110 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
81460060 CATTCACATC
81460070 TTTTCTCTCTTC-TCTCCA
1 TTTTCTCTCTTCTTCTCCA
*
81460088 TTTTCTCTCTTCTTTTCCA
1 TTTTCTCTCTTCTTCTCCA
81460107 TTTT
1 TTTT
81460111 AAATTCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTCTCTCTTCTTCTCCA
Found at i:81464161 original size:19 final size:19
Alignment explanation
Indices: 81464137--81464173 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
81464127 GTATTCATAA
* *
81464137 AATTTTAGAATTTTTCATC
1 AATTTTACAACTTTTCATC
81464156 AATTTTACAACTTTTCAT
1 AATTTTACAACTTTTCAT
81464174 TTTAGTCCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (19 bp):
AATTTTACAACTTTTCATC
Found at i:81466014 original size:55 final size:53
Alignment explanation
Indices: 81465936--81466192 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 53
81465926 ATTAGAGTTT
81465936 AAGGATACCATGTAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AA-TGGTAAGGTTTCTAAGGC
* * * * *
81465991 AAGGATACCATGTAAGATCATGCCAAGACATGGCATTGATAAGTTATTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATGGTAAGGT-TTCTAAGGC
* * * * *
81466046 AAAGG-TCCCATGAAAGACCATGCCAAGGCATGGCATTGGTGA-G-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGG-AATGGTAAGGTTTC-TAAGGC
* ** *
81466099 AAGGATACCATGTCAGACCATATCGAGACATGGGAATGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GGAATGGTAAGGTTTCTAAGGC
* *
81466148 AAGGATACCACGTAAGACCAT-CACAAGTCATGGAAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGC-CAAGACATGG-AATGGTAAGGT
81466193 ACCCGTGTAT
Statistics
Matches: 165, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
48 2 0.01
49 33 0.20
50 2 0.01
52 8 0.05
53 32 0.19
54 12 0.07
55 72 0.44
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATGGTAAGGTTTCTAAGGC
Found at i:81466142 original size:108 final size:110
Alignment explanation
Indices: 81465943--81466143 Score: 255
Period size: 108 Copynumber: 1.8 Consensus size: 110
81465933 TTTAAGGATA
*
81465943 CCATGTAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* * *
81466008 TCATGCCAAGACATGGCATTGATAAGTTATTATAAGGCAAAGGTC
66 CCATACCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
* * * * *
81466053 CCATGAAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTCAG
1 CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * * *
81466115 ACCATATCGAGACATGGGAATGGTAAGTT
65 ACCATACCAAGACATGGCAATGATAAGTT
81466144 TCAAAAGGAT
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
107 3 0.04
108 44 0.57
109 6 0.08
110 24 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGAAAGACCATGCCAAGACATGGAAACTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATACCAAGACATGGCAATGATAAGTTATTATAAGGCAAAGGTC
Found at i:81466393 original size:16 final size:16
Alignment explanation
Indices: 81466372--81466402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81466362 ATAAATTTGA
81466372 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
81466388 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
81466403 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:81473617 original size:27 final size:26
Alignment explanation
Indices: 81473587--81473637 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
81473577 TGCTTTATAC
*
81473587 ATTATTTATTTTAAACTTGTTTTATGT
1 ATTATTCATTTTAAA-TTGTTTTATGT
81473614 ATTATTCATTTTAAATTGTTTTAT
1 ATTATTCATTTTAAATTGTTTTAT
81473638 TGTTTACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (26 bp):
ATTATTCATTTTAAATTGTTTTATGT
Found at i:81478682 original size:27 final size:26
Alignment explanation
Indices: 81478623--81478702 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
81478613 ATTTGCTTTG
** * *
81478623 TGTATTATAGATTTTAAAATGCTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
** *
81478649 TACATTATTTATTTTAAACTTGTTTTA
1 TGTATTATTCATTTTAAA-TTGTTTTA
81478676 TGTATTATTCATTTTAAATTGTTTTA
1 TGTATTATTCATTTTAAATTGTTTTA
81478702 T
1 T
81478703 TGTTTACTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 23 0.52
27 21 0.48
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (26 bp):
TGTATTATTCATTTTAAATTGTTTTA
Found at i:81481111 original size:30 final size:30
Alignment explanation
Indices: 81481055--81481113 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
81481045 TCCGAGCCTT
*
81481055 GGGGCAAAAGTGTAAATATGTAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* * *
81481085 GGGGCAAAAGTGTAATTTTGCCAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
81481114 GAGTCAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.27, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:81481512 original size:55 final size:53
Alignment explanation
Indices: 81481450--81481704 Score: 229
Period size: 55 Copynumber: 4.8 Consensus size: 53
81481440 CATTAGGGTT
*
81481450 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
81481505 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGG-C
* * * * *
81481561 AAGG-TCCCATGTAAAACCATGCCAAGGCATGGCATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * * *
81481613 AAGGATACCATGTAGGACCATGTCGAGACATGGAAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
* *
81481662 AAGGATACCACGTAAGACCAT-CACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGC-CAAGACATGG-AATTGGTAAG
81481705 GTACCCCGTG
Statistics
