Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 419 of 425
Found at i:127312078 original size:120 final size:120
Alignment explanation
Indices: 127311865--127312116 Score: 321
Period size: 120 Copynumber: 2.1 Consensus size: 120
127311855 GTGGGCAGTG
* *
127311865 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCTCCGTCTTCACCCCATGGAGAGCAGCTTTT
1 GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGGAGAGCAGCTTTC
* * * *
127311930 TGCTGGAGCCGCAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCT
66 CGCTGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* * *
127311985 GCAGTGGCATTGGCAGCTCCTCT-GTTGGTAGAG-CCCCTGTCTTCATCCCAT-GATGAGCTGCT
1 GCAGTGGCAGTGGCAGCTCCT-TGGTTGGTAGAGTCCCC-GTCTTCACCCCATGGA-GAGCAGCT
* * * *
127312047 TTCCGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCT
63 TTCCGCTGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
* *
127312105 CCAGTGGTAGTG
1 GCAGTGGCAGTG
127312117 ACATTGGCAT
Statistics
Matches: 113, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
119 5 0.04
120 107 0.95
121 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (120 bp):
GCAGTGGCAGTGGCAGCTCCTTGGTTGGTAGAGTCCCCGTCTTCACCCCATGGAGAGCAGCTTTC
CGCTGGAGCCACAGTTCCACTTACATTGCTCAAGGCTTGAGACCGAACCCCACCT
Found at i:127312353 original size:132 final size:132
Alignment explanation
Indices: 127311985--127312623 Score: 594
Period size: 132 Copynumber: 4.9 Consensus size: 132
127311975 AACCCCACCT
* * * * *
127311985 GCAGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTT
1 GCAGTGGCATTGGAAGCT-CTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
** * * * * * * *
127312049 CCGCTGGTGCCACAGTTCCACTTACATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
65 TTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTA
127312114 GTG
130 GTG
* * * * *
127312117 ACATTGGCATTGGCATTAGCAGCTCTGCAGGTGGTAGAGCCCCAGTTTTCAT-CCATGCTGGGCC
1 GCAGTGGCATTGG----A--AGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCT
* * *
127312181 GCTTTTTGCTA-GAGCCACAGTTCCACTTGTATAGCTCAAGGCTTGAGACTGAAGCCCATCTGCG
60 GCTTTTTGC-AGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCA
127312245 GCGGTAGTG
124 GCGGTAGTG
* * * * * *
127312254 GTAGTGGCATTGGAAGTTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTT
1 GCAGTGGCATTGGAAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * * * *
127312319 TGCAGGAGCCACAGCTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATTTGCAGTGGTAG
66 TGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAG
127312384 TG
131 TG
* * * * *
127312386 GCA---GC--T-----C-C-ACTGTTGGCAGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTT
1 GCAGTGGCATTGGAAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * ** * *
127312439 TGCCA-GAGCCACGGCTCCACTTGTGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTA
66 TG-CAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTA
127312503 GTG
130 GTG
* * * *
127312506 GCAGTGGCATTGGCAGCTCCT-CT-GTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTT
1 GCAGTGGCATTGGAAGCT-CTGCTGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTT
* **
127312569 TTTGCCGGAGCCACAGTTCCACTTGCATTGCTCAACACTTGAGACTGAAGCCCAT
64 TTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCAT
127312624 TGGCAGTGAC
Statistics
Matches: 415, Mismatches: 66, Indels: 52
0.78 0.12 0.10
Matches are distributed among these distances:
120 102 0.25
121 3 0.01
123 2 0.00
125 1 0.00
127 1 0.00
129 2 0.00
130 1 0.00
131 30 0.07
132 166 0.40
133 1 0.00
137 81 0.20
138 25 0.06
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (132 bp):
GCAGTGGCATTGGAAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
TGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAG
TG
Found at i:127312460 original size:252 final size:251
Alignment explanation
Indices: 127312152--127312631 Score: 667
Period size: 252 Copynumber: 1.9 Consensus size: 251
127312142 TGCAGGTGGT
* * * *
127312152 AGAGCCCCAGTTTTCATCCATGCTGGGCCGCTTTTTGCTAGAGCCACAGTTCCACTTGTATAGCT
1 AGAGCCCCACTCTTCATCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGCT
* * *
127312217 CAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAGTGGTAGTGGCATTGGAAG-TTCTGCTG-GA
66 CAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCT-CTGTG-
* * ** * *
127312280 GGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTTGCAGGAGCCACAGCTCCACTTGCGT
129 GGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCAT
** * *
127312345 TGCTCAAGGCTTGAGACTGAATCCCATTTGCAGTGGTAGTGGCAGCTCCACTGTTGGC
194 TGCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
* * * * *
127312403 AGAGCCCCACTCTTCGTCCCATGCTGGGCTGCTTTTTGCCAGAGCCACGGCTCCACTTGTGTTGC
1 AGAGCCCCACTCTTCAT-CCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGC
* * *
127312468 TCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGTGGCATTGGCAGCTCCTCTGTGG
65 TCAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGG
* * *
127312533 GCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTGCCGGAGCCACAGTTCCACTTGCATT
130 GCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATT
127312598 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
195 GCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
127312632 ACAGCATGTT
Statistics
Matches: 198, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
251 14 0.07
252 180 0.91
253 4 0.02
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (251 bp):
AGAGCCCCACTCTTCATCCATGCTGGGCCGCTTTTTGCCAGAGCCACAGCTCCACTTGTATAGCT
CAAGGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCATTGGAAGCTCCTCTGTGGG
CAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCCACAGCTCCACTTGCATTG
CTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTGGCAGCTCCACTGTTGGC
Found at i:127322410 original size:14 final size:14
Alignment explanation
Indices: 127322393--127322420 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
127322383 AAAAAAAAAA
127322393 GGAAAAAATGAAAG
1 GGAAAAAATGAAAG
127322407 GGAAAAAATGAAAG
1 GGAAAAAATGAAAG
127322421 AAATAATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
GGAAAAAATGAAAG
Found at i:127322541 original size:7 final size:7
Alignment explanation
Indices: 127322529--127322558 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
127322519 TCTCTCTCTC
127322529 TCTGTTT
1 TCTGTTT
127322536 TCTGTTT
1 TCTGTTT
127322543 TCTGTTT
1 TCTGTTT
127322550 TCTGTTT
1 TCTGTTT
127322557 TC
1 TC
127322559 CTTTTTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.13, T:0.70
Consensus pattern (7 bp):
TCTGTTT
Found at i:127322571 original size:21 final size:21
Alignment explanation
Indices: 127322529--127322571 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
127322519 TCTCTCTCTC
*
127322529 TCTGTTTTCTGTTTTCTGTTT
1 TCTGTTTTCTGTTTTCTCTTT
*
127322550 TCTGTTTTCCT-TTTTTTCTTT
1 TCTGTTTT-CTGTTTTCTCTTT
127322571 T
1 T
127322572 TTATTTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.00, C:0.16, G:0.09, T:0.74
Consensus pattern (21 bp):
TCTGTTTTCTGTTTTCTCTTT
Found at i:127323221 original size:31 final size:31
Alignment explanation
Indices: 127323183--127323242 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
127323173 AAGATCAATA
127323183 TGGATCTAGTTGCTAAGTTAAAGGACCAAAG
1 TGGATCTAGTTGCTAAGTTAAAGGACCAAAG
127323214 TGGATCTAGTTGCTAAGTTAAAGGACCAA
1 TGGATCTAGTTGCTAAGTTAAAGGACCAA
127323243 GTTCAGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (31 bp):
TGGATCTAGTTGCTAAGTTAAAGGACCAAAG
Found at i:127324554 original size:27 final size:27
Alignment explanation
Indices: 127324524--127324578 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
127324514 ATTTATAAAG
127324524 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
127324551 TAAAACACCAAATAATGTTGTAAATTT
1 TAAAACACCAAATAATGTTGTAAATTT
127324578 T
1 T
127324579 TAGTATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (27 bp):
TAAAACACCAAATAATGTTGTAAATTT
Found at i:127325727 original size:10 final size:10
Alignment explanation
Indices: 127325708--127325739 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
127325698 CCTTAAATGG
*
127325708 TCAACTCAAC
1 TCAACCCAAC
127325718 TCAACCCAAC
1 TCAACCCAAC
127325728 TCAACCCAAC
1 TCAACCCAAC
127325738 TC
1 TC
127325740 TCCTCTCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (10 bp):
TCAACCCAAC
Found at i:127331186 original size:30 final size:29
Alignment explanation
Indices: 127331144--127331205 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
127331134 TTGCAATGTC
127331144 TTTTTCATTAAAAAAAAAAGAATAAAACGG
1 TTTTTCATTAAAAAAAAAA-AATAAAACGG
* *
127331174 TTTTTC-TATAAAAGAAAAAAATAAGACGG
1 TTTTTCAT-TAAAAAAAAAAAATAAAACGG
