Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 161 of 253
Found at i:52136896 original size:21 final size:22
Alignment explanation
Indices: 52136867--52136907 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
52136857 GGTAAATGTT
*
52136867 ATTTATCTATCATCAAACATAC
1 ATTTATCTACCATCAAACATAC
*
52136889 ATTT-TCTACCATTAAACAT
1 ATTTATCTACCATCAAACAT
52136908 CAAAAACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (22 bp):
ATTTATCTACCATCAAACATAC
Found at i:52142547 original size:75 final size:76
Alignment explanation
Indices: 52142341--52142550 Score: 237
Period size: 75 Copynumber: 2.8 Consensus size: 76
52142331 ATTAATATAT
* * * * * *
52142341 AAGCCCAACTTAAAATTTAATATATTTTAGGTTTAAT-AGTTAATTTATAATTTAAATATTAAAA
1 AAGCTCAACTTATAATTTAATA-A-TTTAGATTTAATAAATAAATTTATAATTTAAGTATTAAAA
**
52142405 AGATGTTGGCGTA
64 AGATGTTGAAGTA
* * * **
52142418 AAGCTCAACTTGTAATTTAATATTTTATATTTAATAGTTAAATTTATAATTTAAGTATTAAAAA-
1 AAGCTCAACTTATAATTTAATAATTTAGATTTAATAAATAAATTTATAATTTAAGTATTAAAAAG
*
52142482 ATGTCT-AAGTG
66 ATGT-TGAAGTA
*
52142493 AAGCTGAACTTATAATTTAATAATTTAGATTTAATAAATAAATTTATAATTTAAGTAT
1 AAGCTCAACTTATAATTTAATAATTTAGATTTAATAAATAAATTTATAATTTAAGTAT
52142551 GGTAGATCAA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
75 68 0.61
76 25 0.22
77 19 0.17
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (76 bp):
AAGCTCAACTTATAATTTAATAATTTAGATTTAATAAATAAATTTATAATTTAAGTATTAAAAAG
ATGTTGAAGTA
Found at i:52144566 original size:46 final size:46
Alignment explanation
Indices: 52144475--52144599 Score: 137
Period size: 46 Copynumber: 2.7 Consensus size: 46
52144465 GGAGTAAGGT
*
52144475 GCCGATGCCATGTCCCGGACATGGTCTTACACTGACTATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* * * *
52144523 GCTGGTGCATGTCCCAGACATGTCTTACACTGGCT-TACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAG
* *
52144569 GCCGATGCACGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
52144600 AGCACTCGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
45 2 0.03
46 46 0.70
47 13 0.20
48 5 0.08
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:52148750 original size:40 final size:40
Alignment explanation
Indices: 52148702--52148968 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
52148692 GCAAACACAT
* *
52148702 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
52148742 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52148782 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52148822 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52148862 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52148902 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52148942 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
52148969 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:52157567 original size:40 final size:40
Alignment explanation
Indices: 52157519--52157785 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
52157509 GCAAACACAT
* *
52157519 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
52157559 TTGCCTTCGGGTCTTAGCCCGGATATATCATCCCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52157599 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
52157639 TTGCCTTCGGGTCTTAGCCCGGATATGTCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52157679 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52157719 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
52157759 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
52157786 ATCCAATGTT
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:52168324 original size:46 final size:46
Alignment explanation
Indices: 52168271--52168492 Score: 265
Period size: 46 Copynumber: 4.8 Consensus size: 46
52168261 TGTTTGGGCA
*
52168271 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
52168317 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
52168363 TCCGAACTCATTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
52168408 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
52168456 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52168493 GCGGGTTACA
Statistics
Matches: 153, Mismatches: 12, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
42 3 0.02
43 6 0.04
45 1 0.01
46 106 0.69
47 28 0.18
48 1 0.01
50 5 0.03
51 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52180122 original size:46 final size:45
Alignment explanation
Indices: 52180061--52180320 Score: 174
Period size: 46 Copynumber: 5.7 Consensus size: 45
52180051 GTACCGATAC
* *
52180061 CATGTCCAAGACATGGTCTTACACTGGCTCATATCTCAAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCAAGCCAATG
* *
52180107 CATGTCCCAGACATGGTCTT--AC-GACT-ATCATCTCGTAGCCAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTC-AAGCCAATG
* * ** * **
52180151 CATGTCCCAGACATGTCTTACACTCGCTTACGTCTCGATGCCAACA
1 CATGTCCCAGACATGTCTTACACTGGCTCATATCTC-AAGCCAATG
* * ***
52180197 CATGTCCCAGACATGTCTTACACTAGCAC-TCATCTCGTTCTCAATG
1 CATGTCCCAGACATGTCTTACACTGGCTCAT-ATCTCAAGC-CAATG
* * *
52180243 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAGAAT-GC-AGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGG--CTCA-TATCTCAAGCCAATG
* *
52180291 CATGTCCCAAACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTGGCTCA
52180321 CAATAACCCC
Statistics
Matches: 170, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 13 0.08
44 27 0.16
45 4 0.02
46 75 0.44
47 28 0.16
48 15 0.09
49 1 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGCCAATG
Found at i:52180295 original size:94 final size:93
Alignment explanation
Indices: 52180060--52180317 Score: 268
Period size: 94 Copynumber: 2.8 Consensus size: 93
52180050 GGTACCGATA
* *
52180060 CCATGTCCAAGACATGGTCTTACACTGGCTCAT-A-TCTCAAGCCGATGCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTACACTGGCTC-TCAGTATCAAGCCGATGCATGTCCCAGACAT-G
52180123 TCTTACGACT---ATCATCTCGTAGCCAATG
64 TCTTAC-ACTAGCATCATCTCGTAGCCAATG
* * * * **
52180151 -CATGTCCCAGACAT-GTCTTACACTCGCT-T-ACGTCTCGATGCCAACACATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCA-GTATC-AAGCCGATGCATGTCCCAGACATG
*
52180212 TCTTACACTAGCACTCATCTCGT-TCTCAATG
64 TCTTACACTAGCA-TCATCTCGTAGC-CAATG
* *
52180243 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAGAATGC-AGCCGATGCATGTCCCAAACATGT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAGTAT-CAAGCCGATGCATGTCCCAGACATGT
52180307 CTTACACTAGC
65 CTTACACTAGC
52180318 TCACAATAAC
Statistics
Matches: 139, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
87 2 0.01
88 3 0.02
89 24 0.17
90 32 0.23
91 2 0.01
92 14 0.10
93 14 0.10
94 43 0.31
95 3 0.02
96 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (93 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCAGTATCAAGCCGATGCATGTCCCAGACATGTC
TTACACTAGCATCATCTCGTAGCCAATG
Found at i:52185285 original size:46 final size:46
Alignment explanation
Indices: 52185235--52185322 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
52185225 ATAGAACATC
* *
52185235 TCAATTTCCAGCAACTAAACACTTCAATTTACAGTACTTAAACACT
1 TCAATTTACAGCAACTAAACACTTCAACTTACAGTACTTAAACACT
** * * *
52185281 TCAATTTACAGCATTTAAACACTTTAACTTACGGTGCTTAAA
1 TCAATTTACAGCAACTAAACACTTCAACTTACAGTACTTAAA
52185323 AAGGGCATTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (46 bp):
TCAATTTACAGCAACTAAACACTTCAACTTACAGTACTTAAACACT
Found at i:52185312 original size:23 final size:23
Alignment explanation
Indices: 52185235--52185304 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
52185225 ATAGAACATC
*
52185235 TCAATTTCCAGCAAC-TAAACACT
1 TCAATTTACAGC-ACTTAAACACT
*
52185258 TCAATTTACAGTACTTAAACACT
1 TCAATTTACAGCACTTAAACACT
*
52185281 TCAATTTACAGCATTTAAACACT
1 TCAATTTACAGCACTTAAACACT
52185304 T
1 T
52185305 TAACTTACGG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 2 0.05
23 40 0.95
ACGTcount: A:0.39, C:0.24, G:0.04, T:0.33
Consensus pattern (23 bp):
TCAATTTACAGCACTTAAACACT
Found at i:52185321 original size:23 final size:23
Alignment explanation
Indices: 52185250--52185322 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
52185240 TTCCAGCAAC
52185250 TAAACACTTCAATTTACAGTACT
1 TAAACACTTCAATTTACAGTACT
* *
52185273 TAAACACTTCAATTTACAGCATT
1 TAAACACTTCAATTTACAGTACT
* * * *
52185296 TAAACACTTTAACTTACGGTGCT
1 TAAACACTTCAATTTACAGTACT
52185319 TAAA
1 TAAA
52185323 AAGGGCATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (23 bp):
TAAACACTTCAATTTACAGTACT
Found at i:52188271 original size:20 final size:20
Alignment explanation
Indices: 52188242--52188322 Score: 58
Period size: 20 Copynumber: 4.0 Consensus size: 20
52188232 CCTTTATGGA
*
52188242 GCATTTTGTTAGCCTTTGTG
1 GCATTCTGTTAGCCTTTGTG
52188262 GCATTCTGTTA-CCTTTTGTG
1 GCATTCTGTTAGCC-TTTGTG
* * * ** *
52188282 ACATTATGATATGGTTTTTTTG
1 GCATTCTG-T-TAGCCTTTGTG
52188304 GCATTCTGTTAG-CTTTGTG
1 GCATTCTGTTAGCCTTTGTG
52188323 ACATACTATG
Statistics
Matches: 45, Mismatches: 12, Indels: 9
0.68 0.18 0.14
Matches are distributed among these distances:
19 7 0.16
20 24 0.53
21 2 0.04
22 12 0.27
ACGTcount: A:0.14, C:0.14, G:0.22, T:0.51
Consensus pattern (20 bp):
GCATTCTGTTAGCCTTTGTG
Found at i:52188675 original size:14 final size:15
Alignment explanation
Indices: 52188656--52188685 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
52188646 GTTTATTATA
52188656 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
52188670 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
52188685 T
1 T
52188686 CTAATTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:52190666 original size:43 final size:44
Alignment explanation
Indices: 52190616--52190720 Score: 151
Period size: 43 Copynumber: 2.4 Consensus size: 44
52190606 AATATTATTA
*
52190616 GGCTTCGAGCCTAGCAGGCTATAATGCAGATGAGATAATATC-G
1 GGCTTCGAGCCTAGCAGGCTATAATGCAGATGAAATAATATCAG
* *
