Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008183.1 Hibiscus syriacus cultivar Beakdansim tig00110783_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: 2364390
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 11
Found at i:1768944 original size:36 final size:36
Alignment explanation
Indices: 1768897--1768967 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
1768887 CGATTATTAT
1768897 ATATAGTTTACCTAGAATAATTAACTACACCAATGA
1 ATATAGTTTACCTAGAATAATTAACTACACCAATGA
*
1768933 ATATAGTTTACCTAGAATAATTAGCTACACCAATG
1 ATATAGTTTACCTAGAATAATTAACTACACCAATG
1768968 TCGATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (36 bp):
ATATAGTTTACCTAGAATAATTAACTACACCAATGA
Found at i:1774066 original size:23 final size:23
Alignment explanation
Indices: 1774022--1774066 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1774012 ATTATTATAT
*
1774022 GGCACTACAGTGCAATTCTACGC
1 GGCACTACAGTGCAATTATACGC
* * *
1774045 GGCACTTCGGTGCATTTATACG
1 GGCACTACAGTGCAATTATACG
1774067 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACAGTGCAATTATACGC
Found at i:1782247 original size:21 final size:21
Alignment explanation
Indices: 1782229--1782281 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
1782219 ATGAAGCAAG
*
1782229 GGAAGCAGAGAGAGCAGCAGT
1 GGAAGCAGAGAGAGCAGCAGC
*
1782250 GGAAGCA-ACCAGAGCAGCAGC
1 GGAAGCAGA-GAGAGCAGCAGC
1782271 GGAAGCAGAGA
1 GGAAGCAGAGA
1782282 AAGAAGTAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:1782316 original size:21 final size:21
Alignment explanation
Indices: 1782260--1782328 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
1782250 GGAAGCAACC
* *
1782260 AGAGCAGCAGCGG-AAGCAGAG
1 AGAGAAGCAGCGGCAA-CACAG
* * * *
1782281 AAAGAAGTAGTGGCAACACAT
1 AGAGAAGCAGCGGCAACACAG
1782302 AGAGAAGCAGCGGCAACACAG
1 AGAGAAGCAGCGGCAACACAG
1782323 AGAGAA
1 AGAGAA
1782329 ATAACATATC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 35 0.95
22 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.33, T:0.04
Consensus pattern (21 bp):
AGAGAAGCAGCGGCAACACAG
Found at i:1782893 original size:43 final size:43
Alignment explanation
Indices: 1782765--1782919 Score: 134
Period size: 43 Copynumber: 3.5 Consensus size: 43
1782755 AAAAAACATG
* * * * * *
1782765 AACACCTACTCCGGCGTTTGT-GGGAAAACCCTGCAAAATATC
1 AACACCTACTGCGGCGTTTTTAGGAAAAACGCTGCTAAATCTC
* * *
1782807 AACACCTACTGCGGCGTTTACGTTTGTAAGTAAAACGCCGCTAAATCTC
1 AACACCTACTGCGGCG--T---TTT-TAGGAAAAACGCTGCTAAATCTC
1782856 AACACCTACTGCGGCGTTTTTAGGAAAAACGCTGCTAAA-CATC
1 AACACCTACTGCGGCGTTTTTAGGAAAAACGCTGCTAAATC-TC
* *
1782899 AACATCTACTGTGGCGTTTTT
1 AACACCTACTGCGGCGTTTTT
1782920 CCAGAAAAAT
Statistics
Matches: 92, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 16 0.17
43 37 0.40
44 4 0.04
47 3 0.03
48 1 0.01
49 31 0.34
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AACACCTACTGCGGCGTTTTTAGGAAAAACGCTGCTAAATCTC
Found at i:1783287 original size:33 final size:33
Alignment explanation
Indices: 1783245--1783321 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
1783235 ATCACGAAAC
1783245 TGGAGGATCGCAAATAATAACAGTTCGCTTATA
1 TGGAGGATCGCAAATAATAACAGTTCGCTTATA
*
1783278 TGGAGGATCGCAAATAATAACAGTTCGTTTATA
1 TGGAGGATCGCAAATAATAACAGTTCGCTTATA
1783311 TGGAGGATCGC
1 TGGAGGATCGC
1783322 GGAGCTGGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (33 bp):
TGGAGGATCGCAAATAATAACAGTTCGCTTATA
Found at i:1788700 original size:266 final size:266
Alignment explanation
Indices: 1788218--1788746 Score: 977
Period size: 266 Copynumber: 2.0 Consensus size: 266
1788208 TGGGTATGAT
1788218 TTTTAACTTTAAGAATTTGGATGAAATATGAGAGATTCTAAAGTGTTGGAATGATAAAAGTTAGT
1 TTTTAACTTTAAGAATTTGGATGAAATATGAGAGATTCTAAAGTGTTGGAATGATAAAAGTTAGT
1788283 TAAAATGGTTGTAGTTGAGTTTAGTGATATGAAAGGAGTTTTATATGAGGAAATTTAATGAAAAG
66 TAAAATGGTTGTAGTTGAGTTTAGTGATATGAAAGGAGTTTTATATGAGGAAATTTAATGAAAAG
* * *
1788348 TTGTGAAATTTTCGGGTGAAATCAGTTTATTATTGACATGTGCATCGATATACTATGAATGGGTA
131 TTGTAAAATTTTCGGGTGAAATCAGATTATTATTGACATGTGCATCGATACACTATGAATGGGTA
* * *
1788413 CATATGCACTACGACTAATTTTGAAGGTGCATCGATGCATTAAGGGGTGCATCGATGCATGTAAA
196 CATATGCACTAAGAATAATTTTGAAGGTGCATCGATGCATTAAGGGGTGCATCGATGCATGGAAA
1788478 TTTCGA
261 TTTCGA
*
1788484 TTTTAACTTTAAGAATTTGGATGAAATATGGGAGATTCTAAAGTGTTGGAATGATAAAAGTTAGT
