Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 143 of 290
Found at i:48639650 original size:79 final size:79
Alignment explanation
Indices: 48639406--48639661 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
48639396 TTGAATGATG
* * * *
48639406 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
48639467 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
48639485 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
48639549 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
48639563 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
48639627 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
48639643 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
48639662 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:48648954 original size:28 final size:29
Alignment explanation
Indices: 48648922--48649040 Score: 168
Period size: 29 Copynumber: 4.1 Consensus size: 29
48648912 TACATACCTG
* **
48648922 CATATGGCCCACTAGGCCC-AATGTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
48648950 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
48648979 CGTATGGCACATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
48649008 CGTATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCACATT
48649037 CATA
1 CATA
48649041 GTTCTGCTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 18 0.22
29 64 0.78
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:48667000 original size:61 final size:61
Alignment explanation
Indices: 48666905--48667027 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
48666895 TGATAATGCG
*
48666905 AGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGGAAGACGTGGAATCGACCTCAATC
1 AGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAATCGACCTCAATC
48666966 AGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAATCGACCTCAATC
1 AGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAATCGACCTCAATC
48667027 A
1 A
48667028 AGGAAAAGAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (61 bp):
AGTATTAAATAAGCTAAATGTGTTATTTTAGATCAAGAAAGACGTGGAATCGACCTCAATC
Found at i:48667412 original size:46 final size:46
Alignment explanation
Indices: 48667362--48667533 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
48667352 TGAGCATCCA
48667362 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* ** * *
48667408 AACTCGTTGAGTTGAGTCCGAGTTCGCGAGATGTAACTAG-GCAT-T-CG
1 AACTCGTTGAGTTGAGTCCGAGTTCAC-TTATG-GA-T-GCGAATGTCCG
* *
48667455 AACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG-CCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-G
* *
48667501 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48667534 GCGGGTTACA
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 59 0.57
47 31 0.30
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:48669857 original size:52 final size:52
Alignment explanation
Indices: 48669779--48669882 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
48669769 TGCAGCCAGT
*
48669779 GTAGGGACCTCGAGATTTGTTAAACCCTAGTGCCATCGGTATGGTAGAAATC
1 GTAGGGAACTCGAGATTTGTTAAACCCTAGTGCCATCGGTATGGTAGAAATC
48669831 GTAGGGAACTCGAGATTTGTTAAACCCTAGTGCCATCGGTATGGTAGAAATC
1 GTAGGGAACTCGAGATTTGTTAAACCCTAGTGCCATCGGTATGGTAGAAATC
48669883 ATTTTGGTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (52 bp):
GTAGGGAACTCGAGATTTGTTAAACCCTAGTGCCATCGGTATGGTAGAAATC
Found at i:48674863 original size:46 final size:46
Alignment explanation
Indices: 48674813--48675033 Score: 379
Period size: 46 Copynumber: 4.8 Consensus size: 46
48674803 TGGTTGAGCA
48674813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48674859 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48674905 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATCGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
48674951 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTGTGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48674997 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48675034 GCGGGTTACA
Statistics
Matches: 167, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 167 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48677609 original size:15 final size:15
Alignment explanation
Indices: 48677577--48677605 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48677567 ATTGTCAGTG
48677577 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
48677592 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
48677606 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:48683329 original size:40 final size:40
Alignment explanation
Indices: 48683259--48683426 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
48683249 CGGGGTTTAG
** * * *
48683259 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCCTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACCTAAC
* * * *
48683298 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGACCTAAC
* * **
48683338 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGA-CCTAAC
* * * * *
48683378 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGACCTAAC
48683419 CCGGATAT
1 CCGGATAT
48683427 CATTCGAGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
39 18 0.17
40 60 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGACCTAAC
Found at i:48683409 original size:41 final size:40
Alignment explanation
Indices: 48683282--48683426 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
48683272 CTCGCACAAG
* * * * * *
48683282 GCCTTCGGGTCCTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
48683322 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
48683362 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
48683403 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
48683427 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:48684656 original size:38 final size:38
Alignment explanation
Indices: 48684614--48684689 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
48684604 CAAGAACTCC
48684614 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
*
48684652 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
48684690 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCAGCCAAAAGAAATGAA
Found at i:48691435 original size:40 final size:40
Alignment explanation
Indices: 48691365--48691532 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
48691355 CGGGGTTTAG
** * *
48691365 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
48691404 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
48691444 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* ** * * * * *
48691484 CCGGATGTAGTTGCTTAGCCCAAAAGCATTCGGGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
48691525 CCGGATAT
1 CCGGATAT
48691533 CATTCGAGTA
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
39 15 0.14
40 62 0.60
41 27 0.26
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:48691523 original size:41 final size:40
Alignment explanation
Indices: 48691391--48691532 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
48691381 GCACAAGGCC
* * * * * * *
48691391 TTCGGGTCTTAACCCGGATATGGTCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAAGCA
* *
48691431 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAAGCA
* * * *
48691471 TTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCCCAAAAGCA
1 TTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAAGCA
48691512 TTCGGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
48691533 CATTCGAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 55 0.64
41 25 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.27
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAAGCA
Found at i:48692766 original size:38 final size:38
Alignment explanation
Indices: 48692724--48692799 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
48692714 CAAGAACTCC
*
48692724 TTCCTCCTTCCTTAGAATTTTCTGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
48692762 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
48692800 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.33
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:48700498 original size:37 final size:37
Alignment explanation
Indices: 48700437--48700515 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
48700427 TTATTACGAA
* * * *
48700437 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
*
48700474 GTCTTACCCGAACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
48700511 GTCTT
1 GTCTT
48700516 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGAACAAAATCCCCACACGAAGTCATCGG
Found at i:48700721 original size:47 final size:47
Alignment explanation
Indices: 48700634--48701173 Score: 801
Period size: 47 Copynumber: 11.4 Consensus size: 47
48700624 CCTTTCGGGA
* * * * * * * *
48700634 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48700681 CCTGTCACATATATACACTTTCACATTCATGACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48700728 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48700775 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48700822 CTTATTACATATATACACCTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48700869 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
48700916 CTCATCACACATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48700963 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48701014 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48701061 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48701108 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48701155 CTTATCACATATATACACT
1 CTTATCACATATATACACT
48701174 CTCTTGGCTG
Statistics
Matches: 455, Mismatches: 34, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
47 405 0.89
48 1 0.00
49 11 0.02
50 1 0.00
51 37 0.08
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48719431 original size:41 final size:41
Alignment explanation
Indices: 48719369--48719447 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
48719359 CTTCAGGTAA
* **
48719369 GGAAATTGTTCGGAGCATGGATTAACTTCAATCACATATAG
1 GGAAAGTGTTCGGAGCATGGATTAACCACAATCACATATAG
* *
48719410 GGAAAGTGTTCGTAGCGTGGATTAACCACAATCACATA
1 GGAAAGTGTTCGGAGCATGGATTAACCACAATCACATA
48719448 AGGTGTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (41 bp):
GGAAAGTGTTCGGAGCATGGATTAACCACAATCACATATAG
Found at i:48727299 original size:17 final size:18
Alignment explanation
Indices: 48727277--48727311 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48727267 TTGTAACGCC
48727277 CTGATTTT-TGGGATTTT
1 CTGATTTTCTGGGATTTT
*
48727294 CTGATTTTCTGTGATTTT
1 CTGATTTTCTGGGATTTT
48727312 TGGTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.09, G:0.20, T:0.60
Consensus pattern (18 bp):
CTGATTTTCTGGGATTTT
Found at i:48735265 original size:79 final size:81
Alignment explanation
Indices: 48735148--48735332 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
48735138 GCTACTCGTT
* *
48735148 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
48735212 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
48735228 CAAATGCCTTCGGG-CTTAGCCTGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48735291 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
48735308 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48735333 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 4 0.04
