Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 10 of 17
Found at i:1711810 original size:20 final size:20
Alignment explanation
Indices: 1711780--1711830 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1711770 TCCGGTAATG
*
1711780 TTTTACCGGTTTTATCAT-T
1 TTTTACTGGTTTTATCATAT
1711799 TTGTTACTGGTTTTATCATAT
1 TT-TTACTGGTTTTATCATAT
1711820 TTTTACCTGGT
1 TTTTA-CTGGT
1711831 ATATCGTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 18 0.64
21 8 0.29
ACGTcount: A:0.16, C:0.14, G:0.14, T:0.57
Consensus pattern (20 bp):
TTTTACTGGTTTTATCATAT
Found at i:1712040 original size:181 final size:181
Alignment explanation
Indices: 1711567--1712038 Score: 678
Period size: 182 Copynumber: 2.6 Consensus size: 181
1711557 CGTACTTACG
* * *
1711567 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
1711632 TATCATATTTTTA-CTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
1711696 AGGCGCTATAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
* * * *
1711747 AAAGTATCGACACTTTTAATATATCCGGTAATGTTTTACCGGTTTTATCATTTTGTTACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
1711812 TATCATATTTTTACCTGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
1711877 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * * *
1711929 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTGACCGGTTTTATCATTTCT-ATACCGATT
1 AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TGATACCGGTT
* * *
1711993 TTGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
1712039 AATTTGGATC
Statistics
Matches: 259, Mismatches: 30, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
180 72 0.28
181 91 0.35
182 95 0.37
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:1712821 original size:34 final size:34
Alignment explanation
Indices: 1712782--1712879 Score: 169
Period size: 34 Copynumber: 2.9 Consensus size: 34
1712772 ACATAAAAAA
1712782 TTTATACATAGAATGAATATAAATAAAATTAAAT
1 TTTATACATAGAATGAATATAAATAAAATTAAAT
*
1712816 TTTATACATAGAACGAATATAAATAAAATTAAAT
1 TTTATACATAGAATGAATATAAATAAAATTAAAT
* *
1712850 TTTATACATATAATGAATATAAATTAAATT
1 TTTATACATAGAATGAATATAAATAAAATT
1712880 TAGATTCTAG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (34 bp):
TTTATACATAGAATGAATATAAATAAAATTAAAT
Found at i:1715612 original size:2 final size:2
Alignment explanation
Indices: 1715605--1715647 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1715595 AAGGTCCACT
1715605 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1715647 T
1 T
1715648 GTAATTTGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1718724 original size:18 final size:18
Alignment explanation
Indices: 1718701--1718751 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
1718691 TCTTAAGGAG
*
1718701 TGGTCCTTCGAGACATAA
1 TGGTCCTTCGGGACATAA
* *
1718719 TGGTCCTTTGGGACATAG
1 TGGTCCTTCGGGACATAA
1718737 TGGTCCTTCGGGACA
1 TGGTCCTTCGGGACA
1718752 AATATTCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (18 bp):
TGGTCCTTCGGGACATAA
Found at i:1723585 original size:23 final size:23
Alignment explanation
Indices: 1723558--1723604 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1723548 GGTACCGATG
1723558 CACCCATAGTGCATCGGTACACT
1 CACCCATAGTGCATCGGTACACT
1723581 CACCCATAGTGCATCGGTACACT
1 CACCCATAGTGCATCGGTACACT
1723604 C
1 C
1723605 CTAAAGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (23 bp):
CACCCATAGTGCATCGGTACACT
Found at i:1724750 original size:32 final size:32
Alignment explanation
Indices: 1724692--1724947 Score: 315
Period size: 32 Copynumber: 8.1 Consensus size: 32
1724682 GAGTCGAGGG
* * *
1724692 TTACTTATATCTTTCGGGACACATGGACAGGA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* *
1724724 TTACCTATGTCTTTCGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* *
1724756 TTACCTATGTCTTTCGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* *
1724788 TTACCTATGTCTTTCGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
* **
1724820 TTACCTATGTCTTTTGGGACATATGGACAATA
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
*
1724852 TTACCTATGTCTTTCGGGACATATGGACA-GT
1 TTACCTATGTCTTTCGGGACATATGGACAGGA
*
1724883 TTACCTATGTTCTTT-GGGACATATGGACA-GT
1 TTACCTATG-TCTTTCGGGACATATGGACAGGA
* *
1724914 TTAACTATGT-TCTTCGGGACATATGAACA-GA
1 TTACCTATGTCT-TTCGGGACATATGGACAGGA
1724945 TTA
1 TTA
1724948 TTATACGAGT
Statistics
Matches: 207, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
29 1 0.00
30 3 0.01
31 50 0.24
32 153 0.74
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (32 bp):
TTACCTATGTCTTTCGGGACATATGGACAGGA
Found at i:1724802 original size:64 final size:64
Alignment explanation
Indices: 1724692--1724947 Score: 360
Period size: 64 Copynumber: 4.0 Consensus size: 64
1724682 GAGTCGAGGG
* * * *
1724692 TTACTTATATCTTTCGGGACACATGGACAGGATTACCTATGTCTTTCGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGAGACATATGGACAGTA
*
1724756 TTACCTATGTCTTTCGAGACATATGGACAGTATTACCTATGTCTTTCGAGACATATGGACAGTA
1 TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGAGACATATGGACAGTA
* * *
1724820 TTACCTATGTCTTTTGGGACATATGGACAATATTACCTATGTCTTTCGGGACATATGGACAGT-
1 TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGAGACATATGGACAGTA
* * *
1724883 TTACCTATGTTCTTT-GGGACATATGGACAGT-TTAACTATGT-TCTTCGGGACATATGAACAG-
1 TTACCTATG-TCTTTCGGGACATATGGACAGTATTACCTATGTCT-TTCGAGACATATGGACAGT
1724944 A
64 A
1724945 TTA
1 TTA
1724948 TTATACGAGT
Statistics
Matches: 177, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
61 1 0.01
62 29 0.16
63 24 0.14
64 123 0.69
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (64 bp):
TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGAGACATATGGACAGTA
Found at i:1724865 original size:96 final size:95
Alignment explanation
Indices: 1724692--1724938 Score: 356
Period size: 96 Copynumber: 2.6 Consensus size: 95
1724682 GAGTCGAGGG
* * * * * *
1724692 TTACTTATATCTTTCGGGACACATGGACAGGATTACCTATGTCTTTCGAGACATATGGACAGTAT
1 TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGGGACATATGGACAATAT
1724757 TACCTATGTCTTTCGAGACATATGGACAGT
66 TACCTATGTCTTTCGAGACATATGGACAGT
* *
1724787 ATTACCTATGTCTTTCGAGACATATGGACAGTATTACCTATGTCTTTTGGGACATATGGACAATA
1 -TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGGGACATATGGACAATA
*
1724852 TTACCTATGTCTTTCGGGACATATGGACAGT
65 TTACCTATGTCTTTCGAGACATATGGACAGT
*
1724883 TTACCTATGTTCTTT-GGGACATATGGACAGT-TTAACTATGT-TCTTCGGGACATATG
1 TTACCTATG-TCTTTCGGGACATATGGACAGTATTACCTATGTCT-TTCGGGACATATG
1724939 AACAGATTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
93 1 0.01
94 21 0.15
95 24 0.18
96 91 0.66
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (95 bp):
TTACCTATGTCTTTCGGGACATATGGACAGTATTACCTATGTCTTTCGGGACATATGGACAATAT
TACCTATGTCTTTCGAGACATATGGACAGT
Found at i:1727167 original size:21 final size:21
Alignment explanation
Indices: 1727143--1727182 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1727133 GTCATGTGCA
*
1727143 GTACTGTAGCAGTGCATCGGT
1 GTACTATAGCAGTGCATCGGT
1727164 GTACTATAGCAGTGCATCG
1 GTACTATAGCAGTGCATCG
1727183 ATACACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (21 bp):
GTACTATAGCAGTGCATCGGT
Found at i:1727243 original size:21 final size:21
Alignment explanation
Indices: 1727217--1727271 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
1727207 TTATGCATTG
*
1727217 GTACACTCTAGCAGTACATCA
1 GTACACTGTAGCAGTACATCA
*
1727238 GTACACTGTAGCAGTACATCG
1 GTACACTGTAGCAGTACATCA
*
1727259 GTATACTGTAGCA
1 GTACACTGTAGCA
1727272 CTGTTCACGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (21 bp):
GTACACTGTAGCAGTACATCA
Found at i:1731385 original size:41 final size:40
Alignment explanation
Indices: 1731300--1731387 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 40
1731290 GCAATCGATA
* * * *
1731300 ATTCGCAACGCGATCTTCGGTATCGCAAATCAGTTTCCAG
1 ATTCGCAACGCGAACTTCGCTATCGCAAAGCAGTTTACAG
* *
1731340 ATTCGCAACGCGAACTTCGACTATCGCAACGC-GATTTACAT
1 ATTCGCAACGCGAACTTCG-CTATCGCAAAGCAG-TTTACAG
1731381 ATTCGCA
1 ATTCGCA
1731388 TTGCGATAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
40 19 0.47
41 21 0.52
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.26
Consensus pattern (40 bp):
ATTCGCAACGCGAACTTCGCTATCGCAAAGCAGTTTACAG
Found at i:1731478 original size:40 final size:40
Alignment explanation
Indices: 1731423--1731918 Score: 787
Period size: 40 Copynumber: 12.2 Consensus size: 40
1731413 GATCTCGCAA
1731423 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731463 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCACGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731503 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTTGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731543 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731585 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731625 TGCGATTTTCCAAATTTGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* *
1731665 TGCGATTTATTTCAAATTCGTTGCGATAGTCGAAGTTCGCTT
1 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* * *
1731707 TGCGATTTTCCAAATTCATTGTGATAGTCGAAGTTTGCGTT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCG-T
*
1731748 TG-GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCTT
1 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731789 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTAGCGT
1 TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731829 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGTGT
1 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731871 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731913 TGCGAT
1 TGCGAT
1731919 AGTCCAAAAT
Statistics
Matches: 424, Mismatches: 22, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
40 224 0.53
41 21 0.05
42 179 0.42
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (40 bp):
TGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
Found at i:1731599 original size:82 final size:81
Alignment explanation
Indices: 1731423--1731926 Score: 793
Period size: 82 Copynumber: 6.2 Consensus size: 81
1731413 GATCTCGCAA
