Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold165
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: 1947055
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.31
Warning! 52078 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1774775 original size:42 final size:42
Alignment explanation
Indices: 1774616--1774795 Score: 118
Period size: 42 Copynumber: 4.3 Consensus size: 42
1774606 TAAAAAAGTA
* * *
1774616 TCCTGGGTCTAAGTCGATAGGCAGACGAAAAATAAAGAAGTC
1 TCCTAGGTCTAAGTCGATAGGCAGACGAAAGATAAAGAAATC
* * * * * *
1774658 ACC-GGGTCTGAG-CTA-ACGGGAAGATGAAAGATGAAA-AAATC
1 TCCTAGGTCTAAGTCGATA--GGCAGACGAAAGAT-AAAGAAATC
* * * * **
1774699 T-CTCGAGTTTAAGCCGATAGGCAAACGATTGATAAAGAAATC
1 TCCTAG-GTCTAAGTCGATAGGCAGACGAAAGATAAAGAAATC
* * *
1774741 TCCTAGGTCTGAGTCGATGGGCAGACGAAAGATAAAGAAGTC
1 TCCTAGGTCTAAGTCGATAGGCAGACGAAAGATAAAGAAATC
*
1774783 TCCTAGGTTTAAG
1 TCCTAGGTCTAAG
1774796 CCGTTAAAAA
Statistics
Matches: 101, Mismatches: 28, Indels: 18
0.69 0.19 0.12
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 27 0.27
42 64 0.63
43 5 0.05
44 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.21
Consensus pattern (42 bp):
TCCTAGGTCTAAGTCGATAGGCAGACGAAAGATAAAGAAATC
Found at i:1774793 original size:84 final size:82
Alignment explanation
Indices: 1774684--1775001 Score: 241
Period size: 84 Copynumber: 3.8 Consensus size: 82
1774674 CGGGAAGATG
* * *
1774684 AAAGATGAAAAAATCTCTCGAGTTTAAGCCGATAGGCAAACGATTGATAAAGAAATCTCCTAGGT
1 AAAGAT-AAAAAGTCTC-CTAGTTTAAGCCGATAGGCAAATGATTGATAAAGAAATCTCCTAGGT
*
1774749 CTGAGTCGATGGGCAGACG
64 CTGAGTCGATGGGCAGACA
* ** * *
1774768 AAAGATAAAGAAGTCTCCTAGGTTTAAGCCGTTA-AAAATATGATTGATAAAGAAGTCTCCTATG
1 AAAGATAAA-AAGTCTCCTA-GTTTAAGCCGATAGGCAA-ATGATTGATAAAGAAATCTCCTAGG
* * *
1774832 TCTAAG-CTAGCGGGCAGACA
63 TCTGAGTCGA-TGGGCAGACA
* * ** * *
1774852 AAAGATAACAAAAGTCTCTTTAGTTTGAA-CTGAGGGGCAAATGATTGATAAAGGAATCT-CTCG
1 AAAGAT-A-AAAAGTCTC-CTAGTTT-AAGCCGATAGGCAAATGATTGATAAAGAAATCTCCT-A
*
1774915 GGTCTGAGTTGATGGGCAGACA
61 GGTCTGAGTCGATGGGCAGACA
* ** * * * *
1774937 AAAGATAAAAAGGTCTCCTTAGTCTAAATCGAT-GAGCAGATGATTGATAGAGAAAGCTCTTAGG
1 AAAGATAAAAA-GTCTCC-TAGTTTAAGCCGATAG-GCAAATGATTGATAAAGAAATCTCCTAGG
1775001 T
63 T
1775002 TTAAGCCGAT
Statistics
Matches: 180, Mismatches: 38, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
83 16 0.09
84 102 0.57
85 53 0.29
86 9 0.05
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (82 bp):
AAAGATAAAAAGTCTCCTAGTTTAAGCCGATAGGCAAATGATTGATAAAGAAATCTCCTAGGTCT
GAGTCGATGGGCAGACA
Found at i:1775017 original size:42 final size:43
Alignment explanation
Indices: 1774949--1775081 Score: 116
Period size: 42 Copynumber: 3.2 Consensus size: 43
1774939 AGATAAAAAG
* * *
1774949 GTCTCCTTA-GTCTAAATCGATGAGCAGATGATTGATAGAGAAA
1 GTCT-CTTAGGTCTGAACCGATAAGCAGATGATTGATAGAGAAA
* * *
1774992 G-CTCTTAGGT-TTAAGCCGATAAGCAGATGAAAT-ATGGA-AAA
1 GTCTCTTAGGTCTGAA-CCGATAAGCAGATG-ATTGATAGAGAAA
* * *
1775033 GTCTCTTAGGTCTGAACCGATAAGAAGACGATTGATAAAG-AA
1 GTCTCTTAGGTCTGAACCGATAAGCAGATGATTGATAGAGAAA
1775075 GTCTCTT
1 GTCTCTT
1775082 GGGACTAAGC
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
41 13 0.18
42 53 0.74
43 6 0.08
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (43 bp):
GTCTCTTAGGTCTGAACCGATAAGCAGATGATTGATAGAGAAA
Found at i:1775260 original size:42 final size:42
Alignment explanation
Indices: 1775136--1775552 Score: 239
Period size: 42 Copynumber: 9.9 Consensus size: 42
1775126 AGTTTGAACT
* * ** * *
1775136 AACAGGCAGACGATTGATAAAGGAAGTCTCTCAGGACTAAGCT
1 AACAGGCAGATGATAGATAAA-GAAGTCTCTTGGGTCTAAGCC
* * * * *
1775179 AACAGGCAAACG-TAGATAAAGAAGTTTCTCGGGCCTAAGCC
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
* * * * *
1775220 AACGGGCAGATGATTGTTAAAGGAGTCTCTTGGGTCTAAGCT
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
* ** *
1775262 AACAGGCAGATGAAAGATAAAGAAGTCTCTCAGGTCTAAGTC
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
* * * * *
1775304 GATAGGTAGATGATAGATAAAGAAGTTTCCTGGGTCTAAGCC
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
* ** * * * * * * *
1775346 GATGGGTAGATGAAAGATGAAGAAGTCTCCTAGGTTTAAGCT
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
* * * * *
1775388 GACGGGCAAATGAAAGATAATGAAAGTCTCTTGGGTCTGAA-CC
1 AACAGGCAGATGATAGATAAAG-AAGTCTCTTGGGTCT-AAGCC
* * * * * *
1775431 AACAGGTAGACGATTGATAAAGGAAGTCTCTCGAGAT-TGAGCC
1 AACAGGCAGATGATAGATAAA-GAAGTCTCTTG-GGTCTAAGCC
** ** * *
1775474 AAGGGGCAGACAATAGATAAAGAAGTCT-TTCGGGCCTATGCC
1 AACAGGCAGATGATAGATAAAGAAGTCTCTT-GGGTCTAAGCC
* * * * *
1775516 AACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCT
1 AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCT
1775553 GAGCTGATGG
Statistics
Matches: 286, Mismatches: 79, Indels: 19
0.74 0.21 0.05
Matches are distributed among these distances:
41 28 0.10
42 186 0.65
43 67 0.23
44 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (42 bp):
AACAGGCAGATGATAGATAAAGAAGTCTCTTGGGTCTAAGCC
Found at i:1775315 original size:84 final size:84
Alignment explanation
Indices: 1775062--1775374 Score: 231
Period size: 84 Copynumber: 3.7 Consensus size: 84
1775052 ATAAGAAGAC
* * **
1775062 GATTGATAAAGAAGTCTCTTGGGACTAAGCTAAC-GAGCA-A-GCAAAAGATAGCGAAAGTCTCT
1 GATTGATAAAGGAGTCTCTTGGGTCTAAGCTAACAG-GCAGATG--AAAGATAAAG-AAGTCTCT
* ** * *
1775124 CAAGTTTGAA-CTAACAGGCAGAC
62 CAGGCCT-AAGCCAACAGGCAGAT
** * * * * * *
1775147 GATTGATAAAGGAAGTCTCTCAGGACTAAGCTAACAGGCAAACG-TAGATAAAGAAGTTTCTCGG
1 GATTGATAAAGG-AGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAG
*
1775211 GCCTAAGCCAACGGGCAGAT
65 GCCTAAGCCAACAGGCAGAT
*
1775231 GATTGTTAAAGGAGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGG
1 GATTGATAAAGGAGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGG
* * * * *
1775296 TCTAAGTCGATAGGTAGAT
66 CCTAAGCCAACAGGCAGAT
* * * * ** ** * *
1775315 GATAGATAAAGAAGTTTCCTGGGTCTAAGCCGATGGGTAGATGAAAGATGAAGAAGTCTC
1 GATTGATAAAGGAGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCTC
1775375 CTAGGTTTAA
Statistics
Matches: 182, Mismatches: 40, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
83 28 0.15
84 111 0.61
85 17 0.09
86 23 0.13
87 2 0.01
88 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (84 bp):
GATTGATAAAGGAGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGG
CCTAAGCCAACAGGCAGAT
Found at i:1775321 original size:126 final size:125
Alignment explanation
Indices: 1775134--1775418 Score: 286
Period size: 126 Copynumber: 2.3 Consensus size: 125
1775124 CAAGTTTGAA
* **
1775134 CTAACAGGCAGACGATTGATAAAGGAAGTCTCTCAGGACTAAGCTAACAGGCAAACGTAGATAAA
1 CTAACAGGCAGATGAAAGATAAA-GAAGTCTCTCAGGACTAAGCTAACAGGCAAACGTAGATAAA
** * * * *
1775199 GAAGTTT-CTCGGGCCTAAGCCAACGGGCAGATGATTGTTAAAGGAGTCTCTTGGGTCTAAG
65 GAAGTTTCCT-GGGCCTAAGCCAACGGGCAGATGAAAGATAAAGAAGTCTCCTAGGTCTAAG
* * * * * *
1775260 CTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGGTCTAAG-TCGATAGGTAGATGATAGATAA
1 CTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGGACTAAGCT-AACAGGCAAACG-TAGATAA
* * * * * *
1775324 AGAAGTTTCCTGGGTCTAAGCCGATGGGTAGATGAAAGATGAAGAAGTCTCCTAGGTTTAAG
64 AGAAGTTTCCTGGGCCTAAGCCAACGGGCAGATGAAAGATAAAGAAGTCTCCTAGGTCTAAG
* * * *
1775386 CTGACGGGCAAATGAAAGATAATGAAAGTCTCT
1 CTAACAGGCAGATGAAAGATAAAG-AAGTCTCT
1775419 TGGGTCTGAA
Statistics
Matches: 130, Mismatches: 25, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
124 1 0.01
125 25 0.19
126 94 0.72
127 10 0.08
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.22
Consensus pattern (125 bp):
CTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGGACTAAGCTAACAGGCAAACGTAGATAAAG
AAGTTTCCTGGGCCTAAGCCAACGGGCAGATGAAAGATAAAGAAGTCTCCTAGGTCTAAG
Found at i:1775593 original size:42 final size:42
Alignment explanation
Indices: 1775533--1775670 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
1775523 AGACGATTGT
* * * ** *
1775533 TAAAGGAGTCTCTTGAGTCTGAGCTGATGGACAAACAAAAGA
1 TAAAGAAGTCTCTCGAGTCTAAGCTGATGGGTAGACAAAAGA
*
1775575 TAAAGAAGTCTCTCGAGTCTAAG-TCGATGGGTAGACAATAGA
1 TAAAGAAGTCTCTCGAGTCTAAGCT-GATGGGTAGACAAAAGA
* * **
1775617 TAAAGAAGTCTCCCAAGTCTAAGCTGATGGGTAGATGAAAGA
1 TAAAGAAGTCTCTCGAGTCTAAGCTGATGGGTAGACAAAAGA
1775659 TAAAGAAGTCTC
1 TAAAGAAGTCTC
1775671 ACAGGTCTAA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 80 0.98
43 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (42 bp):
TAAAGAAGTCTCTCGAGTCTAAGCTGATGGGTAGACAAAAGA
Found at i:1775618 original size:296 final size:295
Alignment explanation
Indices: 1775130--1775670 Score: 757
Period size: 296 Copynumber: 1.8 Consensus size: 295
1775120 CTCTCAAGTT
* * *
1775130 TGAACTAACAGGCAGACGATTGATAAAGGAAGTCTCTCAGGACTAAGCTAACAGGCAAACGTAGA
1 TGAACCAACAGGCAGACGATTGATAAAGGAAGTCTCTCAGGACTAAGCCAACAGGCAAACATAGA
* * *
1775195 TAAAGAAGTTTCTCGGGCCTAAGCCAACGGGCAGATGATTGTTAAAGGAGTCTCTTGGGTCTAAG
66 TAAAGAAGTTTCTCGGGCCTAAGCCAACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCTAAG
* ** **
1775260 CTAACAGGCAGATGAAAGATAAAGAAGTCTCTCAGGTCTAAGTCGATAGGTAGATGATAGATAAA
131 CTAACAGGCAAACAAAAGATAAAGAAGTCTCTCAGGTCTAAGTCGATAGGTAGACAATAGATAAA
* *** *
1775325 GAAGTTTCCTGGGTCTAAGCCGATGGGTAGATGAAAGATGAAGAAGTCTCCTAGGTTTAAGCTGA
196 GAAGTCTCCCAAGTCTAAGCCGATGGGTAGATGAAAGATAAAGAAGTCTCCTAGGTTTAAGCTGA
1775390 CGGGCAAATGAAAGATAATGAAAGTCTCTTGGGTC
261 CGGGCAAATGAAAGATAATGAAAGTCTCTTGGGTC
* * * ** *
1775425 TGAACCAACAGGTAGACGATTGATAAAGGAAGTCTCTC-GAGATTGAGCCAAGGGGCAGACAATA
1 TGAACCAACAGGCAGACGATTGATAAAGGAAGTCTCTCAG-GACTAAGCCAACAGGCAAAC-ATA
*
1775489 GATAAAGAAGTCTT-TCGGGCCTATGCCAACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCT
64 GATAAAGAAGT-TTCTCGGGCCTAAGCCAACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCT
* * * *
1775553 GAGCTGA-TGGACAAACAAAAGATAAAGAAGTCTCTC-GAGTCTAAGTCGATGGGTAGACAATAG
128 AAGCTAACAGG-CAAACAAAAGATAAAGAAGTCTCTCAG-GTCTAAGTCGATAGGTAGACAATAG
*
1775616 ATAAAGAAGTCTCCCAAGTCTAAGCTGATGGGTAGATGAAAGATAAAGAAGTCTC
191 ATAAAGAAGTCTCCCAAGTCTAAGCCGATGGGTAGATGAAAGATAAAGAAGTCTC
1775671 ACAGGTCTAA
Statistics
Matches: 213, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
294 1 0.00
295 53 0.25
296 157 0.74
297 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (295 bp):
TGAACCAACAGGCAGACGATTGATAAAGGAAGTCTCTCAGGACTAAGCCAACAGGCAAACATAGA
TAAAGAAGTTTCTCGGGCCTAAGCCAACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCTAAG
CTAACAGGCAAACAAAAGATAAAGAAGTCTCTCAGGTCTAAGTCGATAGGTAGACAATAGATAAA
GAAGTCTCCCAAGTCTAAGCCGATGGGTAGATGAAAGATAAAGAAGTCTCCTAGGTTTAAGCTGA
CGGGCAAATGAAAGATAATGAAAGTCTCTTGGGTC
Found at i:1775722 original size:84 final size:83
Alignment explanation
Indices: 1775151--1775723 Score: 325
Period size: 84 Copynumber: 6.8 Consensus size: 83
1775141 GCAGACGATT
* * * * * * ** *
1775151 GATAAAGGAAGTCTCTCAGGACTAAGCTAACAGGCAAACG-TAGATAAAGAAGTTTCTCGGGCCT
1 GATAAA-GAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTC-CTAGTCT
** * **
1775215 AAGCCAACGGGCAGATGATT
64 AAGCTGATGGGCAGATGAAA
* * * * *
1775235 GTTAAAGGAGTCTCTTGGGTCTAAGCTAACAGGCAGATGAAAGATAAAGAAGTCT-CTCAGGTCT
1 GATAAAGAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTCCT-A-GTCT
* * *
1775299 AAG-TCGATAGGTAGATGATA
64 AAGCT-GATGGGCAGATGAAA
* * ** * * * *
1775319 GATAAAGAAGTTTC-CTGGGTCTAAGCCGATGGGTAGATGAAAGATGAAGAAGTCTCCTAGGTTT
1 GATAAAGAAGTCTCTC-GGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTCCTA-GTCT
* *
1775383 AAGCTGACGGGCAAATGAAA
64 AAGCTGATGGGCAGATGAAA
* * * ** *
1775403 GATAATGAAAGTCTCTTGGGTCTGAA-CCAACAGGTAGACGATTGATAAAGGAAGTCTCTCGAGA
1 GATAAAG-AAGTCTCTCGGGTCT-AAGCCAACAGGCAGACGAAAGATAAA-GAAGTCTC-CTAG-
* ** * *
1775467 T-TGAGCCAAGGGGCAGA-CAATA
61 TCTAAGCTGATGGGCAGATGAA-A
* * * ** * * * *
1775489 GATAAAGAAGTCTTTCGGGCCTATGCCAACAGGCAGACGATTGTTAAAGGAGTCTCTTGAGTCTG
1 GATAAAGAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTCCT-AGTCTA
* * **
1775554 AGCTGATGGACAAACAAAA
65 AGCTGATGGGCAGATGAAA
* * * ** * *
1775573 GATAAAGAAGTCTCTCGAGTCTAAGTCGATGGGTAGAC-AATAGATAAAGAAGTCTCCCAAGTCT
1 GATAAAGAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAA-AGATAAAGAAGTCT-CCTAGTCT
*
1775637 AAGCTGATGGGTAGATGAAA
64 AAGCTGATGGGCAGATGAAA
* * * *
1775657 GATAAAGAAGTCTCACAGGTCTAAACCAACAGGCAGACGAAAGATGAAGAAGTCTCCTAGTTCTA
1 GATAAAGAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTCCTAG-TCTA
1775722 AG
65 AG
1775724 TCGACTGGAA
Statistics
Matches: 368, Mismatches: 99, Indels: 44
0.72 0.19 0.09
Matches are distributed among these distances:
82 1 0.00
83 33 0.09
84 231 0.63
85 71 0.19
86 29 0.08
87 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (83 bp):
GATAAAGAAGTCTCTCGGGTCTAAGCCAACAGGCAGACGAAAGATAAAGAAGTCTCCTAGTCTAA
GCTGATGGGCAGATGAAA
Found at i:1775973 original size:42 final size:42
Alignment explanation
Indices: 1775783--1776050 Score: 127
Period size: 42 Copynumber: 6.4 Consensus size: 42
1775773 ACAAACAAAG
* * * *
1775783 GATGAAGGAGTCTCCCGAGTCTGAGCCAACT-GGTAGATAAAA
1 GATGAAGAAGTCTCCCGGGTCTGAGTCAA-TGGGCAGATAAAA
* * * * * **
1775825 GATAAAGAAGTCTTCCGGGTCTAAGTCGATGGGCAGACGATTA
1 GATGAAGAAGTCTCCCGGGTCTGAGTCAATGGGCAGA-TAAAA
* * *
1775868 -ATG-A-AAGTCTCCCGGGTCTAAG-CTAATGGGCAAAAAAATA
1 GATGAAGAAGTCTCCCGGGTCTGAGTC-AATGGGCAGATAAA-A
* * * *
1775908 GAT-AATGAAGTATCCTGGCTCTGAGTCAATGGGCAGATGAAA
1 GATGAA-GAAGTCTCCCGGGTCTGAGTCAATGGGCAGATAAAA
* * ** * * *
1775950 GATGAAGAAGTCTCTCGGGTCTGAATCTGTAGGAAGACAAAA
1 GATGAAGAAGTCTCCCGGGTCTGAGTCAATGGGCAGATAAAA
* ** * * *
1775992 GAT-AACGAAAGTCTCCCAGGTCTGAACCGATGGGCAAATGAAA
1 GATGAA-G-AAGTCTCCCGGGTCTGAGTCAATGGGCAGATAAAA
* *
1776035 GATAAAGAACTCTCCC
1 GATGAAGAAGTCTCCC
1776051 CAATCAGAGC
Statistics
Matches: 166, Mismatches: 47, Indels: 26
0.69 0.20 0.11
Matches are distributed among these distances:
39 2 0.01
40 26 0.16
41 7 0.04
42 70 0.42
43 58 0.35
44 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (42 bp):
GATGAAGAAGTCTCCCGGGTCTGAGTCAATGGGCAGATAAAA
Found at i:1776036 original size:43 final size:42
Alignment explanation
Indices: 1775936--1776227 Score: 162
Period size: 43 Copynumber: 6.9 Consensus size: 42
1775926 CTCTGAGTCA
* * * * *
1775936 ATGGGCAGATGAAAGATGAAGAAGTCTCTCGGGTCTGAATCTG
1 ATGGGCAAATGAAAGATAAAGAAGTCTCCCAGGTCTGAA-CCG
* ** *
1775979 -TAGG-AAGACAAAAGATAACGAAAGTCTCCCAGGTCTGAACCG
1 ATGGGCAA-ATGAAAGATAAAG-AAGTCTCCCAGGTCTGAACCG
* * * * *
1776021 ATGGGCAAATGAAAGATAAAGAACTCTCCCCA-ATCAGAGCTG
1 ATGGGCAAATGAAAGATAAAGAAGTCT-CCCAGGTCTGAACCG
** * **
1776063 ATGGGCAAACAAAAGATGAAAGAAGTCTCCCTA-GTGTGAATTG
1 ATGGGCAAATGAAAGAT-AAAGAAGTCTCCC-AGGTCTGAACCG
* * * * * * *
1776106 ATAGGCATACGAAAGAAAAAAGAAGTCTCCTAGGTCAGAGCCG
1 ATGGGCAAATGAAAG-ATAAAGAAGTCTCCCAGGTCTGAACCG
* * * *
1776149 ATGAGCAGATGAAAGATGAAGGAAGTCTCCTAGGTCT-AAGCCG
1 ATGGGCAAATGAAAGAT-AAAGAAGTCTCCCAGGTCTGAA-CCG
* * * *
1776192 ACGGGCAAATGAAAGATGAAGAAGTTTCTCAGGTCT
1 ATGGGCAAATGAAAGATAAAGAAGTCTCCCAGGTCT
1776228 AAGCTGATGA
Statistics
Matches: 186, Mismatches: 52, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
41 1 0.01
42 60 0.32
43 122 0.66
44 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (42 bp):
ATGGGCAAATGAAAGATAAAGAAGTCTCCCAGGTCTGAACCG
Found at i:1776242 original size:42 final size:43
Alignment explanation
Indices: 1776127--1776242 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 43
1776117 AAAGAAAAAA
*
