Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_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: 2156694
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 10 of 11
Found at i:1708179 original size:92 final size:92
Alignment explanation
Indices: 1708074--1708252 Score: 279
Period size: 92 Copynumber: 1.9 Consensus size: 92
1708064 TCGCAACTTG
* *
1708074 AATTTCGCAACGCTGATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCG
1 AATTTCACAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCG
* *
1708139 TAACGC-GATTTTTAAATTCGCACCGCT
66 CAACGCAG-TTTTCAAATTCGCACCGCT
* *
1708166 AATTTCACAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTTAGTTTTCAAATTCG
1 AATTTCACAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCG
*
1708231 CAACTCAGTTTTCAAATTCGCA
66 CAACGCAGTTTTCAAATTCGCA
1708253 ACGCGATTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 78 0.99
93 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (92 bp):
AATTTCACAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCG
CAACGCAGTTTTCAAATTCGCACCGCT
Found at i:1708231 original size:20 final size:20
Alignment explanation
Indices: 1708206--1708254 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1708196 AAACACAACT
*
1708206 ATTCGCAACTTAGTTTTCAA
1 ATTCGCAACTCAGTTTTCAA
1708226 ATTCGCAACTCAGTTTTCAA
1 ATTCGCAACTCAGTTTTCAA
1708246 ATTCGCAAC
1 ATTCGCAAC
1708255 GCGATTCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (20 bp):
ATTCGCAACTCAGTTTTCAA
Found at i:1708450 original size:113 final size:116
Alignment explanation
Indices: 1708168--1708474 Score: 356
Period size: 118 Copynumber: 2.7 Consensus size: 116
1708158 GCACCGCTAA
* *
1708168 TTTCACAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTTAGTTTTCAAATTCGCA
1 TTTCGCAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCGCA
* * *
1708233 ACTC-AGTTTTCAAATTCGCAACGCGATTCTCCAAAATCGAAACACGAATTTGT
66 ACGCGAGTTTCCAAAATCGCAACGCGATTCTCCAAAATCGAAACACGAA--T-T
** * *
1708286 TTTCGCAACGCTAATTACTGATATAAATAAACAAAACTCTTCGCAACTCAGTTTTCAAATTCGCA
1 TTTCGCAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCGCA
**** * *
1708351 ACGCGA-TTCTCCAAAATCGCAACGCGAATT-T-CGTTTTCGCAACTCGAA-T
66 ACGCGAGTT-TCCAAAATCGCAACGCG-ATTCTCCAAAATCGAAACACGAATT
* * *
1708400 TTT-GCAACGCTAATTACCGATATAGGTAAACACAACAATTCGCAACTCAGTTTTTAAATTCGCA
1 TTTCGCAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCGCA
*
1708464 ACGCGAATTTC
66 ACGCGAGTTTC
1708475 GTTTTCGCAA
Statistics
Matches: 163, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
113 62 0.38
114 6 0.04
118 75 0.46
119 17 0.10
120 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (116 bp):
TTTCGCAACGCTAATTACTGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAATTCGCA
ACGCGAGTTTCCAAAATCGCAACGCGATTCTCCAAAATCGAAACACGAATT
Found at i:1708481 original size:20 final size:20
Alignment explanation
Indices: 1708458--1708495 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1708448 AGTTTTTAAA
1708458 TTCGCAACGCGAATTTCGTT
1 TTCGCAACGCGAATTTCGTT
**
1708478 TTCGCAATTCGAATTTCG
1 TTCGCAACGCGAATTTCG
1708496 CAACGCTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (20 bp):
TTCGCAACGCGAATTTCGTT
Found at i:1708727 original size:21 final size:21
Alignment explanation
Indices: 1708701--1708776 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
1708691 GAAATTCGCT
1708701 TTGCGATTTTGAAGAATCACG
1 TTGCGATTTTGAAGAATCACG
*
1708722 TTGCGATTTTGGAGAATCACG
1 TTGCGATTTTGAAGAATCACG
* *
1708743 TTGCGATTTTGGAGAATCGCG
1 TTGCGATTTTGAAGAATCACG
*
1708764 TTGCGAATTTGAA
1 TTGCGATTTTGAA
1708777 AACTATGTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.25, C:0.13, G:0.28, T:0.34
Consensus pattern (21 bp):
TTGCGATTTTGAAGAATCACG
Found at i:1709692 original size:7 final size:7
Alignment explanation
Indices: 1709680--1709733 Score: 108
Period size: 7 Copynumber: 7.7 Consensus size: 7
1709670 TGAGACCCCT
1709680 GCAGATG
1 GCAGATG
1709687 GCAGATG
1 GCAGATG
1709694 GCAGATG
1 GCAGATG
1709701 GCAGATG
1 GCAGATG
1709708 GCAGATG
1 GCAGATG
1709715 GCAGATG
1 GCAGATG
1709722 GCAGATG
1 GCAGATG
1709729 GCAGA
1 GCAGA
1709734 GGGGTAAAAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.43, T:0.13
Consensus pattern (7 bp):
GCAGATG
Found at i:1710644 original size:2 final size:2
Alignment explanation
Indices: 1710637--1710667 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1710627 TTCTTATTTA
1710637 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1710668 GAAATCACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1712977 original size:42 final size:42
Alignment explanation
Indices: 1712931--1713020 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
1712921 AAACATTTCA
* * *
1712931 TCACTAGTCTTAGTT-GCTGATTTGTAACGACAATTATTTTTG
1 TCACTAGTCTTAATTAG-TGATTTGCAACAACAATTATTTTTG
*
1712973 TCACTAGTCTTAATTAGTGATTTGCGACAACAATTATTTTTG
1 TCACTAGTCTTAATTAGTGATTTGCAACAACAATTATTTTTG
1713015 TCACTA
1 TCACTA
1713021 TTGAAGTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (42 bp):
TCACTAGTCTTAATTAGTGATTTGCAACAACAATTATTTTTG
Found at i:1716760 original size:20 final size:20
Alignment explanation
Indices: 1716727--1716766 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1716717 AGTTAAATTT
**
1716727 AAGAAATTTGAGTCAAGTTA
1 AAGAAATTCAAGTCAAGTTA
*
1716747 AAGAAATTCAAGTCGAGTTA
1 AAGAAATTCAAGTCAAGTTA
1716767 TTCGAGTTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (20 bp):
AAGAAATTCAAGTCAAGTTA
Found at i:1718302 original size:60 final size:60
Alignment explanation
Indices: 1718233--1718356 Score: 144
Period size: 60 Copynumber: 2.1 Consensus size: 60
1718223 ACAATATATG
* * * *
1718233 TCCCCAAACTATAACCCTCATTT-TAAATTGATTCT-TAAACTTTTGAATATTACAATTTTA
1 TCCCAAAACTATAACCCTC-TTTCTAAATTGATCCTGT-AACTTTTAAATATTACAATTTCA
* * * *
1718293 TCCCAAAACTATGACTCTCTTTCTAAATTGGTCCTGTAACTTTTAAATATTCCAATTTCA
1 TCCCAAAACTATAACCCTCTTTCTAAATTGATCCTGTAACTTTTAAATATTACAATTTCA
1718353 TCCC
1 TCCC
1718357 CAAATTCATC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
59 3 0.06
60 50 0.93
61 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.40
Consensus pattern (60 bp):
TCCCAAAACTATAACCCTCTTTCTAAATTGATCCTGTAACTTTTAAATATTACAATTTCA
Found at i:1719781 original size:24 final size:24
Alignment explanation
Indices: 1719754--1719802 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
1719744 CGATCCTCTT
1719754 TAACAATTTCGT-TGTGGTCCTCAC
1 TAACAATTTC-TATGTGGTCCTCAC
*
1719778 TAACATTTTCTATGTGGTCCTCAC
1 TAACAATTTCTATGTGGTCCTCAC
1719802 T
1 T
1719803 TAAATTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (24 bp):
TAACAATTTCTATGTGGTCCTCAC
Found at i:1721733 original size:9 final size:10
Alignment explanation
Indices: 1721717--1721741 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1721707 AAAATTTCTT
1721717 GTTTTTTTCG
1 GTTTTTTTCG
1721727 GTTTTTTTCG
1 GTTTTTTTCG
1721737 GTTTT
1 GTTTT
1721742 CAGCCGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.20, T:0.72
Consensus pattern (10 bp):
GTTTTTTTCG
Found at i:1722747 original size:60 final size:60
Alignment explanation
Indices: 1722673--1722796 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 60
1722663 GAAATGTTTA
* ** *
1722673 AAAAGTTTGGGGACTAACTT-AGAATGAA-GGTCATAATTTAGGGAT-AGAATTAAAATATTC
1 AAAAGTTTGAGGACTAA-TTGAGAAT-AATAATCATAATTTAGGGATGA-AATTAAAACATTC
* *
1722733 AAAAGTTTGAGGACTAATTGAGAATAATAATCATAGTTTAGGGATGAAATTAAAACATTT
1 AAAAGTTTGAGGACTAATTGAGAATAATAATCATAATTTAGGGATGAAATTAAAACATTC
1722793 AAAA
1 AAAA
1722797 AATTAGGATC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
59 4 0.07
60 50 0.91
61 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.19, T:0.30
Consensus pattern (60 bp):
AAAAGTTTGAGGACTAATTGAGAATAATAATCATAATTTAGGGATGAAATTAAAACATTC
Found at i:1730781 original size:21 final size:21
Alignment explanation
Indices: 1730707--1730772 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
1730697 TCAGGAATTA
* *
1730707 CAGTGGCTGTAGGAATTTCAG
1 CAGTGGTTGTAGGATTTTCAG
*
1730728 CAATGGTTGTAGGATTTTCAG
1 CAGTGGTTGTAGGATTTTCAG
1730749 CAGTGGTTGTAGGATTTTCAG
1 CAGTGGTTGTAGGATTTTCAG
1730770 CAG
1 CAG
1730773 GTTTTGTAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.33
Consensus pattern (21 bp):
CAGTGGTTGTAGGATTTTCAG
Found at i:1742119 original size:3 final size:3
Alignment explanation
Indices: 1742105--1742176 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
1742095 TTTGCCCGTT
* * * *
1742105 TTA TTT TTA TTA TTA TAA TTA TTA TAA TTA TTA CTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
1742152 TTT TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA
1742177 CATATTACAG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
2 2 0.04
3 49 0.92
4 2 0.04
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1743451 original size:21 final size:21
Alignment explanation
Indices: 1743414--1743453 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1743404 AATTAGAATT
*
1743414 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
1743435 TTTTAATC-ATATAATTTTA
1 TTTTAATCTATAT-ATTTTA
1743454 GTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:1743459 original size:21 final size:20
Alignment explanation
Indices: 1743413--1743459 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
1743403 GAATTAGAAT
*
1743413 TTTTTAATCTTTATATTTTA
1 TTTTTAATCTATATATTTTA
1743433 TATTTTAATC-ATATAATTTTA
1 T-TTTTAATCTATAT-ATTTTA
1743454 GTTTTT
1 -TTTTT
1743460 TTATTTTGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 18 0.78
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTAATCTATATATTTTA
Found at i:1744532 original size:28 final size:26
Alignment explanation
Indices: 1744501--1744569 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 26
1744491 TAATTCTTTC
1744501 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATTTTTATATATA--TATTA
* * *
1744529 TTTTCATAATATTTATATGTATATTA
1 TTTTCAAAATTTTTATATATATATTA
*
1744555 TTTTTAAATATTTTT
1 TTTTCAAA-ATTTTT
1744570 TTATTTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 11 0.32
27 5 0.15
28 18 0.53
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTCAAAATTTTTATATATATATTA
Found at i:1747683 original size:15 final size:15
Alignment explanation
Indices: 1747665--1747695 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1747655 GAAAAATTAT
*
1747665 AAAAGAAAAAAGAAG
1 AAAAGAAAAAAAAAG
1747680 AAAAGAAAAAAAAAG
1 AAAAGAAAAAAAAAG
1747695 A
1 A
1747696 GAAGTTCAAA
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:1753226 original size:76 final size:75
Alignment explanation
Indices: 1753141--1753295 Score: 256
Period size: 76 Copynumber: 2.1 Consensus size: 75
1753131 CTGGGGTATT
* *
1753141 TGAAAGCCCCTTTCAAACAGAATGAATAATGTTCACGCATTTTGAACGCTTGTATTAGCCAATGT