127331203 TTT
1 TTT
127331206 AAATAGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (29 bp):
TTTTTCATTAAAAAAAAAAAATAAAACGG
Found at i:127331501 original size:24 final size:24
Alignment explanation
Indices: 127331450--127331517 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 24
127331440 CTTTTTCCTT
* *
127331450 GTTTTTA-ATTTTTATATATTT-TA
1 GTTTTTATAATTTAATAT-TTTATA
127331473 G-TTTTATAATTTAATATTTTATA
1 GTTTTTATAATTTAATATTTTATA
*
127331496 GTTTTTGTAATTTAAT-TTTTAT
1 GTTTTTATAATTTAATATTTTAT
127331518 TTCATAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 8 0.21
23 18 0.46
24 13 0.33
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (24 bp):
GTTTTTATAATTTAATATTTTATA
Found at i:127331576 original size:24 final size:26
Alignment explanation
Indices: 127331542--127331596 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
127331532 TTGAGTGTTT
127331542 TATTTCTATAA-TATTAAA-TTTTCAA
1 TATTTCTATAATTA-TAAACTTTTCAA
*
127331567 TATTT-TATAATTATAAACTTTTTAA
1 TATTTCTATAATTATAAACTTTTCAA
127331592 TATTT
1 TATTT
127331597 AGAATAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (26 bp):
TATTTCTATAATTATAAACTTTTCAA
Found at i:127333985 original size:17 final size:19
Alignment explanation
Indices: 127333965--127334005 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
127333955 ATAATTTTAG
*
127333965 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
127333982 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
127334000 AAAATA
1 AAAATA
127334006 AATATTTCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:127334122 original size:30 final size:30
Alignment explanation
Indices: 127334088--127334149 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
127334078 CTTAACAAGT
127334088 AAATGTCTCTAAAACAATAACAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
* * *
127334118 AAATGTCTTTAAAATAATAATAAAATTAAC
1 AAATGTCTCTAAAACAATAACAAAATTAAC
127334148 AA
1 AA
127334150 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGTCTCTAAAACAATAACAAAATTAAC
Found at i:127334534 original size:14 final size:14
Alignment explanation
Indices: 127334515--127334550 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
127334505 ATAACAATAA
127334515 AATAGTAATAACAT
1 AATAGTAATAACAT
127334529 AATAGTAATAACAT
1 AATAGTAATAACAT
127334543 AATAGTAA
1 AATAGTAA
127334551 CATAGTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (14 bp):
AATAGTAATAACAT
Found at i:127335134 original size:20 final size:20
Alignment explanation
Indices: 127335086--127335135 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
127335076 TTTTTACGTA
* * *
127335086 ATTTATAATTAATTTTTTAT
1 ATTTAAAATAAATATTTTAT
127335106 ATTGT-AAATAAATATTTTAT
1 ATT-TAAAATAAATATTTTAT
127335126 ATTTAAAATA
1 ATTTAAAATA
127335136 GTGAAAATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 23 0.92
21 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTTAAAATAAATATTTTAT
Found at i:127336735 original size:15 final size:15
Alignment explanation
Indices: 127336715--127336753 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
127336705 GTATAGTTGA
127336715 ATTTGCATATATATC
1 ATTTGCATATATATC
127336730 ATTTGCATATATATC
1 ATTTGCATATATATC
*
127336745 ATATGCATA
1 ATTTGCATA
127336754 GGTGTCGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (15 bp):
ATTTGCATATATATC
Found at i:127338498 original size:42 final size:43
Alignment explanation
Indices: 127338439--127338531 Score: 122
Period size: 42 Copynumber: 2.2 Consensus size: 43
127338429 GCTGGTTAAC
* *
127338439 AAGTGTTTGTGGAAATGTCA-C-TGAGGTTAATATA-ATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGA-GTT-ATAAAGATCAATAA
127338481 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
1 AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
127338524 AA-TGTTTG
1 AAGTGTTTG
127338532 CTACTGCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
42 29 0.63
43 14 0.30
44 3 0.07
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (43 bp):
AAGTGTTTGTGAAAATGTCACCGTGAGTTATAAAGATCAATAA
Found at i:127346578 original size:191 final size:191
Alignment explanation
Indices: 127346254--127346661 Score: 574
Period size: 191 Copynumber: 2.1 Consensus size: 191
127346244 ACCTTCAGAT
* *
127346254 GTTCAAAGGCCAAAATGAACCTACTTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
1 GTTCAAAGACCAAAATGAACCTAATTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
* * **
127346319 ATTGACAACTAAATCCATTTTGATCCTTGCAATTAACAAATGTATACGTTCAATGATGTAACACT
66 ATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAATGCATAAATTCAATGATGTAACACT
* *
127346384 ATAAGATTGTACC-CTGTCATCACCTTTAGGTGTCACATTATCAAACTTTGATGAAATACAA
131 ATAAGATTGTACCAGT-TCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
* * *
127346445 GTTCAAAGACCAAAATGAGCCTAATTGTCA-AGTTC-AGATACCAAAGTGAACCTACTTGCCAT-
1 GTTCAAAGACCAAAATGAACCTAATTGTCACA-TTCAAG-TACCAAAGTGAACCTAATTACCATA
* * *
127346507 AAATGTGACAACTAAATCCATTTTGA-CACTTGAAATTGACAAATGCATAAATTTAATGATGTGA
64 AAAT-TGACAACTAAATCCATTTTGATC-CTTGAAATTAACAAATGCATAAATTCAATGATGTAA
* *
127346571 CACTATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAATTTTGATGAAATTCAA
127 CACTATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
* *
127346636 GTTCAAACACCAAAATGAACATAATT
1 GTTCAAAGACCAAAATGAACCTAATT
127346662 ACCATAAACT
Statistics
Matches: 193, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
190 8 0.04
191 184 0.95
192 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (191 bp):
GTTCAAAGACCAAAATGAACCTAATTGTCACATTCAAGTACCAAAGTGAACCTAATTACCATAAA
ATTGACAACTAAATCCATTTTGATCCTTGAAATTAACAAATGCATAAATTCAATGATGTAACACT
ATAAGATTGTACCAGTTCATCACCTTTAGGAGTCACATTATCAAACTTTGATGAAATACAA
Found at i:127346737 original size:160 final size:160
Alignment explanation
Indices: 127346472--127346769 Score: 406
Period size: 160 Copynumber: 1.9 Consensus size: 160
127346462 AGCCTAATTG
* * * * * *
127346472 TCAAGTTCAGATACCAAAGTGAACCTACTTGCCATAAATGTGACAACTAAATCCATTTTGACACT
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
* * **
127346537 TGAAATTGACAAATGCATAAATTTAATGATGTGACACTATAAGATTGTACCA-GTTCATCACCTT
66 TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATG-TCATCACCTT
127346601 TAGGAGTCACATTATCAAATTTTGATGAAAT
130 TAGGAGTCACATTATCAAATTTTGATGAAAT
127346632 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAACT-TGACAACTAAATCCATTTTGATC-
1 TCAAGTTCAAACACCAAAATGAACATAATTACCATAAA-TGTGACAACTAAATCCATTTTGA-CA
* * *
127346695 C-TCAAATTTGACAAATGTATAAGTTAAATGACATGGCACTATAAGATTGTACCATGTCATCACC
64 CTTCAAA-TTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACC
*
127346759 TTTAGGTGTCA
128 TTTAGGAGTCA
127346770 GTTATCTTCA
Statistics
Matches: 120, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
159 4 0.03
160 113 0.94
161 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (160 bp):
TCAAGTTCAAACACCAAAATGAACATAATTACCATAAATGTGACAACTAAATCCATTTTGACACT
TCAAATTGACAAATGCATAAATTAAATGACATGACACTATAAGATTGTACCATGTCATCACCTTT
AGGAGTCACATTATCAAATTTTGATGAAAT
Found at i:127348634 original size:17 final size:17
Alignment explanation
Indices: 127348614--127348646 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
127348604 ATAAATGCAA
127348614 TATCTAAATATAAATAG
1 TATCTAAATATAAATAG
*
127348631 TATCTAAATATTAATA
1 TATCTAAATATAAATA
127348647 TGGTGAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
TATCTAAATATAAATAG
Found at i:127350515 original size:3 final size:3
Alignment explanation
Indices: 127350507--127350534 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
127350497 TAAATACATG
127350507 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
127350535 AAGGAGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127351160 original size:13 final size:14
Alignment explanation
Indices: 127351129--127351160 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
127351119 ATTCGTGATA
127351129 TAAATTTAATATTG
1 TAAATTTAATATTG
127351143 T-AATTTAATATT-
1 TAAATTTAATATTG
127351155 TAAATT
1 TAAATT
127351161 ATTATTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 15 0.88
14 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
TAAATTTAATATTG
Found at i:127352894 original size:6 final size:6
Alignment explanation
Indices: 127352883--127352907 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
127352873 CCCCTCTGCA
127352883 TGCCAT TGCCAT TGCCAT TGCCAT T
1 TGCCAT TGCCAT TGCCAT TGCCAT T
127352908 CATATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (6 bp):
TGCCAT
Found at i:127356977 original size:14 final size:14
Alignment explanation
Indices: 127356958--127357009 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