1776127 GAAGTCTCCTAGGTC-AGAGCCGATGAGCAGATGAAAGATGAAG
1 GAAGTCTCCTAGGTCTA-AGCCGATGAGCAAATGAAAGATGAAG
* *
1776170 GAAGTCTCCTAGGTCTAAGCCGACGGGCAAATGAAAGATGAA-
1 GAAGTCTCCTAGGTCTAAGCCGATGAGCAAATGAAAGATGAAG
* *
1776212 GAAGT-TTCTCAGGTCTAAGCTGATGAGCAAA
1 GAAGTCTCCT-AGGTCTAAGCCGATGAGCAAA
1776243 CGATTGATCA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 23 0.36
43 37 0.58
44 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.19
Consensus pattern (43 bp):
GAAGTCTCCTAGGTCTAAGCCGATGAGCAAATGAAAGATGAAG
Found at i:1776428 original size:83 final size:84
Alignment explanation
Indices: 1776314--1776512 Score: 210
Period size: 83 Copynumber: 2.4 Consensus size: 84
1776304 CCTAAGATAG
* ** *
1776314 AGCTAATGGGCAGACGATGGATGAAAAAGTCTC-CTAGGCCTAAGCC-ACTAGG-TAAATGATTG
1 AGCTGATGGGCAGACGAAAGATGAAAAAGTCTCTC-AGGCCTAAGCCGAC-AGGCTAAA-AATTG
* *
1776376 ATAAAGAAGT-TCCCGAGTTTA
63 ATAAAAAAGTCTCCCAAGTTTA
* * *
1776397 AGCTGATGGGCAAACGAAAGAT-AAAGAAGTCTCTCAGGTCTAAGCCGACGGGCTAAAAATTGAT
1 AGCTGATGGGCAGACGAAAGATGAAA-AAGTCTCTCAGGCCTAAGCCGACAGGCTAAAAATTGAT
**
1776461 AAAAAAGTCTTTCAAGTTTA
65 AAAAAAGTCTCCCAAGTTTA
* *
1776481 AGCCGATAGGCAGACGAAAGATGAAAAAGTCT
1 AGCTGATGGGCAGACGAAAGATGAAAAAGTCT
1776513 TTTGGGTCTG
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
82 3 0.03
83 50 0.52
84 40 0.42
85 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (84 bp):
AGCTGATGGGCAGACGAAAGATGAAAAAGTCTCTCAGGCCTAAGCCGACAGGCTAAAAATTGATA
AAAAAGTCTCCCAAGTTTA
Found at i:1776695 original size:43 final size:43
Alignment explanation
Indices: 1776591--1776748 Score: 140
Period size: 42 Copynumber: 3.7 Consensus size: 43
1776581 AAAGATATCG
* * *
1776591 AAAGTCTCTCAGGTCTAAACCGATGAGTAGACAAAAGAT-AAA
1 AAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGAAAGATGAAA
* * * * * *
1776633 GAAGTCTTTCAAGTTTGAGCCGACGGGTAGACGAAAGATGAAA
1 AAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGAAAGATGAAA
* * * * * *
1776676 AAAGTCTCTCGGGTCTGAGCTGATGGGTAGATGAAAGATG-AA
1 AAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGAAAGATGAAA
* * *
1776718 GAAGTCTCCCTGGTCTAAGCCGACGAGTAGA
1 AAAGTCTCTCAGGTCTAAGCCGACGAGTAGA
1776749 TGATTGATAA
Statistics
Matches: 91, Mismatches: 24, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
42 56 0.62
43 35 0.38
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (43 bp):
AAAGTCTCTCAGGTCTAAGCCGACGAGTAGACGAAAGATGAAA
Found at i:1777689 original size:42 final size:42
Alignment explanation
Indices: 1777643--1778416 Score: 236
Period size: 42 Copynumber: 18.3 Consensus size: 42
1777633 CAAACGATTA
* * *
1777643 ATAAAGGAGTCTCTTGGGTCTGAGCCGATGGGCAGACAAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * * ** * **
1777685 ATAAACAAGTCTCTCGGGTCTAAGTTGACGGGCCA-ACTATTG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGG-CAGACGAAAG
* * * * * * **
1777727 ATAACGAAGTCTCCTT-GGTCTAAACTGACAGGCAAAAAAAAAAG
1 ATAAAGAAGTCT-CTTGGGTCTGAGCCGACGGGC--AGACGAAAG
* * * * * * * *
1777771 ATAACGGAGTCTCTCGAGTTTGAGCCGATGGGTAGAGGAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * **** * * **
1777813 ATGAAGAAATCTCTCAAATCTGAGCCAACGGACAGATAAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * ** *
1777855 ATAATGAAAGTCTCTTGGGTCTGAACCGATAGGCAGATGAAAG
1 ATAAAG-AAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* ** ** * * *
1777898 ATAAA-AAGGTATCTCAGGTCTGAGTTGATGGGCAAATGAAAG
1 ATAAAGAA-GTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * * * *
1777940 ATGAAGGAAGTCTCGTGGGACTAAGCCGACGGGTAGACGAAAG
1 AT-AAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* ** *
1777983 ATAGAGAAGTCT-TTCGGGTCTGAGTTGACGGGCAGACGAATG
1 ATAAAGAAGTCTCTT-GGGTCTGAGCCGACGGGCAGACGAAAG
* ** * * * ** *
1778025 ACAAAGAAGTCTCTCAGGTTTAAGCCGACGGGCAAAAAAAAA
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * * * * * *
1778067 ATAACGGAGTCTCTTAGGCCTGAGTCGACAGGTAGACGAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * *** * * *
1778109 ATGAAA-AAGTCTC-TCGGTCTGAGCTGGTAGGCAAATGAAAT
1 AT-AAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* **
1778150 ATAATGGAA-TCT-TTGGAGTCTGAATCGACGGGCAGACGAAAG
1 ATAA-AGAAGTCTCTTGG-GTCTGAGCCGACGGGCAGACGAAAG
* ** ** * * *
1778192 ATAAAGAAGTATCTTGATTCAAAGCCAATGGGCAGACAAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
* * * * * *
1778234 ATGAAGGAAGACTCCCT-AGTCTGAACCGACAGGCAGACGAAAG
1 AT-AAAGAAGTCT-CTTGGGTCTGAGCCGACGGGCAGACGAAAG
*** * ** *
1778277 ATAAAGAAGTCTCCCAGGTCAGAGCCGACAAGCAGACAAAAG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
** * * * * *
1778319 ATAAAGAAAGTCTAC-CAGGTCTAAGCCAATGGGCAGATGAAAA
1 ATAAAG-AAGTCT-CTTGGGTCTGAGCCGACGGGCAGACGAAAG
* *** * * * **
1778362 ATGAAGAAGTCTCTCAAGTCTGAGTCGATGGGCAAACGATTG
1 ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
1778404 ATAAAGAAGTCTC
1 ATAAAGAAGTCTC
1778417 CCGGCTCTGA
Statistics
Matches: 516, Mismatches: 191, Indels: 50
0.68 0.25 0.07
Matches are distributed among these distances:
40 2 0.00
41 35 0.07
42 326 0.63
43 125 0.24
44 28 0.05
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (42 bp):
ATAAAGAAGTCTCTTGGGTCTGAGCCGACGGGCAGACGAAAG
Found at i:1778355 original size:43 final size:42
Alignment explanation
Indices: 1778213--1778374 Score: 125
Period size: 43 Copynumber: 3.8 Consensus size: 42
1778203 TCTTGATTCA
** * *
1778213 AAGCCAATGGGCAGACAAAAGATGAAGGAAGACTCCCTA-GTCT
1 AAGCCAACAGGCAGACAAAAGAT-AAAGAAGTCTCCC-AGGTCT
* *
1778256 GAA-CCGACAGGCAGACGAAAGATAAAGAAGTCTCCCAGGTC-
1 -AAGCCAACAGGCAGACAAAAGATAAAGAAGTCTCCCAGGTCT
* * *
1778297 AGAGCCGACAAGCAGACAAAAGATAAAGAAAGTCTACCAGGTCT
1 A-AGCCAACAGGCAGACAAAAGATAAAG-AAGTCTCCCAGGTCT
** * *
1778341 AAGCCAATGGGCAGATGAAAA-ATGAAGAAGTCTC
1 AAGCCAACAGGCAGA-CAAAAGATAAAGAAGTCTC
1778375 TCAAGTCTGA
Statistics
Matches: 96, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 42 0.44
43 44 0.46
44 7 0.07
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (42 bp):
AAGCCAACAGGCAGACAAAAGATAAAGAAGTCTCCCAGGTCT
Found at i:1779085 original size:127 final size:125
Alignment explanation
Indices: 1778809--1779111 Score: 306
Period size: 127 Copynumber: 2.4 Consensus size: 125
1778799 GGTCTAAGCT
** * * *
1778809 GATGGGCAGACAAAAGATAAAGAAGTCTCCCGGGTCTAAGCTAATGGGTCGACGATTGATAATGA
1 GATGGGCAGAGGAAAGATAAAGAAGTCT-CCGGGTCTAAGCTAATGGGTAGACGAATGATAAGGA
*
1778874 AGTCTCTCAGGTCAAAATCGACAGGTAAAAAAAAGATTACAGAGTCTCCCAAGTCTGAGTC
65 AGTCTCTCAAGTCAAAATCGACAGGTAAAAAAAAGATTACAGAGTCTCCCAAGTCTGAGTC
* * *
1778935 GATGGGCAGAGGAAAGATGAAGAAGTCTCTCGGGTCTAAGTTGATGGGTAGACGAAAT-ATGAAG
1 GATGGGCAGAGGAAAGATAAAGAAGTCTC-CGGGTCTAAGCTAATGGGTAGACG-AATGAT-AAG
* * * * ** * * *
1778999 GAAGTCT-TCTAAGTCTAAGTCGACGGGTAGACGAAAGA-TAGAGAAGTCTCCCAGGTCTGAGTT
63 GAAGTCTCTC-AAGTCAAAATCGACAGGTAAAAAAAAGATTACAG-AGTCTCCCAAGTCTGAGTC
* * ** * *
1779062 GATGGGTAGATGATTGATAAAGAAGTCTCCTGGGTCTAAGCCAATTGGTA
1 GATGGGCAGAGGAAAGATAAAGAAGTCTCC-GGGTCTAAGCTAATGGGTA
1779112 AAAAAAAAGA
Statistics
Matches: 144, Mismatches: 27, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
125 1 0.01
126 55 0.38
127 88 0.61
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (125 bp):
GATGGGCAGAGGAAAGATAAAGAAGTCTCCGGGTCTAAGCTAATGGGTAGACGAATGATAAGGAA
GTCTCTCAAGTCAAAATCGACAGGTAAAAAAAAGATTACAGAGTCTCCCAAGTCTGAGTC
Found at i:1779098 original size:42 final size:42
Alignment explanation
Indices: 1778772--1779101 Score: 184
Period size: 42 Copynumber: 7.8 Consensus size: 42
1778762 GAACTATTAT
* * * * *
1778772 GTAGATGAAAGATTAAGAGGTCTCTTGGGTCTAAG-CTGATGG
1 GTAGACGAAAGATAAAGAAGTCTCCTAGGTCTAAGTC-GATGG
* * ** *
1778814 GCAGACAAAAGATAAAGAAGTCTCCCGGGTCTAAG-CTAATGG
1 GTAGACGAAAGATAAAGAAGTCTCCTAGGTCTAAGTC-GATGG
* ** * * * **
1778856 GTCGACGATTGATAATGAAGTCT-CTCAGGTCAAAATCGACAG
1 GTAGACGAAAGATAAAGAAGTCTCCT-AGGTCTAAGTCGATGG
* ** * * * *
1778898 GTAAAAAAAAGATTACAG-AGTCTCCCAAGTCTGAGTCGATGG
1 GTAGACGAAAGA-TAAAGAAGTCTCCTAGGTCTAAGTCGATGG
* * * * *
1778940 GCAGAGGAAAGATGAAGAAGTCT-CTCGGGTCTAAGTTGATGG
1 GTAGACGAAAGATAAAGAAGTCTCCT-AGGTCTAAGTCGATGG
* * * * *
1778982 GTAGACGAAATATGAAGGAAGTCTTCTAAGTCTAAGTCGACGG
1 GTAGACGAAAGAT-AAAGAAGTCTCCTAGGTCTAAGTCGATGG
* * * *
1779025 GTAGACGAAAGATAGAGAAGTCTCCCAGGTCTGAGTTGATGG
1 GTAGACGAAAGATAAAGAAGTCTCCTAGGTCTAAGTCGATGG
* ** *
1779067 GTAGATGATTGATAAAGAAGTCTCCTGGGTCTAAG
1 GTAGACGAAAGATAAAGAAGTCTCCTAGGTCTAAG
1779102 CCAATTGGTA
Statistics
Matches: 208, Mismatches: 72, Indels: 16
0.70 0.24 0.05
Matches are distributed among these distances:
41 5 0.02
42 164 0.79
43 37 0.18
44 2 0.01
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (42 bp):
GTAGACGAAAGATAAAGAAGTCTCCTAGGTCTAAGTCGATGG
Found at i:1779361 original size:42 final size:43
Alignment explanation
Indices: 1779286--1779369 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
1779276 CAAGTAGATG
1779286 AAAGATGAAGGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
1 AAAGATGAAGGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
* * *
1779329 AAAGATGCA-GAAGTCT-CTTAGGTTTGAGCTGACGGGCAGAC
1 AAAGATGAAGGAAGTCTCCTT-GGTCTGAACTGACGGGCAGAC
1779370 GATTGATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.08
42 26 0.70
43 8 0.22
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (43 bp):
AAAGATGAAGGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
Found at i:1779383 original size:42 final size:42
Alignment explanation
Indices: 1779286--1779385 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 42
1779276 CAAGTAGATG
*
1779286 AAAGATGAAGGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
1 AAAGAT-AAAGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
** * * *
1779329 AAAGATGCAGAAGTCT-CTTAGGTTTGAGCTGACGGGCAGACG
1 AAAGATAAAGAAGTCTCCTT-GGTCTGAACTGACGGGCAGACA
**
1779371 ATTGATAAAGAAGTC
1 AAAGATAAAGAAGTC
1779386 ACTCAGGTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 3 0.07
42 37 0.80
43 6 0.13
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (42 bp):
AAAGATAAAGAAGTCTCCTTGGTCTGAACTGACGGGCAGACA
Found at i:1779563 original size:42 final size:42
Alignment explanation
Indices: 1779502--1779757 Score: 154
Period size: 42 Copynumber: 6.1 Consensus size: 42
1779492 GTAAAGGATT
* * * * * *
1779502 GATAAAGGAGTCTCCTAGGTTTGAGTCGATGGGTAGACGAAA
1 GATAAAGAAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
* *
1779544 GATAAAGAAGTCTCTTAGGTCTAAGCCGATGGCTAAACAAAA
1 GATAAAGAAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
* * * * * ** *
1779586 GATGAAGAAGTCT-TCTAGGTCTGAGTCAATAGGCAAATGAAT
1 GATAAAGAAGTCTCT-TAGGTCTGAGCCGATGGGTAAACAAAA
* * * ** *
1779628 GATAAAGAAGTCTCTCATGTCTAAGCCGGCGGGCAAACAAAA
1 GATAAAGAAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
* *** * * ** * * **
1779670 TATGGCGAAAGTCTCCTAGGTTTGAATCGATGAGTAGATGAAA
1 GATAAAG-AAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
* * *
1779713 GATAAAGAAGTCTCTTAGGTCTGGGCCGATGGGGAGACAAAA
1 GATAAAGAAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
1779755 GAT
1 GAT
1779758 GACGAAAGTC
Statistics
Matches: 150, Mismatches: 61, Indels: 6
0.69 0.28 0.03
Matches are distributed among these distances:
41 1 0.01
42 124 0.83
43 25 0.17
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.23
Consensus pattern (42 bp):
GATAAAGAAGTCTCTTAGGTCTGAGCCGATGGGTAAACAAAA
Found at i:1779753 original size:85 final size:85
Alignment explanation
Indices: 1779510--1779792 Score: 297
Period size: 85 Copynumber: 3.3 Consensus size: 85
1779500 TTGATAAAGG
* * *
1779510 AGTCTCCTAGGTTTGAGTCGATGGGTAGACGAAAGATAAAGAAGTCTCTTAGGTCTAAGCCGAT-
1 AGTCTCCTAGGTTTGAATCGATGAGTAGATGAAAGATAAAGAAGTCTCTTAGGTCTAAGCCGATG
*
1779574 GGCTAAACAAAAGATGAAG-A
66 GGC-AAACAAAAGATGACGAA
* * * * * * * * * **
1779594 AGTCTTCTAGGTCTGAGTCAAT-AGGCAAATGAATGATAAAGAAGTCTCTCATGTCTAAGCCGGC
1 AGTCTCCTAGGTTTGAATCGATGA-GTAGATGAAAGATAAAGAAGTCTCTTAGGTCTAAGCCGAT
* *
1779658 GGGCAAACAAAATATGGCGAA
65 GGGCAAACAAAAGATGACGAA
**
1779679 AGTCTCCTAGGTTTGAATCGATGAGTAGATGAAAGATAAAGAAGTCTCTTAGGTCTGGGCCGATG
1 AGTCTCCTAGGTTTGAATCGATGAGTAGATGAAAGATAAAGAAGTCTCTTAGGTCTAAGCCGATG
* *
1779744 GGGAGACAAAAGATGACGAA
66 GGCAAACAAAAGATGACGAA
*
1779764 AGTCTCCCTA-GTTT-AAGTCGACGAGTAGA
1 AGTCT-CCTAGGTTTGAA-TCGATGAGTAGA
1779793 CAAAAGATGA
Statistics
Matches: 160, Mismatches: 33, Indels: 11
0.78 0.16 0.05
Matches are distributed among these distances:
84 65 0.41
85 90 0.56
86 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (85 bp):
AGTCTCCTAGGTTTGAATCGATGAGTAGATGAAAGATAAAGAAGTCTCTTAGGTCTAAGCCGATG
GGCAAACAAAAGATGACGAA
Found at i:1779834 original size:42 final size:43
Alignment explanation
Indices: 1779747--1779827 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
1779737 GCCGATGGGG
* * * *
1779747 AGACAAAAGATGACGAAAGTCTCCCTAGTTTAAGTCGACGAGT
1 AGACAAAAGATGAAGAAAGTCTCCCGAGTCTAAGTCAACGAGT
*
1779790 AGACAAAAGATGAAGCAA-TCTCCCGAGTCTAAGTCAAC
1 AGACAAAAGATGAAGAAAGTCTCCCGAGTCTAAGTCAAC
1779828 AGGTAGATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (43 bp):
AGACAAAAGATGAAGAAAGTCTCCCGAGTCTAAGTCAACGAGT
Found at i:1779887 original size:42 final size:42
Alignment explanation
Indices: 1779841--1779937 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
1779831 TAGATGATTA
* * *
1779841 ATAAAGAAGTCTCCCTGGTCTAAGCTAATGGGCAGAAAAAAG
1 ATAAAGAAGTCTCCCAGGTCTAAGCCAATAGGCAGAAAAAAG
* * * * **
1779883 ATAAAAAAGTCTCTCAGGTCTGAGCCGATAGGCAGATGAAAG
1 ATAAAGAAGTCTCCCAGGTCTAAGCCAATAGGCAGAAAAAAG
*
1779925 ATGAAGAAGTCTC
1 ATAAAGAAGTCTC
1779938 TCGATTCCGA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (42 bp):
ATAAAGAAGTCTCCCAGGTCTAAGCCAATAGGCAGAAAAAAG
Found at i:1780092 original size:76 final size:75
Alignment explanation
Indices: 1779950--1780092 Score: 171
Period size: 76 Copynumber: 1.9 Consensus size: 75
1779940 GATTCCGAGT
* * ** * *
1779950 CGATGGGCCGACGATTGATAAAGAGGTCTCCAGGGTCTAAGCTGATGGGTAAACAAAGGATGAAG
1 CGATGGGCAGACGATTGATAAAGAAGTCTCCAGGGTCTAAGCTGACAGGCAAACAAAGGATAAAG
1780015 GAGTCTGAAC
66 GAGTCTGAAC
* * **
1780025 CGATGGGCAGATGATTGATAAAGGAAGTCTCCCGGGTCTGAA-CTGACAGGCAAACAATTGATAA
1 CGATGGGCAGACGATTGATAAA-GAAGTCTCCAGGGTCT-AAGCTGACAGGCAAACAAAGGATAA
1780089 AGGA
64 AGGA
1780093 AGTCCCTCGA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
75 20 0.36
76 34 0.61
77 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (75 bp):
CGATGGGCAGACGATTGATAAAGAAGTCTCCAGGGTCTAAGCTGACAGGCAAACAAAGGATAAAG
GAGTCTGAAC
Found at i:1780195 original size:42 final size:42
Alignment explanation
Indices: 1780149--1780236 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
1780139 TCCCGAGCCA
* *
1780149 AAGCCAACAAGCATATGATTGATAAAGGACTCTCTTAGGTCT
1 AAGCCAACAAGCATATGAATGATAAAGAACTCTCTTAGGTCT
* ** * * *
1780191 AAGCCGACGGGCATCTGAATGATAAAGAAGTCTCTTGGGTCT
1 AAGCCAACAAGCATATGAATGATAAAGAACTCTCTTAGGTCT
1780233 AAGC
1 AAGC
1780237 TGACGAGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (42 bp):
AAGCCAACAAGCATATGAATGATAAAGAACTCTCTTAGGTCT
Found at i:1780778 original size:43 final size:42
Alignment explanation
Indices: 1780606--1780814 Score: 131
Period size: 43 Copynumber: 5.0 Consensus size: 42
1780596 AAGTCTCCCA
* ** * *
1780606 GGTCTAAGCTGATGGGC-AACTAATTACTAAAGAAGTCCCTTG
1 GGTCTAAGCTGATGGGCAAACAAAAGA-TAACGAAGTCTCTTG
* * *
1780648 GGT-TAAGCTGATGGGCAAAAAAAAGATAACGGAGTCTTTTG
1 GGTCTAAGCTGATGGGCAAACAAAAGATAACGAAGTCTCTTG
* * * * * * * *