1 TTTTAACTTTAAGAATTTGGATGAAATATGAGAGATTCTAAAGTGTTGGAATGATAAAAGTTAGT
1788549 TAAAATGGTTGTAGTTGAGTTTAGTGATATGAAAGGAGTTTTATATGAGGAAATTTAATGAAAAG
66 TAAAATGGTTGTAGTTGAGTTTAGTGATATGAAAGGAGTTTTATATGAGGAAATTTAATGAAAAG
*
1788614 TTGTAAAATTTTTGGGTGAAATCAGATTATTATTGACATGTGCATCGATACACTATGAATGGGTA
131 TTGTAAAATTTTCGGGTGAAATCAGATTATTATTGACATGTGCATCGATACACTATGAATGGGTA
*
1788679 CCTATGCACTAAGAATAATTTTGAAGGTGCATCGATGCATTAAGGGGTGCATCGATGCATGGAAA
196 CATATGCACTAAGAATAATTTTGAAGGTGCATCGATGCATTAAGGGGTGCATCGATGCATGGAAA
1788744 TTT
261 TTT
1788747 TGAAGCTATT
Statistics
Matches: 254, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 254 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (266 bp):
TTTTAACTTTAAGAATTTGGATGAAATATGAGAGATTCTAAAGTGTTGGAATGATAAAAGTTAGT
TAAAATGGTTGTAGTTGAGTTTAGTGATATGAAAGGAGTTTTATATGAGGAAATTTAATGAAAAG
TTGTAAAATTTTCGGGTGAAATCAGATTATTATTGACATGTGCATCGATACACTATGAATGGGTA
CATATGCACTAAGAATAATTTTGAAGGTGCATCGATGCATTAAGGGGTGCATCGATGCATGGAAA
TTTCGA
Found at i:1789196 original size:24 final size:24
Alignment explanation
Indices: 1789152--1789201 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
1789142 GTGATAAAAG
* *
1789152 TATGGAAATGATAGGTCTATGTGA
1 TATGGAAATAATAGGTCTATGAGA
* *
1789176 TATGGAAATAATATGTGTATGAGA
1 TATGGAAATAATAGGTCTATGAGA
1789200 TA
1 TA
1789202 CACTATGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (24 bp):
TATGGAAATAATAGGTCTATGAGA
Found at i:1790088 original size:21 final size:21
Alignment explanation
Indices: 1790062--1790147 Score: 136
Period size: 21 Copynumber: 4.1 Consensus size: 21
1790052 TACGAAAGTT
1790062 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGGTAC
*
1790083 ACTGTAGTAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGGTAC
*
1790104 ACTATAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGGTAC
* *
1790125 ACTGTAGTAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGGTAC
1790146 AC
1 AC
1790148 AATTTATATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGGTAC
Found at i:1790125 original size:42 final size:42
Alignment explanation
Indices: 1790066--1790147 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
1790056 AAAGTTACTG
*
1790066 TAGCAGTGCATCGGTACACTGTAGTAGTGCATCGGTACACTA
1 TAGCAGTGCATCGGTACACTGTAGTAGTGCATCGATACACTA
1790108 TAGCAGTGCATCGGTACACTGTAGTAGTGCATCGATACAC
1 TAGCAGTGCATCGGTACACTGTAGTAGTGCATCGATACAC
1790148 AATTTATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (42 bp):
TAGCAGTGCATCGGTACACTGTAGTAGTGCATCGATACACTA
Found at i:1790194 original size:21 final size:21
Alignment explanation
Indices: 1790168--1790209 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1790158 TGATGTTTTT
1790168 GTGCATCGGTACACTGTAGCA
1 GTGCATCGGTACACTGTAGCA
*
1790189 GTGCATCGGTACATTGTAGCA
1 GTGCATCGGTACACTGTAGCA
1790210 CTGTTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
GTGCATCGGTACACTGTAGCA
Found at i:1795868 original size:36 final size:37
Alignment explanation
Indices: 1795821--1795893 Score: 130
Period size: 36 Copynumber: 2.0 Consensus size: 37
1795811 TTCATTTAGG
*
1795821 GGGGAATCGATACCCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATCGATACCCCCCCAGGGGGGAATCTATTCCC
1795857 GGGGAATCGATACCCCCCCAGGGGGGAATCTATTCCC
1 GGGGAATCGATACCCCCCCAGGGGGGAATCTATTCCC
1795894 CCTGCACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 20 0.57
37 15 0.43
ACGTcount: A:0.21, C:0.33, G:0.30, T:0.16
Consensus pattern (37 bp):
GGGGAATCGATACCCCCCCAGGGGGGAATCTATTCCC
Found at i:1799116 original size:2 final size:2
Alignment explanation
Indices: 1799109--1799175 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
1799099 TTATTATTAT
1799109 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
1799151 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 T
1799176 CCAATGATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1801240 original size:18 final size:18
Alignment explanation
Indices: 1801217--1801279 Score: 78
Period size: 18 Copynumber: 3.7 Consensus size: 18
1801207 TGTTATATAT
*
1801217 GTCCCGTAGGACCACTAC
1 GTCCCGAAGGACCACTAC
* *
1801235 GTCCCGAAGGTCTACTAC
1 GTCCCGAAGGACCACTAC
1801253 GTCCCGAAGG---ACTAC
1 GTCCCGAAGGACCACTAC
1801268 GTCCCGAAGGAC
1 GTCCCGAAGGAC
1801280 TACAATACCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