1731423 TGCGATT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
1 TGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
*
1731487 TAGTCGAAGTTCACGT
66 TAGTCGAAGTTCGCGT
*
1731503 TGCGATT-TTCCAAATTCGTTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCGTTGC
1 TGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGC
1731567 GATAGTCGAAGTTCGCGT
64 GATAGTCGAAGTTCGCGT
*
1731585 TGCGATT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTTGTTGCGA
1 TGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
1731649 TAGTCGAAGTTCGCGT
66 TAGTCGAAGTTCGCGT
* * * *
1731665 TGCGATTTATTTCAAATTCGTTGCGATAGTCGAAGTTCGCTTTGCGATTTTCCAAATTCATTGTG
1 TGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCG
*
1731730 ATAGTCGAAGTTTGCGTT
65 ATAGTCGAAGTTCGCG-T
*
1731748 TG-GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCTTTGCGATTTTCCAAATTCGTTGCG
1 TGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCG
*
1731812 ATAGTCGAAGTTAGCGT
65 ATAGTCGAAGTTCGCGT
*
1731829 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCGTTG
1 TGCGA-TTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTG
1731894 CGATAGTCGAAGTTCGCGT
63 CGATAGTCGAAGTTCGCGT
*
1731913 TGCGA-TAGTCCAAA
1 TGCGATTATTCCAAA
1731927 ATCGCAACGA
Statistics
Matches: 398, Mismatches: 18, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
80 81 0.20
81 9 0.02
82 266 0.67
83 5 0.01
84 37 0.09
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.37
Consensus pattern (81 bp):
TGCGATTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
TAGTCGAAGTTCGCGT
Found at i:1731647 original size:122 final size:123
Alignment explanation
Indices: 1731423--1731918 Score: 799
Period size: 122 Copynumber: 4.0 Consensus size: 123
1731413 GATCTCGCAA
1731423 TGCGA-TTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
1 TGCGATTTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
* *
1731487 TAGTCGAAGTTCACGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTTGCGT
66 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731543 TGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCG
1 TGCGATTT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCG
*
1731608 ATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTTGTTGCGATAGTCGAAGTTCGCGT
65 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
* * * *
1731665 TGCGATTTATTTCAAATTCGTTGCGATAGTCGAAGTTCGCTTTGCGATTTTCCAAATTCATTGTG
1 TGCGATTT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCG
* *
1731730 ATAGTCGAAGTTTGCGTTTG-GATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCTT
65 ATAGTCGAAGTTCGCG-TTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
*
1731789 TGCGA-TTTTCCAAATTCGTTGCGATAGTCGAAGTTAGCGTTGCGATTTATTCCAAATTCGTTGC
1 TGCGATTTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGC
*
1731853 GATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
64 GATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
1731913 TGCGAT
1 TGCGAT
1731919 AGTCCAAAAT
Statistics
Matches: 349, Mismatches: 18, Indels: 13
0.92 0.05 0.03
Matches are distributed among these distances:
120 5 0.01
121 2 0.01
122 223 0.64
123 12 0.03
124 107 0.31
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (123 bp):
TGCGATTTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGA
TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGT
Found at i:1731931 original size:21 final size:21
Alignment explanation
Indices: 1731889--1731931 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1731879 ATTCCAAATT
* **
1731889 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAAATCG
1731910 CGTTGCGATAGTCCAAAATCG
1 CGTTGCGATAGTCCAAAATCG
1731931 C
1 C
1731932 AACGACTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAAATCG
Found at i:1732516 original size:15 final size:15
Alignment explanation
Indices: 1732493--1732578 Score: 91
Period size: 15 Copynumber: 5.3 Consensus size: 15
1732483 GCCGTCCGTC
* *
1732493 TCGTCTCGTCTCGGG
1 TCGTGTCGTGTCGGG
1732508 TCGTGTCGTGTCGGG
1 TCGTGTCGTGTCGGG
*
1732523 TCGTGTCGTGTCGTG
1 TCGTGTCGTGTCGGG
1732538 TCGTGGTCGTGGTCGTGG
1 TCGT-GTCGT-GTCG-GG
1732556 TCGTGGTCGTGGTCGTGG
1 TCGT-GTCGT-GTCG-GG
1732574 TCGTG
1 TCGTG
1732579 GTAATACGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
15 31 0.48
16 5 0.08
17 5 0.08
18 23 0.36
ACGTcount: A:0.00, C:0.21, G:0.44, T:0.35
Consensus pattern (15 bp):
TCGTGTCGTGTCGGG
Found at i:1732548 original size:6 final size:6
Alignment explanation
Indices: 1732506--1732580 Score: 108
Period size: 6 Copynumber: 13.5 Consensus size: 6
1732496 TCTCGTCTCG
1732506 GGTCGT -GTCGT -GTCG- GGTCGT -GTCGT -GTCGT -GTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1732548 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1732581 AATACGTGTC
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
5 28 0.42
6 38 0.58
ACGTcount: A:0.00, C:0.17, G:0.48, T:0.35
Consensus pattern (6 bp):
GGTCGT
Found at i:1732714 original size:23 final size:21
Alignment explanation
Indices: 1732677--1732748 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
1732667 ATTTTGGACT
1732677 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAA
*
1732698 ATCGCAACGCGAACTTGGACT--
1 ATCGCAA--CGAACTTGGAATAA
* *
1732719 ATCGCAACGAATTTGAAATAA
1 ATCGCAACGAACTTGGAATAA
*
1732740 ATCGTAACG
1 ATCGCAACG
1732749 CGAACTTCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.21
21 22 0.52
23 11 0.26
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAACTTGGAATAA
Found at i:1732729 original size:42 final size:42
Alignment explanation
Indices: 1732670--1732769 Score: 164
Period size: 42 Copynumber: 2.4 Consensus size: 42
1732660 CGTTGCGATT
*
1732670 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAAC
* *
1732712 TTGGACTATCGCAACGAATTTGAAATAAATCGTAACGCGAAC
1 TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAAC
*
1732754 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
1732770 CAACGCGAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGAAATAAATCGCAACGCGAAC
Found at i:1733551 original size:3 final size:3
Alignment explanation
Indices: 1733543--1733572 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
1733533 CCATTTTCAT
*
1733543 TTC TTC TTC TTC TTC TTC TTC GTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1733573 CTCCTTTGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:1739053 original size:22 final size:22
Alignment explanation
Indices: 1739036--1739102 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
1739026 CTCGTATAAA
1739036 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1739058 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1739080 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1739102 T
1 T
1739103 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1739364 original size:30 final size:31
Alignment explanation
Indices: 1739323--1739382 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1739313 TAGCCATAGT
*
1739323 ATTTTCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGCGCATATC
*
1739353 ATTTACATACCTTTATCACATAGCGCATAT
1 ATTTACATACCTTTAACACATAGCGCATAT
1739383 AACGTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGCGCATATC
Found at i:1739439 original size:29 final size:29
Alignment explanation
Indices: 1739397--1739468 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1739387 TTTTCTGCAT
**
1739397 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
* *
1739426 ATTCATGTCATGTAATACCTTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
1739455 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1739469 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:1739918 original size:68 final size:69
Alignment explanation
Indices: 1739771--1739924 Score: 211
Period size: 69 Copynumber: 2.2 Consensus size: 69
1739761 TTTTCTCATG
* * *
1739771 GGGGAATCGGTTCCCCCCCCCTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGTATCGGTT-CCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACG
*
1739836 ATGAG
65 ATGAA
* * * * *
1739841 GGGGTATCGGTTCCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGT
1 GGGGTATCGGTTCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
1739905 TGAA
66 TGAA
1739909 GGGGTATCGGTTCCCC
1 GGGGTATCGGTTCCCC
1739925 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
68 27 0.36
69 37 0.49
70 11 0.15
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (69 bp):
GGGGTATCGGTTCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACGA
TGAA
Found at i:1739934 original size:21 final size:21
Alignment explanation
Indices: 1739904--1739946 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1739894 ATCATATTCG
* *
1739904 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1739925 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1739946 T
1 T
1739947 AACCCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1745997 original size:22 final size:22
Alignment explanation
Indices: 1745980--1746046 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
1745970 CTCGTATAAA
1745980 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1746002 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
1746024 TGCACCGAAGTGTCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
1746046 T
1 T
1746047 ATGTCCATAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:1746307 original size:30 final size:31
Alignment explanation
Indices: 1746266--1746325 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
1746256 TAGCCATAGT
*
1746266 ATTTTCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGCGCATATC
*
1746296 ATTTACATACCTTTATCACATAGCGCATAT
1 ATTTACATACCTTTAACACATAGCGCATAT
1746326 AACGTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGCGCATATC
Found at i:1746382 original size:29 final size:29
Alignment explanation
Indices: 1746340--1746411 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
1746330 TTTTCTGCAT
**
1746340 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
* *
1746369 ATTCATGTCATGTAATACCTTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