1780689 GGTCTGAA-CCGATAGACAGACGAAAGATGAAAGAAGGCTCTCG
1 GGTCT-AAGCTGATGGGCAAACAAAAGAT-AACGAAGTCTCTTG
* *
1780732 GGTCTAAGCTGGTGGGCAAACCAAAGATAACGAAAGTCTCTTG
1 GGTCTAAGCTGATGGGCAAACAAAAGATAACG-AAGTCTCTTG
* * * *
1780775 GGTCTGAA-CCG-TCGGGTAGACAAAAGATAAAGAAGTCTCT
1 GGTCT-AAGCTGAT-GGGCAAACAAAAGATAACGAAGTCTCT
1780815 CGAGTCTGAG
Statistics
Matches: 126, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
41 27 0.21
42 37 0.29
43 60 0.48
44 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (42 bp):
GGTCTAAGCTGATGGGCAAACAAAAGATAACGAAGTCTCTTG
Found at i:1780807 original size:85 final size:84
Alignment explanation
Indices: 1780633--1780821 Score: 220
Period size: 85 Copynumber: 2.2 Consensus size: 84
1780623 AACTAATTAC
* * * *
1780633 TAAAGAAGTCCCTTGGGT-TAAGCTGATGGGCAAAAAAAAGATAACGGAGTCTTTTGGGTCTGAA
1 TAAAGAAGTCTCTCGGGTCTAAGCTGATGGGCAAAAAAAAGATAACGAAGTCTCTTGGGTCTGAA
*
1780697 CCGATAGACAGACGAAAGA
66 CCGATAGACAGACAAAAGA
* * **
1780716 TGAAAGAAGGCTCTCGGGTCTAAGCTGGTGGGCAAACCAAAGATAACGAAAGTCTCTTGGGTCTG
1 T-AAAGAAGTCTCTCGGGTCTAAGCTGATGGGCAAAAAAAAGATAACG-AAGTCTCTTGGGTCTG
* **
1780781 AACCG-TCGGGTAGACAAAAGA
64 AACCGAT-AGACAGACAAAAGA
*
1780802 TAAAGAAGTCTCTCGAGTCT
1 TAAAGAAGTCTCTCGGGTCT
1780822 GAGTCAATGA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
83 1 0.01
84 14 0.16
85 43 0.49
86 30 0.34
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (84 bp):
TAAAGAAGTCTCTCGGGTCTAAGCTGATGGGCAAAAAAAAGATAACGAAGTCTCTTGGGTCTGAA
CCGATAGACAGACAAAAGA
Found at i:1781293 original size:84 final size:83
Alignment explanation
Indices: 1781205--1781420 Score: 213
Period size: 84 Copynumber: 2.6 Consensus size: 83
1781195 TAAGTCAATG
* * *
1781205 GGTAGAAGAAAGATGAAGAAGTCTCTTTGGTCTAAGTCGACGGGCAGACAAAAGATGAAAAAGTC
1 GGTAGAAGAAAGATAAAGAAGTCTCTTCGGTCTAAGCCGACGGGCAGACAAAAGATGAAAAAGTC
* *
1781270 ACCTGGGTTTGAGTCGAT
66 ACCTGGGTCTGAGCCGAT
* ** * ** * * *
1781288 AGGTAGATGATTGATAAAGAAGTCTC-TCGAGTCTAAGCCAATAGGCAAACAAAGGATGAAGAAG
1 -GGTAGAAGAAAGATAAAGAAGTCTCTTCG-GTCTAAGCCGACGGGCAGACAAAAGATGAAAAAG
* *
1781352 TCTCCTGTGTCTGAGCCGAT
64 TCACCTGGGTCTGAGCCGAT
* *
1781372 GGTAGACA-AAAGATAAAAAAGTCTC-TCGGGTCTGAGCCGACGGGCAGAC
1 GGTAGA-AGAAAGATAAAGAAGTCTCTTC-GGTCTAAGCCGACGGGCAGAC
1781421 GTTTGATAAA
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
83 39 0.38
84 65 0.62
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (83 bp):
GGTAGAAGAAAGATAAAGAAGTCTCTTCGGTCTAAGCCGACGGGCAGACAAAAGATGAAAAAGTC
ACCTGGGTCTGAGCCGAT
Found at i:1781307 original size:126 final size:123
Alignment explanation
Indices: 1781164--1781595 Score: 404
Period size: 126 Copynumber: 3.4 Consensus size: 123
1781154 AAGCCGACGA
* * * * *
1781164 GTAGATGATTGATAAAGAAATCTCTCGGGTCTAAGTCAATGGGTAGAAGAAAGATGAAGAAGTCT
1 GTAGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAGAAAAAAGATGAAGAAGTCT
* *
1781229 CTTTGGTCTAAGTCGACGGGCAGACAAAAGATGAAAAAGTCACCTGGGTTTGAGTCGATAG
66 C-CTGGTCTAAG-CGACGGGCAGACAAAAGATGAAAAAGTC-CCTGGGTTTGAGTCGATGG
* * * *
1781290 GTAGATGATTGATAAAGAAGTCTCTCGAGTCTAAGCCAATAGGCA-AACAAAGGATGAAGAAGTC
1 GTAGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAGAA-AAAAGATGAAGAAGTC
* * * * * * * *
1781354 TCCTGTGTCTGAGCCGA-TGGTAGACAAAAGATAAAAAAGTCTCTCGGGTCTGAGCCGACGG
65 TCCTG-GTCTAAG-CGACGGGCAGACAAAAGATGAAAAAGTCCCT-GGGTTTGAGTCGATGG
* * * * * *
1781415 GCAGACGTTTGATAAAGAAGTCTCTCGGGTCTAAACCGACGGGCAGAAAAAAGAT-AATGGAGTC
1 GTAGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAGAAAAAAGATGAA-GAAGTC
** * * * *
1781479 TCCCAAGTCTATGCTGACGGGCAGACAAAA-ATTGAAAAAGTCTCCTAGGTTTGAATCAATGG
65 T-CCTGGTCTAAGC-GACGGGCAGACAAAAGA-TGAAAAAGTC-CCTGGGTTTGAGTCGATGG
* * * * *
1781541 GTAAACGATTAATAAAGAAGTCTCCCGGGTCTAAGCCAAGGGGCAGACAAAAGAT
1 GTAGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAGAAAAAAGAT
1781596 AATAGAATTC
Statistics
Matches: 245, Mismatches: 51, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
124 5 0.02
125 94 0.38
126 144 0.59
127 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.21
Consensus pattern (123 bp):
GTAGACGATTGATAAAGAAGTCTCTCGGGTCTAAGCCAATGGGCAGAAAAAAGATGAAGAAGTCT
CCTGGTCTAAGCGACGGGCAGACAAAAGATGAAAAAGTCCCTGGGTTTGAGTCGATGG
Found at i:1781471 original size:42 final size:42
Alignment explanation
Indices: 1781129--1782369 Score: 188
Period size: 42 Copynumber: 29.4 Consensus size: 42
1781119 CAGGCAAATG
* * * * * **
1781129 AAAGATAAAGAAGTCCCCCGTGTCTAAGCCGACGAGTAGATG
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
** * * * * * *
1781171 ATTGATAAAGAAATCTCTCGGGTCTAAGTCAATGGGTAGAAG
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* ** * *
1781213 AAAGATGAAGAAGTCTCTTTGGTCTAAGTCGACGGGCAGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * ** * **
1781255 AAAGATGAAA-AAGTCAC-CTGGGTTTGAGTCGATAGGTAGATG
1 AAAGAT-AAAGAAGTCTCTC-GGGTCTAAGCCGACGGGCAGAAA
** * * **
1781297 ATTGATAAAGAAGTCTCTCGAGTCTAAGCCAATAGGCA-AACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAA-A
* * * * * * *
1781339 AAGGATGAAGAAGTCTC-CTGTGTCTGAGCCGA-TGGTAGACA
1 AAAGATAAAGAAGTCTCTC-GGGTCTAAGCCGACGGGCAGAAA
* * **
1781380 AAAGATAAAAAAGTCTCTCGGGTCTGAGCCGACGGGCAGACG
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
*** *
1781422 TTTGATAAAGAAGTCTCTCGGGTCTAAACCGACGGGCAGAAA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * ** * *
1781464 AAAGATAATGGAGTCTCCCAAGTCTATGCTGACGGGCAGACAA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGA-AA
* * * * * * *
1781507 AAA-TTGAAA-AAGTCTC-CTAGGTTTGAA-TCAATGGGTA-AACGA
1 AAAGAT-AAAGAAGTCTCTC-GGGTCT-AAGCCGACGGGCAGAA--A
** * * * *
1781549 TTA-ATAAAGAAGTCTCCCGGGTCTAAGCCAAGGGGCAGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * * * **
1781590 AAAGATAATAGAATTCTCCCGGGTTTGAA-TCGGCAGGCAGATT
1 AAAGATAA-AGAAGTCTCTCGGGTCT-AAGCCGACGGGCAGAAA
** * * * **
1781633 AAAGATAAAGAAGTCTCTTAGATCTGTA-CCGACGAGCAGATG
1 AAAGATAAAGAAGTCTCTCGGGTCT-AAGCCGACGGGCAGAAA
* * * * * * * *
1781675 AAAGATGAAGGAGGAT-TC-CTAGGTCTGAGCCGATGAGTAGAAG
1 AAAGAT-AAAGAAG-TCTCTC-GGGTCTAAGCCGACGGGCAGAAA
* * * * * * **
1781718 AAAGATAAAGAAAATCTCCCAGGTCTAAGTCGACAGGTAGATG
1 AAAGATAAAG-AAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * * *
1781761 AATGATAAAGGAAGTCTCTCGAGTCTAAGCTGATGGGTAGAGA
1 AAAGATAAA-GAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * * * ** *
1781804 AAAGATGAAA-AAATCACCCGGGTTTGAGTCGATAGGCAGAAG
1 AAAGAT-AAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
** * * * * *
1781846 ATTGATAAAGAAGTCTCCCAGGTCTAAGCCGATGGGTAGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * * * ** *
1781888 AAGGATAAAGAAGTCTCTTGTGTTTGAGCCAACGGGTGGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * * * * * * **
1781930 AAAGATAAAAAAGTTTCTCGAGTCTGAGTCGACAGCCAGACG
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
*** * * ** * *
1781972 TTTGATAAAGAAATCTCTCGGGTCTAAGTCGATAGGTAGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * ** * **
1782014 AAAGATAACAG-GGTCTCCCAAGTCTGAGCCGACGGGCAGATG
1 AAAGATAA-AGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
* * ** * * * **
1782056 AAAGTTGAAA-AAGTCTCCCAAGTTTGAGTCGACGGGCAGACG
1 AAAGAT-AAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
** * * * * *
1782098 ATTGATAAAGAAGTCTCTCGGGTCTATA-TCAACGAGTAGACA
1 AAAGATAAAGAAGTCTCTCGGGTCTA-AGCCGACGGGCAGAAA
* * * * * **
1782140 AAAGATAATAAAAGTCTCCCAGGTCTGAA-TCGATGGGCAGATG
1 AAAGATAA-AGAAGTCTCTCGGGTCT-AAGCCGACGGGCAGAAA
* * * * **
1782183 AAAGATAAAGAAGTCTCTCGGATCTGTA-CCAATGGGCAGACG
1 AAAGATAAAGAAGTCTCTCGGGTCT-AAGCCGACGGGCAGAAA
* * * * ** * *
1782225 AAAGATGAAGGAGGTCTTTCGAGTCTGTGCTGACGGGTA-AACA
1 AAAGAT-AAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAA-A
* * *** *
1782268 AAAGATAAAAAAATCTCTCGGGTCTAAGCCGATAAGCA-AACG
1 AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAA-A
* * ** * * *
1782310 AATGATAAAGGAAGTCTCCCAAGTCTAAACCGACAGGCAGACA
1 AAAGATAAA-GAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
1782353 AAAGATAAAGGAAGTCT
1 AAAGATAAA-GAAGTCT
1782370 GGAGTGAGAC
Statistics
Matches: 854, Mismatches: 301, Indels: 87
0.69 0.24 0.07
Matches are distributed among these distances:
40 1 0.00
41 50 0.06
42 567 0.66
43 226 0.26
44 10 0.01
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (42 bp):
AAAGATAAAGAAGTCTCTCGGGTCTAAGCCGACGGGCAGAAA
Found at i:1781742 original size:43 final size:43
Alignment explanation
Indices: 1781695--1781899 Score: 118
Period size: 43 Copynumber: 4.8 Consensus size: 43
1781685 GAGGATTCCT
*
1781695 AGGTCTGAGCCGATGAGTAGAAGAAAGATAAAGAAAATCTCCC
1 AGGTCTAAGCCGATGAGTAGAAGAAAGATAAAGAAAATCTCCC
* * * * * * *
1781738 AGGTCTAAGTCGA-CAGGTAGATGAATGATAAAGGAAGTCTCTC
1 AGGTCTAAGCCGATGA-GTAGAAGAAAGATAAAGAAAATCTCCC
* * * *
1781781 -GAGTCTAAGCTGATGGGTAG-AGAAAAGATGAA-AAAATCACCC
1 AG-GTCTAAGCCGATGAGTAGAAG-AAAGATAAAGAAAATCTCCC
* * * * * ** *
1781823 GGGTTTGAGTCGAT-AGGCAGAAGATTGATAAAG-AAGTCTCCC
1 AGGTCTAAGCCGATGA-GTAGAAGAAAGATAAAGAAAATCTCCC
* *
1781865 AGGTCTAAGCCGATGGGTAGACA-AAGGATAAAGAA
1 AGGTCTAAGCCGATGAGTAGA-AGAAAGATAAAGAA
1781900 GTCTCTTGTG
Statistics
Matches: 113, Mismatches: 38, Indels: 22
0.65 0.22 0.13
Matches are distributed among these distances:
42 55 0.49
43 58 0.51
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (43 bp):
AGGTCTAAGCCGATGAGTAGAAGAAAGATAAAGAAAATCTCCC
Found at i:1781884 original size:84 final size:86
Alignment explanation
Indices: 1781695--1781899 Score: 222
Period size: 85 Copynumber: 2.4 Consensus size: 86
1781685 GAGGATTCCT
* * * * *
1781695 AGGTCTGAGCCGATGAGTAGAAGAAAGATAAAGAAAATCTCCCAGGTCTAAGTCGACAGGTAGAT
1 AGGTCTAAGCCGATGGGTAGAAGAAAGATAAAGAAAATCACCCAGGTCTAAGTCGACAGGCAGAA
*
1781760 GAATGATAAAGGAAGTCTCTC
66 GAATGATAAAGGAAGTCTCCC
* * * * * *
1781781 -GAGTCTAAGCTGATGGGTAG-AGAAAAGATGAA-AAAATCACCCGGGTTTGAGTCGATAGGCAG
1 AG-GTCTAAGCCGATGGGTAGAAG-AAAGATAAAGAAAATCACCCAGGTCTAAGTCGACAGGCAG
*
1781843 AAGATTGATAAA-GAAGTCTCCC
64 AAGAATGATAAAGGAAGTCTCCC
*
1781865 AGGTCTAAGCCGATGGGTAGACA-AAGGATAAAGAA
1 AGGTCTAAGCCGATGGGTAGA-AGAAAGATAAAGAA
1781900 GTCTCTTGTG
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
84 33 0.34
85 40 0.41
86 24 0.25
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (86 bp):
AGGTCTAAGCCGATGGGTAGAAGAAAGATAAAGAAAATCACCCAGGTCTAAGTCGACAGGCAGAA
GAATGATAAAGGAAGTCTCCC
Found at i:1782030 original size:126 final size:126
Alignment explanation
Indices: 1781721--1782199 Score: 347
Period size: 126 Copynumber: 3.8 Consensus size: 126
1781711 GTAGAAGAAA
* * * * ** * * *
1781721 GATAAAGAAAATCTCCCAGGTCTAAGTCGACAGGTAGATGAATGATAAAGGAAGTCTCTCGAGTC
1 GATAAAG-AAGTCTCTCGGGTCTAAGTCGATAGGTAGACAAAAGATAAA-GAAGTCTCCCAAGTC
* ** * * * * ** * * *
1781786 TAAGCTGATGGGTAGAGAAAAGATGAAAAAA-TCACCCGGGTTTGAGTCGATAGGCAGAAGATT
64 TGAGCCAACGGGCAGACAAAAGAT-AAAAAAGTCTCCCAAGTCTGAGTCGACAGGCAGACGATT
* * * * * **** *
1781849 GATAAAGAAGTCTCCCAGGTCTAAGCCGATGGGTAGACAAAGGATAAAGAAGTCTCTTGTGTTTG
1 GATAAAGAAGTCTCTCGGGTCTAAGTCGATAGGTAGACAAAAGATAAAGAAGTCTCCCAAGTCTG
** * * * * *
1781914 AGCCAACGGGTGGACAAAAGATAAAAAAGTTTCTCGAGTCTGAGTCGACAGCCAGACGTTT
66 AGCCAACGGGCAGACAAAAGATAAAAAAGTCTCCCAAGTCTGAGTCGACAGGCAGACGATT
* *
1781975 GATAAAGAAATCTCTCGGGTCTAAGTCGATAGGTAGACAAAAGATAACAG-GGTCTCCCAAGTCT
1 GATAAAGAAGTCTCTCGGGTCTAAGTCGATAGGTAGACAAAAGATAA-AGAAGTCTCCCAAGTCT
* ** * * * *
1782039 GAGCCGACGGGCAGATGAAAGTTGAAAAAGTCTCCCAAGTTTGAGTCGACGGGCAGACGATT
65 GAGCCAACGGGCAGACAAAAGATAAAAAAGTCTCCCAAGTCTGAGTCGACAGGCAGACGATT
* *
1782101 GATAAAGAAGTCTCTCGGGTCTATA-TC-A-ACGAGTAGACAAAAGATAATAAAAGTCTCCCAGG
1 GATAAAGAAGTCTCTCGGGTCTA-AGTCGATA-G-GTAGACAAAAGATAA-AGAAGTCTCCCAAG
** * * ** *
1782163 TCTGAATCGATGGGCAGATGAAAGATAAAGAAGTCTC
62 TCTGAGCCAACGGGCAGACAAAAGATAAAAAAGTCTC
1782200 TCGGATCTGT
Statistics
Matches: 283, Mismatches: 62, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
124 1 0.00
125 8 0.03
126 190 0.67
127 77 0.27
128 7 0.02
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (126 bp):
GATAAAGAAGTCTCTCGGGTCTAAGTCGATAGGTAGACAAAAGATAAAGAAGTCTCCCAAGTCTG
AGCCAACGGGCAGACAAAAGATAAAAAAGTCTCCCAAGTCTGAGTCGACAGGCAGACGATT
Found at i:1782229 original size:85 final size:84
Alignment explanation
Indices: 1782045--1782230 Score: 210
Period size: 85 Copynumber: 2.2 Consensus size: 84
1782035 GTCTGAGCCG
* * * * * **
1782045 ACGGGCAGATGAAAGTTGAAAAAGTCTCCCAAGTTTGAGTCGACGGGCAGACGATTGATAAAGAA
1 ACGGGCAGACGAAAGATAAAAAAGTCTCCCAAGTCTGAATCGACGGGCAGACGAAAGATAAAGAA
* *
1782110 GTCTCTCGGGTCTATATCA
66 GTCTCTCGGATCTATACCA
* * * * * *
1782129 ACGAGTAGACAAAAGATAATAAAAGTCTCCCAGGTCTGAATCGATGGGCAGATGAAAGATAAAGA
1 ACGGGCAGACGAAAGATAA-AAAAGTCTCCCAAGTCTGAATCGACGGGCAGACGAAAGATAAAGA
*
1782194 AGTCTCTCGGATCTGTACCA
65 AGTCTCTCGGATCTATACCA
*
1782214 ATGGGCAGACGAAAGAT
1 ACGGGCAGACGAAAGAT
1782231 GAAGGAGGTC
Statistics
Matches: 81, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
84 13 0.16
85 68 0.84
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.20
Consensus pattern (84 bp):
ACGGGCAGACGAAAGATAAAAAAGTCTCCCAAGTCTGAATCGACGGGCAGACGAAAGATAAAGAA
GTCTCTCGGATCTATACCA
Found at i:1782990 original size:77 final size:77
Alignment explanation
Indices: 1782864--1783094 Score: 374
Period size: 77 Copynumber: 3.0 Consensus size: 77
1782854 TCAATACCAT
* * * * * *
1782864 CTAGTGGTCGTATGAA-GAGATATGATTGGGAACGTATGGGTTGCACCTTGCCCCAAAGAAACTA
1 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAACTA
1782928 GGCTTGGTGATG
66 GGCTTGGTGATG
1782940 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAACTA
1 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAACTA
1783005 GGCTTGGTGATG
66 GGCTTGGTGATG
* * *
1783017 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTTGGTTGCATCTTGCCCCAAGGAAATTA
1 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAACTA
1783082 GGCTTGGTGATG
66 GGCTTGGTGATG
1783094 C
1 C
1783095 ATCAATACTA
Statistics
Matches: 145, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
76 15 0.10
77 130 0.90
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.27
Consensus pattern (77 bp):
CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTGGGTTGCACCTTGCCCCAAGGAAACTA
GGCTTGGTGATG
Found at i:1783198 original size:89 final size:89
Alignment explanation
Indices: 1783017--1783592 Score: 730
Period size: 89 Copynumber: 6.4 Consensus size: 89
1783007 CTTGGTGATG
* * *
1783017 CTAGTGGTCGGATGAAGGGGATATGATTAGG-AATGTGTTGGTTGCATCTTGCCCCAAGGAAATT
1 CTAGTGGTTGGATGAAGGGGATATGATT-GGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAATT
*
1783081 AGGCTTGGTGATGCATCAATACTAT
65 AGGCTTGGTGATGCATCAATACCAT
* **
1783106 CTAGTGGTAGGATGAAGGGGATATGATTCGGAAATGTGTTGGCTGCACCTTGCCTTAAGGAAATT
1 CTAGTGGTTGGATGAAGGGGATATGATT-GGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAATT
*
1783171 AGGCTTAGTGATGCATCAATA-CAT
65 AGGCTTGGTGATGCATCAATACCAT
* * * *
1783195 CTAGTTGTTAGA-GAAAGGGGATATGATTAGGAAATGTGTTGGTTGCACCTTGCCCTAAGGAAAT
1 CTAGTGGTTGGATG-AAGGGGATATGATT-GGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAAT
*
1783259 TAGGCTTAGTGATGCATCAATACCAT
64 TAGGCTTGGTGATGCATCAATACCAT
* * * * * * * * * *
1783285 CTAGTGGTTGGATAAAAGAGATATGATTGGGAATATGTAGGCTTCACCTTACCCTAAAGAAATTA
1 CTAGTGGTTGGATGAAGGGGATATGATTGGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAATTA
*
1783350 GGCTTGGTGATGCATCAATAGCAT
66 GGCTTGGTGATGCATCAATACCAT
* * * * * *