Matches: 164, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
49 34 0.21
50 2 0.01
52 7 0.04
53 37 0.23
54 11 0.07
55 69 0.42
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Found at i:81481656 original size:108 final size:110
Alignment explanation
Indices: 81481457--81481657 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
81481447 GTTAAGGATA
*
81481457 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
81481522 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGAAAAGGTC
66 CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGAAAAGGTC
* * *
81481567 CCATGTAAAACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAGG
1 CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
81481629 ACCATGTCGAGACATGGAAATGGTAAGTT
65 ACCATGTCAAGACATGGAAATGATAAGTT
81481658 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAAACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGAAATGATAAGTTACTATAAGGAAAAGGTC
Found at i:81487407 original size:3 final size:3
Alignment explanation
Indices: 81487399--81487428 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
81487389 TTTTCATTTA
81487399 AAT AAT AAT AAT AAT AAT AAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
81487429 ACGCGATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:81487574 original size:13 final size:14
Alignment explanation
Indices: 81487552--81487589 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
81487542 TTAAAACTTT
81487552 AAAT-TATTTTTAC
1 AAATATATTTTTAC
*
81487565 AAA-ATATTTTTAT
1 AAATATATTTTTAC
81487578 AAATATATTTTT
1 AAATATATTTTT
81487590 TATATAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
AAATATATTTTTAC
Found at i:81489931 original size:50 final size:52
Alignment explanation
Indices: 81489867--81489984 Score: 177
Period size: 50 Copynumber: 2.3 Consensus size: 52
81489857 TTAATAAAGT
* *
81489867 CATGCATTATGTAACTCTCATGTTAATT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
* *
81489917 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
*
81489969 CATGCATTAAGTAACT
1 CATGCATTATGTAACT
81489985 TATTTGTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 26 0.43
51 12 0.20
52 23 0.38
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAATTAAAGTTTGCATCATTAAATTAAGA
Found at i:81496087 original size:46 final size:46
Alignment explanation
Indices: 81496034--81496304 Score: 352
Period size: 46 Copynumber: 5.9 Consensus size: 46
81496024 AGATATTTGG
*
81496034 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
81496080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
*
81496126 ACATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * * * * **
81496172 ACGTTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAATTAG-
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GATGCGA
*
81496219 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* *
81496266 CGC-T-CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81496305 GCGGGTTACA
Statistics
Matches: 197, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
45 4 0.02
46 155 0.79
47 32 0.16
48 6 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:81502117 original size:40 final size:40
Alignment explanation
Indices: 81502080--81502264 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
81502070 GCTACTCGTT
*
81502080 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
81502120 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
81502160 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
81502199 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
81502240 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
81502265 CATCATTTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:81502191 original size:79 final size:81
Alignment explanation
Indices: 81502080--81502262 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
81502070 GCTACTCGTT
* ** *
81502080 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
81502144 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
81502160 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
81502223 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
81502240 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
81502263 GACATCATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 53 0.60
80 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:81510055 original size:40 final size:40
Alignment explanation
Indices: 81510025--81510208 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
81510015 GCTACTCGTT
* *
81510025 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
81510065 CAATTGCCTTCGGGACTTAACCTGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
81510105 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
81510144 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
81510185 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
81510209 ACATCATTCA
Statistics
Matches: 119, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 73 0.61
41 14 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:81510128 original size:79 final size:81
Alignment explanation
Indices: 81510025--81510209 Score: 211
Period size: 79 Copynumber: 2.3 Consensus size: 81
81510015 GCTACTCGTT
* * *