1746398 ATTCATGTCATGTA
1 ATTCATGTCATGTA
1746412 TCATAATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:1746849 original size:68 final size:69
Alignment explanation
Indices: 1746709--1746861 Score: 211
Period size: 69 Copynumber: 2.2 Consensus size: 69
1746699 TTTTTCTCAT
* * *
1746709 GGGGGAATCGGTTCCCCCCCCTAGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACG
1 GGGGGTATCGGTTCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACG
1746774 ATGA
66 ATGA
* * * *
1746778 GGGGGTATCGGTTCCCCCCCCTGGGGGTACCGATT-CCCTCTAGCATTCTGGAA-ATCATATTCG
1 GGGGGTATCGGTTCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACG
*
1746841 TTGA
66 ATGA
*
1746845 AGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
1746862 TTGAATGGGT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
67 27 0.36
68 16 0.21
69 32 0.43
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (69 bp):
GGGGGTATCGGTTCCCCCCCCTAGGGGTACCGATTCCCCTCAAGCAATCTGGAATATCATATACG
ATGA
Found at i:1746871 original size:21 final size:21
Alignment explanation
Indices: 1746841--1746883 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1746831 ATCATATTCG
* *
1746841 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
1746862 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
1746883 T
1 T
1746884 AACCCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:1748046 original size:19 final size:19
Alignment explanation
Indices: 1748013--1748066 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1748003 CTCTAAATTC
*
1748013 TCTATTTC-ATCTTCTCGAT
1 TCTATTTCTAT-TTCTCAAT
*
1748032 TCTATTTCTATTTCTAAAT
1 TCTATTTCTATTTCTCAAT
*
1748051 TCTACTTCTATTTCTC
1 TCTATTTCTATTTCTC
1748067 TTGACTATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.56
Consensus pattern (19 bp):
TCTATTTCTATTTCTCAAT
Found at i:1753275 original size:19 final size:19
Alignment explanation
Indices: 1753242--1753295 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
1753232 CTCTAAATTC
*
1753242 TCTATTTC-ATCTTCTCGAT
1 TCTATTTCTAT-TTCTCAAT
*
1753261 TCTATTTCTATTTCTAAAT
1 TCTATTTCTATTTCTCAAT
*
1753280 TCTACTTCTATTTCTC
1 TCTATTTCTATTTCTC
1753296 TTGACTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 28 0.93
20 2 0.07
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.56
Consensus pattern (19 bp):
TCTATTTCTATTTCTCAAT
Found at i:1756555 original size:20 final size:20
Alignment explanation
Indices: 1756530--1756577 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1756520 GAAATGTAAG
*
1756530 ATTACCTGTGGGAATAAAAA
1 ATTACCAGTGGGAATAAAAA
*
1756550 ATTACCAGTGGGAATAAAAG
1 ATTACCAGTGGGAATAAAAA
1756570 ATTACCAG
1 ATTACCAG
1756578 GGAATAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (20 bp):
ATTACCAGTGGGAATAAAAA
Found at i:1756580 original size:18 final size:19
Alignment explanation
Indices: 1756539--1756583 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
1756529 GATTACCTGT
1756539 GGGAATAAAAAATTACCAG
1 GGGAATAAAAAATTACCAG
*
1756558 TGGGAATAAAAGATTACCA-
1 -GGGAATAAAAAATTACCAG
1756577 GGGAATA
1 GGGAATA
1756584 GGATTACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
20 17 0.71
ACGTcount: A:0.49, C:0.09, G:0.24, T:0.18
Consensus pattern (19 bp):
GGGAATAAAAAATTACCAG
Found at i:1759497 original size:46 final size:46
Alignment explanation
Indices: 1759434--1759524 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
1759424 GTTAAGTCTC
* **
1759434 TCGAATATTATAAGTTACAAAATGGTTTTTTAATTATAGGGTGTTA
1 TCGAATATTATAAGTTACAAAATGATTTCCTAATTATAGGGTGTTA
*
1759480 TCGACTATTA-AATGTTACAAAATGATTTCCTAATTATAGGGTGTT
1 TCGAATATTATAA-GTTACAAAATGATTTCCTAATTATAGGGTGTT
1759525 GTTTTGTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 2 0.05
46 38 0.95
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (46 bp):
TCGAATATTATAAGTTACAAAATGATTTCCTAATTATAGGGTGTTA
Found at i:1762969 original size:15 final size:16
Alignment explanation
Indices: 1762951--1762983 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1762941 GTGGCAGATC
1762951 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
1762966 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
1762982 AA
1 AA
1762984 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:1767766 original size:17 final size:16
Alignment explanation
Indices: 1767746--1767777 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1767736 TTGATTATTT
1767746 AATTTTATATCTTTTAA
1 AATTTTATAT-TTTTAA
1767763 AATTTTATATTTTTA
1 AATTTTATATTTTTA
1767778 TATCTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTTTATATTTTTAA
Found at i:1768135 original size:16 final size:16
Alignment explanation
Indices: 1768114--1768150 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
1768104 ATTAAACATA
*
1768114 TCAAGTTATCTTAATG
1 TCAAGTGATCTTAATG
1768130 TCAAGTGATCTTAATG
1 TCAAGTGATCTTAATG
1768146 TCAAG
1 TCAAG
1768151 AGGAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (16 bp):
TCAAGTGATCTTAATG
Found at i:1768246 original size:17 final size:17
Alignment explanation
Indices: 1768212--1768244 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1768202 TATTAATGAT
1768212 TAAATAAAAATTATAAA
1 TAAATAAAAATTATAAA
*
1768229 TAAATAATAATT-TAAA
1 TAAATAAAAATTATAAA
1768245 ATTATAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAATAAAAATTATAAA
Found at i:1768249 original size:24 final size:24
Alignment explanation
Indices: 1768218--1768285 Score: 120
Period size: 24 Copynumber: 2.8 Consensus size: 24
1768208 TGATTAAATA
1768218 AAAATTATAAATAAATAATAATTT
1 AAAATTATAAATAAATAATAATTT
1768242 AAAATTATAAATAAATAATAATTT
1 AAAATTATAAATAAATAATAATTT
1768266 AAAATTATTAAA-AAATAATA
1 AAAATTA-TAAATAAATAATA
1768286 TAATTAACCA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 39 0.91
25 4 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (24 bp):
AAAATTATAAATAAATAATAATTT
Found at i:1768270 original size:13 final size:13
Alignment explanation
Indices: 1768230--1768270 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
1768220 AATTATAAAT
1768230 AAATAATAATTTA
1 AAATAATAATTTA
* *
1768243 AAATTATAA-AT-
1 AAATAATAATTTA
1768254 AAATAATAATTTA
1 AAATAATAATTTA
1768267 AAAT
1 AAAT
1768271 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 8 0.36
12 2 0.09
13 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:1771626 original size:2 final size:2
Alignment explanation
Indices: 1771619--1771662 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1771609 TATAAAAATA
*
1771619 TG TG TG TG TG TG TG TG AG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1771661 TG
1 TG
1771663 CAATGGTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.02, C:0.00, G:0.50, T:0.48
Consensus pattern (2 bp):
TG
Found at i:1771990 original size:166 final size:169
Alignment explanation
Indices: 1771712--1772058 Score: 538
Period size: 166 Copynumber: 2.0 Consensus size: 169
1771702 TTAGTGTGTG
1771712 AATTGTCCGTGTATTGTTAGATAATTAAGGTTTTCCGTAGTCATTTTATATGCCTCACTAAGTCA
1 AATTGTCCGTGTATTGTTAGATAATTAAGGTTTTCC--AGTCATTTTATATGCCTCACTAAGTCA
1771777 TCAACTTAGCGTGTGAGTGTTTCACACGTAGGTTTCGAGAAGATT-GAGGAGAAAGACATGTCAG
64 TCAACTTAGCGTGTGAGTGTTTCACACGTAGGTTTCGAGAAGATTAGAGGAGAAAGACATGTCAG
* * *
1771841 CTTCTCCTTTCTGGATATCAGATTAGAAAAACATTTTATTA
129 CTTCTCCTTTCCGGATATCAGATCAAAAAAACATTTTATTA
1771882 AATTGTCCGTGTATTGTTAGATAATTAAGGTTTTCC-GT-ATTTTATATGCCTCACTAAGTCATC
1 AATTGTCCGTGTATTGTTAGATAATTAAGGTTTTCCAGTCATTTTATATGCCTCACTAAGTCATC
1771945 AACTTAGCGTGTGAGTGTTTCACACGTAGGTTTCGAGAAGATTGAGGAGCAAAGAGGAGAAAGAC
66 AACTTAGCGTGTGAGTGTTTCACACGTAGGTTTCGAGAAGATT---------AGAGGAGAAAGAC
*
1772010 ATGTCAGCTTCTTCTTTCCGGATATCAGATCAAAAAAACATTTTATTA
122 ATGTCAGCTTCTCCTTTCCGGATATCAGATCAAAAAAACATTTTATTA
1772058 A
1 A
1772059 TATTCATTTT
Statistics
Matches: 163, Mismatches: 4, Indels: 14
0.90 0.02 0.08
Matches are distributed among these distances:
166 68 0.42
167 2 0.01
170 36 0.22
176 57 0.35
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (169 bp):
AATTGTCCGTGTATTGTTAGATAATTAAGGTTTTCCAGTCATTTTATATGCCTCACTAAGTCATC
AACTTAGCGTGTGAGTGTTTCACACGTAGGTTTCGAGAAGATTAGAGGAGAAAGACATGTCAGCT
TCTCCTTTCCGGATATCAGATCAAAAAAACATTTTATTA
Found at i:1775058 original size:13 final size:13
Alignment explanation
Indices: 1775014--1775059 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
1775004 TTTGTCAGAG
1775014 TTGACCGTTGACT
1 TTGACCGTTGACT
* *
1775027 TTGACAGGTCTGACC
1 TTGAC-CGT-TGACT
1775042 TTGACCGTTGACT
1 TTGACCGTTGACT
1775055 TTGAC
1 TTGAC
1775060 TGAAAAAGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 14 0.52
14 4 0.15
15 9 0.33
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (13 bp):
TTGACCGTTGACT
Found at i:1776428 original size:66 final size:66
Alignment explanation
Indices: 1776309--1776438 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
1776299 TGTATGAAGA
* * * * ** * *
1776309 CTCTGGCAGGTTCAGTCGTTGCTGGTAATTCCTTGTATAGGTTCTGCATCGACTGGTAATTCCTA
1 CTCTGACAGGTTCAGTCGATACTGGTAATTCCTTGTATAAGTTCAACACCGACTGATAATTCCTA
1776374 T
66 T
* *
1776375 CTCTGACAGGTTTAGTCGATACTGGTAATTCCTTTTATAAGTTCAACACCGACTGATAATTCCT
1 CTCTGACAGGTTCAGTCGATACTGGTAATTCCTTGTATAAGTTCAACACCGACTGATAATTCCT
1776439 TATAGACCTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (66 bp):
CTCTGACAGGTTCAGTCGATACTGGTAATTCCTTGTATAAGTTCAACACCGACTGATAATTCCTA
T
Found at i:1778167 original size:15 final size:15
Alignment explanation
Indices: 1778160--1778214 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
1778150 GAATTATTAG
1778160 AATTTGAATTACTGA
1 AATTTGAATTACTGA
1778175 AATTTGAATTACTGA
1 AATTTGAATTACTGA
** * * *
1778190 AAAATAAATTATTGG
1 AATTTGAATTACTGA
1778205 AATTTGAATT
1 AATTTGAATT
1778215 CTGGAAAATG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.40
Consensus pattern (15 bp):
AATTTGAATTACTGA
Found at i:1778200 original size:30 final size:29
Alignment explanation
Indices: 1778166--1778223 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
1778156 TTAGAATTTG
1778166 AATTACTGAAATTTGAATTACTGAAAAATA
1 AATTACTGAAATTTGAATT-CTGAAAAATA
* * *
1778196 AATTATTGGAATTTGAATTCTGGAAAAT