1783374 CTAGTGGTTGGAAGAAGGGAATATGATTGGGAATGTATGGGCTGCACCTTGCCCCACA-AAAATT
1 CTAGTGGTTGGATGAAGGGGATATGATTGGAAATGTGTTGGCTGCACCTTGCCCCA-AGGAAATT
*
1783438 AGGCTTGGTGATGGATCAATACCAT
65 AGGCTTGGTGATGCATCAATACCAT
* * *
1783463 CTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGTTGGTTGCACCTTGCCTCAAGGAAATT
1 CTAGTGGTTGGATGAAGGGGATATGATT-GGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAATT
*
1783528 AGACTTGGTGATGCATCAATACCAGT
65 AGGCTTGGTGATGCATCAATACCA-T
1783554 C-AGTGGTTGGATGAAGGGGATATGATTGGAAAATGTGTT
1 CTAGTGGTTGGATGAAGGGGATATGATTGG-AAATGTGTT
1783593 TTCCTTGAAG
Statistics
Matches: 424, Mismatches: 54, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
88 1 0.00
89 263 0.62
90 158 0.37
91 2 0.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (89 bp):
CTAGTGGTTGGATGAAGGGGATATGATTGGAAATGTGTTGGCTGCACCTTGCCCCAAGGAAATTA
GGCTTGGTGATGCATCAATACCAT
Found at i:1783377 original size:179 final size:177
Alignment explanation
Indices: 1783017--1783592 Score: 718
Period size: 179 Copynumber: 3.2 Consensus size: 177
1783007 CTTGGTGATG
* *
1783017 CTAGTGGTCGGATG-AAGGGGATATGATTAGG-AATGTGTTGGTTGCATCTTGCCCCAAGGAAAT
1 CTAGTGGTTGGA-GAAAGGGGATATGATT-GGAAATGTGTTGGTTGCACCTTGCCCCAAGGAAAT
* * * *
1783080 TAGGCTTGGTGATGCATCAATACTATCTAGTGGTAGGATGAAGGGGATATGATTCGGAAATGTGT
64 TAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGT
* * *
1783145 TGGCTGCACCTTGCCTTAAGGAAATTAGGCTTAGTGATGCATCAATACAT
129 TGGCTTCACCTT-CCCTAAGGAAATTAGGCTTGGTGATGCATCAATACAT
* * *
1783195 CTAGTTGTTAGAGAAAGGGGATATGATTAGGAAATGTGTTGGTTGCACCTTGCCCTAAGGAAATT
1 CTAGTGGTTGGAGAAAGGGGATATGATT-GGAAATGTGTTGGTTGCACCTTGCCCCAAGGAAATT
* * * * * *
1783260 AGGCTTAGTGATGCATCAATACCATCTAGTGGTTGGATAAAAGAGATATGATT-GGGAATATGTA
65 AGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGTT
*
1783324 GGCTTCACCTTACCCTAAAGAAATTAGGCTTGGTGATGCATCAATAGCAT
130 GGCTTCACCTT-CCCTAAGGAAATTAGGCTTGGTGATGCATCAATA-CAT
* * * * * *
1783374 CTAGTGGTTGGA-AGAAGGGAATATGATTGGGAATGTATGGGCTGCACCTTGCCCCACA-AAAAT
1 CTAGTGGTTGGAGA-AAGGGGATATGATTGGAAATGTGTTGGTTGCACCTTGCCCCA-AGGAAAT
*
1783437 TAGGCTTGGTGATGGATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGT
64 TAGGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGT
* *
1783502 TGG-TTGCACCTTGCCTCAAGGAAATTAGACTTGGTGATGCATCAATACCAGT
129 TGGCTT-CACCTTCCCT-AAGGAAATTAGGCTTGGTGATGCATCAATA-CA-T
1783554 C-AGTGGTTGGATG-AAGGGGATATGATTGGAAAATGTGTT
1 CTAGTGGTTGGA-GAAAGGGGATATGATTGG-AAATGTGTT
1783593 TTCCTTGAAG
Statistics
Matches: 343, Mismatches: 43, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
177 1 0.00
178 157 0.46
179 177 0.52
180 8 0.02
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (177 bp):
CTAGTGGTTGGAGAAAGGGGATATGATTGGAAATGTGTTGGTTGCACCTTGCCCCAAGGAAATTA
GGCTTGGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGGGATATGATTAGGAAATATGTTG
GCTTCACCTTCCCTAAGGAAATTAGGCTTGGTGATGCATCAATACAT
Found at i:1783494 original size:268 final size:269
Alignment explanation
Indices: 1783017--1783582 Score: 779
Period size: 268 Copynumber: 2.1 Consensus size: 269
1783007 CTTGGTGATG
* * * * * * *
1783017 CTAGTGGTCGGATGAAGGGGATATGATTAGGAATGTGTTGGTTGCATCTTGCCCCAAGGAAATTA
1 CTAGTGGTTGGATGAAGGGGATATGATTGGGAATATGTAGGTTGCACCTTACCCCAAAGAAATTA
* * * *
1783082 GGCTTGGTGATGCATCAATACTATCTAGTGGTAGGATGAAGGGGATATGATTCGGAAATGTGTTG
66 GGCTTGGTGATGCATCAATACTATCTAGTGGTAGGAAGAAGGGAATATGATTCGGAAATGTATGG
** * *
1783147 GCTGCACCTTGCCTTAAGGAAATTAGGCTTAGTGATGCATCAATACATCTAGTTGTTAGAGAAAG
131 GCTGCACCTTGCCCCAAGAAAATTAGGCTTAGTGATGCATCAATACATCTAGTGGTTAGAGAAAG
* *
1783212 GGGATATGATTAGGAAATGTGTTGGTTGCACCTTGCC-CTAAGGAAATTAGGCTTAGTGATGCAT
196 GGGATATGATTAGGAAATATGTTGGTTGCACCTTGCCTC-AAGGAAATTAGACTTAGTGATGCAT
1783276 CAATACCA-T
260 CAATACCAGT
* * * *
1783285 CTAGTGGTTGGATAAAAGAGATATGATTGGGAATATGTAGGCTT-CACCTTACCCTAAAGAAATT
1 CTAGTGGTTGGATGAAGGGGATATGATTGGGAATATGTAGG-TTGCACCTTACCCCAAAGAAATT
* *
1783349 AGGCTTGGTGATGCATCAATAGC-ATCTAGTGGTTGGAAGAAGGGAATATGATT-GGGAATGTAT
65 AGGCTTGGTGATGCATCAATA-CTATCTAGTGGTAGGAAGAAGGGAATATGATTCGGAAATGTAT
* * *
1783412 GGGCTGCACCTTGCCCCACA-AAAATTAGGCTTGGTGATGGATCAATACCATCTAGTGGTTGGAT
129 GGGCTGCACCTTGCCCCA-AGAAAATTAGGCTTAGTGATGCATCAATA-CATCTAGTGGTTAGA-
*
1783476 G-AAGGGGATATGATTAGGAAATATGTTGGTTGCACCTTGCCTCAAGGAAATTAGACTTGGTGAT
191 GAAAGGGGATATGATTAGGAAATATGTTGGTTGCACCTTGCCTCAAGGAAATTAGACTTAGTGAT
1783540 GCATCAATACCAGT
256 GCATCAATACCAGT
1783554 C-AGTGGTTGGATGAAGGGGATATGATTGG
1 CTAGTGGTTGGATGAAGGGGATATGATTGG
1783583 AAAATGTGTT
Statistics
Matches: 261, Mismatches: 30, Indels: 14
0.86 0.10 0.05
Matches are distributed among these distances:
267 47 0.18
268 207 0.79
269 7 0.03
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (269 bp):
CTAGTGGTTGGATGAAGGGGATATGATTGGGAATATGTAGGTTGCACCTTACCCCAAAGAAATTA
GGCTTGGTGATGCATCAATACTATCTAGTGGTAGGAAGAAGGGAATATGATTCGGAAATGTATGG
GCTGCACCTTGCCCCAAGAAAATTAGGCTTAGTGATGCATCAATACATCTAGTGGTTAGAGAAAG
GGGATATGATTAGGAAATATGTTGGTTGCACCTTGCCTCAAGGAAATTAGACTTAGTGATGCATC
AATACCAGT
Found at i:1787082 original size:13 final size:13
Alignment explanation
Indices: 1787064--1787090 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1787054 ACAGAGATCA
1787064 AATGTATCGATAC
1 AATGTATCGATAC
1787077 AATGTATCGATAC
1 AATGTATCGATAC
1787090 A
1 A
1787091 TTTGAGTAAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1787151 original size:13 final size:13
Alignment explanation
Indices: 1787129--1787186 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1787119 GGCAGTAGCT
*
1787129 TTGTAACGATACA
1 TTGTATCGATACA
1787142 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
1787158 CTTATGTATCGATACA
1 --T-TGTATCGATACA
1787174 TTGTATCGATACA
1 TTGTATCGATACA
1787187 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1787167 original size:19 final size:18
Alignment explanation
Indices: 1787143--1787205 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1787133 AACGATACAT
1787143 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1787162 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1787175 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1787194 TGTATCGATACA
1 TGTATCGATACA
1787206 GTTATGGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1787176 original size:32 final size:32
Alignment explanation
Indices: 1787130--1787205 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
1787120 GCAGTAGCTT
*
1787130 TGTAACGATACATTGTATCGATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
1787162 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
1787194 TGTATCGATACA
1 TGTATCGATACA
1787206 GTTATGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:1787872 original size:88 final size:86
Alignment explanation
Indices: 1787706--1788010 Score: 263
Period size: 88 Copynumber: 3.5 Consensus size: 86
1787696 TACGCAATTG
* * ** * * * *
1787706 CCAATGTTATCT-GAATGCAAATGCATGTAAAATGATATAAATGCAAGCATCAACAAATAGGCAA
1 CCAATGTCATCTAAAATGCAAATG--TGTAAAACAATACAAATACAAGCATCAATAAAGAGGCAA
1787770 ACGCATATGCAATGATGCAAATA
64 ACGCATATGCAATGATGCAAATA
* ** * * * *
1787793 CCATTGTCATCTAAAATGCAAATGTGCCTAAAACAATGTAGATACAGGCATCAGTAAAGTGGCAA
1 CCAATGTCATCTAAAATGCAAATGTG--TAAAACAATACAAATACAAGCATCAATAAAGAGGCAA
* ** *
1787858 ATGCATATTAAATGATGCAAATG
64 ACGCATATGCAATGATGCAAATA
* * ** * *
1787881 CCAATGTTATCT-GAATGCAAATGCATGTAAAATGATACAAATGCAAGCATTAATAAAGAGGCAA
1 CCAATGTCATCTAAAATGCAAATG--TGTAAAACAATACAAATACAAGCATCAATAAAGAGGCAA
1787945 ACGCATATGCAATGATGCAAATA
64 ACGCATATGCAATGATGCAAATA
* * * *
1787968 CCACTGCCATCTAAAATGCAAATGTAGGTGAGACAATACAAAT
1 CCAATGTCATCTAAAATGCAAATGT--GTAAAACAATACAAAT
1788011 GCATATGAAA
Statistics
Matches: 168, Mismatches: 42, Indels: 15
0.75 0.19 0.07
Matches are distributed among these distances:
86 3 0.02
87 75 0.45
88 88 0.52
89 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (86 bp):
CCAATGTCATCTAAAATGCAAATGTGTAAAACAATACAAATACAAGCATCAATAAAGAGGCAAAC
GCATATGCAATGATGCAAATA
Found at i:1787877 original size:20 final size:20
Alignment explanation
Indices: 1787854--1787925 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
1787844 CAGTAAAGTG
*
1787854 GCAAATGCATATTAAATGAT
1 GCAAATGCATGTTAAATGAT
**
1787874 GCAAATGCCAATGTTATCTGAAT
1 GCAAATG-C-ATGTTAAATG-AT
*
1787897 GCAAATGCATGTAAAATGAT
1 GCAAATGCATGTTAAATGAT
*
1787917 ACAAATGCA
1 GCAAATGCA
1787926 AGCATTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 17 0.40
21 8 0.19
22 8 0.19
23 9 0.21
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (20 bp):
GCAAATGCATGTTAAATGAT
Found at i:1787944 original size:87 final size:87
Alignment explanation
Indices: 1787699--1787966 Score: 306
Period size: 87 Copynumber: 3.1 Consensus size: 87
1787689 TATTAAGTAC
* * *
1787699 GCAATTGCCAATGTTATCTGAATGCAAATGCATGTAAAATGATATAAATGCAAGCATCAACAAAT
1 GCAAATGCCAATGTTATCTGAATGCAAATGCATGTAAAATGATATAAATGCAAGCATCAATAAAG
*
1787764 AGGCAAACGCATATGCAATGAT
66 AGGCAAACGCATATGAAATGAT
* * * * ** * * * * *
1787786 GCAAATACCATTGTCATCTAAAATGCAAATG--TGCCTAAAACAATGTAGATACAGGCATCAGTA
1 GCAAATGCCAATGTTATCT-GAATGCAAATGCATG--TAAAATGATATAAATGCAAGCATCAATA
* * *
1787849 AAGTGGCAAATGCATATTAAATGAT
63 AAGAGGCAAACGCATATGAAATGAT
* *
1787874 GCAAATGCCAATGTTATCTGAATGCAAATGCATGTAAAATGATACAAATGCAAGCATTAATAAAG
1 GCAAATGCCAATGTTATCTGAATGCAAATGCATGTAAAATGATATAAATGCAAGCATCAATAAAG
*
1787939 AGGCAAACGCATATGCAATGAT
66 AGGCAAACGCATATGAAATGAT
1787961 GCAAAT
1 GCAAAT
1787967 ACCACTGCCA
Statistics
Matches: 141, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
86 2 0.01
87 71 0.50
88 66 0.47
89 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.24
Consensus pattern (87 bp):
GCAAATGCCAATGTTATCTGAATGCAAATGCATGTAAAATGATATAAATGCAAGCATCAATAAAG
AGGCAAACGCATATGAAATGAT
Found at i:1787945 original size:175 final size:174
Alignment explanation
Indices: 1787664--1787992 Score: 550
Period size: 175 Copynumber: 1.9 Consensus size: 174
1787654 ATACAAATAT
* * *
1787664 AGGCATTAGTAAAGTGACAAATGCATATTAAGTACGCAATTGCCAATGTTATCTGAATGCAAATG
1 AGGCATCAGTAAAGTGACAAATGCATATTAAATACGCAAATGCCAATGTTATCTGAATGCAAATG
* *
1787729 CATGTAAAATGATATAAATGCAAGCATCAACAAATAGGCAAACGCATATGCAATGATGCAAATAC
66 CATGTAAAATGATACAAATGCAAGCATCAACAAAGAGGCAAACGCATATGCAATGATGCAAATAC
* *
1787794 CATTGTCATCTAAAATGCAAATGTGCCTAAAACAATGTAGATAC
131 CACTGCCATCTAAAATGCAAATGTGCCTAAAACAATGTAGATAC
* *
1787838 AGGCATCAGTAAAGTGGCAAATGCATATTAAATGATGCAAATGCCAATGTTATCTGAATGCAAAT
1 AGGCATCAGTAAAGTGACAAATGCATATTAAAT-ACGCAAATGCCAATGTTATCTGAATGCAAAT
* *
1787903 GCATGTAAAATGATACAAATGCAAGCATTAATAAAGAGGCAAACGCATATGCAATGATGCAAATA
65 GCATGTAAAATGATACAAATGCAAGCATCAACAAAGAGGCAAACGCATATGCAATGATGCAAATA
1787968 CCACTGCCATCTAAAATGCAAATGT
130 CCACTGCCATCTAAAATGCAAATGT
1787993 AGGTGAGACA
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
174 30 0.21
175 113 0.79
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (174 bp):
AGGCATCAGTAAAGTGACAAATGCATATTAAATACGCAAATGCCAATGTTATCTGAATGCAAATG
CATGTAAAATGATACAAATGCAAGCATCAACAAAGAGGCAAACGCATATGCAATGATGCAAATAC
CACTGCCATCTAAAATGCAAATGTGCCTAAAACAATGTAGATAC
Found at i:1792891 original size:153 final size:155
Alignment explanation
Indices: 1792675--1793094 Score: 542
Period size: 153 Copynumber: 2.7 Consensus size: 155
1792665 TGAAAATTCT
* * * *
1792675 CCTAGGGGATACCTTCGACGTAGATGTTCCCAATACCCCTAAAGGACTTAAAAAGGATTTTAAAA
1 CCTAGGGGATACCTTCGACGTAGAAGTACCCGATA-CCCTAAAGGACTTAAAAAGAATTTTAAAA
* * ** *
1792740 GGGAAGAACCTATCCTAAATATCTGCCTTTAGCGTAAAAGCAGACCCAGGGATAACCTAGGACTC
65 GGGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCAGACCCAGGGATAACCTAGGACTC
*
1792805 GATTCT-AGAAAA-TAAC-GAAATGCC
130 GATTCTAAAAAAATTAACAG-AATGCC
* * * *
1792829 CCTAGGGGATACTTTCGACGTAAAAGTACCTGATACCCTAAAGAACTTAAAAAGAATTTTAAAAG
1 CCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCTAAAGGACTTAAAAAGAATTTTAAAAG
* ** * * *
1792894 GGATGAACCTATCCTAAATATATACCAACGGCATAAAAGCAAACCTAGTGATAACCTAGGACTCG
66 GGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCAGACCCAGGGATAACCTAGGACTCG
* *
1792959 GTTCTAAAAAAATTATCAGAATGCC
131 ATTCTAAAAAAATTAACAGAATGCC
* *
1792984 CCTAGGGGATACCTTCGACATAGAATTACCCGATACCCTTAAAGGACTTAAAAAGAATTTATAGA
1 CCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCC-TAAAGGACTTAAAAAGAATTT-TA-A
*
1793049 AA-GGATGAACCTATCCTAAATGTCTACCTTCGGCATAAAAGCAGAC
63 AAGGGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCAGAC
1793095 TCGACAATGA
Statistics
Matches: 227, Mismatches: 33, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
153 86 0.38
154 34 0.15
155 42 0.19
156 21 0.09
157 41 0.18
158 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (155 bp):
CCTAGGGGATACCTTCGACGTAGAAGTACCCGATACCCTAAAGGACTTAAAAAGAATTTTAAAAG
GGATGAACCTATCCTAAATATCTACCTTCGGCATAAAAGCAGACCCAGGGATAACCTAGGACTCG
ATTCTAAAAAAATTAACAGAATGCC
Found at i:1794777 original size:12 final size:12
Alignment explanation
Indices: 1794762--1794805 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
1794752 TCCTTGAATT
1794762 TTTTTTCTCTCC
1 TTTTTTCTCTCC
* * *
1794774 TTTTTACTCACT
1 TTTTTTCTCTCC
1794786 TTTTTTCTCT-C
1 TTTTTTCTCTCC
1794797 TTTTTTCTC
1 TTTTTTCTC
1794806 CTTGTTGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTCTCTCC
Found at i:1794941 original size:19 final size:18
Alignment explanation
Indices: 1794917--1794960 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
1794907 AAGTCTCCAA
*
1794917 TTTCTTTTTTTTATGACAT
1 TTTCTTATTTTTATG-CAT
1794936 TTTCTTATTTTTATGCAT
1 TTTCTTATTTTTATGCAT
1794954 TTT-TTAT
1 TTTCTTAT
1794961 GAGATTTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.17
18 6 0.25
19 14 0.58
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTCTTATTTTTATGCAT
Found at i:1795675 original size:165 final size:166
Alignment explanation
Indices: 1795449--1795872 Score: 411
Period size: 165 Copynumber: 2.6 Consensus size: 166
1795439 GGAAGCATGG
* * * *
1795449 AAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAAAACTTATTTAAT-AT
1 AAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATGAAATTTTCAAAAATGATTTAATGAT
*
1795513 GAAATAAATAATAATATTTGATGAATTTTAAAAA-TTAAAAACCAAGAAAAAT-CTCCCCG-AAA
66 G-AATAAATAATAATATTTGAAGAATTTTAAAAATTTAAAAACCAAG-AAAATCCT-CCCGAAAA
*
1795575 AATTTACGGAGTAGAAAACTCCGTATTTCAAAAACAAGC
128 AATTTACGGAGAAGAAAACTCCGTATTTCAAAAACAAGC
* * * *
1795614 AAATTTC-AAGGAAAAATTCAAAAACTCATGAAAATGAATTAAATTTTCAAAAATGATTTAATGG
1 AAATTTCAAAGAAAAAATTC-AAAACTCATGAAAATAAATGAAATTTTCAAAAATGATTTAATGA
* * * * * *
1795678 TGATTAAATAGTAATATTTGAAGAATTTTAAAAATTTTAAACCCATGAAAATCCTCTCGAAAAAA
65 TGAATAAATAATAATATTTGAAGAATTTTAAAAATTTAAAAACCAAGAAAATCCTCCCGAAAAAA
* *
1795743 TTTACGGAGAAGAAAAC-CTCGTAATTTGAAAATAGAAG-
130 TTTACGGAGAAGAAAACTC-CGT-ATTTCAAAA-ACAAGC
* * * * * * * * *
1795781 GAATTCCAAA-AGAAAA-TCAATAATTCA-AAAAATAAAAGGAATTTTTCAAAAATAATTTGATG
1 AAATTTCAAAGAAAAAATTCAA-AACTCATGAAAAT-AAATGAAATTTTCAAAAATGATTTAATG
* * *
1795843 A-GAATTAAATGATTATATTTGAAAAATTTT
64 ATGAA-TAAATAATAATATTTGAAGAATTTT
1795873 GATGTTTGAA
Statistics
Matches: 211, Mismatches: 36, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
164 11 0.05
165 90 0.43
166 87 0.41
167 17 0.08
168 6 0.03
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (166 bp):
AAATTTCAAAGAAAAAATTCAAAACTCATGAAAATAAATGAAATTTTCAAAAATGATTTAATGAT