127356948 AGAAAACACC
127356958 ATATATATGTATGTAT
1 ATATATATGTATG--T
*
127356974 ATATATATGTACGT
1 ATATATATGTATGT
127356988 ATATATATGTATGT
1 ATATATATGTATGT
*
127357002 ATGTATAT
1 ATATATAT
127357010 ATATAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 21 0.64
16 12 0.36
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.48
Consensus pattern (14 bp):
ATATATATGTATGT
Found at i:127356979 original size:16 final size:16
Alignment explanation
Indices: 127356958--127357014 Score: 87
Period size: 16 Copynumber: 3.4 Consensus size: 16
127356948 AGAAAACACC
127356958 ATATATATGTATGTAT
1 ATATATATGTATGTAT
*
127356974 ATATATATGTACGTAT
1 ATATATATGTATGTAT
127356990 ATATATGTATGTATGTAT
1 ATATA--TATGTATGTAT
127357008 ATATATA
1 ATATATA
127357015 AAATGTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 22 0.59
18 15 0.41
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (16 bp):
ATATATATGTATGTAT
Found at i:127360883 original size:17 final size:17
Alignment explanation
Indices: 127360863--127360897 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
127360853 AAAAACTAAA
*
127360863 AAATCTTTAAAATATAT
1 AAATCTATAAAATATAT
*
127360880 AAATCTATAAAGTATAT
1 AAATCTATAAAATATAT
127360897 A
1 A
127360898 TAAAAGCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATCTATAAAATATAT
Found at i:127363080 original size:4 final size:4
Alignment explanation
Indices: 127363071--127363097 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
127363061 CATTATTTTC
127363071 ATTA ATTA ATTA ATTA ATTA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT
127363098 TAATCTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
ATTA
Found at i:127366513 original size:37 final size:38
Alignment explanation
Indices: 127366434--127366515 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
127366424 GTTCATCTTT
***
127366434 TTTATAAAAAAAAATAATTGAATTATTAAAATTTTAAG
1 TTTATAAAAAAAAATAATTGAATTATTAAAAAAATAAG
127366472 TTTATAAAAAAAAA-AATAT-AATTATTAAAAAAAATAA-
1 TTTATAAAAAAAAATAAT-TGAATTATT-AAAAAAATAAG
127366509 TTTATAA
1 TTTATAA
127366516 TAATTTTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 17 0.44
38 22 0.56
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (38 bp):
TTTATAAAAAAAAATAATTGAATTATTAAAAAAATAAG
Found at i:127368855 original size:2 final size:2
Alignment explanation
Indices: 127368850--127368885 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
127368840 TGAATTGGGA
*
127368850 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127368886 AAACACATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:127371511 original size:2 final size:2
Alignment explanation
Indices: 127371504--127371536 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
127371494 ATAAAGACTA
127371504 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127371537 AACCATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127382091 original size:3 final size:3
Alignment explanation
Indices: 127382083--127382107 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
127382073 GCTCTTCTAG
127382083 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
127382108 ATTTTTGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:127385455 original size:3 final size:3
Alignment explanation
Indices: 127385447--127385472 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
127385437 AGCTTGAGAT
127385447 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
127385473 GTCCAAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:127386987 original size:2 final size:2
Alignment explanation
Indices: 127386982--127387010 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127386972 TGAGATTGTA
127386982 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
127387011 AATTAATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:127393823 original size:29 final size:30
Alignment explanation
Indices: 127393770--127393851 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
127393760 AAAATTGAAT
* *
127393770 CAAATCAAAATTTCATGTATAAAATTACTTA
1 CAAATCAAAA-TTCATATATAAAATTACATA
*
127393801 C-AATCAAAATTCATATGTAAAATTACATA
1 CAAATCAAAATTCATATATAAAATTACATA
*
127393830 CGAAACCAAAATTCATATATAA
1 C-AAATCAAAATTCATATATAA
127393852 TTTTGAAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 18 0.41
30 8 0.18
31 18 0.41
ACGTcount: A:0.51, C:0.15, G:0.04, T:0.30
Consensus pattern (30 bp):
CAAATCAAAATTCATATATAAAATTACATA
Found at i:127399299 original size:29 final size:29
Alignment explanation
Indices: 127399237--127399299 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
127399227 CCCCCAATTT
**
127399237 AAAAATAAATTAAAAAAAGTATTAATTTT
1 AAAAATAAATTAAAAAAAGTATTAATTGG
* ** *
127399266 TAAAATAAATTTTAAAATGTATTAATTGG
1 AAAAATAAATTAAAAAAAGTATTAATTGG
127399295 AAAAA
1 AAAAA
127399300 AAGTTGTGAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (29 bp):
AAAAATAAATTAAAAAAAGTATTAATTGG
Found at i:127399480 original size:30 final size:30
Alignment explanation
Indices: 127399446--127399507 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
127399436 AGAGTGGAGT
127399446 AAGAAATTTTATTTAGAAGATGGAGATAAA
1 AAGAAATTTTATTTAGAAGATGGAGATAAA
127399476 AAGAAATTTTATTTAGAAGATGGAGATAAA
1 AAGAAATTTTATTTAGAAGATGGAGATAAA
127399506 AA
1 AA
127399508 AATAACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (30 bp):
AAGAAATTTTATTTAGAAGATGGAGATAAA
Found at i:127408157 original size:2 final size:2
Alignment explanation
Indices: 127408150--127408180 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
127408140 AATAAAGGAA
127408150 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127408181 AGAACTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127409347 original size:2 final size:2
Alignment explanation
Indices: 127409340--127409364 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127409330 AAAATATCAA
127409340 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
127409365 ATAACATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127410681 original size:53 final size:53
Alignment explanation
Indices: 127410624--127410730 Score: 178
Period size: 53 Copynumber: 2.0 Consensus size: 53
127410614 TAATATTGTG
* *
127410624 AAAATTTTACTCAAGATTAAATTTGACTCTAAATTTAATTAAGATTTAATGTA
1 AAAATTTTACTCAAGATTAAATTCGACTCTAAATTTAATTAAGATGTAATGTA
* *
127410677 AAAATTTTACTCGAGATTAAATTCGATTCTAAATTTAATTAAGATGTAATGTA
1 AAAATTTTACTCAAGATTAAATTCGACTCTAAATTTAATTAAGATGTAATGTA
127410730 A
1 A
127410731 TTATAATTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (53 bp):
AAAATTTTACTCAAGATTAAATTCGACTCTAAATTTAATTAAGATGTAATGTA
Found at i:127413051 original size:15 final size:15
Alignment explanation
Indices: 127413031--127413082 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
127413021 ACTACAAAAC
127413031 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
127413046 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
127413065 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
127413080 ATT
1 ATT
127413083 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:127413201 original size:22 final size:22
Alignment explanation
Indices: 127413161--127413216 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
127413151 AATAAAATTG
*
127413161 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
127413181 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
127413203 TATTAATAATTTAT
1 AAATAATAAATTAT
127413217 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:127417104 original size:21 final size:21
Alignment explanation
Indices: 127417078--127417160 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
127417068 TGATCAGTAT
*
127417078 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * * *
127417099 ACGACACACGAGGTGCTTGAT
1 ACGACACACAAAGTGCCTAAA
* *
127417120 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
127417142 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
127417161 GATCGATAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 32 0.67
22 1 0.02
23 15 0.31
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:127417144 original size:23 final size:22
Alignment explanation
Indices: 127417076--127417150 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 22
127417066 CCTGATCAGT
** *
127417076 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
**
127417098 A-ACGACACACGAGGTG-CTTG
1 ATACGACACACGAGGTGCCTAA
127417118 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
127417141 ATACGACACA
1 ATACGACACA
127417151 TAAAGTGCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 3 0.07