81510025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAATTGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGACC
* *
81510087 TGGATTTAGTAAC-TCGCA
64 -GGATATAGTAACTTAGCA
* * *
81510105 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAGACCGG
* *
81510169 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
81510185 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
81510210 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.03
79 51 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAGACCGG
ATATAGTAACTTAGCA
Found at i:81525023 original size:93 final size:93
Alignment explanation
Indices: 81524911--81525082 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
81524901 CGCCCATAAG
* *
81524911 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGATC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
81524975 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
81525004 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
81525069 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
81525083 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:81525079 original size:46 final size:46
Alignment explanation
Indices: 81524904--81525079 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
81524894 TGTAACCCGC
* *
81524904 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
81524950 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
81525000 -C-TCA-CGAACTCGGACTCAACTCAACGAGATCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
81525043 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
81525080 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:81532579 original size:93 final size:93
Alignment explanation
Indices: 81532467--81532638 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
81532457 CGCCCATAAG
*
81532467 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
81532531 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
81532560 CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
81532625 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
81532639 TCAATCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:81532633 original size:46 final size:46
Alignment explanation
Indices: 81532460--81532635 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
81532450 TGTAACCCGC
* *
81532460 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
81532506 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
81532556 -C-TCA-CGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
81532599 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
81532636 TGCTCAATCA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:81543980 original size:15 final size:16
Alignment explanation
Indices: 81543962--81543991 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
81543952 AAATCGAAGT
81543962 GAAAAA-AATTTGAAA
1 GAAAAACAATTTGAAA
81543977 GAAAAACAATTTGAA
1 GAAAAACAATTTGAA
81543992 GTTGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
GAAAAACAATTTGAAA
Found at i:81544857 original size:23 final size:21
Alignment explanation
Indices: 81544801--81544857 Score: 51
Period size: 23 Copynumber: 2.6 Consensus size: 21
81544791 GTAACGAAAG
**
81544801 AATAAGAGAAAAGGAAATTGA
1 AATAAGAGAAAACAAAATTGA
* *
81544822 AAGAAAAGAAAAACAAGAATTGA
1 AATAAGAG-AAAACAA-AATTGA
81544845 TAATAAGAGAAAA
1 -AATAAGAGAAAA
81544858 TGATCAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
21 6 0.22
22 5 0.19
23 10 0.37
24 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (21 bp):
AATAAGAGAAAACAAAATTGA
Found at i:81544922 original size:16 final size:16
Alignment explanation
Indices: 81544890--81544948 Score: 75
Period size: 16 Copynumber: 3.6 Consensus size: 16
81544880 GAGAGAAGAA
*
81544890 AAAAAGAAA-TGAGAG
1 AAAAAGAAATTGAAAG
81544905 AAAAAGAAATTGAAAG
1 AAAAAGAAATTGAAAG
81544921 AAAAAGAAAGCTTGAAAG
1 AAAAAGAAA--TTGAAAG
81544939 AAAAGAGAAA
1 AAAA-AGAAA
81544949 GAAAAAGAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
15 9 0.23
16 14 0.36
18 11 0.28
19 5 0.13
ACGTcount: A:0.68, C:0.02, G:0.22, T:0.08
Consensus pattern (16 bp):
AAAAAGAAATTGAAAG
Found at i:81546956 original size:50 final size:52
Alignment explanation
Indices: 81546896--81547014 Score: 170
Period size: 50 Copynumber: 2.3 Consensus size: 52
81546886 TTAATAAAGT
* * *
81546896 CATGCTTTATGTAACTCTCATGTTAGTT-AAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
* *
81546946 CATGGATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGC
1 CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
*
81546998 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
81547015 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 25 0.42
51 12 0.20
52 23 0.38
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATTAAGA
Found at i:81548403 original size:27 final size:27
Alignment explanation
Indices: 81548373--81548434 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
81548363 CGCATTTCAA
81548373 TCATTTTACCTCATAAGGGCAAAACAG
1 TCATTTTACCTCATAAGGGCAAAACAG
* * *
81548400 TCATTTTACCTCATGAGGGTAAAATAG
1 TCATTTTACCTCATAAGGGCAAAACAG
81548427 TCATTTTA
1 TCATTTTA
81548435 TTGATTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (27 bp):
TCATTTTACCTCATAAGGGCAAAACAG
Found at i:81554100 original size:14 final size:13
Alignment explanation