GAATAAATAATAATATTTGAAGAATTTTAAAAATTTAAAAACCAAGAAAATCCTCCCGAAAAAAT
TTACGGAGAAGAAAACTCCGTATTTCAAAAACAAGC
Found at i:1798326 original size:26 final size:26
Alignment explanation
Indices: 1798290--1798345 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
1798280 TTTCTCCATC
*
1798290 GTTGGGCATATTCTCTAAATGATTTA
1 GTTGGGCATATTCTCTAAATGATTCA
* *
1798316 GTTGGGTATATTCTTTAAATGATTCA
1 GTTGGGCATATTCTCTAAATGATTCA
1798342 GTTG
1 GTTG
1798346 ACTTCTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.21, T:0.45
Consensus pattern (26 bp):
GTTGGGCATATTCTCTAAATGATTCA
Found at i:1803602 original size:137 final size:141
Alignment explanation
Indices: 1803356--1803751 Score: 478
Period size: 137 Copynumber: 2.8 Consensus size: 141
1803346 AACCTTAAAG
* * * *
1803356 GACTTAAAAATGAAGAGGTATAAACTTATCCTAAATGTACACCTTAGGCATAGAAGCAAACCCGA
1 GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAGAAGCAGACCTGG
* * ** *
1803421 TGATAACCTAGGACTCGGTTGTAGGAAAATTAATAAAATGCCTTTAGAGGATACCTTTAATGTAA
66 TGATAACCTAGGACTCGATTTTAAAAAAATTACTAAAATGCCTTTAGAGGATACCTTTAATGTAA
1803486 AAG-T-A-TC-
131 AAGATAACTCA
1803493 GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAGAAGCAGACCTGG
1 GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAGAAGCAGACCTGG
* *
1803558 TGATAACCTAGGAGTCGATTTTAAAAAAATTACTAAAATGCCTTTAGAGGATACCTTTGATGTAA
66 TGATAACCTAGGACTCGATTTTAAAAAAATTACTAAAATGCCTTTAGAGGATACCTTTAATGTAA
1803623 AAGTATCCTAATAACTCTAAA
131 AAG-------ATAACTC---A
* * * * **
1803644 GGACTTAAAAAGGAAAAGGTATGAACCTATCCTAAATGTACACCTTCA-GCATAAAAGTGGACCT
1 -GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTT-AGGCATAGAAGCAGACCT
* *
1803708 AGTGATAACATAGGACTCGATTTTAAAAAAATTACTAAAATGCC
64 GGTGATAACCTAGGACTCGATTTTAAAAAAATTACTAAAATGCC
1803752 CCTAAAAGAT
Statistics
Matches: 223, Mismatches: 20, Indels: 17
0.86 0.08 0.07
Matches are distributed among these distances:
137 122 0.55
145 1 0.00
146 1 0.00
147 2 0.01
152 96 0.43
153 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (141 bp):
GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAGAAGCAGACCTGG
TGATAACCTAGGACTCGATTTTAAAAAAATTACTAAAATGCCTTTAGAGGATACCTTTAATGTAA
AAGATAACTCA
Found at i:1803806 original size:152 final size:152
Alignment explanation
Indices: 1803493--1803805 Score: 427
Period size: 152 Copynumber: 2.1 Consensus size: 152
1803483 TAAAAGTATC
* * * *
1803493 GACTTAAAAATGAAGAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAGAAGCAGACCTGG
1 GACTTAAAAAGGAAAAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAAAAGCAGACCTAG
* * ** * * *
1803558 TGATAACCTAGGAGTCGATTTTAAAAAAATTACTAAAATGCCTTTAGAGGATACCTTTGATGTAA
66 TGATAACATAGGACTCGATTTTAAAAAAATTACTAAAATGCCCCTAAAAGATACCTTTGACGTAA
1803623 AAGTATCCTAATAACTCTAAAG
131 AAGTATCCTAATAACTCTAAAG
* **
1803645 GACTTAAAAAGGAAAAGGTATGAACCTATCCTAAATGTACACCTTCA-GCATAAAAGTGGACCTA
1 GACTTAAAAAGGAAAAGGTATAAACCTATCCTAAATGTACACCTT-AGGCATAAAAGCAGACCTA
1803709 GTGATAACATAGGACTCGATTTTAAAAAAATTACTAAAATGCCCCTAAAAGATACCTTTGACGTA
65 GTGATAACATAGGACTCGATTTTAAAAAAATTACTAAAATGCCCCTAAAAGATACCTTTGACGTA
* *
1803774 AAATTAT-CTGGATAA-TCCTAAA-
130 AAAGTATCCT-AATAACT-CTAAAG
1803796 GACTTAAAAA
1 GACTTAAAAA
1803806 ATGTAAAAAG
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
151 13 0.09
152 128 0.90
153 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (152 bp):
GACTTAAAAAGGAAAAGGTATAAACCTATCCTAAATGTACACCTTAGGCATAAAAGCAGACCTAG
TGATAACATAGGACTCGATTTTAAAAAAATTACTAAAATGCCCCTAAAAGATACCTTTGACGTAA
AAGTATCCTAATAACTCTAAAG
Found at i:1804149 original size:21 final size:22
Alignment explanation
Indices: 1804130--1804173 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1804120 TCCACCAAAT
* *
1804130 TAAACATT-AAACATATCAAAA
1 TAAAAATTAAAACATACCAAAA
1804151 TAAAAATTGAAAACATACCAAAA
1 TAAAAATT-AAAACATACCAAAA
1804174 ATCATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.64, C:0.14, G:0.02, T:0.20
Consensus pattern (22 bp):
TAAAAATTAAAACATACCAAAA
Found at i:1805470 original size:5 final size:5
Alignment explanation
Indices: 1805460--1805491 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
1805450 TTCGTAGATA
1805460 AAAAT AAAAT AAAAT -AAAT -AAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1805492 AATTTATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1808383 original size:20 final size:21
Alignment explanation
Indices: 1808346--1808384 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1808336 AGGTCAAAAC
1808346 CCTAGAAAGTATCAATACAGA
1 CCTAGAAAGTATCAATACAGA
*
1808367 CCTAGAAA-TATCGATACA
1 CCTAGAAAGTATCAATACA
1808385 TATTGCTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.21, G:0.13, T:0.21
Consensus pattern (21 bp):
CCTAGAAAGTATCAATACAGA
Found at i:1815880 original size:20 final size:19
Alignment explanation
Indices: 1815837--1815889 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
1815827 ACATTATGCT
* **
1815837 TTGTATCGATATATGTTCA
1 TTGTATCGATACATACTCA
1815856 TTGTATCGATACATACTCAA
1 TTGTATCGATACATACTC-A
*
1815876 TTGTATCAATACAT
1 TTGTATCGATACAT
1815890 GAAAATGGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACATACTCA
Found at i:1815956 original size:13 final size:13
Alignment explanation
Indices: 1815938--1815963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1815928 ACATGGGAAA
1815938 TGTATCGATACAT
1 TGTATCGATACAT
1815951 TGTATCGATACAT
1 TGTATCGATACAT
1815964 GAAGAATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1815980 original size:33 final size:32
Alignment explanation
Indices: 1815919--1815984 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
1815909 CTATGTCAAA
*
1815919 TGTATAGATACATGGGAAATGTATCGATACAT
1 TGTATAGATACATGAGAAATGTATCGATACAT
* *
1815951 TGTATCGATACATGAAGAATTGTATCGATACAT
1 TGTATAGATACATG-AGAAATGTATCGATACAT
1815984 T
1 T
1815985 ATGCCCAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (32 bp):
TGTATAGATACATGAGAAATGTATCGATACAT
Found at i:1820134 original size:13 final size:13
Alignment explanation
Indices: 1820116--1820141 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1820106 TACACCAAGT
1820116 ATGTATCGATACA
1 ATGTATCGATACA
1820129 ATGTATCGATACA
1 ATGTATCGATACA
1820142 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1820139 original size:32 final size:33
Alignment explanation
Indices: 1820098--1820161 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1820088 TAGCCAAACT
* **
1820098 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1820130 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1820162 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1824243 original size:16 final size:16
Alignment explanation
Indices: 1824207--1824243 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1824197 GATAAAAATG
1824207 TCCAAAATGAGAAAGC
1 TCCAAAATGAGAAAGC
1824223 T-CAAAATGA-AGAAGC
1 TCCAAAATGAGA-AAGC
1824238 TCCAAA
1 TCCAAA
1824244 CGAAATTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 13 0.68
16 5 0.26
ACGTcount: A:0.51, C:0.19, G:0.16, T:0.14
Consensus pattern (16 bp):
TCCAAAATGAGAAAGC
Found at i:1826318 original size:13 final size:13
Alignment explanation
Indices: 1826300--1826324 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1826290 GGAAATTTAA
1826300 TGTATCGATACAT
1 TGTATCGATACAT
1826313 TGTATCGATACA
1 TGTATCGATACA
1826325 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1826479 original size:20 final size:20
Alignment explanation
Indices: 1826436--1826481 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1826426 AAATCTTTTG
1826436 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1826457 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1826477 CAAAA
1 CAAAA
1826482 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1828897 original size:13 final size:13
Alignment explanation
Indices: 1828879--1828904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1828869 TACACCAAGT
1828879 ATGTATCGATACA
1 ATGTATCGATACA
1828892 ATGTATCGATACA
1 ATGTATCGATACA
1828905 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1828902 original size:32 final size:33
Alignment explanation
Indices: 1828861--1828924 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
1828851 TAGCCAAACT
* **
1828861 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
1828893 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1828925 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1834426 original size:20 final size:20
Alignment explanation
Indices: 1834401--1834471 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
1834391 AAGTCAAATC
*
1834401 TATCGATACATGGGACAATG
1 TATCGATACATGGAACAATG
1834421 TATCGATACATGGAACAATG
1 TATCGATACATGGAACAATG
*
1834441 TATCGATACAT-GAAGAATTG
1 TATCGATACATGGAACAA-TG
*
1834461 TATCTATACAT
1 TATCGATACAT
1834472 TATGCCGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 5 0.11
20 42 0.89
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
TATCGATACATGGAACAATG
Found at i:1835534 original size:19 final size:19
Alignment explanation
Indices: 1835507--1835560 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
1835497 ACATCACGCT
* *
1835507 TTGTGTCGATACATGTTCA
1 TTGTATCGATACATGTTAA
*
1835526 TTGTATCGATACATACTTAA
1 TTGTATCGATACAT-GTTAA
1835546 TTGTATCGATACATG
1 TTGTATCGATACATG
1835561 AAAGTGGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (19 bp):
TTGTATCGATACATGTTAA
Found at i:1835632 original size:20 final size:20
Alignment explanation
Indices: 1835587--1835641 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
1835577 CCCTAAGTCA
*
1835587 AATGTATCGATACATGGGAC
1 AATGTATCGATACATGAGAC
1835607 AATGTATCGATACATGAAGA-
1 AATGTATCGATACATG-AGAC
* *
1835627 ATTGTATTGATACAT
1 AATGTATCGATACAT
1835642 TATGCCCAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATGAGAC
Found at i:1837658 original size:19 final size:19
Alignment explanation
Indices: 1837634--1837673 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1837624 TATTTTAGAG
*
1837634 AAGGGGA-AGAAATTTTATT
1 AAGGGGAGAAAAATTTT-TT
1837653 AAGGGGAGAAAAATTTTTT
1 AAGGGGAGAAAAATTTTTT
1837672 AA
1 AA
1837674 TTAAGGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (19 bp):
AAGGGGAGAAAAATTTTTT
Found at i:1837903 original size:56 final size:56
Alignment explanation
Indices: 1837836--1837946 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
1837826 TCAGATTACA
*
1837836 GATTATGAATATTGTTGATACAAAGAGAATGGTTGAGCACAAGCTAGAACTAATCG
1 GATTATGAATATTGTTGATACAAAGAGAATGGTTGAACACAAGCTAGAACTAATCG
* *
1837892 GATTATGAATATTGTTGATACAAAGAGAATGGTTGAACACAAGTTTGAACTAATC
1 GATTATGAATATTGTTGATACAAAGAGAATGGTTGAACACAAGCTAGAACTAATC
1837947 AGAAAGATCT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.29
Consensus pattern (56 bp):
GATTATGAATATTGTTGATACAAAGAGAATGGTTGAACACAAGCTAGAACTAATCG
Found at i:1838489 original size:20 final size:20
Alignment explanation
Indices: 1838464--1838517 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1838454 CTACCGCTAT
* *
1838464 TTGTATCGATACATGGTACA
1 TTGTATCGATACATAGTAAA
1838484 TTGTATCGATACATAGTAAA
1 TTGTATCGATACATAGTAAA
**
1838504 AAGTATCGATACAT
1 TTGTATCGATACAT
1838518 TGTGCCCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGTATCGATACATAGTAAA
Found at i:1840732 original size:12 final size:12
Alignment explanation
Indices: 1840715--1840739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1840705 AGATGATGGA
1840715 TTGATCCGAGAT
1 TTGATCCGAGAT
1840727 TTGATCCGAGAT
1 TTGATCCGAGAT
1840739 T
1 T
1840740 AAGTTCTGCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGATCCGAGAT
Found at i:1846671 original size:14 final size:13
Alignment explanation
Indices: 1846652--1846692 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
1846642 TTTCGGCTCC
*
1846652 AAACAAAAAAGCAA
1 AAACAAAAAA-AAA
1846666 AAACAAAAACAAAA
1 AAACAAAAA-AAAA
1846680 AAACAAAAAAAAA
1 AAACAAAAAAAAA
1846693 GAGAACTAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 4 0.16
14 20 0.80
15 1 0.04
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (13 bp):
AAACAAAAAAAAA
Found at i:1846677 original size:20 final size:19
Alignment explanation
Indices: 1846652--1846692 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
1846642 TTTCGGCTCC
*
1846652 AAACAAAAAAGCAAAAACAA
1 AAACAAAAAAACAAAAA-AA
1846672 AAACAAAAAAACAAAAAAA
1 AAACAAAAAAACAAAAAAA
1846691 AA
1 AA
1846693 GAGAACTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (19 bp):
AAACAAAAAAACAAAAAAA
Found at i:1847800 original size:73 final size:73
Alignment explanation
Indices: 1847686--1848026 Score: 475
Period size: 73 Copynumber: 4.7 Consensus size: 73
1847676 GAAAAATACT
* * * *
1847686 TTTTTCTTCTTTTAAAGCTCACATAAGCTGGTGGCACCCTTTATTTTAGTCCTTAAAGAGTAGGA
1 TTTTTCTT-TTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGA
*
1847751 TGCTTTTCT
65 TGCTTTTCC
* * * *
1847760 TTTTTCTTTTTCAAAGCCCACACAAGCTAGTGGCTCCCTTTATTTAAGTCCTCAAAGAATAGGAT
1 TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGAT
1847825 GCTTTTCC
66 GCTTTTCC
* * * * *
1847833 TTTTTCTTTTTCAAAGCCCACACAAGTTGATGGCACCCGTTATTTTAGTCCTCAAAAAGTAAGAT
1 TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGAT
1847898 GCTTTTCC
66 GCTTTTCC
* * *
1847906 TTTTTCTTTCTCAAAGCCCACACAAACTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGAC
1 TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGAT
1847971 GCTTTTCC
66 GCTTTTCC
* * * * *
1847979 ATTTTCTTTTTCAAAGCCCATACAAGTTGGTGACACCCCTTATTTTAG
1 TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAG
1848027 AGACGCTTTT
Statistics
Matches: 234, Mismatches: 33, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
73 226 0.97
74 8 0.03
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (73 bp):
TTTTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTATTTTAGTCCTCAAAGAGTAGGAT
GCTTTTCC
Found at i:1848267 original size:73 final size:71
Alignment explanation
Indices: 1848033--1848491 Score: 281
Period size: 73 Copynumber: 6.5 Consensus size: 71
1848023 TTAGAGACGC
* * * * *
1848033 TTTTCTTTTTTAGAGCTCACACAAGCTAATGGCA-CC-TTTTATCCTTTTTAGTCTTCAAAGAGT
1 TTTTC-TTTTTAAAGCCCACACAAGCTGATGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGC
1848096 AGGATACC-
64 AGGA-ACCA
* * * * *
1848104 TTCTTCTTTTTAAAAGCCCATATAAGCT-AGTAGCA-CC-TTTTA---TTTAAGTCCTCAAAGAA
1 TT-TTCTTTTT-AAAGCCCACACAAGCTGA-TGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAG
* ****
1848163 CAAGATGTTTT
63 CAGGA--ACCA
* * *
1848174 TTTTCTTTTTAAAGCTCACACAAGCTGATGGTACCCTTTTTATCCTTTTTAGTCCTCAAAGAGTA
1 TTTTCTTTTTAAAGCCCACACAAGCTGATGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAGCA
*
1848239 GGATACCT
65 GGA-ACCA
* *
1848247 TTTTCTTTTCAAAGCCCACACAAGCT-AGTGGCA--CTTTTTA---TTTTAGTCCTTAAAGAGCA
1 TTTTCTTTTTAAAGCCCACACAAGCTGA-TGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCA
1848306 GG-ACGC-
65 GGAAC-CA
* * *
1848312 TTTTCTTTTTTAAATCCCACACAAGCTGGTGGCACCCTTTTTAATCCCTTTTAGTCCTTAAAGAG
1 TTTTC-TTTTTAAAGCCCACACAAGCTGATGGCACCCTTTTT-AT-CCTTTTAGTCCTCAAAGAG
* *
1848377 TA-GAACGA
63 CAGGAACCA
* * * * * *
1848385 TTTTCTTTTTTAAATCCCACATAAGTTGGTGGCACCCCTTTTATTCCTTTT-GACCTCAAAGAGC
1 TTTTC-TTTTTAAAGCCCACACAAGCTGATGGCACCCTTTTTA-TCCTTTTAGTCCTCAAAGAGC
* **
1848449 AAGATTCA
64 AGGAACCA
* * *
1848457 TTTTCTTTCTCAAAGCCCACACAAGTTGGTGGCAC
