Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 184 of 206
Found at i:56044114 original size:139 final size:138
Alignment explanation
Indices: 56043943--56044203 Score: 414
Period size: 139 Copynumber: 1.9 Consensus size: 138
56043933 ATTCATCGTT
56043943 TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
1 TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
* * * ** *
56044008 TTAGGGAGATAATATTGGTTATCTTCAGTCTGCTCCAGTGCAACTTCAGGAAGATAAGACTTGTT
66 TCAAGGAGATAAGATTGG-TATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTT
56044073 ATGGTAGAC
130 ATGGTAGAC
* * *
56044082 TTAATCCGCTCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
1 TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
* *
56044147 TCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAG
66 TCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAG
56044204 GTTGTTTATC
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
138 34 0.31
139 77 0.69
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (138 bp):
TTAATCCGCTCCACTGCAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACT
TCAAGGAGATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTTA
TGGTAGAC
Found at i:56044140 original size:183 final size:183
Alignment explanation
Indices: 56043844--56044439 Score: 797
Period size: 183 Copynumber: 3.3 Consensus size: 183
56043834 TAATATCCGC
* * ** *
56043844 TATCTACAGTCTGCTCCACTACAACTTTAGGGAGATAAGACTCATTATGGTAGATTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
* * *
56043909 CTACTGCAACTTCAGAGATATAAGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
66 CTACTGCAACTTTAGGGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
*
56043974 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAATATTGGT
131 AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGT
* * *
56044027 TATCTTCAGTCTGCTCCAGTGCAACTTCAGGAAGATAAGACTTGTTATGGTAGACTTAATCCG-C
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
* * * * * *
56044091 TCTACTGCAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCA-AGGAG
66 -CTACTGCAACTTTAGGGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGA-GAG
* ** * * * *
56044155 ATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTGTT
129 ATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGT
* *
56044210 TATCTTCAATCTGCTTCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
1 TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
* *
56044275 CTACTACAACTTTAGAGG-TATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGGGAGA
66 CTACTGCAACTTTAG-GGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGA
**
56044339 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGAAAGATAAGATTGG-
130 TAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGT
* * * **
56044392 TATCTTCA-ACTTGCTCCACTGCAACTTTAGGGAGATAAGGTTTGTTAT
1 TATCTTCAGTC-TGCTCCACTACAACTTCAGGGAGATAAGACTTGTTAT
56044440 CTTTAGTCTT
Statistics
Matches: 354, Mismatches: 53, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
181 1 0.00
182 42 0.12
183 308 0.87
184 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (183 bp):
TATCTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTTATGGTAGACTTAATCCGAC
CTACTGCAACTTTAGGGATATAGGATTCATCGTTTTAATCCGCTCCACTGCAACTTCAGAGAGAT
AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGT
Found at i:56044520 original size:51 final size:51
Alignment explanation
Indices: 56044465--56044564 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
56044455 ATTCTGCTGC
* * * *
56044465 AACGCCAGGGAAACAAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGT
1 AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGT
* * *
56044516 AACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
1 AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACT
56044565 TCAGCTTTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (51 bp):
AACGCCAAGGAAACAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTGT
Found at i:56044583 original size:21 final size:21
Alignment explanation
Indices: 56044542--56044585 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
56044532 GATTCGCTGC
*
56044542 CTTCAGCTTTAATCCGCTCCA
1 CTTCAGCTTTAATCCACTCCA
* *
56044563 CTTCAGCTTTAATCTATTCCA
1 CTTCAGCTTTAATCCACTCCA
56044584 CT
1 CT
56044586 GCAATGTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.07, T:0.39
Consensus pattern (21 bp):
CTTCAGCTTTAATCCACTCCA
Found at i:56044583 original size:72 final size:72
Alignment explanation
Indices: 56044495--56044636 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
56044485 CGCTGCCTTT
* * * * *
56044495 AGCTTTAATCTGTTCCACTGTAACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
56044560 CCACTTC
66 CCACTTC
* * * * * *
56044567 AGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
56044632 CCACT
66 CCACT
56044637 GCAAAGCCAG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (72 bp):
AGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATCCGCT
CCACTTC
Found at i:56044648 original size:51 final size:51
Alignment explanation
Indices: 56044563--56044781 Score: 240
Period size: 51 Copynumber: 4.3 Consensus size: 51
56044553 ATCCGCTCCA
* * * *
56044563 CTTCAGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * * *
56044614 CTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAAATAATATTTGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * *
56044665 CTTCAGCTTTAATCTGCTCCGCTGCAACGCTAAGGAAACAAGATTTGCTAC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
* * * * ** *
56044716 CTTTAGCTTTAATATGTTCCACTGTAACGCCAAGGAGATGGGATTCGCTGC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
56044767 CTTCAGCTTTAATCT
1 CTTCAGCTTTAATCT
56044782 TCCCCACTTC
Statistics
Matches: 138, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 138 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (51 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCCAAGGAAATAAGATTCGCTAC
Found at i:56044670 original size:123 final size:123
Alignment explanation
Indices: 56044451--56044684 Score: 342
Period size: 123 Copynumber: 1.9 Consensus size: 123
56044441 TTTAGTCTTG
** * *
56044451 ATCTATTCTGCTGCAACGCCAGGGAAACAAGATTCGCTGCCTTTAGCTTTAATCTGTTCCACTGT
1 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
* * *
56044516 AACGCCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
66 AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
* * *
56044574 ATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
1 ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
* * * *
56044639 AAAGCCAGGGAAATAATATTTGCTGCCTTCAGCTTTAATCTGCTCC
66 AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCC
56044685 GCTGCAACGC
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (123 bp):
ATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGC
AAAGCCAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATCCGCTCCACTTCAGCTTTA
Found at i:56044739 original size:102 final size:102
Alignment explanation
Indices: 56044563--56044781 Score: 278
Period size: 102 Copynumber: 2.1 Consensus size: 102
56044553 ATCCGCTCCA
* * * * *
56044563 CTTCAGCTTTAATCTATTCCACTGCAATGTCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTCAGCTTTAATCTACTCCACTGCAACGTCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATA
* * *
56044628 TGTTCCACTGCAAAGCCAGGGAAATAATATTTGCTGC
66 TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
* * *
56044665 CTTCAGCTTTAATCTGCTCCGCTGCAACG-CTAAGGAAACAAGATTTGCTACCTTTAGCTTTAAT
1 CTTCAGCTTTAATCTACTCCACTGCAACGTC-AAGGAAACAAGATTCGCTACCTTTAGCTTTAAT
* * * **
56044729 ATGTTCCACTGTAACGCCAAGGAGATGGGATTCGCTGC
65 ATGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
56044767 CTTCAGCTTTAATCT
1 CTTCAGCTTTAATCT
56044782 TCCCCACTTC
Statistics
Matches: 100, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
101 1 0.01
102 99 0.99
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (102 bp):
CTTCAGCTTTAATCTACTCCACTGCAACGTCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATA
TGTTCCACTGCAAAGCCAAGGAAATAAGATTCGCTGC
Found at i:56049304 original size:103 final size:103
Alignment explanation
Indices: 56049184--56049411 Score: 375
Period size: 103 Copynumber: 2.2 Consensus size: 103
56049174 CCAGTGATTC
* * * * *
56049184 GGGGAATCAGCATTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACAATTAGCAACC
*
56049249 ACCAATCATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTTG
* *
56049287 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAGATACGGTGGAATCAACAATTAGCAGCC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACAATTAGCAACC
*
56049352 ACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTG
66 ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTTG
56049390 GGGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACC
56049412 ACCAATGAAT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 116 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (103 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAGATACGGTGGAATCAACAATTAGCAACC
ACCAATCAATCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:56049397 original size:27 final size:27
Alignment explanation
Indices: 56049363--56049473 Score: 159
Period size: 27 Copynumber: 3.9 Consensus size: 27
56049353 CCAATGAATC
56049363 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
*
56049390 GGGGAATCAGCACTTAGCAACCACCAATGAATA
1 GGGGAATCAGCACTTAGCAACC-CC--T---TG
56049423 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
56049450 GGGGAATCAGCACTTAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
56049474 CTTTTTATTC
Statistics
Matches: 76, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
27 47 0.62
28 2 0.03
30 2 0.03
32 2 0.03
33 23 0.30
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:56049427 original size:60 final size:60
Alignment explanation
Indices: 56049332--56049471 Score: 244
Period size: 60 Copynumber: 2.3 Consensus size: 60
56049322 AAGATACGGT
* * * *
56049332 GGAATCAACAATTAGCAGCCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTTGGG
56049392 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTTGGG
56049452 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
56049472 CCCTTTTTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (60 bp):
GGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTTGGG
Found at i:56053879 original size:220 final size:219
Alignment explanation
Indices: 56053498--56053939 Score: 744
Period size: 220 Copynumber: 2.0 Consensus size: 219
56053488 AACCCTTCTA
56053498 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
1 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
56053563 ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
66 ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
*