52190659 GGCTTCGAGCCTAGCAGGCTATAATGCCGATGAAATGATATCAG
1 GGCTTCGAGCCTAGCAGGCTATAATGCAGATGAAATAATATCAG
* *
52190703 GCCTT-AAGCCTAGCAGGC
1 GGCTTCGAGCCTAGCAGGC
52190721 GAAATGCCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 51 0.91
44 5 0.09
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.22
Consensus pattern (44 bp):
GGCTTCGAGCCTAGCAGGCTATAATGCAGATGAAATAATATCAG
Found at i:52190810 original size:40 final size:40
Alignment explanation
Indices: 52190668--52190815 Score: 102
Period size: 40 Copynumber: 3.6 Consensus size: 40
52190658 GGGCTTCGAG
* * *
52190668 CCTAGCAGGCTATAATGCCGATGAAATG-ATATCAGGCCTT-AAG
1 CCTAGCAGGCTA-AATGCCGGTG--ATGAAT-TCA-GACTTAAAA
* * * *
52190711 CCTAGCAGGCGAAATGCCAGTGAATGAGTTCAGACTTAAAG
1 CCTAGCAGGCTAAATGCCGGTG-ATGAATTCAGACTTAAAA
* *** * **
52190752 TCTAGCAGGCTTCGTGCCGGTGATGAATTCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
52190792 CCTAGCAGGCTAAATGCCGGTGAT
1 CCTAGCAGGCTAAATGCCGGTGAT
52190816 TTGATAAAAG
Statistics
Matches: 83, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
40 37 0.45
41 26 0.31
42 9 0.11
43 11 0.13
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
CCTAGCAGGCTAAATGCCGGTGATGAATTCAGACTTAAAA
Found at i:52206513 original size:49 final size:48
Alignment explanation
Indices: 52206350--52206572 Score: 209
Period size: 50 Copynumber: 4.6 Consensus size: 48
52206340 AGAACCAGTA
* * * **** * *
52206350 TAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGAGCTAGCG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTAATAGCTAGTG
* * *
52206398 TAAGACCATGTTTGGGACATGGCATCGG-CACGTATATGTAAGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCG-AT-T-TAATAGCTAGTG
*
52206448 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTCAATAGTTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATTT-AATAGCTAGTG
* * * * **
52206497 TACGACCATGTTTGGGACATGGCATC-GACTTGA-TGGATAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTAAT-AGCTAGTG
52206544 TAAGACCATGTCTGGGACATGGCATCGGC
1 TAAGACCATGTCTGGGACATGGCATCGGC
52206573 ATTATACCCT
Statistics
Matches: 144, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
46 2 0.01
47 33 0.23
48 34 0.24
49 34 0.24
50 38 0.26
51 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTAATAGCTAGTG
Found at i:52206559 original size:96 final size:98
Alignment explanation
Indices: 52206303--52206574 Score: 294
Period size: 96 Copynumber: 2.8 Consensus size: 98
52206293 GTGTGCCAGT
* * * * *
52206303 GTAAGA-CATGTTTGGGACAT-GCATTGGCCACAT-TAT-G-AGAACCAGTATAAGACCATGTCT
1 GTAAGACCATGTTTGGGACATGGCATCGG-CACGTATATGGAAGAGCTAGTGTAAGACCATGTCT
* * *
52206363 AGGACATGGCATCGGCATTGAGACGAGAGCTAGC
65 GGGACATGGCATCGGCATCGAGACAAGAGCTAGC
*
52206397 GTAAGACCATGTTTGGGACATGGCATCGGCACGTATATGTAAGAGCTAGTGTAAGACCATGTCTG
1 GTAAGACCATGTTTGGGACATGGCATCGGCACGTATATGGAAGAGCTAGTGTAAGACCATGTCTG
* ** * * *
52206462 GGACATGGCATCGGCCTCGATTTCAATAGTTAGT
66 GGACATGGCATCGGCATCGA-GACAAGAGCTAGC
*
52206496 GTACGACCATGTTTGGGACATGGCATC-G-AC-T-TGATGGATA-AGCTAGTGTAAGACCATGTC
1 GTAAGACCATGTTTGGGACATGGCATCGGCACGTAT-ATGGA-AGAGCTAGTGTAAGACCATGTC
52206556 TGGGACATGGCATCGGCAT
64 TGGGACATGGCATCGGCAT
52206575 TATACCCTAT
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
94 6 0.04
95 19 0.12
96 52 0.34
97 3 0.02
98 39 0.26
99 33 0.22
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (98 bp):
GTAAGACCATGTTTGGGACATGGCATCGGCACGTATATGGAAGAGCTAGTGTAAGACCATGTCTG
GGACATGGCATCGGCATCGAGACAAGAGCTAGC
Found at i:52211702 original size:10 final size:10
Alignment explanation
Indices: 52211687--52211713 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52211677 TTTCGTGGGC
52211687 TTGGGCCATG
1 TTGGGCCATG
52211697 TTGGGCCATG
1 TTGGGCCATG
52211707 TTGGGCC
1 TTGGGCC
52211714 GAAATAAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.22, G:0.41, T:0.30
Consensus pattern (10 bp):
TTGGGCCATG
Found at i:52212119 original size:81 final size:81
Alignment explanation
Indices: 52211980--52212186 Score: 315
Period size: 81 Copynumber: 2.6 Consensus size: 81
52211970 CCCTAAAATA
* * * *
52211980 GGTAAAATGAACGTAATGCCCTTGTAGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCCTATAAGGTAAAATGAT
* *
52212045 TGTAATACCCCTGTAG
66 CGTAATACCCCTATAG
*
52212061 GGTAAAATGACCGCAATGCCCCTGTAGGGTAAAATAACCGTAATACCCCTATAAGGTAAAATGAT
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCCTATAAGGTAAAATGAT
52212126 CGTAATACCCCTATAG
66 CGTAATACCCCTATAG
* * * *
52212142 GGTAAAATAACCATAATGCCCCTGTAGGATAAAATGACCGTAATA
1 GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATA
52212187 TCTCTGTATT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
GGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATAACCGTAATACCCCTATAAGGTAAAATGAT
CGTAATACCCCTATAG
Found at i:52212194 original size:27 final size:27
Alignment explanation
Indices: 52211980--52212186 Score: 243
Period size: 27 Copynumber: 7.7 Consensus size: 27
52211970 CCCTAAAATA
* * *
52211980 GGTAAAATGAACGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
52212007 GGTAAAATAACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
**
52212034 GGTAAAATGATTGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
52212061 GGTAAAATGACCGCAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
52212088 GGTAAAATAACCGTAATACCCCTATAA
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
52212115 GGTAAAATGATCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
52212142 GGTAAAATAACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
52212169 GATAAAATGACCGTAATA
1 GGTAAAATGACCGTAATA
52212187 TCTCTGTATT
Statistics
Matches: 150, Mismatches: 30, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:52212613 original size:27 final size:26
Alignment explanation
Indices: 52212551--52212613 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
52212541 ATTACACTAT
* *
52212551 ACTGATACTGTATTGGGCTTAGGCCAC
1 ACTG-TACTGTATAGGGCTAAGGCCAC
* *
52212578 ACTATTACTGTATAGGGCTAAGGCCCAG
1 ACT-GTACTGTATAGGGCTAAGG-CCAC
52212606 ACTGTACT
1 ACTGTACT
52212614 AATACTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 23 0.79
28 6 0.21
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
ACTGTACTGTATAGGGCTAAGGCCAC
Found at i:52215368 original size:47 final size:46
Alignment explanation
Indices: 52215105--52215377 Score: 189
Period size: 47 Copynumber: 5.7 Consensus size: 46
52215095 TTATTTGTGT
52215105 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-AT-GAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G--AC-TTGATGGAGA
* * *
52215151 GCCAATGTGAGACCATGTCTGGGACATGGCATCGGCATTGA-GACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGATG--GAGA
* ** * * * *
52215199 GCTAGTGTAAGACTGTGTCTGGAACATGACATCGGCAC-GGATTTGTAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTTGA--TG-GAGA
* * * * * * *
52215249 GCTAGTGTAAGACCATGTCTAGGACATGACGTCGGCTTCGATTTTGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTT-GA--TGGAGA
* *
52215298 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGATGGATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGA-GA
52215345 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
52215378 TATATTATAC
Statistics
Matches: 178, Mismatches: 35, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
45 4 0.02
46 14 0.08
47 47 0.26
48 40 0.22
49 35 0.20
50 37 0.21
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGAGA
Found at i:52217635 original size:20 final size:20
Alignment explanation
Indices: 52217596--52217713 Score: 130
Period size: 22 Copynumber: 5.7 Consensus size: 20
52217586 TACTTTAATA
*
52217596 TAGCCTTTATGGCACATTCTGT
1 TAGCCTTTGTGG--CATTCTGT
*
52217618 TAGTCTTTGTGGCATTCTGAT
1 TAGCCTTTGTGGCATTCTG-T
*
52217639 ATAGCCTTTGTGGCATTCAGT
1 -TAGCCTTTGTGGCATTCTGT
52217660 TAGCCTTTGTGGCATTCTGAT
1 TAGCCTTTGTGGCATTCTG-T
* *
52217681 ATGGCCTTTCTGGCATTCTGT
1 -TAGCCTTTGTGGCATTCTGT
52217702 TAG-CTTTGTGGC
1 TAGCCTTTGTGGC
52217714 GTACTATGTA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
19 8 0.10
20 27 0.33
21 4 0.05
22 44 0.53
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.42
Consensus pattern (20 bp):
TAGCCTTTGTGGCATTCTGT
Found at i:52217669 original size:42 final size:41
Alignment explanation
Indices: 52217593--52217713 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 41
52217583 GCTTACTTTA
52217593 ATATAGCCTTTATGGCACATTCTGTTAGTCTTTGTGGCATTCTG
1 ATATAGCCTTTATGG--CATTCTGTTAG-CTTTGTGGCATTCTG
* *
52217637 ATATAGCCTTTGTGGCATTCAGTTAGCCTTTGTGGCATTCTG
1 ATATAGCCTTTATGGCATTCTGTTAG-CTTTGTGGCATTCTG
* *
52217679 ATATGGCCTTTCTGGCATTCTGTTAGCTTTGTGGC
1 ATATAGCCTTTATGGCATTCTGTTAGCTTTGTGGC
52217714 GTACTATGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
41 9 0.13
42 48 0.68
44 14 0.20
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (41 bp):
ATATAGCCTTTATGGCATTCTGTTAGCTTTGTGGCATTCTG
Found at i:52217733 original size:25 final size:27
Alignment explanation
Indices: 52217705--52217768 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
52217695 ATTCTGTTAG
*
52217705 CTTTGTGGCGTACTATGTATA-ATT-C
1 CTTTGTGGCGTACTATCTATATATTGC
* * *
52217730 CTTTATGGTGTA--ATCTATATGTTGC
1 CTTTGTGGCGTACTATCTATATATTGC
52217755 CTTTGTGGCGTACT
1 CTTTGTGGCGTACT
52217769 CTTTCTGGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
23 6 0.21
24 2 0.07
25 21 0.72
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (27 bp):
CTTTGTGGCGTACTATCTATATATTGC
Found at i:52218806 original size:16 final size:17
Alignment explanation
Indices: 52218780--52218811 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52218770 ATGCCCATCT
52218780 ATAGTTTTATTTTCATG
1 ATAGTTTTATTTTCATG
52218797 ATAG-TTTATTTTCAT
1 ATAGTTTTATTTTCAT
52218812 ATTGTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.59
Consensus pattern (17 bp):
ATAGTTTTATTTTCATG