Indices: 81554072--81554112 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
81554062 CTGGCCCGCC
81554072 TATATTAATTTTT
1 TATATTAATTTTT
*
81554085 TATATTATTATTTT
1 TATATTAAT-TTTT
81554099 TATA-TAATTTTT
1 TATATTAATTTTT
81554111 TA
1 TA
81554113 AAAAATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 11 0.44
14 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATATTAATTTTT
Found at i:81561740 original size:21 final size:21
Alignment explanation
Indices: 81561714--81561757 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
81561704 ATGTCATGCA
81561714 TTATACTAGAG-ACAATATAGC
1 TTATACTAGAGCA-AATATAGC
81561735 TTATACTAGAGCAAATATAGC
1 TTATACTAGAGCAAATATAGC
81561756 TT
1 TT
81561758 TTGTAGTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
TTATACTAGAGCAAATATAGC
Found at i:81566618 original size:16 final size:17
Alignment explanation
Indices: 81566593--81566627 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
81566583 ATTATTATTA
*
81566593 TTTTTACTTTTTTTTTC
1 TTTTTACTTTTCTTTTC
81566610 TTTTT-CTTTTCTTTTC
1 TTTTTACTTTTCTTTTC
81566626 TT
1 TT
81566628 AAGAATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTACTTTTCTTTTC
Found at i:81569106 original size:13 final size:13
Alignment explanation
Indices: 81569088--81569112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81569078 TCTCTTCACC
81569088 TCTCTCTCATTTT
1 TCTCTCTCATTTT
81569101 TCTCTCTCATTT
1 TCTCTCTCATTT
81569113 CCTTTCATTG
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:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (13 bp):
TCTCTCTCATTTT
Found at i:81573394 original size:42 final size:41
Alignment explanation
Indices: 81573282--81573403 Score: 145
Period size: 43 Copynumber: 2.9 Consensus size: 41
81573272 TACCATACCA
* **
81573282 ATGCCATATCCCAGATATGGTCTTACATGTAATCTTGTATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CTAATCTCATATCG
* *
81573324 ATGCCAATAGCCCAGCTATGGTCTTACACTAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACTAA-TCTCATATCG
* *
81573367 ATGCCATATCTCAAATATGGTCTTACACATAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAC-TAATCTCA
81573404 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACTAATCTCATATCG
Found at i:81575537 original size:21 final size:21
Alignment explanation
Indices: 81575498--81575537 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
81575488 AAATATGGAC
* **
81575498 AAATTGAGATTGTGTAAATTG
1 AAATTGAAATTGTAAAAATTG
81575519 AAATTGAAATTGTAAAAAT
1 AAATTGAAATTGTAAAAAT
81575538 AAACAGAGTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.35
Consensus pattern (21 bp):
AAATTGAAATTGTAAAAATTG
Found at i:81583415 original size:20 final size:20
Alignment explanation
Indices: 81583390--81583427 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
81583380 ATACTTTATT
*
81583390 TTTTGTTAAGTATCGATAAA
1 TTTTGTTAAGTATAGATAAA
*
81583410 TTTTGTTGAGTATAGATA
1 TTTTGTTAAGTATAGATA
81583428 GATTCACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (20 bp):
TTTTGTTAAGTATAGATAAA
Found at i:81590929 original size:25 final size:25
Alignment explanation
Indices: 81590895--81590945 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
81590885 CTAATACGCT
81590895 TCTGCTCATCTAGCAGTGAATTTCC
1 TCTGCTCATCTAGCAGTGAATTTCC
81590920 TCTGCTCATCTAGCAGTGAATTTCC
1 TCTGCTCATCTAGCAGTGAATTTCC
81590945 T
1 T
81590946 ATCTCGTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (25 bp):
TCTGCTCATCTAGCAGTGAATTTCC
Found at i:81596010 original size:46 final size:46
Alignment explanation
Indices: 81595960--81596135 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
81595950 TGGTTGAGCA
81595960 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
81596006 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
81596051 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
81596099 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
81596136 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 62 0.58
47 27 0.25
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:81596094 original size:93 final size:93
Alignment explanation
Indices: 81595957--81596127 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
81595947 GGATGGTTGA
* *
81595957 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
81596022 TGAGTCCAAGTTCGTGAAATGTAACTAG
66 TGAGTCCAAGTTCGTGAAATGTAACTAG
* *
81596050 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
81596115 TGAGTCCGAGTTC
66 TGAGTCCAAGTTC
81596128 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAAATGTAACTAG
Found at i:81599323 original size:24 final size:24
Alignment explanation
Indices: 81599276--81599347 Score: 81
Period size: 25 Copynumber: 2.9 Consensus size: 24
81599266 GCTTTATCAT
** *
81599276 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCCTTTTTTA
*
81599301 ATAACTGGGGCAAAGCCTTTTTTG
1 ATAACTGGGGCAAAGCCTTTTTTA
*
81599325 ATAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGGGGCAAAGCCTTTTT
81599348 CGGTAAACAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
24 14 0.34
25 27 0.66
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCTTTTTTA
Found at i:81599331 original size:25 final size:25
Alignment explanation
Indices: 81599303--81599372 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