79 54 0.60
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:48735269 original size:39 final size:40
Alignment explanation
Indices: 48735148--48735332 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
48735138 GCTACTCGTT
*
48735148 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
48735188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
48735228 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
48735267 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
48735308 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48735333 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.62
41 13 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:48738214 original size:27 final size:28
Alignment explanation
Indices: 48738133--48738227 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
48738123 GAGATTGGCG
* * * *
48738133 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
48738162 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
48738190 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
48738217 CTGAGTGTGCG
1 CTAAGTGTGCG
48738228 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:48738238 original size:27 final size:27
Alignment explanation
Indices: 48738158--48738240 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48738148 TAAATTGTAC
* *
48738158 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
48738186 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
48738213 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
48738240 A
1 A
48738241 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:48743990 original size:40 final size:40
Alignment explanation
Indices: 48743908--48744087 Score: 251
Period size: 39 Copynumber: 4.6 Consensus size: 40
48743898 TATTCGGATG
* *
48743908 ATATCCGGGCTAAGTCCTGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
48743947 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
48743987 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
48744027 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
48744066 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
48744088 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 71 0.56
40 56 0.44
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:48744039 original size:79 final size:79
Alignment explanation
Indices: 48743908--48744087 Score: 258
Period size: 79 Copynumber: 2.3 Consensus size: 79
48743898 TATTCGGATG
* *
48743908 ATATCCGGGCTAAGTCCTGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAG
1 ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAG
*
48743973 TTGTGCTA-TTGACT
66 TTGTGCGAGTTG-CT
* *
48743987 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACTATAT-CGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGC-ATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
48744051 TTTGTGCGAGTTGCT
65 GTTGTGCGAGTTGCT
*
48744066 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
48744088 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 15 0.16
79 57 0.62
80 20 0.22
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATGGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAG
TTGTGCGAGTTGCT
Found at i:48752541 original size:26 final size:26
Alignment explanation
Indices: 48752512--48752564 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
48752502 TTTACAGTTT
*
48752512 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
48752538 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
48752564 T
1 T
48752565 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:48752914 original size:33 final size:34
Alignment explanation
Indices: 48752837--48752917 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
48752827 TATGGGCCAT
*
48752837 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
48752871 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
48752904 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
48752918 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:48752922 original size:32 final size:30
Alignment explanation
Indices: 48752837--48752930 Score: 71
Period size: 32 Copynumber: 2.9 Consensus size: 30
48752827 TATGGGCCAT
* *
48752837 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCT-TGGCCCAGTTC
* * *
48752871 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCT-TGGCCCAGT-TC
48752904 ACTGTTATCTGAATGGGCTTAGGCCCA
1 ACTGTTATCTGAATGGGCTT-GGCCCA
48752931 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.02
32 26 0.54
33 10 0.21
34 9 0.19
35 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (30 bp):
ACTGTTATCTGAATGGGCTTGGCCCAGTTC
Found at i:48767251 original size:23 final size:23
Alignment explanation
Indices: 48767219--48767350 Score: 144
Period size: 23 Copynumber: 5.7 Consensus size: 23
48767209 TAAGTTGATG
48767219 AACAGTAAGCTCTATCGAGCTGA
1 AACAGTAAGCTCTATCGAGCTGA
* ** *
48767242 ATCAGTAAGCTCTATTAACCTGA
1 AACAGTAAGCTCTATCGAGCTGA
*
48767265 AACGGTAAGCTCTATCGAGCTG-
1 AACAGTAAGCTCTATCGAGCTGA
*
48767287 AACAGTAAGCTC-ATACGAGTTGA
1 AACAGTAAGCTCTAT-CGAGCTGA
* *
48767310 AACGGTAAGCTCCAAT-GAGCTGA
1 AACAGTAAGCT-CTATCGAGCTGA
48767333 AACAGTAAGCTCTTATCG
1 AACAGTAAGCTC-TATCG
48767351 GGACTGATAT
Statistics
Matches: 88, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
21 2 0.02
22 18 0.20
23 64 0.73
24 2 0.02
25 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTATCGAGCTGA
Found at i:48767294 original size:68 final size:69
Alignment explanation
Indices: 48767217--48767350 Score: 173
Period size: 68 Copynumber: 2.0 Consensus size: 69
48767207 CCTAAGTTGA
* * * *
48767217 TGAACAGTAAGCTC-TATCGAGCTGAATCAGTAAGCTCTATTAACCTGAAACGGTAAGCTC-TAT
1 TGAACAGTAAGCTCATA-CGAGCTGAAACAGTAAGCTCCAATAACCTGAAACAGTAAGCTCTTAT
48767280 CGAGC
65 CGAGC
* * * *
48767285 TGAACAGTAAGCTCATACGAGTTGAAACGGTAAGCTCCAATGAGCTGAAACAGTAAGCTCTTATC
1 TGAACAGTAAGCTCATACGAGCTGAAACAGTAAGCTCCAATAACCTGAAACAGTAAGCTCTTATC
48767350 G
66 G
48767351 GGACTGATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 49 0.88
69 7 0.12
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (69 bp):
TGAACAGTAAGCTCATACGAGCTGAAACAGTAAGCTCCAATAACCTGAAACAGTAAGCTCTTATC
GAGC
Found at i:48768030 original size:21 final size:22
Alignment explanation
Indices: 48767977--48768030 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
48767967 CTTGTAAAAC
48767977 TATCATCAAACCTTCATAATTT
1 TATCATCAAACCTTCATAATTT
48767999 TATCATCAAACCTTCATAATTT
1 TATCATCAAACCTTCATAATTT
*
48768021 T-TCATTAAAC
1 TATCATCAAAC
48768031 ATAAAAGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (22 bp):
TATCATCAAACCTTCATAATTT
Found at i:48781185 original size:24 final size:24
Alignment explanation
Indices: 48781117--48781177 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
48781107 TCGATCTAGT
* **
48781117 AACAGTAAACTCTGACGACCGGAG
1 AACAGTAAACTCTGACGAGCTAAG
48781141 AACAGTAAACTCTGACGAGCTAAG
1 AACAGTAAACTCTGACGAGCTAAG
*
48781165 AACAGTAAGCTCT
1 AACAGTAAACTCT
48781178 TATGAGCTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (24 bp):
AACAGTAAACTCTGACGAGCTAAG
Found at i:48786282 original size:23 final size:23
Alignment explanation
Indices: 48786248--48786330 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
48786238 GGATAAGCCT
48786248 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
48786271 CACACGCTCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
48786294 CACACGCCCATGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
48786317 CACACGCCCATGTG
1 CACACGCCCGTGTG
48786331 TTTTGGGACA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.14
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:48800166 original size:27 final size:27
Alignment explanation
Indices: 48800136--48800197 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
48800126 CAAAACAGTT
* * *
48800136 ATTTTACCCTACAAGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGATA
*
48800163 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
48800190 ATTTTACA
1 ATTTTACA
48800198 AATCGAGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:48800206 original size:27 final size:27
Alignment explanation
Indices: 48800176--48800702 Score: 523
Period size: 27 Copynumber: 19.7 Consensus size: 27
48800166 TTACACTACA
48800176 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800203 AGGGTGTTTCGATAATGTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
48800230 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
48800257 AGGGTATTAT-GGTAATTTTACAAATCC
1 AGGGTATT-TCGATAATTTTACAAATCG
* * *
48800284 AGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800311 AGGGTGTTTCGATAATTGTAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
48800338 AGGGTGTTTC-AGTAATTTCACAAATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
48800365 AGGGCATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800392 AGGATATTTC-AGTAATTTCAC-AATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
48800418 AGGGTATTTTGAGAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
48800445 AGGGTATTTC-AGTAATTTTACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * * *
48800472 AGGGTGTTTTGGTAATTTTACAAATCA
1 AGGGTATTTCGATAATTTTACAAATCG
* * * * *
48800499 AGCGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800526 AGGGTGTTTCGATAATTTCACAAATCT
1 AGGGTATTTCGATAATTTTACAAATCG
*
48800553 AGGGTGTTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
48800580 AGGGTATTTCAATAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
48800606 AGGGTATTTCGATAATTTTACAAAT-T
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800632 AGGGT-TTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
48800658 AAGGTATTTCGGTAATTTTACAAACTGG
1 AGGGTATTTCGATAATTTTACAAA-TCG
*
48800686 A-GGTATTTCGGTAATTT
1 AGGGTATTTCGATAATTT
48800703 CTCTTTATTA
Statistics
Matches: 422, Mismatches: 65, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
25 16 0.04
26 55 0.13
27 348 0.82
28 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:48807673 original size:16 final size:16
Alignment explanation
Indices: 48807654--48807685 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48807644 TGAAAAAATA
48807654 GGTAAAGCAAAACCTC
1 GGTAAAGCAAAACCTC
48807670 GGTAAAGCAAAACCTC
1 GGTAAAGCAAAACCTC
48807686 TATCTGTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.25, G:0.19, T:0.12
Consensus pattern (16 bp):
GGTAAAGCAAAACCTC
Found at i:48817038 original size:50 final size:50
Alignment explanation
Indices: 48816900--48817041 Score: 230
Period size: 50 Copynumber: 2.8 Consensus size: 50
48816890 GAATATTTCT
* * * *
48816900 TAGAAGAAGTAATAAGAGAAGGACATGGGTTAGGTGGAAGAGCACAATGC
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
48816950 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
* *
48817000 TAGAAGAAGTAACAAGAGAAGAACATGCATTAGATGGAGGAG
1 TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAG
48817042 TGCAAGCATT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.15
Consensus pattern (50 bp):
TAGAAGAAGTAACAAGAGAAGAACATGGATTAGGTGGAGGAGCACAATGC
Found at i:48822027 original size:72 final size:72
Alignment explanation
Indices: 48821907--48822092 Score: 248
Period size: 72 Copynumber: 2.6 Consensus size: 72
48821897 TATGTAATGT
* ** *