15 15 0.38
18 25 0.62
ACGTcount: A:0.24, C:0.35, G:0.25, T:0.16
Consensus pattern (18 bp):
GTCCCGAAGGACCACTAC
Found at i:1801266 original size:15 final size:15
Alignment explanation
Indices: 1801230--1801282 Score: 79
Period size: 15 Copynumber: 3.3 Consensus size: 15
1801220 CCGTAGGACC
1801230 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1801245 TCTACTACGTCCCGAAGG
1 ---ACTACGTCCCGAAGG
1801263 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
1801278 ACTAC
1 ACTAC
1801283 AATACCCTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
15 20 0.57
18 15 0.43
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:1801944 original size:35 final size:37
Alignment explanation
Indices: 1801894--1801965 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
1801884 TTCATTTAGG
1801894 GGGGAATAGAAA-CCCCCCA-GGGGGAATCTGTTCCC
1 GGGGAATAGAAACCCCCCCAGGGGGGAATCTGTTCCC
* *
1801929 GGGGAATCGATACCCCCCCAGGGGGGAATCTGTTCCC
1 GGGGAATAGAAACCCCCCCAGGGGGGAATCTGTTCCC
1801966 CCTGCACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.30
36 7 0.21
37 16 0.48
ACGTcount: A:0.22, C:0.31, G:0.32, T:0.15
Consensus pattern (37 bp):
GGGGAATAGAAACCCCCCCAGGGGGGAATCTGTTCCC
Found at i:1804598 original size:30 final size:30
Alignment explanation
Indices: 1804564--1804633 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
1804554 GTTATATGAG
*
1804564 CTATGTGATAAAGGTATGGAAATGATAGGT
1 CTATGTGATAAAGGTATGGAAATAATAGGT
*
1804594 CTATGTGATAAAGGTATGGAAATAATATGT
1 CTATGTGATAAAGGTATGGAAATAATAGGT
*
1804624 CTATGAGATA
1 CTATGTGATA
1804634 CACTATGTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATAGGT
Found at i:1804893 original size:23 final size:23
Alignment explanation
Indices: 1804867--1804910 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1804857 AAATCTTATA
1804867 TGGAACTACGGTGCATTTCTATG
1 TGGAACTACGGTGCATTTCTATG
* *
1804890 TGGAACTTCGGTGGATTTCTA
1 TGGAACTACGGTGCATTTCTA
1804911 CGCTGTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (23 bp):
TGGAACTACGGTGCATTTCTATG
Found at i:1809948 original size:10 final size:8
Alignment explanation
Indices: 1809927--1809982 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
1809917 TTTTATTCTT
1809927 CAAAAAAA
1 CAAAAAAA
1809935 CAAAAAAA
1 CAAAAAAA
1809943 GGCAAAAAAA
1 --CAAAAAAA
1809953 C--AAAAA
1 CAAAAAAA
1809959 CAAAAACAA
1 CAAAAA-AA
1809968 -AAACAAAA
1 CAAA-AAAA
1809976 CAAAAAA
1 CAAAAAA
1809983 GTCAAAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
6 6 0.15
8 20 0.49
9 7 0.17
10 8 0.20
ACGTcount: A:0.82, C:0.14, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1809957 original size:6 final size:6
Alignment explanation
Indices: 1809948--1809981 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
1809938 AAAAAGGCAA
1809948 AAAAAC AAAAAC AAAAAC AAAAAC -AAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
1809982 AGTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:1809982 original size:18 final size:18
Alignment explanation
Indices: 1809948--1809981 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1809938 AAAAAGGCAA
1809948 AAAAACAAAAACAAAAAC
1 AAAAACAAAAACAAAAAC
1809966 AAAAAC-AAAACAAAAA
1 AAAAACAAAAACAAAAA
1809982 AGTCAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAACAAAAACAAAAAC
Found at i:1817386 original size:23 final size:23
Alignment explanation
Indices: 1817360--1817407 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1817350 ATAAAGTACA
*
1817360 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1817383 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1817406 AT
1 AT
1817408 TTACGTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1818095 original size:329 final size:331
Alignment explanation
Indices: 1817447--1818107 Score: 1256
Period size: 329 Copynumber: 2.0 Consensus size: 331
1817437 TTATACCGAT
1817447 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
*
1817512 TCGATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
*
1817577 CACCTACAATATTAATTTAATAATTTCATTTGTACAAAAAATTATTTGATTGTTTTGATATTTTA
131 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
*
1817642 TAAAATATATTTAGAATTTTTAATTTAATAATATATATCGTAACGTAAAAAATAAATCATTAGAC
196 TAAAATATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
