Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 173 of 235
Found at i:58778336 original size:22 final size:22
Alignment explanation
Indices: 58778311--58778358 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
58778301 AATGATATTT
58778311 AAAT-TGAGAAAAAATTAAAATA
1 AAATATGA-AAAAAATTAAAATA
*
58778333 AAATATGAAAAAAATTTAAATA
1 AAATATGAAAAAAATTAAAATA
58778355 AAAT
1 AAAT
58778359 GTAATTGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (22 bp):
AAATATGAAAAAAATTAAAATA
Found at i:58778413 original size:55 final size:55
Alignment explanation
Indices: 58778323--58778439 Score: 134
Period size: 55 Copynumber: 2.1 Consensus size: 55
58778313 ATTGAGAAAA
* *
58778323 AATTAA-AATAAAATATGAAAAAAATTTAAATAAAA-TGTAATTGAGACTACTTAT
1 AATTAATAATAAAATATGAAAAAAATTGAAATAAAATTG-AAATGAGACTACTTAT
* *
58778377 AATTAATAATAAAAATATGAAATGAAA-TGAAA-AAAATTGAAATGAGACTACTTGT
1 AATTAATAAT-AAAATATGAAA-AAAATTGAAATAAAATTGAAATGAGACTACTTAT
*
58778432 GATTAATA
1 AATTAATA
58778440 TGAAAAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
54 6 0.11
55 28 0.52
56 17 0.31
57 3 0.06
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.30
Consensus pattern (55 bp):
AATTAATAATAAAATATGAAAAAAATTGAAATAAAATTGAAATGAGACTACTTAT
Found at i:58778498 original size:5 final size:5
Alignment explanation
Indices: 58778488--58778555 Score: 55
Period size: 5 Copynumber: 12.2 Consensus size: 5
58778478 GGAAAAAAAT
* *
58778488 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGTA ATTTGT AATGAA
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATG-A A-ATGA AATG-A
58778539 AATGCA AATGA AATGA A
1 AATG-A AATGA AATGA A
58778556 TTTTGTAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
5 28 0.54
6 17 0.33
7 7 0.13
ACGTcount: A:0.53, C:0.01, G:0.18, T:0.28
Consensus pattern (5 bp):
AATGA
Found at i:58778500 original size:23 final size:23
Alignment explanation
Indices: 58778474--58778525 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
58778464 AATTAAATTT
58778474 AAATG-GAAAAAAATAATGAAATG
1 AAATGTGAAAAAAAT-ATGAAATG
* **
58778497 AAATGTTAAATGAATATGAAATG
1 AAATGTGAAAAAAATATGAAATG
58778520 AAATGT
1 AAATGT
58778526 AATTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.25
Consensus pattern (23 bp):
AAATGTGAAAAAAATATGAAATG
Found at i:58778520 original size:11 final size:10
Alignment explanation
Indices: 58778488--58778555 Score: 55
Period size: 12 Copynumber: 6.1 Consensus size: 10
58778478 GGAAAAAAAT
58778488 AATGAAATGA
1 AATGAAATGA
58778498 AATGTTAAATGA
1 AATG--AAATGA
58778510 ATATGAAATGA
1 A-ATGAAATGA
* *
58778521 AATGTAATTTGT
1 AATG-AA-ATGA
58778533 AATGAAAATGCA
1 AATG-AAATG-A
58778545 AATGAAATGA
1 AATGAAATGA
58778555 A
1 A
58778556 TTTTGTAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 9 0.19
11 16 0.34
12 19 0.40
13 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.18, T:0.28
Consensus pattern (10 bp):
AATGAAATGA
Found at i:58778553 original size:17 final size:17
Alignment explanation
Indices: 58778488--58778555 Score: 61
Period size: 17 Copynumber: 4.0 Consensus size: 17
58778478 GGAAAAAAAT
*
58778488 AATGAA-ATGAAATGTTA
1 AATGAATATGAAATG-AA
58778505 AATGAATATGAAATG-A
1 AATGAATATGAAATGAA
* *
58778521 AATGTAATTTGTAATGAA
1 AATG-AATATGAAATGAA
58778539 AATGCAA-ATGAAATGAA
1 AATG-AATATGAAATGAA
58778556 TTTTGTAATG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 5 0.12
17 23 0.53
18 15 0.35
ACGTcount: A:0.53, C:0.01, G:0.18, T:0.28
Consensus pattern (17 bp):
AATGAATATGAAATGAA
Found at i:58778576 original size:28 final size:29
Alignment explanation
Indices: 58778488--58778579 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 29
58778478 GGAAAAAAAT
* *
58778488 AATGAAATGAAATGTT-AAATGAATATGA
1 AATGAAATGAAATTTTGTAATGAATATGA
* *
58778516 AATGAAATGTAA-TTTGTAATGAAAATGCA
1 AATGAAATGAAATTTTGTAATGAATATG-A
* *
58778545 AATGAAATG-AATTTTGTAATGATTATGG
1 AATGAAATGAAATTTTGTAATGAATATGA
58778573 AATGAAA
1 AATGAAA
58778580 CGACAGTTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
27 2 0.04
28 29 0.54
29 23 0.43
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (29 bp):
AATGAAATGAAATTTTGTAATGAATATGA
Found at i:58778693 original size:16 final size:15
Alignment explanation
Indices: 58778663--58778701 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
58778653 ACTAATTGTT
58778663 ATTAATATGAAAAAAA
1 ATTAA-ATGAAAAAAA
*
58778679 ATTGAAATGAGAAAAA
1 ATT-AAATGAAAAAAA
58778695 ATTAAAT
1 ATTAAAT
58778702 TTAAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 15 0.71
17 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (15 bp):
ATTAAATGAAAAAAA
Found at i:58778713 original size:17 final size:17
Alignment explanation
Indices: 58778693--58778751 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
58778683 AAATGAGAAA
58778693 AAATTAAATTTAAATGG
1 AAATTAAATTTAAATGG
***
58778710 AAATTTTTTTTAAAT-G
1 AAATTAAATTTAAATGG
**
58778726 AAATTAAATGGAAATGG
1 AAATTAAATTTAAATGG
*
58778743 AAATGAAAT
1 AAATTAAAT
58778752 GAAAATAAAA
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.36
Consensus pattern (17 bp):
AAATTAAATTTAAATGG
Found at i:58781489 original size:90 final size:90
Alignment explanation
Indices: 58781374--58781553 Score: 270
Period size: 90 Copynumber: 2.0 Consensus size: 90
58781364 ATTCTAGAAT
58781374 ATTAATACACAAAAATATAAAATTCAAATAACAAATAATACAGACTAAATTAAATTTAAACACCC
1 ATTAATACACAAAAATATAAAATTCAAATAACAAATAATACAGACTAAATTAAATTTAAACACCC
*
58781439 AACAAACTACAAATAGATGGGTAAA
66 AACAAACTACAAACAGATGGGTAAA
* * * * ** * * *
58781464 ATTAATATACGAAAATTTTAAATTCAAATTGCATATATTACGGACTAAATTAAATTTAAACACCC
1 ATTAATACACAAAAATATAAAATTCAAATAACAAATAATACAGACTAAATTAAATTTAAACACCC
58781529 AACAAACTACAAACAGATGGGTAAA
66 AACAAACTACAAACAGATGGGTAAA
58781554 TTTTAAATTC
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.25
Consensus pattern (90 bp):
ATTAATACACAAAAATATAAAATTCAAATAACAAATAATACAGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATGGGTAAA
Found at i:58781599 original size:75 final size:75
Alignment explanation
Indices: 58781476--58781628 Score: 261
Period size: 75 Copynumber: 2.0 Consensus size: 75
58781466 TAATATACGA
* * * *
58781476 AAATTTTAAATTCAAATTGCATATATTACGGACTAAATTAAATTTAAACACCCAACAAACTACAA
1 AAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAA
58781541 ACAGATGGGT
66 ACAGATGGGT
*
58781551 AAATTTTAAATTCAAACTATATATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAA
1 AAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAA
58781616 ACAGATGGGT
66 ACAGATGGGT
58781626 AAA
1 AAA
58781629 ATTAATACGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.27
Consensus pattern (75 bp):
AAATTTTAAATTCAAACTACATATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAA
ACAGATGGGT
Found at i:58781707 original size:165 final size:165
Alignment explanation
Indices: 58781408--58781708 Score: 476
Period size: 165 Copynumber: 1.8 Consensus size: 165
58781398 CAAATAACAA
* *
58781408 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAATAGATGGGTAAAATTAATATA
1 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
* * * * * * * *
58781473 CGAAAATTTTAAATTCAAATTGCATATATTACGGACTAAATTAAATTTAAACACCCAACAAACTA
66 CAAAAATTTTAAATTCAAACTACATATAATACGAACTAAATTAAATTTAAACACACAAAAAAATA
58781538 CAAACAGATGGGTAAATTTTAAATTCAAACTATAT
131 CAAACAGATGGGTAAATTTTAAATTCAAACTATAT
*
58781573 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACG
1 ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
* * *
58781638 CAAAAATTTTAAATTCAAACTACATATAATACGAACTAAATTAAATTTACAGATACAAAAAAATA
66 CAAAAATTTTAAATTCAAACTACATATAATACGAACTAAATTAAATTTAAACACACAAAAAAATA
58781703 CAAACA
131 CAAACA
58781709 TTCTAAGAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
165 122 1.00
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (165 bp):
ATAATACAGACTAAATTAAATTTAAACACCCAACAAACTACAAACAGATGGGTAAAATTAATACA
CAAAAATTTTAAATTCAAACTACATATAATACGAACTAAATTAAATTTAAACACACAAAAAAATA
CAAACAGATGGGTAAATTTTAAATTCAAACTATAT
Found at i:58781799 original size:21 final size:21
Alignment explanation
Indices: 58781775--58781817 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
58781765 ACATTAAATT
58781775 AACATATATAA-AAAAAATACA
1 AACAT-TATAAGAAAAAATACA
* *
58781796 AACATTCTAAGAAATAATACA
1 AACATTATAAGAAAAAATACA
58781817 A
1 A
58781818 TTATTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AACATTATAAGAAAAAATACA
Found at i:58782734 original size:14 final size:14
Alignment explanation
Indices: 58782697--58782734 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
58782687 TAATTATTCA
58782697 TTCATAAATTTTTT
1 TTCATAAATTTTTT
*
58782711 TAC-TACAATTTTTT
1 TTCATA-AATTTTTT
58782725 TTCATAAATT
1 TTCATAAATT
58782735 ACCAAATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 2 0.10
14 16 0.80
15 2 0.10
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (14 bp):
TTCATAAATTTTTT
Found at i:58788139 original size:39 final size:39
Alignment explanation
Indices: 58788096--58788216 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 39
58788086 AATCTAGCCA
* *
58788096 AAGCACATAAGTGCTAAATGGAAGCCTGAAGGCTAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
*
58788135 AAGCACGTAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
* * *
58788174 AAGCACATAAGTGCTAAACAGAAGCCCGAAGACGAACTG
1 AAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
58788213 AAGC
1 AAGC
58788217 TCATCAGAGC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.40, C:0.21, G:0.26, T:0.13
Consensus pattern (39 bp):
AAGCACATAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
Found at i:58790358 original size:13 final size:13
Alignment explanation
Indices: 58790340--58790394 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
58790330 AACAAAAACA
58790340 AAATAAATAAATG
1 AAATAAATAAATG
*
58790353 AAATAAATAAATA
1 AAATAAATAAATG
58790366 AAAT-AATAAA-G
1 AAATAAATAAATG
*
58790377 GAAT-AATAAATG
1 AAATAAATAAATG
*
58790389 CAATAA
1 AAATAA
58790395 CAAAAAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.25
12 10 0.28
13 17 0.47
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.22
Consensus pattern (13 bp):
AAATAAATAAATG
Found at i:58790592 original size:25 final size:23
Alignment explanation
Indices: 58790548--58790593 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
58790538 GAAAGTATAT
* *
58790548 ATATGAAAAATGAAATAACAATA
1 ATATGAAAAATAAAAAAACAATA
58790571 ATATGCAAAAATAAAGAAAACAA
1 ATATG-AAAAATAAA-AAAACAA
58790594 AGCAAGCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 8 0.42
25 6 0.32