21 27 0.63
22 3 0.07
23 10 0.23
ACGTcount: A:0.40, C:0.25, G:0.20, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:127417558 original size:15 final size:15
Alignment explanation
Indices: 127417533--127417590 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
127417523 TCATATATAT
127417533 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
127417549 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
127417564 AATAATTTCAATCAA
1 TATAAATTCAATCAA
127417579 TATAAATTCAAT
1 TATAAATTCAAT
127417591 AAATTCATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:127418873 original size:5 final size:5
Alignment explanation
Indices: 127418860--127418891 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
127418850 TTCTTTAGTT
127418860 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
127418892 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:127418927 original size:8 final size:8
Alignment explanation
Indices: 127418914--127418942 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
127418904 TATCTTTATT
127418914 ATATAATA
1 ATATAATA
127418922 ATATAATA
1 ATATAATA
127418930 ATATAATA
1 ATATAATA
127418938 ATATA
1 ATATA
127418943 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:127422835 original size:45 final size:45
Alignment explanation
Indices: 127422749--127422857 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
127422739 ACAAATCCGG
* **
127422749 AACAGTAACAAG-AACAATATTCAACACACAAAGTGTTGAATCGAT
1 AACAGTAAC-AGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
* * * *
127422794 AACGGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
*
127422839 AACAGTAACGGTAACAGTA
1 AACAGTAACAGTAACAGTA
127422858 ACAGTAGTCG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 2 0.04
45 51 0.96
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (45 bp):
AACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGAT
Found at i:127422852 original size:12 final size:12
Alignment explanation
Indices: 127422835--127422859 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127422825 AGTGCCGAAT
127422835 CGGTAACAGTAA
1 CGGTAACAGTAA
127422847 CGGTAACAGTAA
1 CGGTAACAGTAA
127422859 C
1 C
127422860 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:127424639 original size:31 final size:32
Alignment explanation
Indices: 127424583--127424645 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
127424573 TACACTTGTC
*
127424583 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
127424615 ATAATATAA-ATATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
127424646 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:127437090 original size:26 final size:26
Alignment explanation
Indices: 127437036--127437090 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
127437026 TTTCAAATGG
*** *
127437036 AAAATATTCTATTTATAAAAGTTTGA
1 AAAATATTCTATTTATAAAACCATAA
127437062 AAAATATTCTATTTATAAAACCATAA
1 AAAATATTCTATTTATAAAACCATAA
127437088 AAA
1 AAA
127437091 CTTACGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (26 bp):
AAAATATTCTATTTATAAAACCATAA
Found at i:127440637 original size:2 final size:2
Alignment explanation
Indices: 127440632--127440663 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
127440622 ATATATTTGA
127440632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
127440664 GGAACTCACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127445187 original size:25 final size:25
Alignment explanation
Indices: 127445153--127445201 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
127445143 ATAATTTGTA
* **
127445153 ATACGTGAAAGAATTTCTTAAAACT
1 ATACGTGAAAAAATTAATTAAAACT
127445178 ATACGTGAAAAAATTAATTAAAAC
1 ATACGTGAAAAAATTAATTAAAAC
127445202 ATGAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (25 bp):
ATACGTGAAAAAATTAATTAAAACT
Found at i:127445212 original size:20 final size:20
Alignment explanation
Indices: 127445183--127445220 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
127445173 AAACTATACG
127445183 TGAAAAAATTAATTAAAACA
1 TGAAAAAATTAATTAAAACA
* *
127445203 TGAAACAATTTATTAAAA
1 TGAAAAAATTAATTAAAA
127445221 ATACATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (20 bp):
TGAAAAAATTAATTAAAACA
Found at i:127445504 original size:17 final size:16
Alignment explanation
Indices: 127445471--127445504 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
127445461 GTTGACTTAG
*
127445471 ATTTTTAATATTTTTT
1 ATTTTTAATATTATTT
127445487 ATTTTTAATGATTATTT
1 ATTTTTAAT-ATTATTT
127445504 A
1 A
127445505 ATTGAATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
ATTTTTAATATTATTT
Found at i:127445750 original size:26 final size:29
Alignment explanation
Indices: 127445721--127445779 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
127445711 TTCCTATTTT
* *
127445721 AAATATAAAA-TACTTAT-T-TTATATAA
1 AAATATAAAATTAATTATATATTAAATAA
127445747 AAAT-TAAAATTAATTATATATTAAATAA
1 AAATATAAAATTAATTATATATTAAATAA
127445775 AAATA
1 AAATA
127445780 AAATTTAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.19
26 10 0.37
27 1 0.04
28 11 0.41
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
AAATATAAAATTAATTATATATTAAATAA
Found at i:127447748 original size:26 final size:27
Alignment explanation
Indices: 127447715--127447768 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
127447705 TTTGTGTTGA
127447715 AAAAC-AAAAAAGTTCACTTAAATTTG
1 AAAACAAAAAAAGTTCACTTAAATTTG
127447741 AAAACAAAAAAAGTTCACTTAAATTTG
1 AAAACAAAAAAAGTTCACTTAAATTTG
127447768 A
1 A
127447769 TTGACACGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.26
Consensus pattern (27 bp):
AAAACAAAAAAAGTTCACTTAAATTTG
Found at i:127448652 original size:17 final size:17
Alignment explanation
Indices: 127448618--127448651 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
127448608 ACATACATAT
127448618 ATAAAAAAAACATAAAA
1 ATAAAAAAAACATAAAA
*
127448635 ATAAATAAAA-ATAAAA
1 ATAAAAAAAACATAAAA
127448651 A
1 A
127448652 AGGGGTACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (17 bp):
ATAAAAAAAACATAAAA
Found at i:127449315 original size:12 final size:12
Alignment explanation
Indices: 127449298--127449352 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
127449288 ATAATATTTA
127449298 TATTATTACTAC
1 TATTATTACTAC
* *
127449310 TATTATTATTAT
1 TATTATTACTAC
* *
127449322 TATTATTATTAG
1 TATTATTACTAC
*
127449334 TA-TATTTCTAC
1 TATTATTACTAC
127449345 TATTATTA
1 TATTATTA
127449353 GCATTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 8 0.23
12 27 0.77
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:127449351 original size:3 final size:3
Alignment explanation
Indices: 127449242--127449332 Score: 62
Period size: 3 Copynumber: 30.0 Consensus size: 3
127449232 TTTTTTATAT
* * * *
127449242 TTA TTA TTA TTA -TG TTA TTTA TTG TTA TTA TTA -CA TTT TTA TGTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* * *
127449287 TATA ATA TT- TATA TTA TTA CTA CTA TTA TTA TTA TTA TTA TTA TTA
1 T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
127449333 GTATATTTCT
Statistics
Matches: 69, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
2 3 0.04
3 57 0.83
4 9 0.13
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:127449425 original size:2 final size:2
Alignment explanation
Indices: 127449382--127449412 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
127449372 TAATACTTAC
127449382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127449413 CTTTCATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127449594 original size:24 final size:25
Alignment explanation
Indices: 127449567--127449629 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
127449557 ATATATCATC
127449567 TTATGTATATATTCTTAAATA-C-TA
1 TTATGTATATATT-TTAAATACCATA
* *
127449591 TTATATATATATATTTTAATACCATA
1 TTATGTATATAT-TTTAAATACCATA
*
127449617 TTGTGTATATATT
1 TTATGTATATATT
127449630 ATTATTACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 17 0.53
25 3 0.09
26 12 0.38
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (25 bp):
TTATGTATATATTTTAAATACCATA
Found at i:127449634 original size:3 final size:3
Alignment explanation
Indices: 127449626--127449678 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
127449616 ATTGTGTATA
* ** *
127449626 TAT TAT TAT TACT AAT TAT TAT TAT TGC TAG TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
127449672 TA- TAT TA
1 TAT TAT TA
127449679 GTGTATATCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:127449663 original size:18 final size:18
Alignment explanation
Indices: 127449621--127449670 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 18