1817707 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
261 GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
1817772 ACAGTG
326 ACAGTG
1817778 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1 AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
1817843 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTC
66 TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
1817907 CACCTAC-ATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
131 CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
1817971 TAAAATAATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGA
196 TAAAAT-ATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGA
1818036 CGCCTATAATTACT-AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
260 CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
*
1818100 TACAGTG
325 CACAGTG
1818107 A
1 A
1818108 AAAAAGTATG
Statistics
Matches: 325, Mismatches: 4, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
329 119 0.37
330 104 0.32
331 102 0.31
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (331 bp):
AGCATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGA
TCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTC
CACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTA
TAAAATATATTTAGAATTTTTAATTTAATAATATATATCGTAACGAAAAAAATAAATCATTAGAC
GCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCC
ACAGTG
Found at i:1818175 original size:21 final size:22
Alignment explanation
Indices: 1818150--1818222 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
1818140 ACACTTTACA
*
1818150 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1818173 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
* * *
1818196 ATATAAGCGTTACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
1818219 ATAT
1 ATAT
1818223 GTTTACCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 44 0.98
24 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:1818186 original size:23 final size:23
Alignment explanation
Indices: 1818160--1818222 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1818150 ATATAACCAC
1818160 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1818183 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGA
*
1818206 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1818223 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1818681 original size:39 final size:39
Alignment explanation
Indices: 1818627--1818713 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1818617 TCAAGTTGTA
*
1818627 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1818666 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1818705 GATTTTGAT
1 GATTTTGAT
1818714 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1818995 original size:18 final size:18
Alignment explanation
Indices: 1818972--1819008 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1818962 CGAAATATAT
1818972 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1818990 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1819008 A
1 A
1819009 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1819431 original size:25 final size:25
Alignment explanation
Indices: 1819397--1819447 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1819387 TTTTTCCAAA
*
1819397 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
1819422 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
1819447 T
1 T
1819448 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:1819661 original size:23 final size:23
Alignment explanation
Indices: 1819634--1819706 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1819624 ACACTTTAGA
*
1819634 ATATAACCACTACCTATTACATT
1 ATATAACGACTACCTATTACATT
*
1819657 ATATAAACGA-TATCTATTACATT
1 ATAT-AACGACTACCTATTACATT
* * *
1819680 ATATAAGGGCTACCTATTACATC
1 ATATAACGACTACCTATTACATT
1819703 ATAT
1 ATAT
1819707 GTTTACCTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 3 0.07
23 35 0.83
24 4 0.10
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAACGACTACCTATTACATT
Found at i:1822831 original size:183 final size:183
Alignment explanation
Indices: 1822523--1823409 Score: 1594
Period size: 183 Copynumber: 4.8 Consensus size: 183
1822513 AATTACCGAC
*
1822523 ACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