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.17
Consensus pattern (23 bp):
ATATGAAAAATAAAAAAACAATA
Found at i:58790780 original size:22 final size:22
Alignment explanation
Indices: 58790745--58790800 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
58790735 TATTAATAAC
* *
58790745 AATATAATAATATAAAAAAAGG
1 AATAAAATAATATAAAAAAAGA
*
58790767 AA-AAAATATATATAAAGAAAGA
1 AATAAAATA-ATATAAAAAAAGA
58790789 AATAAAATAATA
1 AATAAAATAATA
58790801 GAATCTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 18 0.62
23 6 0.21
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAAAATAATATAAAAAAAGA
Found at i:58790862 original size:3 final size:3
Alignment explanation
Indices: 58790854--58790927 Score: 51
Period size: 3 Copynumber: 24.3 Consensus size: 3
58790844 TAGTTTTAAG
* * * * * *
58790854 AAT AAT AAT TAT AAC GAT AAT GAT AAT AAT AAT ACT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
58790902 AATT AATT AAT TTT AAT AAT AA- AAT A
1 AA-T AA-T AAT AAT AAT AAT AAT AAT A
58790928 GCAAAAATAA
Statistics
Matches: 53, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
2 2 0.04
3 44 0.83
4 7 0.13
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:58805362 original size:27 final size:27
Alignment explanation
Indices: 58805331--58805508 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
58805321 TAAATTGTAC
58805331 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
58805358 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58805384 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
58805412 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
58805440 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
58805467 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
58805494 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
58805509 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:58805445 original size:82 final size:81
Alignment explanation
Indices: 58805332--58805487 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
58805322 AAATTGTACA
* *
58805332 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
58805396 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
58805413 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
58805478 TGCGAGTTGA
65 TGCGAATTGA
58805488 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:58805499 original size:82 final size:81
Alignment explanation
Indices: 58805328--58805508 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
58805318 GATTAAATTG
* *
58805328 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
58805393 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
58805409 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
58805473 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
58805491 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
58805509 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:58806933 original size:37 final size:37
Alignment explanation
Indices: 58806868--58807019 Score: 232
Period size: 37 Copynumber: 4.1 Consensus size: 37
58806858 ACCTTTAGCT
* * * *
58806868 CGGACGAAATCTCCACATGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
58806905 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
58806942 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
58806979 CGGACATACTCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
58807016 CGGA
1 CGGA
58807020 ATATATTTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.22
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:58807234 original size:47 final size:47
Alignment explanation
Indices: 58807182--58807555 Score: 536
Period size: 47 Copynumber: 8.0 Consensus size: 47
58807172 TTTCACACTA
* * * * *
58807182 GCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
58807229 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
58807276 GCCATTTGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * *
58807323 GCCATTCGACCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
58807370 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * * * *
58807417 GGCATTCGACCTTATCACATATATACATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
58807464 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
58807511 GCCATTCGGCCTTATCACATATATACGCAT--TCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATAT--GCATGCTCACATTCATCACAT
58807556 AAAATCCTAA
Statistics
Matches: 290, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
47 286 0.99
49 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:58814241 original size:21 final size:21
Alignment explanation
Indices: 58814190--58814241 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
58814180 GGTCTGCAGC
**
58814190 ACGGGCGTGTCCTATGGTCAA
1 ACGGGCGTGTCCTATGACCAA
* *
58814211 ACTGGTGTGTCCCT-TGACCAA
1 ACGGGCGTGT-CCTATGACCAA
58814232 ACGGGCGTGT
1 ACGGGCGTGT
58814242 AAACCCTATT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (21 bp):
ACGGGCGTGTCCTATGACCAA
Found at i:58818756 original size:29 final size:29
Alignment explanation
Indices: 58818696--58818785 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
58818686 CACATACCTA
*
58818696 TATATGGCCCACTAGGCCC-AATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* *
58818724 TATATGGACCATTATGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
* * *
58818753 TATATGGCCCATCAGGCCCAATTCACGTT
1 TATATGGCCCATTAGGCCCAAATCACATT
58818782 TATA
1 TATA
58818786 GTCATGCTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 16 0.30
29 37 0.70
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:58832523 original size:4 final size:4
Alignment explanation
Indices: 58832514--58832540 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
58832504 TGTAATAATG
58832514 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
58832541 GATGACTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:58836022 original size:32 final size:29
Alignment explanation
Indices: 58835925--58836028 Score: 100
Period size: 31 Copynumber: 3.4 Consensus size: 29
58835915 GATTGAATCA
* * * *
58835925 AAATTAATATTTCATATATACATTTAAATC
1 AAATTAAAATTT-ATATATAAAATTATATC
*
58835955 ACAATCAAAATTTTATATATAAAATTATATC
1 A-AATTAAAA-TTTATATATAAAATTATATC
*
58835986 AAATTAAAATTTATATATCAAAATTATATATT
1 AAATTAAAATTTATATAT-AAAA-T-TATATC
58836018 AAATTAAAATT
1 AAATTAAAATT
58836029 AATGTACAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
29 9 0.15
30 12 0.19
31 22 0.35
32 19 0.31
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
AAATTAAAATTTATATATAAAATTATATC
Found at i:58836796 original size:14 final size:14
Alignment explanation
Indices: 58836769--58836806 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 14
58836759 TTGTACTTGA
58836769 TTTAGCTTTCTTTTTT
1 TTTA-CTTT-TTTTTT
58836785 TTT-CTTTTTTTTT
1 TTTACTTTTTTTTT
58836798 TTTACTTTT
1 TTTACTTTT
58836807 ATTTGCTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
16 3 0.14
ACGTcount: A:0.05, C:0.11, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTACTTTTTTTTT
Found at i:58842412 original size:12 final size:12
Alignment explanation
Indices: 58842383--58842417 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
58842373 TATACTTCGT
*
58842383 AATATTTTTTTA
1 AATATTTTTATA
58842395 AA-ATTTTTATA
1 AATATTTTTATA
58842406 AATATTTTTATA
1 AATATTTTTATA
58842418 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
AATATTTTTATA
Found at i:58842545 original size:121 final size:122
Alignment explanation
Indices: 58842397--58842617 Score: 390
Period size: 121 Copynumber: 1.8 Consensus size: 122
58842387 TTTTTTTAAA
58842397 ATTTTTATAAATATTTTTATATTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATAC
1 ATTTTTATAAATATTTTTATATTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATAC
*
58842462 CATATCAGCATAAATTGTATATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
66 CATATCAGCATAAATTGTACATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
* * *
58842519 ATTTTTTTAAA-ATTTTTATATTTTTTAATTTATTTTTTGGTGTGACATATAATATAAATAATAT
1 ATTTTTATAAATATTTTTATATTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATAC
*
58842583 CATATCAGTATAAATTGTACATGGAATGTTGCATA
66 CATATCAGCATAAATTGTACATGGAATGTTGCATA
58842618 AGTTGTGGGC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
121 84 0.89
122 10 0.11
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (122 bp):
ATTTTTATAAATATTTTTATATTTTTTAATTTATTTTTTAGTGTGACATATAATATAAATAATAC
CATATCAGCATAAATTGTACATGGAATGTTGCATATAATACAAGTATACTTTGTGAT
Found at i:58844489 original size:87 final size:86
Alignment explanation
Indices: 58844362--58844606 Score: 420
Period size: 87 Copynumber: 2.8 Consensus size: 86
58844352 CGAAAAAACA
* *
58844362 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGGCTTTTA
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGCTTTTA
58844427 GCGGCGTTTGTGGGAAAAGCG
66 GCGGCGTTTGTGGGAAAAGCG
*
58844448 CCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGCTTTT
1 CCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGC-TTT
*
58844513 TAGCGGCGTTTGTGGTAAAAGCG
64 TAGCGGCGTTTGTGGGAAAAGCG
58844536 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGT-AAAGCGCCGCTAAACGTCAAGGCTTTT
1 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCGCCGCTAAACGTCAAGGCTTTT
58844600 AGCGGCG
65 AGCGGCG
58844607 CTTTTTTTAC
Statistics
Matches: 151, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
86 27 0.18
87 81 0.54
88 43 0.28
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (86 bp):
CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAACGTCAAGGCTTTTA
GCGGCGTTTGTGGGAAAAGCG
Found at i:58844629 original size:43 final size:43
Alignment explanation
Indices: 58844362--58844606 Score: 411
Period size: 43 Copynumber: 5.7 Consensus size: 43
58844352 CGAAAAAACA
* *
58844362 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCG
1 CCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
* *
58844405 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCG
1 CCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
58844448 CCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCG
1 CCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCG
58844492 CCGCTAAACGTCAAGGCTTTTTAGCGGCGTTTGTGGTAAAAGCG
1 CCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCG
*
58844536 CCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCGT-AAAGCG
1 CCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTG-GTAAAAGCG
58844579 CCGCTAAACGTCAAGGCTTTTAGCGGCG
1 CCGCTAAACGTCAAGGCTTTTAGCGGCG
58844607 CTTTTTTTAC
Statistics