1 AATTACTGAAATTTGAATTCTGAAAAAT
1778224 GATTATGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (29 bp):
AATTACTGAAATTTGAATTCTGAAAAATA
Found at i:1778263 original size:14 final size:14
Alignment explanation
Indices: 1778216--1778265 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
1778206 ATTTGAATTC
*
1778216 TGGAAAATG-ATTA
1 TGGAAAATGTTTTA
*
1778229 TGGAAAACGTTTTA
1 TGGAAAATGTTTTA
*
1778243 CGGAAAATGTTTTA
1 TGGAAAATGTTTTA
*
1778257 TGTAAAATG
1 TGGAAAATG
1778266 AATTACATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (14 bp):
TGGAAAATGTTTTA
Found at i:1778599 original size:23 final size:20
Alignment explanation
Indices: 1778552--1778599 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 20
1778542 ATTAGTGTTA
1778552 TATTATATTTTTAAAATATT
1 TATTATATTTTTAAAATATT
* *
1778572 AATTAGTATATTTTAAATATCTT
1 TATTA-TAT-TTTTAAA-ATATT
1778595 TATTA
1 TATTA
1778600 AAATATTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.18
21 3 0.14
22 7 0.32
23 8 0.36
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTATATTTTTAAAATATT
Found at i:1778654 original size:26 final size:27
Alignment explanation
Indices: 1778621--1778770 Score: 100
Period size: 26 Copynumber: 5.6 Consensus size: 27
1778611 GATTATATTA
1778621 ATTAAATATAAATAATATTAT-TCATT
1 ATTAAATATAAATAATATTATATCATT
*
1778647 ATTAAATATATAAAAATTATTATAT-ATTT
1 ATTAAATATA-AATAA-TATTATATCA-TT
* *
1778676 ATTAAA-ATAAA-AATATAATATCTTAT
1 ATTAAATATAAATAATATTATATCAT-T
* * *
1778702 ATTATAATATAATTAATTATTTTATTATAAT
1 ATTA-AATATAAATAA-TATTATATCAT--T
*
1778733 ATTAAA-A-ATATAATATTATAT-ATT
1 ATTAAATATAAATAATATTATATCATT
*
1778757 A-TAAATATTAATAA
1 ATTAAATATAAATAA
1778771 ATATATTTTA
Statistics
Matches: 98, Mismatches: 13, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
23 4 0.04
24 3 0.03
25 12 0.12
26 19 0.19
27 15 0.15
28 18 0.18
29 12 0.12
30 9 0.09
31 6 0.06
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (27 bp):
ATTAAATATAAATAATATTATATCATT
Found at i:1778705 original size:55 final size:54
Alignment explanation
Indices: 1778613--1778778 Score: 139
Period size: 55 Copynumber: 3.0 Consensus size: 54
1778603 TATTATTAGA
* * *
1778613 TTATATTAATTAAATATAAATAATATTAT-TCAT-TATTA-AATATATAAAAATTAT
1 TTATATTTATTAAA-ATAAA-AATATAATATCTTATATTATAATATA-AAAAATTAT
**
1778667 TATATATTTATTAAAATAAAAATATAATATCTTATATTATAATATAATTAATTAT
1 T-TATATTTATTAAAATAAAAATATAATATCTTATATTATAATATAAAAAATTAT
* *
1778722 TT-TA-TTA-TAATATTAAAAATATAATAT-TATATATTATAAATATTAATAAATATAT
1 TTATATTTATTAA-AATAAAAATATAATATCT-TATATTAT-AATA-TAAAAAAT-TAT
1778777 TT
1 TT
1778779 TAAATATTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
51 4 0.04
52 26 0.27
53 13 0.14
54 17 0.18
55 30 0.31
56 6 0.06
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (54 bp):
TTATATTTATTAAAATAAAAATATAATATCTTATATTATAATATAAAAAATTAT
Found at i:1778711 original size:8 final size:8
Alignment explanation
Indices: 1778700--1778766 Score: 52
Period size: 8 Copynumber: 8.8 Consensus size: 8
1778690 ATAATATCTT
1778700 ATATTATA
1 ATATTATA
* *
1778708 ATATAATT
1 ATATTATA
*
1778716 A-ATTATT
1 ATATTATA
*
1778723 TTATTATA
1 ATATTATA
1778731 ATATTA-A
1 ATATTATA
*
1778738 A-AATATA
1 ATATTATA
1778745 ATATTAT-
1 ATATTATA
1778752 ATATTATAA
1 ATATTAT-A
1778761 ATATTA
1 ATATTA
1778767 ATAAATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
6 3 0.07
7 16 0.35
8 21 0.46
9 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
ATATTATA
Found at i:1778744 original size:14 final size:14
Alignment explanation
Indices: 1778727--1778775 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 14
1778717 ATTATTTTAT
1778727 TATAATATTAAAAA
1 TATAATATTAAAAA
* *
1778741 TATAATATTATATAT
1 TATAATATTA-AAAA
1778756 TATAAATATTAATAAA
1 TAT-AATATTAA-AAA
1778772 TATA
1 TATA
1778776 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 10 0.36
15 7 0.25
16 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TATAATATTAAAAA
Found at i:1778744 original size:32 final size:34
Alignment explanation
Indices: 1778700--1778789 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 34
1778690 ATAATATCTT
1778700 ATATT-AT-AATATAATTAATTATTTTATTAT-A
1 ATATTAATAAATATAATTAATTATTTTATTATAA
*
1778731 ATATTAA-AAATATAA-T-ATTA-TATATTATAA
1 ATATTAATAAATATAATTAATTATTTTATTATAA
* *
1778761 ATATTAATAAATATATTTTAAATATTTTA
1 ATATTAATAAATATA-ATTAATTATTTTA
1778790 ATAATTAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
29 7 0.15
30 12 0.26
31 13 0.28
32 8 0.17
33 1 0.02
34 3 0.06
35 3 0.06
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (34 bp):
ATATTAATAAATATAATTAATTATTTTATTATAA
Found at i:1778757 original size:21 final size:22
Alignment explanation
Indices: 1778724--1778801 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
1778714 TTAATTATTT
1778724 TATTATAATATTAAAAATA-TAA
1 TATTAT-ATATTAAAAATATTAA
*
1778746 TATTATATATTATAAATATTAA
1 TATTATATATTAAAAATATTAA
* * * *
1778768 TAAATATATTTTAAATATTTTAA
1 T-ATTATATATTAAAAATATTAA
1778791 TAATTA-ATATT
1 T-ATTATATATT
1778802 TTGATGAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 11 0.24
22 14 0.30
23 21 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTATATATTAAAAATATTAA
Found at i:1778782 original size:11 final size:11
Alignment explanation
Indices: 1778731--1778785 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
1778721 TTTTATTATA
*
1778731 ATATTAAAAAT
1 ATATTATAAAT
* *
1778742 ATAATAT-TAT
1 ATATTATAAAT
1778752 ATATTATAAAT
1 ATATTATAAAT
*
1778763 AT-TAATAAAT
1 ATATTATAAAT
*
1778773 ATATTTTAAAT
1 ATATTATAAAT
1778784 AT
1 AT
1778786 TTTAATAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
10 17 0.50
11 17 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATATTATAAAT
Found at i:1778786 original size:30 final size:30
Alignment explanation
Indices: 1778724--1778799 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 30
1778714 TTAATTATTT
*
1778724 TATTATAATATTAA-AAATATAATATTATA
1 TATTATAATATTAATAAATATAATATTAAA
*
1778753 TATTATAAATATTAATAAATAT-ATTTTAAA
1 TATTAT-AATATTAATAAATATAATATTAAA
*
1778783 TATTTTAATAATTAATA
1 TATTATAAT-ATTAATA
1778800 TTTTGATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.22
30 26 0.63
31 6 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTATAATATTAATAAATATAATATTAAA
Found at i:1778799 original size:52 final size:51
Alignment explanation
Indices: 1778683--1778840 Score: 139
Period size: 52 Copynumber: 3.1 Consensus size: 51
1778673 TTTATTAAAA
* *
1778683 TAAAAATATAATATCTTATATTATAATATAATTAATTATTTTATTATAATAT
1 TAAAAATATAATAT-TTATATTATAATATAATAAATTATTTTATAATAATAT
*
1778735 TAAAAATATAATATTATATATTATAAATATTAATAAATATATTTTA-AAT-ATTT
1 TAAAAATATAATATT-TATATTAT-AATA-TAATAAAT-TATTTTATAATAATAT
* * * * *
1778788 TAATAAT-TAATATTT-TGATGAAAATGATATTAAAATATTTTAT--TAATAT
1 TAAAAATATAATATTTAT-ATTATAAT-ATAATAAATTATTTTATAATAATAT
1778837 TAAA
1 TAAA
1778841 TTCATAAAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
48 1 0.01
49 13 0.15
50 10 0.11
51 6 0.07
52 29 0.33
53 13 0.15
54 9 0.10
55 7 0.08
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (51 bp):
TAAAAATATAATATTTATATTATAATATAATAAATTATTTTATAATAATAT
Found at i:1781101 original size:5 final size:5
Alignment explanation
Indices: 1781091--1781147 Score: 107
Period size: 5 Copynumber: 11.6 Consensus size: 5
1781081 GAGGTAAACT
1781091 TTATA TTATA -TATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1781140 TTATA TTA
1 TTATA TTA
1781148 GGTAAGGCTG
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 47 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:1797060 original size:22 final size:21
Alignment explanation
Indices: 1797035--1797094 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
1797025 TAAAAAAATA
1797035 AAATAAACAAAAAAAAATAAAG
1 AAATAAA-AAAAAAAAATAAAG
* * *
1797057 AAATAAAGAAAATAAAATGAAT
1 AAATAAA-AAAAAAAAATAAAG
1797079 AAAGTAAAAAAAAAAA
1 AAA-TAAAAAAAAAAA
1797095 GGTAAAAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.12
Consensus pattern (21 bp):
AAATAAAAAAAAAAAATAAAG
Found at i:1797074 original size:14 final size:13
Alignment explanation
Indices: 1797025--1797063 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
1797015 AATTATTTAG
1797025 TAAAAAAATAAAA
1 TAAAAAAATAAAA
*
1797038 TAAACAAAAAAAAA
1 TAAA-AAAATAAAA
*
1797052 TAAAGAAATAAA
1 TAAAAAAATAAA
1797064 GAAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:1797155 original size:5 final size:5
Alignment explanation
Indices: 1797115--1797171 Score: 60
Period size: 5 Copynumber: 10.6 Consensus size: 5
1797105 TTAGTTAAGA
*
1797115 AAAAT AAGAAT AAGAAT AAGAAT AAACT AGAAAT AAAAT AAAAT AAAAT
1 AAAAT AA-AAT AA-AAT AA-AAT AAAAT A-AAAT AAAAT AAAAT AAAAT
*
1797164 AAAGT AAA
1 AAAAT AAA
1797172 TATTTAAACT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 26 0.55
6 21 0.45
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1799151 original size:252 final size:251
Alignment explanation
Indices: 1798560--1799357 Score: 1016
Period size: 252 Copynumber: 3.2 Consensus size: 251
1798550 GACAATTTTA
* * * * * *
1798560 TTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAAT-TTGACTTG-CCTCTGAGCTGAGTG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATG---TGCCCTC-GAGCTGAGCG
* * *
1798623 TAATCGAGCTCAAAGGT-TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
62 TAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
* *
1798687 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGACAGATAGCCCTTCTCGAC
127 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCACGAC
* *
1798752 TTAAGCTATGCTTCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGGAGGTCTTTGG
192 TTAAGCTATGCTGCAAATGATGTG-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G
* * * * * * * * * *
1798814 TTGGCAGATAGCCCTTATCGACTTAAGTTATGCTGCAAATGATGTACCTTTGAGCTGAGCGTAGT
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTCGAGCTGAGCGTAGT
* *
1798879 CAAACTCGAAGGTC-TTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
66 CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* *