81599293 CTCTTTTAAT
*
81599303 AACTGGGGCAAAGCCTTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
81599328 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
81599353 AACAGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
81599373 AGCACTACCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:81599608 original size:27 final size:27
Alignment explanation
Indices: 81599578--81599822 Score: 337
Period size: 27 Copynumber: 9.1 Consensus size: 27
81599568 GGGAACATGA
* * * *
81599578 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
81599605 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGG
* *
81599632 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
81599659 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
81599686 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* **
81599713 TAATTCTACCTTACAGGGGTATTTAAG
1 TAATTCTACCCTACAGGGGTATTTCGG
*
81599740 TAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGG
* * * **
81599767 TATTTCTGCCCTACAAGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGG
*
81599794 TAATTCTACCTTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGG
81599821 TA
1 TA
81599823 TTTTACAAAT
Statistics
Matches: 190, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGG
Found at i:81599838 original size:27 final size:26
Alignment explanation
Indices: 81599810--81599960 Score: 153
Period size: 27 Copynumber: 5.7 Consensus size: 26
81599800 TACCTTACAG
*
81599810 GGGTATTTCGGT-ATTTTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
*
81599836 GGGTATTTTGGTAATTTTACAAACCA
1 GGGTATTTTGGTAATTTTACAAACAA
*
81599862 GAGGTATTTTAGTAATTTTACAAACCAA
1 G-GGTATTTTGGTAATTTTACAAA-CAA
* * *
81599890 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTAC-AAACAA
**
81599917 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
* *
81599944 TGGTA-TTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
81599961 GTAAATTGAG
Statistics
Matches: 105, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
26 26 0.25
27 75 0.71
28 4 0.04
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:81599896 original size:54 final size:54
Alignment explanation
Indices: 81599822--81599960 Score: 174
Period size: 54 Copynumber: 2.6 Consensus size: 54
81599812 GTATTTCGGT
*
81599822 ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAG-GGTATTTTAGTA
** * *
81599876 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTA
** * *
81599930 ATTTTGTAAACCAATGGTA-TTTAGTAATTTT
1 ATTTTACAAACCAAGGGTATTTTGGTAATTTT
81599961 GTAAATTGAG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 11 0.15
54 62 0.83
55 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.42
Consensus pattern (54 bp):
ATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTAGTA
Found at i:81599928 original size:81 final size:79
Alignment explanation
Indices: 81599810--81599960 Score: 214
Period size: 81 Copynumber: 1.9 Consensus size: 79
81599800 TACCTTACAG
81599810 GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAGA-GGTATTTTAG
1 GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCA-ATGGTA-TTTAG
81599874 TAATTTTACAAACCAA
64 TAATTTTACAAACCAA
* ** * **
81599890 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTAGT
1 GGGTATTTCGGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTAGT
81599955 AATTTT
65 AATTTT
81599961 GTAAATTGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 24 0.38
81 39 0.62
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (79 bp):
GGGTATTTCGGTATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCAATGGTATTTAGTA
ATTTTACAAACCAA
Found at i:81599992 original size:27 final size:27
Alignment explanation
Indices: 81599962--81600106 Score: 218
Period size: 27 Copynumber: 5.4 Consensus size: 27
81599952 AGTAATTTTG
* *
81599962 TAAATTGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
81599989 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* * *
81600016 TAAATCGAGGGTAAAATGGTAATTTTA
1 TAAATCGAGGGTAAAACGATAATTCTA
* *
81600043 TAAATCGAGGGTAAAATGATAATTCTG
1 TAAATCGAGGGTAAAACGATAATTCTA
81600070 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGATAATTCTA
*
81600097 TAAATTGAGG
1 TAAATCGAGG
81600107 ATATTTGGGT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 107 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGATAATTCTA
Found at i:81600057 original size:81 final size:81
Alignment explanation
Indices: 81599953--81600106 Score: 254
Period size: 81 Copynumber: 1.9 Consensus size: 81
81599943 ATGGTATTTA
* * *
81599953 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
81600018 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
81600034 GTAATTTTATAAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATA
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
*
81600099 AATTGAGG
66 AATCGAGG
81600107 ATATTTGGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 67 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTTTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTCTATA
AATCGAGGGTAAAATG
Found at i:81600147 original size:81 final size:81
Alignment explanation
Indices: 81599968--81600136 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 81
81599958 TTTGTAAATT
* *
81599968 GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAT
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
* *
81600033 GGTAATTTTATAAATC
66 GGTAATTTTAGAAACC
* * * **
81600049 GAGGGTAAAATGATAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATTGAGGAT-ATTT
1 GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
*
81600113 GGGTAGTTTTAGAAACC
66 -GGTAATTTTAGAAACC
*
81600130 GTGGGTA
1 GAGGGTA
81600137 CTTTGGTAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
80 2 0.03
81 74 0.97
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGATAAAAT
GGTAATTTTAGAAACC
Found at i:81602581 original size:25 final size:25
Alignment explanation
Indices: 81602547--81602616 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
81602537 CTCTTTTAAT
* *
81602547 AACTCGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
81602572 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
81602597 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
81602617 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:81602853 original size:27 final size:27
Alignment explanation
Indices: 81602823--81603152 Score: 250
Period size: 27 Copynumber: 12.3 Consensus size: 27
81602813 GGAAAAATGA
* * * *
81602823 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTTTACCCTACAGGGGTATTTCAG
* * *
81602850 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTTTACCCTACAGGGGTATTTCAG
*
81602877 T-ATTTCTA-CCTACAAGGGTATTTC-G
1 TAATTT-TACCCTACAGGGGTATTTCAG
* *
81602902 TTAA-TTTACTCTACAGGGGTATTTCAA
1 -TAATTTTACCCTACAGGGGTATTTCAG
*
81602929 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
* *
81602956 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
*
81602983 T-ATTTCTACCCTACAAGGGTATTTCAG
1 TAATTT-TACCCTACAGGGGTATTTCAG
*
81603010 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTTTACCCTACAGGGGTATTTCAG
** * **
81603037 T-ATTTTA-CAAATCAAGGGTATTTTGG
1 TAATTTTACCCTA-CAGGGGTATTTCAG
** *
81603063 TAATTTTA-CAAACTAGGGGTATTTTAG
1 TAATTTTACCCTAC-AGGGGTATTTCAG
**
81603090 TAATTTTA-CAAACCAGGGGTATATT-AG
1 TAATTTTACCCTA-CAGGGGTAT-TTCAG
** **
81603117 TAATTTTA-CAAACCAGGGGTATTTTGG
1 TAATTTTACCCTA-CAGGGGTATTTCAG
81603144 TAATTTTAC
1 TAATTTTAC
81603153 TGATCGAGGA
Statistics
Matches: 260, Mismatches: 28, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.02
26 61 0.23
27 188 0.72
28 6 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTTTACCCTACAGGGGTATTTCAG
Found at i:81602895 original size:26 final size:27
Alignment explanation
Indices: 81602823--81603038 Score: 276
Period size: 27 Copynumber: 8.1 Consensus size: 27
81602813 GGAAAAATGA
* * * * *
81602823 TAATTTTACCCCACATGGGTATCTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
81602850 TAATTCTATCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
81602877 TATTTCTA-CCTACAAGGGTATTTC-G
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
81602902 TTAATT-TACTCTACAGGGGTATTTCAA
1 -TAATTCTACCCTACAGGGGTATTTCAG
81602929 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
81602956 TAATTCTACCCTATAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
81602983 TATTTCTACCCTACAAGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
81603010 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
81603037 TA
1 TA
81603039 TTTTACAAAT
Statistics
Matches: 166, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.02
26 38 0.23
27 125 0.75
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:81602974 original size:106 final size:108
Alignment explanation
Indices: 81602822--81603035 Score: 317
Period size: 106 Copynumber: 2.0 Consensus size: 108
81602812 GGGAAAAATG
* * * * *
81602822 ATAATTTTACCCCACATGGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGTATTTCTA-C
1 ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
*
81602886 CTACAAGGGTATTTC-GTTAATT-TACTCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCA
* * *
81602928 ATAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTATTTCTACC
1 ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
81602993 CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
81603036 GTATTTTACA
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 55 0.57
107 21 0.22
108 20 0.21
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (108 bp):
ATAATTCTACCCCACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
CTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
Found at i:81603175 original size:54 final size:53
Alignment explanation
Indices: 81603023--81603204 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 53
81603013 TTCTACCCTA
* *
81603023 CAGGGGTATTTCAGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGATAATTTTACAAAC
* * * *
81603076 TAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATATT-AGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGA-TAATTTTACAAAC
* * * * **
81603130 CAGGGGTATTTTGGTAATTTTACTGATCGAGGATATTTTGATAATTTTGTAAAC
1 CAGGGGTATTTTAGTAATTTTAC-AATCAAGGGTATTTTGATAATTTTACAAAC
**
81603184 CAATGGTATTTTAGTAATTTT
1 CAGGGGTATTTTAGTAATTTT
81603205 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 13 0.12
54 92 0.87
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTAGTAATTTTACAATCAAGGGTATTTTGATAATTTTACAAAC
Found at i:81603218 original size:27 final size:27
Alignment explanation
Indices: 81603026--81603218 Score: 153