Matches: 196, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
43 109 0.56
44 87 0.44
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (43 bp):
CCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCG
Found at i:58844716 original size:31 final size:31
Alignment explanation
Indices: 58844681--58844761 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
58844671 CTTCCTGCAT
* *
58844681 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
58844712 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
58844743 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
58844762 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:58845031 original size:21 final size:21
Alignment explanation
Indices: 58845007--58845052 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
58844997 GCTCGTGCCT
*
58845007 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
58845028 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
58845049 CTGC
1 CTGC
58845053 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:58851279 original size:37 final size:37
Alignment explanation
Indices: 58851219--58851296 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
58851209 TATTACGAAG
* * *
58851219 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGC
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGC
* *
58851256 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGC
58851293 TCTT
1 TCTT
58851297 CAGAGCTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGC
Found at i:58851509 original size:49 final size:48
Alignment explanation
Indices: 58851414--58851544 Score: 201
Period size: 49 Copynumber: 2.7 Consensus size: 48
58851404 GCCCTTCGGG
*
58851414 ACTTATCACATTCATCCCATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
58851464 ACTTTCACATTCATCACATCTCGGCCATTAGGCCTTATCAC-ATATATAC
1 ACTTTCACATTCATCACA--TCGGCCATTAGGCCCTATCACAATATATAC
58851513 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
58851545 ATACTATCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
47 14 0.18
49 39 0.51
50 4 0.05
51 20 0.26
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (48 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATAC
Found at i:58857399 original size:16 final size:16
Alignment explanation
Indices: 58857378--58857409 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
58857368 ATAGGTAAGT
58857378 AAAATATGTAAAATCG
1 AAAATATGTAAAATCG
58857394 AAAATATGTAAAATCG
1 AAAATATGTAAAATCG
58857410 GGTAATTAAA
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:0.56, C:0.06, G:0.12, T:0.25
Consensus pattern (16 bp):
AAAATATGTAAAATCG
Found at i:58865365 original size:48 final size:48
Alignment explanation
Indices: 58865294--58865388 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
58865284 AATAATGAAT
* *
58865294 AAATTATGTAAACGAACCTTGATGAATCTATTTTCATAGTAAAGTAAC
1 AAATTATGTAAACGAACCTTGATGAATATATTTTCATAGGAAAGTAAC
58865342 AAATTATGTAAACGAACCTTGATGAATATATTTTCATAGGAAAGTAA
1 AAATTATGTAAACGAACCTTGATGAATATATTTTCATAGGAAAGTAA
58865389 TGAAACGATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.33
Consensus pattern (48 bp):
AAATTATGTAAACGAACCTTGATGAATATATTTTCATAGGAAAGTAAC
Found at i:58866458 original size:43 final size:43
Alignment explanation
Indices: 58866411--58866513 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
58866401 TTGGTTTTCA
58866411 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
58866454 GCACTAAGTGTGCAGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
58866497 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
58866514 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:58866530 original size:29 final size:29
Alignment explanation
Indices: 58866495--58866568 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
58866485 GTTGTGAGAT
* *
58866495 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
58866524 TGGCACTAAGTGTGCTAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
58866553 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58866569 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 5 0.13
29 34 0.87
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:58866936 original size:40 final size:40
Alignment explanation
Indices: 58866879--58866995 Score: 114
Period size: 40 Copynumber: 2.9 Consensus size: 40
58866869 TCGAATGATG
* *
58866879 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-CATA
* *
58866919 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGACATA
* * * *
58866959 TCCGTG-CTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGAC
58866996 GTGTATTCGG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 49 0.77
41 8 0.12
42 7 0.11
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGACATA
Found at i:58869014 original size:19 final size:20
Alignment explanation
Indices: 58868990--58869029 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
58868980 TTGTCCCAAT
*
58868990 TTTAACATTCA-AATTTACA
1 TTTAACATTCACAATATACA
58869009 TTTAACATTCACAATATACA
1 TTTAACATTCACAATATACA
58869029 T
1 T
58869030 ATTTCAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTAACATTCACAATATACA
Found at i:58871973 original size:27 final size:27
Alignment explanation
Indices: 58871942--58871999 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
58871932 ACCCTCTAAT
58871942 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATGCCCCTATG
** * *
58871969 TGATAAAATGGTTGTTTTGCCCTTATG
1 TGATAAAATGACTGTTATGCCCCTATG
58871996 TGAT
1 TGAT
58872000 GTATGATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (27 bp):
TGATAAAATGACTGTTATGCCCCTATG
Found at i:58872677 original size:40 final size:40
Alignment explanation
Indices: 58872633--58872712 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
58872623 TTTAATTTGG
58872633 GATTTTATTTGTTTTGATTTATAACTGTTAGCAGTAGGGA
1 GATTTTATTTGTTTTGATTTATAACTGTTAGCAGTAGGGA
* *
58872673 GATTTTATTTGTTTTGATTTATAATTGTTAGCATTAGGGA
1 GATTTTATTTGTTTTGATTTATAACTGTTAGCAGTAGGGA
58872713 AAGACGCGGG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (40 bp):
GATTTTATTTGTTTTGATTTATAACTGTTAGCAGTAGGGA
Found at i:58876579 original size:39 final size:39
Alignment explanation
Indices: 58876525--58876603 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
58876515 AGAGTTTGTG
58876525 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
1 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
58876564 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
1 TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
58876603 T
1 T
58876604 GTTTAATGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (39 bp):
TTAAAAAATTTACCCATGGATGACATGCATGTGTTTTGA
Found at i:58876869 original size:30 final size:30
Alignment explanation
Indices: 58876817--58876875 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
58876807 TATGAGCATT
*
58876817 GGGGCAAAAGTGCAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGAAAATATGTGAAAGTTTA
*
58876847 GGGGTCAAAA-TGAAAATTTGTGAAAGTTT
1 GGGG-CAAAAGTGAAAATATGTGAAAGTTT
58876876 TATTTTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (30 bp):
GGGGCAAAAGTGAAAATATGTGAAAGTTTA
Found at i:58877458 original size:43 final size:44
Alignment explanation
Indices: 58877384--58877520 Score: 134
Period size: 51 Copynumber: 3.0 Consensus size: 44
58877374 GAGATATATG
** *
58877384 GCATCCGAGCTCTTTGAGAGGTTTGAATTCATTATGGATGTG-A
1 GCATCCGAGCTCTTTGAGAGGTCCGAGTTCATTATGGATGTGTA
* *
58877427 GCATCCGAGCTCTTTGAGTGGTCCGAGTTCATAATGGATGCAATTCATGTA
1 GCATCCGAGCTCTTTGAGAGGTCCGAGTTCATTATGGATG-------TGTA
*
58877478 ACATCCGAGCT-TGTTGAGAGGTCCGAGTTCATTATGGATGTGT
1 GCATCCGAGCTCT-TTGAGAGGTCCGAGTTCATTATGGATGTGT
58877521 TACATGTTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
43 35 0.45
44 3 0.04
50 3 0.04
51 36 0.47
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (44 bp):
GCATCCGAGCTCTTTGAGAGGTCCGAGTTCATTATGGATGTGTA
Found at i:58881296 original size:15 final size:15
Alignment explanation
Indices: 58881233--58881296 Score: 94
Period size: 15 Copynumber: 4.3 Consensus size: 15
58881223 GTATCGTATA
*
58881233 TTGGATTTCTGTATC
1 TTGGATTTCTTTATC
58881248 TTGGATTTCTTTATC
1 TTGGATTTCTTTATC
58881263 TTGGATTT-TTCTATC
1 TTGGATTTCTT-TATC
*
58881278 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
58881293 TTGG
1 TTGG
58881297 TCTTCTTGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.12, C:0.11, G:0.17, T:0.59
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:58888419 original size:23 final size:23
Alignment explanation
Indices: 58888389--58888435 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
58888379 TTTTAAGTTG
58888389 TCATCAACCGATCTAGCTATTTC
1 TCATCAACCGATCTAGCTATTTC
*
58888412 TCATCAACCGTTCTAGCTATTTC
1 TCATCAACCGATCTAGCTATTTC
58888435 T
1 T
58888436 ACCATTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (23 bp):
TCATCAACCGATCTAGCTATTTC
Found at i:58890638 original size:46 final size:48
Alignment explanation
Indices: 58890434--58890650 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 48
58890424 ACAACAAGCT
* * *** * * *
58890434 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCAAGGCT
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTAAAATATCTCGAGGCC
* * * * * * *
58890483 GATGCATGTCCCAGACATGCCTCACACTAGCT---CTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAAAAT-ATCTCGAGGCC
* * * *
58890529 AATGCCTGTCCTAGACATGTCTTACACTGGCTTAAATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAAAATATCTCGAGGCC
* *
58890577 GAAGCATGTCCCAGACATGTCTTACACTGGC-AAACATAT-T-GTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTAAA-ATATCTCGAGGCC
58890623 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
58890651 AGCACACAGA
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 65 0.47
47 3 0.02
48 64 0.46
49 5 0.04
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTAAAATATCTCGAGGCC
Found at i:58892109 original size:47 final size:48
Alignment explanation
Indices: 58892024--58892148 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 48
58892014 GACGAGTGCT
* * **
58892024 AGTGTAAGA-CATGTCTGGGACAT-GCATCAACTACGAGATGAT-AGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACTACGAGAT-ATAAACC
* * *
58892070 AGTGTAAGACCATATCTAGGACATGGCTTCGACT-TGAGATATAAACC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGACTACGAGATATAAACC
* *
58892117 AGTGTAAGACCACGTCTAGGACACGGCATCGA
1 AGTGTAAGACCATGTCTAGGACATGGCATCGA
58892149 TACCTTACCC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
46 11 0.17
47 47 0.72
48 7 0.11
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGACTACGAGATATAAACC
Found at i:58901570 original size:45 final size:45
Alignment explanation
Indices: 58901514--58901604 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
58901504 GAATTATGTA
* *
58901514 ATCTGAACTCATTGAGTTGTGGTTTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
*
58901559 ATCTGAACTCATTGAGTTATGGTCTGAGTTCGTGATATATGTGAC
1 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
58901604 A
1 A
58901605 CATGTTTTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.38
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGAC
Found at i:58909194 original size:25 final size:26
Alignment explanation
Indices: 58909166--58909217 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
58909156 ATCATCCCAA
*
58909166 TTAAA-GGTTCTTTGTGAA-CTTCCCG
1 TTAAATGGTTCATTGT-AAGCTTCCCG
58909191 TTAAATTGGTTCATTGTAAGCTTCCCG
1 TTAAA-TGGTTCATTGTAAGCTTCCCG
58909218 ATAGTGCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
26 2 0.09
27 16 0.70
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (26 bp):
TTAAATGGTTCATTGTAAGCTTCCCG
Found at i:58909309 original size:24 final size:23
Alignment explanation
Indices: 58909256--58909381 Score: 101
Period size: 24 Copynumber: 5.3 Consensus size: 23
58909246 GGCTATCAGA
* *
58909256 AGCTTCCCGATATGGTTCTTTGTG
1 AGCTTCCCGATATGGCTC-TTATG
*
58909280 AACTTCCCGATTATGGCTCTTATG
1 AGCTTCCCGA-TATGGCTCTTATG
* * ** *
58909304 AGCTTCCTGTTATATAGCTCGAATA
1 AGCTTCCCG--ATATGGCTCTTATG
58909329 AGCTTCCCGATA-GGCTCTTTATG
1 AGCTTCCCGATATGGCTC-TTATG
* *
58909352 AGCTTCCCGAAATGGCTCTATGTG
1 AGCTTCCCGATATGGCTCT-TATG
58909376 AGCTTC
1 AGCTTC
58909382 TCGTTATAAG
Statistics
Matches: 80, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
22 4 0.05
23 17 0.21
24 34 0.43
25 24 0.30
26 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (23 bp):
AGCTTCCCGATATGGCTCTTATG
Found at i:58909378 original size:72 final size:73
Alignment explanation
Indices: 58909255--58909397 Score: 186
Period size: 72 Copynumber: 2.0 Consensus size: 73
58909245 TGGCTATCAG
* * *
58909255 AAGCTTCCCGATATGGTTCTTTGTGAACTTCCCGATTATGGCTCTTATGAGCTTC-CTGTTATAT
1 AAGCTTCCCGATATGGCTCTTTATGAACTTCCCGATAATGGCTCTTATGAGCTTCTC-GTTATA-
58909319 A-GCTCGAAT
64 AGGCTCGAAT
* *
58909328 AAGCTTCCCGATA-GGCTCTTTATGAGCTTCCCGA-AATGGCTCTATGTGAGCTTCTCGTTATAA
1 AAGCTTCCCGATATGGCTCTTTATGAACTTCCCGATAATGGCTCT-TATGAGCTTCTCGTTATAA
58909391 GGCTCGA
65 GGCTCGA
58909398 GTGTGTGTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
71 9 0.15
72 39 0.63
73 14 0.23
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (73 bp):
AAGCTTCCCGATATGGCTCTTTATGAACTTCCCGATAATGGCTCTTATGAGCTTCTCGTTATAAG
GCTCGAAT
Found at i:58919166 original size:41 final size:39
Alignment explanation
Indices: 58919108--58919231 Score: 108
Period size: 41 Copynumber: 3.0 Consensus size: 39
58919098 TGGGGATAGC
*
58919108 GATTCAGGCTTTATGCCTAGCATGCTTTGTGCTGGTGTATT
1 GATTCAGGCTTTGTGCCTAGCA-GCTTTGTGC-GGTGTATT
*
58919149 GATTCAGGCTTTGTGCCTAACCAGCTTCATGT-CGGTGTATT
1 GATTCAGGCTTTGTGCCT-AGCAGCTT--TGTGCGGTGTATT
* * * *
58919190 G-TATCAGGCCTTGAGCCTAGCAAGCTTCGTGCCAGTGTATT
1 GAT-TCAGGCTTTGTGCCTAGC-AGCTTTGTG-CGGTGTATT
58919231 G
1 G
58919232 TATCAAGTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 14
0.77 0.08 0.16
Matches are distributed among these distances:
39 2 0.03
40 3 0.04
41 57 0.83
42 4 0.06
43 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (39 bp):
GATTCAGGCTTTGTGCCTAGCAGCTTTGTGCGGTGTATT
Found at i:58919232 original size:41 final size:41
Alignment explanation
Indices: 58919122--58919236 Score: 124
Period size: 41 Copynumber: 2.8 Consensus size: 41
58919112 CAGGCTTTAT
* * * * *
58919122 GCCTAGCATGCTTTGTGCTGGTGTATTG-ATTCAGGCTTTGT
1 GCCTAGCAAGCTTCGTGCCGGTGTATTGTA-TCAGGCCTTGA
* * * *
58919163 GCCTAACCAGCTTCATGTCGGTGTATTGTATCAGGCCTTGA
1 GCCTAGCAAGCTTCGTGCCGGTGTATTGTATCAGGCCTTGA
*
58919204 GCCTAGCAAGCTTCGTGCCAGTGTATTGTATCA
1 GCCTAGCAAGCTTCGTGCCGGTGTATTGTATCA
58919237 AGTAACTTGT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
41 58 0.98
42 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (41 bp):
GCCTAGCAAGCTTCGTGCCGGTGTATTGTATCAGGCCTTGA
Found at i:58927376 original size:22 final size:25
Alignment explanation
Indices: 58927342--58927392 Score: 81
Period size: 22 Copynumber: 2.2 Consensus size: 25
58927332 GATGACATAT
58927342 TTAATATATAAAAAAGAAAT-AA-C
1 TTAATATATAAAAAAGAAATGAATC
58927365 TTAATA-ATAAAAAAGAAATGAATC
1 TTAATATATAAAAAAGAAATGAATC
58927389 TTAA
1 TTAA
58927393 AAAAAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 13 0.50
23 8 0.31
24 5 0.19
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
TTAATATATAAAAAAGAAATGAATC
Found at i:58927413 original size:14 final size:16
Alignment explanation
Indices: 58927374--58927413 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 16
58927364 CTTAATAATA
58927374 AAAAAGAAATGAATCTT
1 AAAAAGAAAT-AATCTT
58927391 AAAAA-AAAT-AT-TT
1 AAAAAGAAATAATCTT
58927404 AAAAAGAAAT
1 AAAAAGAAAT
58927414 GAAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 6 0.27
16 4 0.18
17 5 0.23
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
AAAAAGAAATAATCTT
Found at i:58927486 original size:13 final size:13
Alignment explanation
Indices: 58927468--58927494 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58927458 GACACCTGTT
58927468 TCCTCCCAAATGG
1 TCCTCCCAAATGG
58927481 TCCTCCCAAATGG
1 TCCTCCCAAATGG
58927494 T
1 T
58927495 GGAAAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (13 bp):
TCCTCCCAAATGG
Found at i:58933645 original size:18 final size:18
Alignment explanation
Indices: 58933622--58933656 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
58933612 CTCCATTAAA
58933622 AGTTTTTATT-TACAATAT
1 AGTTTTT-TTGTACAATAT
58933640 AGTTTTTTTGTACAATA
1 AGTTTTTTTGTACAATA
58933657 AAAACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (18 bp):
AGTTTTTTTGTACAATAT
Found at i:58935651 original size:29 final size:31
Alignment explanation
Indices: 58935619--58935681 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
58935609 TTTTAGCTGT
* *
58935619 ATTTGGCCTTCAACCTATT-AAAAAG-GTT-A
1 ATTTGACCATCAACCT-TTCAAAAAGAGTTGA
58935648 ATTTGACCATCAACCTTTCAAAAAGAGTTGA
1 ATTTGACCATCAACCTTTCAAAAAGAGTTGA
58935679 ATT
1 ATT
58935682 AATTTTTTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.07
29 20 0.69
30 3 0.10
31 4 0.14
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (31 bp):
ATTTGACCATCAACCTTTCAAAAAGAGTTGA
Found at i:58936587 original size:29 final size:29
Alignment explanation
Indices: 58936552--58936610 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
58936542 TTATGTCAAA
58936552 TTTAAAGTATAAAGATTAAATCTCAAGTC
1 TTTAAAGTATAAAGATTAAATCTCAAGTC
58936581 TTTAAAGTATAAAGATTAAATCTCAAGTC
1 TTTAAAGTATAAAGATTAAATCTCAAGTC
58936610 T
1 T
58936611 AAGTGTACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (29 bp):
TTTAAAGTATAAAGATTAAATCTCAAGTC
Found at i:58943461 original size:40 final size:40
Alignment explanation
Indices: 58943358--58943462 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 40
58943348 GGATATAGCT
* *
58943358 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTA
* *
58943398 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTAGAGTA
58943438 ACTCGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTT
58943463 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 57 0.97
41 2 0.03
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTA
Found at i:58956805 original size:41 final size:41
Alignment explanation
Indices: 58956748--58956857 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
58956738 TAGCGGCGCA
*
58956748 AAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCCGCT
1 AAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCCGCG
* * *
58956789 AAAAACTAAGCAATAGCGGCATTTTTGGTCCAAATGCCGCG
1 AAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCCGCG
*
58956830 AAAAACTGAGCAATAGCGGCGCTTTTGG
1 AAAAACTGAGCAATAGCGGCGTTTTTGG
58956858 AAAAACGCTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (41 bp):
AAAAACTGAGCAATAGCGGCGTTTTTGGTCCAAACGCCGCG
Found at i:58956888 original size:41 final size:40
Alignment explanation
Indices: 58956843--58957179 Score: 285
Period size: 41 Copynumber: 8.7 Consensus size: 40
58956833 AACTGAGCAA
**
58956843 TAGCGGCGCTTTTGGAAAAACGCTACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC-AGGTTT
* * *
58956884 TAGCGGCGCTTTTGGAAAAACACCGCTATTGCTCA-G---
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCAGGTTT
* * *
58956920 T----GCGCTTTTGGAAAAACACCGCTATTGCTCA-G---
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCAGGTTT
* * *
58956952 T----GCGCTTTTGGAAAAACGCCGCTATTGCTCAGATTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCAGGTTT
* * *
58956988 TAGTGGTGCTTTTGAAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC-AGGTTT
*
58957029 TAGCGGCGCTTTTGGAAAAAAAGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGG-AAAAACGCCGCTATAGATC-AGGTTT
* *
58957071 TAGCGGCGCTTTTGGAAAAACACCACTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATC-AGGTTT
* * * ** *
58957112 TAGCTGCGCTTTTGGAAAAACACCACTAT-TCTCAGTTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCAGGTTT
* *
58957151 TAGCGGCACTTCTGGAAAAACGCCGCTAT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTAT
58957180 TACTCAGTTT
Statistics
Matches: 258, Mismatches: 28, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
32 61 0.24
36 2 0.01
39 30 0.12
40 28 0.11
41 97 0.38
42 40 0.16
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGATCAGGTTT
Found at i:58956930 original size:32 final size:32
Alignment explanation
Indices: 58956889--58956983 Score: 181
Period size: 32 Copynumber: 3.0 Consensus size: 32
58956879 GGTTTTAGCG
58956889 GCGCTTTTGGAAAAACACCGCTATTGCTCAGT
1 GCGCTTTTGGAAAAACACCGCTATTGCTCAGT
58956921 GCGCTTTTGGAAAAACACCGCTATTGCTCAGT
1 GCGCTTTTGGAAAAACACCGCTATTGCTCAGT
*
58956953 GCGCTTTTGGAAAAACGCCGCTATTGCTCAG
1 GCGCTTTTGGAAAAACACCGCTATTGCTCAG
58956984 ATTTTAGTGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 62 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (32 bp):
GCGCTTTTGGAAAAACACCGCTATTGCTCAGT
Found at i:58957090 original size:83 final size:81
Alignment explanation
Indices: 58956953--58957179 Score: 278
Period size: 83 Copynumber: 2.8 Consensus size: 81
58956943 ATTGCTCAGT
* * * *
58956953 GCGCTTTTGG-AAAAACGCCGCTATTGCTCAGATTTTAGTGGTGCTTTTGAAAAAACGCCGCTAT
1 GCGCTTTTGGAAAAAAAGCCGCTA-TGCTCAGATTTTAGCGGCGCTTTTGGAAAAACGCCGCTAT
58957017 AGATCGAGGTTTTAGCG
65 AGATCGAGGTTTTAGCG