56053628 GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTCGGGCACGACTTCTCGCATTTCTAAATACCG
131 GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCG
56053693 AACATTGCCTTATTTTGGAAATTT
196 AACATTGCCTTATTTTGGAAATTT
* * * *
56053717 TCTCGAGATAACAAGATGTCACGTCCAGTAAGTTAGGATACAACACCTTGAATCCTCGATAATAA
1 TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
* *
56053782 ACTTTTCTT-TTATTTTTTATTCTAATACTCACGTATTTTAATTTTAAAAGGATATTCGGTCATT
66 ACTTTT-TTATT-TTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATT
* * * *
56053846 TAGGTTCAATGAGAAAAAAT-TGAAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATA
129 CAGGTTCAACGAAAAAAAATCAG-AACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATA
56053910 CCGAACATTGCCTTATTTTGGAAATTT
193 CCGAACATTGCCTTATTTTGGAAATTT
56053937 TCT
1 TCT
56053940 TTATTATAAA
Statistics
Matches: 209, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
219 70 0.33
220 139 0.67
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (219 bp):
TCTCGAGATAACAAAATGTCACATCCAGTAAGTTAGGATACAACACCTCGAATCCTCGAGAATAA
ACTTTTTTATTTTTTTTATTCCAATACTCACGTATTTTAATTTTAAAAGGATATTCAGTCATTCA
GGTTCAACGAAAAAAAATCAGAACCCAGTAAGTTAGGGCACGACTTCTCGCATTTCTAAATACCG
AACATTGCCTTATTTTGGAAATTT
Found at i:56055520 original size:13 final size:14
Alignment explanation
Indices: 56055504--56055533 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
56055494 GGATTATTTA
56055504 TTTATTTA-TTGGT
1 TTTATTTATTTGGT
56055517 TTTATTTATTTGGT
1 TTTATTTATTTGGT
56055531 TTT
1 TTT
56055534 GGGCCCTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (14 bp):
TTTATTTATTTGGT
Found at i:56057939 original size:45 final size:45
Alignment explanation
Indices: 56057875--56057965 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
56057865 CAACAATATT
*
56057875 TAGAATGGAACTAATTTTGAGTAAGCATTATGTAATTAGCCATTC
1 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
56057920 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
1 TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
56057965 T
1 T
56057966 GATTTAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (45 bp):
TAGAATGGAACTAATTTTGAGTAAGCATGATGTAATTAGCCATTC
Found at i:56058444 original size:23 final size:24
Alignment explanation
Indices: 56058403--56058447 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
56058393 TATTATTTTA
56058403 ATTTTAATTTTTAAAATTTTAATC
1 ATTTTAATTTTTAAAATTTTAATC
* *
56058427 ATTTT-ATTTTTCAGATTTTAA
1 ATTTTAATTTTTAAAATTTTAA
56058448 ATTTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTAATTTTTAAAATTTTAATC
Found at i:56061553 original size:2 final size:2
Alignment explanation
Indices: 56061541--56061572 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
56061531 TAAAAGGTGG
56061541 AT AT A- 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
56061573 CCCTAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:56067416 original size:20 final size:21
Alignment explanation
Indices: 56067393--56067433 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56067383 ATATATGTAC
56067393 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
56067413 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
56067434 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:56069205 original size:45 final size:45
Alignment explanation
Indices: 56069154--56069274 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
56069144 TCAGTTTGCC
*
56069154 CCACTGCAAT-TTCAAGGG-GATAAGACTTGCTTTCTTGAGTCTGCT
1 CCACTGC-ATCTTC-AGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
* * * *
56069199 CCACTGCATCTTCAGGGAAATAAGACTCGTTTTCTTGGGTCTCCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
* *
56069244 CCACTACATCTTCAGGGAGATAAGACCTGCT
1 CCACTGCATCTTCAGGGAGATAAGACTTGCT
56069275 ATGATCTATC
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 6 0.09
45 58 0.91
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (45 bp):
CCACTGCATCTTCAGGGAGATAAGACTTGCTTTCTTGAGTCTCCT
Found at i:56069349 original size:44 final size:43
Alignment explanation
Indices: 56069299--56069541 Score: 204
Period size: 44 Copynumber: 5.6 Consensus size: 43
56069289 TATTCCGCTT
*
56069299 CACTGCAACTTCAGGGAGATAGGATAATTGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGAT-ATTGGCTTTAATCTGCTC
* * * **
56069343 CACTGCAACCTCAGGGAGATAAGAT-TCGCCATCTTGGGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATATTGGC-T-TT-AATCTGCTC
* * ** * * * *
56069388 CACTACAACTTCAAGGAGATAAGA-CCT-GATATGATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATATTGGCTTTAATCTGCTC
* * * * ** *
56069429 TACTGCAATTTCAGAGAGATAAGATCTATCACTTTAATCCGCTC
1 CACTGCAACTTCAGGGAGATAAGATAT-TGGCTTTAATCTGCTC
* *
56069473 CATTGCAACTTCAGGGAGATATGATTATTGGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGA-TATTGGCTTTAATCTGCTC
56069517 CACTGCAACTTCAGGGAGATAAGAT
1 CACTGCAACTTCAGGGAGATAAGAT
56069542 TCGCCATCTT
Statistics
Matches: 152, Mismatches: 39, Indels: 17
0.73 0.19 0.08
Matches are distributed among these distances:
41 26 0.17
42 5 0.03
43 4 0.03
44 87 0.57
45 30 0.20
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATATTGGCTTTAATCTGCTC
Found at i:56070483 original size:25 final size:26
Alignment explanation
Indices: 56070455--56070503 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
56070445 AGTGTCTTGA
56070455 AAAGAAAAAAGTATT-CAAGAACAGC
1 AAAGAAAAAAGTATTGCAAGAACAGC
*
56070480 AAAGAATAAAGTATTGCAAGAACA
1 AAAGAAAAAAGTATTGCAAGAACA
56070504 AACAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.59, C:0.10, G:0.16, T:0.14
Consensus pattern (26 bp):
AAAGAAAAAAGTATTGCAAGAACAGC
Found at i:56082748 original size:20 final size:21
Alignment explanation
Indices: 56082723--56082763 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
56082713 ATATATGTTC
56082723 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
56082743 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
56082764 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:56083953 original size:21 final size:21
Alignment explanation
Indices: 56083927--56083977 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
56083917 CCTGAATCTG
56083927 TTTTGGGCCACTGTTCTTGTA
1 TTTTGGGCCACTGTTCTTGTA
56083948 TTTTGGGCCACTGTTCTTGTA
1 TTTTGGGCCACTGTTCTTGTA
56083969 TTTTGGGCC
1 TTTTGGGCC
56083978 TCTGCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.08, C:0.20, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTTGGGCCACTGTTCTTGTA
Found at i:56086264 original size:17 final size:17
Alignment explanation
Indices: 56086242--56086280 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
56086232 ATGAATTAGG
* *
56086242 TATTTGGTTAATATCAA
1 TATTTGATTAACATCAA
56086259 TATTTGATTAACATCAA
1 TATTTGATTAACATCAA
56086276 TATTT
1 TATTT
56086281 TTATGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (17 bp):
TATTTGATTAACATCAA
Found at i:56087123 original size:15 final size:16
Alignment explanation
Indices: 56087095--56087132 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
56087085 TTTCCATCGT
56087095 ATTTGTTGTTAATTTC
1 ATTTGTTGTTAATTTC
56087111 ATTTGTT-TTAATTTC
1 ATTTGTTGTTAATTTC
56087126 ATTTGTT
1 ATTTGTT
56087133 AAAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
ATTTGTTGTTAATTTC
Found at i:56090900 original size:90 final size:89
Alignment explanation
Indices: 56090768--56091025 Score: 300
Period size: 90 Copynumber: 2.9 Consensus size: 89
56090758 CAAAAATTGT
* * * * * **
56090768 AGGTTAATACGCTGACAAATGGTTGTGAATGCGCAACTTATTTGCAAATGAAAGCTGCCAGAATG
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAA-TTATTTGCAGATAAAAGCTGCCAGAAAA
*
56090833 TGGGTGGATGAACCACTAGTGTTGC
65 TGGGTGGATGAACCACCAGTGTTGC
* * * *
56090858 AGGTTAGTATGCTGCCAGATGGTTGTGAATGCACAATGTATTTGTAGATAAAAGCTGTCAGAAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAAT-TATTTGCAGATAAAAGCTGCCAGAAAA
*
56090923 TGGGTGGATGAACCACCAGTGTTGT
65 TGGGTGGATGAACCACCAGTGTTGC
* * * * * *
56090948 AGGTTAATATACAGTCAGATGGTTGTGAATGCACAACATATTTGCAGATAAAAGCTGTCAAAAAA
1 AGGTTAATATGCTGACAGATGGTTGTGAATGCACAA-TTATTTGCAGATAAAAGCTGCCAGAAAA
**
56091013 TCTGTGGATGAAC
65 TGGGTGGATGAAC
56091026 TACTAGAGTT
Statistics
Matches: 144, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
89 1 0.01
90 143 0.99
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (89 bp):
AGGTTAATATGCTGACAGATGGTTGTGAATGCACAATTATTTGCAGATAAAAGCTGCCAGAAAAT
GGGTGGATGAACCACCAGTGTTGC
Found at i:56094883 original size:29 final size:32
Alignment explanation
Indices: 56094815--56094884 Score: 76
Period size: 33 Copynumber: 2.3 Consensus size: 32
56094805 CATGCATACA
* *
56094815 TTTTTATA-ATATACGTACATTATTTTATAAT
1 TTTTTATATATACACGTACATTATTATATAAT
*
56094846 TTATATATATATACACGTAC-TTA-TATAT-AT
1 TT-TTTATATATACACGTACATTATTATATAAT
56094876 TTTTTATAT
1 TTTTTATAT
56094885 TTTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 6 0.18
30 4 0.12
31 6 0.18
32 8 0.24
33 9 0.27
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (32 bp):
TTTTTATATATACACGTACATTATTATATAAT
Found at i:56094888 original size:47 final size:46
Alignment explanation
Indices: 56094835--56095027 Score: 140
Period size: 47 Copynumber: 4.3 Consensus size: 46
56094825 ATACGTACAT
56094835 TATTTTATAATTTATATATATATACACGTACTTATATATAT-TTTTTA
1 TATTTTATAATTTATATATATAT-CA-GTACTTATATATATATTTTTA
* * * *
56094882 TATTTTATAATTTATATACATATCTATATATATCTATATACATATTTTTA
1 TATTTTATAATTTATATATATATC-A-GTA-CT-TATATATATATTTTTA
* *
56094932 -ATTTTCATAA-ATATATATATA-CA-TGC---T-TATAT-TTTTTA
1 TATTTT-ATAATTTATATATATATCAGTACTTATATATATATTTTTA
* * *
56094970 TATCTTATAATTTATATATATAT--GTACATATATATATCTTTTTA
1 TATTTTATAATTTATATATATATCAGTACTTATATATATATTTTTA
*
56095014 CATTTTTATAATTT
1 TA-TTTTATAATTT
56095028 TATTCATTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
38 10 0.09
39 20 0.17
40 1 0.01
42 1 0.01
43 5 0.04
44 7 0.06
45 11 0.09
46 1 0.01
47 26 0.22
48 2 0.02
49 22 0.19
50 10 0.09
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (46 bp):
TATTTTATAATTTATATATATATCAGTACTTATATATATATTTTTA
Found at i:56094946 original size:88 final size:91
Alignment explanation
Indices: 56094830--56095030 Score: 225
Period size: 88 Copynumber: 2.2 Consensus size: 91
56094820 ATAATATACG
* * * *
56094830 TACATTATTTTATAATTTATATATATATACACGTAC-TTATATATATTTTTTATATTTTATAATT
1 TACA-TATTTTATAATTT-TATAAATATACACATACATGAT-TATATTTTTTATATCTTATAATT
56094894 TATATACATA-T-C-TATATATATCTATA
63 TATATACATAGTACATATATATATCTATA
* * *
56094920 TACATATTTT-TAATTTTCATAAATATATATATACATGCTTATATTTTTTATATCTTATAATTTA
1 TACATATTTTATAATTTT-ATAAATATACACATACATGATTATATTTTTTATATCTTATAATTTA
* * *
56094984 TATATATATGTACATATATATATCTTTT
65 TATACATA-GTACATATATATATCTATA
56095012 TACAT-TTTTATAATTTTAT
1 TACATATTTTATAATTTTAT
56095031 TCATTTTCTT
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
87 1 0.01
88 49 0.52