Found at i:52221047 original size:17 final size:17
Alignment explanation
Indices: 52221025--52221062 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
52221015 ACACTTATTG
*
52221025 TAATTAA-CTAAATTAA
1 TAATTAACCAAAATTAA
52221041 CTAATTAACCAAAATTAA
1 -TAATTAACCAAAATTAA
52221059 TAAT
1 TAAT
52221063 ATACATTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
TAATTAACCAAAATTAA
Found at i:52221886 original size:22 final size:22
Alignment explanation
Indices: 52221861--52221903 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
52221851 TCTCCCTATT
52221861 TTGCTACCATTTTACTATTATG
1 TTGCTACCATTTTACTATTATG
* *
52221883 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTTACTATTAT
52221904 TTGGATATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTTACTATTATG
Found at i:52221966 original size:30 final size:30
Alignment explanation
Indices: 52221930--52221992 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
52221920 ACTTATTTTA
52221930 TTGTTAATTTTATTATTATTTTAAAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
* * *
52221960 TTGTTAATTTTGTTATTATTTTAGAGGTAT
1 TTGTTAATTTTATTATTATTTTAAAGGCAT
52221990 TTG
1 TTG
52221993 CTTGTTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGGCAT
Found at i:52228830 original size:7 final size:7
Alignment explanation
Indices: 52228808--52228845 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
52228798 CACTAACAAA
*
52228808 TTTTGAT
1 TTTTTAT
52228815 TTCTTTAT
1 TT-TTTAT
52228823 TTTTTAT
1 TTTTTAT
52228830 TTTTTAT
1 TTTTTAT
52228837 TTTTTAT
1 TTTTTAT
52228844 TT
1 TT
52228846 CTAACACTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:52228835 original size:14 final size:15
Alignment explanation
Indices: 52228808--52228847 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
52228798 CACTAACAAA
*
52228808 TTTTGATTTCTTTAT
1 TTTTTATTTCTTTAT
52228823 TTTTTATTT-TTTAT
1 TTTTTATTTCTTTAT
52228837 TTTTTATTTCT
1 TTTTTATTTCT
52228848 AACACTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.61
15 9 0.39
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTATTTCTTTAT
Found at i:52229625 original size:19 final size:21
Alignment explanation
Indices: 52229587--52229625 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52229577 CACCCACGCC
52229587 ACACGCCCGTGCTCGCCACCA
1 ACACGCCCGTGCTCGCCACCA
*
52229608 ACACGCTCGTG-T-GCCACC
1 ACACGCCCGTGCTCGCCACC
52229626 CTACAGCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 10 0.59
ACGTcount: A:0.18, C:0.49, G:0.21, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGCTCGCCACCA
Found at i:52231145 original size:6 final size:6
Alignment explanation
Indices: 52231134--52231166 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
52231124 TCCTCTTATC
*
52231134 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
52231167 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:52231172 original size:18 final size:18
Alignment explanation
Indices: 52231134--52231173 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
52231124 TCCTCTTATC
* **
52231134 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
52231152 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
52231170 TTTT
1 TTTT
52231174 ATTATTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:52234117 original size:13 final size:13
Alignment explanation
Indices: 52234099--52234127 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
52234089 CTTAGTTTAA
52234099 TTAGTTAATTAGT
1 TTAGTTAATTAGT
52234112 TTAGTTAATTAGT
1 TTAGTTAATTAGT
52234125 TTA
1 TTA
52234128 ATAAACAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:52238060 original size:42 final size:41
Alignment explanation
Indices: 52237885--52238060 Score: 138
Period size: 42 Copynumber: 4.2 Consensus size: 41
52237875 GATATGGAAT
* * * *
52237885 TGGCATT-AGTATGAGTTATCATGTAAGATCATATCTTGGATA
1 TGGCATTGA-TATGAGAT-TCATGTAAGACCATATCTGGGACA
* * * **
52237927 TGGCGTTTATATGAGATTTCGTGTAAGACCATGCCTGGGACA
1 TGGCATTGATATGAGA-TTCATGTAAGACCATATCTGGGACA
* * * * * *
52237969 TGGCGTCGAAATGAGAATTCGTATAAGACCATATCTGGGATA
1 TGGCATTGATATGAG-ATTCATGTAAGACCATATCTGGGACA
* * *
52238011 TGACATTGATGTGAGATTCCATGTAAGACCATGTCTGGGACA
1 TGGCATTGATATGAGATT-CATGTAAGACCATATCTGGGACA
52238053 TGGCATTG
1 TGGCATTG
52238061 GCATCTTATT
Statistics
Matches: 105, Mismatches: 25, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 3 0.03
42 99 0.94
43 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (41 bp):
TGGCATTGATATGAGATTCATGTAAGACCATATCTGGGACA
Found at i:52246422 original size:38 final size:38
Alignment explanation
Indices: 52246380--52246458 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
52246370 TGTTTATTCC
52246380 AATTCCATTATGATATGGCCTATGGTTATTGATGATTG
1 AATTCCATTATGATATGGCCTATGGTTATTGATGATTG
52246418 AATTCCATTATGATATGGCCTATGGTTATTGATGATTG
1 AATTCCATTATGATATGGCCTATGGTTATTGATGATTG
52246456 AAT
1 AAT
52246459 GTTGATGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (38 bp):
AATTCCATTATGATATGGCCTATGGTTATTGATGATTG
Found at i:52249532 original size:27 final size:27
Alignment explanation
Indices: 52249501--52249607 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
52249491 TAGAATACTT
*
52249501 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
** *
52249528 TAGTTTGTAAAATTACCGAAATA-CCC
1 TAGTTTACAAAATTACCAAAATACCCC
* ** *
52249554 TCAATTTGTAAAATTACCAAAATCCCCC
1 T-AGTTTACAAAATTACCAAAATACCCC
52249582 T-GATTTACAAAATTA-CAGAAATACCC
1 TAG-TTTACAAAATTACCA-AAATACCC
52249608 TTGACTTTCT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.09
27 55 0.85
28 4 0.06
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:52249659 original size:27 final size:28
Alignment explanation
Indices: 52249619--52249670 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
52249609 TGACTTTCTA
*
52249619 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACTAGAAATACCCTTGGTTTAC
52249646 AAAATTACTA-AAATACCCTTGGTTT
1 AAAATTACTAGAAATACCCTTGGTTT
52249671 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (28 bp):
AAAATTACTAGAAATACCCTTGGTTTAC
Found at i:52249788 original size:27 final size:27
Alignment explanation
Indices: 52249724--52249788 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
52249714 ACCCCTAATA
*
52249724 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * * *
52249751 GGCAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
52249778 GGTAAAATGAC
1 GGTAAAATGAC
52249789 GAATATGCCC
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:52250659 original size:27 final size:26
Alignment explanation
Indices: 52250615--52250666 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52250605 CTCGCTGCAA
*
52250615 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
52250642 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
52250667 GCAGTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:52250733 original size:70 final size:67
Alignment explanation
Indices: 52250596--52250736 Score: 176
Period size: 70 Copynumber: 2.1 Consensus size: 67
52250586 GAGGAAGCAT
* * * *
52250596 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAA
52250661 TA
66 TA
* * *
52250663 TCTGGCAGTCTCGCTG-AATCTGGTGGCTTCGCCACATATATATATCTATTCTGGTGGCCTAGCC
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC----ATATATCTATTCTGGTGACCTAGCC
52250727 ACAATA
62 ACAATA
52250733 TCTG
1 TCTG
52250737 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
66 18 0.29
67 15 0.24
70 30 0.48
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTATTCTGGTGACCTAGCCACAA
TA
Found at i:52250897 original size:6 final size:6
Alignment explanation
Indices: 52250888--52251062 Score: 110
Period size: 6 Copynumber: 28.3 Consensus size: 6
52250878 TCACATTCAC
** *
52250888 ATTCTG ATTCTG -TTACCTG ACACTG ATTCTG ATTCT- ATTACCTA ATTCTG
1 ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
52250938 ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTA ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
52250987 -TTACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
52251037 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
52251063 AATGTTTCTT
Statistics
Matches: 131, Mismatches: 21, Indels: 34
0.70 0.11 0.18
Matches are distributed among these distances:
5 11 0.08
6 99 0.76
7 14 0.11
8 7 0.05
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:52250922 original size:25 final size:25
Alignment explanation
Indices: 52250888--52250949 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
52250878 TCACATTCAC
*
52250888 ATTCTGATTCTGTTACCTGACACTG
1 ATTCTGATTCTGTTACCTAACACTG
* **
52250913 ATTCTGATTCTATTACCTAATTCTG
1 ATTCTGATTCTGTTACCTAACACTG
*
52250938 ATTCTGGTTCTG
1 ATTCTGATTCTG
52250950 ATTCTGATTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTAACACTG
Found at i:52250952 original size:37 final size:37
Alignment explanation
Indices: 52250910--52250986 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
52250900 TTACCTGACA
* * *
52250910 CTGATTCTGATTCTATTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTATTACCTAATACTAATTCTGATT
* *
52250947 CTGATTCTGATTCTGTTACCTGATACTAATTCTGATT
1 CTGATTCTGATTCTATTACCTAATACTAATTCTGATT
52250984 CTG
1 CTG
52250987 TTACCTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTATTACCTAATACTAATTCTGATT
Found at i:52250980 original size:25 final size:25
Alignment explanation
Indices: 52250950--52251011 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
52250940 TCTGGTTCTG
*
52250950 ATTCTGATTCTGTTACCTGATACTA
1 ATTCTGATTCTGTTACCTAATACTA
* *
52250975 ATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGTTACCTAATACTA
52251000 ATTCTGATTCTG
1 ATTCTGATTCTG
52251012 ATTTTGATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTAATACTA
Found at i:52250985 original size:62 final size:62