127449611 ACCATATTGT
127449621 GTATATATTATTATTACTA
1 GTAT-TATTATTATTACTA
*
127449640 --ATTATTATTATTGCTA
1 GTATTATTATTATTACTA
127449656 GTATTATTATTATTA
1 GTATTATTATTATTA
127449671 TTATATTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 13 0.48
17 2 0.07
18 12 0.44
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (18 bp):
GTATTATTATTATTACTA
Found at i:127449704 original size:2 final size:2
Alignment explanation
Indices: 127449697--127449735 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
127449687 CTTATGTACG
127449697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127449736 GTAGCGATGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:127450034 original size:17 final size:17
Alignment explanation
Indices: 127450012--127450060 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 17
127450002 TATTATTACC
127450012 TATTATTTTATTTTTAA
1 TATTATTTTATTTTTAA
*
127450029 TATTATTAAATTATTTTTTA
1 TATTATT---TTATTTTTAA
*
127450049 TATTCTTTTATT
1 TATTATTTTATT
127450061 ATCATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 12 0.44
20 15 0.56
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTATTTTATTTTTAA
Found at i:127450049 original size:27 final size:27
Alignment explanation
Indices: 127449995--127450045 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
127449985 ATATTTACCC
* *
127449995 TTTTTACTATTATTACCTATTATTTTA
1 TTTTTAATATTATTAACTATTATTTTA
127450022 TTTTTAATATTATTAA--ATTATTTT
1 TTTTTAATATTATTAACTATTATTTT
127450046 TTATATTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
27 14 0.64
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTTAATATTATTAACTATTATTTTA
Found at i:127450130 original size:28 final size:26
Alignment explanation
Indices: 127450098--127450168 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 26
127450088 ATACATATAC
127450098 ATATATATTTTTTGTACATATCATTATTTT
1 ATATATA-TTTTTGTACA-AT-ATT-TTTT
*
127450128 ATAT-TATTGTTGTA-AATATTTTTT
1 ATATATATTTTTGTACAATATTTTTT
127450152 ATATATATTTTATGTAC
1 ATATATATTTT-TGTAC
127450169 GTCTCCTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
24 8 0.22
25 8 0.22
26 6 0.17
27 1 0.03
28 7 0.19
29 2 0.06
30 4 0.11
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (26 bp):
ATATATATTTTTGTACAATATTTTTT
Found at i:127450205 original size:3 final size:3
Alignment explanation
Indices: 127450197--127450225 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
127450187 TTATTGTAGA
127450197 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
127450226 CATACTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:127451579 original size:34 final size:34
Alignment explanation
Indices: 127451536--127451603 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
127451526 TCAGCAAAAG
127451536 ACTTAATAAATAGTATAGATAAAAATAATTTATT
1 ACTTAATAAATAGTATAGATAAAAATAATTTATT
127451570 ACTTAATAAATAGTATAGATAAAAATAATTTATT
1 ACTTAATAAATAGTATAGATAAAAATAATTTATT
127451604 TCTTTTGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (34 bp):
ACTTAATAAATAGTATAGATAAAAATAATTTATT
Found at i:127456426 original size:19 final size:20
Alignment explanation
Indices: 127456394--127456431 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
127456384 GTTGACTAAA
* *
127456394 TTTTTAATATATTTTTTTAT
1 TTTTTAATAGATTTATTTAT
127456414 TTTTTAAT-GATTTATTTA
1 TTTTTAATAGATTTATTTA
127456432 ATCGAATCGG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTAATAGATTTATTTAT
Found at i:127459366 original size:21 final size:20
Alignment explanation
Indices: 127459342--127459381 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
127459332 ATAAAAGAAT
*
127459342 AATATATTAATATTTTATTAA
1 AATATATTAAGA-TTTATTAA
*
127459363 AATATTTTAAGATTTATTA
1 AATATATTAAGATTTATTA
127459382 CATTTTTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AATATATTAAGATTTATTAA
Found at i:127467789 original size:16 final size:15
Alignment explanation
Indices: 127467768--127467801 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
127467758 GTTGACCCGG
127467768 ATTTTTAATATTTTTT
1 ATTTTTAA-ATTTTTT
127467784 ATTTTTTAAATTTTTT
1 A-TTTTTAAATTTTTT
127467800 AT
1 AT
127467802 AATTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.06
16 9 0.53
17 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTTAAATTTTTT
Found at i:127469645 original size:62 final size:60
Alignment explanation
Indices: 127469540--127469661 Score: 181
Period size: 62 Copynumber: 2.0 Consensus size: 60
127469530 AAAGTATAAT
* * *
127469540 TTTACAGAAAATAATTTGTAATTTTATCAGGAGACTGAGAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
* *
127469600 TTTACAGAAAATAATATTTTTAATATTATCGGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
1 TTTACAGAAAAT-A-ATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
127469662 CCAAAATCAC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
60 12 0.22
61 1 0.02
62 42 0.76
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (60 bp):
TTTACAGAAAATAATTTGTAATATTATCAGGAAACTGAAAAACAAAGTTCCAGGCTGTGC
Found at i:127472453 original size:21 final size:21
Alignment explanation
Indices: 127472429--127472473 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
127472419 GAAGTTGTAA
127472429 TGGGGTCCGTTCTTTCAAGTT
1 TGGGGTCCGTTCTTTCAAGTT
127472450 TGGGGTCCGTTCTTTCAAGTT
1 TGGGGTCCGTTCTTTCAAGTT
127472471 TGG
1 TGG
127472474 CTTCTTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.09, C:0.18, G:0.31, T:0.42
Consensus pattern (21 bp):
TGGGGTCCGTTCTTTCAAGTT
Found at i:127481920 original size:15 final size:15
Alignment explanation
Indices: 127481900--127481930 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
127481890 TTCTGCTTTT
127481900 TTCTTCGTCGTCTTC
1 TTCTTCGTCGTCTTC
*
127481915 TTCTTCGTCTTCTTC
1 TTCTTCGTCGTCTTC
127481930 T
1 T
127481931 CTTGCCTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.10, T:0.58
Consensus pattern (15 bp):
TTCTTCGTCGTCTTC
Found at i:127481930 original size:12 final size:12
Alignment explanation
Indices: 127481900--127481930 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
127481890 TTCTGCTTTT
*
127481900 TTCTTCGTCGTC
1 TTCTTCTTCGTC
127481912 TTCTTCTTCGTC
1 TTCTTCTTCGTC
127481924 TTCTTCT
1 TTCTTCT
127481931 CTTGCCTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.32, G:0.10, T:0.58
Consensus pattern (12 bp):
TTCTTCTTCGTC
Found at i:127483546 original size:17 final size:17
Alignment explanation
Indices: 127483503--127483547 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
127483493 TTGAATTTAC
*
127483503 AAAATTATTATAAATTT
1 AAAATAATTATAAATTT
*
127483520 AAAATTATTATAAATTT
1 AAAATAATTATAAATTT
*
127483537 AAAGTAATTAT
1 AAAATAATTAT
127483548 GTTAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATAATTATAAATTT
Found at i:127483547 original size:20 final size:17
Alignment explanation
Indices: 127483503--127483539 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
127483493 TTGAATTTAC
127483503 AAAATTATTATAAATTT
1 AAAATTATTATAAATTT
127483520 AAAATTATTATAAATTT
1 AAAATTATTATAAATTT
127483537 AAA
1 AAA
127483540 GTAATTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTATAAATTT
Found at i:127487454 original size:25 final size:25
Alignment explanation
Indices: 127487426--127487478 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
127487416 ACAAGTAATG
127487426 AAGACTCCAAACATTTTTGTTCAAC
1 AAGACTCCAAACATTTTTGTTCAAC
127487451 AAGACTCCAAACATTTTTGTTCAAC
1 AAGACTCCAAACATTTTTGTTCAAC
127487476 AAG
1 AAG
127487479 TACTTAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (25 bp):
AAGACTCCAAACATTTTTGTTCAAC
Found at i:127489999 original size:20 final size:19
Alignment explanation
Indices: 127489969--127490006 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
127489959 GATTTATAAA
127489969 ATTAAAATTAATAAAAATC
1 ATTAAAATTAATAAAAATC
*
127489988 ATTAATAATTAATTAAAAT
1 ATTAA-AATTAATAAAAAT
127490007 ATAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAATTAATAAAAATC
Found at i:127490012 original size:15 final size:16
Alignment explanation
Indices: 127489991--127490026 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
127489981 AAAAATCATT
127489991 AATAATTA-ATTAAAA
1 AATAATTATATTAAAA
*
127490006 TATAATTATATTAAAA
1 AATAATTATATTAAAA
127490022 AATAA
1 AATAA
127490027 AATCCAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AATAATTATATTAAAA
Found at i:127492458 original size:30 final size:30
Alignment explanation
Indices: 127492423--127492482 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
127492413 TTTTCAACTG
127492423 ATTTTTTA-TATTTAATAATTTT-TTAAAAT