*
1822588 AAAAGTGTCGATATATGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
1822653 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
1822706 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1822771 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
* * * *
1822836 TATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGAC
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
*
1822889 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGAAACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
*
1822954 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACTGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
1823019 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
*
1823072 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAATACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
* * * *
1823137 TAAAGTGTTGAGATAGGTTGTAGACCTATTCGCGCATAAAATCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
*
1823202 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGCCGAT
131 TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
1823255 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
1 ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
*
1823320 AAAAGTGTCGATATAGGTTGTAGACCTATTCACGCATAAAACCGGTATATTTATACCGGTTATAT
66 AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
* * * **
1823385 TGCAAATTTACCTATTTTATTATAA
131 TACAAAATTATCTATTACATTATAA
1823410 TATGTTGAAA
Statistics
Matches: 673, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 673 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
ACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAATATTA
AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATAT
TACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGAT
Found at i:1824838 original size:3 final size:3
Alignment explanation
Indices: 1824830--1824883 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
1824820 ACTTGTTTGG
* * *
1824830 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
1824878 TTC ATC
1 ATC ATC
1824884 GTCAGCTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:1824847 original size:12 final size:12
Alignment explanation
Indices: 1824830--1824887 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
1824820 ACTTGTTTGG
* *
1824830 ATCATCATCTTC
1 ATCATCGTCATC
*
1824842 ATCATCATCATC
1 ATCATCGTCATC
1824854 ATCATCGTCATC
1 ATCATCGTCATC
1824866 ATCATCGTCATC
1 ATCATCGTCATC
*
1824878 TTCATCGTCA
1 ATCATCGTCA
1824888 GCTTCATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (12 bp):
ATCATCGTCATC
Found at i:1824853 original size:18 final size:18
Alignment explanation
Indices: 1824830--1824898 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
1824820 ACTTGTTTGG
* *
1824830 ATCATCATCTTCATCATC
1 ATCATCATCATCTTCATC
*
1824848 ATCATCATCATCGTCATC
1 ATCATCATCATCTTCATC
*
1824866 ATCATCGTCATCTTCATC
1 ATCATCATCATCTTCATC
* * *
1824884 GTCAGCTTCATCTTC
1 ATCATCATCATCTTC
1824899 TGCGACCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (18 bp):
ATCATCATCATCTTCATC
Found at i:1824892 original size:12 final size:12
Alignment explanation
Indices: 1824843--1824895 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
1824833 ATCATCTTCA
* *
1824843 TCATCATCATCA
1 TCATCGTCATCT
*
1824855 TCATCGTCATCA
1 TCATCGTCATCT
1824867 TCATCGTCATCT
1 TCATCGTCATCT
*
1824879 TCATCGTCAGCT
1 TCATCGTCATCT
1824891 TCATC
1 TCATC
1824896 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.23, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1826697 original size:199 final size:199
Alignment explanation
Indices: 1826357--1827723 Score: 2573
Period size: 199 Copynumber: 6.9 Consensus size: 199
1826347 TTTAAATTAG
* *
1826357 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1826422 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1826487 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1826552 CAAA
196 CAAA
* *
1826556 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1826621 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1826686 CGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1826749 CAAA
196 CAAA
* * ***
1826753 TATCGACACAAACTATATTAGTGTTGACACATTTTTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1826818 ATTGTACCGGTTAGATTGAAAAAGTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1826883 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1826948 CAAA