1 TTTTCTTT-TTAAAGCCCACACAAGCTGATGGCAC
1848492 ATATCTATTT
Statistics
Matches: 311, Mismatches: 49, Indels: 55
0.75 0.12 0.13
Matches are distributed among these distances:
65 7 0.02
66 25 0.08
67 19 0.06
68 39 0.13
69 12 0.04
70 7 0.02
71 29 0.09
72 66 0.21
73 89 0.29
74 18 0.06
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (71 bp):
TTTTCTTTTTAAAGCCCACACAAGCTGATGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGCAG
GAACCA
Found at i:1848295 original size:141 final size:141
Alignment explanation
Indices: 1848027--1848379 Score: 446
Period size: 140 Copynumber: 2.5 Consensus size: 141
1848017 CTTATTTTAG
* * * *
1848027 AGACGCTTTTCT-TTTTTAGAGCTCACACAAGCTAATGGCA-CC-TTTTATCCTTTTTAGTCTTC
1 AGACGCTTTTTTCTTTTTAAAGCTCACACAAGCTGATGGCACCCTTTTTATCCTTTTTAGTCCTC
* *
1848089 AAAGAGTAGGATACCTTCTTCTTTTTAAAAGCCCATATAAGCTAGTAGCACCTTTTATTTAAGTC
66 AAAGAGTAGGATACCTTCTTCTTTTTAAAAGCCCACACAAGCTAGTAGCACCTTTTATTTAAGTC
1848154 CTCAAAGAACA
131 CTCAAAGAACA
* * *
1848165 AGATGTTTTTTTTCTTTTTAAAGCTCACACAAGCTGATGGTACCCTTTTTATCCTTTTTAGTCCT
1 AGACG-CTTTTTTCTTTTTAAAGCTCACACAAGCTGATGGCACCCTTTTTATCCTTTTTAGTCCT
* * * * *
1848230 CAAAGAGTAGGATACCTTTTTC-TTTTCAAAGCCCACACAAGCTAGTGGCACTTTTTATTTTAGT
65 CAAAGAGTAGGATACCTTCTTCTTTTTAAAAGCCCACACAAGCTAGTAGCACCTTTTATTTAAGT
* *
1848294 CCTTAAAGAGCA
130 CCTCAAAGAACA
* * * * * *
1848306 GGACGCTTTTCT-TTTTTAAATCCCACACAAGCTGGTGGCACCCTTTTTAATCCCTTTTAGTCCT
1 AGACGCTTTTTTCTTTTTAAAGCTCACACAAGCTGATGGCACCCTTTTT-ATCCTTTTTAGTCCT
*
1848370 TAAAGAGTAG
65 CAAAGAGTAG
1848380 AACGATTTTC
Statistics
Matches: 184, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
138 4 0.02
139 37 0.20
140 53 0.29
141 51 0.28
142 39 0.21
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (141 bp):
AGACGCTTTTTTCTTTTTAAAGCTCACACAAGCTGATGGCACCCTTTTTATCCTTTTTAGTCCTC
AAAGAGTAGGATACCTTCTTCTTTTTAAAAGCCCACACAAGCTAGTAGCACCTTTTATTTAAGTC
CTCAAAGAACA
Found at i:1848831 original size:20 final size:21
Alignment explanation
Indices: 1848800--1848840 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
1848790 AATTTGAATA
*
1848800 GATACAATAAGTGAATGTATC
1 GATACAATAAGTGAACGTATC
1848821 GATAC-ATAAGTGAACGTATC
1 GATACAATAAGTGAACGTATC
1848841 AATATATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (21 bp):
GATACAATAAGTGAACGTATC
Found at i:1850051 original size:33 final size:32
Alignment explanation
Indices: 1850005--1850070 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
1849995 TACACACCCA
* * *
1850005 AATGTATCGATACATTATGCTTTGTATCGATAC
1 AATGTATCAATACA-TATCCATTGTATCGATAC
*
1850038 AATGTATCAATACATGTCCATTGTATCGATAC
1 AATGTATCAATACATATCCATTGTATCGATAC
1850070 A
1 A
1850071 TGGACAATTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
AATGTATCAATACATATCCATTGTATCGATAC
Found at i:1850146 original size:20 final size:20
Alignment explanation
Indices: 1850040--1850154 Score: 76
Period size: 20 Copynumber: 5.7 Consensus size: 20
1850030 ATCGATACAA
* *
1850040 TGTATCAATACATGTC-CAT
1 TGTATCGATACATGACACAT
1850059 TGTATCGATACATGGACA-AT
1 TGTATCGATACAT-GACACAT
*
1850079 TGTATCGATACATGAAAC-T
1 TGTATCGATACATGACACAT
* * * *
1850098 GGCAGTAGCTACACT-ACCACAGTT
1 TGTA-TCGATACA-TGA-CACA--T
1850122 TGTATCGATACATGACACAT
1 TGTATCGATACATGACACAT
*
1850142 TGTATCCATACAT
1 TGTATCGATACAT
1850155 TGCTTCAAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
19 18 0.25
20 37 0.51
21 3 0.04
22 5 0.07
23 7 0.10
24 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGACACAT
Found at i:1853537 original size:21 final size:21
Alignment explanation
Indices: 1853507--1853550 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1853497 GATTTGTTAT
* *
1853507 TATGGGTGATTTTTCAAGATA
1 TATGGATGATTATTCAAGATA
1853528 TATGGATGATTATTCAAGATA
1 TATGGATGATTATTCAAGATA
1853549 TA
1 TA
1853551 CTTGGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.20, T:0.41
Consensus pattern (21 bp):
TATGGATGATTATTCAAGATA
Found at i:1856310 original size:13 final size:13
Alignment explanation
Indices: 1856292--1856317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1856282 ACAATATTCT
1856292 TTGTATCGATACA
1 TTGTATCGATACA
1856305 TTGTATCGATACA
1 TTGTATCGATACA
1856318 AGGGTTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1858814 original size:13 final size:13
Alignment explanation
Indices: 1858796--1858853 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
1858786 CTAGATGATT
1858796 TGTATCGATACAA
1 TGTATCGATACAA
1858809 TGTATCGATAC-A
1 TGTATCGATACAA
**
1858821 T-TAT-G---CTT
1 TGTATCGATACAA
1858829 TGTATCGATACAA
1 TGTATCGATACAA
1858842 TGTATCGATACA
1 TGTATCGATACA
1858854 TGTTCATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.06
11 3 0.08
12 2 0.06
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1858836 original size:33 final size:32
Alignment explanation
Indices: 1858794--1858872 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 32
1858784 ACCTAGATGA
1858794 TTTGTATCGATACAATGTATCGATACAT-TATGC
1 TTTGTATCGATACAATGTATCGATACATGT-T-C
1858827 TTTGTATCGATACAATGTATCGATACATGTTC
1 TTTGTATCGATACAATGTATCGATACATGTTC
*
1858859 ATTGTATCGATACA
1 TTTGTATCGATACA
1858873 TGGATAATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 14 0.32
33 29 0.66
34 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (32 bp):
TTTGTATCGATACAATGTATCGATACATGTTC
Found at i:1858866 original size:19 final size:20
Alignment explanation
Indices: 1858842--1858893 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1858832 ATCGATACAA
* *
1858842 TGTATCGATACAT-GTTCAT
1 TGTATCGATACATGGATAAT
1858861 TGTATCGATACATGGATAAT
1 TGTATCGATACATGGATAAT
1858881 TGTATCGATACAT
1 TGTATCGATACAT
1858894 AAAACTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGGATAAT
Found at i:1859180 original size:23 final size:23
Alignment explanation
Indices: 1859154--1859210 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
1859144 ACCAGAATTG
1859154 CAAAAGAATCAACCAAGAAACAT
1 CAAAAGAATCAACCAAGAAACAT
*
1859177 CAAAAGAATCAACTAAGAAACAT
1 CAAAAGAATCAACCAAGAAACAT
1859200 CAAAAG-ATCAA
1 CAAAAGAATCAA
1859211 AGCATTCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 5 0.15
23 28 0.85
ACGTcount: A:0.61, C:0.19, G:0.09, T:0.11
Consensus pattern (23 bp):
CAAAAGAATCAACCAAGAAACAT
Found at i:1862708 original size:13 final size:13
Alignment explanation
Indices: 1862690--1862715 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1862680 ATATTTTTTG
1862690 TGTATCGATACAT
1 TGTATCGATACAT
1862703 TGTATCGATACAT
1 TGTATCGATACAT
1862716 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1862726 original size:32 final size:33
Alignment explanation
Indices: 1862669--1862733 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1862659 TACAAGCCAA
*
1862669 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATAGATACAT
1862703 TGTATCGATACATA-TTTTGTGTATAGATACA
1 TGTATCGATACATATTTTTGTGTATAGATACA
1862734 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.53
34 14 0.47
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATAGATACAT
Found at i:1867375 original size:15 final size:15
Alignment explanation
Indices: 1867355--1867385 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1867345 ATTTCGTTTA
*
1867355 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1867370 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1867385 G
1 G
1867386 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1871465 original size:13 final size:13
Alignment explanation
Indices: 1871447--1871472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1871437 ATATTTTTTG
1871447 TGTATCGATACAT
1 TGTATCGATACAT
1871460 TGTATCGATACAT
1 TGTATCGATACAT
1871473 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1871483 original size:32 final size:33
Alignment explanation
Indices: 1871426--1871490 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1871416 TACAAGCCAA
*
1871426 TGTATCGGTACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1871460 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1871491 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 17 0.57
34 13 0.43
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1872156 original size:79 final size:79
Alignment explanation
Indices: 1872073--1872267 Score: 187
Period size: 79 Copynumber: 2.5 Consensus size: 79
1872063 TCAGGGTTAG
* * * * * *
1872073 AGTATCCCCTTGGAAATAACGGGGCTGGAGTATCTCCAATTGTG-GAAAATCGATGCTTTAGAAA
1 AGTATCCCCTTGAAAATAACGAGGCTGGAGTATCCCCAATTATGAG-AAATCAATACTTTAGAAA
*
1872137 TAAGGCCGGGGCTAA
65 TAAAGCCGGGGCTAA
* * * * *
1872152 AGTATCCTCGTGAAAATAACGAGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAAT
1 AGTATCCCCTTGAAAATAACGAGGCTGGAGTATCCCCAATTATGAGAAATCAATACTTTAGAAAT
* **
1872217 AAAGCCGGGGTTGT
66 AAAGCCGGGGCTAA
** * *
1872231 AGTATCCCCTCAAAAATAAC-AGGGTTAGAGTATCCCC
1 AGTATCCCCTTGAAAATAACGA-GGCTGGAGTATCCCC
1872268 GATGAAATAA
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 1 0.01
79 92 0.98
80 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (79 bp):
AGTATCCCCTTGAAAATAACGAGGCTGGAGTATCCCCAATTATGAGAAATCAATACTTTAGAAAT
AAAGCCGGGGCTAA
Found at i:1872262 original size:28 final size:28
Alignment explanation
Indices: 1872231--1872294 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
1872221 CCGGGGTTGT
1872231 AGTATCCCCTCA-AAAATAACAGGGTTAG
1 AGTATCCCC-CATAAAATAACAGGGTTAG
* * * *
1872259 AGTATCCCCGATGAAATAACGGGGTTGG
1 AGTATCCCCCATAAAATAACAGGGTTAG
1872287 AGTATCCC
1 AGTATCCC
1872295 TGATTGTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (28 bp):
AGTATCCCCCATAAAATAACAGGGTTAG
Found at i:1872353 original size:44 final size:44
Alignment explanation
Indices: 1872303--1872389 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
1872293 CCTGATTGTC
* * *
1872303 AAAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGTATCCCG
1 AAAAATTGGTGTTTTAGAAATAAAACCAGAGTTAGAGTATCCCG
* *
1872347 AAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCC
1 AAAAATTGGTGTTTTAGAAATAAAACCAGAGTTAGAGTATCCC
1872390 CTCAGAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (44 bp):
AAAAATTGGTGTTTTAGAAATAAAACCAGAGTTAGAGTATCCCG
Found at i:1874822 original size:13 final size:13
Alignment explanation
Indices: 1874804--1874829 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1874794 ACCCAGAATA
1874804 TATCGATACAATG
1 TATCGATACAATG
1874817 TATCGATACAATG
1 TATCGATACAATG
1874830 AATAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1874848 original size:62 final size:63
Alignment explanation
Indices: 1874751--1874879 Score: 161
Period size: 62 Copynumber: 2.1 Consensus size: 63
1874741 AAAATGCCTG
* * * * *
1874751 AATGTATTGTTACATTGAAAAATGTATTGATACATCTGGGT-AAACCCAGAATATATCGATAC
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGTAAAACCCAGAATATATCGATAC
* * * * *
1874813 AATGTATCGATACAATGAATAATGTATCGATACATCTGAGTAAAACTCGGAATGTATCGGTAC
1 AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGTAAAACCCAGAATATATCGATAC
1874876 AATG
1 AATG
1874880 AACCATGTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
62 35 0.62
63 21 0.38
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (63 bp):
AATGTATCGATACAATGAAAAATGTATCGATACATCTGAGTAAAACCCAGAATATATCGATAC
Found at i:1875819 original size:124 final size:125
Alignment explanation
Indices: 1875540--1875821 Score: 319
Period size: 128 Copynumber: 2.2 Consensus size: 125
1875530 ATGAAATGGG
* * *
1875540 TCCTGCTCCTTGAGGACAAAGGAGAAAAGGAAATAAAGTGCATCCTGCCATTTGAAGACATAGGA
1 TCCTGCTCTTTGAGGACAAAGGAGAAAA-GAAATAAAGAGCATCCTGCCATTTGAAGACAAAGGA
* * * * * *
1875605 AAAAGGAAATTAAATGTGTCCTGCTTTTTTAGGACAAAGGAAAAAAGAGGAAATGAAGTGCG
65 AAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGA-GAAATAAAGTGCA
* *
1875667 TCATGCTCTTTGAGGACAAAGGAAAAAAGAAA-AAA-AGCATCCTGCTC-TTTG-AGAACAAAAG
1 TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAATAAAGAGCATCCTGC-CATTTGAAG-AC-AAA-
*
1875728 GGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGAGAAAGGAAAAAAGA-AAA-AAAG-GC
62 GG-AAA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAAATAAAGTGC
1875790 A
125 A
1875791 TCCTGCTCTTTGAGGACAAAAGG-GAAAAGAA
1 TCCTGCTCTTTGAGGAC-AAAGGAGAAAAGAA
1875822 GGAAATGAAA
Statistics
Matches: 134, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
123 2 0.01
124 40 0.30
125 14 0.10
126 9 0.07
127 28 0.21
128 41 0.31
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (125 bp):
TCCTGCTCTTTGAGGACAAAGGAGAAAAGAAATAAAGAGCATCCTGCCATTTGAAGACAAAGGAA
AAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGAGAAATAAAGTGCA
Found at i:1875852 original size:45 final size:43
Alignment explanation
Indices: 1875521--1875857 Score: 313
Period size: 41 Copynumber: 7.9 Consensus size: 43
1875511 AAGACAAAGG
* * *
1875521 AAAAGGAGAATGAAATGGGTCCTGCTCCTTGAGGAC-AAAGGAG
1 AAAAGGA-AATGAAATGCGTCCTGCTCTTTGAGGACAAAAGGAA
* * *
1875564 AAAAGGAAAT-AAAGTGCATCCTGC-CATTTGAAGAC-ATAGG-A
1 AAAAGGAAATGAAA-TGCGTCCTGCTC-TTTGAGGACAAAAGGAA
* * * *
1875605 AAAAGGAAATTAAATGTGTCCTGCTTTTTTAGGAC-AAAGGAAA
1 AAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGG-AA
* *
1875648 AAAGAGGAAATGAAGTGCGTCATGCTCTTTGAGGAC-AAAGGAA
1 AAA-AGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGGAA
* * *
1875691 AAAA-GAAA--AAAAGCATCCTGCTCTTTGAGAACAAAAGGGAA
1 AAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAA-GGAA
*
1875732 AAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGA-GAAAGGAA
1 AA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGGAA
* * *
1875775 AAAA-GAAA-AAAAGGCATCCTGCTCTTTGAGGACAAAAGGGAA
1 AAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAA-GGAA
* *
1875817 AAGAAGGAAATGAAATGTGTCCTCCTCTTTGAGGACAAAAG
1 AA-AAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAG
1875858 AGAGAAGGAA
Statistics
Matches: 240, Mismatches: 36, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
39 19 0.08
40 24 0.10
41 50 0.21
42 36 0.15
43 28 0.12
44 39 0.16
45 44 0.18
ACGTcount: A:0.42, C:0.13, G:0.26, T:0.19
Consensus pattern (43 bp):
AAAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAAAGGAA
Found at i:1875897 original size:85 final size:84
Alignment explanation
Indices: 1875540--1875895 Score: 368
Period size: 85 Copynumber: 4.2 Consensus size: 84
1875530 ATGAAATGGG
* * * *
1875540 TCCTGCTCCTTGAGGAC-AAA-GGAGAA-AAGGAAAT-AAAGTGCATCCTGC-CATTTGAAGACA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAA-TGCGTCCTGCTC-TTTGAGGACA
* * * **
1875600 TAGGAAAAAGGAAATTAAATGTG
64 AAGGAAAAAAGAAA--AAAGGCA
* * * * *
1875623 TCCTGCTTTTTTAGGAC-AAA-GGAAAAAAGAGGAAATGAAGTGCGTCATGCTCTTTGAGGACAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGA-AGGAAATGAAATGCGTCCTGCTCTTTGAGGACAA
*
1875686 AGGAAAAAAGAAAAAAAGCA
65 AGGAAAAAAGAAAAAAGGCA
* *
1875706 TCCTGCTCTTTGAGAACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGAGAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
1875771 GGAAAAAAGAAAAAAAGGCA
66 GGAAAAAAG-AAAAAAGGCA
* *
1875791 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGTGTCCTCCTCTTTGAGGACAAA
1 TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
* * * * *
1875856 AGAGAGAAG-GAAAAGGCG
66 GGAAAAAAGAAAAAAGGCA
*
1875874 TCCTACTCTTTGAGGACTAAAA
1 TCCTGCTCTTTGAGGAC-AAAA
1875896 AGTGCCACTA
Statistics