1 ATTTTTTATTATTTAA-AATTTTATTAAAAT
*
127492452 ATTTTTTATTTTTTAAAATTTTATTAAAAT
1 ATTTTTTATTATTTAAAATTTTATTAAAAT
127492482 A
1 A
127492483 ATATGTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
ATTTTTTATTATTTAAAATTTTATTAAAAT
Found at i:127492676 original size:2 final size:2
Alignment explanation
Indices: 127492669--127492700 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
127492659 TAATGACAAT
127492669 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127492701 AAACAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127496272 original size:30 final size:31
Alignment explanation
Indices: 127496222--127496282 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
127496212 CTAACACAGT
127496222 TAAATTATGATCTCAAA-TTTTAAAATATTC
1 TAAATTATGATCTCAAATTTTTAAAATATTC
* *
127496252 TAAATT-TGATCTACATATTTTTAATATATTC
1 TAAATTATGATCT-CAAATTTTTAAAATATTC
127496283 AATATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 6 0.22
30 9 0.33
31 12 0.44
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (31 bp):
TAAATTATGATCTCAAATTTTTAAAATATTC
Found at i:127498443 original size:5 final size:5
Alignment explanation
Indices: 127498435--127498461 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
127498425 CATTTTTATT
127498435 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
127498462 CTGGGTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:127501502 original size:3 final size:3
Alignment explanation
Indices: 127501494--127501583 Score: 180
Period size: 3 Copynumber: 30.0 Consensus size: 3
127501484 GTTATTTTCA
127501494 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
127501542 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
127501584 GTACTTTTGT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 87 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:127506373 original size:140 final size:140
Alignment explanation
Indices: 127506182--127507009 Score: 947
Period size: 141 Copynumber: 6.0 Consensus size: 140
127506172 ATAGTCTTTG
* * * * *
127506182 GACAAAACCGACTCTTATTTAAACGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAGT
* * * *
127506247 TGGCCAAAGTGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAATGTATAGG
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGG
* * *
127506312 CATAGTG-TTC
131 CTTAG-GACTA
* * * *
127506322 GACAAAGTCGACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAAAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAGT
* ** * * *
127506387 TGACCAAAAAGTATGTCGACAAGTCTATCCCAACACTT-----A--G--G----AAAA-TGTCGT
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGG
127506438 CTTAGGACTA
131 CTTAGGACTA
* * *
127506448 GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAAGCATACATATCGCAACCCTTATGCAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAGT
* * * * *
127506513 TGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAATGTCGT
66 TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGG
127506578 CTTAGGACTA
131 CTTAGGACTA
* * * *
127506588 GACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATACATATCGCAACCCTTATGCAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAG
* * * *
127506653 TTGGCCAAAGCATATGTTGCCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCG
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCG
*
127506718 TCTTAGGACTA
130 GCTTAGGACTA
* * **
127506729 CACAAAAGCCAACTCTTATTCAAGCGTTGCCTT-AGACATACATATCCCAACCCTTATTTAAAGA
1 GAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAAG-CATACATATCCCAACCCTTATACAAAGA
* * *
127506793 GTTGGCGAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACGAAAGTG-TCACCCCAAAAGTGT
64 GTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGA-CCCAAAAGTGT
*
127506857 CGCCTTAGGACTA
128 CGGCTTAGGACTA
* * *
127506870 GACAAAGCCAACTCTTATTTAAGCGTTGCCTT-AGTCATGCATATCCCAACCTTTATACAAATAG
1 GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAG-CATACATATCCCAACCCTTATACAAAGAG
* * * * *
127506934 TTGGCTAAAGAGTATATTGGCCAGTCTATCCCAACACTTAGGAAAGTGTCG-CCACAAAAGTGTC
65 TTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACC-CAAAAGTGTC
* *
127506998 GTCTTAAGACTA
129 GGCTTAGGACTA
127507010 TTTTGTTATA
Statistics
Matches: 603, Mismatches: 65, Indels: 40
0.85 0.09 0.06
Matches are distributed among these distances:
125 1 0.00
126 98 0.16
127 3 0.00
131 2 0.00
133 2 0.00
135 2 0.00
139 6 0.01
140 230 0.38
141 259 0.43
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (140 bp):
GACAAAGCCAACTCTTATTTAAGCGTTGCCTTAAGCATACATATCCCAACCCTTATACAAAGAGT
TGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAAAGTGTCGG
CTTAGGACTA
Found at i:127506997 original size:281 final size:281
Alignment explanation
Indices: 127506428--127507009 Score: 886
Period size: 281 Copynumber: 2.1 Consensus size: 281
127506418 AACACTTAGG
* * *
127506428 AAAA-TGTCGTCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCGTTGTCTTAAGCATACATAT
1 AAAAGTGTCGTCTTAGGACTACACAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATAT
* *
127506492 CGCAACCCTTATGCAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAA
66 CCCAACCCTTATGCAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTACGAAA
* * *
127506557 GTGTCGCCCCAAAAATGTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGTCTTA
131 GTGTCACCCCAAAAATGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTA
* * *
127506622 GGCATACATATCGCAACCCTTATGCAAAGAGTTGGCCAAAGCATATGTTGCCAAGTCTATCCCAA
196 GGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATATTGCCAAGTCTATCCCAA
*
127506687 CACTTAGGAAAGTGTCGCCCC
261 CACTTAGGAAAGTGTCGCCAC
127506708 AAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGCGTTGCCTT-AGACATACAT
1 AAAAGTGTCGTCTTAGGACTACAC-AAAGCCAACTCTTATTCAAGCGTTGCCTTAAG-CATACAT
** * *
127506772 ATCCCAACCCTTATTTAAAGAGTTGGCGAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACGA
64 ATCCCAACCCTTATGCAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTACGA
*
127506837 AAGTGTCACCCCAAAAGTGTCGCCTTAGGACTAGAC-AAAGCCAACTCTTATTTAAGCGTTGCCT
129 AAGTGTCACCCCAAAAATGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCT
* * * * *
127506901 TAGTCATGCATATCCCAACCTTTATACAAATAGTTGGCTAAAG-AGTATATTGGCC-AGTCTATC
194 TAGGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCA-TATATT-GCCAAGTCTATC
127506964 CCAACACTTAGGAAAGTGTCGCCAC
257 CCAACACTTAGGAAAGTGTCGCCAC
*
127506989 AAAAGTGTCGTCTTAAGACTA
1 AAAAGTGTCGTCTTAGGACTA
127507010 TTTTGTTATA
Statistics
Matches: 274, Mismatches: 23, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
280 5 0.02
281 140 0.51
282 129 0.47
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (281 bp):
AAAAGTGTCGTCTTAGGACTACACAAAGCCAACTCTTATTCAAGCGTTGCCTTAAGCATACATAT
CCCAACCCTTATGCAAAGAGTTGGCCAAAGCATATGTTGGCAAGTCTATCCCAACACTTACGAAA
GTGTCACCCCAAAAATGTCGCCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCGTTGCCTTA
GGCATACATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATATTGCCAAGTCTATCCCAA
CACTTAGGAAAGTGTCGCCAC
Found at i:127512112 original size:91 final size:90
Alignment explanation
Indices: 127511812--127512120 Score: 262
Period size: 93 Copynumber: 3.4 Consensus size: 90
127511802 ACCCAATAAT
* * * * *
127511812 CCCGAAAATGAAATATAATAAATAATAATTTTTACAATTATCTCTAAAAATTT-AAAATATATGT
1 CCCGAAAATAAAATATAATAAATAATAATTTTTATAATTAT-TCTGAAAATTTAAAAAAAAAT-T
* *
127511876 TCATAGCATCATACTCAAGTCCAAGTGC
64 TC-GAGCACCATACTCAAGTCCAAGTGC
*** * * * * * * **
127511904 TTTGAAAAATGATATATAGTAAATAATAATTTTCATAATTATCCCGAAAAAGTAAAAAAAATATT
1 CCCG-AAAATAAAATATAATAAATAATAATTTTTATAATTATTCTGAAAATTTAAAAAAAA-A-T
* * ** * *
127511969 TTTGCACCACCATACTCAAGTTAAAATGA
63 TTCG-AGCACCATACTCAAGTCCAAGTGC
* *
127511998 CCCGAAGATAAAATATTATAAATAATAATTTTTATAATTATTCTGAAAATTTTAAAAAAAAATTT
1 CCCGAAAATAAAATATAATAAATAATAATTTTTATAATTATTCTGAAAA-TTTAAAAAAAAATTT
* * *
127512063 CGGGCACCATACTCAAGCCCAAGTCC
65 CGAGCACCATACTCAAGTCCAAGTGC
*
127512089 CCCGAAAATAAAATATAAAAAATAA-AATTTTT
1 CCCGAAAATAAAATATAATAAATAATAATTTTT
127512121 TATATATAGT
Statistics
Matches: 164, Mismatches: 47, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
90 7 0.04
91 38 0.23
92 11 0.07
93 76 0.46
94 31 0.19
95 1 0.01
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (90 bp):
CCCGAAAATAAAATATAATAAATAATAATTTTTATAATTATTCTGAAAATTTAAAAAAAAATTTC
GAGCACCATACTCAAGTCCAAGTGC
Found at i:127512728 original size:19 final size:19
Alignment explanation
Indices: 127512701--127512737 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
127512691 TCTTCATTGA
*
127512701 ATTTATAAAAATATTTAAT
1 ATTTATAAAAAAATTTAAT
*
127512720 ATTTGTAAAAAAATTTAA
1 ATTTATAAAAAAATTTAA