1 TGAAAGCCCCTTTCAAACAGAATAAAGAATGTTCACGCATTTTGAACGCTTGTATTAGCCAATGT
1753206 TGGGGGCATGC
66 T-GGGGCATGC
* * *
1753217 TGAAAGCCCCTTTCAATCAGAATAAAGAATGTTGACTCATTTTGAACGCTTGTATTAGCCAATGT
1 TGAAAGCCCCTTTCAAACAGAATAAAGAATGTTCACGCATTTTGAACGCTTGTATTAGCCAATGT
1753282 TGGGGCATGC
66 TGGGGCATGC
1753292 TGAA
1 TGAA
1753296 GGTCTGCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 13 0.18
76 61 0.82
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (75 bp):
TGAAAGCCCCTTTCAAACAGAATAAAGAATGTTCACGCATTTTGAACGCTTGTATTAGCCAATGT
TGGGGCATGC
Found at i:1754518 original size:20 final size:22
Alignment explanation
Indices: 1754472--1754529 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
1754462 TACATCTACA
1754472 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
1754494 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
* *
1754516 CTTTTCGAAGATGA
1 CTCTTCAAAGATGA
1754530 AAGCTTTATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:1755363 original size:73 final size:72
Alignment explanation
Indices: 1755188--1755431 Score: 317
Period size: 72 Copynumber: 3.3 Consensus size: 72
1755178 CTATTTCCAA
** * * *
1755188 CATCTGTAATCCCTGCAGTGCATGATGTTTTCAATAAGCCTTCGGGAGCTTTTTGATGTTATTAA
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAG-CTTCGGGAGCTTTTTGA---TCTT-A
*
1755253 AACCCTCAGGGT
61 AAGCCTCAGGGT
* * *
1755265 CATCTATAAGACCTACAGTGCATGATGCTTTCAAAAAGCTTTCGGAAGCTTTTTGATCTTAAAGC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGC-TTCGGGAGCTTTTTGATCTTAAAGC
1755330 CTCAGGGT
65 CTCAGGGT
* *
1755338 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAACTTCGGGAGTTTTTTGATCTTAAAGCC
1 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCTTCGGGAGCTTTTTGATCTTAAAGCC
1755403 TCAGGGT
66 TCAGGGT
* *
1755410 CATCTGTAAGCCCTATAGTGCA
1 CATCTGTAAGACCTACAGTGCA
1755432 AGATAATAAG
Statistics
Matches: 150, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
72 51 0.34
73 48 0.32
74 3 0.02
76 1 0.01
77 47 0.31
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (72 bp):
CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCTTCGGGAGCTTTTTGATCTTAAAGCC
TCAGGGT
Found at i:1755674 original size:112 final size:116
Alignment explanation
Indices: 1755472--1755786 Score: 347
Period size: 123 Copynumber: 2.7 Consensus size: 116
1755462 CAATATTTCC
* * *
1755472 AGAAGAGTTCACAATGAGAAGAACTCATCTGAAGAAGAAGGAA-AAGTTCATAATGAGAAGAACT
1 AGAA-AGTTCATAATGAGAAGAACTTATCTGAAGAGGAA-GAAGAAGTTCATAATGAGAAGAACT
* * * *
1755536 TGTTCAACCTTTTGCTCAAATTTATCACCCG-ATG-G-T-T-CAGCGTTGCCAG
64 TGTTCAACCTTTTGCTCAAATCTATCA-CAGAAGGAGATATACAACGTTGCCAG
* *
1755585 AGAAAGTTCATAATGAGAAGAATTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTG
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
* * * *
1755650 TTCAACCTTTTGCAT-GACTCTATCACAGAAGGAGATAGATCAACACCAACTTTTCCAG
66 TTCAACCTTTTGC-TCAAATCTATCACAGAAGGAGAT--AT----A-CAACGTTGCCAG
* *
1755708 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAGGAAGTTCATAATGAGAAGAATTTG
1 AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
1755773 TTCAACCTTTTGCT
66 TTCAACCTTTTGCT
1755787 TGATTCCGTT
Statistics
Matches: 171, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
111 5 0.03
112 74 0.43
113 6 0.04
114 1 0.01
117 1 0.01
122 1 0.01
123 83 0.49
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (116 bp):
AGAAAGTTCATAATGAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTG
TTCAACCTTTTGCTCAAATCTATCACAGAAGGAGATATACAACGTTGCCAG
Found at i:1756007 original size:139 final size:138
Alignment explanation
Indices: 1755836--1756154 Score: 396
Period size: 139 Copynumber: 2.3 Consensus size: 138
1755826 TTCCAGGTGC
* * * * * *
1755836 TCTGAAGAGGAAGAAAAAGTTCATAATGAGAAGAACTTGTTCAACCTTGCATTGATTCATCTCCT
1 TCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTACATTAATTCATCACAT
** * * *
1755901 ATTTAATTGAATGAAAGAAGAACC-TCATTTGAGGATCAATATTTTCAG-AGGAAGTTCATAATG
66 ATGGAATTGAAT-AAACAA-AACCATCATTTGAAGATCAATATTTCCAGAAGG-AGTTCATAATG
1755964 AGAAGAACTCA
128 AGAAGAACTCA
* * * *
1755975 TCTGAAGAGGGAGAAGAAGTTCATTATAAGAAGAATTTGTTCAACCTTACCTTAATTCATCACAT
1 TCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTACATTAATTCATCACAT
* * * * *
1756040 ATGGAGTTGAATCAACAAATCCATCTTTTGAAGATCAGTATTTCCAGAAGGAGTTCATAATGAGA
66 ATGGAATTGAATAAACAAAACCATCATTTGAAGATCAATATTTCCAGAAGGAGTTCATAATGAGA
1756105 AGAACTCA
131 AGAACTCA
1756113 TCTGAA-A--AAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1756155 TTTTTGCTAG
Statistics
Matches: 155, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
135 32 0.21
137 4 0.03
138 52 0.34
139 67 0.43
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (138 bp):
TCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTACATTAATTCATCACAT
ATGGAATTGAATAAACAAAACCATCATTTGAAGATCAATATTTCCAGAAGGAGTTCATAATGAGA
AGAACTCA
Found at i:1756143 original size:17 final size:17
Alignment explanation
Indices: 1756085--1756144 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
1756075 CAGTATTTCC
*
1756085 AGAAGGAGTTCATAATG
1 AGAAGAAGTTCATAATG
* **
1756102 AGAAGAA-CTCATCTGAAAA
1 AGAAGAAGTTCA--T-AATG
1756121 AGAAGAAGTTCATAATG
1 AGAAGAAGTTCATAATG
1756138 AGAAGAA
1 AGAAGAA
1756145 TTTGTTCAAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 3 0.09
17 15 0.47
18 2 0.06
19 9 0.28
20 3 0.09
ACGTcount: A:0.50, C:0.08, G:0.23, T:0.18
Consensus pattern (17 bp):
AGAAGAAGTTCATAATG
Found at i:1756390 original size:3 final size:3
Alignment explanation
Indices: 1756376--1756471 Score: 86
Period size: 3 Copynumber: 32.0 Consensus size: 3
1756366 TTTGCCCGTT
* * * * *
1756376 TTA TTT TTA TTA TTA TAA TTA TTA TAA TTA TTA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
1756424 TAA TTA TTA CTA TTA TTA TTA -TA TTT TTA TTAA TAA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
1756469 TTA
1 TTA
1756472 CATATTAGAG
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
2 2 0.03
3 69 0.95
4 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1756422 original size:33 final size:31
Alignment explanation
Indices: 1756382--1756471 Score: 108
Period size: 33 Copynumber: 2.7 Consensus size: 31
1756372 CGTTTTATTT
1756382 TTATTATTATAATTATTATAATTATTATAATAA
1 TTATTATTATAATTATTAT-ATTATTATAAT-A
*
1756415 TTATTATTATAATTATTACTATTATTATTATA
1 TTATTATTATAATTATTA-TATTATTATAATA
* *
1756447 TTTTTATTAATAAATATTATTATTA
1 TTATTATT-ATAATTATTA-TATTA
1756472 CATATTAGAG
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 8 0.16
33 42 0.82
34 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
TTATTATTATAATTATTATATTATTATAATA
Found at i:1757738 original size:21 final size:21
Alignment explanation
Indices: 1757701--1757740 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1757691 AATTAGATTT
*
1757701 TTTTAATCTTTATATTTTATA
1 TTTTAATCTATATATTTTATA
1757722 TTTTAATC-ATATAATTTTA
1 TTTTAATCTATAT-ATTTTA
1757741 GTTTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATCTATATATTTTATA
Found at i:1757885 original size:2 final size:2
Alignment explanation
Indices: 1757872--1757903 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1757862 TATATCAGTC
*
1757872 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1757904 TTGTTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1758300 original size:118 final size:114
Alignment explanation
Indices: 1758070--1758285 Score: 258
Period size: 118 Copynumber: 1.9 Consensus size: 114
1758060 ATAAAAAAAT
* * * **
1758070 AATCATATTTTAATATTTATTTATCAATATTAAGAAAGGACAGTCTTAAAGTAACTGGATGTCCA
1 AATCATATTTTAATATTTATTTATCAATATTAAGAAAAGACAGTCTTAAAGCAACTAGATAACCA
*
1758135 TTTTCTGATATTTTGAAATAGAAATAAATATTTTACTTTTATAAATTATA
66 TTTTCTGATATTTTGAAATA-AAATAAATATCTTACTTTTATAAATTATA
* * * *
1758185 AATCTATATTTTATATTATTTATTTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGA-A
1 AATC-ATATTTTA-A-TATTTATTTATCAATATTAAGAAAAGA-CAGTCTTAAAGCAACTAGATA
*
1758249 ACCCTTTTCTGATATTTCT-AAAT-AAATAAATATCTTA
62 ACCATTTTCTGATATTT-TGAAATAAAATAAATATCTTA
1758286 TTTATATTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
115 4 0.05
116 21 0.25
117 1 0.01
118 43 0.51
119 16 0.19
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (114 bp):
AATCATATTTTAATATTTATTTATCAATATTAAGAAAAGACAGTCTTAAAGCAACTAGATAACCA
TTTTCTGATATTTTGAAATAAAATAAATATCTTACTTTTATAAATTATA
Found at i:1760051 original size:24 final size:24
Alignment explanation
Indices: 1760014--1760060 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1760004 AAACTACCAC
* * * *
1760014 GTAGAATTTGCACCGAAGTGCCAT
1 GTAGAATATACACCAAAATGCCAT
1760038 GTAGAATATACACCAAAATGCCA
1 GTAGAATATACACCAAAATGCCA
1760061 CATAGATTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.21
Consensus pattern (24 bp):
GTAGAATATACACCAAAATGCCAT
Found at i:1760085 original size:23 final size:23
Alignment explanation
Indices: 1760058--1760152 Score: 118
Period size: 23 Copynumber: 4.1 Consensus size: 23
1760048 CACCAAAATG
* *
1760058 CCACATAGATTTGTCCCAAAGAA
1 CCACATAGAATTGTCCCAAAGGA
* *
1760081 TCACATAGAATTGTCTCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
* * *
1760104 CCGCGTTGAATTGTCCCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
*
1760127 CCACATAGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCAAAGGA
1760150 CCA
1 CCA
1760153 TGTAGAATCC
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (23 bp):
CCACATAGAATTGTCCCAAAGGA
Found at i:1764210 original size:18 final size:19
Alignment explanation
Indices: 1764167--1764212 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
1764157 CGATGAACAA
1764167 TATCGATACTGATGCAATGAG
1 TATCGATACTGATG--ATGAG
*
1764188 TATCGATACTGATG-TGGG
1 TATCGATACTGATGATGAG
1764206 TATCGAT
1 TATCGAT
1764213 TCTAAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 10 0.42
21 14 0.58
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (19 bp):
TATCGATACTGATGATGAG
Found at i:1764707 original size:44 final size:44
Alignment explanation
Indices: 1764656--1764843 Score: 268
Period size: 44 Copynumber: 4.3 Consensus size: 44
1764646 CTGCTCTAAA
* * * *
1764656 ATAAATGAAAATGCATAACGGTGCTTTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGATACATTATTGGCAGAAAGGTGCC
* * * *
1764700 ATAAATGAAAATGCATAACGGTGCATTATTGACATAAAGGTGCC
1 ATAAATGAAAATGCATAACGATACATTATTGGCAGAAAGGTGCC
* *
1764744 ATAAATGAAAATACATAACGATACATTATTGTCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGATACATTATTGGCAGAAAGGTGCC
* *
1764788 ATAAATGAAAATGCATAACGATACATTTTTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGATACATTATTGGCAGAAAGGTGCC
1764832 ATAAATGAAAAT
1 ATAAATGAAAAT
1764844 TTATAATGGT
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 131 1.00
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGATACATTATTGGCAGAAAGGTGCC