* * * *
58957034 GCGCTTTTGGAAAAAAAGCCGCTATAGATCGAGGTTTTAGCGGCGCTTTTGGAAAAACACCACTA
1 GCGCTTTTGGAAAAAAAGCCGCTAT-GCTC-AGATTTTAGCGGCGCTTTTGGAAAAACGCCGCTA
*
58957099 TAGATCGAGGTTTTAGCT
64 TAGATCGAGGTTTTAGCG
* * * * * *
58957117 GCGCTTTTGGAAAAACA-CCACTATTCTCAGTTTTTAGCGGCACTTCTGGAAAAACGCCGCTAT
1 GCGCTTTTGGAAAAAAAGCCGCTATGCTCAGATTTTAGCGGCGCTTTTGGAAAAACGCCGCTAT
58957180 TACTCAGTTT
Statistics
Matches: 125, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 30 0.24
81 13 0.10
82 21 0.17
83 61 0.49
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (81 bp):
GCGCTTTTGGAAAAAAAGCCGCTATGCTCAGATTTTAGCGGCGCTTTTGGAAAAACGCCGCTATA
GATCGAGGTTTTAGCG
Found at i:58957996 original size:21 final size:21
Alignment explanation
Indices: 58957966--58958008 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
58957956 ATATATGTTC
58957966 ATGGTCTAGGATTT-AGGATTT
1 ATGGTCTAGGATTTGA-GATTT
*
58957987 ATGGTTTAGGATTTGAGATTT
1 ATGGTCTAGGATTTGAGATTT
58958008 A
1 A
58958009 ATTTTTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (21 bp):
ATGGTCTAGGATTTGAGATTT
Found at i:58958432 original size:7 final size:7
Alignment explanation
Indices: 58958419--58958474 Score: 76
Period size: 7 Copynumber: 7.6 Consensus size: 7
58958409 AAATCTTCAA
58958419 AAAAATT
1 AAAAATT
*
58958426 GAAAATTT
1 -AAAAATT
58958434 AAAAATT
1 AAAAATT
58958441 AAAAATT
1 AAAAATT
58958448 AAAAATT
1 AAAAATT
58958455 AAAAACTT
1 AAAAA-TT
58958463 AAAAACTT
1 AAAAA-TT
58958471 AAAA
1 AAAA
58958475 TTTTAATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
7 25 0.56
8 20 0.44
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.27
Consensus pattern (7 bp):
AAAAATT
Found at i:58958438 original size:8 final size:8
Alignment explanation
Indices: 58958393--58958480 Score: 65
Period size: 8 Copynumber: 10.9 Consensus size: 8
58958383 TTTATATGTT
58958393 AATTTAAA
1 AATTTAAA
*
58958401 AATGATAAA
1 AAT-TTAAA
58958410 AATCTTCAAAA
1 AAT-TT--AAA
* *
58958421 AAATTGAA
1 AATTTAAA
58958429 AATTTAAA
1 AATTTAAA
58958437 AA-TTAAA
1 AATTTAAA
58958444 AA-TTAAA
1 AATTTAAA
58958451 AA-TTAAA
1 AATTTAAA
*
58958458 AACTTAAA
1 AATTTAAA
*
58958466 AACTTAAA
1 AATTTAAA
*
58958474 ATTTTAA
1 AATTTAA
58958481 TATTTAATAT
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
7 21 0.31
8 31 0.46
9 8 0.12
10 2 0.03
11 5 0.07
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (8 bp):
AATTTAAA
Found at i:58958444 original size:22 final size:22
Alignment explanation
Indices: 58958419--58958477 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 22
58958409 AAATCTTCAA
58958419 AAAAATTGAAAATTTAAAAA-TT
1 AAAAATT-AAAATTTAAAAACTT
*
58958441 AAAAATTAAAAATTAAAAACTT
1 AAAAATTAAAATTTAAAAACTT
58958463 AAAAACTTAAAATTT
1 AAAAA-TTAAAATTT
58958478 TAATATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 11 0.33
22 14 0.42
23 8 0.24
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (22 bp):
AAAAATTAAAATTTAAAAACTT
Found at i:58964600 original size:42 final size:42
Alignment explanation
Indices: 58964545--58964639 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
58964535 AGGTCATGGT
* * *
58964545 TTTTAGTGACGTTTGCTGGAAGAACGCCACTAAAGACTATGA-
1 TTTTAGCGGCGTTTGCTGGAA-AACGCCACTAAAGACCATGAC
** * *
58964587 TTTTAGCGGCGTTTTTTGGAAAGCGCCGCTAAAGACCATGAC
1 TTTTAGCGGCGTTTGCTGGAAAACGCCACTAAAGACCATGAC
58964629 TTTTAGCGGCG
1 TTTTAGCGGCG
58964640 CTTTTAACGC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 17 0.38
42 28 0.62
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
TTTTAGCGGCGTTTGCTGGAAAACGCCACTAAAGACCATGAC
Found at i:58965670 original size:46 final size:48
Alignment explanation
Indices: 58965564--58965740 Score: 156
Period size: 46 Copynumber: 3.8 Consensus size: 48
58965554 CCAAATTATG
* * * *
58965564 AGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGACATTGAGACG-
1 AGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGC-TCGAGGCGT
* *
58965612 AGAACTAGTGTAAGA-CATGTTCGGGACAT-GCATCGGGCTCGAGGCGT
1 AGAGCCAGTGTAAGACCATGTTCGGGACATGGCATC-GGCTCGAGGCGT
*
58965659 A-AGCCAGTGTAAGA-CATG-TCTGGGACAT-GCATCGGCTACGA-G-AT
1 AGAGCCAGTGTAAGACCATGTTC-GGGACATGGCATCGGCT-CGAGGCGT
* * *
58965703 AATAGTCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 -AGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCG
58965741 ACTTAAGATA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
44 1 0.01
45 8 0.07
46 53 0.49
47 27 0.25
48 20 0.18
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (48 bp):
AGAGCCAGTGTAAGACCATGTTCGGGACATGGCATCGGCTCGAGGCGT
Found at i:58965750 original size:47 final size:46
Alignment explanation
Indices: 58965568--58965781 Score: 138
Period size: 47 Copynumber: 4.6 Consensus size: 46
58965558 ATTATGAGAG
* ** *
58965568 CCAGTGTAAGACCATGTCCGGGACATGGCATCGACATTGAGACGA-GAA
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-TACAGA-TATGAA
* * ***
58965616 CTAGTGTAAGACATGT-TCGGGACAT-GCATCGGGCT-C-GAGGCGTAA
1 CCAGTGTAAGACATGTCT-GGGACATGGCATC-GACTACAGATATG-AA
* *
58965661 GCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCTACGAGATAAT-AG
1 -CCAGTGTAAGACATGTCTGGGACATGGCATCGACTAC-AGAT-ATGAA
* *
58965708 TCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTA-AGATATGAA
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGAC-TACAGATATGAA
*
58965755 CCAGTGTAAGAACATGTCTAGGACATG
1 CCAGTGTAAG-ACATGTCTGGGACATG
58965782 ACATTGGCAC
Statistics
Matches: 134, Mismatches: 17, Indels: 31
0.74 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 6 0.04
46 46 0.34
47 56 0.42
48 20 0.15
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGACTACAGATATGAA
Found at i:58970403 original size:49 final size:49
Alignment explanation
Indices: 58970331--58970517 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
58970321 TAGTCGAAGC
58970331 TATCTGGTAGCA--TAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTA-CACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
58970379 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * * * * * *
58970430 TTTCGGGTACGCATAGTAGCCTTCACTTAATACTACACATGCGACTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
58970479 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
58970518 CGTGACCTCA
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
47 2 0.02
48 8 0.07
49 64 0.56
50 2 0.02
51 38 0.33
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:58970457 original size:100 final size:99
Alignment explanation
Indices: 58970336--58970522 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 99
58970326 GAAGCTATCT
*
58970336 GGTAGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCT
1 GGTAGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCT
58970401 GCACTTAGTACTACACACGTGATCACAGTTTTCG
66 GCACTTAGTACTACACACGTGATCACAGTTTTCG
* * *
58970435 GGTACGCATAGTAGCCTTCACTTAATACTACACATGCGACTAATTATCTGGTACACGTAGTAGCC
1 GGTA-GCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
58970500 TGCACTTAGTACTACACACGTGA
65 TGCACTTAGTACTACACACGTGA
58970523 CCTCACAATA
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 4 0.05
100 79 0.95
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (99 bp):
GGTAGCATAGTAGCCTGCACTTAATACTACACATGCGACCAATAATCTGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:58981186 original size:23 final size:22
Alignment explanation
Indices: 58981155--58981208 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
58981145 GATGGACACA
*
58981155 TTTT-TTTTCTTTTGTTTTCATCC
1 TTTTCTTTCCTTTT-TTTTC-TCC
58981178 TTTTCTTTCCCTTTTTTTTCTCC
1 TTTTCTTT-CCTTTTTTTTCTCC
*
58981201 ATTTCTTT
1 TTTTCTTT
58981209 ATTACTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 14 0.52
24 8 0.30
25 5 0.19
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTCTTTCCTTTTTTTTCTCC
Found at i:58986241 original size:47 final size:48
Alignment explanation
Indices: 58986064--58986277 Score: 167
Period size: 47 Copynumber: 4.6 Consensus size: 48
58986054 TGAGAGCAAA
* * ** * * *
58986064 TGTAAGACCATGTCCGAGACATGGCATCAGCTTTGAGACGA-GGGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGA-TATGAGCCAG
* * ** ** *
58986112 TGTAAGA-GATGTCTAGGACAT-GCATTGGCCT-CGAGGCATAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAG-CTACGAGATATGAGCCAG
*
58986158 TGTAAGA-CATGTCTGGGACAT-GCATCAGCTACGAGATGAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGAT-ATGAGCCAG
*
58986204 TGTAAGACCATGTCTGGGACATGGCATC-GACT-TGAGATATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAG-CTACGAGATATGAGCCAG
* *
58986251 TGTAAAACCATGTCTAGGACATGGCAT
1 TGTAAGACCATGTCTGGGACATGGCAT
58986278 TGGCACCTTA
Statistics
Matches: 135, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 54 0.40
47 64 0.47
48 14 0.10
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCTACGAGATATGAGCCAG
Found at i:58986272 original size:140 final size:141
Alignment explanation
Indices: 58986020--58986281 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 141
58986010 TGAGCTAGTA
* * *
58986020 TAAGACATGTTTGGGACATGCATCGGCCATAGTATGAGAGCAAATGTAAGACCATGTCCGAGACA
1 TAAGACATGTCTGGGACATGCATCAGCCAGAGTATGAGAGCAAATGTAAGACCATGTCCGAGACA
* * * *
58986085 TGGCATCAGCTTTGAGACGAGGGCTAGTGTAAGAGATGTCTAGGACAT-GCATTGGCCTCGAGGC
66 TGGCATCAGCTTTGAGACGAGAGCCAGTGTAAAACATGTCTAGGACATGGCATTGGCCTCGAGGC
58986149 ATAAGCCAGTG
131 ATAAGCCAGTG
* * * * *
58986160 TAAGACATGTCTGGGACATGCATCAGCTACGAG-ATGATAGTC-AGTGTAAGACCATGTCTGGGA
1 TAAGACATGTCTGGGACATGCATCAGCCA-GAGTATGAGAG-CAAATGTAAGACCATGTCCGAGA
*
58986223 CATGGCATC-GAC-TTGAGA-TATGAGCCAGTGTAAAACCATGTCTAGGACATGGCATTGGC
64 CATGGCATCAG-CTTTGAGACGA-GAGCCAGTGTAAAA-CATGTCTAGGACATGGCATTGGC
58986282 ACCTTACCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 73 0.71
141 11 0.11
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
TAAGACATGTCTGGGACATGCATCAGCCAGAGTATGAGAGCAAATGTAAGACCATGTCCGAGACA
TGGCATCAGCTTTGAGACGAGAGCCAGTGTAAAACATGTCTAGGACATGGCATTGGCCTCGAGGC
ATAAGCCAGTG
Found at i:58993206 original size:93 final size:93
Alignment explanation
Indices: 58993093--58993264 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
58993083 CGCCCATAAG
* *
58993093 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58993158 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
58993186 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58993251 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
58993265 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58993261 original size:46 final size:46
Alignment explanation
Indices: 58993086--58993261 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
58993076 TGTAACCCGC