127512738 AGTAGAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTATAAAAAAATTTAAT
Found at i:127515404 original size:2 final size:2
Alignment explanation
Indices: 127515399--127515427 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127515389 AATTAATCTT
127515399 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127515428 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:127518264 original size:22 final size:22
Alignment explanation
Indices: 127518209--127518261 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
127518199 ATTTTTTAAA
* *
127518209 TGAGAAGTTTAATTAAAATTTT
1 TGAGAAATTTAATGAAAATTTT
*
127518231 TGAGAAAATTAATGAAAATTTT
1 TGAGAAATTTAATGAAAATTTT
127518253 TGA-AAATTT
1 TGAGAAATTT
127518262 TAAAGGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (22 bp):
TGAGAAATTTAATGAAAATTTT
Found at i:127522505 original size:21 final size:21
Alignment explanation
Indices: 127522481--127522520 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
127522471 TAATATTTAT
*
127522481 ATATTTTATAATAA-AATTAGA
1 ATATATTATAA-AATAATTAGA
127522502 ATATATTATAAAATAATTA
1 ATATATTATAAAATAATTA
127522521 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
ATATATTATAAAATAATTAGA
Found at i:127523596 original size:23 final size:23
Alignment explanation
Indices: 127523566--127523615 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
127523556 ATTATATAAT
127523566 TTAAATTCAGCCTTAATTTTTTA
1 TTAAATTCAGCCTTAATTTTTTA
127523589 TTAAATTCAGCCTTAATTTTTTA
1 TTAAATTCAGCCTTAATTTTTTA
127523612 TTAA
1 TTAA
127523616 CATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (23 bp):
TTAAATTCAGCCTTAATTTTTTA
Found at i:127524162 original size:21 final size:21
Alignment explanation
Indices: 127524136--127524175 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
127524126 GCCCAATTCA
127524136 AGACCTGTTCAGAGGACCTCG
1 AGACCTGTTCAGAGGACCTCG
127524157 AGACCTGTTCAGAGGACCT
1 AGACCTGTTCAGAGGACCT
127524176 ATTAAGCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (21 bp):
AGACCTGTTCAGAGGACCTCG
Found at i:127529587 original size:23 final size:26
Alignment explanation
Indices: 127529547--127529593 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
127529537 ACGTCACTTC
*
127529547 TATATTTTTATTTCTCA-TATTATCT
1 TATATTTATATTTCTCATTATTATCT
127529572 TATATTTATA-TT-TCATTATTAT
1 TATATTTATATTTCTCATTATTAT
127529594 ACCATATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 8 0.40
25 9 0.45
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (26 bp):
TATATTTATATTTCTCATTATTATCT
Found at i:127542010 original size:44 final size:43
Alignment explanation
Indices: 127541961--127542260 Score: 163
Period size: 44 Copynumber: 6.9 Consensus size: 43
127541951 AAACAAAGAG
*
127541961 CCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATGAAGA-TTACAA
* * * ** *
127542005 TCTTAACCCCCTAAGCAGTAGTGG-AGCA-GATCGAAGACGAAGAA
1 CCTTAAACCCCTAAGCAGTAG-GGTAACAGGAT-GAAGA-TTACAA
* *
127542049 CCTTAAACCCCTAAGCAGTAGGGTAACAGGTTG-A-ATTGCAGA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGATGAAGATTACA-A
* * * * ** *
127542091 TCTT-ATCTCCCTAAGCAGTAGTGG-AGCA-GATCAAAGACGAAGAA
1 CCTTAAAC-CCCTAAGCAGTAG-GGTAACAGGAT-GAAGA-TTACAA
* *
127542135 CCTTAAAACCCTTAAGCAGTAGGGTAACAGGTTG-A-ATTACAGA
1 CCTT-AAACCCCTAAGCAGTAGGGTAACAGGATGAAGATTACA-A
* * * * *
127542178 TC-TAAAACCCTAAGCAGTAGGGAAACA-GATCAAAGATGACAA
1 CCTTAAACCCCTAAGCAGTAGGGTAACAGGAT-GAAGATTACAA
* * * *
127542220 GCCTTAATCCCCTAAACAGTAGGGTAACAGGCTGAAAATTA
1 -CCTTAAACCCCTAAGCAGTAGGGTAACAGGATGAAGATTA
127542261 AATATCTTCT
Statistics
Matches: 184, Mismatches: 50, Indels: 44
0.66 0.18 0.16
Matches are distributed among these distances:
40 2 0.01
41 26 0.14
42 26 0.14
43 17 0.09
44 87 0.47
45 22 0.12
46 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (43 bp):
CCTTAAACCCCTAAGCAGTAGGGTAACAGGATGAAGATTACAA
Found at i:127542030 original size:88 final size:86
Alignment explanation
Indices: 127541884--127542255 Score: 423
Period size: 86 Copynumber: 4.3 Consensus size: 86
127541874 GTCTTAAGCT
* * ** * * *
127541884 CCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATC
1 CCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATC
*
127541949 GAAA-ACAAAGAGCCTTAAACC
66 -AAAGACAAAGAACCTTAAACC
*
127541970 CCTAAGCAGTAGGGTAACAGGCTGAAGATTTACA-ATCTTAACCCCCTAAGCAGTAGTGGAGCAG
1 CCTAAGCAGTAGGGTAACAGGCTG-A-A-TTACAGATCTTAACTCCCTAAGCAGTAGTGGAGCAG
* *
127542034 ATCGAAGACGAAGAACCTTAAACC
63 ATCAAAGACAAAGAACCTTAAACC
* * *
127542058 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 CCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATC
*
127542123 AAAGACGAAGAACCTTAAAACC
66 AAAGACAAAGAACCTT-AAACC
* * ** *
127542145 CTTAAGCAGTAGGGTAACAGGTTGAATTACAGATC-TAAAACCCTAAGCAGTAG-GGAAACAGAT
1 CCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTGG-AGCAGAT
* *
127542208 CAAAGATGACAAG--CCTTAATCC
65 CAAAGA-CA-AAGAACCTTAAACC
*
127542230 CCTAAACAGTAGGGTAACAGGCTGAA
1 CCTAAGCAGTAGGGTAACAGGCTGAA
127542256 AATTAAATAT
Statistics
Matches: 249, Mismatches: 28, Indels: 19
0.84 0.09 0.06
Matches are distributed among these distances:
85 33 0.13
86 98 0.39
87 42 0.17
88 72 0.29
89 4 0.02
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (86 bp):
CCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTTAACTCCCTAAGCAGTAGTGGAGCAGATC
AAAGACAAAGAACCTTAAACC
Found at i:127542065 original size:174 final size:172
Alignment explanation
Indices: 127541884--127542249 Score: 472
Period size: 174 Copynumber: 2.1 Consensus size: 172
127541874 GTCTTAAGCT
* *
127541884 CCTAAGCAGTAGGGAAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATC
1 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
127541949 GAAA-ACAAAGAGCCTT-AAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACA-ATCTTAA
66 -AAAGACAAAGAACCTTAAAACCCCTAAGCAGTAGGGTAACAGGCTG-A-A-TTACAGATC-TAA
** * *
127542011 CCCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAACC
126 AACCCTAAGCAGTAG-GGAAACAGATCAAAGACGACA-AACCTTAAACC
****
127542058 CCTAAGCAGTAGGGTAACAGGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
127542123 AAAGACGAAGAACCTTAAAACCCTTAAGCAGTAGGGTAACAGGTTGAATTACAGATCTAAAACCC
66 AAAGACAAAGAACCTTAAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTAAAACCC
* * *
127542188 TAAGCAGTAGGGAAACAGATCAAAGATGACAAGCCTTAATCC
131 TAAGCAGTAGGGAAACAGATCAAAGACGACAAACCTTAAACC
*
127542230 CCTAAACAGTAGGGTAACAG
1 CCTAAGCAGTAGGGTAACAG
127542250 GCTGAAAATT
Statistics
Matches: 169, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
171 2 0.01
172 62 0.37
173 8 0.05
174 70 0.41
175 27 0.16
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (172 bp):
CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
AAAGACAAAGAACCTTAAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTACAGATCTAAAACCC
TAAGCAGTAGGGAAACAGATCAAAGACGACAAACCTTAAACC
Found at i:127542408 original size:41 final size:41
Alignment explanation
Indices: 127542350--127542501 Score: 209
Period size: 41 Copynumber: 3.7 Consensus size: 41
127542340 AGTCACATGT
*
127542350 CTTATCTCCATAG-AGTTGCAGTGGAGCAGATCAAAACAAAC
1 CTTACCTCC-TAGAAGTTGCAGTGGAGCAGATCAAAACAAAC
127542391 CTTACCTCCATAG-AGTTGCAGTGGAGCAGATCAAAACAAAC
1 CTTACCTCC-TAGAAGTTGCAGTGGAGCAGATCAAAACAAAC
* * *
127542432 CTTACCTTCTTGAAGTTGCAGTGGAGCAGATAAAAACAAAC
1 CTTACCTCCTAGAAGTTGCAGTGGAGCAGATCAAAACAAAC
* * *
127542473 CTTACCTTCTTGAAGTTGCAGTAGAGCAG
1 CTTACCTCCTAGAAGTTGCAGTGGAGCAG
127542502 TGAAGCGAAG
Statistics
Matches: 105, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 2 0.02
41 103 0.98
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (41 bp):
CTTACCTCCTAGAAGTTGCAGTGGAGCAGATCAAAACAAAC
Found at i:127544328 original size:25 final size:25
Alignment explanation
Indices: 127544299--127544346 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
127544289 ACGTCACTTC
*
127544299 TATATTTTTATTTCTCA-TATTATCT
1 TATATTTATATTTC-CATTATTATCT
127544324 TATATTTATATTTCCATTATTAT
1 TATATTTATATTTCCATTATTAT
127544347 ACCATATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATTTATATTTCCATTATTATCT
Found at i:127549168 original size:25 final size:25
Alignment explanation
Indices: 127549138--127549206 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 25
127549128 ATAAAAAAAT
*
127549138 ATCAAAAATAAAAATCTATATTATAA
1 ATCAAAAATAAAAATATATATTA-AA
* *
127549164 A-CAAAAATTAAATTATATATTAAA
1 ATCAAAAATAAAAATATATATTAAA
*
127549188 ATTGAAAAATAAAAATATA
1 A-TCAAAAATAAAAATATA
127549207 AAAAATTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 3 0.09
25 18 0.51
26 14 0.40
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (25 bp):
ATCAAAAATAAAAATATATATTAAA