Found at i:1764857 original size:25 final size:25
Alignment explanation
Indices: 1764827--1764880 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
1764817 TGGCAGAAAT
1764827 GTGCCATAAATGAAAATTTATAATG
1 GTGCCATAAATGAAAATTTATAATG
1764852 GTGCCATAAATGAAAATTTATAATG
1 GTGCCATAAATGAAAATTTATAATG
1764877 GTGC
1 GTGC
1764881 ATTATTGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (25 bp):
GTGCCATAAATGAAAATTTATAATG
Found at i:1764859 original size:69 final size:69
Alignment explanation
Indices: 1764782--1764921 Score: 181
Period size: 69 Copynumber: 2.0 Consensus size: 69
1764772 TTGTCAGAAA
* * * * **
1764782 GGTGCCATAAATGAAAATGCATAACGATACATTTTTGGCAGAAATGTGCCATAAATGAAAATTTA
1 GGTGCCATAAATGAAAATGCATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAAATGCA
1764847 TAAT
66 TAAT
** * * *
1764851 GGTGCCATAAATGAAAATTTATAATGGTGCATTATTGGCAAAAAAGTACCATAAATGAAAATGCA
1 GGTGCCATAAATGAAAATGCATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAAATGCA
1764916 TAAT
66 TAAT
1764920 GG
1 GG
1764922 AACATTATTG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (69 bp):
GGTGCCATAAATGAAAATGCATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAAATGCA
TAAT
Found at i:1764903 original size:113 final size:113
Alignment explanation
Indices: 1764733--1764946 Score: 295
Period size: 113 Copynumber: 1.9 Consensus size: 113
1764723 CATTATTGAC
* * * *
1764733 ATAAAGGTGCCATAAATGAAAATACATAACGATACATTATTGTCAGAAAGGTGCCATAAATGAAA
1 ATAAAGGTGCCATAAATGAAAATACATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAA
* *
1764798 ATGCATAA-CGATACATTTTTGGCAGAAATGTGCCATAAATGAAAATTT
66 ATGCATAATCGA-ACATTATTGGCAGAAAGGTGCCATAAATGAAAATTT
* ** * * *
1764846 ATAATGGTGCCATAAATGAAAATTTATAATGGTGCATTATTGGCAAAAAAGTACCATAAATGAAA
1 ATAAAGGTGCCATAAATGAAAATACATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAA
*
1764911 ATGCATAATGGAACATTATTGGCAGAAAGGTGCCAT
66 ATGCATAATCGAACATTATTGGCAGAAAGGTGCCAT
1764947 TCATGGTATT
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 85 0.98
114 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (113 bp):
ATAAAGGTGCCATAAATGAAAATACATAACGATACATTATTGGCAAAAAAGTACCATAAATGAAA
ATGCATAATCGAACATTATTGGCAGAAAGGTGCCATAAATGAAAATTT
Found at i:1766129 original size:200 final size:198
Alignment explanation
Indices: 1765785--1766185 Score: 727
Period size: 200 Copynumber: 2.0 Consensus size: 198
1765775 GTCGAAATCT
1765785 TCGAACTCGCGAAGAGCGGGGGAACAAGAAATTAGAGAAGGAACTGGTTTCAAATTACAAGCTAA
1 TCGAACTCGCGAAGAGCGGGGGAACAAGAAATTAGAGAAGGAACTGGTTTCAAATTACAAGCTAA
1765850 TAGTGAGCAACTGATTCTATCTGAAAATGCTAGTTCGCTTGCACATCAGGGATGCCTGTGCCAGA
66 TAGTGAGCAACTGATTCTATCTGAAAATGCTAGTTCGCTTGCACATCAGGGATGCCTGTGCCAGA
1765915 GTTTTGAGTTTTTATGCAAGATCTCGATG-C-ATTGACTCGATTTCAACCTCATCCACCTCCCCT
131 GTTTTGAGTTTTTATGCAAGATCTCGATGTCAATTGACTCGATTTCAACCTCATCCACCTCCCCT
1765978 AGC
196 AGC
1765981 TCGAACTCGCGAAGAGCGGGGGAACAAGAAATTAGAGAAGGAACTGGTTTCAAAATTTACAAGGC
1 TCGAACTCGCGAAGAGCGGGGGAACAAGAAATTAGAGAAGGAACTGGTTTC-AAA-TTACAA-GC
1766046 TAATAGTGAGCAAACTGATTCTATCTGAAAATGC-AGTTCGCTTGCACATCAGGGGATGCCTGTG
63 TAATAGTGAGC-AACTGATTCTATCTGAAAATGCTAGTTCGCTTGCACATCA-GGGATGCCTGTG
1766110 CCAGAGTTTTGAGTTTTTATGCAAGATCTCGATGTCATATTGACTCGATTTCAACCTCATCCACC
126 CCAGAGTTTTGAGTTTTTATGCAAGATCTCGATGTCA-ATTGACTCGATTTCAACCTCATCCACC
1766175 TCCCCTAGC
190 TCCCCTAGC
1766184 TC
1 TC
1766186 CTATAGCACC
Statistics
Matches: 197, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
196 51 0.26
197 3 0.02
198 6 0.03
199 30 0.15
200 68 0.35
201 1 0.01
203 38 0.19
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (198 bp):
TCGAACTCGCGAAGAGCGGGGGAACAAGAAATTAGAGAAGGAACTGGTTTCAAATTACAAGCTAA
TAGTGAGCAACTGATTCTATCTGAAAATGCTAGTTCGCTTGCACATCAGGGATGCCTGTGCCAGA
GTTTTGAGTTTTTATGCAAGATCTCGATGTCAATTGACTCGATTTCAACCTCATCCACCTCCCCT
AGC
Found at i:1768416 original size:44 final size:44
Alignment explanation
Indices: 1768366--1768674 Score: 447
Period size: 44 Copynumber: 7.0 Consensus size: 44
1768356 TGCTCTTAAA
* *
1768366 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAGAGGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
1768410 ATAAATGAAAATGCATAACGATGCATTATCGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
1768454 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
1768498 ATAAATGAAAATGCACAACGGTGCATTATTGGCAGAAAGGTGCT
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
1768542 ATAAATGAAAATGCATAACGGTGCATTTTTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * * * *
1768586 ATAAATGAAAATGAATAACGATCCATTATTAGCAGAAATGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
1768630 ATAAATGAAAATACATAACGATACATTATTGGCAAAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1768674 A
1 A
1768675 CTCATGGTAT
Statistics
Matches: 236, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 236 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:1770627 original size:18 final size:18
Alignment explanation
Indices: 1770604--1770642 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1770594 CTTTAATCGA
*
1770604 TAATCAATATTAGCATGG
1 TAATCAATATTAGAATGG
1770622 TAATCAATATTAGAATGG
1 TAATCAATATTAGAATGG
1770640 TAA
1 TAA
1770643 CGATACAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (18 bp):
TAATCAATATTAGAATGG
Found at i:1772772 original size:23 final size:23
Alignment explanation
Indices: 1772720--1772765 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1772710 CATGAGTTAG
1772720 TAAAAAATAAAAAAATAAAAAAA
1 TAAAAAATAAAAAAATAAAAAAA
1772743 TAAAAAAT-AAAAAATGAAAAAAA
1 TAAAAAATAAAAAAAT-AAAAAAA
1772766 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.85, C:0.00, G:0.02, T:0.13
Consensus pattern (23 bp):
TAAAAAATAAAAAAATAAAAAAA
Found at i:1772774 original size:8 final size:8
Alignment explanation
Indices: 1772721--1772765 Score: 67
Period size: 8 Copynumber: 5.8 Consensus size: 8
1772711 ATGAGTTAGT
1772721 AAAAAATA
1 AAAAAATA
1772729 AAAAAATA
1 AAAAAATA
1772737 AAAAAAT-
1 AAAAAATA
1772744 AAAAAAT-
1 AAAAAATA
1772751 AAAAAATGA
1 AAAAAAT-A
1772760 AAAAAA
1 AAAAAA
1772766 AGAAAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.40
8 15 0.43
9 6 0.17
ACGTcount: A:0.87, C:0.00, G:0.02, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:1793185 original size:24 final size:24
Alignment explanation
Indices: 1793158--1793214 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
1793148 AAACTGCTAT
*
1793158 GTAGAATTTGCACTGAAGTGCCAC
1 GTAGAATTTGCACCGAAGTGCCAC
* * *
1793182 GTAGAATATACACCGAAGTTCCAC
1 GTAGAATTTGCACCGAAGTGCCAC
*
1793206 ATAG-ATTTG
1 GTAGAATTTG
1793215 TCTCAAAGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
GTAGAATTTGCACCGAAGTGCCAC
Found at i:1793229 original size:23 final size:23
Alignment explanation
Indices: 1793202--1793293 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
1793192 CACCGAAGTT
* *
1793202 CCACATAGATTTGTCTCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
* *
1793225 CCACATGGAATTGTCCCGAAGGA
1 CCACATAGAATTGTCCCAAAGGA
* * *
1793248 CCACGTAGAATTGTCCCGAATGA
1 CCACATAGAATTGTCCCAAAGGA
1793271 CCACATAGAATTGTCCCAAAGGA
1 CCACATAGAATTGTCCCAAAGGA
1793294 TCGTATAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.21
Consensus pattern (23 bp):
CCACATAGAATTGTCCCAAAGGA
Found at i:1793976 original size:20 final size:21
Alignment explanation
Indices: 1793940--1793978 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1793930 TTTCTACCAA
*
1793940 TATCGATACTACTTCATTCAG
1 TATCAATACTACTTCATTCAG
1793961 TATCAATACT-CTTCATTC
1 TATCAATACTACTTCATTC
1793979 GACTCTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.41
Consensus pattern (21 bp):
TATCAATACTACTTCATTCAG
Found at i:1798394 original size:37 final size:37
Alignment explanation
Indices: 1798292--1798396 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
1798282 CATTTTCGTC
1798292 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * * *
1798329 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
1798366 CTACTAAGATTTAAATTCTTAAAGATAGGAT
1 CTACTAAGATTCAAACTCCTAAAAATAGGAT
1798397 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:1798785 original size:18 final size:17
Alignment explanation
Indices: 1798754--1798788 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1798744 GATATTTTAA
*
1798754 TCATTTATTTTTATTAT
1 TCATTTATTATTATTAT
1798771 TCATGTTATTATTATTAT
1 TCAT-TTATTATTATTAT
1798789 ATGTATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (17 bp):
TCATTTATTATTATTAT
Found at i:1803253 original size:183 final size:183
Alignment explanation
Indices: 1802945--1803481 Score: 941
Period size: 183 Copynumber: 2.9 Consensus size: 183
1802935 ATTAAATCCG
*
1802945 TAAAGCTGAGCTATTCCACTAAGGCAATTTGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
1803010 ACAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
1803075 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
1803128 TAAAGCTGAGCTATTCCACTAAGGAAATTGGTTATAAAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1803193 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
*
1803258 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
1803311 TAAAGATGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTTGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
1803376 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCT
* *
1803440 TTTGTCAGGTCAAAGACTTTGTGATGTGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
1803482 TAAACCTAAT
Statistics
Matches: 337, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
182 1 0.00
183 336 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCAGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:1804723 original size:71 final size:76
Alignment explanation
Indices: 1804626--1804781 Score: 209
Period size: 71 Copynumber: 2.1 Consensus size: 76
1804616 GATGATTATC
* * *
1804626 TCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAG
1 TCACTCAAGATTTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAG
1804688 AAT-A-TTCATT
65 AATCATTTCATT
*
1804698 TCACTCAAGA-TT-TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGA
1 TCACTCAAGATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGA
1804761 ATGCATTTCATT
66 AT-CATTTCATT
1804773 TCACTCAAG
1 TCACTCAAG
1804782 GCTGTTTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
70 1 0.01
71 35 0.47
72 21 0.28
73 1 0.01
74 1 0.01
75 15 0.20
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (76 bp):
TCACTCAAGATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGA
ATCATTTCATT
Found at i:1804814 original size:75 final size:71
Alignment explanation
Indices: 1804626--1804832 Score: 174
Period size: 71 Copynumber: 2.8 Consensus size: 71
1804616 GATGATTATC
* * * * *