* * *
58993086 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
58993132 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
58993182 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
58993225 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
58993262 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:59000780 original size:93 final size:92
Alignment explanation
Indices: 59000668--59001024 Score: 492
Period size: 94 Copynumber: 3.8 Consensus size: 92
59000658 CGCCCATAAG
* *
59000668 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAA-CGAACTCGGACTCAACTCA
59000733 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59000761 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAACGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT-AACGAACTCGGACTCAACTCA
59000826 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59000854 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCACGAACTCGGACTCAA
1 CGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAACGAACTCGGACTCAA
59000916 CTCAACGAGTTCGGATGCCTAGTTACATCTCA
61 CTCAACGAGTTCGGATGCCTAGTTACATCTCA
* *
59000948 CGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCACGAACTCGGACTCAA
1 CGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATAACGAACTCGGACTCAA
59001010 CTCAACGAGTTCGGA
61 CTCAACGAGTTCGGA
59001025 CATTCGCATC
Statistics
Matches: 250, Mismatches: 8, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
93 115 0.46
94 127 0.51
95 1 0.00
96 2 0.01
97 3 0.01
98 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAACGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59000783 original size:47 final size:47
Alignment explanation
Indices: 59000715--59001073 Score: 531
Period size: 47 Copynumber: 7.7 Consensus size: 47
59000705 ATCCATAAGT
59000715 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
59000762 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-T-CAC
59000808 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
59000855 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
59000902 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
59000949 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
59000996 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
59001042 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
59001074 TCAACCATCC
Statistics
Matches: 289, Mismatches: 7, Indels: 30
0.89 0.02 0.09
Matches are distributed among these distances:
42 4 0.01
43 8 0.03
44 4 0.01
45 3 0.01
46 60 0.21
47 201 0.70
48 1 0.00
49 2 0.01
50 4 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59003675 original size:30 final size:30
Alignment explanation
Indices: 59003641--59003708 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
59003631 TGTGTCCAGG
*
59003641 CCGTGTGTCTCACACGGCCAAGGGACACGC
1 CCGTGTGTCTCACACAGCCAAGGGACACGC
59003671 CCGTGTGTCTCACACAGCCAAGGGACACGC
1 CCGTGTGTCTCACACAGCCAAGGGACACGC
59003701 CCGTGTGT
1 CCGTGTGT
59003709 TAGGCCGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.16
Consensus pattern (30 bp):
CCGTGTGTCTCACACAGCCAAGGGACACGC
Found at i:59006233 original size:40 final size:40
Alignment explanation
Indices: 59006149--59006373 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
59006139 TTGAATGATG
* * * *
59006149 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
59006189 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59006229 TCCGGGCAAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
59006268 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
59006308 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
59006349 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
59006374 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.20
40 119 0.74
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59006395 original size:119 final size:119
Alignment explanation
Indices: 59006156--59006406 Score: 269
Period size: 119 Copynumber: 2.1 Consensus size: 119
59006146 ATGTCCGGGC
*
59006156 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * ** *
59006221 ATACTAATTCCGGGCAAAGCCTGAAGGCATTTGTGCGAGTTACTAAATCTGGGT
66 ATACTAATACCGGGCAAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGT
* * * **
59006275 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
* * * *
59006338 AGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATC-CGGT
64 AGATACTAAT-ACCGGGCAAAG-CCCGAAGGCATTTGAACGAGTTA-CTAAATCTCGGT
* *
59006394 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
59006407 TACGTGATTT
Statistics
Matches: 110, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 77 0.70
120 30 0.27
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCGGGCAAAGCCCGAAGGCATTTGAACGAGTTACTAAATCTCGGT
Found at i:59009681 original size:48 final size:48
Alignment explanation
Indices: 59009554--59009869 Score: 350
Period size: 48 Copynumber: 6.6 Consensus size: 48
59009544 TCCACATGTT
** * * * *
59009554 GATGCCAAATCCCAGAGATGGTCTTACACTAGCACACATAT-AAGCGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA-CACC
* * * *
59009602 GATGCCATGT-ACTGACATGGTCTTACACTGGCTCACACATCCACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACC
* *
59009649 GATGCCATGTCCCAGACATGGTCTTACTCTGGCTCACATTTCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACC
* * *
59009697 GATGCCCTGTCTCAGACATGGTCTTACACTGGCTCACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACC
* * *
59009745 GATGCCATATCCCAGATATGGTCTTACACTGGCTCACATATCAACACT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACC
* ** * * * * **
59009793 GATGCCATATCCCAGATTTGGTCTTATA-TGGGGTCTCATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGCTCACATATCAACACC
59009841 GATGCCATGTCCCAGACATGGTCTTACAC
1 GATGCCATGTCCCAGACATGGTCTTACAC
59009870 GGGACTTTAT
Statistics
Matches: 225, Mismatches: 39, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
47 38 0.17
48 187 0.83
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACACC
Found at i:59011724 original size:38 final size:38
Alignment explanation
Indices: 59011682--59011757 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
59011672 TCTTTCATCA
59011682 TCACAAACCATTAACACTGTTTTAAATTTCAGATCTTT
1 TCACAAACCATTAACACTGTTTTAAATTTCAGATCTTT
*
59011720 TCACAAACCATTAACACTGTTTTAAATTTCTGATCTTT
1 TCACAAACCATTAACACTGTTTTAAATTTCAGATCTTT
59011758 CCAGGACATT
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:0.21, G:0.05, T:0.41
Consensus pattern (38 bp):
TCACAAACCATTAACACTGTTTTAAATTTCAGATCTTT
Found at i:59013103 original size:27 final size:27
Alignment explanation
Indices: 59013058--59013334 Score: 182
Period size: 27 Copynumber: 10.3 Consensus size: 27
59013048 CAAATTATTG
* *
59013058 AAATACCCCCAG-TTGTAAAATTACCA
1 AAATACCCCCGGTTTATAAAATTACCA
* * * *
59013084 AAGTACCCCCAGTTTATAAAACTACCC
1 AAATACCCCCGGTTTATAAAATTACCA
* * * *
59013111 AAATATCCTCGATTTATAGAATTACCA
1 AAATACCCCCGGTTTATAAAATTACCA
*** * * * *
59013138 TTTTACCCTCGATTTACAAAATTACTA
1 AAATACCCCCGGTTTATAAAATTACCA
** *
59013165 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCCGGTTTATAAAATTACCA
* * *
59013192 AAATACCCTC-GATCAGTAAAATTACCA
1 AAATACCCCCGGTTTA-TAAAATTACCA
** * *
59013219 AAATACCCTTGGTTTGTAAAATTACTA
1 AAATACCCCCGGTTTATAAAATTACCA
* * * *
59013246 AAGTACCCCTGGTTTGTAAAATTACTA
1 AAATACCCCCGGTTTATAAAATTACCA
* *
59013273 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCCCGGTTTATAAAATTACCA
*** * *
59013300 AAATACCCCTAATTTGTAAAA-TACTA
1 AAATACCCCCGGTTTATAAAATTACCA
59013326 AAATACCCC
1 AAATACCCC
59013335 TGTAAGGTAG
Statistics
Matches: 207, Mismatches: 41, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
26 27 0.13
27 178 0.86
28 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATACCCCCGGTTTATAAAATTACCA
Found at i:59013188 original size:54 final size:54
Alignment explanation
Indices: 59013070--59013333 Score: 232
Period size: 54 Copynumber: 4.9 Consensus size: 54
59013060 ATACCCCCAG
* * * ** * * *
59013070 TTGTAAAATTACCAAAGTACCC-CCAGTTTATAAAACTACCCAAATATCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGA-TTTATAAAATTACTAAAATACCCTTGGT
* * *** *
59013124 TTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTTGGT
** * *
59013178 TTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTCGATTTA-TAAAATTACTAAAATACCCTTGGT
* * * * *
59013232 TTGTAAAATTACTAAAGTACCC-CTGGTTTGTAAAATTACTAAAATACCCCTGGT
1 TTGTAAAATTACCAAAATACCCTC-GATTTATAAAATTACTAAAATACCCTTGGT
* *
59013286 TTGTAAAATTACCAAAATACCC-CTAATTTGTAAAA-TACTAAAATACCC
1 TTGTAAAATTACCAAAATACCCTC-GATTTATAAAATTACTAAAATACCC
59013334 CTGTAAGGTA
Statistics
Matches: 172, Mismatches: 34, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
53 16 0.09
54 153 0.89
55 3 0.02
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
TTGTAAAATTACCAAAATACCCTCGATTTATAAAATTACTAAAATACCCTTGGT
Found at i:59013196 original size:81 final size:81
Alignment explanation
Indices: 59013074--59013336 Score: 228
Period size: 81 Copynumber: 3.3 Consensus size: 81
59013064 CCCCAGTTGT
* * ** * * * * *
59013074 AAAATTACCAAAGTACCCCCAGTTTATAAAACTACCCAAATATCCTCGATTTA-TAGAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
***
59013138 TTTTACCCTCGATTTAC
65 AAATACCCTCGATTTAC
* *
59013155 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
* * **
59013220 AATACCCTTGGTTTGT
66 AATACCCTCGATTTAC
* * * * **
59013236 AAAATTACTAAAGTACCCCTGGTTTGTAAAATTACTAAAATACCC-CTGGTTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTC-GATCAGTAAAATTACCA
* **
59013300 AAATACCC-CTAATTTGT
65 AAATACCCTC-GATTTAC
59013317 AAAA-TACTAAAATACCCCTG
1 AAAATTACTAAAATACCCCTG
59013337 TAAGGTAGAA
Statistics
Matches: 149, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
80 18 0.12
81 131 0.88
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCCTCGATTTAC
Found at i:59013365 original size:27 final size:27
Alignment explanation
Indices: 59013326--59013430 Score: 131
Period size: 27 Copynumber: 3.9 Consensus size: 27
59013316 TAAAATACTA
* *
59013326 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
59013353 GAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
59013380 AAATACCCTTGTAGGGTAGAATTACC-
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
59013406 AAGATACCCATGTGGGGTAAAATTA
1 AA-ATACCCTTGTAGGGTAGAATTA
59013431 TCATTTTGCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.03
27 66 0.97
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:59013662 original size:25 final size:25
Alignment explanation
Indices: 59013634--59013703 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
59013624 AGGAAGTGCT
59013634 AAAAGGG-TTATGCCCCAGTTTACCA