1798943 CCCTCGAAGTTGAGTGTAATCGAACTCGAA-GTATTTGGTTGGCAGATAACCCTTCACGACTTAA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCACGACTTAA
* * * * * *
1799007 GATATGCTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCAAATGTCTTTG
196 GCTATGCTGCAAATGATGTG-CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
* *
1799064 TTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCCTCGAAGCTGAGCGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTCG-AGCTGAGCGTAG
*
1799129 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGT
65 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * * * * * * *
1799194 G-CCTTGGAGCTGAGCGTAGTCGAACTCTAAGGTCTTTTGTTGGCAGATAGCCCTTCTA-GCCTT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTC-ACGACTT
* * *
1799257 GAGCTTTGCTGCAAATGATATGCATTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTG
194 AAGCTATGCTGCAAATGATGTGC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTG
*
1799317 TTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATA
1799358 GAAAAAATTG
Statistics
Matches: 468, Mismatches: 67, Indels: 19
0.84 0.12 0.03
Matches are distributed among these distances:
250 41 0.09
251 128 0.27
252 219 0.47
253 45 0.10
254 33 0.07
255 2 0.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (251 bp):
TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATAATGTGCCCTCGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGAAGGTATTTGGTTGGCAGATAGCCCTTCACGACTTAA
GCTATGCTGCAAATGATGTGCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
Found at i:1799368 original size:84 final size:84
Alignment explanation
Indices: 1798555--1799356 Score: 918
Period size: 84 Copynumber: 9.5 Consensus size: 84
1798545 AACTTGACAA
* * * * * *
1798555 TTTTATTGACAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGACT-TGCCTCT-GAGCT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAA--TGA-TGTGCCT-TGGAGCT
* * * *
1798618 GAGTGTAATCGAGCTCAAAGGT-
62 GAGCGTAGTCGAACTCGAAGGTC
* *
1798640 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * *
1798705 TGTAATCGAACTCGAAGGTA
65 CGTAGTCGAACTCGAAGGTC
* * * * * * * *
1798725 TTTGGTTGACAGATAGCCCTTCTCGACTTAAGCTATGCTTCAAATGATGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
1798790 GTAGTCGAACTCGGAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * * * * * *
1798809 TTTGGTTGGCAGATAGCCCTTATCGACTTAAGTTATGCTGCAAATGATGTACCTTTGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
1798874 GTAGTCAAACTCGAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * * *
1798893 -TTTGTTGGAAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCCTCGAAGTTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
* * *
1798957 TGTAATCGAACTCGAA-GTA
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
1798976 TTTGGTTGGCAGATAACCCTTC-ACGACTTAAGATATGCTGCAAATGATGTGTCTTTGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTA-GCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAG
* * * *
1799040 TGTAATCGAACTCAAATGTC
65 CGTAGTCGAACTCGAAGGTC
* * * * * *
1799060 -TTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGATGTAAATAATGTGCCCTCGAAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAG
1799124 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
*
1799144 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGTGCCTTGGAGCTGAGC
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
*
1799209 GTAGTCGAACTCTAAGGTC
66 GTAGTCGAACTCGAAGGTC
* * *
1799228 TTTTGTTGGCAGATAGCCCTTCTAGCCTTGAGCTT-TGCTGCAAATGATATGCATTGGAGCTGAG
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAG-TTATGCTGCAAATGATGTGCCTTGGAGCTGAG
1799292 CGTAGTCGAACTCGAAGGTC
65 CGTAGTCGAACTCGAAGGTC
1799312 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
1 TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
1799357 AGAAAAAATT
Statistics
Matches: 614, Mismatches: 90, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
82 1 0.00
83 115 0.19
84 370 0.60
85 128 0.21
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (84 bp):
TTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
GTAGTCGAACTCGAAGGTC
Found at i:1800622 original size:95 final size:96
Alignment explanation
Indices: 1800457--1800643 Score: 277
Period size: 95 Copynumber: 2.0 Consensus size: 96
1800447 TGTAAACACC
* * *
1800457 TTTATCAGGTTAGTTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGAGGGACA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGACGGACA
*
1800522 ACTCAAGCTTTATTGTATAT-TATAATCACA
66 ACTCAAGCTTTATTATATATATATAATCACA
* * * * *
1800552 TTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGTGGTGTTTAACCAATTACTTTTGACGGACA
1 TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGACGGACA
*
1800617 CCTCAAGCTTTATTATATATATATAAT
66 ACTCAAGCTTTATTATATATATATAAT
1800644 ATTATAATAT
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 75 0.93
96 6 0.07
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (96 bp):
TTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTACTCTAGACGGACA
ACTCAAGCTTTATTATATATATATAATCACA
Found at i:1803207 original size:9 final size:10
Alignment explanation
Indices: 1803144--1803207 Score: 55
Period size: 9 Copynumber: 6.7 Consensus size: 10
1803134 ATTAAAAGTT
1803144 AGTAAAA-AA
1 AGTAAAATAA
1803153 AG-AAAATAA
1 AGTAAAATAA
*
1803162 AGAAAAATAA
1 AGTAAAATAA
1803172 AG-AAAATAA
1 AGTAAAATAA
* *
1803181 AAT-GAATAA
1 AGTAAAATAA
*
1803190 AGTAAAAAAAA
1 AGT-AAAATAA
1803201 AGTAAAA
1 AGTAAAA
1803208 GGGTTAGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
8 4 0.09
9 21 0.47
10 13 0.29
11 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.12
Consensus pattern (10 bp):
AGTAAAATAA
Found at i:1803247 original size:5 final size:5
Alignment explanation
Indices: 1803219--1803258 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
1803209 GGTTAGTTAA
*
1803219 AAAAT AAGAAT AAACT AGAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AA-AAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAA
1803259 TATTTAAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 22 0.71
6 9 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1803250 original size:10 final size:10
Alignment explanation
Indices: 1803219--1803258 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
1803209 GGTTAGTTAA
1803219 AAAATAAGAAT
1 AAAATAA-AAT
*
1803230 AAACTAGAAAT
1 AAAATA-AAAT
1803241 AAAATAAAAT
1 AAAATAAAAT
1803251 AAAATAAA
1 AAAATAAA
1803259 TATTTAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 12 0.46
11 13 0.50
12 1 0.04
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:1806614 original size:15 final size:16
Alignment explanation
Indices: 1806581--1806616 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
1806571 ATTTTTTTAA
1806581 ATTAA-TGTAATTATT
1 ATTAATTGTAATTATT
1806596 -TTAATTGT-ATTATT
1 ATTAATTGTAATTATT
1806610 ATTAATT
1 ATTAATT
1806617 TTTGGTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
ATTAATTGTAATTATT
Found at i:1807534 original size:3 final size:3
Alignment explanation
Indices: 1807526--1807599 Score: 130
Period size: 3 Copynumber: 24.7 Consensus size: 3
1807516 CTAGCTAGTT
*
1807526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1807574 TTA TTA TTA TTA TTA TTA TCA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1807600 TATTCTTTAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1807747 original size:20 final size:20
Alignment explanation
Indices: 1807722--1807777 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
1807712 GCGAAATAAA
1807722 AATCGCAACGCGATCT-CCAG
1 AATCGCAACGCGAT-TACCAG
**
1807742 AATCGCAAATC-AGTTACCAG
1 AATCGCAACGCGA-TTACCAG
1807762 AATCGCAACGCGATTA
1 AATCGCAACGCGATTA
1807778 TTAAGAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 2 0.07
20 26 0.90
21 1 0.03
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGATTACCAG
Found at i:1807850 original size:20 final size:20
Alignment explanation
Indices: 1807825--1807877 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
1807815 GATTTTCCAT
1807825 AATCGCAACGCGAAAATGA-A
1 AATCGCAACGCGAAAAT-ATA
*
1807845 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAAAATATA
1807865 AATCGCAACGCGA
1 AATCGCAACGCGA
1807878 TTCTGACTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.45, C:0.25, G:0.19, T:0.11
Consensus pattern (20 bp):
AATCGCAACGCGAAAATATA
Found at i:1807907 original size:40 final size:39
Alignment explanation
Indices: 1807863--1808080 Score: 267
Period size: 40 Copynumber: 5.4 Consensus size: 39
1807853 CGCGAACATA
* * *
1807863 TAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCG
1 TAAATCGCAACGCGATACGT-A-AATCGCAACGCGTATCCG
*
1807903 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-CGATACGT-AAATCGCAACGCGTATCCG
* *
1807944 TAAATCGCAACGAGAATACGTAAATCGCAACGCGTATCTG
1 TAAATCGCAACGCG-ATACGTAAATCGCAACGCGTATCCG
* *
1807984 TAAATCGCAACGAGAATACGTAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCG-ATACGTAAATCGCAACGCGTATCCG
*
1808024 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-CGATACGT-AAATCGCAACGCGTATCCG
*
1808065 TAAATCGCAACACGAT
1 TAAATCGCAACGCGAT
1808081 TTTTAAAGCG
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
40 89 0.56
41 67 0.42
42 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.19
Consensus pattern (39 bp):
TAAATCGCAACGCGATACGTAAATCGCAACGCGTATCCG
Found at i:1807909 original size:20 final size:20
Alignment explanation
Indices: 1807886--1808075 Score: 218
Period size: 20 Copynumber: 9.4 Consensus size: 20
1807876 GATTCTGACT
1807886 ATCGCAACGAGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
1807906 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
1807927 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1807947 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1807967 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1807987 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1808007 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
1808027 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