48821907 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAACTCGCTAAGCGAGCA-TATCATGTTA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCATTA-CATGATA
*
48821971 ATGCTTTG
65 ATGATTTG
* *
48821979 GGGTCCGGGTATTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGGGCATTACATGATAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCATTACATGATAA
48822044 TGATTTG
66 TGATTTG
** * * *
48822051 GGGTCCAAGTGCTGATTTTGTGTATAGACCCGTGAGTAGCTC
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTC
48822093 GAATGTGGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 98 0.98
73 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCATTACATGATAA
TGATTTG
Found at i:48824767 original size:40 final size:40
Alignment explanation
Indices: 48824688--48824864 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
48824678 CGGATGATAA
* * * *
48824688 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
** * * *
48824728 CCGGGCTGTGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
** *
48824768 CCGGGCTAAGACCTAAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
48824808 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
48824848 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
48824865 ATACTTGGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 96 0.84
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:48825132 original size:22 final size:22
Alignment explanation
Indices: 48825092--48825133 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
48825082 GAATGTGCAT
*
48825092 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
48825114 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
48825134 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:48829716 original size:13 final size:13
Alignment explanation
Indices: 48829700--48829733 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
48829690 TGCATATAAT
48829700 ATATATACACACA
1 ATATATACACACA
48829713 ATATATACACACA
1 ATATATACACACA
48829726 ATTATATA
1 A-TATATA
48829734 ATAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (13 bp):
ATATATACACACA
Found at i:48830111 original size:24 final size:24
Alignment explanation
Indices: 48830082--48830127 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
48830072 CATAAAAAAT
48830082 TTAATGATTAATAACCAATCACCA
1 TTAATGATTAATAACCAATCACCA
* *
48830106 TTAATGATTAATTATCAATCAC
1 TTAATGATTAATAACCAATCAC
48830128 GTTTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.35
Consensus pattern (24 bp):
TTAATGATTAATAACCAATCACCA
Found at i:48832589 original size:15 final size:15
Alignment explanation
Indices: 48832569--48832599 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48832559 GTCATGTAAG
*
48832569 TGAAAGGTCAATAGT
1 TGAAAGGTCAAGAGT
48832584 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
48832599 T
1 T
48832600 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:48832789 original size:17 final size:17
Alignment explanation
Indices: 48832756--48832794 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
48832746 TAAGCTTTTG
48832756 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
48832773 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
48832790 ATTTT
1 ATTTT
48832795 TCCACAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:48833561 original size:15 final size:15
Alignment explanation
Indices: 48833537--48833566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48833527 TGGAGATCGA
*
48833537 GGAAATGGTCGTGGT
1 GGAAAAGGTCGTGGT
48833552 GGAAAAGGTCGTGGT
1 GGAAAAGGTCGTGGT
48833567 CAAGAAGGGA
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:0.23, C:0.07, G:0.47, T:0.23
Consensus pattern (15 bp):
GGAAAAGGTCGTGGT
Found at i:48836948 original size:15 final size:15
Alignment explanation
Indices: 48836928--48836958 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48836918 GTCATGTAAG
*
48836928 TGAAAGGTCAATAGT
1 TGAAAGGTCAAGAGT
48836943 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
48836958 T
1 T
48836959 ATATTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:48837148 original size:17 final size:17
Alignment explanation
Indices: 48837115--48837153 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
48837105 TAAGCTTTTG
48837115 ATTTTATATGAGAGAAC
1 ATTTTATATGAGAGAAC
*
48837132 AATTTTATAT-TGAGAAC
1 -ATTTTATATGAGAGAAC
48837149 ATTTT
1 ATTTT
48837154 TCCACAGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (17 bp):
ATTTTATATGAGAGAAC
Found at i:48838334 original size:6 final size:6
Alignment explanation
Indices: 48838325--48838354 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
48838315 ATGCATGTGC
48838325 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
48838355 TGGACTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:48839685 original size:26 final size:27
Alignment explanation
Indices: 48839626--48839686 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
48839616 ATGTTTTAAC
48839626 TAAAATTAAATTGAATTAGAGAAATATA
1 TAAAA-TAAATTGAATTAGAGAAATATA
* *
48839654 TAAAATAAATTGGATTTGAG-AATATA
1 TAAAATAAATTGAATTAGAGAAATATA
*
48839680 TTAAATA
1 TAAAATA
48839687 TATGAAGTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 12 0.40
27 13 0.43
28 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (27 bp):
TAAAATAAATTGAATTAGAGAAATATA
Found at i:48847768 original size:46 final size:46
Alignment explanation
Indices: 48847676--48847800 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
48847666 GACAAGGGCT
* * * *
48847676 AGTGTAAGACATGTTTGGGACAT-GCATCAGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATC-GACTCGAGATATAAGCC
* * *
48847722 AGTGTAAGACATGTCTAGGACATGGCATCGACTTGATATATGAGCC
1 AGTGTAAGACATGTCTAGGACATGGCATCGACTCGAGATATAAGCC
**
48847768 AGTAAAAGATCATGTCTAGGACATGGCATCGAC
1 AGTGTAAGA-CATGTCTAGGACATGGCATCGAC
48847801 ACCTTACCCT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
46 40 0.59
47 28 0.41
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTAGGACATGGCATCGACTCGAGATATAAGCC
Found at i:48851365 original size:29 final size:30
Alignment explanation
Indices: 48851332--48851419 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 30
48851322 TCTTATCCAA
* *
48851332 ATGGCCCATCT-GCCCCAGTTCATATTCTT
1 ATGGCCCATCTAGCCCCAATTCATATTCAT
*
48851361 ATGGCCCA-CTAGGCCCAATTCATATTCAT
1 ATGGCCCATCTAGCCCCAATTCATATTCAT
* *
48851390 ATGGCCCAT-TAGGCCCAAATCATATT-AT
1 ATGGCCCATCTAGCCCCAATTCATATTCAT
48851418 AT
1 AT
48851420 TCATGCTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
28 6 0.11
29 47 0.89
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.31
Consensus pattern (30 bp):
ATGGCCCATCTAGCCCCAATTCATATTCAT
Found at i:48855866 original size:29 final size:29
Alignment explanation
Indices: 48855796--48855910 Score: 92
Period size: 29 Copynumber: 4.0 Consensus size: 29
48855786 TACATACATC
* * * *
48855796 TGGCCCACTAGGCCCAA-TCTTATCCAAA
1 TGGCCCACTAGGCCTAATTCATATTCATA
* * *
48855824 TGGGCCATCT-GGCCTAGTTCATATTCTTA
1 TGGCCCA-CTAGGCCTAATTCATATTCATA
* *
48855853 TGGCCCACTAGGCCCAATTCACATTCATA
1 TGGCCCACTAGGCCTAATTCATATTCATA
* * *
48855882 TGGTCCATTAGGCCTAAATCATATT-ATA
1 TGGCCCACTAGGCCTAATTCATATTCATA
48855910 T
1 T
48855911 TCATGCTCAC
Statistics
Matches: 67, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
28 17 0.25
29 50 0.75
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
TGGCCCACTAGGCCTAATTCATATTCATA
Found at i:48862436 original size:94 final size:93
Alignment explanation
Indices: 48862271--48862452 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 93
48862261 TTGTGTGTGA
** * *
48862271 GCTAGTGTAAGACATGTCTGGGACATGCATCGGATACATTATGAGAGCCAATGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGATACAAGATGACAGCCAATGTAAGACCATGTC
* *
48862336 TGGGATATGGCATCGACATTGAGACGAGG
66 TAGGATATCGCATCGAC-TTGAGACGAGG
* * *
48862365 GCTAGTGTAAGTCATGTCTGGGACATGCATC-GACTACAAGATGACAGTCAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGA-TACAAGATGACAGCCAATGTAAGACCATGT
48862429 CTAGGATATCGCATCGACTTGAGA
65 CTAGGATATCGCATCGACTTGAGA
48862453 TATGAGCCAG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 8 0.10
94 70 0.90
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGATACAAGATGACAGCCAATGTAAGACCATGTC
TAGGATATCGCATCGACTTGAGACGAGG
Found at i:48875404 original size:17 final size:17
Alignment explanation
Indices: 48875382--48875424 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
48875372 TCTAATGTTA
48875382 CAAACAATGAGTGGCAT
1 CAAACAATGAGTGGCAT
48875399 CAAACAATGAGTGGCAT
1 CAAACAATGAGTGGCAT
*
48875416 CTAACAATG
1 CAAACAATG
48875425 CATCAATGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.19
Consensus pattern (17 bp):
CAAACAATGAGTGGCAT
Found at i:48876282 original size:16 final size:17
Alignment explanation
Indices: 48876261--48876297 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
48876251 GCATGCACGA
48876261 TAATTCATCAAATA-CC
1 TAATTCATCAAATACCC
48876277 TAATTCATCAAATACCC
1 TAATTCATCAAATACCC
48876294 TAAT
1 TAAT
48876298 GGTACTCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
TAATTCATCAAATACCC
Found at i:48878273 original size:46 final size:44
Alignment explanation
Indices: 48878187--48878409 Score: 175
Period size: 46 Copynumber: 4.8 Consensus size: 44
48878177 GGGGTTAGGT
* * *
48878187 GCCGATGCGATGTCCC-GAACACGGTCTTACACTGACACATCTAATA
1 GCCGATGC-ATGTCCCAG-ACA-TGTCTTACACTGGCTCATCTAATA
*
48878233 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCT--TGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-T-CATCTAAT-A
* * * * * *
48878278 GGCTGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCATT
1 -GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTCATCTAATA
* *
48878325 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCATAATGTC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATC-TAA--TA
*
48878373 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCA
48878410 CACAAGTGAC
Statistics
Matches: 144, Mismatches: 18, Indels: 29
0.75 0.09 0.15
Matches are distributed among these distances:
44 13 0.09
45 13 0.09
46 70 0.49
47 28 0.19
48 20 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCATCTAATA
Found at i:48878355 original size:48 final size:48
Alignment explanation
Indices: 48878282--48878406 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 48
48878272 TCTTGAGGCT
* * *
48878282 GATGCATGTCCTAGACATGTCTTACACTAGCACTCGTC-TCAT-T-GCC
1 GATGCATATCCCAGACATGTCTTACACTAGCACTC-TCATAATGTCGCC
*
48878328 GATGCCATATCCCAGACATGGTCTTACACT-G-GCTCTCATAATGTCGCC
1 GATG-CATATCCCAGACAT-GTCTTACACTAGCACTCTCATAATGTCGCC
*
48878376 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATATCCCAGACATGTCTTACACTAGC
48878407 TCACACAAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
45 2 0.03
46 20 0.30
47 28 0.42
48 17 0.25
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (48 bp):
GATGCATATCCCAGACATGTCTTACACTAGCACTCTCATAATGTCGCC
Found at i:48878360 original size:94 final size:92
Alignment explanation
Indices: 48878233--48878406 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 92
48878223 ACATCTAATA
* ** * * *
48878233 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TACATCTTGAGGCTGATGCATGTCCTAGA
1 GCCGATGCATATCCCAAACATGTCTTACACTGGCTCT-CATAATGACGCCGATGCATGTCCCAGA
48878297 CATGTCTTACACTAGCACTCGTCTCATT
65 CATGTCTTACACTAGCACTCGTCTCATT