1 AAAAGGGCTT-TGCCCCAGTTTACCA
* *
59013659 AAAAGGGCTTTGCCTCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
59013684 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
59013704 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 39 0.95
26 2 0.05
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:59013716 original size:24 final size:24
Alignment explanation
Indices: 59013644--59013730 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
59013634 AAAAGGGTTA
*
59013644 TGCCCCAGTTTACCAAAA-AGGGCTT
1 TGCCCCAG-TTATCAAAAGA-GGCTT
*
59013669 TGCCTCAGTTTATCAAAA-AGGGCTT
1 TGCCCCAG-TTATCAAAAGA-GGCTT
* *
59013694 TGCCCCAGTTATTAAAAGAGGCTA
1 TGCCCCAGTTATCAAAAGAGGCTT
*
59013718 GGCCTCCAGTTAT
1 TGCC-CCAGTTAT
59013731 ATGCTAAAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
24 15 0.28
25 39 0.72
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
TGCCCCAGTTATCAAAAGAGGCTT
Found at i:59023105 original size:40 final size:40
Alignment explanation
Indices: 59023035--59023130 Score: 151
Period size: 40 Copynumber: 2.4 Consensus size: 40
59023025 AAACCAAGTA
* *
59023035 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
59023074 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATG
59023114 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
59023131 NNNNNNNNNN
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
39 14 0.26
40 39 0.74
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATG
Found at i:59029552 original size:8 final size:8
Alignment explanation
Indices: 59029539--59029564 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
59029529 TTCATTTCAA
59029539 TCCACATT
1 TCCACATT
59029547 TCCACATT
1 TCCACATT
59029555 TCCACATT
1 TCCACATT
59029563 TC
1 TC
59029565 TTAGCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (8 bp):
TCCACATT
Found at i:59033091 original size:48 final size:48
Alignment explanation
Indices: 59032674--59033088 Score: 438
Period size: 48 Copynumber: 8.7 Consensus size: 48
59032664 TCATGTCAGT
* * * *
59032674 GCCGATGCCATGTCCGAGACATGGTCTTACACTAGCACACATATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
* * *
59032722 GCCGATGCCATGTCCTAGACATGATTTTACACTGGCTCACATATCCAA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-CAAC
* * *
59032770 GCCGATGCCATGTCCTAGATATGGTCTTACACTGGCTCACATTTCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
* * * *
59032818 GCCGATGCCATGTCCGAAACATGGTCTTACATTGGCTCACATTTCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
* * * *
59032866 GTCGATGCCATATCCCAAACATGGTCTAACACTGGCTCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
** * * * * *
59032914 GTTGATGCCATATGCTAGACATGGTCTTACCCTAG-TCACATATCAAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
* * * * *
59032961 GCCGATGCCATATCCCAGATATGGTCTTACACTAGCTCACATATCGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
* ** * * * * * * *
59033009 GCTGATGCCATAACCCAGAGATGGTCTTATACGGGGTCTCATATCGAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
*
59033057 GCTGATGCCATGTCCCAGACATGGTCTTACAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACAC
59033089 GGGACCTTAT
Statistics
Matches: 318, Mismatches: 46, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 44 0.14
48 271 0.85
49 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAAC
Found at i:59038949 original size:8 final size:9
Alignment explanation
Indices: 59038919--59038956 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
59038909 TTATATTTTA
59038919 TTATTTGAT
1 TTATTTGAT
*
59038928 TTCTTGTGAT
1 TTATT-TGAT
59038938 TTATTT-AT
1 TTATTTGAT
59038946 TTATTTGAT
1 TTATTTGAT
59038955 TT
1 TT
59038957 CTTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 8 0.32
9 9 0.36
10 8 0.32
ACGTcount: A:0.18, C:0.03, G:0.11, T:0.68
Consensus pattern (9 bp):
TTATTTGAT
Found at i:59038976 original size:27 final size:28
Alignment explanation
Indices: 59038908--59038977 Score: 69
Period size: 27 Copynumber: 2.6 Consensus size: 28
59038898 TTCCACATGT
59038908 TTTATATT-TTATTATTTGATTTCTTGTGA
1 TTTAT-TTATTATTATTTGATTTCTTGT-A
59038937 TTTATTTA-T-TTATTTGATTTCTT-T-
1 TTTATTTATTATTATTTGATTTCTTGTA
*
59038961 TTTTTCTTATTATTATT
1 TTTAT-TTATTATTATT
59038978 AGTATTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
24 4 0.11
25 3 0.08
26 2 0.06
27 19 0.53
28 3 0.08
29 5 0.14
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (28 bp):
TTTATTTATTATTATTTGATTTCTTGTA
Found at i:59044359 original size:34 final size:34
Alignment explanation
Indices: 59044316--59044383 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
59044306 CTCGAAGAGA
59044316 AAGATAAGATATATTGACCATTAACCAACTAGAC
1 AAGATAAGATATATTGACCATTAACCAACTAGAC
59044350 AAGATAAGATATATTGACCATTAACCAACTAGAC
1 AAGATAAGATATATTGACCATTAACCAACTAGAC
59044384 GGATAATGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (34 bp):
AAGATAAGATATATTGACCATTAACCAACTAGAC
Found at i:59046787 original size:50 final size:50
Alignment explanation
Indices: 59046672--59047050 Score: 334
Period size: 50 Copynumber: 7.5 Consensus size: 50
59046662 CTGGTATGCA
* * * * * *
59046672 TAGTAGCCTGTACTTAGTACTACACATGCGACC-AACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
*
59046721 TAGTAGCCAGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * ** * * *
59046771 TAGTAGCCTGCGCTTAGTACTACACACGTGA-TTGAA-GTTGTCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AACCATCT-GA-TACACG
* * * *
59046822 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* *
59046872 TAGTAGCCTACACTTAGTACAACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
* * *** * * * *
59046922 TAGTAGCCTGCACCTAGTACTACACATGTGA-CTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CCATCTGATACACG
* * * * *
59046973 TAGTAGCCTGCACTTAATACTACACATGTGACCTAAGACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-A-ACCATCTGATACACG
* * *
59047025 TTGCAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59047051 TGTGTTCTCA
Statistics
Matches: 265, Mismatches: 55, Indels: 17
0.79 0.16 0.05
Matches are distributed among these distances:
49 34 0.13
50 125 0.47
51 71 0.27
52 34 0.13
53 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
Found at i:59046906 original size:151 final size:151
Alignment explanation
Indices: 59046669--59047008 Score: 549
Period size: 151 Copynumber: 2.3 Consensus size: 151
59046659 TATCTGGTAT
* *
59046669 GCATAGTAGCCTGTACTTAGTACTACACATGCGACC-AACAATCCGGTACACGTAGTAGCCAGCA
1 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCAGCA
* * *
59046733 CTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCGCTTAGTACTACACAC
66 CTTAGTACAACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACCTAGTACTACACAC
*
59046798 GTGATTGAAGTTGTCGAGTAC
131 GTGACTGAAGTTGTCGAGTAC
* * *
59046819 GCATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGGTACACGTAGTAGCCTA-C
1 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCC-AGC
59046883 ACTTAGTACAACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACCTAGTACTACACA
65 ACTTAGTACAACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACCTAGTACTACACA
* *
59046948 TGTGACTGAAGTTGTCGGGTAC
130 CGTGACTGAAGTTGTCGAGTAC
*
59046970 GCATAGTAGCCTGCACTTAATACTACACATGTGACCTAA
1 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
59047009 GACCATCTTA
Statistics
Matches: 175, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
150 33 0.19
151 141 0.81
152 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (151 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCCGGTACACGTAGTAGCCAGCA
CTTAGTACAACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACCTAGTACTACACAC
GTGACTGAAGTTGTCGAGTAC
Found at i:59046969 original size:101 final size:101
Alignment explanation
Indices: 59046658--59047054 Score: 365
Period size: 101 Copynumber: 3.9 Consensus size: 101
59046648 ATAACTGAAG
** * * * * * * * *
59046658 CTATCTGGTATGCATAGTAGCCTGTACTTAGTACTACACATGCGACC--AACAATCCGGTACACG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGATACACA
* *
59046721 TAGTAGCCAGCACTTAGTACTACACACGTGACCTAA
66 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * * * * ** * *
59046757 CCATCTGATACACGTAGTAGCCTGCGCTTAGTACTACACACGTGA-TTGAA-GTTGTCGAGTACG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCT-GA-TACA
*
59046820 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAA
64 CATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
* * *
59046858 CTATCTGGTACACGTAGTAGCCTACACTTAGTACAACACACGTGACCT-AACCATCTGATACACG
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGATACACA
*
59046922 TAGTAGCCTGCACCTAGTACTACACATGTGA-CTGAA
66 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA
* * * * * * * * *
59046958 GTTGTCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAAGACCATCTTAAACA
1 -CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-ACCATCTGATACA
* * *
59047023 CATTGCAGCCTGCACATAGTACTACACATGTG
64 CATAGTAGCCTGCACTTAGTACTACACATGTG
59047055 TTCTCACAAT
Statistics
Matches: 240, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
99 39 0.16
100 38 0.16
101 120 0.50
102 4 0.02
103 39 0.16
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACCATCTGATACACA
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA
Found at i:59051914 original size:27 final size:27
Alignment explanation
Indices: 59051647--59051990 Score: 357
Period size: 27 Copynumber: 12.7 Consensus size: 27
59051637 TTAGTTTACC
* *
59051647 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
59051674 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
59051701 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
**
59051728 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
59051755 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * * *
59051782 AAATTACTAAAATACCTTTTGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
59051809 AAATTACCAAAATACCAC-TGGTTTGTA
1 AAATTACCAAAATACC-CTTGGTTTGTA
*
59051836 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
59051863 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * *
59051890 AAATTACCAAAATAAACTTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
*** * ***
59051917 AAATTATTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
** * **
59051944 AAATTATGAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
59051971 AAATTACCAAAGTATCCTTG
1 AAATTACCAAAATACCCTTG
59051991 ATTTACAGAA
Statistics
Matches: 265, Mismatches: 50, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 264 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:59052056 original size:27 final size:27
Alignment explanation