1808048 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
1808068 ATCGCAAC
1 ATCGCAAC
1808076 ACGATTTTTA
Statistics
Matches: 137, Mismatches: 31, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
20 105 0.77
21 32 0.23
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:1807988 original size:121 final size:121
Alignment explanation
Indices: 1807825--1808075 Score: 355
Period size: 121 Copynumber: 2.1 Consensus size: 121
1807815 GATTTTCCAT
* * * * *
1807825 AATCGCAACGCGAAAATGAAAATCGCAACGCGAACATATAAATCGCAACGCG-ATTC-TGACTAT
1 AATCGCAACGAGAAAACGAAAATCGCAACGCGAACATATAAATCGCAACGAGAATACGT-A-AAT
1807888 CGCAACGAGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
64 CGCAACGAGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
* * * *
1807946 AATCGCAACGAGAATACGTAAATCGCAACGCGTATC-TGTAAATCGCAACGAGAATACGTAAATC
1 AATCGCAACGAGAAAACGAAAATCGCAACGCG-AACATATAAATCGCAACGAGAATACGTAAATC
* *
1808010 GCAATGCGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
65 GCAACGAGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
1808067 AATCGCAAC
1 AATCGCAAC
1808076 ACGATTTTTA
Statistics
Matches: 116, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
121 109 0.94
122 6 0.05
123 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (121 bp):
AATCGCAACGAGAAAACGAAAATCGCAACGCGAACATATAAATCGCAACGAGAATACGTAAATCG
CAACGAGTATCCGTAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTA
Found at i:1808697 original size:21 final size:20
Alignment explanation
Indices: 1808636--1808711 Score: 84
Period size: 20 Copynumber: 3.8 Consensus size: 20
1808626 TTCTAAACTT
*
1808636 AAAATCGCAAC-ATAAAAATG
1 AAAATCGCAACGA-GAAAATG
1808656 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGA-GAAAATG
**
1808676 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGA-AAATG
1808697 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
1808712 TAATCGCAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 29 0.60
21 19 0.40
ACGTcount: A:0.53, C:0.18, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGAGAAAATG
Found at i:1808795 original size:19 final size:19
Alignment explanation
Indices: 1808771--1808817 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
1808761 CGATTCTCTA
1808771 GTTGCGATTTTAATTTCGC
1 GTTGCGATTTTAATTTCGC
*
1808790 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTAATTTCGC
1808809 GTTGCGATT
1 GTTGCGATT
1808818 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (19 bp):
GTTGCGATTTTAATTTCGC
Found at i:1808820 original size:52 final size:53
Alignment explanation
Indices: 1808742--1808871 Score: 172
Period size: 52 Copynumber: 2.5 Consensus size: 53
1808732 AATCGCATTC
* **
1808742 CGATTTTCCTTTCGCGTTGCGATTCTCTAGTTGCGATTTTAATTT-CGCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTCTAGTTGCGATAGTAATTTCCGCGTTG
* *
1808794 CGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTG
1 CGATTTTCATTTCGCGTTGCGATTCTCTAGTTGCGATAGTAATTTCCGCGTTG
** *
1808847 CGATAGTCATTCTCTCGTTGCGATT
1 CGATTTTCATT-TCGCGTTGCGATT
1808872 TTCATTTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 40 0.59
53 16 0.24
54 12 0.18
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.43
Consensus pattern (53 bp):
CGATTTTCATTTCGCGTTGCGATTCTCTAGTTGCGATAGTAATTTCCGCGTTG
Found at i:1808876 original size:20 final size:19
Alignment explanation
Indices: 1808771--1808879 Score: 102
Period size: 20 Copynumber: 5.9 Consensus size: 19
1808761 CGATTCTCTA
*
1808771 GTTGCGATTTTAATTTCGC
1 GTTGCGATTTTCATTTCGC
1808790 GTTGCGATTTTCATTTCGC
1 GTTGCGATTTTCATTTCGC
*
1808809 GTTGCGA--TTC---TCTC
1 GTTGCGATTTTCATTTCGC
**
1808823 GTTGCGATAGTCATTTCCGC
1 GTTGCGATTTTCATTT-CGC
** *
1808843 GTTGCGATAGTCATTCTCTC
1 GTTGCGATTTTCATT-TCGC
1808863 GTTGCGATTTTCATTTC
1 GTTGCGATTTTCATTTC
1808880 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
14 10 0.13
16 2 0.03
17 3 0.04
19 28 0.37
20 32 0.42
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (19 bp):
GTTGCGATTTTCATTTCGC
Found at i:1812196 original size:14 final size:14
Alignment explanation
Indices: 1812177--1812240 Score: 110
Period size: 14 Copynumber: 4.6 Consensus size: 14
1812167 ATTGTTTAAT
1812177 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1812191 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1812205 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1812219 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1812233 TGATTTGT
1 TGATTTGT
1812241 TTAATTGATG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 47 1.00
ACGTcount: A:0.36, C:0.00, G:0.22, T:0.42
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1812208 original size:28 final size:28
Alignment explanation
Indices: 1812176--1812240 Score: 130
Period size: 28 Copynumber: 2.3 Consensus size: 28
1812166 GATTGTTTAA
1812176 TTGATTTGTAAAAGATGATTTGTAAAAG
1 TTGATTTGTAAAAGATGATTTGTAAAAG
1812204 TTGATTTGTAAAAGATGATTTGTAAAAG
1 TTGATTTGTAAAAGATGATTTGTAAAAG
1812232 TTGATTTGT
1 TTGATTTGT
1812241 TTAATTGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.22, T:0.43
Consensus pattern (28 bp):
TTGATTTGTAAAAGATGATTTGTAAAAG
Found at i:1812445 original size:33 final size:33
Alignment explanation
Indices: 1812403--1812591 Score: 245
Period size: 33 Copynumber: 5.5 Consensus size: 33
1812393 ACTAAATTCG
* *
1812403 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1812436 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1812469 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * *
1812508 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1812541 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
1812574 CGTTGTGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
1812592 CGCGTTGTGA
Statistics
Matches: 137, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
33 104 0.76
34 2 0.01
35 2 0.01
37 1 0.01
38 2 0.01
39 26 0.19
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:1812515 original size:20 final size:19
Alignment explanation
Indices: 1812469--1812535 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
1812459 GCGATTCTCT
**
1812469 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
1812488 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
* *
1812508 CGTTGCGAT-TTTAGTTTCG
1 CGTTGCGATAGTCA-TTTCG
1812527 CGTTGCGAT
1 CGTTGCGAT
1812536 TTTGTCGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 27 0.68
20 13 0.32
ACGTcount: A:0.13, C:0.21, G:0.24, T:0.42
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:1812544 original size:72 final size:66
Alignment explanation
Indices: 1812403--1812591 Score: 236
Period size: 72 Copynumber: 2.8 Consensus size: 66
1812393 ACTAAATTCG
* *
1812403 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1812468 T
66 T
*
1812469 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATTTT-AGTTTCGCGTTGC
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCGCGTTGCGATTTTCA-TTTCGCATTGC
* *
1812533 GATTTTGT
59 GATTCTCT
* * *
1812541 CGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTC
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATTTTCATTTC
1812592 CGCGTTGTGA
Statistics
Matches: 107, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
66 43 0.40
67 1 0.01
68 2 0.02
70 2 0.02
71 1 0.01
72 58 0.54
ACGTcount: A:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCGCGTTGCGATTTTCATTTCGCATTGCGATTCTC
T
Found at i:1812584 original size:105 final size:105
Alignment explanation
Indices: 1812401--1812591 Score: 321
Period size: 105 Copynumber: 1.8 Consensus size: 105
1812391 AAACTAAATT
*
1812401 CGCGTTGCGATTTTCATTTCGCTTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1 CGCGTTGCGATTTTCATTTCGCGTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
1812466 TCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
66 TCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
***
1812506 CGCGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGTCGTTGCGATTTTCATTTCGCATTGCGATT
1 CGCGTTGCGATTTTCA-TTTCGCGTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATT
*
1812570 CTCTCGTTGTGATTTTCATTTC
65 CTCTCGTTGCGATTTTCATTTC
1812592 CGCGTTGTGA
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 1 0.01
105 79 0.99
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.46
Consensus pattern (105 bp):
CGCGTTGCGATTTTCATTTCGCGTTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATTC
TCTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTC
Found at i:1815153 original size:24 final size:24
Alignment explanation
Indices: 1815119--1815172 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1815109 CTGAAAAATC
1815119 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1815143 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1815167 ATCAAA
1 ATCAAA
1815173 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1815186 original size:24 final size:24
Alignment explanation
Indices: 1815119--1815186 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1815109 CTGAAAAATC
* * *
1815119 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1815143 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1815167 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1815187 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1816080 original size:20 final size:20
Alignment explanation
Indices: 1816034--1816201 Score: 76
Period size: 20 Copynumber: 8.3 Consensus size: 20
1816024 AGAATCTAGT
1816034 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
* *
1816054 CGTGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* **
1816074 TGCGATTACGT-ATTCGCGT
1 TGCGATTACGTAAATCGCAA
**
1816093 TGCGATTTACGT-AATCGCGT
1 TGCGA-TTACGTAAATCGCAA
* * **
1816113 TGCGATTTTC-CAAATTCGCGT
1 TGCGA-TTACGTAAA-TCGCAA
* *
1816134 TGCGATTTACGT-ATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
1816154 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
** *
1816175 TGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
1816196 TGCGAT
1 TGCGAT
1816202 AGTCAGAATC
Statistics
Matches: 121, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
19 14 0.12