Alignment explanation
Indices: 52250888--52251041 Score: 245
Period size: 62 Copynumber: 2.5 Consensus size: 62
52250878 TCACATTCAC
* *
52250888 ATTCTGATTCTGTTACCTGACACTGATTCTGATTCTATTACCTAATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGATTCTG
* *
52250950 ATTCTGATTCTGTTACCTGATACTAATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTG
1 ATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGATTCTG
* * *
52251012 ATTTTGATTCTGTCACCTGATTCTGATTCT
1 ATTCTGATTCTGTTACCTGATACTGATTCT
52251042 CATTTTGATT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 84 1.00
ACGTcount: A:0.19, C:0.20, G:0.14, T:0.47
Consensus pattern (62 bp):
ATTCTGATTCTGTTACCTGATACTGATTCTGATTCTATTACCTAATTCTGATTCTGATTCTG
Found at i:52251007 original size:37 final size:37
Alignment explanation
Indices: 52250966--52251041 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
52250956 ATTCTGTTAC
*
52250966 CTGATACTAATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATACTAATTCTGATTCTGTCACCTAATTCTGATT
* * * *
52251003 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATACTAATTCTGATTCTGTCACCTAATTCTGATT
52251040 CT
1 CT
52251042 CATTTTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (37 bp):
CTGATACTAATTCTGATTCTGTCACCTAATTCTGATT
Found at i:52251032 original size:31 final size:31
Alignment explanation
Indices: 52250888--52251053 Score: 133
Period size: 31 Copynumber: 5.4 Consensus size: 31
52250878 TCACATTCAC
* **
52250888 ATTCTGATTCTGTTACCTGACACTGATTCTG
1 ATTCTGATTCTGTAACCTGATTCTGATTCTG
* * *
52250919 ATTCT-ATTAC-CTAATTCTGATTCTGGTTCTG
1 ATTCTGATT-CTGTAA-CCTGATTCTGATTCTG
* * *
52250950 ATTCTGATTCTGTTACCTGATACTAATTCTG
1 ATTCTGATTCTGTAACCTGATTCTGATTCTG
* *
52250981 ATTCTG-TTAC-CTAATTCTGATTCTGATTCTG
1 ATTCTGATT-CTGTAA-CCTGATTCTGATTCTG
* * *
52251012 ATTTTGATTCTGTCACCTGATTCTGATTCTC
1 ATTCTGATTCTGTAACCTGATTCTGATTCTG
*
52251043 ATTTTGATTCT
1 ATTCTGATTCT
52251054 AGTTCTGATA
Statistics
Matches: 105, Mismatches: 22, Indels: 16
0.73 0.15 0.11
Matches are distributed among these distances:
30 9 0.09
31 87 0.83
32 9 0.09
ACGTcount: A:0.19, C:0.20, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGTAACCTGATTCTGATTCTG
Found at i:52251051 original size:37 final size:37
Alignment explanation
Indices: 52250979--52251051 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
52250969 ATACTAATTC
* *
52250979 TGATTCTGTTACCTAATTCTGATTCTGATTCTGATTT
1 TGATTCTGTCACCTAATTCTGATTCTCATTCTGATTT
* *
52251016 TGATTCTGTCACCTGATTCTGATTCTCATTTTGATT
1 TGATTCTGTCACCTAATTCTGATTCTCATTCTGATT
52251052 CTAGTTCTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.51
Consensus pattern (37 bp):
TGATTCTGTCACCTAATTCTGATTCTCATTCTGATTT
Found at i:52251060 original size:37 final size:37
Alignment explanation
Indices: 52250980--52251060 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
52250970 TACTAATTCT
* * *
52250980 GATTCTGTTACCTAATTCTGATTCTGATTCTGATTTT
1 GATTCTGTCACCTAATTCTGATTCTCATTCTGATTTA
* *
52251017 GATTCTGTCACCTGATTCTGATTCTCATTTTGATTCTA
1 GATTCTGTCACCTAATTCTGATTCTCATTCTGATT-TA
52251055 G-TTCTG
1 GATTCTG
52251061 ATAATGTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (37 bp):
GATTCTGTCACCTAATTCTGATTCTCATTCTGATTTA
Found at i:52254407 original size:40 final size:40
Alignment explanation
Indices: 52254332--52254542 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
52254322 TCTTCAGAAT
* * * *
52254332 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
52254371 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
52254411 TTAGCCCAGAT-ATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
52254451 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
52254491 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
52254531 TTAGCCCGGATA
1 TTAGCCCGGATA
52254543 TCATTCAAAT
Statistics
Matches: 152, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 5 0.03
40 143 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:52257474 original size:43 final size:43
Alignment explanation
Indices: 52257424--52257574 Score: 187
Period size: 43 Copynumber: 3.5 Consensus size: 43
52257414 TACCCCGAAT
* * *
52257424 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
* ** * * * *
52257467 AGGGTCTTTTACGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
*
52257510 ATGGTCTTACATGTAATCACA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCAGAC
52257553 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
52257575 CTCGGCAATC
Statistics
Matches: 88, Mismatches: 18, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
42 1 0.01
43 87 0.99
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:52267020 original size:43 final size:42
Alignment explanation
Indices: 52266977--52267198 Score: 230
Period size: 43 Copynumber: 5.2 Consensus size: 42
52266967 TGAAAAAAAT
** * * *
52266977 GCCGCTAAAGACCAAAACCTTTAACGGCGCATTTTTCGCAAAT
1 GCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTCACAAAC
* * * * *
52267020 GCCGCTAAAGACTAGGACTTTTAGCGGCGC-TTTTAAAAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCACAAAC
* * * ** * *
52267061 GCCACTAAAAACCATGACTTTTAGTAGCACTTTTTTCCCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTCACAAAC
* *
52267104 GCCGCTAAAAACCATGACCTTTAGCGGCGCTTTTTAAGCAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCA-CAAAC
52267147 GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTTCACAAAC
52267190 GCCGCTAAA
1 GCCGCTAAA
52267199 AACAATGATC
Statistics
Matches: 147, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
41 30 0.20
42 5 0.03
43 106 0.72
44 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (42 bp):
GCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCACAAAC
Found at i:52267180 original size:86 final size:84
Alignment explanation
Indices: 52266970--52267206 Score: 276
Period size: 84 Copynumber: 2.8 Consensus size: 84
52266960 ATTTTTTTGA
* ** * * * * * * *
52266970 AAAAAATGCCGCTAAAGACCAAAACCTTTAACGGCGCATTTTTCGCAAATGCCGCTAAAGACTAG
1 AAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAACAAT
*
52267035 GACTTTTAGCGGCGCTTTT
66 GACCTTTAGCGGCGCTTTT
* * * ** * * *
52267054 AAAAAACGCCACTAAAAACCATGACTTTTAGTAGCACTTTTTTCCCAAACGCCGCTAAAAACCAT
1 AAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAACAAT
52267119 GACCTTTAGCGGCGCTTTTT
66 GACCTTTAGCGGCGC-TTTT
*
52267139 AAGCAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAACAA
1 AA-AAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAACAA
52267204 TGA
65 TGA
52267207 TCTTAAAAAA
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
84 63 0.50
85 6 0.05
86 56 0.45
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAAACAAT
GACCTTTAGCGGCGCTTTT
Found at i:52267546 original size:17 final size:18
Alignment explanation
Indices: 52267519--52267552 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
52267509 ATGCCAAAAT
52267519 GTTGAACTCCACATTCCA
1 GTTGAACTCCACATTCCA
*
52267537 GTTG-ACTCCATATTCC
1 GTTGAACTCCACATTCC
52267553 CCCACATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (18 bp):
GTTGAACTCCACATTCCA
Found at i:52268865 original size:20 final size:20
Alignment explanation
Indices: 52268840--52268880 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
52268830 CAGGACAGAT
52268840 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
52268860 AGCAAAATTTTACCAATAAG
1 AGCAAAATTTTACCAATAAG
52268880 A
1 A
52268881 TTTATAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (20 bp):
AGCAAAATTTTACCAATAAG
Found at i:52271312 original size:8 final size:8
Alignment explanation
Indices: 52271299--52271326 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
52271289 TAGTCATTGT
52271299 AATTTTGA
1 AATTTTGA
52271307 AATTTTGA
1 AATTTTGA
52271315 AATTTTGA
1 AATTTTGA
52271323 AATT
1 AATT
52271327 GTAGTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (8 bp):
AATTTTGA
Found at i:52271530 original size:22 final size:21
Alignment explanation
Indices: 52271496--52271544 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
52271486 CATAAACACT
*
52271496 AACCCTTGAACCTTTAACCCC
1 AACCCTTGAACCTTAAACCCC
*
52271517 AAACCCTT-ACACCTTAAACTCC
1 -AACCCTTGA-ACCTTAAACCCC
52271539 AACCCT
1 AACCCT
52271545 AACCCCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (21 bp):
AACCCTTGAACCTTAAACCCC
Found at i:52271624 original size:21 final size:22
Alignment explanation
Indices: 52271600--52271680 Score: 94
Period size: 21 Copynumber: 3.6 Consensus size: 22
52271590 ACTCCTAAAC
52271600 CTTAAACCCTAAACT-ATATAT
1 CTTAAACCCTAAACTCATATAT
* * *
52271621 CTTAAACCATAGTTAACTCATAAAC
1 CTTAAACCCTA---AACTCATATAT
52271646 CTTAAACCCTAAA-TCATATAT
1 CTTAAACCCTAAACTCATATAT
52271667 CTTAAACCCTAAAC
1 CTTAAACCCTAAAC
52271681 CTTAAACTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 29 0.59
22 2 0.04
24 4 0.08
25 14 0.29
ACGTcount: A:0.43, C:0.26, G:0.01, T:0.30
Consensus pattern (22 bp):
CTTAAACCCTAAACTCATATAT
Found at i:52271637 original size:46 final size:46
Alignment explanation
Indices: 52271584--52271674 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
52271574 CTTCAAATAC
*
52271584 TAGTTAACTCCTAAACCTTAAACCCTAAA-CTATATATCTTAAACCA
1 TAGTTAACTCATAAACCTTAAACCCTAAATC-ATATATCTTAAACCA
52271630 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
1 TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACC
52271675 CTAAACCTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 42 0.98
47 1 0.02
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (46 bp):
TAGTTAACTCATAAACCTTAAACCCTAAATCATATATCTTAAACCA
Found at i:52271731 original size:25 final size:25
Alignment explanation
Indices: 52271697--52271746 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
52271687 CTATAATGAT
52271697 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