1804626 TCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAG
1 TCACTCAAGA-TT-TTTTTCTT-AAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAG
1804688 AATATTCATT
62 AATATTCATT
* *
1804698 TCACTCAAGATTTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAT
1 TCACTCAAGATTTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAT
1804763 GCATTTCATT
65 --A-TTCATT
* * * *
1804773 TCACTCAAGGCTGTTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGACAG-TTTCCCTCGAAA
1 TCACTCAA-GAT-TTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
1804833 CAGAAAATTT
Statistics
Matches: 116, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
70 1 0.01
71 35 0.30
72 21 0.18
73 1 0.01
74 18 0.16
75 30 0.26
76 4 0.03
77 6 0.05
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (71 bp):
TCACTCAAGATTTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAATA
TTCATT
Found at i:1804854 original size:39 final size:39
Alignment explanation
Indices: 1804811--1804963 Score: 119
Period size: 39 Copynumber: 3.6 Consensus size: 39
1804801 TTTTATCTTG
1804811 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
1804850 CTTGAGACAGTTTCTCTTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTC
1 CTTGAGACAGTTTCCCTCG-AAACA--------G-AA--AATTTTGTCTC-C
*
1804902 C-TGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
1 CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
* * *
1804940 CTTGAGACATTTTCTCTTGAAACA
1 CTTGAGACAGTTTCCCTCGAAACA
1804964 TAAACATTGA
Statistics
Matches: 89, Mismatches: 11, Indels: 28
0.70 0.09 0.22
Matches are distributed among these distances:
38 2 0.02
39 45 0.51
40 5 0.06
41 2 0.02
42 1 0.01
48 1 0.01
49 2 0.02
50 5 0.06
51 24 0.27
52 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (39 bp):
CTTGAGACAGTTTCCCTCGAAACAGAAAATTTTGTCTCC
Found at i:1804974 original size:104 final size:104
Alignment explanation
Indices: 1804866--1805183 Score: 480
Period size: 104 Copynumber: 3.1 Consensus size: 104
1804856 ACAGTTTCTC
* *
1804866 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
*
1804931 TTTGTCTCCCTTGAGACATTTTCTCTTGAAACATAAACA
66 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
*
1804970 TTGAAAACATTTCCCTTGAAATGATTTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
*
1805035 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAATATAAACA
66 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * * * * *
1805074 TTGAAAATATTTCCCTAGAAATGAATTTTATCTCGCTTGAGACAGCTTCCCTTGAAAC-G--AAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
** *
1805136 TTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
1805175 TTGAAAACA
1 TTGAAAACA
1805184 ATTTAACGAA
Statistics
Matches: 196, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
101 46 0.23
103 1 0.01
104 149 0.76
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (104 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAAT
TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:1805136 original size:36 final size:36
Alignment explanation
Indices: 1805084--1805154 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
1805074 TTGAAAATAT
* *
1805084 TTCCCTAGAAATGAATTTTATCTCGCTTGAGACAGC
1 TTCCCTAGAAACGAATTTTATCTCCCTTGAGACAGC
* *
1805120 TTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTCCCTAGAAACGAATTTTATCTCCCTTGAGACAG
1805155 TTTCTCTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (36 bp):
TTCCCTAGAAACGAATTTTATCTCCCTTGAGACAGC
Found at i:1805562 original size:105 final size:105
Alignment explanation
Indices: 1805358--1805931 Score: 833
Period size: 105 Copynumber: 5.5 Consensus size: 105
1805348 ATATCATGAC
* * *
1805358 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-TGGCTGGTTGTCAACAAACAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACT-GCTGCTTGTCAACAAA-AACTTCT
*
1805422 CAATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
1805464 ACTCCAGACAACGCAAGTTTAACTTCACAACGAAGGGACTACTGCTTGTCAACAAAAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTGCTGCTTGTCAACAAAAACTTCTCA
1805529 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1805569 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTGCTGCTTGTCAACAAAAACTTCTCA
*
1805634 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1805674 ACTCCAGACAACGCAAGTTCAACTTCACGAA-GAAGGGACCGCTGCTTGTCAACAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCAC-AACGAAGGGACTGCTGCTTGTCAACAAAAACTTCTC
1805738 AATCTT-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 AAT-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1805779 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTTAAC-AAAA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTGCTGCTTGTCAACAAAAACTTCTCA
* *
1805840 A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1805879 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC-GACTGGTTGTCAAC
1 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTG-CTGCTTGTCAAC
1805932 TTCACGACGG
Statistics
Matches: 432, Mismatches: 30, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
99 3 0.01
100 78 0.18
101 1 0.00
102 1 0.00
103 2 0.00
104 4 0.01
105 291 0.67
106 51 0.12
107 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTGCTGCTTGTCAACAAAAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1806990 original size:18 final size:17
Alignment explanation
Indices: 1806951--1806993 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1806941 ATTATATGGA
1806951 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1806967 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
1806985 TATTATTAT
1 TATTATTAT
1806994 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:1808929 original size:50 final size:50
Alignment explanation
Indices: 1808856--1808959 Score: 181
Period size: 50 Copynumber: 2.1 Consensus size: 50
1808846 ACATTATGAG
1808856 TTTGTAATGATGTCTTTTGGGTTAACTAATGCTCTAGCGGTATTTATGGA
1 TTTGTAATGATGTCTTTTGGGTTAACTAATGCTCTAGCGGTATTTATGGA
* * *
1808906 TTTGTAATGATGTCTTTTTGGTTAACTAATGCTCTTGTGGTATTTATGGA
1 TTTGTAATGATGTCTTTTGGGTTAACTAATGCTCTAGCGGTATTTATGGA
1808956 TTTG
1 TTTG
1808960 ATGAATCGAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.20, C:0.09, G:0.23, T:0.48
Consensus pattern (50 bp):
TTTGTAATGATGTCTTTTGGGTTAACTAATGCTCTAGCGGTATTTATGGA
Found at i:1813453 original size:22 final size:19
Alignment explanation
Indices: 1813402--1813455 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
1813392 TGCAAAAATG
1813402 GTATCGATACCATAATAGA
1 GTATCGATACCATAATAGA
1813421 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATA--ATAG-A
1813443 GTATCGATACCAT
1 GTATCGATACCAT
1813456 GGTAGGGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
21 4 0.13
22 12 0.40
23 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATAATAGA
Found at i:1813878 original size:55 final size:55
Alignment explanation
Indices: 1813834--1814174 Score: 411
Period size: 55 Copynumber: 6.2 Consensus size: 55
1813824 TAATTTGTTT
1813834 ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
* *
1813889 ATGAATTTCCGTATGGGCACTTTATGC-GTAAACTTAAGAATTTCATACTAAGTGG
1 ATGAATTTCCGTATGGGAACTTTAT-CTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
1813944 ATGAATTTTCGTATGGGTACTTTATGTGTAAACTTAAGAAATTTATACTAAGTAG
1 ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
1813999 ATAAATTTCCAT-TTGGACAC-TTATATGTAAACTTAAGAAATTCATACTATGTGG
1 ATGAATTTCCGTATGGGA-ACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
* * * * *
1814053 ATGGATTTTCTTATGGGCACTTTATGTGTAAACTTAAGAAATTCATACTAAGTGG
1 ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
* * * ** * *
1814108 ATGAATTTCTGTATGGGTACTTTATGTACAAAC-TACGAAATTCATACTAAGTGT
1 ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
*
1814162 ATAAATTTCCGTA
1 ATGAATTTCCGTA
1814175 ATGGCAGTGG
Statistics
Matches: 245, Mismatches: 36, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
54 73 0.30
55 171 0.70
56 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (55 bp):
ATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATTCATACTAAGTGG
Found at i:1814075 original size:109 final size:109
Alignment explanation
Indices: 1813812--1814174 Score: 426
Period size: 109 Copynumber: 3.3 Consensus size: 109
1813802 GTGCAAAAAG
* * ** * *
1813812 TTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGGGAACTTTATCTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTATGTGGATGAATTTTCGTATGGGAACTTTATGTGTAAACTTAAGAAATT
* *
1813877 CATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGCGTAAAC
66 CATACTAAGTGGATGAATTTCCATATGGACACTTTAT-CGTAAAC
* * *
1813922 TTAAGAATTTCATACTAAGTGGATGAATTTTCGTATGGGTACTTTATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTATGTGGATGAATTTTCGTATGGGAACTTTATGTGTAAACTTAAGAAATT
* * * *
1813987 TATACTAAGTAGATAAATTTCCATTTGGACACTTATAT-GTAAAC
66 CATACTAAGTGGATGAATTTCCATATGGACACTT-TATCGTAAAC
* * *
1814031 TTAAGAAATTCATACTATGTGGATGGATTTTCTTATGGGCACTTTATGTGTAAACTTAAGAAATT
1 TTAAGAAATTCATACTATGTGGATGAATTTTCGTATGGGAACTTTATGTGTAAACTTAAGAAATT
** **
1814096 CATACTAAGTGGATGAATTTCTGTATGGGTACTTTAT-GTACAAAC
66 CATACTAAGTGGATGAATTTCCATATGGACACTTTATCGT--AAAC
* * * * *
1814141 -TACGAAATTCATACTAAGTGTATAAATTTCCGTA
1 TTAAGAAATTCATACTATGTGGATGAATTTTCGTA
1814175 ATGGCAGTGG
Statistics
Matches: 215, Mismatches: 35, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
108 5 0.02
109 119 0.55
110 88 0.41
111 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.38
Consensus pattern (109 bp):
TTAAGAAATTCATACTATGTGGATGAATTTTCGTATGGGAACTTTATGTGTAAACTTAAGAAATT
CATACTAAGTGGATGAATTTCCATATGGACACTTTATCGTAAAC
Found at i:1814086 original size:164 final size:163
Alignment explanation
Indices: 1813855--1814171 Score: 494
Period size: 164 Copynumber: 1.9 Consensus size: 163
1813845 TATGGGAACT
*
1813855 TTATCTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGCGTAA
1 TTATATGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGCGTAA
* **
1813920 ACTTAAGAATTTCATACTAAGTGGATGAATTT-TCGTATGGGTACTTTATGTGTAAACTTAAGAA
66 ACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGGTACTTTATGTACAAAC-TAAGAA
*
1813984 ATTTATACTAAGTAG-ATAAATTTCCATTTGGACAC
129 ATTCATACTAAGT-GTATAAATTTCCATTTGGACAC
* * * * *
1814019 TTATATGTAAACTTAAGAAATTCATACTATGTGGATGGATTTTCTTATGGGCACTTTATGTGTAA
1 TTATATGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGCGTAA
*
1814084 ACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGTACTTTATGTACAAACTACGAAAT
66 ACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGTACTTTATGTACAAACTAAGAAAT
1814149 TCATACTAAGTGTATAAATTTCC
131 TCATACTAAGTGTATAAATTTCC
1814172 GTAATGGCAG
Statistics
Matches: 140, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
162 1 0.01
163 27 0.19
164 111 0.79