Indices: 59052026--59052166 Score: 196
Period size: 27 Copynumber: 5.2 Consensus size: 27
59052016 CGATTTACAA
*
59052026 AATTACTGAAAT-CCCCTTATAGGGTAG
1 AATTACTGAAATACCCC-TGTAGGGTAG
* *
59052053 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
59052080 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
59052107 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
59052134 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
59052161 AATTAC
1 AATTAC
59052167 CGAGATACTT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 1 0.01
27 97 0.95
28 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:59052068 original size:54 final size:54
Alignment explanation
Indices: 59052024--59052192 Score: 200
Period size: 54 Copynumber: 3.1 Consensus size: 54
59052014 CTCGATTTAC
*
59052024 AAAATTACTGAAAT-CCCCTTATAGGGTAGAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCC-TATAGGGTAGAATTACCGAAATACCCTCGTAGGGT
* *
59052078 AGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAAATACCC-CTGTAGGGT
1 AAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTC-GTAGGGT
* * * * * * * *
59052132 AGAATTACTAAAATACCCCTGTAGGGTGGAATTACCGAGATA-CTTTGTGGGGT
1 AAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTCGTAGGGT
59052185 AAAATTAC
1 AAAATTAC
59052193 CATTTTGCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
53 14 0.14
54 82 0.82
55 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
AAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTCGTAGGGT
Found at i:59052672 original size:22 final size:22
Alignment explanation
Indices: 59052620--59052684 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
59052610 TTAAAGCCTT
* * *
59052620 CTGATTATGGCTTTTTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
59052642 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
59052664 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
59052685 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:59052879 original size:26 final size:27
Alignment explanation
Indices: 59052843--59052916 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
59052833 ATTCTGTTAA
* *
59052843 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
59052869 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
59052896 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
59052917 ATAACTGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:59053086 original size:19 final size:19
Alignment explanation
Indices: 59053064--59053121 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
59053054 TTTTGATTCT
59053064 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
59053083 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
59053095 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
59053114 TGATTCTG
1 TGATTCTG
59053122 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:59053091 original size:6 final size:6
Alignment explanation
Indices: 59053057--59053172 Score: 87
Period size: 6 Copynumber: 18.7 Consensus size: 6
59053047 ATTCACTTTT
* *
59053057 TGATTC TTGATTC TG-TTACC TGATAC TGATTC TGATTT TGATTC TG-TTACC
1 TGATTC -TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGATT--C
* *
59053108 TGATAC TGATTC TGATTC TGATTC TG-TCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
*
59053157 TAATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
59053173 AATGTTTCTT
Statistics
Matches: 89, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.72
7 16 0.18
8 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:59053156 original size:31 final size:31
Alignment explanation
Indices: 59053057--59053188 Score: 169
Period size: 31 Copynumber: 4.3 Consensus size: 31
59053047 ATTCACTTTT
59053057 TGATTCTTGATTCTGTTACCTGATACTGATTC
1 TGATTC-TGATTCTGTTACCTGATACTGATTC
*
59053089 TGATTTTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* *
59053120 TGATTCTGATTCTGTCACCTGATTCTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* * *
59053151 TGATTCTAATTCTAGTT--CTGATAATGTTTC
1 TGATTCTGATTCT-GTTACCTGATACTGATTC
*
59053181 TTATTCTG
1 TGATTCTG
59053189 TAATGGGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
30 16 0.18
31 65 0.74
32 7 0.08
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
TGATTCTGATTCTGTTACCTGATACTGATTC
Found at i:59057024 original size:50 final size:50
Alignment explanation
Indices: 59056915--59057343 Score: 275
Period size: 50 Copynumber: 8.5 Consensus size: 50
59056905 CTGGTACGCA
* *** ** *
59056915 TAGTAGCCTGCATTTAGTACTACACATGCGACC-AAGAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
*
59056964 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
* * * ** * * *
59057014 TAGTTGCCTGCACTTAGTACTACACACGTGA-TTGAA-GTTGTCAAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCT-AACCATCT-GA-TACACG
* * * * *
59057065 TAGGAGCCTACACTTAGT-C-CCACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACAT--GACCTAACCATCTGATACACG
*
59057115 TAGTAGCCTACACTTAGTA-TA-ACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACA--TGACCTAACCATCTGATACACG
* * * *** * * * *
59057165 TAGTAGCTTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCT-AA-CCATCTGATACACG
* * *
59057216 TAGTAGCCTAG-ACTTAGTACTACACATGA-GACCTAACTATCTGGTACACG
1 TAGTAGCCT-GCACTTAGTACTACACA-CATGACCTAACCATCTGATACACG
* ** * * *
59057266 TAGTAGCCTGCATTTAGTACTACACATGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCT--AACCATCTGATACACG
* * *
59057318 TAGTAACCTTCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
59057344 AGAGTTCTGA
Statistics
Matches: 293, Mismatches: 64, Indels: 43
0.73 0.16 0.11
Matches are distributed among these distances:
49 40 0.14
50 150 0.51
51 60 0.20
52 43 0.15
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
Found at i:59057147 original size:151 final size:152
Alignment explanation
Indices: 59056908--59057343 Score: 603
Period size: 151 Copynumber: 2.9 Consensus size: 152
59056898 AAGCTATCTG
* * **
59056908 GTACGCATAGTAGCCTGCATTTAGTACTACACATGCGACC-AAGAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
* *
59056972 TGCACTTAGTACTACACACA--TGACCTAACCATTTGATACACGTAGTTGCCTGCACTTAGTACT
66 TGCACTTAGTACTA-ACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACT
59057035 ACACACGTGATTGAAGTTGTCAA
130 ACACACGTGATTGAAGTTGTCAA
* * * *
59057058 GTACACATAGGAGCCTACACTTAGTCCCACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
* *
59057123 TACACTTAGTA-TAACACATGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTA
66 TGCACTTAGTACTAACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
**
59057187 CACACGTGATTGAAGTTGTCGG
131 CACACGTGATTGAAGTTGTCAA
* *
59057209 GTACGCATAGTAGCCTAGACTTAGTACTACACATGAGACCTAACTATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
* * * * * * *
59057274 TGCATTTAGTACT-ACACATGTGACCTAAAACCATCTTAAACACATAGTAACCTTCACATAGTAC
66 TGCACTTAGTACTAACACATGTGACCT--AACCATCTGATACACGTAGTAGCCTGCACTTAGTAC
59057338 TACACA
129 TACACA
59057344 AGAGTTCTGA
Statistics
Matches: 251, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
149 5 0.02
150 36 0.14
151 174 0.69
152 1 0.00
153 35 0.14
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (152 bp):
GTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCC
TGCACTTAGTACTAACACATGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATTGAAGTTGTCAA
Found at i:59057212 original size:101 final size:101
Alignment explanation
Indices: 59057107--59057296 Score: 283
Period size: 101 Copynumber: 1.9 Consensus size: 101
59057097 CTAACTATCT
* *
59057107 GGTACACGTAGTAGCCTACACTTAGTA-TAACACATGTGACCTAACCATCTGATACACGTAGTAG
1 GGTACACATAGTAGCCTACACTTAGTACT-ACACATGAGACCTAACCATCTGATACACGTAGTAG
*
59057171 CTTGCACTTAGTACTACACACGTGATTGAAGTTGTCG
65 CCTGCACTTAGTACTACACACGTGATTGAAGTTGTCG
* * * *
59057208 GGTACGCATAGTAGCCTAGACTTAGTACTACACATGAGACCTAACTATCTGGTACACGTAGTAGC
1 GGTACACATAGTAGCCTACACTTAGTACTACACATGAGACCTAACCATCTGATACACGTAGTAGC
* *
59057273 CTGCATTTAGTACTACACATGTGA
66 CTGCACTTAGTACTACACACGTGA
59057297 CCTAAAACCA
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 78 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (101 bp):
GGTACACATAGTAGCCTACACTTAGTACTACACATGAGACCTAACCATCTGATACACGTAGTAGC
CTGCACTTAGTACTACACACGTGATTGAAGTTGTCG
Found at i:59061530 original size:42 final size:42
Alignment explanation
Indices: 59061424--59061534 Score: 116
Period size: 43 Copynumber: 2.6 Consensus size: 42
59061414 TACCATACCA
* ** *
59061424 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATCAAATCTCATATCG
* * * * *
59061466 ATTCCAATAGCCCAGCTATGGTCTTACA-CAAAGTCTCATCTGG
1 ATGCC-ATATCCCAGATATGGTCTTACATCAAA-TCTCATATCG
59061509 ATGCCATATCCCAGATATGGTCTTAC
1 ATGCCATATCCCAGATATGGTCTTAC
59061535 TGTAACCCTA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
42 25 0.45
43 30 0.55
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATCAAATCTCATATCG
Found at i:59066892 original size:25 final size:25
Alignment explanation
Indices: 59066840--59066924 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
59066830 ACAACTCTCT
* * *
59066840 TGAGCTTCCCAA-TACTTGACTCTCA
1 TGAGCTTCCTAATTACTAG-CTCACA
*
59066865 TGAGCTTCCTAATATAC-AGCTCATA
1 TGAGCTTCCTAAT-TACTAGCTCACA
* *
59066890 TGATCTT-CTCATTACTTAGCTCACA
1 TGAGCTTCCTAATTAC-TAGCTCACA
59066915 TGAGCTTCCT
1 TGAGCTTCCT
59066925 GTTATATAGC
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 3 0.06
24 4 0.09
25 34 0.72
26 3 0.06
27 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (25 bp):
TGAGCTTCCTAATTACTAGCTCACA
Found at i:59066934 original size:25 final size:25
Alignment explanation
Indices: 59066863--59066936 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
59066853 ACTTGACTCT
* *
59066863 CATGAGCTTCCTAATATACAGCTCA
1 CATGAGCTTCCTATTATATAGCTCA
* *
59066888 TATGATCTT-CTCATTACT-TAGCTCA
1 CATGAGCTTCCT-ATTA-TATAGCTCA
*
59066913 CATGAGCTTCCTGTTATATAGCTC
1 CATGAGCTTCCTATTATATAGCTC
59066937 CGAAGAGCTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
24 3 0.08
25 32 0.84
26 3 0.08
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (25 bp):
CATGAGCTTCCTATTATATAGCTCA
Found at i:59068816 original size:36 final size:36
Alignment explanation
Indices: 59068769--59068841 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
59068759 CATTCAATAA
59068769 GCTTATATGATGAACAAATAATGTCTCAAGGGATGG
1 GCTTATATGATGAACAAATAATGTCTCAAGGGATGG
*
59068805 GCTTATATGATGAACAAATAATGTGTCAAGGGATGG
1 GCTTATATGATGAACAAATAATGTCTCAAGGGATGG
59068841 G
1 G
59068842 TGACTAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (36 bp):
GCTTATATGATGAACAAATAATGTCTCAAGGGATGG
Done.