Period size: 27 Copynumber: 7.2 Consensus size: 27
81603016 TACCCTACAG
* *
81603026 GGGTATTTCAGT-ATTTTACAAATCAA
1 GGGTATTTTAGTAATTTTACAAATCGA
* *
81603052 GGGTATTTTGGTAATTTTACAAA-CTA
1 GGGTATTTTAGTAATTTTACAAATCGA
*
81603078 GGGGTATTTTAGTAATTTTACAAA-CCA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* *
81603105 GGGGTATATTAGTAATTTTACAAA-CCA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* **
81603132 GGGGTATTTTGGTAATTTTACTGATCGA
1 -GGGTATTTTAGTAATTTTACAAATCGA
* ** * *
81603160 GGATATTTT-GATAATTTTGTAAACCAA
1 GGGTATTTTAG-TAATTTTACAAATCGA
* **
81603187 TGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTAGTAATTTTACAAATCGA
81603214 GGGTA
1 GGGTA
81603219 AAATGGTAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
26 13 0.09
27 123 0.88
28 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCGA
Found at i:81603218 original size:81 final size:81
Alignment explanation
Indices: 81603026--81603218 Score: 212
Period size: 81 Copynumber: 2.4 Consensus size: 81
81603016 TACCCTACAG
* * *
81603026 GGGTATTTCAGT-ATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGATATTTTAG
*
81603090 TAATTTTACAAACCAG
66 TAATTTTACAAACCAA
* * * * *
81603106 GGGTATATTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCGA-GGATATTTT-
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTAC-AAACGAGGGATATTTTA
**
81603169 GATAATTTTGTAAACCAA
65 G-TAATTTTACAAACCAA
* ** *
81603187 TGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTAGTAATTTTACAAATCAAGGGTA
81603219 AAATGGTAAT
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
80 11 0.12
81 78 0.85
82 3 0.03
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTAGTAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACGAGGGATATTTTAG
TAATTTTACAAACCAA
Found at i:81603227 original size:27 final size:27
Alignment explanation
Indices: 81603197--81603350 Score: 191
Period size: 27 Copynumber: 5.7 Consensus size: 27
81603187 TGGTATTTTA
* *
81603197 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
81603224 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
81603251 GTAATTCTATAAATCGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
81603278 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
81603305 GTAATCCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
81603332 ATAATTCTATAAATTGAGG
1 GTAATTCTGTAAATCGAGG
81603351 ATATTTGGGT
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 111 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:81603255 original size:54 final size:54
Alignment explanation
Indices: 81603196--81603350 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 54
81603186 ATGGTATTTT
* * * * *
81603196 AGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
* * *
81603250 GGTAATTCTATAAATCGATGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
* * *
81603304 AGTAATCCTGTAAATCGAGGGTGAAACGATAATTCTATAAATTGAGG
1 AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGG
81603351 ATATTTGGGT
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 87 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (54 bp):
AGTAATTCTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAAC
Found at i:81605291 original size:14 final size:15
Alignment explanation
Indices: 81605261--81605294 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
81605251 GTTGTATTAG
81605261 TAAAATAAATAATAA
1 TAAAATAAATAATAA
*
81605276 TAAAATAAGT-ATAA
1 TAAAATAAATAATAA
81605290 TAAAA
1 TAAAA
81605295 CATATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:81607999 original size:19 final size:20
Alignment explanation
Indices: 81607975--81608013 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
81607965 GGGTGAGAAG
*
81607975 TAAAAA-TTTAGGGGGAAAA
1 TAAAAAGTTTAGGGAGAAAA
*
81607994 TAAAAAGTTTTGGGAGAAAA
1 TAAAAAGTTTAGGGAGAAAA
81608014 AAGTTTTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (20 bp):
TAAAAAGTTTAGGGAGAAAA
Found at i:81608396 original size:9 final size:9
Alignment explanation
Indices: 81608382--81608418 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
81608372 TATAGTTTGA
81608382 TATTCGAAT
1 TATTCGAAT
81608391 TATTCGAAT
1 TATTCGAAT
*
81608400 TATTCGAGT
1 TATTCGAAT
81608409 TATTCGAAT
1 TATTCGAAT
81608418 T
1 T
81608419 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:81608437 original size:24 final size:24
Alignment explanation
Indices: 81608410--81608495 Score: 172
Period size: 24 Copynumber: 3.6 Consensus size: 24
81608400 TATTCGAGTT
81608410 ATTCGAATTCGAAAACTCAACTCG
1 ATTCGAATTCGAAAACTCAACTCG
81608434 ATTCGAATTCGAAAACTCAACTCG
1 ATTCGAATTCGAAAACTCAACTCG
81608458 ATTCGAATTCGAAAACTCAACTCG
1 ATTCGAATTCGAAAACTCAACTCG
81608482 ATTCGAATTCGAAA
1 ATTCGAATTCGAAA
81608496 TTCGAAAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (24 bp):
ATTCGAATTCGAAAACTCAACTCG
Found at i:81608543 original size:18 final size:18
Alignment explanation
Indices: 81608517--81608551 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
81608507 ATTCGAGTTG
*
81608517 ACTCGAATAACTCGATTA
1 ACTCAAATAACTCGATTA
81608535 ACTCAAATAACTCGATT
1 ACTCAAATAACTCGATT
81608552 CTTTTAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (18 bp):
ACTCAAATAACTCGATTA
Found at i:81611010 original size:30 final size:30
Alignment explanation