20 61 0.50
21 46 0.38
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:1816133 original size:21 final size:21
Alignment explanation
Indices: 1816085--1816143 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 21
1816075 GCGATTACGT
**
1816085 ATTCGCGTTGCGATTTACGTA
1 ATTCGCGTTGCGATTTACCAA
*
1816106 A-TCGCGTTGCGATTTTCCAA
1 ATTCGCGTTGCGATTTACCAA
1816126 ATTCGCGTTGCGATTTAC
1 ATTCGCGTTGCGATTTAC
1816144 GTATTCGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (21 bp):
ATTCGCGTTGCGATTTACCAA
Found at i:1816178 original size:21 final size:21
Alignment explanation
Indices: 1816148--1816200 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1816138 ATTTACGTAT
*
1816148 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
1816169 TCGCAATGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
1816190 TCGCAATGCGA
1 TCGCAATGCGA
1816201 TAGTCAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:1816179 original size:41 final size:41
Alignment explanation
Indices: 1816093--1816179 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 41
1816083 GTATTCGCGT
* * * * **
1816093 TGCGATTTACGTAATCGCGTTGCGATTTTCCAAATTCGCGT
1 TGCGATTTACGTAATCGCATTGCGAATTACCAAAATCGCAA
* **
1816134 TGCGATTTACGTATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGATTTACGTAATCGCATTGCGAATTACCAAAATCGCAA
1816175 TGCGA
1 TGCGA
1816180 ATTTGGGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (41 bp):
TGCGATTTACGTAATCGCATTGCGAATTACCAAAATCGCAA
Found at i:1819793 original size:20 final size:20
Alignment explanation
Indices: 1819756--1819792 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1819746 CCTAAATACT
*
1819756 TTTTCAAAATTTCATTTTGA
1 TTTTCAAAATTCCATTTTGA
1819776 TTTTCAAAA-TCCATTTT
1 TTTTCAAAATTCCATTTT
1819793 TTGCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTGA
Found at i:1821364 original size:43 final size:43
Alignment explanation
Indices: 1821310--1821626 Score: 379
Period size: 43 Copynumber: 7.4 Consensus size: 43
1821300 TGGTAACAAA
** * * *
1821310 AAACGCCGCAATAGGTAATGATATATAGCGGCGTTTGTCCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
* * * *
1821353 AAACGCAGCAATAGGTGTTAATATTTAGCGGCGTTTGTCCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
* *
1821396 AAACACCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCCAAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
*
1821439 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
*
1821482 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTTTC-AC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCG-TTTTTCCAAC
* *
1821525 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
* * * * * **
1821568 AAACACCGCAAAAGAT-CTG-GTATATAGCGGCGTGTTTTATAAC
1 AAACGCCGCAATAGGTGTTGAG-ATTTAGCGGCGT-TTTTCCAAC
*
1821611 AAACGCCGCAAAAGGT
1 AAACGCCGCAATAGGT
1821627 CATATCTATA
Statistics
Matches: 245, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
41 1 0.00
42 19 0.08
43 219 0.89
44 6 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
AAACGCCGCAATAGGTGTTGAGATTTAGCGGCGTTTTTCCAAC
Found at i:1821809 original size:21 final size:21
Alignment explanation
Indices: 1821783--1821829 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1821773 AACTTGACAT
**
1821783 CATAACAACAAACTTAAAATC
1 CATAACAACAAAAATAAAATC
* *
1821804 CATAACAAGAAAAATGAAATC
1 CATAACAACAAAAATAAAATC
1821825 CATAA
1 CATAA
1821830 TAATAAATCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (21 bp):
CATAACAACAAAAATAAAATC
Found at i:1825325 original size:52 final size:52
Alignment explanation
Indices: 1825257--1825415 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
1825247 TAACAACAAA
1825257 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACT
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACT
1825309 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCAAC-
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTC-ACT
*
1825361 ATATATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACT
1 ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACT
1825413 ATA
1 ATA
1825416 TTGTTCAGTA
Statistics
Matches: 104, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
51 2 0.02
52 100 0.96
53 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (52 bp):
ATACATTATAATTTAGAAACATTAAAGTACTTATGCATAAACAGTCTTCACT
Found at i:1826514 original size:42 final size:41
Alignment explanation
Indices: 1826468--1826645 Score: 157
Period size: 42 Copynumber: 4.3 Consensus size: 41
1826458 TTTATACAAA
* *
1826468 AAACGCCGCTAATTTACCACTCTATTGCGGCGTTTTTGGTAT
1 AAACGCCGCTAATTTA-CACTATATTGCGGCGTTTTTGCTAT
* * *
1826510 AAACGCCGCTAAATGTTA-AATATATTGCGACGTTTTAGCTA-
1 AAACGCCGCT-AAT-TTACACTATATTGCGGCGTTTTTGCTAT
* *
1826551 AAACGCCGCTACATGT-CTACTATATTGCGGCGTTTTTACTAT
1 AAACGCCGCTA-ATTTAC-ACTATATTGCGGCGTTTTTGCTAT
* * * *
1826593 AAACGCCGCTACATGT-CTACTATATTGCGACATTTTTACTAT
1 AAACGCCGCTA-ATTTAC-ACTATATTGCGGCGTTTTTGCTAT
*
1826635 AAATGCCGCTA
1 AAACGCCGCTA
1826646 TTGTTTAACC
Statistics
Matches: 117, Mismatches: 13, Indels: 12
0.82 0.09 0.08
Matches are distributed among these distances:
40 2 0.02
41 31 0.26
42 78 0.67
43 3 0.03
44 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTAATTTACACTATATTGCGGCGTTTTTGCTAT
Found at i:1826577 original size:83 final size:83
Alignment explanation
Indices: 1826467--1826645 Score: 220
Period size: 83 Copynumber: 2.1 Consensus size: 83
1826457 GTTTATACAA
* * **
1826467 AAAACGCCGCTAATTTACCACTCTATTGCGGCGTTTTTGGTATAAACGCCGCTAAATGT-TAAAT
1 AAAACGCCGCTAATGTACCACTATATTGCGGCGTTTTTACTATAAACGCCGCTAAATGTCT-AAT
1826531 ATATTGCGAC-GTTTTAGCT
65 ATATTGCGACAGTTTTA-CT
* * *
1826550 AAAACGCCGCTACATGT-CTACTATATTGCGGCGTTTTTACTATAAACGCCGCTACATGTCTACT
1 AAAACGCCGCTA-ATGTACCACTATATTGCGGCGTTTTTACTATAAACGCCGCTAAATGTCTAAT
*
1826614 ATATTGCGACATTTTTACT
65 ATATTGCGACAGTTTTACT
*
1826633 ATAAATGCCGCTA
1 A-AAACGCCGCTA
1826646 TTGTTTAACC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
83 64 0.77
84 19 0.23
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (83 bp):
AAAACGCCGCTAATGTACCACTATATTGCGGCGTTTTTACTATAAACGCCGCTAAATGTCTAATA
TATTGCGACAGTTTTACT
Found at i:1826760 original size:41 final size:42
Alignment explanation
Indices: 1826715--1826806 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 42
1826705 GCGTTTGTTG
*
1826715 AAAAAACGCCACTATATACCAT-C-CTATGGCGGCGTTTTAAC
1 AAAAAACGCCACTATAT-CCATACTCTATGGCAGCGTTTTAAC
* ** * *
1826756 -AAAAACGCCGCTATATTTATACTCTATTGCAGCGTTTTCAC
1 AAAAAACGCCACTATATCCATACTCTATGGCAGCGTTTTAAC
1826797 AAAAAACGCC
1 AAAAAACGCC
1826807 GCTAAAGTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
39 2 0.05
40 16 0.38
41 15 0.36
42 9 0.21
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (42 bp):
AAAAAACGCCACTATATCCATACTCTATGGCAGCGTTTTAAC
Found at i:1830666 original size:18 final size:18
Alignment explanation
Indices: 1830640--1830681 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1830630 TGATACCCCC
*
1830640 TCATCATCA-CTGCTGCTA
1 TCATTATCAGCTG-TGCTA
1830658 TCATTATCAGCTGTGCTA
1 TCATTATCAGCTGTGCTA
1830676 TACATT
1 T-CATT
1830682 GTTTTCTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (18 bp):
TCATTATCAGCTGTGCTA
Found at i:1832169 original size:29 final size:29
Alignment explanation
Indices: 1832127--1832206 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
1832117 ATTCTACAGT
*
1832127 GACCAAAGAGGTCGCCATGCACGCCCAAC
1 GACCAAGGAGGTCGCCATGCACGCCCAAC
1832156 GACCAAGGAGGTCGCCATGCACGCCCAAC
1 GACCAAGGAGGTCGCCATGCACGCCCAAC
1832185 GACCAAGGAGGTCGCCATGCAC
1 GACCAAGGAGGTCGCCATGCAC
1832207 ACTCGGGGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.29, C:0.36, G:0.28, T:0.07
Consensus pattern (29 bp):
GACCAAGGAGGTCGCCATGCACGCCCAAC
Found at i:1832278 original size:20 final size:20
Alignment explanation
Indices: 1832253--1832307 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
1832243 GCATGGGGGG
1832253 GGGGAGATCGGTGCATGCAT
1 GGGGAGATCGGTGCATGCAT
*
1832273 GGGGAGATC-GTGTATGCAT
1 GGGGAGATCGGTGCATGCAT
1832292 GGGGAGATCGGTGCAT
1 GGGGAGATCGGTGCAT
1832308 AGGGAGATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGAGATCGGTGCATGCAT
Found at i:1832505 original size:65 final size:65
Alignment explanation
Indices: 1832412--1832539 Score: 220
Period size: 65 Copynumber: 2.0 Consensus size: 65
1832402 CCTGCACCAC
* *
1832412 GACCAAACTTTAACCCTATCCCTCATGCATGCGTTGCATCCATAGCTGGGAGATTCCTGCATCGT
1 GACCAAACTTTAACCCTATCACTCATGCATGCATTGCATCCATAGCTGGGAGATTCCTGCATCGT
* *
1832477 GACCAAGCTTTAACCCTATCACTCATGCATGCATTGCATCCATAGTTGGGAGATTCCTGCATC
1 GACCAAACTTTAACCCTATCACTCATGCATGCATTGCATCCATAGCTGGGAGATTCCTGCATC
1832540 TGTAGCTGCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (65 bp):
GACCAAACTTTAACCCTATCACTCATGCATGCATTGCATCCATAGCTGGGAGATTCCTGCATCGT
Found at i:1832559 original size:21 final size:21
Alignment explanation
Indices: 1832533--1832572 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1832523 TGGGAGATTC
**
1832533 CTGCATCTGTAGCTGCATGCG
1 CTGCATCCATAGCTGCATGCG
1832554 CTGCATCCATAGCTGCATG
1 CTGCATCCATAGCTGCATG
1832573 ATTGCAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.25, T:0.28
Consensus pattern (21 bp):
CTGCATCCATAGCTGCATGCG
Found at i:1832965 original size:21 final size:21
Alignment explanation
Indices: 1832940--1832983 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1832930 AATCTAGTTA
1832940 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
1832961 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
1832982 AT
1 AT
1832984 ATATTATAAT
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:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:1833503 original size:17 final size:17
Alignment explanation
Indices: 1833481--1833542 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
1833471 AGATAATTTC
1833481 TGTTTAAAAAAATATTG
1 TGTTTAAAAAAATATTG
* *
1833498 TGTTTAAAAATATTTAGTG
1 TGTTTAAAAA-A-ATATTG
*
1833517 TTGTTTTAAAAAAATATTT
1 -TG-TTTAAAAAAATATTG
1833536 TGTTTAA
1 TGTTTAA
1833543 TTTATATTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 15 0.42