52271722 AATTAATTCGATATTTTAAATTCAA
1 AATTAATTCGATATTTTAAATTCAA
52271747 TACTATCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (25 bp):
AATTAATTCGATATTTTAAATTCAA
Found at i:52271969 original size:40 final size:41
Alignment explanation
Indices: 52271875--52272042 Score: 248
Period size: 41 Copynumber: 4.1 Consensus size: 41
52271865 GTTATATGAC
* * *
52271875 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
52271916 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* *
52271956 TTTTAGCGGCGTTTTTCCAAAAGTGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* *
52271997 TTTTAGCGGTGTTTTGCCAAAAGCGCCGCTATTGCTCTGTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTG-GT
52272039 TTTT
1 TTTT
52272043 CAATTTTTGC
Statistics
Matches: 114, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 37 0.32
41 71 0.62
42 6 0.05
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:52272011 original size:81 final size:82
Alignment explanation
Indices: 52271875--52272041 Score: 275
Period size: 81 Copynumber: 2.0 Consensus size: 82
52271865 GTTATATGAC
* *
52271875 TTTTAGTGGCGTTTTGTCGAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
52271940 GCCGCTATTGCTCTGT-
66 GCCGCTATTGCTCTGTG
* *
52271956 TTTTAGCGGCGTTTT-TCCAAAAGTGCCGCTAATGCTCTGGTTTTTAGCGGTGTTTTGCCAAAAG
1 TTTTAGCGGCGTTTTGT-CAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAG
52272020 CGCCGCTATTGCTCTGTG
65 CGCCGCTATTGCTCTGTG
52272038 TTTT
1 TTTT
52272042 TCAATTTTTG
Statistics
Matches: 80, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 75 0.94
82 4 0.05
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.38
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTGTCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTGCCAAAAGC
GCCGCTATTGCTCTGTG
Found at i:52279550 original size:119 final size:120
Alignment explanation
Indices: 52279344--52279566 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
52279334 TCCTCGTTCA
*
52279344 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* *
52279409 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * ** *
52279464 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* * *
52279526 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
52279567 CATCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:52279566 original size:40 final size:40
Alignment explanation
Indices: 52279342--52279566 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
52279332 ACTCCTCGTT
* *
52279342 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
52279382 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
52279422 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
52279462 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
52279501 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
52279542 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52279567 CATCATTCAA
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 117 0.72
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52283403 original size:23 final size:23
Alignment explanation
Indices: 52283377--52283430 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
52283367 TCCATTTTAA
*
52283377 CCTAACGCTTCTCTTTTAAAAAC
1 CCTAACCCTTCTCTTTTAAAAAC
52283400 CCTAACCCTTCTCTTTTAAAAAC
1 CCTAACCCTTCTCTTTTAAAAAC
*
52283423 CCCAACCC
1 CCTAACCC
52283431 CTCTTCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.39, G:0.02, T:0.30
Consensus pattern (23 bp):
CCTAACCCTTCTCTTTTAAAAAC
Found at i:52286687 original size:22 final size:23
Alignment explanation
Indices: 52286642--52286692 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
52286632 TATATAAAAA
*
52286642 AAAATTTATATAAATTTAATTAT
1 AAAATATATATAAATTTAATTAT
52286665 AAAATATATA-AAATATTAA-TAT
1 AAAATATATATAAAT-TTAATTAT
52286687 AAAATA
1 AAAATA
52286693 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.50
23 13 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAAATATATATAAATTTAATTAT
Found at i:52287688 original size:7 final size:7
Alignment explanation
Indices: 52287676--52287719 Score: 79
Period size: 7 Copynumber: 6.1 Consensus size: 7
52287666 TTTAATATAT
52287676 AAATTTA
1 AAATTTA
52287683 AAATTTA
1 AAATTTA
52287690 AAATTTA
1 AAATTTA
52287697 AAATTTA
1 AAATTTA
52287704 AAATTTA
1 AAATTTA
52287711 AAATATTA
1 AAAT-TTA
52287719 A
1 A
52287720 CATAAATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 32 0.89
8 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAATTTA
Found at i:52288586 original size:26 final size:26
Alignment explanation
Indices: 52288557--52288615 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
52288547 TAATATTATT
52288557 TTTTTATTTATTTAGAGTATTATAAA
1 TTTTTATTTATTTAGAGTATTATAAA
52288583 TTTTTATTTATTTAGAGTATTATAAA
1 TTTTTATTTATTTAGAGTATTATAAA
52288609 TTTTTAT
1 TTTTTAT
52288616 ATAAACTACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (26 bp):
TTTTTATTTATTTAGAGTATTATAAA
Found at i:52306588 original size:21 final size:20
Alignment explanation
Indices: 52306547--52306588 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
52306537 TCGTTTATAC
*
52306547 ATATTAAATTTTTTAGATTT
1 ATATTAAATTTTTAAGATTT
*
52306567 ATATTAAATGTTTTAAGGTTT
1 ATATTAAAT-TTTTAAGATTT
52306588 A
1 A
52306589 AAATAGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (20 bp):
ATATTAAATTTTTAAGATTT
Found at i:52308711 original size:40 final size:38
Alignment explanation
Indices: 52308667--52308818 Score: 110
Period size: 40 Copynumber: 3.8 Consensus size: 38
52308657 AAACAAGTTT
52308667 TTAGCGGCGTTTGGATAAAAACGCCGCTATAGATCGAGCA
1 TTAGCGGCGTTT--ATAAAAACGCCGCTATAGATCGAGCA
* * * *
52308707 TTAGCGGTGCTTATTGAAAAATGCCGCTATAGATCGACCA
1 TTAGCGGCGTTTA-T-AAAAACGCCGCTATAGATCGAGCA
* *
52308747 TT-GACAGTGC-TTTTTAAAAGACGCCGCTATAGATCGAGTA
1 TTAG-C-G-GCGTTTATAAAA-ACGCCGCTATAGATCGAGCA
* * * *
52308787 TTTGCGGCGCTTTTTGAAAAATGCCGCAATAG
1 TTAGCGGCG-TTTAT-AAAAACGCCGCTATAG
52308819 CAATTAAGGA
Statistics
Matches: 90, Mismatches: 12, Indels: 20
0.74 0.10 0.16
Matches are distributed among these distances:
38 3 0.03
39 7 0.08
40 71 0.79
41 8 0.09
42 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (38 bp):
TTAGCGGCGTTTATAAAAACGCCGCTATAGATCGAGCA
Found at i:52308955 original size:15 final size:14
Alignment explanation
Indices: 52308928--52308967 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
52308918 ATTTTATTTG
52308928 CCCCAAATCCCCTT
1 CCCCAAATCCCCTT
*
52308942 CCCCGAAATTCCCTT
1 CCCC-AAATCCCCTT
*
52308957 CCCCATATCCC
1 CCCCAAATCCC
52308968 TAACACAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.20, C:0.55, G:0.03, T:0.23
Consensus pattern (14 bp):
CCCCAAATCCCCTT
Found at i:52311878 original size:35 final size:35
Alignment explanation
Indices: 52311810--52311875 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
52311800 TAATTGTGTT
52311810 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
* *
52311845 ATTAATTT-TTATATTT-AGTTTTAAATTTAAA
1 ATTAATTTATTAT-TTTAAATTCTAAATTTAAA
52311876 ATTTTAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 17 0.61
35 11 0.39
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (35 bp):
ATTAATTTATTATTTTAAATTCTAAATTTAAATTC
Found at i:52312122 original size:43 final size:43
Alignment explanation
Indices: 52311966--52312248 Score: 320
Period size: 43 Copynumber: 6.6 Consensus size: 43
52311956 ATATATTTTT
* * * *
52311966 TAAAGGTCATGTTCTTTAGCGGTGTTTGTGAGAAAAAGTGCTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTG-GAAAAAGCGCCGC
* * * * * *
52312010 TAAAGGTC-TATTCTATAGTGGCATTTTTGGCAAAAGCGCCTC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * *
52312052 GAAAGGTC-TGTTCTATAGCGGCGTTTGTGGGAAAAGCACCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * * *
52312094 TAAAGGTCATCTTCTTTAGCGGCGTTTGTGG-TAAAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* * ** *
52312136 TAAAGGTCATGTTCTAAAGCGGCTTTTGTGGAAAAAGTACTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
* *
52312179 TAAAGGTCATGTTCTATAGCGGCGTTTGTGAAAAAAGCGCTGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
52312222 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
52312249 TTTTACATAA
Statistics
Matches: 201, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
42 85 0.42
43 108 0.54
44 8 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGCGCCGC
Found at i:52312149 original size:85 final size:85
Alignment explanation
Indices: 52311966--52312248 Score: 345
Period size: 85 Copynumber: 3.3 Consensus size: 85
52311956 ATATATTTTT
* * * *
52311966 TAAAGGTCATGTTCTTTAGCGGTGTTTGTGAGAAAAAGTGCTGCTAAAGGTC-TATTCTATAGTG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTG-GAAAAAGTACTGCTAAAGGTCATATTCTATAGCG
* * *
52312030 GCATTTTTGGCAAAAGCGCCTC
65 GCGTTTGTGG-AAAAGCGCCGC
* * * * * *
52312052 GAAAGGTC-TGTTCTATAGCGGCGTTTGTGGGAAAAGCACCGCTAAAGGTCATCTTCTTTAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTACTGCTAAAGGTCATATTCTATAGCGG
* *
52312116 CGTTTGTGGTAAAGTGCCGC
66 CGTTTGTGGAAAAGCGCCGC
* * *
52312136 TAAAGGTCATGTTCTAAAGCGGCTTTTGTGGAAAAAGTACTGCTAAAGGTCATGTTCTATAGCGG
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTACTGCTAAAGGTCATATTCTATAGCGG
* *
52312201 CGTTTGTGAAAAAAGCGCTGC
66 CGTTTGTG-GAAAAGCGCCGC
52312222 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTATAGCGGCGTTT
52312249 TTTTACATAA
Statistics
Matches: 165, Mismatches: 29, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
84 32 0.19
85 93 0.56
86 40 0.24
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (85 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGAAAAAGTACTGCTAAAGGTCATATTCTATAGCGG
CGTTTGTGGAAAAGCGCCGC
Found at i:52312194 original size:128 final size:128
Alignment explanation
Indices: 52311966--52312248 Score: 358
Period size: 128 Copynumber: 2.2 Consensus size: 128