Indices: 81610976--81611033 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
81610966 TTTTCGGGCA
* *
81610976 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
81611006 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
81611034 ATGTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:81611444 original size:47 final size:45
Alignment explanation
Indices: 81611376--81611732 Score: 233
Period size: 47 Copynumber: 7.6 Consensus size: 45
81611366 TTTGTGCGCT
* * * **
81611376 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACTTTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CACTAGATGAGAGCC
* * * *
81611422 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATCCAGATGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA-CTAGATGAGAGCC
* *
81611470 AGTGTAAGACATGTCTAGGACATGCATCAGCCATACTA-A-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-C--ACTAGATGAGAGCC
* * * *
81611516 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCAC-TAGATGAGAGCC
* * *
81611564 AGTGTAAGACATGTTTGGGACATGCATCGACCTTGAC-AGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATC-AGC---ACTAGATGAGAGCC
* * * * * * *
81611611 AGTGTAAGACGTGTCTGAGACACGCATC-G-GCTAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACT-AGATG-AGAGCC
* *
81611655 AGTGTAAGACATGTCTAGGACATGCATCAGCATGCGTATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--C-TAGATGAGAGCC
81611703 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
81611733 GACAATATAT
Statistics
Matches: 238, Mismatches: 47, Indels: 48
0.71 0.14 0.14
Matches are distributed among these distances:
41 1 0.00
43 4 0.02
44 26 0.11
45 3 0.01
46 35 0.15
47 85 0.36
48 61 0.26
49 16 0.07
50 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACTAGATGAGAGCC
Found at i:81611536 original size:94 final size:95
Alignment explanation
Indices: 81611373--81611733 Score: 404
Period size: 94 Copynumber: 3.9 Consensus size: 95
81611363 TGATTTGTGC
* * * *
81611373 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCACT-TTA-TGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCA-TACTAGAGAGAGCCAGTGTAAGACCATG
* * * *
81611436 TTTGGGACATGGCATCAGCATCCAGATGAGG
65 TCTGGGACATGGCATCGGCATCAAGATGAGT
*
81611467 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTA-AGATAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTAGAGAGAGCCAGTGTAAGACCATGT
81611531 CTGGGACATGGCATCGGCA-CAGAGATGAGT
66 CTGGGACATGGCATCGGCATCA-AGATGAGT
* * * * *
81611561 GCTAGTGTAAGACATGTTTGGGACATGCATC-GACCTTGAC-AGAGATAGCCAGTGTAAGA-CGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CCAT-ACTAGAGAGAGCCAGTGTAAGACCAT
* * *
81611623 GTCTGAGACA-CGCATCGGC-T-AAGA-GTTGT
64 GTCTGGGACATGGCATCGGCATCAAGATG-AGT
* *
81611652 GCTAGTGTAAGACATGTCTAGGACATGCATCAG-CATGCGTATATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATAC-TAGA-GAGAGCCAGTGTAAGACCAT
81611716 GTCTGGGACATGGCATCG
64 GTCTGGGACATGGCATCG
81611734 ACAATATATC
Statistics
Matches: 229, Mismatches: 25, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
89 1 0.00
90 3 0.01
91 36 0.16
92 17 0.07
93 22 0.10
94 131 0.57
95 19 0.08
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTAGAGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGGCATCAAGATGAGT
Found at i:81611732 original size:141 final size:140
Alignment explanation
Indices: 81611373--81611735 Score: 377
Period size: 141 Copynumber: 2.6 Consensus size: 140
81611363 TGATTTGTGC
* *
81611373 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCAC-TTTATGAGAGCCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACGTATATGAGAGCCAGTGTAAGACCATGT
* * * * *
81611437 TTGGGACATGGCATC-AGCATCCAGATGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGC
65 TTGGGACATGGCATCGACCATACAGATGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAGC
81611501 CATACTAAGATA
130 CATAC-AAGATA
* * * * *
81611513 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAG-AGATGAGTGCTAGTGTAAGA-CAT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCAC-GTATATGAGAGCCAGTGTAAGACCAT
* * *
81611576 GTTTGGGACAT-GCATCGACCTTGACAGA-GATAGCCAGTGTAAGACGTGTCT-GAGACACGCAT
63 GTTTGGGACATGGCATCGACCAT-ACAGATGAGAGCCAGTGTAAGACATGTCTAG-GACACGCAT
* * *
81611638 C-GGC-TA-AGAGTTGT
126 CAGCCATACA-AGAT-A
*
81611652 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCATGCGTATATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCA--CGTATATGAGAGCCAGTGTAAGACCATG
*
81611717 TCTGGGACATGGCATCGAC
64 TTTGGGACATGGCATCGAC
81611736 AATATATCCC
Statistics
Matches: 184, Mismatches: 25, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
137 9 0.05
138 17 0.09
139 31 0.17
140 32 0.17
141 69 0.38
142 26 0.14
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCACGTATATGAGAGCCAGTGTAAGACCATGTT
TGGGACATGGCATCGACCATACAGATGAGAGCCAGTGTAAGACATGTCTAGGACACGCATCAGCC
ATACAAGATA
Found at i:81615786 original size:16 final size:15
Alignment explanation
Indices: 81615756--81615798 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
81615746 ATCGAGTTGG
*
81615756 GAAAATTATTTAATT
1 GAAAATTAATTAATT
81615771 GAAAAGTTAATTAATT
1 GAAAA-TTAATTAATT
81615787 -AAAATTAATTAA
1 GAAAATTAATTAA
81615799 ATAAATAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 9 0.35
16 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
GAAAATTAATTAATT
Done.