Found at i:127557970 original size:13 final size:13
Alignment explanation
Indices: 127557951--127557981 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
127557941 GAATTGGGAA
127557951 AAAAAAAAACAAAC
1 AAAAAAAAA-AAAC
127557965 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
127557978 AAAA
1 AAAA
127557982 CAAAGAGCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:127557972 original size:18 final size:18
Alignment explanation
Indices: 127557949--127557985 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
127557939 TGGAATTGGG
127557949 AAAAAAAAAAAC-AAACA
1 AAAAAAAAAAACAAAACA
127557966 AAAAAAAAAAACAAAACA
1 AAAAAAAAAAACAAAACA
127557984 AA
1 AA
127557986 GAGCAGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAACA
Found at i:127560870 original size:4 final size:4
Alignment explanation
Indices: 127560861--127560889 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
127560851 AATAAGTAAC
127560861 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
127560890 AATTTGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:127568716 original size:18 final size:19
Alignment explanation
Indices: 127568693--127568740 Score: 53
Period size: 23 Copynumber: 2.4 Consensus size: 19
127568683 AAGTTTGTGG
127568693 TTGTATC-TCCTAACAATA
1 TTGTATCATCCTAACAATA
127568711 TTGTATCCAATGTCCTAACAATA
1 TTGTAT-C-A--TCCTAACAATA
127568734 TTGTATC
1 TTGTATC
127568741 CAATGTTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
22 1 0.04
23 17 0.68
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (19 bp):
TTGTATCATCCTAACAATA
Found at i:127568726 original size:23 final size:23
Alignment explanation
Indices: 127568700--127568746 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
127568690 TGGTTGTATC
127568700 TCCTAACAATATTGTATCCAATG
1 TCCTAACAATATTGTATCCAATG
127568723 TCCTAACAATATTGTATCCAATG
1 TCCTAACAATATTGTATCCAATG
127568746 T
1 T
127568747 TCAAATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (23 bp):
TCCTAACAATATTGTATCCAATG
Found at i:127572877 original size:31 final size:31
Alignment explanation
Indices: 127572839--127572917 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
127572829 TTTAACGGTT
*
127572839 ACTGGGCCGATGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
127572870 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
127572901 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
127572918 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:127573012 original size:42 final size:42
Alignment explanation
Indices: 127572941--127573032 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
127572931 TGGCCCATAG
* *
127572941 GCCTATTTCAATATCACATATAATGCCAATGGATGTATGCAA
1 GCCTATTTCAATATCACATATAATACCAATGAATGTATGCAA
* *
127572983 GCCTTTTTCAATATCATATGA-AATACCAATGAATGTATGCAA
1 GCCTATTTCAATATCACAT-ATAATACCAATGAATGTATGCAA
*
127573025 GCCCATTT
1 GCCTATTT
127573033 AGGGAGACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (42 bp):
GCCTATTTCAATATCACATATAATACCAATGAATGTATGCAA
Found at i:127573248 original size:26 final size:26
Alignment explanation
Indices: 127573164--127573299 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
127573154 CTGGAGGCCT
127573164 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
*
127573188 AGCCCTTTTCGATAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
127573213 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
127573239 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
127573265 AGCCATTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
127573291 AGCCCTTTT
1 AGCCCTTTT
127573300 GCACTTCCTC
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 5 0.05
24 6 0.06
25 34 0.34
26 56 0.55
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:127573513 original size:5 final size:5
Alignment explanation
Indices: 127573505--127573530 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
127573495 GAGATGGAAT
127573505 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
127573531 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:127573530 original size:26 final size:26
Alignment explanation
Indices: 127573479--127573530 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
127573469 TGAAATTTTC
* * *
127573479 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
127573505 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
127573531 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:127575009 original size:9 final size:9
Alignment explanation
Indices: 127574984--127575029 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
127574974 TTCGAAAAAA
127574984 AATTCGAGTT
1 AATTCGA-TT
*
127574994 GATTCGATT
1 AATTCGATT
127575003 AATTCGATT
1 AATTCGATT
*
127575012 AACTCGATT
1 AATTCGATT
*
127575021 AACTCGATT
1 AATTCGATT
127575030 CGAATAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (9 bp):
AATTCGATT
Found at i:127575119 original size:20 final size:20
Alignment explanation
Indices: 127575094--127575165 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
127575084 TGCTCACCCC
127575094 TACATATCATGTGCATTTCA
1 TACATATCATGTGCATTTCA
*
127575114 TACATATCATGTGCATTTTA
1 TACATATCATGTGCATTTCA
*
127575134 TACATATCATGTGCATATCA
1 TACATATCATGTGCATTTCA
127575154 TATCA-ATCATGT
1 TA-CATATCATGT
127575166 ATATAATATC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (20 bp):
TACATATCATGTGCATTTCA
Found at i:127575933 original size:26 final size:27
Alignment explanation
Indices: 127575873--127575937 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
127575863 GGGCGTATTC
127575873 ATCATTTTACCATACAAGGGTATTACG
1 ATCATTTTACCATACAAGGGTATTACG
* * *
127575900 GTCATTTTACCCTACAGGGGCT-TTACG
1 ATCATTTTACCATACAAGGG-TATTACG
*
127575927 ATCTTTTTACC
1 ATCATTTTACC
127575938 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (27 bp):
ATCATTTTACCATACAAGGGTATTACG
Found at i:127575998 original size:27 final size:27
Alignment explanation
Indices: 127575968--127576101 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 27
127575958 TTTCATCCTA
* * *
127575968 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
127575995 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
127576022 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
127576049 TAAGGGTATTTCGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
127576075 CCAGTGGTATTTTGGTAATTTTACAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
127576102 CTAGGGGTGT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.03
27 86 0.96
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:127576046 original size:54 final size:54
Alignment explanation
Indices: 127575971--127576101 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
127575961 CATCCTACAA
* * * * ** *
127575971 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
*
127576025 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
*
127576079 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
127576102 CTAGGGGTGT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTACAAACCAG
Found at i:127576102 original size:27 final size:26
Alignment explanation
Indices: 127575967--127576121 Score: 141
Period size: 27 Copynumber: 5.8 Consensus size: 26
127575957 ATTTCATCCT
* * *
127575967 ACAAGGGTGTTTTGGTAAATCTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
**
127575993 ATCAAGGGTATTTCT-GTAATTTTGTAA
1 A-CAAGGGTATTT-TGGTAATTTTACAA
*
127576020 ATCAGGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* *
127576047 ATTAAGGGTATTTCGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
*
127576074 ACCAGTGGTATTTTGGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
* * *
127576101 ACTAGGGGTGTTATGGTAATT
1 AC-AAGGGTATTTTGGTAATT
127576122 CTACCCTATA
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
26 4 0.04
27 100 0.94
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.39
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:127576140 original size:54 final size:54
Alignment explanation
Indices: 127575971--127576125 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 54
127575961 CATCCTACAA
* * * * * ** *
127575971 GGGTGTTTTGGTAAATCTACAAA-TCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCGGTAATTCTACAAACCAG
* *
127576025 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTCTACAAACCAG
* * *
127576079 TGGTATTTTGGTAATTTTACAAACTAGGGGTGTTAT-GGTAATTCTAC
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATT-TCGGTAATTCTAC
127576126 CCTATAGGGG
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 85 0.98
55 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTCTACAAACCAG
Done.