89 8 0.09
90 5 0.05
91 7 0.07
92 24 0.26
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.55
Consensus pattern (91 bp):
TACATATTTTATAATTTTATAAATATACACATACATGATTATATTTTTTATATCTTATAATTTAT
ATACATAGTACATATATATATCTATA
Found at i:56105984 original size:45 final size:45
Alignment explanation
Indices: 56105920--56106008 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
56105910 AACCCACAAA
56105920 CTAAAAAAAAACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTT
1 CTAAAAAAAAACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTT
*
56105965 CTAAAAAAAAACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGT
1 CTAAAAAAAAACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGT
56106009 CCAAAAGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (45 bp):
CTAAAAAAAAACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTT
Found at i:56106031 original size:45 final size:44
Alignment explanation
Indices: 56105922--56106032 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
56105912 CCCACAAACT
* *
56105922 AAAAAAAAACCAAGGTGAAAACCCACAAAGGGCGCTTTGAGTTCT
1 AAAAAAAAA-CAAGATGAAAACCCACAAAGGGCGCTTTGAGTTCC
* *
56105967 AAAAAAAAACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAG-TCC
1 AAAAAAAAA-CAAGATGAAAACCCACAAAGGGCGCTTTGAGTTCC
56106011 AAAAGATAAAA-AATGATGAAAA
1 AAAA-A-AAAACAA-GATGAAAA
56106033 AATAAAAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
44 8 0.13
45 48 0.80
46 4 0.07
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.14
Consensus pattern (44 bp):
AAAAAAAAACAAGATGAAAACCCACAAAGGGCGCTTTGAGTTCC
Found at i:56107757 original size:50 final size:50
Alignment explanation
Indices: 56107617--56107757 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 50
56107607 AAGCTGTAGT
* * ** *
56107617 GGAGCGGATTAAAGCTGAAAGCAGCGAATCCTATCTCATTGGCATTACAGT
1 GGAGCCGATTAAAGCTG-AAGCAGCGAATCTTATCTCCCTGGCATTACAGC
* * * * * * *
56107668 GGA-ACAATTTAAAGCTAAATGTAGCGAATCTTGTTTCCCTGGCATTGCAGC
1 GGAGCCGA-TTAAAGCTGAA-GCAGCGAATCTTATCTCCCTGGCATTACAGC
56107719 GGAGCCGATTAAAGCTGAAGCAGCGAATCTTATCTCCCT
1 GGAGCCGATTAAAGCTGAAGCAGCGAATCTTATCTCCCT
56107758 AGCTTTAAAA
Statistics
Matches: 69, Mismatches: 18, Indels: 7
0.73 0.19 0.07
Matches are distributed among these distances:
50 20 0.29
51 47 0.68
52 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
GGAGCCGATTAAAGCTGAAGCAGCGAATCTTATCTCCCTGGCATTACAGC
Found at i:56107831 original size:45 final size:45
Alignment explanation
Indices: 56107782--56107985 Score: 184
Period size: 45 Copynumber: 4.6 Consensus size: 45
56107772 AAAAAGTAAG
* * * **
56107782 TCTTATCCCCCTGAAGTTGTAGTGGGGCAA-ATTGAAGATGACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTGAAGACAACAAA
* *
56107827 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGACAACAAA
* * ** *
56107872 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTT-ACTA-AACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGA-TTGAAGACAACAAA
* * ** *
56107916 TCTTATCTCTCTGAAGTTGCAGTAGAGGAA-ATTGAAG-TTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GAAGATTGAAGACAACAAA
*
56107960 TCCTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
56107986 ACGGATTAAA
Statistics
Matches: 129, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.02
44 58 0.45
45 67 0.52
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGACAACAAA
Found at i:56107935 original size:44 final size:43
Alignment explanation
Indices: 56107825--56107985 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 43
56107815 GAAGATGACA
* *
56107825 AATCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGCCAAC
1 AATCTTATCTCCCTGAAGTTGCAATGGAGAAGATT-AAGCAAAC
*
56107869 AAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTT-A-CTAAACC
1 AA-TCTTATCTCCCTGAAGTTGCAATGGAGAAGA-TTAAGC-AAA-C
* * * **
56107914 AATCTTATCTCTCTGAAGTTGCAGTAGAGGAA-ATTGAAG-TTAC
1 AATCTTATCTCCCTGAAGTTGCAATGGA-GAAGATT-AAGCAAAC
* *
56107957 TAATCCTATCTCCCTGAAGTTGCAGTGGA
1 -AATCTTATCTCCCTGAAGTTGCAATGGA
56107986 ACGGATTAAA
Statistics
Matches: 96, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
43 4 0.04
44 55 0.57
45 35 0.36
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGAAGATTAAGCAAAC
Found at i:56108243 original size:45 final size:45
Alignment explanation
Indices: 56108194--56108563 Score: 243
Period size: 44 Copynumber: 8.4 Consensus size: 45
56108184 AGTTTAATCC
*
56108194 CCCTGAAGTTGCAGTGGGGCAGATTGAAGATGGAA-AATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAA-ATGGAACAATCTTATCT
* * *
56108239 CCCTGAAGTTACAGTGGAGCAGATT-AAA-GCCAATAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATG-GAACAA-TCTTATCT
* * ** * *
56108284 CCCTGAAGTTGTAGAGGAGCAGATTG-AA-GTTACTAATCCTACCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATGGAAC-AATCTTATCT
* * ***
56108328 CCCTGAAGTTGTAGTGGAGCGGATT-ACAAT-GATGGATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGA-AATGGAACAATCTTATCT
* * * * * * **
56108372 CTCTGGAGATGTAGTAGAGCAGA-T--CAT-GTCCAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATGGAACAATCTTATCT
* *
56108413 CCCTGAAGTTGCAATGGAGCAGATT-AAA-GCCAACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATG-GAACAA-TCTTATCT
* * * * *
56108458 TCCTGAAGTTGTAGTAGAGCAGACTG-ACT-GAACCAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATGGAA-CAATCTTATCT
* *
56108502 CCCTGAAGTTGCAGTGGAGCAGATTG-AAT-AAACCAATCCTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTGAAATGGAA-CAATCTTATCT
*
56108546 CCCTGAAGTTACAGTGGA
1 CCCTGAAGTTGCAGTGGA
56108564 ACGGATTAAA
Statistics
Matches: 254, Mismatches: 55, Indels: 33
0.74 0.16 0.10
Matches are distributed among these distances:
41 29 0.11
42 2 0.01
43 5 0.02
44 126 0.50
45 92 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
CCCTGAAGTTGCAGTGGAGCAGATTGAAATGGAACAATCTTATCT
Found at i:56108338 original size:44 final size:45
Alignment explanation
Indices: 56108237--56108353 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 45
56108227 AAAATCTTAT
** * *
56108237 CTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAAGTCTTAT
1 CTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAAGTCCTAC
* * ** *
56108282 CTCCCTGAAGTTGTAGAGGAGCAGATTGAAGTTACTAA-TCCTAC
1 CTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAAGTCCTAC
*
56108326 CTCCCTGAAGTTGTAGTGGAGCGGATTA
1 CTCCCTGAAGTTGTAGTGGAGCAGATTA
56108354 CAATGATGGA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 29 0.48
45 31 0.52
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (45 bp):
CTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAAGTCCTAC
Found at i:56108511 original size:89 final size:86
Alignment explanation
Indices: 56108229--56108526 Score: 318
Period size: 89 Copynumber: 3.4 Consensus size: 86
56108219 GAAGATGGAA
* * *
56108229 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAAGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
* *
56108294 GTAG-AGGAGCAGATTGAAGTTACT
66 GTAGTA-GAGCAGA-TG-A-TGACC
* * * * *** *
56108318 AATCCTACCTCCCTGAAGTTGTAGTGGAGCGGATTACAATG--ATGGA-TCTTATC-TCTCTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-GCCAACAAGTCTTATCTTC-CTGAA
* * *
56108379 GATGTAGTAGAGCAGATCATGTCC
63 GTTGTAGTAGAGCAGATGATGACC
*
56108403 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
56108468 GTAGTAGAGCAGACTGACTGAACC
66 GTAGTAGAGCAGA-TGA-TG-ACC
56108492 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
56108527 GAATAAACCA
Statistics
Matches: 170, Mismatches: 28, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
83 1 0.01
84 2 0.01
85 35 0.21
86 27 0.16
87 6 0.04
88 26 0.15
89 70 0.41
90 2 0.01
91 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (86 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAACAAGTCTTATCTTCCTGAAGTT
GTAGTAGAGCAGATGATGACC
Found at i:56113305 original size:2 final size:2
Alignment explanation
Indices: 56113298--56113327 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
56113288 CAAATTTTGT
56113298 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
56113328 CATGCATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56116008 original size:42 final size:42
Alignment explanation
Indices: 56115954--56116075 Score: 181
Period size: 42 Copynumber: 2.9 Consensus size: 42
56115944 GTTTACAAAC
56115954 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * * *
56115996 AAAAATGTCGCTAAAGACCATGTTCTTTAGAGGCGCTTAGAG
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
* * *
56116038 ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
1 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT
56116076 TTATACAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
Found at i:56116149 original size:42 final size:42
Alignment explanation
Indices: 56116039--56116329 Score: 320
Period size: 42 Copynumber: 6.9 Consensus size: 42
56116029 CGCTTAGAGA
* * *
56116039 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATAC
1 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCT-C
* * * * * * *
56116082 AAAAACACCAC--AAGATCATGTTCTTTAACGGCGTTTTTC-C
1 -TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC
* *
56116122 TTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTA
1 -TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC
* * *
56116165 TAAGCGCCTCTAAAGAAAATGGTCTTTAGCGGCGTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC
*
56116207 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGTGTTTCTT-TC
1 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTT-TTCTC
** * *
56116249 TAAATGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTC
1 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC
* *
56116291 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTT
1 TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
56116330 ATACAAAAAC
Statistics
Matches: 209, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
40 7 0.03
41 2 0.01
42 192 0.92
43 2 0.01
44 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTCTC
Found at i:56116197 original size:126 final size:127
Alignment explanation
Indices: 56116038--56116344 Score: 406
Period size: 126 Copynumber: 2.4 Consensus size: 127
56116028 GCGCTTAGAG
*
56116038 ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCAC-AAGATCATG
1 ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCACAAAGAACATG
* * *
56116102 TTCTTTAACGGCGTTT-TTCCTTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
66 GTCTTTAACGGCGTTTCTTCC-TAAACGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTT
* * * * * * * * *
56116164 ATAAGCGCCTCTAAAGAAAATGGTCTTTAGCGGCG-TTTTTTTC-TAAGCGCCGCTAAAGAACAT
1 ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCAC-AAAGAACAT
* * * *
56116227 GGTCTTTAGCGGTGTTTCTTTCTAAATGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTT
65 GGTCTTTAACGGCGTTTCTTCCTAAACGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTT
*
56116290 CTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCAC
1 ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCAC
56116345 TATTTTTGGG
Statistics
Matches: 149, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
124 6 0.04
125 6 0.04
126 122 0.82
127 9 0.06
128 6 0.04
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (127 bp):
ATAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTATACAAAAACACCACAAAGAACATG
GTCTTTAACGGCGTTTCTTCCTAAACGCCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTT
Found at i:56116713 original size:21 final size:21
Alignment explanation
Indices: 56116645--56116715 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
56116635 TTTTGCTCTA
* * **
56116645 CTCTGCTTCTCTCGCTTCAAC
1 CTCTGCTTCCCTCGCTGCTGC
56116666 CTCTGCTTCCCTCGCTG-TAGC
1 CTCTGCTTCCCTCGCTGCT-GC
*
56116687 CGCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTGC
56116708 CTCTGCTT
1 CTCTGCTT
56116716 TAAGTTGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 41 0.98
22 1 0.02
ACGTcount: A:0.04, C:0.44, G:0.17, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTGC
Found at i:56118460 original size:9 final size:9
Alignment explanation
Indices: 56118446--56118694 Score: 117
Period size: 9 Copynumber: 29.0 Consensus size: 9
56118436 TAAATATTAA
56118446 TAAGTTATG
1 TAAGTTATG
56118455 TAAGTTAT-
1 TAAGTTATG
*
56118463 T-A--TAAG
1 TAAGTTATG
56118469 TAAGTTATG
1 TAAGTTATG
56118478 TAAGTTAT-
1 TAAGTTATG
*
56118486 T-A--TAAG
1 TAAGTTATG
56118492 TAAGTTATG
1 TAAGTTATG
* *
56118501 AAAGTTATATA
1 TAAG-T-TATG
*
56118512 TAAGTTGTG
1 TAAGTTATG
56118521 T-A-TTATG
1 TAAGTTATG
* *
56118528 TAAGTTTTT
1 TAAGTTATG
*
56118537 TAAGTTATA
1 TAAGTTATG
*
56118546 TAAGTTGTG
1 TAAGTTATG
56118555 T-A-TTATG
1 TAAGTTATG
56118562 TAAGTTATG
1 TAAGTTATG
*
56118571 TAAG-TCTG
1 TAAGTTATG
*
56118579 ACAAGTTATG
1 -TAAGTTATG
*
56118589 TTTAG-TAT-
1 -TAAGTTATG
56118597 TAA-TTAAT-
1 TAAGTT-ATG
56118605 TAAGTTATG
1 TAAGTTATG
56118614 TAAGTTATG
1 TAAGTTATG
*
56118623 TATAACATTAATG
1 --TAA-GTT-ATG
56118636 TAAGTTATG
1 TAAGTTATG
56118645 T-A-TTATG
1 TAAGTTATG
*
56118652 TAAGTTATT
1 TAAGTTATG
*
56118661 TTAGTTATG
1 TAAGTTATG
*
56118670 TAAGTTGTG
1 TAAGTTATG
56118679 T-A-TTATG
1 TAAGTTATG
*
56118686 TGAGTTATG
1 TAAGTTATG
56118695 CAATTTACGT
Statistics
Matches: 180, Mismatches: 32, Indels: 56
0.67 0.12 0.21
Matches are distributed among these distances:
5 4 0.02
6 2 0.01
7 28 0.16
8 20 0.11
9 100 0.56
10 9 0.05
11 12 0.07
12 2 0.01
13 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:56118473 original size:14 final size:14
Alignment explanation
Indices: 56118454--56118499 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
56118444 AATAAGTTAT
56118454 GTAAGTTATTATAA
1 GTAAGTTATTATAA
56118468 GTAAG---TTAT--
1 GTAAGTTATTATAA
56118477 GTAAGTTATTATAA
1 GTAAGTTATTATAA
56118491 GTAAGTTAT
1 GTAAGTTAT
56118500 GAAAGTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
9 5 0.19
11 4 0.15
12 4 0.15
14 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.43
Consensus pattern (14 bp):
GTAAGTTATTATAA
Found at i:56118473 original size:23 final size:23
Alignment explanation
Indices: 56118446--56118516 Score: 124
Period size: 23 Copynumber: 3.0 Consensus size: 23
56118436 TAAATATTAA
56118446 TAAGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
56118469 TAAGTTATGTAAGTTATTATAAG
1 TAAGTTATGTAAGTTATTATAAG
*
56118492 TAAGTTATGAAAGTTATATATAAG
1 TAAGTTATGTAAGTTAT-TATAAG
56118516 T
1 T
56118517 TGTGTATTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 39 0.85
24 7 0.15
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.42
Consensus pattern (23 bp):
TAAGTTATGTAAGTTATTATAAG
Found at i:56118533 original size:16 final size:16
Alignment explanation
Indices: 56118512--56118572 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
56118502 AAGTTATATA
56118512 TAAGTTGTGTATTATG
1 TAAGTTGTGTATTATG
* * *
56118528 TAAGTTTTTTAAGTTATA
1 TAAGTTGTGT-A-TTATG
56118546 TAAGTTGTGTATTATG
1 TAAGTTGTGTATTATG
*
56118562 TAAGTTATGTA
1 TAAGTTGTGTA
56118573 AGTCTGACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 22 0.61
17 2 0.06
18 12 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.51
Consensus pattern (16 bp):
TAAGTTGTGTATTATG
Found at i:56118575 original size:34 final size:34
Alignment explanation
Indices: 56118508--56118575 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
56118498 ATGAAAGTTA
* *
56118508 TATATAAGTTGTGTATTATGTAAGTTTTTTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
56118542 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
1 TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
56118576 CTGACAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (34 bp):
TATATAAGTTGTGTATTATGTAAGTTATGTAAGT
Found at i:56118585 original size:34 final size:34
Alignment explanation
Indices: 56118513--56118585 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
56118503 AGTTATATAT
* * * *
56118513 AAGTTGTGTATTATGTAAGTTTTTTAAGTTATAT
1 AAGTTGTGTATTATGTAAGTTATGTAAGTTAGAC
56118547 AAGTTGTGTATTATGTAAGTTATGTAAGTCT-GAC
1 AAGTTGTGTATTATGTAAGTTATGTAAGT-TAGAC
56118581 AAGTT
1 AAGTT
56118586 ATGTTTAGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 33 0.97
35 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.47
Consensus pattern (34 bp):
AAGTTGTGTATTATGTAAGTTATGTAAGTTAGAC
Found at i:56118619 original size:34 final size:37
Alignment explanation
Indices: 56118581--56118694 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 37
56118571 TAAGTCTGAC
56118581 AAGTTATGTTTAGTATTAAT-TAA-TTAAG-TTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAGATTATGT
* ** *
56118615 AAGTTATGTATAACATTAATGTAAGTTATGTATTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAG-ATTATGT
**
56118653 AAGTTAT-TTTAG--TT-ATGTAAGTTGTGTATTATGT
1 AAGTTATGTTTAGTATTAATGTAAGTTAAG-ATTATGT
*
56118687 GAGTTATG
1 AAGTTATG
56118695 CAATTTACGT
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
34 42 0.63
35 5 0.07
36 4 0.06
37 3 0.04
38 13 0.19
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.48
Consensus pattern (37 bp):
AAGTTATGTTTAGTATTAATGTAAGTTAAGATTATGT
Found at i:56118808 original size:28 final size:28
Alignment explanation
Indices: 56118776--56118829 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
56118766 TCTATATAAG
*
56118776 TTATGTAAG-TTATTATGTAAGTTATGTA
1 TTATGTAAGTTTA-TATATAAGTTATGTA
56118804 TTATGTAAGTTTATATATAAGTTATG
1 TTATGTAAGTTTATATATAAGTTATG
56118830 ATATGATTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (28 bp):
TTATGTAAGTTTATATATAAGTTATGTA
Found at i:56119639 original size:13 final size:13
Alignment explanation
Indices: 56119621--56119679 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
56119611 CAAATTTTAG
*
56119621 TAAGTAATGTATT
1 TAAGTAATATATT
*
56119634 TAAGTAATTTATT
1 TAAGTAATATATT
*
56119647 TAAGTAACATATT
1 TAAGTAATATATT
*
56119660 CAAGTAATATATT
1 TAAGTAATATATT
*
56119673 AAAGTAA
1 TAAGTAA
56119680 ATTTTAGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:56119750 original size:13 final size:13
Alignment explanation
Indices: 56119726--56119762 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
56119716 GTCATGTAAA
56119726 ATATACTTAAAAAT
1 ATATA-TTAAAAAT
56119740 ATATATTAAAAAT
1 ATATATTAAAAAT
*
56119753 ATATGTTAAA
1 ATATATTAAA
56119763 GAAAAAGAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATATTAAAAAT
Found at i:56121473 original size:8 final size:7
Alignment explanation
Indices: 56121448--56121478 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
56121438 TTTGGGATTT
56121448 AACCCTA
1 AACCCTA
56121455 AACCCTA
1 AACCCTA
56121462 AACCCTTA
1 AACCC-TA
56121470 AACCCTA
1 AACCCTA
56121477 AA
1 AA
56121479 ATCCTAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:56121473 original size:15 final size:14
Alignment explanation
Indices: 56121448--56121478 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
56121438 TTTGGGATTT
56121448 AACCCTAAACCCTA
1 AACCCTAAACCCTA
56121462 AACCCTTAAACCCTA
1 AACCC-TAAACCCTA
56121477 AA
1 AA
56121479 ATCCTAAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:56121518 original size:15 final size:15
Alignment explanation
Indices: 56121453--56121519 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
56121443 GATTTAACCC
*
56121453 TAAACCCTAAACCCT
1 TAAACCCTAAATCCT
56121468 TAAACCCTAAAATCC-
1 TAAACCCT-AAATCCT
* ** *
56121483 TAAGCTGATAAATCGT
1 TAAAC-CCTAAATCCT
56121499 TAAACCCTAAATCCT
1 TAAACCCTAAATCCT
*
56121514 AAAACC
1 TAAACC
56121520 AACAACCAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
15 29 0.74
16 10 0.26
ACGTcount: A:0.43, C:0.30, G:0.04, T:0.22
Consensus pattern (15 bp):
TAAACCCTAAATCCT
Found at i:56121968 original size:7 final size:7
Alignment explanation
Indices: 56121917--56122001 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
56121907 ACTAAAGTAG
56121917 CCTAAAC
1 CCTAAAC
*
56121924 CCCAAAC
1 CCTAAAC
56121931 CCTAAAC
1 CCTAAAC
*
56121938 CTTAAAC
1 CCTAAAC
*
56121945 CTTAAAC
1 CCTAAAC
*
56121952 TCTTAAAC
1 -CCTAAAC
56121960 CCTAAAC
1 CCTAAAC
*
56121967 CCAAAAC
1 CCTAAAC
*
56121974 ACC-AAAA
1 -CCTAAAC
* *
56121981 CCTACAT
1 CCTAAAC
*
56121988 CATAAAC
1 CCTAAAC
56121995 CCTAAAC
1 CCTAAAC
56122002 TCAAAACTCT
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 2 0.03
7 52 0.83
8 9 0.14
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:56122627 original size:113 final size:116
Alignment explanation
Indices: 56122299--56122627 Score: 377
Period size: 115 Copynumber: 2.9 Consensus size: 116
56122289 AAAACTCCGT
* * ** *
56122299 TAATAATATGCTTTCGCGGCGGTTTC-CTCTAAGCGCCACTAATT-TTAGTATAAATCAAGACCA
1 TAATACTATGCTTTAGCGGC-GTTTCACAATAAGCGCCACTAATTCTTAGTATACATCAAGACCA
* * * * * *
56122362 AAACGCTGCGTTTTGTTTAAGGTACTTTGCGGCG-ATAGCCACAAATCGCCGC
65 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTA-CCAAAAAGCGCCGC
** * *
56122414 TAATACTATGCTTTAGCGGCGTTTCACCGTAAGGGCCACTAAATTC-AAGTATACATCAAGACCA
1 TAATACTATGCTTTAGCGGCGTTTCACAATAAGCGCCACT-AATTCTTAGTATACATCAAGACCA
*
56122478 AAACGCTGCGTTTTGGTTTAGATATTTTGCGGCGCTTA-CAAAAAGCGCCGC
65 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCAAAAAGCGCCGC
** * *
56122529 TAATACTAT-CATTTAGCGGCGTTTTGCAATAAGCGCCACTAATTCTTA-CATACCTCAAGACC-
1 TAATACTATGC-TTTAGCGGCGTTTCACAATAAGCGCCACTAATTCTTAGTATACATCAAGACCA
*
56122591 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
65 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
56122628 TGCTTTAACG
Statistics
Matches: 184, Mismatches: 24, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
113 35 0.19
114 23 0.12
115 74 0.40
116 50 0.27
117 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (116 bp):