Matches: 234, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
83 63 0.27
84 49 0.21
85 119 0.51
86 3 0.01
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (84 bp):
TCCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAATGCGTCCTGCTCTTTGAGGACAAA
GGAAAAAAGAAAAAAGGCA
Found at i:1875976 original size:61 final size:61
Alignment explanation
Indices: 1875862--1876960 Score: 1160
Period size: 61 Copynumber: 18.1 Consensus size: 61
1875852 CAAAAGAGAG
* * *
1875862 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTTGAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT-AA
* * * * * * * * **
1875924 AA-GAAAAGGTGTCTTGCTCTTTAAGGACTAGAAGGTGCTACCAAATTATGTGGTCTTTGC
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1875984 AAGGAAAAGGCATCATGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTATAGACTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1876044 AAGGAAAAAGTGTCCTACTCTTCGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
1876106 AAGGAAAAGGCATCTTTCTCTTCGAGGACT-GAAAAGTGCCACCAACTTGTATGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1876167 AAGGAAAAGGTGTTCC-GCTCTTTAAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCGTTGA
1 AAGGAAAAGGCG-TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1876227 ACGGCGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAA
1 AAGG-AAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876288 AAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1876350 AAGGAAAAGGTGTCTTGCTCCTTGAGGA-TTGAAAAGTGCCACCAACTTGTGT-GGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *** *
1876410 AAAGAAAAGGCGT-CTAGCTCTTTGAGGACT-GAAGGTTCCACTTGCTTGTGTGGGCTTTGA
1 AAGGAAAAGGCGTCCT-GCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876470 AAGGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTTGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1876532 AAGGAAAAGGTGTCCTGCTCTTTAAGGGCTAGAAGGCGACACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876593 AAGGAAAAAGCGTCCTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1876655 AAGGAAAGGGCATCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAA-TGTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACT-TGTGTGGGCTTTAA
* * * * * * *
1876716 AAGGAGAAA-ACATCATGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTCGGCTTTAA
1 AAGGA-AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
1876777 AAGGAAATGGCATCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT--
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAA
*
1876836 ----AAAAGGCGTCCTGCTCTTT-ATGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGA-GGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * * *
1876893 AAGAAAAAGGCATCCCGCTCTTTGAGAACTAAAAAGTGCCACCAACTTATGTAGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
1876954 AAGGAAA
1 AAGGAAA
1876961 TGACGACTAG
Statistics
Matches: 867, Mismatches: 139, Indels: 63
0.81 0.13 0.06
Matches are distributed among these distances:
54 1 0.00
55 47 0.05
56 1 0.00
59 19 0.02
60 159 0.18
61 428 0.49
62 212 0.24
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1876291 original size:244 final size:241
Alignment explanation
Indices: 1875862--1877256 Score: 1412
Period size: 244 Copynumber: 5.8 Consensus size: 241
1875852 CAAAAGAGAG
* * *
1875862 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTTGAAAA-
1 AAGGAAAAGGCGTCCTGCTC-TTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * ** * * *
1875926 GAAAAGGTG-TCTTGCTCTTTAAGGACTAGAAGGTGCTACCAAATTATGTGGTCTTTGCAAGGAA
64 GAAAAGGCGTTC-CGCTCTTTAAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAA
* * * *
1875990 AAGGCATCATGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTATAGACTTTAAAAGGAAAAAG
127 AA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGG
*
1876054 TGTCCTACTCTTCGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
190 TGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1876106 AAGGAAAAGGCATCTTTCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTGCTCTT-GAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
1876171 AAAAGGTGTTCCGCTCTTTAAGGACTGAAGGTGCCACCAGCTTGTGTGGGCGTTGAACGGCGAAA
65 AAAAGGCGTTCCGCTCTTTAAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG-AAAA
1876236 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTGT
129 GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGG-CTTTAAAAGGAAAAGGTGT
1876301 CCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
193 CCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
1876350 AAGGAAAAGGTGTCTTGCTCCTTGAGGATTGAAAAGTGCCACCAACTTGTGT-GGCTTTAAAAAG
1 AAGGAAAAGGCGTCCTGCT-CTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * **
1876414 AAAAGGCG-TCTAGCTCTTTGAGGACTGAAGGTTCCACTTGCTTGTGTGGGCTTTGAAAGGAAAA
65 AAAAGGCGTTC-CGCTCTTTAAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGG-AAA
* * *
1876478 AGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGT
128 AGCATCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTG-TGGCTTTAAAAGGAAAAGGT
* * * * * *
1876543 GTCCTGCTCTTTAAGGGCTAG-AAGGCGACACCAACTTGTGTGGGCTTTAA
191 GTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876593 AAGGAAAAAGCGTCCTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTC-TTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * * *
1876658 GAAAGGGC-ATCCTGCTCCTTGAGGACTGAAAAGTGCCACCA-ATGTGTGTGGGCTTTAAAAGGA
64 GAAAAGGCGTTCC-GCTCTTTAAGGACTG-AAGGTGCCACCAGCT-TGTGTGGGCTTTGAAAGGA
* * * *
1876721 GAAAACATCATGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTCGGCTTTAAAAGGAAATG
126 -AAAGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAG
** * *
1876786 GCATCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT--
189 GTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876836 ----AAAAGGCGTCCTGCTCTTTATGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTGA-GGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * * * * * * * *
1876896 AAAAAGGCATCCCGCTCTTTGAGAACTAAAAAGTGCCACCAACTTATGTAGGCTTTAAAAGG--A
64 GAAAAGGCGTTCCGCTCTTTAAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAA
* * * **
1876959 A--A----------TGACGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCA
128 AGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGAAAAGGTG
* * *
1877012 TTCTACTCTTTGAGGACTAGAAAAGTGTCACCAACTTATGTGGGCTTTAA
192 TCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
1877062 AAGGAAAAGGCGTCCTACTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTGCT-CTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *
1877127 AGAAAGAAAGAGGTGTCCTACTCTTTAAGGACTAAAGGGTGCCACTAGCTTGTGTGGGCTTTGGA
65 A-AAAG---G-CGT-TCC-GCTCTTTAAGGACTGAA-GGTGCCACCAGCTTGTGTGGGCTTT-GA
* * * * * *
1877192 AA-CAAAAGGCATCCTACTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAG
121 AAGGAAAA-GCATCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGT-GGCTTTAAAAG
1877256 G
183 G
1877257 CATCCTGCTC
Statistics
Matches: 967, Mismatches: 125, Indels: 109
0.81 0.10 0.09
Matches are distributed among these distances:
223 60 0.06
224 27 0.03
230 51 0.05
231 9 0.01
233 1 0.00
234 1 0.00
235 3 0.00
236 5 0.01
237 32 0.03
238 83 0.09
239 24 0.02
242 4 0.00
243 185 0.19
244 283 0.29
245 118 0.12
246 45 0.05
252 6 0.01
253 30 0.03
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (241 bp):
AAGGAAAAGGCGTCCTGCTCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA
AAAGGCGTTCCGCTCTTTAAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGAAAAGC
ATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGAAAAGGTGTCCT
ACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1876397 original size:123 final size:123
Alignment explanation
Indices: 1875862--1877256 Score: 1355
Period size: 123 Copynumber: 11.5 Consensus size: 123
1875852 CAAAAGAGAG
* * *
1875862 AAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACTAACTTGTGTGGGCTTTGAAAA-
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG
* * * * * * * **
1875926 GAAAAGGTGTCTTGCTCTTTAAGGACTAG-AAGGTGCTACCAAATTATGTGGTCTTTGC
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1875984 AAGGAAAAGGCATCATGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTATAGACTTTAAAAGG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * *
1876048 AAAAAGTGTCCTACTCTTCGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
66 AAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
1876106 AAGGAAAAGGCATCTTTCTCTTCGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * * *
1876171 AAAAGGTGTTCC-GCTCTTTAAGGACT-G-AAGGTGCCACCAGCTTGTGTGGGCGTTGA
66 AAAAGGTG-TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
1876227 ACGGCGAAA-GCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAAG
1 AAGG-AAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
*
1876291 GAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * *
1876350 AAGGAAAAGGTGTCTTGCTCCTTGAGGATTGAAAAGTGCCACCAACTTGTGT-GGCTTTAAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
* * * *** *
1876414 AAAAGGCGT-CTAGCTCTTTGAGGACT-G-AAGGTTCCACTTGCTTGTGTGGGCTTTGA
66 AAAAGGTGTCCT-GCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876470 AAGGAAAAAGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTTGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* * * * *
1876535 GAAAAGGTGTCCTGCTCTTTAAGGGCTAG-AAGGCGACACCAACTTGTGTGGGCTTTAA
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876593 AAGGAAAAAGCGTCCTGCTCTTTGAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** *
1876658 GAAAGGGCATCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAA-TGTGTGTGGGCTTTAA
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACT-TGTGTGGGCTTTAA
* * * * * * *
1876716 AAGGAGAAA-ACATCATGCTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTCGGCTTTAAAAG
1 AAGGA-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** *
1876780 GAAATGGCATCCTGCTCCTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT--
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
1876836 ----AAAAGGCGTCCTGCTCTTT-ATGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
1 AAGGAAAAGGCGTCCTGCTCTTTGA-GGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAA
* ** * * * *
1876895 GAAAAAGGCATCCCGCTCTTTGAGAACTA-AAAAGTGCCACCAACTTATGTAGGCTTTAA
64 GGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1876954 AAGG-AAA--------------TGACGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
* ** * * * *
1877003 GAAAAAGCATTCTACTCTTTGAGGACTAGAAAAGTGTCACCAACTTATGTGGGCTTTAA
65 GAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
1877062 AAGGAAAAGGCGTCCTACTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAA--
* * ** * * *
1877127 AGAAAGAAAGAGGTGTCCTACTCTTTAAGGACTA-AAGGGTGCCACTAGCTTGTGTGGGCTTTGG
63 AG---GAAA-AGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-A
1877191 A
123 A
* * * * * *
1877192 AA-CAAAAGGCATCCTACTCTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAG
1877256 G
65 G
1877257 CATCCTGCTC
Statistics
Matches: 1071, Mismatches: 147, Indels: 108
0.81 0.11 0.08
Matches are distributed among these distances:
107 61 0.06
108 33 0.03
109 3 0.00
115 4 0.00
116 95 0.09
120 55 0.05
121 171 0.16
122 233 0.22
123 300 0.28
124 11 0.01
126 2 0.00
127 2 0.00
129 51 0.05
130 50 0.05
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (123 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
AAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:1876873 original size:55 final size:55
Alignment explanation
Indices: 1876068--1877276 Score: 500
Period size: 61 Copynumber: 20.1 Consensus size: 55
1876058 CTACTCTTCG
* * *
1876068 AGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTTCTCTTCG
1 AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCTCTT-T
* **
1876130 AGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGTGTTCC-GCTCTTT
1 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GG-CATCCTGCTCTTT
* * * **
1876190 AAGGACTG-AAGGTGCCACCAGCTTGTGTGGGCGTTGAACGGCGAAAGCATCCTGCTCTTT
1 -AGGACTGAAAAGTGCCACCAACTTGTGTGGGC-TTTAAAAG-G---GCATCCTGCTCTTT
* * * ** *
1876250 GAGGACTGGAAGGTGCCACCAACTTGTGTGGACTTTAAAAGGAAAAGGTGTCCTACTCTTT
1 -AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCTCTTT
** * *
1876311 GAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGCTCCTTG
1 -AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCT-CTTT
* *
1876374 AGGATTGAAAAGTGCCACCAACTTGTGT-GGCTTTAAAAAGAAAAGGCGT-CTAGCTCTTT
1 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAG----GGCATCCT-GCTCTTT
* * *** * *
1876433 GAGGACTG-AAGGTTCCACTTGCTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTCTTT
1 -AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-----GCATCCTGCTCTTT
* **
1876493 GAGGACTAGAAAAGTGCCACCAACTTGTGTTGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTT
1 -AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCTCTTT
* * *
1876555 AAGGGCT-AGAAG-GCGACACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCGTCCTGCTCTTT
1 -AGGACTGAAAAGTGC--CACCAACTTGTGTGGGCTTTAAAAGG-----GCATCCTGCTCTTT
* *
1876616 GAAGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGGGCATCCTGCTCCTTG
1 -AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT---A--AAAGGGCATCCTGCT-CTTT
*
1876679 AGGACTGAAAAGTGCCACCAA-TGTGTGTGGGCTTTAAAAGGAGAAAACATCATGCTCTTT
1 AGGACTGAAAAGTGCCACCAACT-TGTGTGGGCTTTAAAAGG-G----CATCCTGCTCTTT
* * * * *
1876739 GAGGATTGGAAGGTGCCACCAACTTGTGTCGGCTTTAAAAGGAAATGGCATCCTGCTCCTTG
1 -AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCT-CTTT
*
1876801 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GGCGTCCTGCTCTTT
1 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGCATCCTGCTCTTT
* *
1876855 ATGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGCATCCCGCTCTTT
1 A-GGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAG-----GGCATCCTGCTCTTT
* * * * **
1876916 GAGAACTAAAAAGTGCCACCAACTTATGTAGGCTTTAAAA-GG-A-AATG------
1 -AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGCATCCTGCTCTTT
* * * *
1876963 ACGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATTCTACTCTTT
1 AGGACTGA-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG-----GCATCCTGCTCTTT
* * * * *
1877023 GAGGACTAGAAAAGTGTCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCTTG
1 -AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G----GGCATCCTGCT-CTTT
* *
1877086 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGAAAGAGGTGTCCTACTCT
1 AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-G-G---G---CA----TCCTGCTCT
1877151 TT
54 TT
* * * * *
1877153 AAGGACT-AAAGGGTGCCACTAGCTTGTGTGGGCTTTGGAAACAAAAGGCATCCTACTCTTT
1 -AGGACTGAAA-AGTGCCACCAACTTGTGTGGGCTTT----A-AAAGGGCATCCTGCTCTTT
* *
1877214 AAGGACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAA-GGCATCCTGCTCTTT
1 -AGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGCATCCTGCTCTTT
1877270 GAGGACT
1 -AGGACT
1877277 AAAGGGTGAA
Statistics
Matches: 915, Mismatches: 118, Indels: 234
0.72 0.09 0.18
Matches are distributed among these distances:
45 1 0.00
46 32 0.03
47 1 0.00
52 1 0.00
53 2 0.00
54 7 0.01
55 48 0.05
56 26 0.03
57 5 0.01
58 3 0.00
59 28 0.03
60 98 0.11
61 379 0.41
62 204 0.22
63 19 0.02
64 3 0.00
65 3 0.00
66 1 0.00
67 13 0.01
68 36 0.04
71 1 0.00
72 1 0.00
73 3 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (55 bp):
AGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGCATCCTGCTCTTT
Found at i:1877099 original size:169 final size:162
Alignment explanation
Indices: 1876812--1877127 Score: 418
Period size: 169 Copynumber: 1.9 Consensus size: 162
1876802 GGACTGAAAA
* * *
1876812 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTATGGACTAGAAGGTGCCACCAA
1 GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTATGGACTAGAAAGTGCCACCAA
* * *
1876877 CTTGTGTGGGCTTTAAAAGAAAAAGGCATCCCGCTCTTTGAGAACTAAAAAGTGCCACCAACTTA
66 CTTATGTGGGCTTTAAAAGAAAAAGGCATCCCACTCCTTGAGAACTAAAAAGTGCCACCAACTTA
1876942 TGTAGGCTTTAAAAGGAAATGACGACTAGAAG
131 TGTAGGCTTTAAAAGGAAATGACGACTAGAAG
*
1876974 GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATTCTACTCTTTGA-GGACTAGAAAAGT
1 GTGCCACCAACTTGTGTGGGCTTTAAAA-G-----GCATCCTACTCTTT-ATGGACTAG-AAAGT
* * * * * *
1877038 GTCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCTTGAGGACTGAAAAGTGCCA
58 GCCACCAACTTATGTGGGCTTTAAAAGAAAAAGGCATCCCACTCCTTGAGAACTAAAAAGTGCCA
* *
1877103 CCAACTTGTGTGGGCTTTAAAAGGA
123 CCAACTTATGTAGGCTTTAAAAGGA
1877128 GAAAGAAAGA
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
162 28 0.21
163 1 0.01
168 18 0.14
169 84 0.64
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (162 bp):
GTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTCTTTATGGACTAGAAAGTGCCACCAA
CTTATGTGGGCTTTAAAAGAAAAAGGCATCCCACTCCTTGAGAACTAAAAAGTGCCACCAACTTA
TGTAGGCTTTAAAAGGAAATGACGACTAGAAG
Found at i:1877107 original size:61 final size:62
Alignment explanation
Indices: 1876965--1877256 Score: 315
Period size: 62 Copynumber: 4.6 Consensus size: 62
1876955 AGGAAATGAC
* * * *
1876965 GACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGCATTCTACTCTTTGAG
1 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAG
* * * * *
1877026 GACTAGAAAAGTGTCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCGTCCTACTCCTTGAG
1 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAG
1877088 GACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGAAAG-AGGTGTCCTACTCT
1 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAG---GCA----TCCTACTCT
1877151 TTAAG
58 TTAAG
** * * * *
1877156 GACTA-AAGGGTGCCACTAGCTTGTGTGGGCTTTGGAAA-CAAAAGGCATCCTACTCTTTAAG
1 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTACTCTTTAAG
* *
1877217 GACTAGAAAAGTGCCACCAACTTGTGTAGGCTTTGAAAGG
1 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1877257 CATCCTGCTC
Statistics
Matches: 193, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
61 63 0.33
62 79 0.41
64 1 0.01
65 2 0.01
67 4 0.02
68 41 0.21
69 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (62 bp):
GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAG
Found at i:1878403 original size:17 final size:15
Alignment explanation
Indices: 1878366--1878419 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
1878356 CTTTTCTCTC
*
1878366 TTTTTTTCT-TTGTT
1 TTTTTTTTTGTTGTT
* *
1878380 TTGTTTTTTGTATTTT
1 TTTTTTTTTGT-TGTT
1878396 TTATTTTTTTGTTGTT
1 TT-TTTTTTTGTTGTT
1878412 TTTTTTTT
1 TTTTTTTT
1878420 AAAAAGAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 7 0.22
15 7 0.22
16 10 0.31
17 8 0.25
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTGTTGTT
Found at i:1885457 original size:729 final size:729
Alignment explanation
Indices: 1884057--1886964 Score: 5654
Period size: 729 Copynumber: 4.0 Consensus size: 729
1884047 TGGGACGAAC
*
1884057 TAGCTCCCACATCGATTCTTGGCAGTAGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1884122 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
66 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
1884187 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
131 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
1884252 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
196 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
1884317 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
261 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
1884382 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
326 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
1884447 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
391 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
*
1884512 GTGCCTGACTGTAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
456 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
*
1884577 TTTACAAAAGCTTGCCATACTTTAAACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
521 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
1884642 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
586 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
*
1884707 CAACATTAGGCCTCAGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
651 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
1884772 CTCTTGGCATGATT
716 CTCTTGGCATGATT
1884786 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
*
1884851 GATTCCTTCTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
66 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
1884916 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
131 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
* *
1884981 CCTTTTCCGTCAACAAAGGCTGAATCAAGGCAGCCTTTTCCATCCACCTCGAGTTATAACATCGA
196 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
* *
1885046 AAGCTTTCATCAAATCTCTTTTCTATACCCATAGGGACAGACACATCAGGACCCCATCTTCATTA
261 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
*
1885111 GTTCTTCATTCTTTTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
326 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
1885176 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
391 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
*
1885241 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCTTTCTTTCTGGCTCACTAATCCCACT
456 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
*
1885306 TTTACAAAAGCTTGCCACACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
521 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
1885371 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
586 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
1885436 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
651 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
1885501 CTCTTGGCATGATT
716 CTCTTGGCATGATT
1885515 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1885580 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
66 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
1885645 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
131 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
1885710 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
196 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
1885775 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
261 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
1885840 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
326 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
1885905 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
391 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
1885970 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
456 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
1886035 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
521 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
* *
1886100 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGTATGATTGAGGAGTGGATTGGCCC
586 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
*
1886165 CAACATTAGGGCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
651 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
1886230 CTCTTGGCATGATT
716 CTCTTGGCATGATT
1886244 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
1 TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
*
1886309 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCATTACTATATCTGCAAAACTCTTCGG
66 GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
1886374 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
131 AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
1886439 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
196 CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
1886504 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
261 AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
1886569 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
326 GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
1886634 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
391 AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
*
1886699 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTTTTTCTGGCTCACTAATCCCACT
456 GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
1886764 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
521 TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
*
1886829 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTGGCCC
586 ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
1886894 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
651 CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
1886959 CTCTTG
716 CTCTTG
1886965 AACGACATGC
Statistics
Matches: 2152, Mismatches: 27, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
729 2152 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.34
Consensus pattern (729 bp):
TAGCTCCCACATCGATTCTTGGCAGTGGCTTCTTTTCAACTTCTCCTTCCTTCTTACCTCTGCCT
GATTCCTTTTTTAGAGCTTCATCCATCATCCCACAGAGCACTACTATATCTGCAAAACTCTTCGG
AAATCTCCTTGCCACTTCATCATAATATGGTGGCCATAATGTGCCAATAAACCTAACAATCATTT
CCTTTTCCGTCAACAAAGGCTGAATCAGGGCAGCCTTTTCCATCCACCTCGAGGTATAACATCGA
AAGCTTTCATCAAGTCTCTTTTCTATACCCATAGGGAGAGACACATCAGGACCCCATCTTCATTA
GTTCTTCATTCTTCTAAGGCATTAATAGACTCACGAATTCGTTCATCATATTCTTCGTAGAATTC
AATTTTTGATCTATCCATCATCCATTGGACCTTCTTTAGGAATGATAGGCATTGCTGCAAATCGT
GTGCCTGACTGCAGTAGCAATAGCATGATCCCACGACTCCTTCTTTCTGGCTCACTAATCCCACT
TTTACAAAAGCTTGCCATACTTTAGACATTGGGGTCTTGACTTCTTTAACACTCCTCTTGACCCA
ACAGCTTTTCCCTTTCATTATGGCATTTATCATTGGTTTGGCATGATTGAGGAGTGGATTAGCCC
CAACATTAGGCCTCGGGCCTTGTTCAACCTTGATTACACCTCTATTTAGCAAACCCTATACTTTT
CTCTTGGCATGATT
Found at i:1893163 original size:28 final size:27
Alignment explanation
Indices: 1893129--1893203 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 27
1893119 GAAATAAAGC
1893129 CGGGGTTGGAGTATCCCC-TCGAAAATAA
1 CGGGGTTGGAGTATCCCCAT-G-AAATAA
*
1893157 CGGGGTTAGAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
1893185 CGGGGTTGGGAGCATCCCC
1 CGGGGTT-GGAGTATCCCC
1893204 GATTGTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 30 0.73
29 10 0.24
30 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.20
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:1893250 original size:108 final size:107
Alignment explanation
Indices: 1893050--1893251 Score: 262
Period size: 108 Copynumber: 1.9 Consensus size: 107
1893040 GAAATAAAAT
* * * * *
1893050 CGGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAGAAATCAATAT
1 CGGGGTTAGAGTATCCCCATGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATCAATAT
* * *
1893115 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAA
66 TTTAGAAATAAAACCAGAGTTGGAGTATCCCCTCGAAAATAA
**
1893157 CGGGGTTAGAGTATCCCCAATG-AAATAACGGGGTTGGGAGCATCCCCGATTGTGAAAAATTGAT
1 CGGGGTTAGAGTATCCCC-ATGAAAATAACGGGGTT-GGAGCATCCCCGATTGTGAAAAATCAAT
* * *
1893221 GTTTTGGAAATAAAATCAGAGTTGGAGTATC
64 ATTTTAGAAATAAAACCAGAGTTGGAGTATC
1893252 TTTGATTGTG
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 30 0.38
108 50 0.62
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (107 bp):
CGGGGTTAGAGTATCCCCATGAAAATAACGGGGTTGGAGCATCCCCGATTGTGAAAAATCAATAT
TTTAGAAATAAAACCAGAGTTGGAGTATCCCCTCGAAAATAA
Found at i:1897652 original size:22 final size:21
Alignment explanation
Indices: 1897617--1897666 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1897607 TTTGTTGATG
*
1897617 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
1897637 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
1897658 AATTTGAAG
1 ATTTTGAAG
1897667 AATATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Found at i:1897663 original size:21 final size:22
Alignment explanation
Indices: 1897624--1897666 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1897614 ATGATTTTGA
* *
1897624 TGAAAAATGAAGTATTTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1897646 TGAAAAAT-AAGAAATTTGAAG
1 TGAAAAATGAAGAAATTTGAAG
1897667 AATATTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.51, C:0.00, G:0.21, T:0.28
Consensus pattern (22 bp):
TGAAAAATGAAGAAATTTGAAG
Found at i:1897793 original size:13 final size:13
Alignment explanation
Indices: 1897775--1897800 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1897765 TAGTAACCCT
1897775 TGTATCGATACAA
1 TGTATCGATACAA
1897788 TGTATCGATACAA
1 TGTATCGATACAA
1897801 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1901716 original size:3 final size:3
Alignment explanation
Indices: 1901708--1901741 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
1901698 TCCGAGTCAC
**
1901708 CAT CAT CAT CAT CAT CAT CAT CAT TTT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1901742 TTTGATGGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (3 bp):
CAT
Found at i:1903370 original size:13 final size:13
Alignment explanation
Indices: 1903348--1903377 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1903338 ACAATTCATC
*
1903348 ATGTATCGATACA
1 ATGTACCGATACA
1903361 ATGTACCGATACA
1 ATGTACCGATACA
1903374 ATGT
1 ATGT
1903378 GCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (13 bp):
ATGTACCGATACA
Found at i:1903464 original size:19 final size:19
Alignment explanation
Indices: 1903422--1903475 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
1903412 ACTGCCAGTT
* **
1903422 CATGTATCGATA-ATTGTC
1 CATGTATCGATACAATGAA
1903440 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1903459 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1903476 TATCGATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 12 0.38
19 20 0.62
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1903478 original size:13 final size:13
Alignment explanation
Indices: 1903460--1903486 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1903450 TACAATGAAC
1903460 ATGTATCGATACA
1 ATGTATCGATACA
1903473 ATGTATCGATACA
1 ATGTATCGATACA
1903486 A
1 A
1903487 AGCATAATAT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1909042 original size:15 final size:15
Alignment explanation
Indices: 1909004--1909042 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1908994 TGTATCGACG
*
1909004 ATTTTGTGGTGGGTA
1 ATTTTGTGGTGGATA
**
1909019 ATTAGGTGGTGGATA
1 ATTTTGTGGTGGATA
1909034 ATTTTGTGG
1 ATTTTGTGG
1909043 CAGATTTGGC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
ATTTTGTGGTGGATA
Found at i:1918533 original size:12 final size:12
Alignment explanation
Indices: 1918512--1918542 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1918502 TCCCCTTAAG
1918512 AATT-TTACTAA
1 AATTCTTACTAA
1918523 AATTCTTACTAA
1 AATTCTTACTAA
1918535 AATTCTTA
1 AATTCTTA
1918543 AGTTAATCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTCTTACTAA
Done.