* *
48878325 GCCGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATGTCGCCGATGCATGTCCCAG
1 GCCGATG-CATATCCCAAACAT-GTCTTACACTGGCTCTCATAATGACGCCGATGCATGTCCCAG
48878390 ACATGTCTTACACTAGC
64 ACATGTCTTACACTAGC
48878407 TCACACAAGT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
92 7 0.10
93 12 0.17
94 51 0.72
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
GCCGATGCATATCCCAAACATGTCTTACACTGGCTCTCATAATGACGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTCTCATT
Found at i:48878813 original size:28 final size:29
Alignment explanation
Indices: 48878755--48878814 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
48878745 TATCTTTGGT
* *
48878755 AAAATGACCATTTTGCCCCTAGACTTTGA
1 AAAATGACCATTTTACCCCTAGACTTCGA
* *
48878784 AAAATGACCTTTTTACCCCTAGGC-TCGA
1 AAAATGACCATTTTACCCCTAGACTTCGA
48878812 AAA
1 AAA
48878815 TTGATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (29 bp):
AAAATGACCATTTTACCCCTAGACTTCGA
Found at i:48883849 original size:40 final size:40
Alignment explanation
Indices: 48883790--48884017 Score: 377
Period size: 40 Copynumber: 5.7 Consensus size: 40
48883780 TATTTGGATG
*
48883790 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48883830 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48883870 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGGGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
48883910 ATAACTGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48883950 ATAACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
48883990 ATAACCGGGCT-AGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
48884018 AGCAAGTAGC
Statistics
Matches: 174, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 16 0.09
40 158 0.91
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48891250 original size:40 final size:40
Alignment explanation
Indices: 48890926--48891233 Score: 562
Period size: 40 Copynumber: 7.7 Consensus size: 40
48890916 TATTCGGATG
48890926 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
48890966 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
48891006 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
48891046 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48891086 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
48891126 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48891166 ATAACCGGGCTAAGTCTCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
48891206 ATATCTGGGCTAAGTCCCGAAGGCATTT
1 ATAACCGGGCTAAGTCCCGAAGGCATTT
48891234 AAGCAAGTAG
Statistics
Matches: 261, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 261 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48894760 original size:5 final size:5
Alignment explanation
Indices: 48894750--48894817 Score: 50
Period size: 5 Copynumber: 12.8 Consensus size: 5
48894740 TTAGTCTTAT
* *
48894750 TTTTA TTTTA TTTTA TTTTCA TTTTTC TTTTGA TTTTTA TTTTCA TTTCAA
1 TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTT-A -TTTTA TTTT-A TTT-TA
48894801 TTTTA --TTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTT
48894818 GCAAGACATA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
3 3 0.06
5 30 0.59
6 10 0.20
7 8 0.16
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:48894787 original size:7 final size:6
Alignment explanation
Indices: 48894746--48894797 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
48894736 CTATTTAGTC
* * *
48894746 TTATTT TTA-TT TTA-TT TTATTT TCATTT TTCTTT TGATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
48894792 TCATTT
1 TTATTT
48894798 CAATTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
5 10 0.26
6 28 0.74
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:48894792 original size:24 final size:22
Alignment explanation
Indices: 48894748--48894807 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 22
48894738 ATTTAGTCTT
48894748 ATTTTTATTTTATTTTATTTTC
1 ATTTTTATTTTATTTTATTTTC
*
48894770 ATTTTTCTTTTGATTTTTATTTTC
1 ATTTTTATTTT-A-TTTTATTTTC
**
48894794 ATTTCAATTTTATT
1 ATTTTTATTTTATT
48894808 ATTTTATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 12 0.38
23 2 0.06
24 18 0.56
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTTATTTTATTTTATTTTC
Found at i:48902899 original size:415 final size:417
Alignment explanation
Indices: 48902326--48903160 Score: 1568
Period size: 415 Copynumber: 2.0 Consensus size: 417
48902316 CTAGTATCCA
* * *
48902326 AATGTAACACCCCGAACCCGAGACCGTCACCGGGGTCGAACACGAGGTGTTAACAGACTTTAAAA
1 AATGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAACAAACTTT--AA
48902391 AAATAATTTCCCAGACACTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGTTCAG
64 AAATAATTTCCCAGACACTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGTTCAG
48902456 AAACTCGGAATCCAGTTCCGTAAATTTTCCCTAAAACTAGACTCATATGTCCATCTACATATTTT
129 AAACTCGGAATCCAGTTCCGTAAATTTTCCCTAAAACTAGACTCATATGTCCATCTACATATTTT
48902521 TTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGA
194 TTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGA
48902586 TCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
259 TCGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGAT
48902651 GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAAT
324 GCCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAAT
48902716 TGTCTCTGGTTAATTTATAATGAATTTCC
389 TGTCTCTGGTTAATTTATAATGAATTTCC
* *
48902745 AATGTAACACCCCGAACCCGAGTCCGACACCGGAGTCGAACACGAGGTGTTAACAAACTTT-GAA
1 AATGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAA
*
48902809 A-AATTT-CCAGACACTGCCCAATCTGTGTACTAGTCGCTTTAAAAATCATATCTTGAGTTCAGA
66 ATAATTTCCCAGACACTG-CCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGTTCAGA
48902872 AACTCGGAATCCAGTTCCGTAAATTTTCCCTAAAACTAGACTCATATGTCCATCTACATATTTTT
130 AACTCGGAATCCAGTTCCGTAAATTTTCCCTAAAACTAGACTCATATGTCCATCTACATATTTTT
48902937 TCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGAT
195 TCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGAT
48903002 CGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATG
260 CGACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATG
48903067 CCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATT
325 CCGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATT
48903132 GTCTCTGGTTAATTTATAATGAATTTCC
390 GTCTCTGGTTAATTTATAATGAATTTCC
48903160 A
1 A
48903161 TGGCCTGAAG
Statistics
Matches: 409, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
414 10 0.02
415 339 0.83
416 3 0.01
419 57 0.14
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (417 bp):
AATGTAACACCCCGAACCCGAGACCGACACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAA
ATAATTTCCCAGACACTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTGAGTTCAGAA
ACTCGGAATCCAGTTCCGTAAATTTTCCCTAAAACTAGACTCATATGTCCATCTACATATTTTTT
CTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATC
GACTACACTGACCTTTGCGCATTACGACTTGGATATCTCCCTGTACAGGGCTTCAATACTGATGC
CGTTTGTTTCTATAGAAACTAGACTCAGAGAGGAATCTATACATATATGGCTTGACTCCTAATTG
TCTCTGGTTAATTTATAATGAATTTCC
Found at i:48921441 original size:21 final size:21
Alignment explanation
Indices: 48921417--48921457 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48921407 TATTAATACC
48921417 AAATTAAAAAAATAAAAAATG
1 AAATTAAAAAAATAAAAAATG
* **
48921438 AAATTAGAAGTATAAAAAAT
1 AAATTAAAAAAATAAAAAAT
48921458 TGCGAGAGGA
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:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (21 bp):
AAATTAAAAAAATAAAAAATG
Found at i:48923037 original size:119 final size:119
Alignment explanation
Indices: 48922825--48923418 Score: 956
Period size: 119 Copynumber: 5.0 Consensus size: 119
48922815 ATCTTGAGTC
* * * * *
48922825 TATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAACACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
* ** *
48922890 ACCAAATCATCTTGGATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTATTG
66 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
* *
48922944 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAATACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
* *
48923009 ACCAAATCATCTTGGATCTGCTACAGTATAAACATCTGAAGGTTAGATTTGCTA
66 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
48923063 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
* *
48923128 CCCAAATCATCTTGGATCTGCTTCAGTATAAACATATGAAGGTTAGATCTGCTA
66 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
*
48923182 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
* *
48923247 ACCAAATCATCTTGGATTTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTA
66 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
* *
48923301 TCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGACTTGTTTCTTGTAAACACAAGAAT
1 TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
** **
48923366 ACCAAATCATCTTGGATCTGCTTCAACATAAATGTCTGAA-GTCTAGATCTGCT
66 ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
48923419 GTCTTCAATT
Statistics
Matches: 443, Mismatches: 31, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
118 2 0.00
119 441 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (119 bp):
TATTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAAT
ACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTA
Found at i:48935558 original size:40 final size:40
Alignment explanation
Indices: 48935525--48935946 Score: 605
Period size: 40 Copynumber: 10.6 Consensus size: 40
48935515 CCAGCATGAT
* * * *
48935525 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
48935565 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48935605 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
48935645 TGCTTTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48935685 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
48935725 TGCTTTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48935765 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
48935805 TGCTTTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
48935845 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
48935885 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAA
48935926 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
48935947 ATTAGTAACT
Statistics
Matches: 343, Mismatches: 38, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
39 10 0.03
40 321 0.94
41 12 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:48935953 original size:39 final size:40
Alignment explanation
Indices: 48935529--48936026 Score: 279
Period size: 40 Copynumber: 12.5 Consensus size: 40
48935519 CATGATTGCT
* *
48935529 CTTCGGGACCTAGCCCGGATATA--ACAC-CAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTA-ACTC-GCACAAATGC
** * * * *
48935568 TCTTCGGGGTTTAGCACGGATATA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
48935608 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * *
48935648 TTTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
48935688 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * *
48935728 TTTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
48935768 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * *
48935808 TTTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* * * * **
48935848 TCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
* *