52311956 ATATATTTTT
* * * *
52311966 TAAAGGTCATGTTCTTTAGCGGTGTTTGTGAGAAAAAGTGCTGCTAAAGGTCTATTCTATAGTGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAAGTGCCGCTAAAGGTCTATTCTAAAGCGG
* * **
52312031 CATTTTTGGCAAAAGCGCCTCGAAAGGTCTGTTCTATAGCGGCGTTTGTGGGAAAAGCACCGC
66 CATTTTTGGAAAAAGCGACTCGAAAGGTCTGTTCTATAGCGGCGTTTGTGAAAAAAGCACCGC
* * *
52312094 TAAAGGTCATCTTCTTTAGCGGCGTTTGTG-G-TAAAGTGCCGCTAAAGGTCATGTTCTAAAGCG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAAGTGCCGCTAAAGGTC-TATTCTAAAGCG
* * * *
52312157 GC-TTTTGTGGAAAAAG-TACTGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGAAAAAAGCGCT
65 GCATTTT-TGGAAAAAGCGACT-CGAAAGGTC-TGTTCTATAGCGGCGTTTGTGAAAAAAGCACC
52312220 GC
127 GC
*
52312222 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
52312249 TTTTACATAA
Statistics
Matches: 134, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
126 23 0.17
127 28 0.21
128 83 0.62
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (128 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAAGTGCCGCTAAAGGTCTATTCTAAAGCGG
CATTTTTGGAAAAAGCGACTCGAAAGGTCTGTTCTATAGCGGCGTTTGTGAAAAAAGCACCGC
Found at i:52312765 original size:113 final size:113
Alignment explanation
Indices: 52312567--52312792 Score: 452
Period size: 113 Copynumber: 2.0 Consensus size: 113
52312557 ATGTGAGCTT
52312567 GTTTTTATCTATTTTATGTTATATTTAGCTAGTTCATATTCTACTACCACAAAATCTGCTAATAT
1 GTTTTTATCTATTTTATGTTATATTTAGCTAGTTCATATTCTACTACCACAAAATCTGCTAATAT
52312632 AAATTCTATACCCATGCTTAATGGGACTAACTTCAAGGAAAGGAAAAG
66 AAATTCTATACCCATGCTTAATGGGACTAACTTCAAGGAAAGGAAAAG
52312680 GTTTTTATCTATTTTATGTTATATTTAGCTAGTTCATATTCTACTACCACAAAATCTGCTAATAT
1 GTTTTTATCTATTTTATGTTATATTTAGCTAGTTCATATTCTACTACCACAAAATCTGCTAATAT
52312745 AAATTCTATACCCATGCTTAATGGGACTAACTTCAAGGAAAGGAAAAG
66 AAATTCTATACCCATGCTTAATGGGACTAACTTCAAGGAAAGGAAAAG
52312793 ATATTTCCTT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 113 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (113 bp):
GTTTTTATCTATTTTATGTTATATTTAGCTAGTTCATATTCTACTACCACAAAATCTGCTAATAT
AAATTCTATACCCATGCTTAATGGGACTAACTTCAAGGAAAGGAAAAG
Found at i:52322194 original size:28 final size:29
Alignment explanation
Indices: 52322147--52322202 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
52322137 ATAGGGGTTG
52322147 TCACACAGCCGAGCACACGCCCGTGTCCC
1 TCACACAGCCGAGCACACGCCCGTGTCCC
* *
52322176 TCACACCGCCTAG-ACACGCCCGTGTCC
1 TCACACAGCCGAGCACACGCCCGTGTCC
52322203 AAAAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.20, C:0.48, G:0.20, T:0.12
Consensus pattern (29 bp):
TCACACAGCCGAGCACACGCCCGTGTCCC
Found at i:52337536 original size:43 final size:43
Alignment explanation
Indices: 52337475--52337630 Score: 183
Period size: 43 Copynumber: 3.6 Consensus size: 43
52337465 TACCATGATG
* *
52337475 TGATTGCATGTAAGACCATGTTTGGGACATTGGCATTGTATTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
*
52337518 TGATTACATGTAAGACCATGTCTAGGACATTGGCATCAT-TA-TA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATTA
* * *
52337561 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-ATATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* * *
52337604 TGATAACATGTAAGACAATATCTGGGA
1 TGATTACATGTAAGACCATGTCTGGGA
52337631 TATAGCATTG
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
43 92 0.96
44 2 0.02
45 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:52342539 original size:21 final size:21
Alignment explanation
Indices: 52342515--52342555 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
52342505 TGGAAATAGG
*
52342515 AATGATCTCAATGAAAATCCA
1 AATGATCACAATGAAAATCCA
*
52342536 AATGATCACAATGAGAATCC
1 AATGATCACAATGAAAATCC
52342556 TTACATGGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.20, G:0.12, T:0.22
Consensus pattern (21 bp):
AATGATCACAATGAAAATCCA
Found at i:52343252 original size:11 final size:11
Alignment explanation
Indices: 52343226--52343263 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
52343216 GAACATGTTG
52343226 AATTTTA-ATT
1 AATTTTATATT
*
52343236 AATTTTATATC
1 AATTTTATATT
*
52343247 AATTTTTTATT
1 AATTTTATATT
52343258 AATTTT
1 AATTTT
52343264 GATTATTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:52344138 original size:20 final size:18
Alignment explanation
Indices: 52344105--52344141 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
52344095 TGTGATGTTG
52344105 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
52344123 ATATGTCTTAAATTTAATT
1 ATATGT-TT-AATTTAATT
52344142 CATGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:52347265 original size:44 final size:44
Alignment explanation
Indices: 52347114--52347272 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
52347104 AGCTCATGCA
* * *
52347114 ATGCCAACGTCCTAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATCG
* *
52347157 ATGCC-ACTATCCCAGACAG-GGTCTTACACG-AAATCATATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAATATCG
* * * * *
52347199 ATGCCAATGTCCTAGACCTGGTCTTACACGTAAAACAAAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATCG
52347243 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
52347273 ATAACACATA
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.29
43 37 0.39
44 30 0.32
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATCG
Found at i:52347268 original size:86 final size:85
Alignment explanation
Indices: 52347114--52347273 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 85
52347104 AGCTCATGCA
** * * *
52347114 ATGCCAACGTCCTAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGT
1 ATGCCAACGTCCTAGACCTGGTCTTACACGTAAACAAAAATCGATGCCACTATCCCAGACAGGGT
52347179 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* *
52347199 ATGCCAATGTCCTAGACCTGGTCTTACACGTAAAACAAAAATCGATGCCAAC-GTCCCAGAC-GT
1 ATGCCAACGTCCTAGACCTGGTCTTACACGT-AAACAAAAATCGATGCC-ACTATCCCAGACAG-
52347262 GGTCTTACACGA
63 GGTCTTACACGA
52347274 TAACACATAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
85 28 0.43
86 35 0.54
87 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCTAGACCTGGTCTTACACGTAAACAAAAATCGATGCCACTATCCCAGACAGGGT
CTTACACGAAATCATATACG
Found at i:52351522 original size:20 final size:20
Alignment explanation
Indices: 52351339--52351532 Score: 237
Period size: 20 Copynumber: 9.7 Consensus size: 20
52351329 GGACCTACTT
*
52351339 ATGGCTTTGT-ACAGCTATTG
1 ATGGCTTTGTGCCA-CTATTG
52351359 ATGGCTTTGTGCCACTATTG
1 ATGGCTTTGTGCCACTATTG
* *
52351379 ATGGCTTTATGCCGCTATTG
1 ATGGCTTTGTGCCACTATTG
** *
52351399 ATGGCTTTGTGCTGCTACTG
1 ATGGCTTTGTGCCACTATTG
*
52351419 ATGGCTTTGTGCCGCTATTG
1 ATGGCTTTGTGCCACTATTG
52351439 ATGGCTTTGTGCCACTATTG
1 ATGGCTTTGTGCCACTATTG
*
52351459 ACGGCTTTGTGCCACTATTG
1 ATGGCTTTGTGCCACTATTG
* *
52351479 ATGGCTTTGTACCGCTATTG
1 ATGGCTTTGTGCCACTATTG
* * * *
52351499 ATGGCTTCGTGCCTCTACTC
1 ATGGCTTTGTGCCACTATTG
*
52351519 ATGGGTTTGTGCCA
1 ATGGCTTTGTGCCA
52351533 TATACTGATA
Statistics
Matches: 152, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
20 150 0.99
21 2 0.01
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.39
Consensus pattern (20 bp):
ATGGCTTTGTGCCACTATTG
Found at i:52351570 original size:26 final size:26
Alignment explanation
Indices: 52351534--52351615 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 26
52351524 TTTGTGCCAT
* *
52351534 ATACTGATACTGGCAACTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
52351560 TTACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * *
52351586 ATATTATTACTGGCAGCTATGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
52351612 ATAC
1 ATAC
52351616 CGGTGTGCTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:52354125 original size:24 final size:24
Alignment explanation
Indices: 52354093--52354140 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
52354083 ATTGTCAGAC
52354093 GATAAGAATTCTTTCTAAAACTAA
1 GATAAGAATTCTTTCTAAAACTAA
*
52354117 GATAAGAATTCTTTCTGAAACTAA
1 GATAAGAATTCTTTCTAAAACTAA
52354141 ATGGTCACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (24 bp):
GATAAGAATTCTTTCTAAAACTAA
Found at i:52357001 original size:43 final size:43
Alignment explanation
Indices: 52356935--52357080 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
52356925 AGCTCGTACA
* * *
52356935 ATGCCAACATCGCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGTAATCAAATATTG
* * * **
52356978 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATA-CA
1 ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATTG
* **
52357020 ATGCCAATGTCCCAGACTTGGTCTTACACGTCAATCACAA-ATTG
1 ATGCCAATATCCCAGACAGGGTCTTACACGT-AATCA-AATATTG
**
52357064 ATGCCAACGTCCCAGAC
1 ATGCCAATATCCCAGAC
52357081 TACAATAATA
Statistics
Matches: 82, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.32
43 38 0.46
44 18 0.22
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATTG
Found at i:52361443 original size:40 final size:40
Alignment explanation
Indices: 52361242--52361435 Score: 336
Period size: 40 Copynumber: 4.9 Consensus size: 40
52361232 ATTCAGATTG
52361242 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52361281 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
52361321 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52361361 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
52361401 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
52361436 AAGCTATATC
Statistics
Matches: 147, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 134 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:52361443 original size:80 final size:80
Alignment explanation
Indices: 52361242--52361462 Score: 340
Period size: 80 Copynumber: 2.8 Consensus size: 80
52361232 ATTCAGATTG
52361242 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
52361306 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