165 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (163 bp):
TTATATGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGCGTAA
ACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGTACTTTATGTACAAACTAAGAAAT
TCATACTAAGTGTATAAATTTCCATTTGGACAC
Found at i:1826721 original size:22 final size:21
Alignment explanation
Indices: 1826679--1826718 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1826669 GAGTTTATTT
*
1826679 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1826700 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1826719 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1832357 original size:45 final size:45
Alignment explanation
Indices: 1832306--1832629 Score: 418
Period size: 45 Copynumber: 7.2 Consensus size: 45
1832296 TTATGGTGTT
* * *
1832306 CTTTCATGGCAATAATGCACCCATATGCATTTCAATCATGGCATC
1 CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
* *
1832351 CTTTCATGTCGATAATGCACCCATAAGCATTTCAATTATGGCATC
1 CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
* *
1832396 CTTTCATGTCGATAATGCACCCATATGCATTTCAATCATGGCATC
1 CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
* * *
1832441 ATTTCATGTCGATAATGCACCCATATGCATTTCAATTATAGCATC
1 CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
* *
1832486 CTTTCATGCCGATAATGCACCCATATGCATTTCAATCATGGCATT
1 CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
* ** * *
1832531 CTTTCATGCCGATAATACA-TTATTATACATTTCATTTATGGCATC
1 CTTTCATGCCGATAATGCACCCA-TATGCATTTCAATTATGGCATC
* * * * *
1832576 CTTTCATGCCGATAATACA-CTATTATACATTTCATTTATGACATC
1 CTTTCATGCCGATAATGCACCCA-TATGCATTTCAATTATGGCATC
1832621 CTTTCATGC
1 CTTTCATGC
1832630 ATTTTATGCA
Statistics
Matches: 255, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
44 1 0.00
45 254 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.36
Consensus pattern (45 bp):
CTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATC
Found at i:1832814 original size:81 final size:81
Alignment explanation
Indices: 1832665--1832819 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
1832655 ATACATCTAG
* * * *
1832665 TCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACAGGCATGATTGACACCTTTTTGTAAAATAC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACAGGCATAATAGACACCTTTCTGTAAAATAC
1832730 ACAGATAGGACATTAA
66 ACAGATAGGACATTAA
* ** * *
1832746 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATAGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACAGGCATAATAGACACCTTTCTGTAAAATAC
*
1832811 ACAGCTAGG
66 ACAGATAGG
1832820 TCTCAAAGGC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (81 bp):
TCTTTTACTCAAAGGCATTTAACCTTTCATCTAACAGGCATAATAGACACCTTTCTGTAAAATAC
ACAGATAGGACATTAA
Found at i:1833006 original size:67 final size:67
Alignment explanation
Indices: 1832753--1833223 Score: 692
Period size: 67 Copynumber: 7.0 Consensus size: 67
1832743 TAATCTTTTA
* * * * * *
1832753 CTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATAGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
*
1832818 GGT
65 GGC
* * * *
1832821 CTCAAAGGCACTTAGCCTTTCATCTAACTGTCATAATTGACACATTTCTTTCAATGCATAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
*
1832886 GT
66 GC
* *
1832888 CTCAAAGGCACTTATCC-TTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGTACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1832952 GC
66 GC
* * * **
1832954 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCTTAATTGACACTTTTTTGTCAATGCACAACTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1833019 GC
66 GC
* * * *
1833021 CTCAAAGCCAATTAGCCTTTCATCTAGCTGGCATAATTGACACATTTCTGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1833086 GC
66 GC
* *
1833088 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCACACTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1833153 GC
66 GC
*
1833155 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAATTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1833220 GC
66 GC
1833222 CT
1 CT
1833224 TAAATCTTTT
Statistics
Matches: 362, Mismatches: 40, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
66 59 0.16
67 259 0.72
68 44 0.12
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
GC
Found at i:1833493 original size:57 final size:56
Alignment explanation
Indices: 1833432--1833596 Score: 197
Period size: 57 Copynumber: 2.9 Consensus size: 56
1833422 GTTCTTATAC
* *
1833432 GGAAATTCATAAACAAATTGTGAATTCCTTAACTTTTTGTACACTCAGTGCCCATAA
1 GGAAATTCATAAACAAATTATGAATTTCTTAACTTTTT-TACACTCAGTGCCCATAA
* * * ** *
1833489 GGAAATTAATAAACAAAGTATGAATTTCTTATCTTTTTTCACACAAAGTGCCCATAT
1 GGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTT-ACACTCAGTGCCCATAA
*
1833546 GGAAATTCATAAAAAAAATTATGAATTTCTTATA-TTTTTATACACTCAGTG
1 GGAAATTCAT-AAACAAATTATGAATTTCTTA-ACTTTTT-TACACTCAGTG
1833597 ACATTATGTA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 56 0.62
58 32 0.36
59 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (56 bp):
GGAAATTCATAAACAAATTATGAATTTCTTAACTTTTTTACACTCAGTGCCCATAA
Found at i:1839106 original size:95 final size:95
Alignment explanation
Indices: 1838924--1839146 Score: 243
Period size: 95 Copynumber: 2.3 Consensus size: 95
1838914 ACCGAGCGAT
* * *
1838924 GTAGTATCGATACCATAGTAAGAGTATCGATACCAAGAAACATTGAACCTAATTTTGGTATCGAT
1 GTAGTATCGATACCATAGCAAGAGTATCGATACCAAGAAACATCGAACCAAATTTTGGTATCGAT
* ** *
1838989 ACCGAAGTAGGGTATCGGTACCATAGCT-TA
66 ACCGAAGTAGGGCATCAATACCATAG-TAGA
* * * * ** *
1839019 GTAGTATCGATACCATGGCGAGTGTATCGATACCAGGCTACATCGAAGCAAATTTTGGTATCGAT
1 GTAGTATCGATACCATAGCAAGAGTATCGATACCAAGAAACATCGAACCAAATTTTGGTATCGAT
* *
1839084 ACTGGAAG-GGGGCATCAATACCATAGTAGA
66 AC-CGAAGTAGGGCATCAATACCATAGTAGA
* * *
1839114 GTAGTACCGATACCGTAGCAAGGGTATCGATAC
1 GTAGTATCGATACCATAGCAAGAGTATCGATAC
1839147 TAAAGGGCCA
Statistics
Matches: 105, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
94 1 0.01
95 100 0.95
96 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (95 bp):
GTAGTATCGATACCATAGCAAGAGTATCGATACCAAGAAACATCGAACCAAATTTTGGTATCGAT
ACCGAAGTAGGGCATCAATACCATAGTAGA
Found at i:1839714 original size:90 final size:90
Alignment explanation
Indices: 1839600--1839838 Score: 295
Period size: 90 Copynumber: 2.7 Consensus size: 90
1839590 AGGATGCCAA
** *
1839600 AGTTGAAATAAATATGGGTGCATTATCAACAAAAAAATATGCTAGAGTTTAAATGCATATGGGTG
1 AGTTGAAATGTATATGGGTGCATTATCAACAAAAAAATATGCTAGAGTTTAAATGCATATGGGTA
1839665 CATTATCAACAGAAAAGTATGA-TAG
66 CATTATCAACAGAAAAGTAT-ACTAG
* * * * *
1839690 AGTTGAAATGTATATGGGTACATTATCAACAAAAAAATATACTATG-GTTGAAATGTATATTGGT
1 AGTTGAAATGTATATGGGTGCATTATCAACAAAAAAATATGCTA-GAGTTTAAATGCATATGGGT
* *
1839754 ACATTATCAACATAAAAGTATACTAT
65 ACATTATCAACAGAAAAGTATACTAG
* * * * *
1839780 AGTTGAAATGTATATGGATGCATTATCAAC-ATAAAAGATGTTATAGTTTAAAGTGCATA
1 AGTTGAAATGTATATGGGTGCATTATCAACAAAAAAATATGCTAGAGTTTAAA-TGCATA
1839839 ATGATGTATT
Statistics
Matches: 126, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
89 16 0.13
90 109 0.87
91 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (90 bp):
AGTTGAAATGTATATGGGTGCATTATCAACAAAAAAATATGCTAGAGTTTAAATGCATATGGGTA
CATTATCAACAGAAAAGTATACTAG
Found at i:1839816 original size:45 final size:45
Alignment explanation
Indices: 1839600--1839816 Score: 265
Period size: 45 Copynumber: 4.8 Consensus size: 45
1839590 AGGATGCCAA
** * * * *
1839600 AGTTGAAATAAATATGGGTGCATTATCAACAAAAAAATATGCTAG
1 AGTTGAAATGTATATGGGTGCATTATCAACATAAAAGTATACTAT
* * * *
1839645 AGTTTAAATGCATATGGGTGCATTATCAACAGAAAAGTATGA-TAG
1 AGTTGAAATGTATATGGGTGCATTATCAACATAAAAGTAT-ACTAT
* * *
1839690 AGTTGAAATGTATATGGGTACATTATCAACAAAAAAATATACTAT
1 AGTTGAAATGTATATGGGTGCATTATCAACATAAAAGTATACTAT
* * *
1839735 GGTTGAAATGTATATTGGTACATTATCAACATAAAAGTATACTAT
1 AGTTGAAATGTATATGGGTGCATTATCAACATAAAAGTATACTAT
*
1839780 AGTTGAAATGTATATGGATGCATTATCAACATAAAAG
1 AGTTGAAATGTATATGGGTGCATTATCAACATAAAAG
1839817 ATGTTATAGT
Statistics
Matches: 150, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
44 1 0.01
45 149 0.99
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (45 bp):
AGTTGAAATGTATATGGGTGCATTATCAACATAAAAGTATACTAT
Found at i:1839850 original size:45 final size:45
Alignment explanation
Indices: 1839600--1839859 Score: 231
Period size: 45 Copynumber: 5.8 Consensus size: 45
1839590 AGGATGCCAA
** * * * * *
1839600 AGTTGAAATAAATATGGGTGCATTATCAACAAAAAAATATGCTAG
1 AGTTGAAATGCATATGGATGCATTATCAACATAAAAGTATACTAT
* * * *
1839645 AGTTTAAATGCATATGGGTGCATTATCAACAGAAAAGTATGA-TAG
1 AGTTGAAATGCATATGGATGCATTATCAACATAAAAGTAT-ACTAT
* * * * *
1839690 AGTTGAAATGTATATGGGTACATTATCAACAAAAAAATATACTAT
1 AGTTGAAATGCATATGGATGCATTATCAACATAAAAGTATACTAT
* * *
1839735 GGTTGAAATGTATATTGG-TACATTATCAACATAAAAGTATACTAT
1 AGTTGAAATGCATA-TGGATGCATTATCAACATAAAAGTATACTAT
* **
1839780 AGTTGAAATGTATATGGATGCATTATCAACATAAAAG-ATGTTAT
1 AGTTGAAATGCATATGGATGCATTATCAACATAAAAGTATACTAT
* * *
1839824 AGTTTAAAGTGCATAAT-GATGTATTATAAACATAAA
1 AGTTGAAA-TGCAT-ATGGATGCATTATCAACATAAA
1839860 TGAAGGTTAC
Statistics
Matches: 186, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
44 16 0.09
45 165 0.89
46 5 0.03
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (45 bp):
AGTTGAAATGCATATGGATGCATTATCAACATAAAAGTATACTAT
Found at i:1840674 original size:2 final size:2
Alignment explanation
Indices: 1840667--1840725 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
1840657 ATAAAAGTTT
1840667 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
1840709 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
1840726 CGTTTTGACA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1842560 original size:45 final size:45
Alignment explanation
Indices: 1842479--1842787 Score: 352
Period size: 45 Copynumber: 6.9 Consensus size: 45
1842469 TACTTATTAC
* * * * * *
1842479 GCACCAATATACATTTTCATTTATGGAATTCTTTCATTCCAATAAT
1 GCACCCATATGCA-TTTCAATTATGGCATCCTTTCATGCCAATAAT
* *
1842525 GCACCCATATGCATTTCAATAATGGCATCCTTTCATGCCGATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
* * * *
1842570 ACAACCATATGCATTTCAATTATGGCATCCTTCCATGCCTATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
1842615 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
* * *
1842660 GCAACCATATGCATTTCAATTATGGTATCCTTTCATG-TAGATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA-ATAAT
* * * *
1842705 GCACCTATATGCATTTCAATCAAGGCATCCTTTCATGCCGATAAT
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
* * ** * * *
1842750 ACA-CTATATAAATTTTATTTATGGCATCATTTCATGCC
1 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
1842788 TTTTATACAA
Statistics
Matches: 226, Mismatches: 35, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
44 29 0.13
45 186 0.82
46 11 0.05
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (45 bp):
GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAAT
Found at i:1842619 original size:90 final size:90
Alignment explanation
Indices: 1842493--1842788 Score: 389
Period size: 90 Copynumber: 3.3 Consensus size: 90
1842483 CAATATACAT
* * * * *
1842493 TTTCATTTATGGAATTCTTTCATTCCAATAATGCACCCATATGCATTTCAATAATGGCATCCTTT
1 TTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCATATGCATTTCAATAATGGCATCCTTT
1842558 CATGCCGATAATACAACCATATGCA
66 CATGCCGATAATACAACCATATGCA
* *
1842583 TTTCAATTATGGCATCCTTCCATGCCTATAATGCACCCATATGCATTTCAATTATGGCATCCTTT
1 TTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCATATGCATTTCAATAATGGCATCCTTT
* *
1842648 CATGCCAATAATGCAACCATATGCA
66 CATGCCGATAATACAACCATATGCA
* *** *
1842673 TTTCAATTATGGTATCCTTTCATGTAGATAATGCACCTATATGCATTTCAATCAA-GGCATCCTT
1 TTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCATATGCATTTCAAT-AATGGCATCCTT
* **
1842737 TCATGCCGATAATAC-ACTATATAAA
65 TCATGCCGATAATACAACCATATGCA
* * *
1842762 TTTTATTTATGGCATCATTTCATGCCT
1 TTTCAATTATGGCATCCTTTCATGCCT
1842789 TTTATACAAC
Statistics
Matches: 177, Mismatches: 28, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
89 27 0.15
90 149 0.84
91 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (90 bp):
TTTCAATTATGGCATCCTTTCATGCCTATAATGCACCCATATGCATTTCAATAATGGCATCCTTT
CATGCCGATAATACAACCATATGCA
Found at i:1842735 original size:135 final size:135
Alignment explanation
Indices: 1842479--1842787 Score: 397
Period size: 135 Copynumber: 2.3 Consensus size: 135
1842469 TACTTATTAC
* * * *
1842479 GCACCAATATACATTTTCATTTATGGAATTCTTTCATTCCAATAATGCACCCATATGCATTTCAA
1 GCACCAATATACA-TTTCATTTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATTTCAA
* * *
1842544 TAATGGCATCCTTTCATGCCGATAATACAACCATATGCATTTCAATTATGGCATCCTTCCATGCC
65 TAATGGCATCCTTTCATGCAGATAATACAACCATATGCATTTCAATCAAGGCATCCTTCCATGCC
*
1842609 TATAAT
130 GATAAT
* * *
1842615 GCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATTTCAAT
1 GCACCAATATACATTTCATTTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATTTCAAT
* * * * *
1842680 TATGGTATCCTTTCATGTAGATAATGC-ACCTATATGCATTTCAATCAAGGCATCCTTTCATGCC
66 AATGGCATCCTTTCATGCAGATAATACAACC-ATATGCATTTCAATCAAGGCATCCTTCCATGCC
1842744 GATAAT
130 GATAAT
* * * * *
1842750 ACA-CTATATAAATTTTATTTATGGCATCATTTCATGCC
1 GCACCAATATACATTTCATTTATGGCATCCTTTCATGCC
1842788 TTTTATACAA
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
134 32 0.21
135 106 0.71
136 11 0.07
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (135 bp):
GCACCAATATACATTTCATTTATGGCATCCTTTCATGCCAATAATGCAACCATATGCATTTCAAT
AATGGCATCCTTTCATGCAGATAATACAACCATATGCATTTCAATCAAGGCATCCTTCCATGCCG
ATAAT
Found at i:1842962 original size:81 final size:81
Alignment explanation
Indices: 1842822--1842970 Score: 262
Period size: 81 Copynumber: 1.8 Consensus size: 81
1842812 ATACATCTAG
*
1842822 TCTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATAC
1 TCTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATAC
1842887 ACAGCTATGACATTAA
66 ACAGCTATGACATTAA
* * *
1842903 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATAC
1842968 ACA
66 ACA
1842971 TCTAGGTCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGAATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATAC
ACAGCTATGACATTAA
Found at i:1843019 original size:68 final size:67
Alignment explanation
Indices: 1842910--1843037 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 67
1842900 TAATCTTTTA
* * * *
1842910 CTCAAAGGTATTTAACCTTTCATCTAACTGTCATAATTGACACCTTTCTGTCAAATGCACATCTA
1 CTCAAAGGCACTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCTATC-AATGCACATCTA
1842975 GGT
65 GGT
* * *
1842978 CTCAAAGGCACTTAGCCTTTCATCTAATTGCCATAATTGACACCTTTTTATCAATGCACA
1 CTCAAAGGCACTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCTATCAATGCACA
1843038 GTTAGGCGTC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
67 8 0.15
68 45 0.85
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (67 bp):
CTCAAAGGCACTTAACCTTTCATCTAACTGCCATAATTGACACCTTTCTATCAATGCACATCTAG
GT
Found at i:1843187 original size:67 final size:66
Alignment explanation
Indices: 1843079--1843333 Score: 372
Period size: 67 Copynumber: 3.9 Consensus size: 66
1843069 TACAGTTAGA
* * * *
1843079 CCTCAAAGGCACTTAGTCTTTCATCTAACTGTCATAGTTGACACCTTTCTTTCAATGCATAGCTA
1 CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCA-AGCTA
1843144 GG
65 GG
* *
1843146 CCTCAAAGGCACTTAGCCTTTCATTTAACTGGCATAATTGACACCTTTCTGTCAA--C-AGTTAG
1 CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCAAGCTAG
1843208 G
66 G
* * * *
1843209 CCTCAAAGGCACTTAGCCTTTCTTCTAATTGGCATAATTGACACCTTTCTATCAATGTACAGCTA
1 CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCA-AGCTA
1843274 GG
65 GG
*
1843276 CCTCAAAGGCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGC
1 CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGC
1843334 GCACTTAGCC
Statistics
Matches: 167, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
63 57 0.34
65 1 0.01
67 109 0.65
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (66 bp):
CCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCAAGCTAG
G
Found at i:1843305 original size:130 final size:130
Alignment explanation
Indices: 1843070--1843330 Score: 423
Period size: 130 Copynumber: 2.0 Consensus size: 130
1843060 AGCATAATGT
* * * *
1843070 ACAGTTAGACCTCAAAGGCACTTAGTCTTTCATCTAACTGTCATAGTTGACACCTTTCTTTCAAT
1 ACAGTTAGACCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAT
* * *
1843135 GCATAGCTAGGCCTCAAAGGCACTTAGCCTTTCATTTAACTGGCATAATTGACACCTTTCTGTCA
66 GCACAGCTAGGCCTCAAAGGCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCA
* * *
1843200 ACAGTTAGGCCTCAAAGGCACTTAGCCTTTCTTCTAATTGGCATAATTGACACCTTTCTATCAAT
1 ACAGTTAGACCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAT
*
1843265 GTACAGCTAGGCCTCAAAGGCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCA
66 GCACAGCTAGGCCTCAAAGGCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCA
1843330 A
1 A
1843331 TGCGCACTTA
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 120 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (130 bp):
ACAGTTAGACCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAT
GCACAGCTAGGCCTCAAAGGCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCA
Found at i:1843362 original size:50 final size:50
Alignment explanation
Indices: 1843284--1843381 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 50
1843274 GGCCTCAAAG
* *
1843284 GCACTTACCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGC
1 GCACTTACCCTTTCATCTAACTGACATAATTGACACATTTCTGTCAATGC
*
1843334 GCACTTAGCCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAT
1 GCACTTACCCTTTCATCTAACTGACATAATTGACACATTTCTGTCAAT
1843382 TATGCCTCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.35
Consensus pattern (50 bp):
GCACTTACCCTTTCATCTAACTGACATAATTGACACATTTCTGTCAATGC
Found at i:1843663 original size:58 final size:57
Alignment explanation
Indices: 1843600--1843780 Score: 211
Period size: 57 Copynumber: 3.2 Consensus size: 57
1843590 ATTTCTTAGA
* * * *
1843600 TTTTGCACATAAAGTTCTTATAAGGAAATTCATAAAAAAAATTATGAATTCCTTAACT
1 TTTTGCACATAAAGTGCTCATAAGGAAATTCAT-AAAAAAATTATGAATTTCTTATCT
* * *
1843658 TTTTGCACACT-CAGTGCCCATAAGGAAATTCATAAACAAATTATGAATTTCTTATCT
1 TTTTGCACA-TAAAGTGCTCATAAGGAAATTCATAAAAAAATTATGAATTTCTTATCT
* * * * * *
1843715 TTTAGTACACAAAGTGCTCATACGTAAATTCATAAAGAAATTATGAATTTCTTATCT
1 TTTTGCACATAAAGTGCTCATAAGGAAATTCATAAAAAAATTATGAATTTCTTATCT
*
1843772 TTTTACACA
1 TTTTGCACA
1843781 CTCAGTGTCA
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
57 75 0.73
58 27 0.26
59 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (57 bp):
TTTTGCACATAAAGTGCTCATAAGGAAATTCATAAAAAAATTATGAATTTCTTATCT
Found at i:1844181 original size:19 final size:21
Alignment explanation
Indices: 1844131--1844182 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 21
1844121 ACTTACCACG
1844131 GGTATCGATACTACTATACTAT
1 GGTATCGATACTAC-ATACTAT
*
1844153 GGTA-CTGATACT-C-TAGTAT
1 GGTATC-GATACTACATACTAT
1844172 GGTATCGATAC
1 GGTATCGATAC
1844183 CATTTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.52
20 1 0.04
21 2 0.07
22 10 0.37
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (21 bp):
GGTATCGATACTACATACTAT
Found at i:1847081 original size:27 final size:27
Alignment explanation
Indices: 1847051--1847197 Score: 158
Period size: 27 Copynumber: 5.5 Consensus size: 27
1847041 CAATCACCTT
*
1847051 GAAGGATGAAATACTATGCATCATCTC
1 GAAGGATGGAATACTATGCATCATCTC
* * *
1847078 GAAGGATTGAATCCTATACATCATCT-
1 GAAGGATGGAATACTATGCATCATCTC
*
1847104 GAATGATGGAATAC-AGTGCATCATCTC
1 GAAGGATGGAATACTA-TGCATCATCTC
* *
1847131 GAAGGATGGAATACGATGCATCA-CCC
1 GAAGGATGGAATACTATGCATCATCTC
*
1847157 TGAAGGATGAAATA-TATTGCATCATCTC
1 -GAAGGATGGAATACTA-TGCATCATCTC
*
1847185 GAATGATGGAATA
1 GAAGGATGGAATA
1847198 TTATATATCA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
25 1 0.01
26 23 0.23
27 72 0.73
28 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAGGATGGAATACTATGCATCATCTC
Found at i:1847153 original size:53 final size:53
Alignment explanation
Indices: 1847043--1847197 Score: 186
Period size: 53 Copynumber: 2.9 Consensus size: 53
1847033 ATACGGTGCA
* * * *
1847043 ATCACCTTGAAGGATGAAATACTATGCATCATCTCGAAGGATTGAATCCTATAC
1 ATCACCCTGAAGGATGAAATAC-ATGCATCATCTCGAAGGATGGAATACGATAC
* * * *
1847097 ATCA-TCTGAATGATGGAATACAGTGCATCATCTCGAAGGATGGAATACGATGC
1 ATCACCCTGAAGGATGAAATACA-TGCATCATCTCGAAGGATGGAATACGATAC
* *
1847150 ATCACCCTGAAGGATGAAATATATTGCATCATCTCGAATGATGGAATA
1 ATCACCCTGAAGGATGAAATACA-TGCATCATCTCGAAGGATGGAATA
1847198 TTATATATCA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
52 1 0.01
53 43 0.51
54 41 0.48
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (53 bp):
ATCACCCTGAAGGATGAAATACATGCATCATCTCGAAGGATGGAATACGATAC
Found at i:1847214 original size:54 final size:52
Alignment explanation
Indices: 1847050--1847215 Score: 188
Period size: 54 Copynumber: 3.1 Consensus size: 52
1847040 GCAATCACCT
* *
1847050 TGAAGGATGAAATACTATGCATCATCTCGAAGGATTGAATCCTATACATCATC
1 TGAAGGATGAAATA-TATGCATCATCTCGAAGGATGGAATACTATACATCATC
* * * * * *
1847103 TGAATGATGGAATACAGTGCATCATCTCGAAGGATGGAATACGATGCATCACCC
1 TGAAGGATGAAATATA-TGCATCATCTCGAAGGATGGAATACTATACATCA-TC
* * *
1847157 TGAAGGATGAAATATATTGCATCATCTCGAATGATGGAATATTATATATCATAC
1 TGAAGGATGAAATATA-TGCATCATCTCGAAGGATGGAATACTATACATCAT-C
1847211 TGAAG
1 TGAAG
1847216 TGTTATACCT
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
52 1 0.01
53 42 0.46
54 49 0.53
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (52 bp):
TGAAGGATGAAATATATGCATCATCTCGAAGGATGGAATACTATACATCATC
Found at i:1856097 original size:24 final size:23
Alignment explanation