48935888 TCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACCAATGC
1 -CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
48935929 CTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGC
* * ** *
48935968 CTTC-GGATCTTAGTCCGGATATGGTCAGTTAGCACAAA-GC
1 CTTCGGGA-CTTAGCCCGGATATAGT-AACTCGCACAAATGC
48936008 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
48936027 CATCATTCGA
Statistics
Matches: 404, Mismatches: 45, Indels: 18
0.87 0.10 0.04
Matches are distributed among these distances:
38 3 0.01
39 32 0.08
40 344 0.85
41 25 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:48946568 original size:25 final size:25
Alignment explanation
Indices: 48946539--48946711 Score: 70
Period size: 25 Copynumber: 7.3 Consensus size: 25
48946529 TTAAGGCCGA
*
48946539 ATGTGATGAATGTGAACATGTATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
48946564 ATGTGAT-AAGGCTG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
48946586 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
48946611 GTGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
* *
48946633 ATGTGAAGAATATGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* *
48946658 ATGTGAT-AAGGTCG-A-ATGGC-CA-
1 ATGTGATGAATGT-GAACAT-GCATAT
* *
48946680 ATGTGATAAATGTGAACATGCATAC
1 ATGTGATGAATGTGAACATGCATAT
48946705 ATGTGAT
1 ATGTGAT
48946712 AAGGCAGAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 42
0.63 0.12 0.25
Matches are distributed among these distances:
22 23 0.22
23 27 0.25
24 26 0.25
25 30 0.28
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:48946592 original size:47 final size:47
Alignment explanation
Indices: 48946533--48946779 Score: 323
Period size: 47 Copynumber: 5.2 Consensus size: 47
48946523 TTTGTTTTAA
* *
48946533 GGCCGAATGTGATGAATGTGAACATGTATATATGTGATAAGGCTGAAT
1 GGCC-AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
*
48946581 GGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAAT
1 GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
* * *
48946628 GGCCAATGTGAAGAATATGAACATGCATATATGTGATAAGGTCGAAT
1 GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
* * *
48946675 GGCCAATGTGATAAATGTGAACATGCATACATGTGATAAGGCAGAAT
1 GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
* * ** * ** *
48946722 GGCCAATGTGATGAACGTGGATGTGTATATATGTGGGAAAGCCGAAT
1 GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
*
48946769 GGCTAATGTGA
1 GGCCAATGTGA
48946780 GATATGTATG
Statistics
Matches: 174, Mismatches: 25, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
47 170 0.98
48 4 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
GGCCAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAAT
Found at i:48955996 original size:60 final size:60
Alignment explanation
Indices: 48955903--48956023 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
48955893 TACTCGATTT
48955903 TAAGTGAAAACGAGCAAAAGGGGTTAATCGGTAAAAATACCTAATAGTCATAAGTACATG
1 TAAGTGAAAACGAGCAAAAGGGGTTAATCGGTAAAAATACCTAATAGTCATAAGTACATG
*
48955963 TAAGTGAAAATGAGCAAAAGGGGTTAATCGGTAAAAATACCTAATAGTCATAAGTACATG
1 TAAGTGAAAACGAGCAAAAGGGGTTAATCGGTAAAAATACCTAATAGTCATAAGTACATG
48956023 T
1 T
48956024 TAGAGTGAGA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (60 bp):
TAAGTGAAAACGAGCAAAAGGGGTTAATCGGTAAAAATACCTAATAGTCATAAGTACATG
Found at i:48956651 original size:46 final size:46
Alignment explanation
Indices: 48956601--48956773 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
48956591 TTGGGCAACT
*
48956601 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
* * *
48956647 GAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G--TCC
* * * *
48956694 GAACTCATTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
* *
48956740 GAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
48956774 GCGGGTTGCA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 57 0.55
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCC
Found at i:48959717 original size:15 final size:15
Alignment explanation
Indices: 48959697--48959765 Score: 75
Period size: 15 Copynumber: 4.6 Consensus size: 15
48959687 ATATCTTGGG
48959697 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* * *
48959712 TCTCTTTATTCTAGA
1 TTTCTTTATCCTGGA
* *
48959727 ATTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
48959742 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
48959757 TTTCTTTAT
1 TTTCTTTAT
48959766 TTGGTTTCCT
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.16, C:0.17, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:48959762 original size:30 final size:30
Alignment explanation
Indices: 48959688--48959773 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
48959678 CATAGTATCA
* * * *
48959688 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
* *
48959718 TAT-TCTAGAATTCTTTATTCTGGATTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
48959748 TATCTTGGATTTCTTTATT-TGG-TTTC
1 TATCTTGGATTTCTTTATTCTGGATTTC
48959774 CTTGTTATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 4 0.09
29 4 0.09
30 37 0.80
31 1 0.02
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:48963686 original size:39 final size:40
Alignment explanation
Indices: 48963502--48963672 Score: 256
Period size: 40 Copynumber: 4.3 Consensus size: 40
48963492 CGGATGATAA
* * * *
48963502 CGAAGGCATTTGTGCTAGTGACTA-ATTCTGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCC
48963542 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
* *
48963582 CGAAGGCATTTGTCCGAGTTACTATAACCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
48963622 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
*
48963661 CGAAGACATTTG
1 CGAAGGCATTTG
48963673 AGTGAGTAGC
Statistics
Matches: 121, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 16 0.13
40 104 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCC
Found at i:48969503 original size:46 final size:47
Alignment explanation
Indices: 48969397--48969572 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 47
48969387 ATTTGTTAGT
* * *
48969397 GAGCCAGTGTAAGACCATGTTTGGGACATGTCATCGACATTGAGATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATG-CATCGGCCTCGAGATGA
* * * *
48969445 GATCTAGTGTAAGA-CATGTTTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGATG-A
** *
48969492 -AGCCAGTGTAAGA-CATGTTTGGGACATTAATCGG-CTACTAGATGA
1 GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCT-CGAGATGA
* *
48969537 TAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTTTGGGACAT-GCATCG
48969573 ACACCTTACC
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 3 0.03
46 59 0.56
47 28 0.26
48 16 0.15
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTTTGGGACATGCATCGGCCTCGAGATGA
Found at i:48971210 original size:35 final size:35
Alignment explanation
Indices: 48971164--48971231 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
48971154 CGCCGGCTCC
* *
48971164 TGCTGAGGGGACCGTGCCAGTAGAGAGTGAGCCCG
1 TGCTGAAGGGACCGCGCCAGTAGAGAGTGAGCCCG
48971199 TGCTGAAGGGACCGCGCCAGTAGAGAGTGAGCC
1 TGCTGAAGGGACCGCGCCAGTAGAGAGTGAGCC
48971232 TGTAACTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.41, T:0.13
Consensus pattern (35 bp):
TGCTGAAGGGACCGCGCCAGTAGAGAGTGAGCCCG
Found at i:48975391 original size:40 final size:39
Alignment explanation
Indices: 48975336--48975564 Score: 300
Period size: 40 Copynumber: 5.7 Consensus size: 39
48975326 GGATTTAACT
* *
48975336 GGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCTC
1 GGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCC
48975376 GGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48975416 GGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCTC
1 GGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC
*
48975456 GGATATAGTAACTCGCACAAATGCCTTTGGGACTTAGCCC
1 GGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
48975496 GAGAT-TAGTCACTAGCACAAATGCCTTCAGGACTTAGCCC
1 G-GATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCC
*
48975536 GGA-ATTAGTCACTAGCACAAATGCCTTCG
1 GGATA-TAGT-ACTCGCACAAATGCCTTCG
48975565 TTATCATCCG
Statistics
Matches: 172, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
39 4 0.02
40 164 0.95
41 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
GGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:48975554 original size:120 final size:119
Alignment explanation
Indices: 48975320--48975564 Score: 336
Period size: 120 Copynumber: 2.1 Consensus size: 119
48975310 AAACCAAGTA
* * *
48975320 CCTTCGGGATTTAACTGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCTCGGATATAGT
1 CCTTCGGGACTTAACTGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* * *
48975385 AGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
66 AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
48975439 CCTTCGGGACTTAGCTCGGATATAG-TAACTCGCACAAATGCCTTTGGGACTTAGCCCGAGAT-T
1 CCTTCGGGACTTAACT-GGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GATAT
*
48975502 AGTCA-CTAGCACAAATGCCTTCAGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
63 AGT-AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATA-TAGTAACTAGCACAAATG
48975559 CCTTCG
1 CCTTCG
48975565 TTATCATCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
119 16 0.14
120 92 0.82
121 4 0.04
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (119 bp):
CCTTCGGGACTTAACTGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AGCTAGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:48978817 original size:35 final size:36
Alignment explanation
Indices: 48978767--48978844 Score: 149
Period size: 35 Copynumber: 2.2 Consensus size: 36
48978757 TCGATACAAA
48978767 AAAGAGATTAAAGAGGGAGACCACTATAGAAAGAAG
1 AAAGAGATTAAAGAGGGAGACCACTATAGAAAGAAG
48978803 AAAGAGA-TAAAGAGGGAGACCACTATAGAAAGAAG
1 AAAGAGATTAAAGAGGGAGACCACTATAGAAAGAAG
48978838 AAAGAGA
1 AAAGAGA
48978845 ATCGGCGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 35 0.83
36 7 0.17
ACGTcount: A:0.55, C:0.08, G:0.28, T:0.09
Consensus pattern (36 bp):
AAAGAGATTAAAGAGGGAGACCACTATAGAAAGAAG
Found at i:48982149 original size:18 final size:18
Alignment explanation
Indices: 48982126--48982163 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
48982116 ATTTGAAGAA
48982126 CAATCTGCAGGTGTCCAT
1 CAATCTGCAGGTGTCCAT
48982144 CAATCTGCAGGTGTCCAT
1 CAATCTGCAGGTGTCCAT
48982162 CA
1 CA
48982164 TGCTCCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (18 bp):
CAATCTGCAGGTGTCCAT
Found at i:48988160 original size:25 final size:25
Alignment explanation
Indices: 48988131--48988178 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
48988121 TTATAATATG
* *
48988131 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
48988156 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
48988179 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:48988229 original size:9 final size:9
Alignment explanation
Indices: 48988217--48988273 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
48988207 TTTGATAAAC
48988217 ATGATATGT
1 ATGATATGT
*
48988226 ATGATATGCAC
1 ATGATATG--T
*
48988237 ATGACATGT
1 ATGATATGT
*
48988246 ATGATATGCAC
1 ATGATATG--T
48988257 ATGATATGT
1 ATGATATGT
48988266 ATGATATG
1 ATGATATG
48988274 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:48988240 original size:20 final size:20
Alignment explanation