TAATACTATGCTTTAGCGGCGTTTCACAATAAGCGCCACTAATTCTTAGTATACATCAAGACCAA
AACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCAAAAAGCGCCGC
Found at i:56122793 original size:204 final size:207
Alignment explanation
Indices: 56122422--56122831 Score: 564
Period size: 205 Copynumber: 2.0 Consensus size: 207
56122412 GCTAATACTA
* * *
56122422 TGCTTTAGCGGCGTTTCACCGTAAGGGCCACTAAATTCAAGTATACATCAAGACCAAAACGCTGC
1 TGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATTCAAGTATACATCAAGACCAAAACGATGC
* * *
56122487 GTTTTGGTTTAGATATTTTGCGGCGCTTACAAAAAGCGCCGCTAATACTATCATTTAGCGGCGTT
66 GTTTTGGTTAAGATATTTTGCGACGCTTACAAAAAGCGCCGCTAATACTATCATTTAGCGGCGGT
* * *
56122552 TTGCAATAAGCGCCACTAATTCTTACATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGATAT
131 TTCCAATAAGCGCCACTAATTCTTACATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATAT
*
56122616 TTTGCGGCGCTT
196 TTTACGGCGCTT
* * *
56122628 TGCTTTAACGGTGTTTC-CCGTAAGCGCCACT-AATTCTAGTATACATCAAGACCAAAACTATGC
1 TGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATTCAAGTATACATCAAGACCAAAACGATGC
* *
56122691 GTTTTGGTTAAGATATTTTGCGACGCTTCTCACAAAA-CGCCGCTATTACTATTC-TTCT-GCGG
66 GTTTTGGTTAAGATATTTTGCGACGCTT-ACA-AAAAGCGCCGCTAATACTA-TCATT-TAGCGG
** * *
56122753 CGGTTTCCCGTAAGCGCTACTAATT-TTATATACATCAAGACCAAAACGCTGCGTTTTGGTTAAG
127 CGGTTTCCAATAAGCGCCACTAATTCTTACATACATCAAGACCAAAACGCTGCGTTTTGGTTAAG
56122817 ATATTTTACGGCGCT
192 ATATTTTACGGCGCT
56122832 AGCCACGAAT
Statistics
Matches: 180, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
204 70 0.39
205 88 0.49
206 22 0.12
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (207 bp):
TGCTTTAACGGCGTTTCACCGTAAGCGCCACTAAATTCAAGTATACATCAAGACCAAAACGATGC
GTTTTGGTTAAGATATTTTGCGACGCTTACAAAAAGCGCCGCTAATACTATCATTTAGCGGCGGT
TTCCAATAAGCGCCACTAATTCTTACATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATAT
TTTACGGCGCTT
Found at i:56122938 original size:115 final size:115
Alignment explanation
Indices: 56122640--56122944 Score: 420
Period size: 114 Copynumber: 2.7 Consensus size: 115
56122630 CTTTAACGGT
*
56122640 GTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGTTAAGAT
1 GTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGAT
* * * * *
56122705 ATTTTGCGACGCTTCTCACAAAACGCCGCTATTACTATTCTTCTGCGGCG
66 ATTTTGCGGCGCTGCTCACAAAACGCAGCTAATACTATACTTCTGCGGCG
* * *
56122755 GTTTCCCGTAAGCGCTACTAATTTTA-TATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGAT
1 GTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGAT
* * * *
56122819 ATTTTACGGCGCTAGC-CACGAATCGCAGCTAATACTATACTT-TAGTGGC-
66 ATTTTGCGGCGCT-GCTCACAAAACGCAGCTAATACTATACTTCT-GCGGCG
* *
56122868 GTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGTGTTTTGGTTCAGA
1 GTTTC-CCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGA
56122933 TATTTTGCGGCG
65 TATTTTGCGGCG
56122945 TTTTCCCATA
Statistics
Matches: 167, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
113 6 0.04
114 91 0.54
115 70 0.42
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (115 bp):
GTTTCCCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTTGGTTAAGAT
ATTTTGCGGCGCTGCTCACAAAACGCAGCTAATACTATACTTCTGCGGCG
Found at i:56123071 original size:190 final size:190
Alignment explanation
Indices: 56122782--56123134 Score: 512
Period size: 190 Copynumber: 1.9 Consensus size: 190
56122772 CTAATTTTAT
* *
56122782 ATACATCAAGACCAAAACGCTGCGTTTTGGTTAAGATATTTTACGGCGCTAGCCACGAATCGCAG
1 ATACATCAAGACCAAAACGCTACGTTTTGGTTAAGATATTTTACGGCGCTAGCCAC-AAGCGCAG
** *
56122847 CTAATACTATACTTTAGTGGCGTTTCACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAA
65 CTAATACTATACTTTAACGGCGTTTCACCGTAAGCGCCACTAATTCTAGGATACATCAAGACCAA
* *
56122912 AACGATGTGTTTTGGTTCAGATATTTTGCGGCGTTTTCCCATAAACACCACTAATTCTAAC
130 AACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTTCCCATAAACACCACTAATTCTAAC
* * * * * *
56122973 ATACCTCAAGACC-AAACTCTACGTTTTGGTTAAGATATTTTGCGGCGCTTTTGGCA-AAGCGCT
1 ATACATCAAGACCAAAACGCTACGTTTTGGTTAAGATATTTTACGGCGC--TAGCCACAAGCGCA
* * * *
56123036 GCTAATACTATGCTTTAACGGCGTTTCCCCGTAAGCGCCACTAATTTTAGGATACATCAAGACCG
64 GCTAATACTATACTTTAACGGCGTTTCACCGTAAGCGCCACTAATTCTAGGATACATCAAGACCA
56123101 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCG
129 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCG
56123135 CTTATTGCAA
Statistics
Matches: 143, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
190 127 0.89
191 12 0.08
192 4 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (190 bp):
ATACATCAAGACCAAAACGCTACGTTTTGGTTAAGATATTTTACGGCGCTAGCCACAAGCGCAGC
TAATACTATACTTTAACGGCGTTTCACCGTAAGCGCCACTAATTCTAGGATACATCAAGACCAAA
ACGATGCGTTTTGGTTAAGATATTTTGCGGCGTTTTCCCATAAACACCACTAATTCTAAC
Found at i:56123145 original size:115 final size:112
Alignment explanation
Indices: 56122940--56123243 Score: 353
Period size: 112 Copynumber: 2.7 Consensus size: 112
56122930 AGATATTTTG
* * * * *
56122940 CGGCGTTTTCCCATAAACACCACTAATTCTAACATACCTCAAGACC-AAACTCTACGTTTTGGTT
1 CGGCGTTTTCCCATAAACGCCACTAATTCTAGCATACATCAAGACCGAAACGCTGCGTTTTGGTT
* * *
56123004 AAGATATTTTGCGGCGCTTTTGGCAAAGCGCTGCTAATACTATGCTTTAA
66 AAGATATTTTGCGGCGCTTTTGGCAAAACGCCGCTAATAC---GATTTAA
* * * * * *
56123054 CGGCGTTTCCCCGTAAGCGCCACTAATTTTAGGATACATCAAGACCGAAACGATGCGTTTTGGTT
1 CGGCGTTTTCCCATAAACGCCACTAATTCTAGCATACATCAAGACCGAAACGCTGCGTTTTGGTT
56123119 AAGATATTTTGCGGCGCTTATT-GCAAAACGCCGCTAATACGATTTAA
66 AAGATATTTTGCGGCGCTT-TTGGCAAAACGCCGCTAATACGATTTAA
** * * * *
56123166 CGATGTTTTCCCATAATCGCCACTAATTCTAGTATACATCTAGA-CGAAAATGCTGCGTTTTGGT
1 CGGCGTTTTCCCATAAACGCCACTAATTCTAGCATACATCAAGACCG-AAACGCTGCGTTTTGGT
*
56123230 TAAGAGATTTTGCG
65 TAAGATATTTTGCG
56123244 CCGCATTGTG
Statistics
Matches: 162, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
111 2 0.01
112 70 0.43
114 38 0.23
115 50 0.31
116 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (112 bp):
CGGCGTTTTCCCATAAACGCCACTAATTCTAGCATACATCAAGACCGAAACGCTGCGTTTTGGTT
AAGATATTTTGCGGCGCTTTTGGCAAAACGCCGCTAATACGATTTAA
Found at i:56124836 original size:18 final size:17
Alignment explanation
Indices: 56124803--56124850 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
56124793 GTTTATTCAA
56124803 CCTTTTTTA-TTTTTAT
1 CCTTTTTTATTTTTTAT
56124819 CCTTTTTTATTTTCTTAT
1 CCTTTTTTATTTT-TTAT
**
56124837 TATTTTTTAGTTTT
1 CCTTTTTTA-TTTT
56124851 GTGTTATTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 11 0.41
19 4 0.15
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.75
Consensus pattern (17 bp):
CCTTTTTTATTTTTTAT
Found at i:56127415 original size:17 final size:17
Alignment explanation
Indices: 56127393--56127425 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56127383 ATGGTATTGG
56127393 TGTAAAATTGTTCACAA
1 TGTAAAATTGTTCACAA
56127410 TGTAAAATTGTTCACA
1 TGTAAAATTGTTCACA
56127426 TTACTATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TGTAAAATTGTTCACAA
Found at i:56131921 original size:23 final size:24
Alignment explanation
Indices: 56131890--56131938 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
56131880 ACCCATTAAA
56131890 AACATAACTCTTGACCTTTCATTT
1 AACATAACTCTTGACCTTTCATTT
*
56131914 AACA-AACTCTTGACTTTTCATTT
1 AACATAACTCTTGACCTTTCATTT
56131937 AA
1 AA
56131939 GTTTATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (24 bp):
AACATAACTCTTGACCTTTCATTT
Found at i:56145584 original size:6 final size:6
Alignment explanation
Indices: 56145573--56145626 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
56145563 AGGCCACCCA
56145573 ATTTTT ATTTTT ATTTTT ATTTTT -TATTTT A-TTTT A-TTTT A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTTTT ATTTTT
56145618 A-TTTT ATTT
1 ATTTTT ATTT
56145627 ACTTTATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 21 0.47
6 24 0.53
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:56145589 original size:5 final size:5
Alignment explanation
Indices: 56145575--56145651 Score: 79
Period size: 5 Copynumber: 15.4 Consensus size: 5
56145565 GCCACCCAAT
*
56145575 TTTTA TTTTTA TTTT- TATT- TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
56145624 -TTTA CTTTA TTTATTA CTTTA TTTTA TT
1 TTTTA TTTTA -TT-TTA TTTTA TTTTA TT
56145652 ATTTATTACT
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
4 10 0.16
5 42 0.68
6 7 0.11
7 3 0.05
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:56145642 original size:12 final size:13
Alignment explanation
Indices: 56145576--56145658 Score: 77
Period size: 12 Copynumber: 6.5 Consensus size: 13
56145566 CCACCCAATT
56145576 TTTATTTTTATT--
1 TTTA-TTTTATTAC
*
56145588 TTTATTTT-TTAT
1 TTTATTTTATTAC
*
56145600 TTTATTTTATTTTAT
1 TTTATTTTA--TTAC
56145615 TTTATTTTATTTAC
1 TTTATTTTA-TTAC
56145629 TTTA-TTTATTAC
1 TTTATTTTATTAC
56145641 TTTATTTTATTA-
1 TTTATTTTATTAC
56145653 TTTATT
1 TTTATT
56145659 ACTTATTTGG
Statistics
Matches: 64, Mismatches: 1, Indels: 12
0.83 0.01 0.16
Matches are distributed among these distances:
10 2 0.03
11 4 0.06
12 26 0.41
13 11 0.17
14 8 0.12
15 13 0.20
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTAC
Found at i:56145655 original size:20 final size:20
Alignment explanation
Indices: 56145589--56145666 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
56145579 ATTTTTATTT
* *
56145589 TTATTTTTTATTTTATTTTA
1 TTATTTATTACTTTATTTTA
* *
56145609 TT-TTATTTTATTTTA-TTTA
1 TTATT-TATTACTTTATTTTA
56145628 CTTTATTTATTACTTTATTTTA
1 --TTATTTATTACTTTATTTTA
56145650 TTATTTATTAC-TTATTT
1 TTATTTATTACTTTATTT
56145667 GGATATTAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
19 12 0.24
20 23 0.45
21 10 0.20
22 6 0.12
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTATTACTTTATTTTA
Found at i:56147527 original size:15 final size:15
Alignment explanation
Indices: 56147507--56147536 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56147497 TATTTTGATT
*
56147507 ATATTAGGATAATTA
1 ATATTAAGATAATTA
56147522 ATATTAAGATAATTA
1 ATATTAAGATAATTA
56147537 TTAAGGATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:56150047 original size:12 final size:12
Alignment explanation
Indices: 56150030--56150057 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
56150020 CGACCGCATT
56150030 ATTTAGGATAGG
1 ATTTAGGATAGG
56150042 ATTTAGGATAGG
1 ATTTAGGATAGG
56150054 ATTT
1 ATTT
56150058 GCACAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (12 bp):
ATTTAGGATAGG
Found at i:56151316 original size:22 final size:22
Alignment explanation
Indices: 56151288--56151329 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
56151278 ATTTAGATTT
56151288 TAAAATC-TAAAATATAAAAAAC
1 TAAAATCTTAAAA-ATAAAAAAC
56151310 TAAAATCTTAAAAATAAAAA
1 TAAAATCTTAAAAATAAAAA
56151330 TAAATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
TAAAATCTTAAAAATAAAAAAC
Found at i:56151752 original size:34 final size:33