Indices: 1856037--1856097 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 23
1856027 TTGAAATGTC
1856037 AAAGTACATGTCTTATGGATCACCA
1 AAAG-ACATGT-TTATGGATCACCA
* * **
1856062 AAAGTCACGTTTATGGATTCTTCA
1 AAAGACATGTTTATGGA-TCACCA
1856086 AAAGACATGTTT
1 AAAGACATGTTT
1856098 CTTGAATCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 7 0.24
24 18 0.62
25 4 0.14
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (23 bp):
AAAGACATGTTTATGGATCACCA
Found at i:1857289 original size:15 final size:15
Alignment explanation
Indices: 1857254--1857282 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1857244 GTGGTTCAAC
1857254 TTCTTT-CTTTTCTT
1 TTCTTTGCTTTTCTT
1857268 TTCTTTGCTTTTCTT
1 TTCTTTGCTTTTCTT
1857283 CTTTTTGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.21, G:0.03, T:0.76
Consensus pattern (15 bp):
TTCTTTGCTTTTCTT
Found at i:1867172 original size:18 final size:20
Alignment explanation
Indices: 1867128--1867173 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
1867118 AATATGCATG
1867128 ATCATAAAAACAATAAACAC
1 ATCATAAAAACAATAAACAC
* *
1867148 ATC-TAAAAA-TATAAA-AT
1 ATCATAAAAACAATAAACAC
1867165 ATCATAAAA
1 ATCATAAAA
1867174 CTCATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 6 0.26
20 3 0.13
ACGTcount: A:0.65, C:0.13, G:0.00, T:0.22
Consensus pattern (20 bp):
ATCATAAAAACAATAAACAC
Found at i:1868814 original size:2 final size:2
Alignment explanation
Indices: 1868729--1868797 Score: 104
Period size: 2 Copynumber: 35.0 Consensus size: 2
1868719 TTAGTATGAT
* *
1868729 TA TA TA TA CA TA TA TA CA 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
*
1868771 TA TA TA TA TA TA TA TA TA -A TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1868798 AAAGTTCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1872540 original size:20 final size:20
Alignment explanation
Indices: 1872511--1872549 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1872501 AAAGTTCATA
*
1872511 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1872531 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1872550 GAGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1875560 original size:17 final size:17
Alignment explanation
Indices: 1875538--1875599 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
1875528 GACTTTCCAG
1875538 TTATCAGATATTTACAA
1 TTATCAGATATTTACAA
* *
1875555 TTATCATATAATTACAA
1 TTATCAGATATTTACAA
* * *
1875572 ATATCATATATTTTACAG
1 TTATCAGATA-TTTACAA
*
1875590 TTATGAGATA
1 TTATCAGATA
1875600 CAGATTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 24 0.67
18 12 0.33
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (17 bp):
TTATCAGATATTTACAA
Found at i:1876137 original size:18 final size:20
Alignment explanation
Indices: 1876114--1876151 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
1876104 TTTTGAAGTT
1876114 TAATTT-TTAT-TTAAATTA
1 TAATTTGTTATCTTAAATTA
*
1876132 TAATTTGTTTTCTTAAATTA
1 TAATTTGTTATCTTAAATTA
1876152 ATGAAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 3 0.18
20 8 0.47
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TAATTTGTTATCTTAAATTA
Found at i:1886256 original size:46 final size:46
Alignment explanation
Indices: 1886079--1886249 Score: 276
Period size: 46 Copynumber: 3.8 Consensus size: 46
1886069 ATGAACTGGC
* *
1886079 AAATAAGCTTACGAGCTTAT-GGAAT-AATGGTATGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGAATAAATGGTAAGTATTTTGGTA
*
1886123 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGAATAAATGGTAAGTATTTTGGTA
*
1886169 AAATAAGCTTACGAGCTTATGGGATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGGAATAAATGGTAAGTATTTTGGTA
*
1886215 AAATAAGCTTACGATCTTAT-GGAATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGGAATAAATGGTAAG
1886250 AGATTTTATC
Statistics
Matches: 120, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
44 20 0.17
45 18 0.15
46 82 0.68
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGGAATAAATGGTAAGTATTTTGGTA
Found at i:1888993 original size:21 final size:21
Alignment explanation
Indices: 1888967--1889018 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
1888957 TCATCTGAGA
1888967 AGTATCGATACTAATTCAATC
1 AGTATCGATACTAATTCAATC
1888988 AGTATCGATACTAATTCAATC
1 AGTATCGATACTAATTCAATC
1889009 AGTATCGATA
1 AGTATCGATA
1889019 ACGAACGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
AGTATCGATACTAATTCAATC
Found at i:1889139 original size:22 final size:22
Alignment explanation
Indices: 1889104--1889160 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
1889094 CCATAGAGGG
*
1889104 GTATCGATATCATAGTATAGTA
1 GTATCGATACCATAGTATAGTA
1889126 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATAGTATAGTA
1889148 GTATCGATACCAT
1 GTATCGATACCAT
1889161 GGTAAGGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:1889253 original size:22 final size:20
Alignment explanation
Indices: 1889225--1889271 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
1889215 TTCCAATATT
1889225 GATACCAAAGTAGGGTAGTATC
1 GATACCAAAGTAGGG--GTATC
**
1889247 GATACCATGGTAGGGGTATC
1 GATACCAAAGTAGGGGTATC
1889267 GATAC
1 GATAC
1889272 TGAAGGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
22 13 0.57
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (20 bp):
GATACCAAAGTAGGGGTATC
Found at i:1889766 original size:45 final size:45
Alignment explanation
Indices: 1889680--1889856 Score: 259
Period size: 45 Copynumber: 3.9 Consensus size: 45
1889670 TGAAAATAAT
* ** *
1889680 AATGCATATGGGTGTATTATCGGCATG-AAAGGATGAC-ATAGTTGA
1 AATGCATATGGGTGCATTATCAACA-GAAAAGTATG-CTATAGTTGA
* * *
1889725 AATGTATATGGGTACATTATCAACAGAAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1889770 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
1889815 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGT
1 AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGT
1889857 ATTATAATCG
Statistics
Matches: 120, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
44 2 0.02
45 118 0.98
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAACAGAAAAGTATGCTATAGTTGA
Found at i:1892762 original size:27 final size:27
Alignment explanation
Indices: 1892727--1892779 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1892717 ATGTTATATG
*
1892727 ATATTCATGCATACAACATATACCCAT
1 ATATCCATGCATACAACATATACCCAT
1892754 ATATCCATGCATACAACATATACCCA
1 ATATCCATGCATACAACATATACCCA
1892780 GATCTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (27 bp):
ATATCCATGCATACAACATATACCCAT
Found at i:1896981 original size:27 final size:27
Alignment explanation
Indices: 1896951--1897002 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
1896941 CATGTTATAT
1896951 GATATTCATGCATACAACATATACCTA
1 GATATTCATGCATACAACATATACCTA
1896978 GATATTCATGCATACAACATATACC
1 GATATTCATGCATACAACATATACC
1897003 CAAATCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
GATATTCATGCATACAACATATACCTA
Found at i:1898017 original size:20 final size:19
Alignment explanation
Indices: 1897968--1898017 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1897958 CAGCCAAGAG
*
1897968 CATGTATTTTCATTAAAGT
1 CATGTATTTTCATTAAAAT
* *
1897987 CTTGTTGTTTTCATTAAAAT
1 CATG-TATTTTCATTAAAAT
1898007 CATGTCATTTT
1 CATGT-ATTTT
1898018 AGGAAGGTAC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.26, C:0.12, G:0.10, T:0.52
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:1900038 original size:24 final size:22
Alignment explanation
Indices: 1899999--1900053 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
1899989 GGTGATCCAC
* *
1899999 AAGACATGTCCTTTGACATTTCA
1 AAGA-ATGTCCTTTGAAATTTAA
*
1900022 AAGGATGTACCTCTTGAAATTTAA
1 AAGAATGT-CCT-TTGAAATTTAA
1900046 AAGAATGT
1 AAGAATGT
1900054 GCCAATTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 4 0.15
23 6 0.23
24 16 0.62
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (22 bp):
AAGAATGTCCTTTGAAATTTAA
Found at i:1901191 original size:27 final size:27
Alignment explanation
Indices: 1901157--1901213 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
1901147 CCATTTATAT
1901157 GATATTCATGCATACAACATATACCCA
1 GATATTCATGCATACAACATATACCCA
1901184 GATATTCATGCATACAACATATACCCA
1 GATATTCATGCATACAACATATACCCA
1901211 GAT
1 GAT
1901214 CTTTATGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.26
Consensus pattern (27 bp):
GATATTCATGCATACAACATATACCCA
Found at i:1904616 original size:45 final size:45
Alignment explanation
Indices: 1904560--1904870 Score: 392
Period size: 45 Copynumber: 6.9 Consensus size: 45
1904550 ATACTTTAAT
*
1904560 CTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
1 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
* * *
1904605 CTATAGTATACTTTTTTGTTGGA-AATGTACCCATATACATTTCAA
1 CTATAGTATACTTTTCTGTT-GATAATGCACCCATATGCATTTCAA
* * ** *
1904650 CTATAGTATACTTTTCTATTGAAAATATACCCATATACATTTCAA
1 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
*
1904695 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGTATTTCAA
1 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
* *
1904740 CTATAGCATACTTTTCTATTGATAATGCACCCATATGCATTTCAA
1 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
* * *
1904785 CTATAATATACTTTTCTGTTGATAATGTACCCATATACATTTCAA
1 CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
* * * * ** *
1904830 TTATGGCAT-CCTTTCATGCCGATAATGCACCAATATGCATT
1 CTATAGTATACTTTTC-TGTTGATAATGCACCCATATGCATT
1904871 ATTACTTTCA
Statistics
Matches: 232, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
44 7 0.03
45 223 0.96
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.40
Consensus pattern (45 bp):
CTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTCAA
Found at i:1904816 original size:135 final size:136
Alignment explanation
Indices: 1904548--1904870 Score: 442
Period size: 135 Copynumber: 2.4 Consensus size: 136
1904538 ATACACCATT
1904548 ATATAC-TTT-AATCTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
1 ATATACATTTCAATCTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
* * * * *
1904611 TATACTTTTTTGTTGGAAATGTACCCATATACATTTCAACTATAGTATACTTTTCTATTGAAAAT
66 CATACTTTTCTATTGGAAATGCACCCATATACATTTCAACTATAATATACTTTTCTATTGAAAAT
1904676 ATACCC
131 ATACCC
* *
1904682 ATATACATTTCAA-CTATAGTATACTTTTCTGTTGATAATGCACCCATATGTATTTCAACTATAG
1 ATATACATTTCAATCTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
* * *
1904746 CATACTTTTCTATT-GATAATGCACCCATATGCATTTCAACTATAATATACTTTTCTGTTGATAA
66 CATACTTTTCTATTGGA-AATGCACCCATATACATTTCAACTATAATATACTTTTCTATTGAAAA
*
1904810 TGTACCC
130 TATACCC
* * ** *
1904817 ATATACATTTCAAT-TATGGCAT-CCTTTCATGCCGATAATGCACCAATATGCATT
1 ATATACATTTCAATCTATAGCATACTTTTC-TGTTGATAATGCACCCATATGCATT
1904871 ATTACTTTCA