196 CAAA
*
1826952 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAATA--AGTAT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA-ACCGGTAT
1827015 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
65 AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
1827080 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
1827145 ACAAA
195 ACAAA
1827150 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1827215 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1827279 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1827344 CAAA
196 CAAA
1827348 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1827413 ATTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1827478 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1827543 CAAA
196 CAAA
1827547 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1827612 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1827677 CGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 CGACACTTT-TTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1827724 GGCCATATTG
Statistics
Matches: 1149, Mismatches: 12, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
197 188 0.16
198 400 0.35
199 523 0.46
200 38 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
CAAA
Found at i:1827244 original size:396 final size:397
Alignment explanation
Indices: 1826357--1827723 Score: 2562
Period size: 396 Copynumber: 3.4 Consensus size: 397
1826347 TTTAAATTAG
* *
1826357 TATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1826422 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1826487 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
1826552 CAAATATCGACACAAACTATATTAGTGTCGACACATTTTTTAGACATATTCTCTCATAAAACCGG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGG
*
1826617 TAAAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
1826682 GGATCGACAC-TTTT-TATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1826745 AAAACAAA
390 AAAACAAA
* * ***
1826753 TATCGACACAAACTATATTAGTGTTGACACATTTTTTAGACATATTCTCTCATAAAATAAGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1826818 ATTGTACCGGTTAGATTGAAAAAGTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1826883 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
*
1826948 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAATA-AG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAA-ACGG
1827012 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
1827077 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1827142 AAAACAAA
390 AAAACAAA
1827150 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1827215 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1827279 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
1827344 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAA-CGG
*
1827409 TATAATTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
1827474 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
1827539 AAAACAAA
390 AAAACAAA
1827547 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1827612 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1827677 CGACACTTTGTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 CGACACTTT-TTATATATGGATCGACACTTTATGGGTGCACCCTGTT
1827724 GGCCATATTG
Statistics
Matches: 947, Mismatches: 17, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
395 76 0.08
396 422 0.45
397 357 0.38
398 55 0.06
399 37 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
CAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
AAACAAA
Found at i:1827888 original size:19 final size:19
Alignment explanation
Indices: 1827842--1827890 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1827832 TTATATTCAC
*
1827842 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1827861 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1827880 ATACAAAATTA
1 ATACAAAATTA
1827891 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1829730 original size:32 final size:32
Alignment explanation
Indices: 1829688--1829748 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1829678 TTAATATCAC
*
1829688 CCCTTAACACCCCAACTTCT-TTCACCACTTCA