18 3 0.08
19 7 0.19
20 3 0.08
21 8 0.22
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (17 bp):
TGTTTAAAAAAATATTG
Found at i:1833546 original size:22 final size:23
Alignment explanation
Indices: 1833503--1833546 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1833493 TATTGTGTTT
**
1833503 AAAAATATTTAGTGTTGTTTTAA
1 AAAAATATTTAGTGTTAATTTAA
*
1833526 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTGTTAATTTA
1833547 TATTGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTGTTAATTTAA
Found at i:1834767 original size:41 final size:41
Alignment explanation
Indices: 1834750--1834836 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
1834740 TATTTGATAG
1834750 TAATGA-TTAGTAATTATTAATAATAATAAAATTATTATAA
1 TAATGATTTAGTAATTATTAATAATAATAAAATTATTATAA
* * * *
1834790 TAATGATTTAGTAA-TAATCATTATAAT--AATGATT-TAA
1 TAATGATTTAGTAATTATTAATAATAATAAAATTATTATAA
1834827 TAATGATTTA
1 TAATGATTTA
1834837 AATATTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 13 0.31
38 6 0.14
40 16 0.38
41 7 0.17
ACGTcount: A:0.48, C:0.01, G:0.07, T:0.44
Consensus pattern (41 bp):
TAATGATTTAGTAATTATTAATAATAATAAAATTATTATAA
Found at i:1834814 original size:26 final size:26
Alignment explanation
Indices: 1834783--1835331 Score: 310
Period size: 26 Copynumber: 21.8 Consensus size: 26
1834773 TAATAAAATT
*
1834783 ATTATAATAATGATTTAGTAATAATC
1 ATTATAATAATGATTTAGTAATAATG
1834809 ATTATAATAATGA-TT--TAATAATG
1 ATTATAATAATGATTTAGTAATAATG
* * *
1834832 ATT-T-A-AAT-ATTTAATGATTTGATG
1 ATTATAATAATGATTTAGT-A-ATAATG
* *
1834856 ATT-TAGTAATGATTT-GATAATAATC
1 ATTATAATAATGATTTAG-TAATAATG
*
1834881 ATTATAATAATGATTT-GATAATAATC
1 ATTATAATAATGATTTAG-TAATAATG
*
1834907 ATTATAATAATGATTTAGTAATAATC
1 ATTATAATAATGATTTAGTAATAATG
* * *
1834933 ATTAT-ATAATGATTTAATAATATTTA
1 ATTATAATAATGATTTAGTAATA-ATG
* * * *
1834959 ATGAT-TTGATGATTTAGTAATGAT-
1 ATTATAATAATGATTTAGTAATAATG
*
1834983 -TTGATAATAATCA-TTA-TAATAATG
1 ATT-ATAATAATGATTTAGTAATAATG
*
1835007 ATTTGATAATAATCA-TTA-TAATAATG
1 A-TT-ATAATAATGATTTAGTAATAATG
*
1835033 ATTTAGTAATAATCA-TTA-T-ATAATG
1 A-TTA-TAATAATGATTTAGTAATAATG
* * *
1835058 ATT-T-A-AAT-ATTTAATGATTTGATG
1 ATTATAATAATGATTTAGT-A-ATAATG
*
1835082 ATT-TAATAATGATTT-GATAATAATC
1 ATTATAATAATGATTTAG-TAATAATG
*
1835107 ATTATAATAATGATTTAGTAATAATT
1 ATTATAATAATGATTTAGTAATAATG
1835133 ATTATAATAATGA-TT--TAATAATG
1 ATTATAATAATGATTTAGTAATAATG
* * *
1835156 ATT-T-A-AAT-ATTTAATGATTTGATG
1 ATTATAATAATGATTTAGT-A-ATAATG
* *
1835180 ATT-TAGTAATGATTT-GATAATAATC
1 ATTATAATAATGATTTAG-TAATAATG
* *
1835205 ATTATAATAATGATTTAATAATAATC
1 ATTATAATAATGATTTAGTAATAATG
*
1835231 ATTATAATAATGATTTAATAATAATG
1 ATTATAATAATGATTTAGTAATAATG
* * * *
1835257 ATGATAATAATGATTTAATAGTAATT
1 ATTATAATAATGATTTAGTAATAATG
* *
1835283 ATT-TAGTAATGATTTTA-TAATAATA
1 ATTATAATAATGA-TTTAGTAATAATG
* *
1835308 ATTTAATATTAATGATTTAATAAT
1 A-TT-ATAATAATGATTTAGTAAT
1835332 TATTACTAAA
Statistics
Matches: 429, Mismatches: 49, Indels: 88
0.76 0.09 0.16
Matches are distributed among these distances:
19 3 0.01
20 16 0.04
21 4 0.01
22 5 0.01
23 29 0.07
24 31 0.07
25 67 0.16
26 241 0.56
27 21 0.05
28 12 0.03
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (26 bp):
ATTATAATAATGATTTAGTAATAATG
Found at i:1834903 original size:98 final size:100
Alignment explanation
Indices: 1834775--1835331 Score: 619
Period size: 98 Copynumber: 5.3 Consensus size: 100
1834765 ATTAATAATA
* *
1834775 ATAA-AATTATTATAATAATGATTTAGTAATAATCATTATAATAATGATTTAATAATGATT-TA-
1 ATAATAATCATTATAATAATGATTTA-TAATAATCATTATAATAATGATTTAATAATCATTATAT
1834837 AAT-ATTTAATGATTTGATGATTTAGTAATGATTTG
65 AATGATTTAATGATTTGATGATTTAGTAATGATTTG
1834872 ATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTA
1 ATAATAATCATTATAATAATGATTT-ATAATAATCATTATAATAATGA-TT--TAATAATCATTA
1834937 TATAATGATTTAATAATATTTAATGATTTGATGATTTAGTAATGATTTG
62 TATAATG----------ATTTAATGATTTGATGATTTAGTAATGATTTG
1834986 ATAATAATCATTATAATAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTA
1 ATAATAATCATTATAATAATGATTT-ATAATAATCATTATAATAATGA-TT--TAATAATCATTA
*
1835051 TATAATGATTTAAATATTTAATGATTTGATGATTTAATAATGATTTG
62 TATAATG--------ATTTAATGATTTGATGATTTAGTAATGATTTG
* *
1835098 ATAATAATCATTATAATAATGATTTAGTAATAATTATTATAATAATGATTTAATAATGATT-TA-
1 ATAATAATCATTATAATAATGATTTA-TAATAATCATTATAATAATGATTTAATAATCATTATAT
1835161 AAT-ATTTAATGATTTGATGATTTAGTAATGATTTG
65 AATGATTTAATGATTTGATGATTTAGTAATGATTTG
*
1835196 ATAATAATCATTATAATAATGATTTAATAATAATCATTATAATAATGATTTAATAATAATGATGA
1 ATAATAATCATTATAATAATGATTT-ATAATAATCATTATAATAATGATTTAATAATCAT--T-A
* * * *
1835261 TAATAATGATTTAAT-A-GTAATTATTTAGTAATGATTTT
62 T-ATAATGATTTAATGATTTGATGATTTAGTAATGATTTG
* *
1835299 ATAATAATAATTTAATATTAATGATTTAATAAT
1 ATAATAATCA-TT-ATAATAATGATTT-ATAAT
1835332 TATTACTAAA
Statistics
Matches: 413, Mismatches: 18, Indels: 50
0.86 0.04 0.10
Matches are distributed among these distances:
97 4 0.01
98 127 0.31
99 4 0.01
100 1 0.00
101 10 0.02
102 3 0.01
103 31 0.08
104 6 0.01
105 25 0.06
107 3 0.01
108 2 0.00
109 10 0.02
111 3 0.01
112 80 0.19
114 104 0.25
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (100 bp):
ATAATAATCATTATAATAATGATTTATAATAATCATTATAATAATGATTTAATAATCATTATATA
ATGATTTAATGATTTGATGATTTAGTAATGATTTG
Found at i:1835496 original size:24 final size:24
Alignment explanation
Indices: 1835448--1835492 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
1835438 GATTTGATAC
*
1835448 TAATGATTTACTAATTATTATTAA
1 TAATGATTTACTAATTAATATTAA
*
1835472 TAATGATTTA-TTATTAATATT
1 TAATGATTTACTAATTAATATT
1835493 TAATTATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (24 bp):
TAATGATTTACTAATTAATATTAA
Found at i:1835499 original size:17 final size:17
Alignment explanation
Indices: 1835459--1835500 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1835449 AATGATTTAC
1835459 TAATTATTATTAATAAT
1 TAATTATTATTAATAAT
* * *
1835476 GATTTATTATTAATATT
1 TAATTATTATTAATAAT
1835493 TAATTATT
1 TAATTATT
1835501 TGATACTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (17 bp):
TAATTATTATTAATAAT
Found at i:1837783 original size:15 final size:16
Alignment explanation
Indices: 1837763--1837796 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
1837753 CAAAAAAATT
1837763 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
1837778 TAATATAATAAACTTA
1 TAATATAATAAACTTA
1837794 TAA
1 TAA
1837797 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:1837885 original size:30 final size:30
Alignment explanation
Indices: 1837849--1837954 Score: 133
Period size: 30 Copynumber: 3.5 Consensus size: 30
1837839 TTTCTTTAAA
1837849 CAACTAATAAACTATTATTTAATATAACTT
1 CAACTAATAAACTATTATTTAATATAACTT
*
1837879 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTATTTAATATAACTT
* * *
1837909 AAACTAATAAACGATTTTTTAATTATAA-TT
1 CAACTAATAAACTATTATTTAA-TATAACTT
*
1837939 CACTACTAAAAAACTA
1 CA--ACTAATAAACTA
1837955 ATTAACTAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 51 0.77
31 5 0.08
32 10 0.15
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (30 bp):
CAACTAATAAACTATTATTTAATATAACTT
Found at i:1838443 original size:22 final size:22
Alignment explanation
Indices: 1838418--1838466 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1838408 ATGGAGTAGC
*
1838418 GGGAGAAGGCGAGCATGCAGTG
1 GGGAGAAGGCGAGCATGCAGCG
*
1838440 GGGAGCAGGCGAGCATGCAGCG
1 GGGAGAAGGCGAGCATGCAGCG
1838462 GGGAG
1 GGGAG
1838467 TCGGGCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.16, G:0.53, T:0.06
Consensus pattern (22 bp):
GGGAGAAGGCGAGCATGCAGCG
Found at i:1838525 original size:29 final size:30
Alignment explanation
Indices: 1838493--1838565 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
1838483 GTCGCGGGGT
* *
1838493 GTGCATGGCGACCTACCAT-GTCGCCTGGC
1 GTGCATGGCGACCTACCATGGTCGCCCGGA
*
1838522 GTGCATGGCGACCT-CCTTGGTCGCCCGGA
1 GTGCATGGCGACCTACCATGGTCGCCCGGA
*
1838551 GGGCATGGCGACCTA
1 GTGCATGGCGACCTA
1838566 TGTTTTGGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.14, C:0.33, G:0.34, T:0.19
Consensus pattern (30 bp):
GTGCATGGCGACCTACCATGGTCGCCCGGA
Found at i:1838607 original size:15 final size:15
Alignment explanation
Indices: 1838587--1838617 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1838577 GTGCATGTCC
1838587 CATGCGACGTTAATT
1 CATGCGACGTTAATT
1838602 CATGCGACGTTAATT
1 CATGCGACGTTAATT
1838617 C
1 C
1838618 GATCTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
CATGCGACGTTAATT
Found at i:1850403 original size:8 final size:8
Alignment explanation
Indices: 1850390--1850431 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
1850380 TAGGGATCAA
1850390 CATTTTTG
1 CATTTTTG
1850398 CATTTTTG
1 CATTTTTG
*
1850406 CATCTTTG
1 CATTTTTG
*
1850414 CATCTTTG
1 CATTTTTG
1850422 CA-TTTTG
1 CATTTTTG
1850429 CAT
1 CAT
1850432 ATGCATTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.14, C:0.19, G:0.12, T:0.55
Consensus pattern (8 bp):
CATTTTTG
Found at i:1851523 original size:22 final size:21
Alignment explanation
Indices: 1851495--1851541 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1851485 CAATCAAAAC
1851495 AAAAAGA-AAAGAAGCAAAGAAA
1 AAAAAGAGAAA-AA-CAAAGAAA
*
1851517 AAAAAGAGGAAAACAAAGAAA
1 AAAAAGAGAAAAACAAAGAAA
1851538 AAAA
1 AAAA
1851542 CAAAGATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 12 0.52
22 9 0.39
23 2 0.09
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (21 bp):
AAAAAGAGAAAAACAAAGAAA
Found at i:1851538 original size:17 final size:17
Alignment explanation
Indices: 1851497--1851573 Score: 50
Period size: 17 Copynumber: 4.5 Consensus size: 17
1851487 ATCAAAACAA
* *
1851497 AAAGAAAAGAAGCAAAG
1 AAAGAAAAGAAGAAAAC
* *
1851514 AAAAAAAAGAGGAAAAC
1 AAAGAAAAGAAGAAAAC
* *
1851531 AAAGAAAAAAACAAAGATC
1 AAAGAAAAGAAGAAA-A-C
*
1851550 AAAGATAA-AA-AAAAC
1 AAAGAAAAGAAGAAAAC
1851565 AAAAGAAAA
1 -AAAGAAAA
1851574 AGAAAGGACA
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
15 1 0.02
16 8 0.17
17 27 0.57
18 3 0.06
19 8 0.17
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAAGAAAAC
Done.