Indices: 48988215--48988285 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
48988205 ATTTTGATAA
48988215 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48988235 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
48988255 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
48988275 ACATGAGATGT
1 ACATGATATGT
48988286 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:48988262 original size:11 final size:11
Alignment explanation
Indices: 48988226--48988280 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
48988216 CATGATATGT
48988226 ATGATATGCAC
1 ATGATATGCAC
* *
48988237 ATGACATG--T
1 ATGATATGCAC
48988246 ATGATATGCAC
1 ATGATATGCAC
*
48988257 ATGATATG--T
1 ATGATATGCAC
48988266 ATGATATGCAC
1 ATGATATGCAC
48988277 ATGA
1 ATGA
48988281 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48988410 original size:23 final size:23
Alignment explanation
Indices: 48988332--48989188 Score: 1619
Period size: 23 Copynumber: 37.1 Consensus size: 23
48988322 AGGAAGTGCA
*
48988332 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
48988356 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
48988380 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988403 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988426 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988449 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988472 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988495 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988518 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988541 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988564 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988587 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988610 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988633 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988656 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988679 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988702 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988725 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988748 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988771 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988794 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988817 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988840 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988863 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988886 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988909 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988932 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988955 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48988978 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48989001 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48989024 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48989047 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48989070 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
48989093 -AAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
48989116 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
48989139 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
48989162 AAAAAGGGCTT-TGCCCCAGTTACT
1 --AAAGGGCTTATGCCCCAGTTATT
48989186 AAA
1 AAA
48989189 AGAGGCTAGG
Statistics
Matches: 825, Mismatches: 4, Indels: 10
0.98 0.00 0.01
Matches are distributed among these distances:
22 24 0.03
23 713 0.86
24 79 0.10
25 9 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:48989437 original size:31 final size:31
Alignment explanation
Indices: 48989402--48989465 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48989392 CGTTTACAGT
48989402 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
48989433 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
48989464 AA
1 AA
48989466 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:48991771 original size:18 final size:18
Alignment explanation
Indices: 48991729--48991771 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
48991719 GCCCATTCCG
*
48991729 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
48991747 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
48991765 AAGTATG
1 AAGTATG
48991772 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:48992256 original size:29 final size:28
Alignment explanation
Indices: 48992209--48992306 Score: 110
Period size: 27 Copynumber: 3.5 Consensus size: 28
48992199 CATGAGATTG
* * *
48992209 GCACTAAGTGTGTGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-AATTATAT-A
*
48992238 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
48992266 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
48992293 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48992307 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 18 0.29
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:48992293 original size:27 final size:28
Alignment explanation
Indices: 48992237--48992306 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
48992227 TAAATTGTTC
48992237 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
48992265 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
48992292 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48992307 GACTTAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:48992320 original size:29 final size:27
Alignment explanation
Indices: 48992237--48992320 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
48992227 TAAATTGTTC
* *
48992237 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
48992265 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
48992292 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
48992321 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:49003077 original size:55 final size:53
Alignment explanation
Indices: 49002950--49003145 Score: 162
Period size: 55 Copynumber: 3.6 Consensus size: 53
49002940 CTTACCATTT
* *
49002950 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * * * *
49003003 CCGTGCCTTGGCATAGTCTTACTTGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
** * *
49003058 CCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCAATTA
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * ** *
49003113 CCATGCCTTGGCATCATCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
49003146 AAACCCTAAT
Statistics
Matches: 113, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
52 2 0.02
53 33 0.29
54 8 0.07
55 68 0.60
56 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.16, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:49011902 original size:68 final size:67
Alignment explanation
Indices: 49011830--49011979 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
49011820 CATCATGTGT
* * * *
49011830 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
49011892 ATGTAG
62 ATGTAG
** * *
49011898 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
49011963 AG
66 AG
49011965 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
49011980 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:49011935 original size:64 final size:64
Alignment explanation
Indices: 49011854--49012037 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
49011844 AGACATTATG
* *
49011854 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
49011918 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49011983 AA
63 AA
* * * *
49011985 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
49012038 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49012524 original size:14 final size:14
Alignment explanation
Indices: 49012505--49012535 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
49012495 GAAAGCAAAG
49012505 GAGTTCTATATTTT
1 GAGTTCTATATTTT
49012519 GAGTTCTATATTTT
1 GAGTTCTATATTTT
49012533 GAG
1 GAG
49012536 ATATTTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.52
Consensus pattern (14 bp):
GAGTTCTATATTTT
Found at i:49014660 original size:45 final size:45
Alignment explanation
Indices: 49014519--49014729 Score: 192
Period size: 45 Copynumber: 4.6 Consensus size: 45
49014509 CATGTGTGTT
* * * *
49014519 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-CATTTCGTGTGCC
1 AGTGTAAGACCATGT-T-GGACATGGCATCAG-CATTAATT-GAGAGCC
* * ** * ***
49014567 AGTGTAAGACCAT-TTAGACACGGCATTGGCATGGAAACAAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCAT-TAATTGAGAGCC
* * *
49014612 AGTGTAAGACCATGTTGGACATGGCATCAGCGTTGATTGAGAGAC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCATTAATTGAGAGCC
* * *
49014657 AGTGCAAGACCATGTTGGGCATGGCATCGGCATTAATTGAGAGCC
1 AGTGTAAGACCATGTTGGACATGGCATCAGCATTAATTGAGAGCC
*
49014702 AGTGTAAAACCATGTTGGACATGGCATC
1 AGTGTAAGACCATGTTGGACATGGCATC
49014730 GACATGAAGG
Statistics
Matches: 129, Mismatches: 31, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
44 2 0.02
45 97 0.75
46 16 0.12
47 1 0.01
48 13 0.10
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACCATGTTGGACATGGCATCAGCATTAATTGAGAGCC
Found at i:49014730 original size:45 final size:45
Alignment explanation
Indices: 49014606--49014780 Score: 181
Period size: 45 Copynumber: 3.8 Consensus size: 45
49014596 CATGGAAACA
* * * *
49014606 AGAGCCAGTGTAAGACCATGTTGGACATGGCATCAGCGTTGATTG
1 AGAGCCAGTGTAAAACCATGTTGGACATGGCATCGGCATTAATTG
* * * *
49014651 AGAGACAGTGCAAGACCATGTTGGGCATGGCATCGGCATTAATTG
1 AGAGCCAGTGTAAAACCATGTTGGACATGGCATCGGCATTAATTG
* * *
49014696 AGAGCCAGTGTAAAACCATGTTGGACATGGCATCGACATGAA-GG
1 AGAGCCAGTGTAAAACCATGTTGGACATGGCATCGGCATTAATTG
** *
49014740 CAAGAGGTAGTGTAAAATCATGTCTGGGACATGGCATCGGC
1 --AGAGCCAGTGTAAAACCATGT-T-GGACATGGCATCGGC
49014781 CTCGTCATAT
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
44 1 0.01
45 75 0.69
46 18 0.17
47 1 0.01
48 14 0.13
ACGTcount: A:0.30, C:0.18, G:0.31, T:0.22
Consensus pattern (45 bp):
AGAGCCAGTGTAAAACCATGTTGGACATGGCATCGGCATTAATTG
Found at i:49016885 original size:30 final size:30
Alignment explanation
Indices: 49016851--49016912 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
49016841 ATTTATCTTA
*
49016851 TTGTTCATTTTCCTATTATTTTAAAGGTAT
1 TTGTTAATTTTCCTATTATTTTAAAGGTAT
** *
49016881 TTGTTAATTTTTTTATTATTTTAGAGGTAT
1 TTGTTAATTTTCCTATTATTTTAAAGGTAT
49016911 TT
1 TT
49016913 TCTTGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTCCTATTATTTTAAAGGTAT
Found at i:49023229 original size:894 final size:894
Alignment explanation
Indices: 49021501--49023288 Score: 3551
Period size: 894 Copynumber: 2.0 Consensus size: 894
49021491 TGAAACCTCC
49021501 TCAAAATTAGTAGAATATGAGGGAATTAAGGTAAAAGATGAACTTAAGCAAAAACCCTCTATTGA
1 TCAAAATTAGTAGAATATGAGGGAATTAAGGTAAAAGATGAACTTAAGCAAAAACCCTCTATTGA
49021566 CGAACCTCCCAAACTGGAACTTAAACAATTTCTGAATCACTTGGAATATGCATTCCTTGGAAATA
66 CGAACCTCCCAAACTGGAACTTAAACAATTTCTGAATCACTTGGAATATGCATTCCTTGGAAATA
49021631 ATTCTACATTACCGGTAATTATTGCATCCAACTTGCAACCCAAGGAGAAAGAGGAATTACTCTAA
131 ATTCTACATTACCGGTAATTATTGCATCCAACTTGCAACCCAAGGAGAAAGAGGAATTACTCTAA
49021696 GTATTAAGAGAGCATAAAAGGGCCATAGCTTGGAAAATTTTTAACATTAAAGGGATCAGCCCTTC
196 GTATTAAGAGAGCATAAAAGGGCCATAGCTTGGAAAATTTTTAACATTAAAGGGATCAGCCCTTC
49021761 TTTTTTCACCCACAAAATTTTAATGGAAGATTAATATAAACCATACGTGCAAGCCGAAAAACGAC