1 CCCTCAACACCCCAACTT-TATTCACCACTTCA
* *
1829720 CCCTCAACACCTCTACTTTATTCACCACT
1 CCCTCAACACCCCAACTTTATTCACCACT
1829749 CCATCTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.25, C:0.46, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTTATTCACCACTTCA
Found at i:1829821 original size:21 final size:21
Alignment explanation
Indices: 1829781--1829845 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1829771 CCCCCTTATG
* *
1829781 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
1829802 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
1829823 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
1829844 CT
1 CT
1829846 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:1832093 original size:17 final size:19
Alignment explanation
Indices: 1832071--1832113 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1832061 ATATATCCGG
1832071 TATCATTTT-AT-CGGTTT
1 TATCATTTTGATACGGTTT
1832088 TATCATTTTGATACCGGTTT
1 TATCATTTTGATA-CGGTTT
1832108 TATCAT
1 TATCAT
1832114 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
20 12 0.52
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (19 bp):
TATCATTTTGATACGGTTT
Found at i:1832122 original size:20 final size:19
Alignment explanation
Indices: 1832076--1832122 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1832066 TCCGGTATCA
*
1832076 TTTTATCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1832095 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1832116 TTTTACC
1 TTTTACC
1832123 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1832270 original size:20 final size:20
Alignment explanation
Indices: 1832244--1832289 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1832234 CACTTTTAAA
1832244 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1832263 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1832284 TTTACC
1 TTTACC
1832290 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1837735 original size:27 final size:27
Alignment explanation
Indices: 1837685--1837736 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
1837675 AAAAACTGTC
* *
1837685 ATTTTAATCTTTATTATTTTTTTTAAT
1 ATTTTAAACTTTATTATTTATTTTAAT
1837712 ATTTTAAACTTTA-TATTTCATTTTA
1 ATTTTAAACTTTATTATTT-ATTTTA
1837737 TGGTAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTAAACTTTATTATTTATTTTAAT
Found at i:1839562 original size:19 final size:22
Alignment explanation
Indices: 1839517--1839562 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1839507 GGTTATTAAT
1839517 ATGTTATCTAAAAATATTTCAA
1 ATGTTATCTAAAAATATTTCAA
*
1839539 ATGTTAT-TAAAGATA-TTC-A
1 ATGTTATCTAAAAATATTTCAA
1839558 ATGTT
1 ATGTT
1839563 GGTACAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 7 0.30
22 7 0.30
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
ATGTTATCTAAAAATATTTCAA
Found at i:1843365 original size:62 final size:64
Alignment explanation
Indices: 1843294--1843424 Score: 230
Period size: 63 Copynumber: 2.1 Consensus size: 64
1843284 ATATGTTCAC
*
1843294 ATCTTTATTTTGTTCGA-ATTTTTTTATGAGTTCTTAACATTTTTCTTGTATG-TCCTTATATG
1 ATCTTTATTTTGTTCGAGATTTTTTTATGAATTCTTAACATTTTTCTTGTATGATCCTTATATG
*
1843356 ATCTTTATTTTGTTCGAGTTTTTTTTATGAATTCTTAACATTTTTCTTGTATGATCCTTATATG
1 ATCTTTATTTTGTTCGAGATTTTTTTATGAATTCTTAACATTTTTCTTGTATGATCCTTATATG
1843420 ATCTT
1 ATCTT
1843425 GAGTGACTAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
62 17 0.26
63 33 0.51
64 15 0.23
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.58
Consensus pattern (64 bp):
ATCTTTATTTTGTTCGAGATTTTTTTATGAATTCTTAACATTTTTCTTGTATGATCCTTATATG
Found at i:1846088 original size:60 final size:58
Alignment explanation
Indices: 1846016--1846146 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 58
1846006 GTAGATGAAT
* * * *
1846016 ATTTTGTAACTTTTAATAGT-TGGAGGACTCAATAAAGCACA-ATCTTATAGTCAGAGGATC
1 ATTTTGTAACTTTCAATAGTCT-GAGGACTCAACAAAGCA-ATAACCTATAGTC-G-GGATC
*
1846076 ATTTTGTAACTTTCAATAGTCTGAGGATTCAACAAAGCAATAACCTATAGTCGGGATC
1 ATTTTGTAACTTTCAATAGTCTGAGGACTCAACAAAGCAATAACCTATAGTCGGGATC
1846134 ATTTATGT-ACTTT
1 ATTT-TGTAACTTT
1846147 ACCCTAAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
58 14 0.22
59 5 0.08
60 43 0.68
61 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (58 bp):
ATTTTGTAACTTTCAATAGTCTGAGGACTCAACAAAGCAATAACCTATAGTCGGGATC