52361321 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
52361386 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * **
52361401 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
52361463 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
79 28 0.22
80 101 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:52366930 original size:49 final size:49
Alignment explanation
Indices: 52366852--52367097 Score: 321
Period size: 49 Copynumber: 5.0 Consensus size: 49
52366842 GTAGCCGAAG
* * *
52366852 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
52366901 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AA
* * *
52366951 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA
* * * * * *
52367001 GTTATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
* *
52367051 CAATCTGGTACGCGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
52367098 TCACAATAGC
Statistics
Matches: 169, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
49 83 0.49
50 48 0.28
51 38 0.22
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAA
Found at i:52367780 original size:30 final size:30
Alignment explanation
Indices: 52367746--52367805 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52367736 CTTTAATATG
52367746 AACTTTGGAAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGAAAAATTACAC-TTTTGCCCCTA
* * *
52367776 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
52367806 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:52375507 original size:34 final size:34
Alignment explanation
Indices: 52375456--52375528 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
52375446 ATAATGTGGA
*
52375456 CAGTCTGGGCCTAAGCCCA-TATTAGTAGCAATAT
1 CAGTGTGGGCCTAAGCCCATTATT-GTAGCAATAT
* *
52375490 CAGTGTGGGCCTTAGCCCATTATTGTAGCAGTAT
1 CAGTGTGGGCCTAAGCCCATTATTGTAGCAATAT
52375524 CAGTG
1 CAGTG
52375529 ATGCATACAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
34 31 0.89
35 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (34 bp):
CAGTGTGGGCCTAAGCCCATTATTGTAGCAATAT
Found at i:52377536 original size:27 final size:27
Alignment explanation
Indices: 52377517--52377636 Score: 177
Period size: 27 Copynumber: 4.4 Consensus size: 27
52377507 ATTACCAAAG
52377517 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
52377544 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
52377571 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
52377598 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
*
52377625 TACCCTCAATTT
1 TACCCTCGATTT
52377637 CCAAAATTAC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:52377548 original size:54 final size:54
Alignment explanation
Indices: 52377490--52377603 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
52377480 ATTACTGAAA
*
52377490 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
* * * **** *
52377544 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
52377598 TACCCT
1 TACCCT
52377604 TGATTTACAG
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCAAATTATAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTT
Found at i:52377609 original size:54 final size:54
Alignment explanation
Indices: 52377517--52377636 Score: 195
Period size: 54 Copynumber: 2.2 Consensus size: 54
52377507 ATTACCAAAG
*
52377517 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
* * *
52377571 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
*
52377625 TACCCTCAATTT
1 TACCCTCGATTT
52377637 CCAAAATTAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:52377645 original size:54 final size:54
Alignment explanation
Indices: 52377517--52377674 Score: 172
Period size: 54 Copynumber: 2.9 Consensus size: 54
52377507 ATTACCAAAG
* * * * *
52377517 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* * * * *
52377571 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
* *** * *
52377625 TACCCTCAATTTCCAAAATTACTAAAATACCCTCGACTTACAAAATTACC
1 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACC
52377675 AAAATACCCT
Statistics
Matches: 89, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:52377655 original size:27 final size:27
Alignment explanation
Indices: 52377625--52377871 Score: 205
Period size: 27 Copynumber: 9.2 Consensus size: 27
52377615 ATTACTGTTT
** *
52377625 TACCCTCAATTTCCAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * **
52377652 TACCCTCGACTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
** ** *
52377679 TACCCTTGATCAGTAAAATTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* * * *
52377706 TACCCT-AGTCTGTAAAATTGCTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
* ***
52377732 TACCATTGGTTTGTAAAATTA-CAGAAA
1 TACCCTCAATTTGTAAAATTACCA-AAA
52377759 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
52377786 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
* * * *
52377813 TACCACT-AGTTTGTGAAATTATCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
*
52377840 TACCCTCAATTTGTAAAATTAACAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
52377867 TACCC
1 TACCC
52377872 CTGATTTAAA
Statistics
Matches: 180, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 24 0.13
27 153 0.85
28 3 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:52377683 original size:81 final size:81
Alignment explanation
Indices: 52377472--52377688 Score: 209
Period size: 81 Copynumber: 2.7 Consensus size: 81
52377462 AATACTTTAG
* * * * * *
52377472 TTTACCAAATTACTGAAATACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATT
1 TTTACAAAATTACTGAAATACCCTCGAATTATAAAATTACCAAAATACCCTTGATTTACAGAATT
*
52377537 ACCATTTTACCCTCGA
66 ACCATTTTACCCTCAA
* * * *** * * * ***
52377553 TTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATT
1 TTTACAAAATTACTGAAATACCCTCGAATTATAAAATTACCAAAATACCCTTGATTTACAGAATT
**
52377618 ACTGTTTTACCCTCAA
66 ACCATTTTACCCTCAA
* * * *
52377634 TTTCCAAAATTACTAAAATACCCTCGACTTACAAAATTACCAAAATACCCTTGAT
1 TTTACAAAATTACTGAAATACCCTCGAATTATAAAATTACCAAAATACCCTTGAT
52377689 CAGTAAAATT
Statistics
Matches: 101, Mismatches: 35, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (81 bp):
TTTACAAAATTACTGAAATACCCTCGAATTATAAAATTACCAAAATACCCTTGATTTACAGAATT
ACCATTTTACCCTCAA
Found at i:52377697 original size:54 final size:51
Alignment explanation
Indices: 52377639--52377912 Score: 176
Period size: 54 Copynumber: 5.1 Consensus size: 51
52377629 CTCAATTTCC
**
52377639 AAAATTACTAAAATACCCTCGACTTACAAAATTACCAAAATACCCTTGATCAGT
1 AAAATTAC-AAAATACCCTCGACTT--AAAATTACCAAAATACCCTTGATTTGT
* * * * * *
52377693 AAAATTACAAAAATACCCTAGTCTGTAAAATTGCTAAAATACCATTGGTTTGT
1 AAAATTAC-AAAATACCCTCGACT-TAAAATTACCAAAATACCCTTGATTTGT
* * *
52377746 AAAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTACA-AAATACCCTCGA-CT-TAAAATTACCAAAATACCCTTGA-TTTGT
* ** * * * **
52377800 AAAATTACCAAAATACCACTAGTTTGTGAAATTATCGAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACC-CTCGACT-TAAAATTACCAAAATACCCTTGATTTGT
* *
52377854 AAAATTAACAAAATACCC-CTGATTTAAAAAGTTA-CAGAAATACCCTTGACTTTCT
1 AAAATT-ACAAAATACCCTC-GACTT-AAAA-TTACCA-AAATACCCTTGA-TTTGT
52377909 AAAA
1 AAAA
52377913 ATTATGGAAA
Statistics
Matches: 174, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
52 2 0.01
53 46 0.26
54 111 0.64
55 15 0.09
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (51 bp):
AAAATTACAAAATACCCTCGACTTAAAATTACCAAAATACCCTTGATTTGT
Found at i:52377826 original size:81 final size:81
Alignment explanation
Indices: 52377691--52377873 Score: 271
Period size: 81 Copynumber: 2.3 Consensus size: 81
52377681 CCCTTGATCA
* * * * *
52377691 GTAAAATTACAAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCATTGGTTTGTAAAATTA-C
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATC
52377754 AGAAATACCCTCAATTT
66 -GAAATACCCTCAATTT
* *
52377771 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTATC
1 GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATC
52377836 GAAATACCCTCAATTT
66 GAAATACCCTCAATTT
*
52377852 GTAAAATTAACAAAATACCCCT
1 GTAAAATTACCAAAATACCCCT
52377874 GATTTAAAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 16 0.17
81 76 0.82
82 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (81 bp):
GTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCACTAGTTTGTAAAATTATC
GAAATACCCTCAATTT
Found at i:52377878 original size:27 final size:27
Alignment explanation
Indices: 52377666--52377912 Score: 138
Period size: 27 Copynumber: 9.1 Consensus size: 27
52377656 CTCGACTTAC
* * **
52377666 AAAATTACCAAAATACCCTTGATCAGT
1 AAAATTAACAAAATACCCCTGATTTGT
*
52377693 AAAATT-ACAAAAATA-CCCT-AGTCTGT
1 AAAATTAAC-AAAATACCCCTGA-TTTGT
* ** *
52377719 AAAATT-GCTAAAATACCATTGGTTTGT
1 AAAATTAAC-AAAATACCCCTGATTTGT
*
52377746 AAAATT-ACAGAAATA-CCCTCAATTTGT
1 AAAATTAACA-AAATACCCCT-GATTTGT
*
52377773 AAAATTACCAAAATACCCCT-AGTTTGT
1 AAAATTAACAAAATACCCCTGA-TTTGT
* *
52377800 AAAATTACCAAAATACCACT-AGTTTGT
1 AAAATTAACAAAATACCCCTGA-TTTGT
* * * *
52377827 GAAATTATCGAAATA-CCCTCAATTTGT
1 AAAATTAACAAAATACCCCT-GATTTGT
*
52377854 AAAATTAACAAAATACCCCTGATTT-A
1 AAAATTAACAAAATACCCCTGATTTGT
* *
52377880 AAAAGTT-ACAGAAATACCCTTGACTTTCT
1 AAAA-TTAACA-AAATACCCCTGA-TTTGT
52377909 AAAA
1 AAAA
52377913 ATTATGGAAA
Statistics
Matches: 177, Mismatches: 27, Indels: 30
0.76 0.12 0.13
Matches are distributed among these distances:
25 1 0.01
26 35 0.20
27 123 0.69
28 14 0.08
29 4 0.02
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTAACAAAATACCCCTGATTTGT
Found at i:52377895 original size:81 final size:81
Alignment explanation
Indices: 52377691--52377897 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 81
52377681 CCCTTGATCA
* * * * * *
52377691 GTAAAATT-ACAAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCATTGGTTTGTAAAATTAC
1 GTAAAATTAAC-AAAATACCCCTAGTTTGAAAAATTACCAAAATACCACTAGTTTGTAAAATTAC