261 TTTTTTCACCCACAAAATTTTAATGGAAGATTAATATAAACCATACGTGCAAGCCGAAAAACGAC
49021826 TGAACCCTAACATGAAGGAAGTTGTTAAAGCTGAGGTAATTAAAATACTAGATGCTGGAATTATT
326 TGAACCCTAACATGAAGGAAGTTGTTAAAGCTGAGGTAATTAAAATACTAGATGCTGGAATTATT
49021891 TATCCTATTTCTGACAGTTCTTGGGTAAGTCCAGTGTAGGTTGTTCCTAAGAAAGGAGGCATGAC
391 TATCCTATTTCTGACAGTTCTTGGGTAAGTCCAGTGTAGGTTGTTCCTAAGAAAGGAGGCATGAC
49021956 TATTGTAGCCAATGAGAAGAATGAATTAATCCCAATAAGGACAGTCACAGGTTGGAGAGTGTGCA
456 TATTGTAGCCAATGAGAAGAATGAATTAATCCCAATAAGGACAGTCACAGGTTGGAGAGTGTGCA
49022021 TTGATTATAGGAAGCTAAATGATGCCACGAGAAAAGACCACTTTCCCCTTCCATTCATTGACCAA
521 TTGATTATAGGAAGCTAAATGATGCCACGAGAAAAGACCACTTTCCCCTTCCATTCATTGACCAA
49022086 ATGTTGGAAAGATTGTCAGGACACATGTACTACTGGTTTTTAGACGGACTCTCTGGCTATTTCCA
586 ATGTTGGAAAGATTGTCAGGACACATGTACTACTGGTTTTTAGACGGACTCTCTGGCTATTTCCA
49022151 AATCCCAATAGCTCTTGAAGATCAAGAAAAGACGACATTTACATGTCCATACGGTACGTTTGCTT
651 AATCCCAATAGCTCTTGAAGATCAAGAAAAGACGACATTTACATGTCCATACGGTACGTTTGCTT
49022216 ATCCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATT
716 ATCCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATT
49022281 TTTGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTC
781 TTTGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTC
49022346 TTTCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAG
846 TTTCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAG
49022395 TCAAAATTAGTAGAATATGAGGGAATTAAGGTAAAAGATGAACTTAAGCAAAAACCCTCTATTGA
1 TCAAAATTAGTAGAATATGAGGGAATTAAGGTAAAAGATGAACTTAAGCAAAAACCCTCTATTGA
49022460 CGAACCTCCCAAACTGGAACTTAAACAATTTCTGAATCACTTGGAATATGCATTCCTTGGAAATA
66 CGAACCTCCCAAACTGGAACTTAAACAATTTCTGAATCACTTGGAATATGCATTCCTTGGAAATA
49022525 ATTCTACATTACCGGTAATTATTGCATCCAACTTGCAACCCAAGGAGAAAGAGGAATTACTCTAA
131 ATTCTACATTACCGGTAATTATTGCATCCAACTTGCAACCCAAGGAGAAAGAGGAATTACTCTAA
49022590 GTATTAAGAGAGCATAAAAGGGCCATAGCTTGGAAAATTTTTAACATTAAAGGGATCAGCCCTTC
196 GTATTAAGAGAGCATAAAAGGGCCATAGCTTGGAAAATTTTTAACATTAAAGGGATCAGCCCTTC
49022655 TTTTTTCACCCACAAAATTTTAATGGAAGATTAATATAAACCATACGTGCAAGCCGAAAAACGAC
261 TTTTTTCACCCACAAAATTTTAATGGAAGATTAATATAAACCATACGTGCAAGCCGAAAAACGAC
49022720 TGAACCCTAACATGAAGGAAGTTGTTAAAGCTGAGGTAATTAAAATACTAGATGCTGGAATTATT
326 TGAACCCTAACATGAAGGAAGTTGTTAAAGCTGAGGTAATTAAAATACTAGATGCTGGAATTATT
49022785 TATCCTATTTCTGACAGTTCTTGGGTAAGTCCAGTGTAGGTTGTTCCTAAGAAAGGAGGCATGAC
391 TATCCTATTTCTGACAGTTCTTGGGTAAGTCCAGTGTAGGTTGTTCCTAAGAAAGGAGGCATGAC
49022850 TATTGTAGCCAATGAGAAGAATGAATTAATCCCCAA-AAGGACAGTCACAGGTTGGAGAGTGTGC
456 TATTGTAGCCAATGAGAAGAATGAATTAAT-CCCAATAAGGACAGTCACAGGTTGGAGAGTGTGC
*
49022914 ATTGATTATAGGAAGCTAAATGATGCCATGAGAAAAGACCACTTTCCCCTTCCATTCATTGACCA
520 ATTGATTATAGGAAGCTAAATGATGCCACGAGAAAAGACCACTTTCCCCTTCCATTCATTGACCA
49022979 AATGTTGGAAAGATTGTCAGGACACATGTACTACTGGTTTTTAGACGGACTCTCTGGCTATTTCC
585 AATGTTGGAAAGATTGTCAGGACACATGTACTACTGGTTTTTAGACGGACTCTCTGGCTATTTCC
49023044 AAATCCCAATAGCTCTTGAAGATCAAGAAAAGACGACATTTACATGTCCATACGGTACGTTTGCT
650 AAATCCCAATAGCTCTTGAAGATCAAGAAAAGACGACATTTACATGTCCATACGGTACGTTTGCT
49023109 TATCCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCAT
715 TATCCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCAT
49023174 TTTTGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACT
780 TTTTGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACT
49023239 CTTTCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAG
845 CTTTCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAG
49023289 GAAACAAACC
Statistics
Matches: 892, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
894 887 0.99
895 5 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (894 bp):
TCAAAATTAGTAGAATATGAGGGAATTAAGGTAAAAGATGAACTTAAGCAAAAACCCTCTATTGA
CGAACCTCCCAAACTGGAACTTAAACAATTTCTGAATCACTTGGAATATGCATTCCTTGGAAATA
ATTCTACATTACCGGTAATTATTGCATCCAACTTGCAACCCAAGGAGAAAGAGGAATTACTCTAA
GTATTAAGAGAGCATAAAAGGGCCATAGCTTGGAAAATTTTTAACATTAAAGGGATCAGCCCTTC
TTTTTTCACCCACAAAATTTTAATGGAAGATTAATATAAACCATACGTGCAAGCCGAAAAACGAC
TGAACCCTAACATGAAGGAAGTTGTTAAAGCTGAGGTAATTAAAATACTAGATGCTGGAATTATT
TATCCTATTTCTGACAGTTCTTGGGTAAGTCCAGTGTAGGTTGTTCCTAAGAAAGGAGGCATGAC
TATTGTAGCCAATGAGAAGAATGAATTAATCCCAATAAGGACAGTCACAGGTTGGAGAGTGTGCA
TTGATTATAGGAAGCTAAATGATGCCACGAGAAAAGACCACTTTCCCCTTCCATTCATTGACCAA
ATGTTGGAAAGATTGTCAGGACACATGTACTACTGGTTTTTAGACGGACTCTCTGGCTATTTCCA
AATCCCAATAGCTCTTGAAGATCAAGAAAAGACGACATTTACATGTCCATACGGTACGTTTGCTT
ATCCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATT
TTTGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTC
TTTCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAG
Found at i:49024787 original size:868 final size:868
Alignment explanation
Indices: 49023112--49024848 Score: 3474
Period size: 868 Copynumber: 2.0 Consensus size: 868
49023102 GTTTGCTTAT
49023112 CCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATTTT
1 CCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATTTT
49023177 TGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTCTT
66 TGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTCTT
49023242 TCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAGGAAACAAACCTTGTGCTT
131 TCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAGGAAACAAACCTTGTGCTT
49023307 AATTGGGAAAAATGTCACTTTATGGTTCAAGAAGGTATTGTGTTAGGACATAAAATTTCCAGTAG
196 AATTGGGAAAAATGTCACTTTATGGTTCAAGAAGGTATTGTGTTAGGACATAAAATTTCCAGTAG
49023372 AGGGATTGAGGTTGATAAATCTAAAATTGAAACAATTGAAAAACTACCTCCCCCTAATTCGGTTA
261 AGGGATTGAGGTTGATAAATCTAAAATTGAAACAATTGAAAAACTACCTCCCCCTAATTCGGTTA
49023437 AGGCTATTAGAAGCTTCTTAGGACATGTTGGGTTTTATAGAAGATTTATTAAAGACTTTTCTAAA
326 AGGCTATTAGAAGCTTCTTAGGACATGTTGGGTTTTATAGAAGATTTATTAAAGACTTTTCTAAA
49023502 ATAGCTAAGCCTTTGACTAAATTACTAAAAAAAGATGTGCCTTTTAATTTCGATCAGGAGTGTTT
391 ATAGCTAAGCCTTTGACTAAATTACTAAAAAAAGATGTGCCTTTTAATTTCGATCAGGAGTGTTT
49023567 AGAAGCATTTAATACTTTAAAGGATAAACTAACTAAAGCTCTAATTTTAATTGCATCTGATTGGA
456 AGAAGCATTTAATACTTTAAAGGATAAACTAACTAAAGCTCTAATTTTAATTGCATCTGATTGGA
49023632 ATTCACCTTTTGAACTATTGTGTGATGCGAGTGATTTTGCTGTAGGTGCAGTTTTGGGATAGGGA
521 ATTCACCTTTTGAACTATTGTGTGATGCGAGTGATTTTGCTGTAGGTGCAGTTTTGGGATAGGGA
49023697 AGAGATAAACATTTTCAATCTATCTATTATGCTAGCAGGACATTGACAGCTGCACGAGAAAACTA
586 AGAGATAAACATTTTCAATCTATCTATTATGCTAGCAGGACATTGACAGCTGCACGAGAAAACTA
49023762 CACCACCACGGAGAAAAAGCTGCTAGCTGTGGTTTTTGCATTCGATAAATTTAGGCCATATTTAA
651 CACCACCACGGAGAAAAAGCTGCTAGCTGTGGTTTTTGCATTCGATAAATTTAGGCCATATTTAA
49023827 TATTGTCTAAAGTTTTCGTTTATACTAACCATTCTTCTCTTCGCCACCTTTTGACTAAAACTGAT
716 TATTGTCTAAAGTTTTCGTTTATACTAACCATTCTTCTCTTCGCCACCTTTTGACTAAAACTGAT
49023892 GCAAAACCTCGACCCATTCAATGGAGCTTATTATTGCAGGAATTTGACTTGGAGATTAAGGATAA
781 GCAAAACCTCGACCCATTCAATGGAGCTTATTATTGCAGGAATTTGACTTGGAGATTAAGGATAA
49023957 GAAATGAGCTAAAAATCTTACAA
846 GAAATGAGCTAAAAATCTTACAA
49023980 CCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATTTT
1 CCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATTTT
49024045 TGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTCTT
66 TGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTCTT
49024110 TCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAGGAAACAAACCTTGTGCTT
131 TCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAGGAAACAAACCTTGTGCTT
49024175 AATTGGGAAAAATGTCACTTTATGGTTCAAGAAGGTATTGTGTTAGGACATAAAATTTCCAGTAG
196 AATTGGGAAAAATGTCACTTTATGGTTCAAGAAGGTATTGTGTTAGGACATAAAATTTCCAGTAG
49024240 AGGGATTGAGGTTGATAAATCTAAAATTGAAACAATTGAAAAACTACCTCCCCCTAATTCGGTTA
261 AGGGATTGAGGTTGATAAATCTAAAATTGAAACAATTGAAAAACTACCTCCCCCTAATTCGGTTA
49024305 AGGCTATTAGAAGCTTCTTAGGACATGTTGGGTTTTATAGAAGATTTATTAAAGACTTTTCTAAA
326 AGGCTATTAGAAGCTTCTTAGGACATGTTGGGTTTTATAGAAGATTTATTAAAGACTTTTCTAAA
49024370 ATAGCTAAGCCTTTGACTAAATTACTAAAAAAAGATGTGCCTTTTAATTTCGATCAGGAGTGTTT
391 ATAGCTAAGCCTTTGACTAAATTACTAAAAAAAGATGTGCCTTTTAATTTCGATCAGGAGTGTTT
49024435 AGAAGCATTTAATACTTTAAAGGATAAACTAACTAAAGCTCTAATTTTAATTGCATCTGATTGGA
456 AGAAGCATTTAATACTTTAAAGGATAAACTAACTAAAGCTCTAATTTTAATTGCATCTGATTGGA
49024500 ATTCACCTTTTGAACTATTGTGTGATGCGAGTGATTTTGCTGTAGGTGCAGTTTTGGGATAGGGA
521 ATTCACCTTTTGAACTATTGTGTGATGCGAGTGATTTTGCTGTAGGTGCAGTTTTGGGATAGGGA
49024565 AGAGATAAACATTTTCAATCTATCTATTATGCTAGCAGGACATTGACAGCTGCACGAGAAAACTA
586 AGAGATAAACATTTTCAATCTATCTATTATGCTAGCAGGACATTGACAGCTGCACGAGAAAACTA
49024630 CACCACCACGGAGAAAAAGCTGCTAGCTGTGGTTTTTGCATTCGATAAATTTAGGCCATATTTAA
651 CACCACCACGGAGAAAAAGCTGCTAGCTGTGGTTTTTGCATTCGATAAATTTAGGCCATATTTAA
49024695 TATTGTCTAAAGTTTTCGTTTATACTAACCATTCTTCTCTTCGCCACCTTTTGACTAAAACTGAT
716 TATTGTCTAAAGTTTTCGTTTATACTAACCATTCTTCTCTTCGCCACCTTTTGACTAAAACTGAT
49024760 GCAAAACCTCGACCCATTCAATGGAGCTTATTATTGCAGGAATTTGACTTGGAGATTAAGGATAA
781 GCAAAACCTCGACCCATTCAATGGAGCTTATTATTGCAGGAATTTGACTTGGAGATTAAGGATAA
49024825 GAAATGAGCTAAAAATCTTACAA
846 GAAATGAGCTAAAAATCTTACAA
49024848 C
1 C
49024849 TGACCATCTC
Statistics
Matches: 869, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
868 869 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (868 bp):
CCTAGAATGCCTTTTGAATTATGTAATACTCCTGCTACTTTTCAGTGCTGCATGATGGCCATTTT
TGACGAACTCGTAGAAGACATCATGGAGGTATTTATGGATGATTTCTCGGTTTTCGATAACTCTT
TCCATCTTTGCCTCAAAAATTTAAAACAAGTGTTAATAAGATGTGAGGAAACAAACCTTGTGCTT
AATTGGGAAAAATGTCACTTTATGGTTCAAGAAGGTATTGTGTTAGGACATAAAATTTCCAGTAG
AGGGATTGAGGTTGATAAATCTAAAATTGAAACAATTGAAAAACTACCTCCCCCTAATTCGGTTA
AGGCTATTAGAAGCTTCTTAGGACATGTTGGGTTTTATAGAAGATTTATTAAAGACTTTTCTAAA
ATAGCTAAGCCTTTGACTAAATTACTAAAAAAAGATGTGCCTTTTAATTTCGATCAGGAGTGTTT
AGAAGCATTTAATACTTTAAAGGATAAACTAACTAAAGCTCTAATTTTAATTGCATCTGATTGGA
ATTCACCTTTTGAACTATTGTGTGATGCGAGTGATTTTGCTGTAGGTGCAGTTTTGGGATAGGGA
AGAGATAAACATTTTCAATCTATCTATTATGCTAGCAGGACATTGACAGCTGCACGAGAAAACTA
CACCACCACGGAGAAAAAGCTGCTAGCTGTGGTTTTTGCATTCGATAAATTTAGGCCATATTTAA
TATTGTCTAAAGTTTTCGTTTATACTAACCATTCTTCTCTTCGCCACCTTTTGACTAAAACTGAT
GCAAAACCTCGACCCATTCAATGGAGCTTATTATTGCAGGAATTTGACTTGGAGATTAAGGATAA
GAAATGAGCTAAAAATCTTACAA
Found at i:49045986 original size:3 final size:3
Alignment explanation
Indices: 49045978--49046093 Score: 232
Period size: 3 Copynumber: 38.7 Consensus size: 3
49045968 AACAAATAGG
49045978 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49046026 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49046074 TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
49046094 GGACTAAATC
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 113 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:49052900 original size:29 final size:29
Alignment explanation
Indices: 49052867--49052931 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
49052857 ACAACTAGCA
* * *
49052867 GTTAGCTGGTTTG-TCAAGTCAGTTAGTAT
1 GTTAGCTAGTTAGCTCAAGTCAATTAGT-T
*
49052896 GTTAG-TAGTTAGCTGAAGTCAATTAGTT
1 GTTAGCTAGTTAGCTCAAGTCAATTAGTT
49052924 GTTAGCTA
1 GTTAGCTA
49052932 TGTAGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 11 0.37
29 19 0.63
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.40
Consensus pattern (29 bp):
GTTAGCTAGTTAGCTCAAGTCAATTAGTT
Found at i:49056951 original size:26 final size:26
Alignment explanation
Indices: 49056922--49056976 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
49056912 TTTTATACAG
49056922 TTTTAATAAGTTTTGAATTTTTTATA
1 TTTTAATAAGTTTTGAATTTTTTATA
** ***
49056948 TTTTGTTTTTTTTTGAATTTTTTATA
1 TTTTAATAAGTTTTGAATTTTTTATA
49056974 TTT
1 TTT