Alignment explanation
Indices: 56151705--56151774 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
56151695 AATTATTAAG
*
56151705 ATATAAATAGTATTAAAAATATTTTTTAAAATATT
1 ATATAAATAGTATT-AAAATATATTTTAAAA-ATT
*
56151740 ATATTAAT-GTATTAAAATATATTTTAAAAATT
1 ATATAAATAGTATTAAAATATATTTTAAAAATT
56151772 ATA
1 ATA
56151775 CCGTTTGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 6 0.18
33 15 0.45
34 5 0.15
35 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (33 bp):
ATATAAATAGTATTAAAATATATTTTAAAAATT
Found at i:56162666 original size:20 final size:21
Alignment explanation
Indices: 56162621--56162669 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
56162611 AAACTATATC
56162621 GATATAAATAGATTTCTTTTCA
1 GATA-AAATAGATTTCTTTTCA
56162643 -ATAAAATA-ATTT-TTTGTCA
1 GATAAAATAGATTTCTTT-TCA
56162662 GATAAAAT
1 GATAAAAT
56162670 TAGTAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 7 0.28
20 12 0.48
21 3 0.12
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (21 bp):
GATAAAATAGATTTCTTTTCA
Found at i:56167172 original size:10 final size:10
Alignment explanation
Indices: 56167159--56167183 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56167149 CTTTCACATT
56167159 TAATATATAA
1 TAATATATAA
56167169 TAATATATAA
1 TAATATATAA
56167179 TAATA
1 TAATA
56167184 AAAAACCGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TAATATATAA
Found at i:56179001 original size:25 final size:24
Alignment explanation
Indices: 56178938--56178991 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
56178928 ATATTTTTTA
*
56178938 TTTTTATTTTTTAATTTTAAAATAT
1 TTTTTA-TTTTTATTTTTAAAATAT
56178963 TTTTTATTTTTATTTTTAAAATAT
1 TTTTTATTTTTATTTTTAAAATAT
56178987 TTTTT
1 TTTTT
56178992 TGTATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTATTTTTATTTTTAAAATAT
Found at i:56179003 original size:22 final size:23
Alignment explanation
Indices: 56178936--56179005 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 23
56178926 ATATATTTTT
* *
56178936 TATTTTTATTTTTTAATTTTAAAA
1 TATTTTTA-TTTGTATTTTTAAAA
*
56178960 TATTTTTTATTTTTATTTTTAAAA
1 TA-TTTTTATTTGTATTTTTAAAA
56178984 TA-TTTT-TTTGTATTTATTAAAA
1 TATTTTTATTTGTATTT-TTAAAA
56179006 ATCGGGCCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.19
22 10 0.24
24 18 0.43
25 6 0.14
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.67
Consensus pattern (23 bp):
TATTTTTATTTGTATTTTTAAAA
Found at i:56183957 original size:184 final size:183
Alignment explanation
Indices: 56183619--56184162 Score: 779
Period size: 184 Copynumber: 3.0 Consensus size: 183
56183609 ATATATTCAA
* * * * * *
56183619 ATACGAATCCAATTCAGCAATGAATATCGACATACCCAACAATTCGGCAACGTATAACCATTCAC
1 ATACGAAT-CAATTCAGCAAT-TATATCCATATACCAAACAATTCGGCAATGTATAACCATACAC
** * * * * * *
56183684 GAATCAAGTTCGGCAATATATAATCATACACAAA-AC-ATTTGGCATCCTATATTCATAAACAAT
64 GAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAAT
* * *
56183747 TCAATATCGACAATATATAACCATGTACGAA-TTAATTTCAGCAATGTACAACCTT
129 TCAATATCGACAATATATAACCATGTAC-AATTTAATTTCAGCAAGGTAAAACCAT
*
56183802 GTACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
1 ATACGAATCAATTCAGCAA-TTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
*
56183867 AATCAAGTTCGATAATGTATAATTAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
65 AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
56183932 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
130 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
* * * * * * *
56183986 ATACGAATCAATTCGGCAAATTTTATCCATATGCCAAATAATTCAGCAATATATAACTATACACG
1 ATACGAATCAATTCAGC-AATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACG
*
56184051 AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCTTATATACATAAACAATT
65 AATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATT
56184116 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
130 CAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
56184163 TAAAACATTT
Statistics
Matches: 327, Mismatches: 29, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
182 76 0.23
183 11 0.03
184 238 0.73
185 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.28
Consensus pattern (183 bp):
ATACGAATCAATTCAGCAATTATATCCATATACCAAACAATTCGGCAATGTATAACCATACACGA
ATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACATAAACAATTC
AATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAACCAT
Found at i:56183960 original size:62 final size:61
Alignment explanation
Indices: 56183682--56184144 Score: 149
Period size: 62 Copynumber: 7.6 Consensus size: 61
56183672 ATAACCATTC
* * * * ** * *
56183682 ACGAATCAAGTTCGGCAATATATAATCATACACAAA-AC-ATTTGGCATCCTATATTCATAA
1 ACGAATCAA-TTCGACAATATATAACCATATACAAATCCAATTCAGCATCATATATACATAA
* * * * * * *
56183742 AC-AATTCAATATCGACAATATATAACCATGTACGAAT-TAATTTCAGCA--ATGTACAACCTTG
1 ACGAA-TCAAT-TCGACAATATATAACCATATACAAATCCAA-TTCAGCATCATATA-TA-CATA
*
56183803 T
61 A
* * *
56183804 ACGAATCAATTC-AGCAACT-TATATCCATATACCAAA--CAATTCGGCA--ATGTATAACCATA
1 ACGAATCAATTCGA-CAA-TATATAACCATATA-CAAATCCAATTCAGCATCATATAT-A-CATA
*
56183863 C
61 A
* * ** * * *
56183864 ACGAATCAAGTTCGATAATGTATAATTAAATACAAATCCAATTCGGCATCCTATATACATAA
1 ACGAATCAA-TTCGACAATATATAACCATATACAAATCCAATTCAGCATCATATATACATAA
* ** *** * *
56183926 AC-AATTCAATATCGACAATATATAACCATGTAC-AATTTAATTTCAGCAAGGTA-AAACCATAT
1 ACGAA-TCAAT-TCGACAATATATAACCATATACAAATCCAA-TTCAGCATCATATATA-CATAA
* * * * *
56183988 ACGAATCAATTCGGCAA-ATTTTATCCATATGCCAAAT--AATTCAGCA--ATATATAACTATAC
1 ACGAATCAATTCGACAATA-TATAACCATAT-ACAAATCCAATTCAGCATCATATAT-AC-ATAA
* * * * * *
56184048 ACGAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCTTATATACATAA
1 ACGAATCAA-TTCGACAATATATAACCATATACAAATCCAATTCAGCATCATATATACATAA
*
56184110 AC-AATTCAATATCGACAATATATAACCATGTACAA
1 ACGAA-TCAAT-TCGACAATATATAACCATATACAA
56184145 TTTAATTTCA
Statistics
Matches: 295, Mismatches: 70, Indels: 74
0.67 0.16 0.17
Matches are distributed among these distances:
58 2 0.01
59 5 0.02
60 85 0.29
61 73 0.25
62 111 0.38
63 10 0.03
64 9 0.03
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (61 bp):
ACGAATCAATTCGACAATATATAACCATATACAAATCCAATTCAGCATCATATATACATAA
Found at i:56186369 original size:17 final size:17
Alignment explanation
Indices: 56186347--56186379 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56186337 TTCTAATAAG
56186347 TACTTTTGAGACAAAAA
1 TACTTTTGAGACAAAAA
*
56186364 TACTTTTGAGATAAAA
1 TACTTTTGAGACAAAA
56186380 GCATTGCTAA
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:0.45, C:0.09, G:0.12, T:0.33
Consensus pattern (17 bp):
TACTTTTGAGACAAAAA
Found at i:56189615 original size:2 final size:2
Alignment explanation
Indices: 56189608--56189639 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56189598 AAATATGCAA
56189608 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
56189640 GATAGCCGAA
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:56191386 original size:2 final size:2
Alignment explanation
Indices: 56191379--56191426 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
56191369 ACGTACGTAC
56191379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56191421 TA TA TA
1 TA TA TA
56191427 ATTGTTTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56191841 original size:14 final size:14
Alignment explanation
Indices: 56191819--56191848 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56191809 GTATATATAT
56191819 ATAGATTTAATTTA
1 ATAGATTTAATTTA
*
56191833 ATAGTTTTAATTTA
1 ATAGATTTAATTTA
56191847 AT
1 AT
56191849 GGAAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (14 bp):
ATAGATTTAATTTA
Found at i:56195437 original size:15 final size:15
Alignment explanation
Indices: 56195419--56195463 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
56195409 ACAATACAAG
56195419 TTTAAAGAATTTGGT
1 TTTAAAGAATTTGGT
56195434 TTT-AAG--TTTGGT
1 TTTAAAGAATTTGGT
56195446 TTTATAA-AATTTGGT
1 TTTA-AAGAATTTGGT
56195461 TTT
1 TTT
56195464 GAATTTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 9 0.35
14 5 0.19
15 12 0.46
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
TTTAAAGAATTTGGT
Found at i:56202022 original size:25 final size:25
Alignment explanation
Indices: 56201994--56202045 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
56201984 CTTTGGGATA
56201994 ATATCCATTCTCCCAATATGATATT
1 ATATCCATTCTCCCAATATGATATT
56202019 ATATCCATTCTCCCAATATGATATT
1 ATATCCATTCTCCCAATATGATATT
56202044 AT
1 AT
56202046 TCTATCTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (25 bp):
ATATCCATTCTCCCAATATGATATT
Found at i:56207076 original size:48 final size:48
Alignment explanation
Indices: 56206992--56207649 Score: 308
Period size: 48 Copynumber: 13.8 Consensus size: 48
56206982 GGAGTCCCTC
* * * ** *
56206992 CTTGGCTTGAACTCCCAATGAAAAAC-AATGATGGATTTCTATCCATCT
1 CTTGGATTGAACTTCCAGTGAAAAACTGTTG-TGGATTTGTATCCATCT
* *
56207040 CTTGGATTGAGCTTCCAGTGAAAAACTGTTGCGGATTTGTATCCAT-T
1 CTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATCT
* * * *
56207087 CCTTGGCTTG-ACTTCTCA-TGGAAAAGCTGTCGTGGATTTGTATCCATCC
1 -CTTGGATTGAACTTC-CAGT-GAAAAACTGTTGTGGATTTGTATCCATCT
* *
56207136 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTAGATGTGGATTTGTATCCAT-T
1 CTTGGATTGAACTTCCAGTGAAAAAC--T-GT---TGTGGATTTGTATCCATCT
* * *
56207189 CCTTGGCTTGAAC-TCCTAGTGAAAAATTGTTGTGGATTTGTATCCATCC
1 -CTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATCT
* * *
56207238 CTTGGATTGAACTCCCAGTGAAGAACTGTGGTGGATGTTGTGGATTTGTCTCCAT-T
1 CTTGGATTGAACTTCCAGTGAAAAAC---------TGTTGTGGATTTGTATCCATCT
* * *
56207294 CCTTGGCTTG-ACTTCTCATTG-AAAA--GTTGTGGATTTGTATCCATCC
1 -CTTGGATTGAACTTC-CAGTGAAAAACTGTTGTGGATTTGTATCCATCT
*
56207340 CTTGGATTGAAC-TCCTAGTG---AAC------GGATTTGTATCCATCC
1 CTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATCT
* * * *
56207379 CTTGGCTTGAAC-TCCTAGTGAAGAACTGTGGTGGA--TG--T---TGT
1 CTTGGATTGAACTTCC-AGTGAAAAACTGTTGTGGATTTGTATCCATCT
*** ** *** * **** * *
56207420 GGGGGAGAGAA-GAACTGTGGTGGA-TGTTGTGGATTTGTATTCATCC
1 CTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATCT
* *
56207466 CTTGGCTTGAACTCCCAGTGAAAAACTGTTGTGGATTTGTATCCAT-T
1 CTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATCT
*
56207513 CCTTGGCTTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCAT-T
1 -CTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATCT
* * * *
56207561 CCTT-GACTTGAACTCCCAG-GAAAAAATTGTTGTCGATTTGTATCCATTT
1 -CTTGGA-TTGAACTTCCAGTG-AAAAACTGTTGTGGATTTGTATCCATCT
* * * *
56207610 CTT-GACTTGAACTCCCAATGAAAAACTGTTTTGAATTTGT
1 CTTGGA-TTGAACTTCCAGTGAAAAACTGTTGTGGATTTGT
56207650 GTTCGTTCCT
Statistics
Matches: 471, Mismatches: 83, Indels: 112
0.71 0.12 0.17
Matches are distributed among these distances:
39 43 0.09
40 5 0.01
41 9 0.02
42 3 0.01
43 3 0.01
44 2 0.00