52377754 AGAAATACCCTCAATTT
65 AGAAATACCCTCAATTT
* * *
52377771 GTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTATC
1 GTAAAATTAACAAAATACCCCTAGTTTGAAAAATTACCAAAATACCACTAGTTTGTAAAATTA-C
52377836 -GAAATACCCTCAATTT
65 AGAAATACCCTCAATTT
52377852 GTAAAATTAACAAAATACCCCT-GATTT-AAAAAGTTA-CAGAAATACC
1 GTAAAATTAACAAAATACCCCTAG-TTTGAAAAA-TTACCA-AAATACC
52377898 CTTGACTTTC
Statistics
Matches: 112, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
80 21 0.19
81 90 0.80
82 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (81 bp):
GTAAAATTAACAAAATACCCCTAGTTTGAAAAATTACCAAAATACCACTAGTTTGTAAAATTACA
GAAATACCCTCAATTT
Found at i:52377949 original size:27 final size:27
Alignment explanation
Indices: 52377910--52377961 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
52377900 TGACTTTCTA
52377910 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
52377937 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
52377962 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:52378106 original size:27 final size:27
Alignment explanation
Indices: 52378014--52378106 Score: 91
Period size: 27 Copynumber: 3.4 Consensus size: 27
52378004 TAACCCTATT
* *
52378014 AGGTAAAAAGATCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
52378041 AGGTAAAGA-GACCGTAAAGCCCTTATA
1 AGGTAAA-ATGACCGTAAAGCCCCTGTA
* *
52378068 GGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
52378095 CGGTAAAATGAC
1 AGGTAAAATGAC
52378107 GAATATGCCC
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
27 52 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:52378968 original size:52 final size:51
Alignment explanation
Indices: 52378907--52379042 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
52378897 GAGGAAGTGC
52378907 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
*
52378959 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
52379010 AAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
52379043 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
48 5 0.06
49 9 0.11
50 7 0.09
51 25 0.31
52 35 0.43
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:52379004 original size:25 final size:26
Alignment explanation
Indices: 52378907--52379042 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
52378897 GAGGAAGTGC
52378907 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
52378933 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
52378959 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
52378985 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
52379010 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
52379033 AAAAGAGGCT
1 AAAAG-GGCT
52379043 AGGCCTCCAG
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 30 0.30
26 57 0.58
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:52379234 original size:42 final size:42
Alignment explanation
Indices: 52379175--52379266 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
52379165 TAGTCTCCCC
* * *
52379175 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
52379217 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
52379259 AAATGGGC
1 AAATGGGC
52379267 CTAAGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGGCATTACATGTGATATTG
Found at i:52387666 original size:16 final size:17
Alignment explanation
Indices: 52387640--52387671 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
52387630 AAATAAGAAA
52387640 TAATAATTATAATAATT
1 TAATAATTATAATAATT
52387657 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
52387672 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:52391824 original size:108 final size:110
Alignment explanation
Indices: 52391680--52391877 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
52391670 ATCCTTTTGA
* *
52391680 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
52391743 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
52391788 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
*
52391853 TTCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
52391878 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.60
109 7 0.09
110 24 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:52391887 original size:55 final size:54
Alignment explanation
Indices: 52391633--52391887 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
52391623 ACACGGGTAC
* *
52391633 CTTACC-ATTGCCATGACTTGTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
52391682 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
52391735 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
52391790 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
52391843 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
52391888 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 22, Indels: 20
0.80 0.10 0.09
Matches are distributed among these distances:
49 40 0.23
52 4 0.02
53 44 0.26
54 12 0.07
55 69 0.40
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:52397662 original size:16 final size:17
Alignment explanation
Indices: 52397636--52397686 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
52397626 AAATAAGAAA
52397636 TAATAATTATAATAATT
1 TAATAATTATAATAATT
*
52397653 TAATAA-TATAATAATA
1 TAATAATTATAATAATT
*
52397669 TATATATGTTATAATAAT
1 TA-ATA-ATTATAATAAT
52397687 AATAGAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.38
17 9 0.31
19 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:52397668 original size:8 final size:8
Alignment explanation
Indices: 52397635--52397670 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
52397625 TAAATAAGAA
52397635 ATAATAATT
1 ATAATAA-T
52397644 ATAATAAT
1 ATAATAAT
*
52397652 TTAATAAT
1 ATAATAAT
52397660 ATAATAAT
1 ATAATAAT
52397668 ATA
1 ATA
52397671 TATATGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:52397688 original size:25 final size:23
Alignment explanation
Indices: 52397634--52397690 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 23
52397624 TTAAATAAGA
*
52397634 AATAATAATTATAATAATTTAAT
1 AATAATAATAATAATAATTTAAT
52397657 AAT-ATAATAATATATATATGTT-AT
1 AATAATAATAATA-ATA-AT-TTAAT
52397681 AATAATAATA
1 AATAATAATA
52397691 GAATAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
22 8 0.28
23 6 0.21
24 7 0.24
25 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AATAATAATAATAATAATTTAAT
Found at i:52399482 original size:20 final size:20
Alignment explanation
Indices: 52399457--52399501 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
52399447 GCCCCACGGC
*
52399457 CATGTCCCAAGCGACATGGG
1 CATGTCCCAAGCCACATGGG
*
52399477 CATGTCCCAGGCCACATGGG
1 CATGTCCCAAGCCACATGGG
52399497 CATGT
1 CATGT
52399502 GCCCCTATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (20 bp):
CATGTCCCAAGCCACATGGG
Found at i:52402561 original size:39 final size:40
Alignment explanation
Indices: 52402480--52402683 Score: 233
Period size: 39 Copynumber: 5.2 Consensus size: 40
52402470 CGGATGATAA
* * **
52402480 CCGGGCTAAGT-CCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
*
52402519 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
52402558 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52402596 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * **
52402636 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52402676 CC-GGCTAA
1 CCGGGCTAA
52402684 ACTCCGAAGG
Statistics
Matches: 145, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
38 19 0.13
39 78 0.54
40 48 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52408814 original size:40 final size:40
Alignment explanation
Indices: 52408716--52408978 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
52408706 TCCTCGTTCA
* * * * *
52408716 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52408755 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52408795 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52408835 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52408875 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52408915 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52408955 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52408979 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52416758 original size:40 final size:40
Alignment explanation
Indices: 52416660--52416922 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
52416650 TCCTCGTTCA
* * * * *
52416660 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
52416699 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
52416739 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
52416779 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
52416819 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
52416859 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
52416899 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
52416923 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:52421698 original size:40 final size:39
Alignment explanation
Indices: 52421643--52421866 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 39
52421633 CGGATGATAA
* * *
52421643 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
52421683 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
*
52421723 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
* * * *
52421763 CTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTA-TTATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* * *
52421802 CCGGGCTAAGTCCCGAAGGCATTTGTGCAATTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTACTAAT-T
52421842 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52421867 AGCTAGTGGC
Statistics
Matches: 164, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
39 34 0.21
40 127 0.77
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Done.