49056977 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (26 bp):
TTTTAATAAGTTTTGAATTTTTTATA
Found at i:49057341 original size:17 final size:17
Alignment explanation
Indices: 49057321--49057455 Score: 53
Period size: 18 Copynumber: 7.5 Consensus size: 17
49057311 AAAAAAGTAC
49057321 AAAATTATAAAATTATA
1 AAAATTATAAAATTATA
*
49057338 AAAATTATTATAA--ATA
1 AAAATTA-TAAAATTATA
** *
49057354 AAAA-TCCAATATATATTA
1 AAAATTATAAAAT-TA-TA
* * *
49057372 AAATTTTTAAAATATAGA
1 AAAATTATAAAAT-TATA
*
49057390 AAAACTAAATAAAAATTATA
1 AAAA-T-TAT-AAAATTATA
49057410 AAGAATTATAGAAATTTATA
1 AA-AATTATA-AAA-TTATA
*
49057430 AGAAATT-TAAAATTTTA
1 A-AAATTATAAAATTATA
*
49057447 AAAAATATA
1 AAAATTATA
49057456 TAAACAAGGT
Statistics
Matches: 87, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.02
15 1 0.01
16 11 0.13
17 15 0.17
18 17 0.20
19 16 0.18
20 17 0.20
21 8 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAATTATA
Found at i:49057459 original size:19 final size:18
Alignment explanation
Indices: 49057401--49057459 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
49057391 AAACTAAATA
* *
49057401 AAAATTATAAAGAATTAT
1 AAAATTTTAAAAAATTAT
*
49057419 AGAAATTTATAAGAAATT-T
1 A-AAATTT-TAAAAAATTAT
49057438 AAAATTTTAAAAAATATAT
1 AAAATTTTAAAAAAT-TAT
49057457 AAA
1 AAA
49057460 CAAGGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.21
18 8 0.24
19 11 0.33
20 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AAAATTTTAAAAAATTAT
Found at i:49061045 original size:11 final size:11
Alignment explanation
Indices: 49061029--49061054 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49061019 ATTTTTTAAA
49061029 TTTTAAAATAC
1 TTTTAAAATAC
49061040 TTTTAAAATAC
1 TTTTAAAATAC
49061051 TTTT
1 TTTT
49061055 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:49061076 original size:17 final size:17
Alignment explanation
Indices: 49061054--49061087 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49061044 AAAATACTTT
* *
49061054 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
49061071 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
49061088 AATATTTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:49061085 original size:11 final size:11
Alignment explanation
Indices: 49061071--49061102 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
49061061 TTTTTTTTAA
49061071 TTTTAAAATAT
1 TTTTAAAATAT
49061082 TTTTAAAATAT
1 TTTTAAAATAT
49061093 TTTTAAAATA
1 TTTTAAAATA
49061103 CATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:49061109 original size:42 final size:40
Alignment explanation
Indices: 49061019--49061161 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 40
49061009 AAATTTTTTT
*
49061019 ATTTTTTAAATTTTAAAATACTTTTAAAATACTTTTTTTAAAT-
1 ATTTTTT-AATTTTAAAATA-TTTTAAAATA--TTTTTAAAATA
*
49061062 TTTTTTTAATTTTAAAATATTTTTAAAATATTTTTAAAATA
1 ATTTTTTAATTTTAAAATA-TTTTAAAATATTTTTAAAATA
**** *
49061103 CA-TTTTTAATTTTTTTTTATTTTAAAATATTTTCAAAATA
1 -ATTTTTTAATTTTAAAATATTTTAAAATATTTTTAAAATA
49061143 ATTTTTTTTAATTTTAAAA
1 A--TTTTTTAATTTTAAAA
49061162 ATAAATTTTT
Statistics
Matches: 82, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 29 0.35
41 13 0.16
42 33 0.40
43 6 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (40 bp):
ATTTTTTAATTTTAAAATATTTTAAAATATTTTTAAAATA
Found at i:49061114 original size:51 final size:53
Alignment explanation
Indices: 49061029--49061148 Score: 181
Period size: 51 Copynumber: 2.3 Consensus size: 53
49061019 ATTTTTTAAA
* *
49061029 TTTTAAAATACTTTTAAAATACTTTTTTTAAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTATTTTTAAATTTTTTTTAATTTTAAAATAT
*
49061082 TTTTAAAATATTTTTAAAATAC-ATTTTT-AATTTTTTTTTATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTATTTTTAAATTTTTTTTAATTTTAAAATAT
*
49061133 TTTCAAAATAATTTTT
1 TTTTAAAAT-ATTTTT
49061149 TTTAATTTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 30 0.48
52 11 0.18
53 21 0.34
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTATTTTTAAATTTTTTTTAATTTTAAAATAT
Found at i:49061117 original size:22 final size:21
Alignment explanation
Indices: 49061029--49061148 Score: 56
Period size: 22 Copynumber: 5.7 Consensus size: 21
49061019 ATTTTTTAAA
*
49061029 TTTTAAAATACTTTTAAAATACTT
1 TTTTAAAATA-TTTTTAAATA--T
* * *
49061053 TTTTTAAAT-TTTTT--TTAA
1 TTTTAAAATATTTTTAAATAT
49061071 TTTTAAAATATTTTTAAAATAT
1 TTTTAAAATATTTTT-AAATAT
49061093 TTTTAAAATACATTTTT-AAT-T
1 TTTTAAAAT--ATTTTTAAATAT
** *
49061114 TTTT--TTTATTTTAAAATAT
1 TTTTAAAATATTTTTAAATAT
*
49061133 TTTCAAAATAATTTTT
1 TTTTAAAAT-ATTTTT
49061149 TTTAATTTTA
Statistics
Matches: 71, Mismatches: 14, Indels: 24
0.65 0.13 0.22
Matches are distributed among these distances:
17 5 0.07
18 11 0.15
19 10 0.14
20 2 0.03
21 6 0.08
22 23 0.32
24 14 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAAAATATTTTTAAATAT
Found at i:49061178 original size:22 final size:21
Alignment explanation
Indices: 49061130--49061178 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
49061120 TATTTTAAAA
* **
49061130 TATTTTCAAAATAATTTTTTT
1 TATTTTAAAAATAATTTTTGG
49061151 TAATTTTAAAAATAAATTTTTGG
1 T-ATTTTAAAAAT-AATTTTTGG
49061174 TATTT
1 TATTT
49061179 ATTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
TATTTTAAAAATAATTTTTGG
Found at i:49068025 original size:22 final size:22
Alignment explanation
Indices: 49067998--49068070 Score: 137
Period size: 22 Copynumber: 3.3 Consensus size: 22
49067988 CTCTCTAATC
49067998 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
49068020 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
49068042 TTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
49068064 CTCTCAA
1 CTCTCAA
49068071 ACCCATATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:49068141 original size:51 final size:50
Alignment explanation
Indices: 49067996--49068141 Score: 144
Period size: 51 Copynumber: 3.0 Consensus size: 50
49067986 TCCTCTCTAA
** **
49067996 TCCTCTCAATTTCCTTCCAAAATTCTCTC-AA-T-TTCCTTCCAA-AATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACTATTATTTAAAATAATT
* **
49068042 T--TCTCAATTTCCTTCCAAAATTCTCTCAAACCCA-TATTTAATTTTAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAA-CTATTATTTAA-AATAATT
*
49068091 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATTTTTTAAAATAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAA-CTATTATTTAAAATAATT
49068142 ATAAATTTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
44 26 0.33
45 2 0.03
46 1 0.01
47 3 0.04
49 5 0.06
51 36 0.46
52 6 0.08
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (50 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACTATTATTTAAAATAATT
Found at i:49068158 original size:29 final size:30
Alignment explanation
Indices: 49068125--49068189 Score: 114
Period size: 29 Copynumber: 2.2 Consensus size: 30
49068115 CTCTCAAATC
49068125 TATTTTTTAAAATAATTATAAA-TTTTTTA
1 TATTTTTTAAAATAATTATAAATTTTTTTA
*
49068154 TATTTTTTAAAATAATTTTAAATTTTTTTA
1 TATTTTTTAAAATAATTATAAATTTTTTTA
49068184 TATTTT
1 TATTTT
49068190 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (30 bp):
TATTTTTTAAAATAATTATAAATTTTTTTA
Found at i:49068302 original size:15 final size:16
Alignment explanation
Indices: 49068282--49068312 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49068272 TTTGTAATTA
49068282 TTATTTAAG-ATTTTT
1 TTATTTAAGTATTTTT
49068297 TTATTTAAGTATTTTT
1 TTATTTAAGTATTTTT
49068313 AGATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTATTTAAGTATTTTT
Found at i:49069283 original size:7 final size:7
Alignment explanation
Indices: 49069271--49069295 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49069261 AGTCGATTGA
49069271 TATTTAG
1 TATTTAG
49069278 TATTTAG
1 TATTTAG
49069285 TATTTAG
1 TATTTAG
49069292 TATT
1 TATT
49069296 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:49070215 original size:5 final size:5
Alignment explanation
Indices: 49070207--49070232 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49070197 AATTGAAAAC
49070207 CCTAA CCTAA CCTAA CCTAA CCTAA C
1 CCTAA CCTAA CCTAA CCTAA CCTAA C
49070233 TAAAAACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.19
Consensus pattern (5 bp):
CCTAA
Found at i:49070245 original size:18 final size:19
Alignment explanation
Indices: 49070202--49070256 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 19
49070192 AATTTAATTG
49070202 AAAACCCTAACCTAACCT-
1 AAAACCCTAACCTAACCTA
49070220 --AA-CCTAACCTAA-CTA
1 AAAACCCTAACCTAACCTA
49070235 AAAACCCTAACCCTAACCTA
1 AAAACCCTAA-CCTAACCTA
49070255 AA
1 AA
49070257 TTAATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 2 0.06
17 2 0.06
18 5 0.16
19 5 0.16
20 5 0.16
ACGTcount: A:0.47, C:0.36, G:0.00, T:0.16
Consensus pattern (19 bp):
AAAACCCTAACCTAACCTA
Found at i:49070252 original size:29 final size:29
Alignment explanation
Indices: 49070189--49070751 Score: 531
Period size: 29 Copynumber: 19.3 Consensus size: 29
49070179 AAATAAAAAC
*
49070189 CCTAATTTAATTGAAAACCCTAACCTAACCTAA
1 CCTAATTTAATTAAAAACCCTAA-C---CCTAA
** *
49070222 CCTAACCTAACTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
49070251 CCTAAATTAATTAAAAACCCTAA-CCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
49070279 CC----TTAA-T-AAAACTCCTAACTCTAA
1 CCTAATTTAATTAAAAAC-CCTAACCCTAA
* * *
49070303 CCTAACTTATTTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
49070332 CCTAATTTATTTAAAAACCTTAAGCCTTAA
1 CCTAATTTAATTAAAAACCCTAA-CCCTAA
* **** * * *
49070362 GCCTTAAACCTTAAACCCTAAATCTTAACCTTAA
1 -CC-T-AA--TTTAATTAAAAACCCTAACCCTAA
** *
49070396 CCCTAACCTAAAAGTAAAAACCCTAACCCTAA
1 -CCTAA--TTTAATTAAAAACCCTAACCCTAA
*
49070428 CCTAA---AAGTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
49070454 CCTAATTTAATAAAAAAACCCTAACCCTAA
1 CCTAATTTAAT-TAAAAACCCTAACCCTAA
* * *
49070484 CCTAATTTAATAAAAAAACCGTAACACTAA
1 CCTAATTTAAT-TAAAAACCCTAACCCTAA
*
49070514 CCTAATTTAATTAAAAACCCTAACCCCAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
49070543 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
***
49070572 CCTAATTTAATCCTAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* * *
49070601 ACTAATTCAATT-AAAACCCTAACACTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
49070629 CCTAATTTATTTAAAAACCCTAAACCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
49070658 TCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
49070687 CCTAATTTATTTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
49070716 CCTAATTTAATTAAAAACCCGT--CCCTAA
1 CCTAATTTAATTAAAAACCC-TAACCCTAA
49070744 CCTAATTT
1 CCTAATTT
49070752 TACATAATTT
Statistics
Matches: 453, Mismatches: 57, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
22 5 0.01
23 6 0.01
24 10 0.02
26 26 0.06
28 47 0.10
29 221 0.49
30 68 0.15
31 7 0.02
32 22 0.05
33 22 0.05
34 8 0.02
35 11 0.02
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:49070376 original size:7 final size:7
Alignment explanation
Indices: 49070346--49070395 Score: 57
Period size: 7 Copynumber: 7.3 Consensus size: 7
49070336 ATTTATTTAA
49070346 AAACCTT
1 AAACCTT
*
49070353 AAGCCTT
1 AAACCTT
*
49070360 AAGCCTT
1 AAACCTT
49070367 AAACCTT
1 AAACCTT
*
49070374 AAACCCT
1 AAACCTT
*
49070381 AAATCTT
1 AAACCTT
49070388 -AACCTT
1 AAACCTT
49070394 AA
1 AA
49070396 CCCTAACCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (7 bp):
AAACCTT
Done.