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
134 13 0.08
135 151 0.91
136 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (136 bp):
ATATACATTTCAATCTATAGCATACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAG
CATACTTTTCTATTGGAAATGCACCCATATACATTTCAACTATAATATACTTTTCTATTGAAAAT
ATACCC
Found at i:1913693 original size:16 final size:15
Alignment explanation
Indices: 1913672--1913707 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
1913662 TGATAATACG
*
1913672 ATATAAGTATATACTT
1 ATATAAGTATACA-TT
1913688 ATATAAGTATACATT
1 ATATAAGTATACATT
1913703 ATATA
1 ATATA
1913708 TATAGTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
ATATAAGTATACATT
Found at i:1914812 original size:21 final size:21
Alignment explanation
Indices: 1914782--1914836 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1914772 CAATTACATA
*
1914782 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1914803 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
1914824 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1914837 TCGCATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1915049 original size:21 final size:21
Alignment explanation
Indices: 1915019--1915073 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
1915009 AATTTACATA
*
1915019 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
1915040 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
1915061 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1915074 TCGCATTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1915087 original size:33 final size:33
Alignment explanation
Indices: 1915040--1915103 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1915030 ATAGTCCAAG
* * *
1915040 TTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA
1 TTCGCATTGCGATAGTCCAAGTTCACGTTGCGA
*
1915073 TTCGCATTGTGATAGTCCAAGTTCACGTTGC
1 TTCGCATTGCGATAGTCCAAGTTCACGTTGC
1915104 CATAGTCGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.28, T:0.33
Consensus pattern (33 bp):
TTCGCATTGCGATAGTCCAAGTTCACGTTGCGA
Found at i:1915102 original size:54 final size:54
Alignment explanation
Indices: 1915018--1915128 Score: 195
Period size: 54 Copynumber: 2.1 Consensus size: 54
1915008 CAATTTACAT
* *
1915018 ATTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCG
1 ATTCGCATTGCGATAGTCCAAGTTCACGTTGCCATAGTCGAAGTTCGCGTTGCG
*
1915072 ATTCGCATTGTGATAGTCCAAGTTCACGTTGCCATAGTCGAAGTTCGCGTTGCG
1 ATTCGCATTGCGATAGTCCAAGTTCACGTTGCCATAGTCGAAGTTCGCGTTGCG
1915126 ATT
1 ATT
1915129 TTCCAAATTC
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.32
Consensus pattern (54 bp):
ATTCGCATTGCGATAGTCCAAGTTCACGTTGCCATAGTCGAAGTTCGCGTTGCG
Found at i:1915110 original size:21 final size:21
Alignment explanation
Indices: 1915073--1915279 Score: 160
Period size: 21 Copynumber: 10.0 Consensus size: 21
1915063 CGCGTTGCGA
* *
1915073 TTCGCATTGTGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
1915094 TTCACGTTGCCATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
1915115 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
1915136 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1915155 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
1915178 TT--TGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
1915197 TTCGCGTTGCGATTTATTACAAA
1 TTCGCGTTGCGA--TAGTCCAAG
1915220 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1915239 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
1915262 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
1915280 AATCGCAACA
Statistics
Matches: 145, Mismatches: 29, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
19 40 0.28
21 79 0.54
23 26 0.18
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1915188 original size:42 final size:42
Alignment explanation
Indices: 1915098--1915279 Score: 314
Period size: 42 Copynumber: 4.4 Consensus size: 42
1915088 TCCAAGTTCA
* *
1915098 CGTTGCCATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1915138 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
* *
1915180 TGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTACAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1915222 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1915264 CGTTGCGATAGTCCAA
1 CGTTGCGATAGTCCAA
1915280 AATCGCAACA
Statistics
Matches: 134, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
40 27 0.20
41 2 0.01
42 105 0.78
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:1916190 original size:42 final size:42
Alignment explanation
Indices: 1916128--1916358 Score: 408
Period size: 42 Copynumber: 5.5 Consensus size: 42
1916118 TGCGATTTTG
*
1916128 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1916170 GACTATCGCTACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1916212 GACTATCGCTACGAACTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1916254 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1916296 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
*
1916338 GACTATCGCAACAAACTTGGA
1 GACTATCGCAACGAACTTGGA
1916359 CTATCGCAAC
Statistics
Matches: 181, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 181 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTC
Found at i:1916383 original size:19 final size:19
Alignment explanation
Indices: 1916132--1916385 Score: 130
Period size: 21 Copynumber: 12.3 Consensus size: 19
1916122 ATTTTGGACT
*
1916132 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGG-A-AA
* **
1916153 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGAAA
*
1916174 ATCGCTACGAACTTGGAATAA
1 ATCGCAACGAACTTGG-A-AA
* **
1916195 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGAAA
*
1916216 ATCGCTACGAACTTGGAATAA
1 ATCGCAACGAACTTGG-A-AA
* **
1916237 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGAAA
1916258 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGG-A-AA
**
1916279 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAACTTGGAAA
*
1916300 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTGG-A-AA
* **
1916321 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAACTTGGAAA
* **
1916342 ATCGCAACAAACTTGGACT
1 ATCGCAACGAACTTGGAAA
*
1916361 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAACTTGGAAA
1916380 ATCGCA
1 ATCGCA
1916386 TTGCGATAGT
Statistics
Matches: 177, Mismatches: 38, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
19 63 0.36
20 4 0.02
21 66 0.37
22 5 0.03
23 39 0.22
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (19 bp):
ATCGCAACGAACTTGGAAA
Found at i:1916410 original size:21 final size:21
Alignment explanation
Indices: 1916381--1916429 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1916371 ATTTGGAAAA
*
1916381 TCGCATTGCGATAGTCAAAGT
1 TCGCGTTGCGATAGTCAAAGT
* *
1916402 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCAAAGT
1916423 TCGCGTT
1 TCGCGTT
1916430 ACTAATCTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCAAAGT
Found at i:1920585 original size:26 final size:26
Alignment explanation
Indices: 1920530--1920585 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
1920520 AGTTACGAGA
*
1920530 AATT-GTTAAGTTTATTGATTCTTCT
1 AATTAGTTAAGTTTATTGATTCTTAT
*
1920555 GATTAGTTAAGTTTATTGATTCTTAT
1 AATTAGTTAAGTTTATTGATTCTTAT
1920581 AATTA
1 AATTA
1920586 TTGACTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (26 bp):
AATTAGTTAAGTTTATTGATTCTTAT
Found at i:1921123 original size:2 final size:2
Alignment explanation
Indices: 1921118--1921148 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1921108 GAGTTTGTTT
1921118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1921149 TTTAAAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1922079 original size:21 final size:22
Alignment explanation
Indices: 1922055--1922100 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1922045 GCTTTACCAT
1922055 TGATTGGA-TTGGTCTGAATGC
1 TGATTGGACTTGGTCTGAATGC
1922076 TGATTGGACTTGGTCTGAATGC
1 TGATTGGACTTGGTCTGAATGC
1922098 TGA
1 TGA
1922101 ATTGATGCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.20, C:0.11, G:0.33, T:0.37
Consensus pattern (22 bp):
TGATTGGACTTGGTCTGAATGC
Found at i:1924899 original size:19 final size:19
Alignment explanation
Indices: 1924863--1924899 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1924853 TGAAAATGAT
*
1924863 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
1924882 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
1924900 ATGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:1931898 original size:51 final size:51
Alignment explanation
Indices: 1931835--1931962 Score: 123
Period size: 51 Copynumber: 2.5 Consensus size: 51
1931825 GTAGCAGTAA
* ** ** * *
1931835 AGCGCGCTCCCTGCCCCACGCTATATGCTGATTTGGC-GCCACGTGGGATAT
1 AGCGCGCCCCCTGAACCACGCTATATGCTGACATGGCTGACACATGGG-TAT
* * * *
1931886 AGCGCGCCCCCTGTACCGCGCTATACGCTGACATGGCTTACACATGGGTAT
1 AGCGCGCCCCCTGAACCACGCTATATGCTGACATGGCTGACACATGGGTAT
* *
1931937 AGCGCGGCCCCTGATCCACGCTATAT
1 AGCGCGCCCCCTGAACCACGCTATAT
1931963 CTATTTATCT
Statistics
Matches: 61, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
51 54 0.89
52 7 0.11
ACGTcount: A:0.18, C:0.34, G:0.26, T:0.22
Consensus pattern (51 bp):
AGCGCGCCCCCTGAACCACGCTATATGCTGACATGGCTGACACATGGGTAT
Found at i:1932159 original size:18 final size:17
Alignment explanation
Indices: 1932138--1932171 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1932128 GTATTTAATC
1932138 TATTTAAGCATTTTACTT
1 TATTTAA-CATTTTACTT
*
1932156 TATTTAATATTTTACT
1 TATTTAACATTTTACT
1932172 AATATAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTTAACATTTTACTT
Found at i:1937780 original size:13 final size:12
Alignment explanation
Indices: 1937747--1937781 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
1937737 AATAAGTATA
*
1937747 ATAAAAAAATTT
1 ATAACAAAATTT
1937759 ATAACAAAATTT
1 ATAACAAAATTT
1937771 ATAACGAAAAT
1 ATAAC-AAAAT
1937782 CGAACGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.29
Consensus pattern (12 bp):
ATAACAAAATTT
Found at i:1938144 original size:51 final size:50
Alignment explanation
Indices: 1938038--1938164 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 50
1938028 TACGTGGCGT
* ** * *
1938038 ATAGCGCGGATCAGAGGGCGCGCTATACCCACGTGTAAGCCATGTCAGCAT
1 ATAGCGCGGA-CAGAGGGCGCACTATACCCACGTGTAAGCCAAATCAACAA
* *
1938089 ATAGCGCGGTACAGGGGGCGCACTATACCTCACGTG-ACGCCAAATCAACAA
1 ATAGCGCGG-ACAGAGGGCGCACTATACC-CACGTGTAAGCCAAATCAACAA
*
1938140 ATAGCGCGGGACAGAGAAGCGCACT
1 ATAGCGC-GGACAGAG-GGCGCACT
1938165 TTACTGCTAC
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
51 47 0.75
52 16 0.25
ACGTcount: A:0.29, C:0.28, G:0.29, T:0.14
Consensus pattern (50 bp):
ATAGCGCGGACAGAGGGCGCACTATACCCACGTGTAAGCCAAATCAACAA
Done.