45 31 0.07
46 10 0.02
47 13 0.03
48 260 0.55
49 11 0.02
50 1 0.00
51 4 0.01
52 1 0.00
53 2 0.00
54 35 0.07
56 7 0.01
57 31 0.07
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (48 bp):
CTTGGATTGAACTTCCAGTGAAAAACTGTTGTGGATTTGTATCCATCT
Found at i:56207224 original size:102 final size:99
Alignment explanation
Indices: 56206990--56207361 Score: 420
Period size: 102 Copynumber: 3.7 Consensus size: 99
56206980 TAGGAGTCCC
*** * * * *
56206990 TCCTTGGCTTGAACTCC-CAATGAAAAACAATGATGGATTTCTATCCATCTCTTGGATTGAGCTT
1 TCCTTGGCTTG-ACTCCTC-ATGAAAAATGTTG-TGGATTTGTATCCATCCCTTGGATTGAACTC
* *
56207054 CCAGTGAAAAAC--T-GT--TGCGGATTTGTATCCAT
63 CCAGTGAAGAACTGTGGTAGTGTGGATTTGTATCCAT
* * *
56207086 TCCTTGGCTTGACTTCTCATGGAAAAGCTGTCGTGGATTTGTATCCATCCCTTGGATTGAACTCC
1 TCCTTGGCTTGACTCCTCAT-GAAAA-ATGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCC
56207151 CAGTGAAGAACTGTGGTAGATGTGGATTTGTATCCAT
64 CAGTGAAGAACTGTGGTAG-TGTGGATTTGTATCCAT
56207188 TCCTTGGCTTGAACTCCT-AGTGAAAAATTGTTGTGGATTTGTATCCATCCCTTGGATTGAACTC
1 TCCTTGGCTTG-ACTCCTCA-TGAAAAA-TGTTGTGGATTTGTATCCATCCCTTGGATTGAACTC
*
56207252 CCAGTGAAGAACTGTGGTGGATGTTGTGGATTTGTCTCCAT
63 CCAGTGAAGAACTGTGGT--A-G-TGTGGATTTGTATCCAT
* *
56207293 TCCTTGGCTTGACTTCTCATTG-AAAA-GTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCT
1 TCCTTGGCTTGACTCCTCA-TGAAAAATGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCC
56207356 AGTGAA
65 AGTGAA
56207362 CGGATTTGTA
Statistics
Matches: 240, Mismatches: 20, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
95 6 0.03
96 55 0.23
97 1 0.00
98 1 0.00
99 2 0.01
102 128 0.53
103 6 0.03
104 10 0.04
105 31 0.13
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (99 bp):
TCCTTGGCTTGACTCCTCATGAAAAATGTTGTGGATTTGTATCCATCCCTTGGATTGAACTCCCA
GTGAAGAACTGTGGTAGTGTGGATTTGTATCCAT
Found at i:56207378 original size:39 final size:39
Alignment explanation
Indices: 56207324--56207400 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
56207314 GAAAAGTTGT
56207324 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
1 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
*
56207363 GGATTTGTATCCATCCCTTGGCTTGAACTCCTAGTGAA
1 GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAA
56207401 GAACTGTGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (39 bp):
GGATTTGTATCCATCCCTTGGATTGAACTCCTAGTGAAC
Found at i:56207681 original size:48 final size:48
Alignment explanation
Indices: 56207444--56207681 Score: 325
Period size: 48 Copynumber: 5.0 Consensus size: 48
56207434 CTGTGGTGGA
* *
56207444 TGTTGTGGATTTGTATTCATCCCTTGGCTTGAACTCCCAGTGAAAAAC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAAC
*
56207492 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTTCCAGTGAAAAAC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAAC
* *
56207540 TGTTGTGGATTTGTATCCATTCCTTGACTTGAACTCCCAG-GAAAAAAT
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTG-AAAAAC
* * * *
56207588 TGTTGTCGATTTGTATCCATTTCTTGACTTGAACTCCCAATGAAAAAC
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAAC
* * * * * *
56207636 TGTTTTGAATTTGTGTTCGTTCCTTGGCTTGAACTCCCAGGGAAAA
1 TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAA
56207682 GCTGCTGGCA
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 166 0.99
49 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (48 bp):
TGTTGTGGATTTGTATCCATTCCTTGGCTTGAACTCCCAGTGAAAAAC
Found at i:56210413 original size:38 final size:39
Alignment explanation
Indices: 56210330--56210424 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 39
56210320 GTTTGAATAG
* *
56210330 AGATTCTACATGTTATATAACGGAATCTAGCATTTGTTAT
1 AGATTCT-CAGGTTATATAACGGAATCTAGCATTTGTTAC
* * *
56210370 AGATTCTCGGGTTATTTAAC-GAGATCTAGC-TTTGTTGC
1 AGATTCTCAGGTTATATAACGGA-ATCTAGCATTTGTTAC
56210408 AGATTCTCAGGTTATAT
1 AGATTCTCAGGTTATAT
56210425 GTAACATAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 23 0.49
39 17 0.36
40 7 0.15
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (39 bp):
AGATTCTCAGGTTATATAACGGAATCTAGCATTTGTTAC
Found at i:56216164 original size:39 final size:38
Alignment explanation
Indices: 56216081--56216164 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
56216071 CTTATGTTAC
*
56216081 ATATAACCTGAGAATCTGCAACAAAGCTAGATCTCGTT
1 ATATAACCTGAGAATCTACAACAAAGCTAGATCTCGTT
* * *
56216119 AAATAACCTGAGAATCTATAGCAAATGCTAGATCTCGTT
1 ATATAACCTGAGAATCTACAACAAA-GCTAGATCTCGTT
56216158 ATATAAC
1 ATATAAC
56216165 ATGTAAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 21 0.52
39 19 0.47
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (38 bp):
ATATAACCTGAGAATCTACAACAAAGCTAGATCTCGTT
Found at i:56233506 original size:2 final size:2
Alignment explanation
Indices: 56233499--56233541 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
56233489 ATAAGCAACA
56233499 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
56233541 A
1 A
56233542 TTAGTATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:56248644 original size:162 final size:162
Alignment explanation
Indices: 56248377--56248682 Score: 612
Period size: 162 Copynumber: 1.9 Consensus size: 162
56248367 AAAGATGTAC
56248377 CTCGAACTCCTAATCGATGGTAGTGCAGCCACACGTACAAGTAAAGTGTTCGAATCCGTGGCGCT
1 CTCGAACTCCTAATCGATGGTAGTGCAGCCACACGTACAAGTAAAGTGTTCGAATCCGTGGCGCT
56248442 ATGCTATCACTTACTTGGACACTCGCCTGGTGATGATGAAAATAGATTTACAAGTTTGAAATGTT
66 ATGCTATCACTTACTTGGACACTCGCCTGGTGATGATGAAAATAGATTTACAAGTTTGAAATGTT
56248507 CCTAGTTGAAGGCATAAGATGTAGCACTGCAA
131 CCTAGTTGAAGGCATAAGATGTAGCACTGCAA
56248539 CTCGAACTCCTAATCGATGGTAGTGCAGCCACACGTACAAGTAAAGTGTTCGAATCCGTGGCGCT
1 CTCGAACTCCTAATCGATGGTAGTGCAGCCACACGTACAAGTAAAGTGTTCGAATCCGTGGCGCT
56248604 ATGCTATCACTTACTTGGACACTCGCCTGGTGATGATGAAAATAGATTTACAAGTTTGAAATGTT
66 ATGCTATCACTTACTTGGACACTCGCCTGGTGATGATGAAAATAGATTTACAAGTTTGAAATGTT
56248669 CCTAGTTGAAGGCA
131 CCTAGTTGAAGGCA
56248683 AATTTTGAAA
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 144 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (162 bp):
CTCGAACTCCTAATCGATGGTAGTGCAGCCACACGTACAAGTAAAGTGTTCGAATCCGTGGCGCT
ATGCTATCACTTACTTGGACACTCGCCTGGTGATGATGAAAATAGATTTACAAGTTTGAAATGTT
CCTAGTTGAAGGCATAAGATGTAGCACTGCAA
Found at i:56251165 original size:68 final size:70
Alignment explanation
Indices: 56251087--56251231 Score: 199
Period size: 68 Copynumber: 2.1 Consensus size: 70
56251077 GGTTTCAAAT
* *
56251087 ATTATAAACTCATGTTTAACATCTTAGCAGACTCTCTA-T-GTTGCCATAGTCGAGCTATGGTCT
1 ATTATAAACTCATATTTAACATCCTAGCAGACTCTCTATTGGTTGCCATAGTCGAGCTATGGTCT
56251150 TACAC
66 TACAC
* * * * *
56251155 ATTATGAACTCATATTTAACATCCTAGCGGACTCTCTATTGGTTGTCATAGTCGAGGTATGGTTT
1 ATTATAAACTCATATTTAACATCCTAGCAGACTCTCTATTGGTTGCCATAGTCGAGCTATGGTCT
56251220 TACAC
66 TACAC
56251225 -TT-TAAAC
1 ATTATAAAC
56251232 CTCCTTTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
68 38 0.57
69 3 0.04
70 26 0.39
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (70 bp):
ATTATAAACTCATATTTAACATCCTAGCAGACTCTCTATTGGTTGCCATAGTCGAGCTATGGTCT
TACAC
Found at i:56258180 original size:14 final size:14
Alignment explanation
Indices: 56258157--56258187 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
56258147 TATAATGTTC
*
56258157 AATGGTAATGTTAT
1 AATGGCAATGTTAT
56258171 AATGGCAATGTTAT
1 AATGGCAATGTTAT
56258185 AAT
1 AAT
56258188 TGTATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (14 bp):
AATGGCAATGTTAT
Found at i:56261913 original size:20 final size:20
Alignment explanation
Indices: 56261888--56261928 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56261878 AGTATGCATG
56261888 AAAATGGTTAATTCGGTTAT
1 AAAATGGTTAATTCGGTTAT
56261908 AAAATGGTTAATTCGGTTAT
1 AAAATGGTTAATTCGGTTAT
56261928 A
1 A
56261929 TGCATTTAAA
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:0.37, C:0.05, G:0.20, T:0.39
Consensus pattern (20 bp):
AAAATGGTTAATTCGGTTAT
Found at i:56262052 original size:34 final size:34
Alignment explanation
Indices: 56262009--56262078 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
56261999 TAGGTTTGTT
56262009 TTGGGTGTATGATGTAATAGATGATTGGTAATAG
1 TTGGGTGTATGATGTAATAGATGATTGGTAATAG
56262043 TTGGGTGTATGATGTAATAGATGATTGGTAATAG
1 TTGGGTGTATGATGTAATAGATGATTGGTAATAG
56262077 TT
1 TT
56262079 TGACCACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.31, T:0.40
Consensus pattern (34 bp):
TTGGGTGTATGATGTAATAGATGATTGGTAATAG
Found at i:56270028 original size:32 final size:32
Alignment explanation
Indices: 56269992--56270092 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 32
56269982 ACTCAATTGT
56269992 TCTTCAATTTATGGGCTTTACTCGTTCAAATA
1 TCTTCAATTTATGGGCTTTACTCGTTCAAATA
** * * *
56270024 TCTTCAAATCTTA---AATTT-CAAC--TCAATTGT
1 TCTTC-AAT-TTATGGGCTTTAC-TCGTTCAAAT-A
56270054 TCTTCAATTTATGGGCTTTACTCGTTCAAATA
1 TCTTCAATTTATGGGCTTTACTCGTTCAAATA
56270086 TCTTCAA
1 TCTTCAA
56270093 AATAACCAGT
Statistics
Matches: 49, Mismatches: 10, Indels: 20
0.62 0.13 0.25
Matches are distributed among these distances:
28 3 0.06
29 8 0.16
30 6 0.12
31 8 0.16
32 13 0.27
33 8 0.16
34 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.44
Consensus pattern (32 bp):
TCTTCAATTTATGGGCTTTACTCGTTCAAATA
Found at i:56270031 original size:62 final size:62
Alignment explanation
Indices: 56269961--56270093 Score: 266
Period size: 62 Copynumber: 2.1 Consensus size: 62
56269951 TCATAATTCA
56269961 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
1 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
56270023 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
1 ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
56270085 ATCTTCAAA
1 ATCTTCAAA
56270094 ATAACCAGTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.08, T:0.43
Consensus pattern (62 bp):
ATCTTCAAATCTTAAATTTCAACTCAATTGTTCTTCAATTTATGGGCTTTACTCGTTCAAAT
Found at i:56271746 original size:22 final size:23
Alignment explanation
Indices: 56271721--56271763 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
56271711 GATTTAGGCA
* *
56271721 CTATGTTTTTCTTT-CATTAATG
1 CTATGCTTCTCTTTGCATTAATG
56271743 CTATGCTTCTCTTTGCATTAA
1 CTATGCTTCTCTTTGCATTAA
56271764 CTATTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (23 bp):
CTATGCTTCTCTTTGCATTAATG
Found at i:56292217 original size:27 final size:27
Alignment explanation
Indices: 56292187--56292250 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
56292177 TTTTTTTGGT
56292187 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
56292214 ATATTTTGGTAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
56292241 ATATTTTGGT
1 ATATTTTGGT
56292251 TATTTTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:56307956 original size:20 final size:21
Alignment explanation
Indices: 56307931--56307970 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56307921 TCATTCAACC
*
56307931 CTTATG-GGTTCTGTTTAGCT
1 CTTATGAGCTTCTGTTTAGCT
56307951 CTTATGAGCTTCTGTTTAGC
1 CTTATGAGCTTCTGTTTAGC
56307971 CTTCGTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.47
Consensus pattern (21 bp):
CTTATGAGCTTCTGTTTAGCT
Found at i:56309965 original size:51 final size:50
Alignment explanation
Indices: 56309902--56310088 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 50
56309892 TCGGTTCACA
*
56309902 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATACACG
* * * * * * *
56309953 TAGTAGCATGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATACACG
* * *
56310004 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATACACG
*
56310054 TAGTAGCCTGTACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
56310089 CACTTTCACT
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.35
51 69 0.62
52 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATACACG
Found at i:56310076 original size:101 final size:101
Alignment explanation
Indices: 56309900--56310084 Score: 309
Period size: 101 Copynumber: 1.8 Consensus size: 101
56309890 GTTCGGTTCA
*
56309900 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCATGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCATGCA
56309965 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
56310002 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACGTAGTAGCCTGTA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCATGCA
56310066 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
56310085 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.51
102 34 0.44
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCATGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:56313277 original size:9 final size:9
Alignment explanation
Indices: 56313263--56313293 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56313253 GTTAAACGAA
56313263 TCGAGTTAT
1 TCGAGTTAT
*
56313272 TCGAGTTAA
1 TCGAGTTAT
56313281 TCGAGTTAT
1 TCGAGTTAT
56313290 TCGA
1 TCGA
56313294 ATCAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56314410 original size:5 final size:5
Alignment explanation
Indices: 56314400--56314425 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56314390 CTCGAAAATT
56314400 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
56314426 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:56316543 original size:28 final size:29
Alignment explanation
Indices: 56316504--56316585 Score: 82
Period size: 28 Copynumber: 2.9 Consensus size: 29
56316494 ATGATAAAAA
*
56316504 TAAAATTAAATAAAATTTATT-AAATTAT
1 TAAAATTTAATAAAATTTATTAAAATTAT
**
56316532 TAAAATTTAATAAAAAATATTAAAAATTAT
1 TAAAATTTAATAAAATTTATT-AAAATTAT
*
56316562 AAAAATCTTAA-AAAA-TTA-TAAAAT
1 TAAAAT-TTAATAAAATTTATTAAAAT
56316586 ATATAGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 5 0.11
28 19 0.41
29 2 0.04
30 16 0.35
31 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
TAAAATTTAATAAAATTTATTAAAATTAT
Found at i:56316565 original size:19 final size:19
Alignment explanation
Indices: 56316529--56316589 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 19
56316519 TTTATTAAAT
*
56316529 TATTAAAATTTAATAAAAAA
1 TATTAAAAATT-ATAAAAAA
56316549 TATTAAAAATTAT-AAAAA
1 TATTAAAAATTATAAAAAA
* *
56316567 TCTTAAAAAATTATAAAATA
1 TATT-AAAAATTATAAAAAA
56316587 TAT
1 TAT
56316590 AGAAATATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.23
19 11 0.31
20 16 0.46
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
TATTAAAAATTATAAAAAA
Found at i:56316567 original size:18 final size:18
Alignment explanation
Indices: 56316514--56316589 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 18
56316504 TAAAATTAAA
* * *
56316514 TAAAATTTATTAAATTAT
1 TAAAAATTATAAAAATAT
*
56316532 TAAAATTTAATAAAAAATAT
1 TAAAAATT-AT-AAAAATAT
*
56316552 TAAAAATTATAAAAATCT
1 TAAAAATTATAAAAATAT
56316570 TAAAAAATTATAAAATATAT
1 T-AAAAATTATAAAA-ATAT
56316590 AGAAATATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.33
19 17 0.35
20 16 0.33
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATTATAAAAATAT
Found at i:56316583 original size:10 final size:10
Alignment explanation
Indices: 56316525--56316644 Score: 56
Period size: 10 Copynumber: 12.3 Consensus size: 10
56316515 AAAATTTATT
*
56316525 AAATTATTAA
1 AAATTATAAA
*
56316535 AATTTAATAAA
1 AAATT-ATAAA
*
56316546 AAA-TATTAA
1 AAATTATAAA
56316555 AAATTAT-AA
1 AAATTATAAA
56316564 AAATCT-TAAA
1 AAAT-TATAAA
56316574 AAATTATAAA
1 AAATTATAAA
* *
56316584 ATA-TAT-AG
1 AAATTATAAA
*
56316592 AAATATAGAAAA
1 AAAT-TA-TAAA
56316604 AAATTAT--A
1 AAATTATAAA
* * *
56316612 AAGTTTTATA
1 AAATTATAAA
* *
56316622 AAGTTGTAAA
1 AAATTATAAA
56316632 AAATTATAAA
1 AAATTATAAA
56316642 AAA
1 AAA
56316645 GTAAAGAAAT
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
8 9 0.11
9 18 0.22
10 43 0.52
11 8 0.10
12 5 0.06
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (10 bp):
AAATTATAAA
Found at i:56316885 original size:19 final size:19
Alignment explanation
Indices: 56316853--56316890 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
56316843 TTAAAGTGTC
*
56316853 TTTTTGATGCATTTTATAA
1 TTTTTGATGAATTTTATAA
*
56316872 TTTTTTATGAATTTTATAA
1 TTTTTGATGAATTTTATAA
56316891 AATTTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTGATGAATTTTATAA
Found at i:56316984 original size:19 final size:20
Alignment explanation
Indices: 56316942--56316997 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
56316932 TATTTCTTTT
56316942 ATTTTTATTAAATTTTAATA
1 ATTTTTATTAAATTTTAATA
* * *
56316962 ATTTTTA-TAACTTTTATTG
1 ATTTTTATTAAATTTTAATA
*
56316981 ATTTTTTTTATAATTTT
1 ATTTTTATTA-AATTTT
56316998 TTACCACATG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 15 0.52
20 9 0.31
21 5 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTATTAAATTTTAATA
Found at i:56318082 original size:51 final size:53
Alignment explanation
Indices: 56317976--56318108 Score: 139
Period size: 51 Copynumber: 2.5 Consensus size: 53
56317966 CTAAGTTTTG
* *
56317976 AAATAAAAAGAT-AAATTAG-TTAAATTCAAAAATAAATCTAATTACCTAAGAT
1 AAATAAAAAAATAAAAATAGTTTAAATT-AAAAATAAATCTAATTACCTAAGAT
* **
56318028 AAATAAAAAAATAAAAATAGTTTAAATT-AAAA-AAATCTATTTATTTAAGAT
1 AAATAAAAAAATAAAAATAGTTTAAATTAAAAATAAATCTAATTACCTAAGAT
*
56318079 AAATTAAAAAAAGAATAAAACTAGTTTAAA
1 AAA-T--AAAAA-AATAAAAATAGTTTAAA
56318109 AAAAATCTTA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
51 19 0.28
52 16 0.23
53 6 0.09
54 12 0.17
55 16 0.23
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (53 bp):
AAATAAAAAAATAAAAATAGTTTAAATTAAAAATAAATCTAATTACCTAAGAT
Found at i:56340990 original size:15 final size:13
Alignment explanation
Indices: 56340964--56341006 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
56340954 ACCACGTAAT
*
56340964 AAGAAAACAAAGA
1 AAGAAAAAAAAGA
56340977 AAGTAAAAAAAAAGA
1 AAG--AAAAAAAAGA
*
56340992 AAGAAAGAAAAGA
1 AAGAAAAAAAAGA
56341005 AA
1 AA
56341007 TAAGCATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 14 0.54
15 12 0.46
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:56340994 original size:19 final size:18
Alignment explanation
Indices: 56340967--56341002 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
56340957 ACGTAATAAG
56340967 AAAACAAAGAAAGTAAAAA
1 AAAACAAAGAAAG-AAAAA
*
56340986 AAAAGAAAGAAAGAAAA
1 AAAACAAAGAAAGAAAA
56341003 GAAATAAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAACAAAGAAAGAAAAA
Found at i:56341872 original size:30 final size:31
Alignment explanation
Indices: 56341836--56341899 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
56341826 TTTTTAGTTA
*
56341836 AATTTGACC-TCAACCTTATAAAAATAATCG
1 AATTTGACCATCAACCTTATAAAAAGAATCG
* * *
56341866 AATTTGACCATTAACCTTCTAAAAAGAGTCG
1 AATTTGACCATCAACCTTATAAAAAGAATCG
56341897 AAT
1 AAT
56341900 AGTTGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (31 bp):
AATTTGACCATCAACCTTATAAAAAGAATCG
Found at i:56345968 original size:24 final size:24
Alignment explanation
Indices: 56345918--56345969 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
56345908 TTCGTAGATC
* *
56345918 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
* *
56345942 AAATATATTATACTAATAAATATT
1 AAATAAATTATACTAATAAATACT
56345966 AAAT
1 AAAT
56345970 CTTCTGGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:56354999 original size:18 final size:18
Alignment explanation
Indices: 56354976--56355012 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56354966 ACGTACGAGG
56354976 AAGGATTAGCACCCTCGT
1 AAGGATTAGCACCCTCGT
56354994 AAGGATTAGCACCCTCGT
1 AAGGATTAGCACCCTCGT
56355012 A
1 A
56355013 CGCCCAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (18 bp):
AAGGATTAGCACCCTCGT
Found at i:56356025 original size:23 final size:24
Alignment explanation
Indices: 56355978--56356034 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
56355968 ATATGTGTAC
*
56355978 ATACATATGTATACTAAAATAAATA
1 ATACATATGGATAC-AAAATAAATA
56356003 TATACATATGGATA-AAAAT-AATA
1 -ATACATATGGATACAAAATAAATA
56356026 ATTACATAT
1 A-TACATAT
56356035 AAATTAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 11 0.38
24 5 0.17
26 12 0.41
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.33
Consensus pattern (24 bp):
ATACATATGGATACAAAATAAATA
Found at i:56356109 original size:21 final size:21
Alignment explanation
Indices: 56356070--56356110 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
56356060 ATACTGCAAA
* *
56356070 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
56356091 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
56356111 ATTTTTAGAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:56356716 original size:21 final size:21
Alignment explanation
Indices: 56356690--56356767 Score: 129
Period size: 21 Copynumber: 3.7 Consensus size: 21
56356680 AATCCTATCT
*
56356690 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
56356711 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
56356732 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
* *
56356753 TTTAAGATTGTATAT
1 TCTAAGATTGCATAT
56356768 CCTCAAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:56365776 original size:24 final size:24
Alignment explanation
Indices: 56365748--56365827 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
56365738 AAAAATCAAA
56365748 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTCCAAAATTT
* *
56365772 ATATTT-T-----TT-AAAATTTT
1 ATATTTATAAAAATTCCAAAATTT
56365789 ATATTTATAAAAATTCCAAAATTT
1 ATATTTATAAAAATTCCAAAATTT
* *
56365813 ATATTTTTTAAAATT
1 ATATTTATAAAAATT
56365828 TTATAAAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
17 12 0.28
18 3 0.07
23 3 0.07
24 25 0.58
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
ATATTTATAAAAATTCCAAAATTT
Done.