Found at i:1846190 original size:14 final size:14
Alignment explanation
Indices: 1846170--1846211 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1846160 TTAGCTTTTC
1846170 AAATTAAATTATTT
1 AAATTAAATTATTT
*
1846184 GAATTAAATT-TATT
1 AAATTAAATTAT-TT
*
1846198 AAATTAAAATATTT
1 AAATTAAATTATTT
1846212 TATTTTTATC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AAATTAAATTATTT
Found at i:1847594 original size:9 final size:9
Alignment explanation
Indices: 1847580--1847613 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
1847570 GAACGAGGAC
1847580 AATTTTTAA
1 AATTTTTAA
1847589 AATTTTT-A
1 AATTTTTAA
1847597 AATTTTTAA
1 AATTTTTAA
1847606 ATATTTTT
1 A-ATTTTT
1847614 TATATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 9 0.39
10 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
AATTTTTAA
Found at i:1847602 original size:17 final size:18
Alignment explanation
Indices: 1847580--1847613 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1847570 GAACGAGGAC
1847580 AATTTTTAAA-ATTTTTA
1 AATTTTTAAATATTTTTA
1847597 AATTTTTAAATATTTTT
1 AATTTTTAAATATTTTT
1847614 TATATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTAAATATTTTTA
Found at i:1851059 original size:32 final size:32
Alignment explanation
Indices: 1851014--1851076 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
1851004 GGCACAAACA
* *
1851014 CCGCAATAGGTTTGATATTTATAGGCGTTTTC
1 CCGCAACAGGTTTGATATTTAGAGGCGTTTTC
* *
1851046 CCGCAACATGTTTGATATTTAGCGGCGTTTT
1 CCGCAACAGGTTTGATATTTAGAGGCGTTTT
1851077 TAGTCACAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (32 bp):
CCGCAACAGGTTTGATATTTAGAGGCGTTTTC
Found at i:1856499 original size:19 final size:20
Alignment explanation
Indices: 1856460--1856499 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1856450 TGGTTCACGG
1856460 AATGTAAGATTACCAGTGGA
1 AATGTAAGATTACCAGTGGA
1856480 AATGTAAGATTACCAG-GGA
1 AATGTAAGATTACCAGTGGA
1856499 A
1 A
1856500 TAGGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.23
Consensus pattern (20 bp):
AATGTAAGATTACCAGTGGA
Found at i:1858829 original size:21 final size:21
Alignment explanation
Indices: 1858805--1858848 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1858795 CCAAGAAACC
*
1858805 TTATCCCTATGAA-CTCTTATA
1 TTAT-CCTATAAATCTCTTATA
*
1858826 TTATCCTATAAATCTTTTATA
1 TTATCCTATAAATCTCTTATA
1858847 TT
1 TT
1858849 CGTGGTACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.30, C:0.18, G:0.02, T:0.50
Consensus pattern (21 bp):
TTATCCTATAAATCTCTTATA
Found at i:1867098 original size:22 final size:22
Alignment explanation
Indices: 1867073--1867165 Score: 61
Period size: 22 Copynumber: 4.3 Consensus size: 22
1867063 AATTTATATG
*
1867073 ATTTAAACTTAAAATAATTAGA
1 ATTTAAAATTAAAATAATTAGA
* *
1867095 ATTT----TTAAAAAAATTGAATCA
1 ATTTAAAATTAAAATAATT--A-GA
* *
1867116 ATTTAAAATTGAAATAATTTGA
1 ATTTAAAATTAAAATAATTAGA
*
1867138 ATTTAAAATCAAAATAACTTA-A
1 ATTTAAAATTAAAATAA-TTAGA
1867160 ATTTAA
1 ATTTAA
1867166 TAAAAAAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
18 10 0.19
20 1 0.02
21 5 0.09
22 27 0.50
23 2 0.04
25 9 0.17
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (22 bp):
ATTTAAAATTAAAATAATTAGA
Found at i:1871565 original size:9 final size:9
Alignment explanation
Indices: 1871548--1871646 Score: 51
Period size: 10 Copynumber: 10.2 Consensus size: 9
1871538 TATATATATA
*
1871548 TATTATTTT
1 TATTTTTTT
1871557 TA-TTTTTT
1 TATTTTTTT
1871565 TATTATTATTT
1 TATT-TT-TTT
1871576 TATTTATTTGT
1 TATTT-TTT-T
* *
1871587 T-TTATTTA
1 TATTTTTTT
1871595 TATATTTTTT
1 TAT-TTTTTT
*
1871605 TCTTCTTTTT
1 TATT-TTTTT
1871615 CT-TTATTTTT
1 -TATT-TTTTT
1871625 TATTTTTTT
1 TATTTTTTT
1871634 TATATTTATTT
1 TAT-TTT-TTT
1871645 TA
1 TA
1871647 CTTACTATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
8 8 0.11
9 17 0.24
10 30 0.42
11 16 0.23
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (9 bp):
TATTTTTTT
Found at i:1871600 original size:21 final size:19
Alignment explanation
Indices: 1871537--1871644 Score: 71
Period size: 19 Copynumber: 5.6 Consensus size: 19
1871527 TTTTTTTAGA
* * *
1871537 TTATATATATATATTATTT
1 TTATATTTATTTATTTTTT
*
1871556 TTAT-TTT-TTTATTATTAT
1 TTATATTTATTTATT-TTTT
*
1871574 TT-TATTTATTTGTTTTATT
1 TTATATTTATTTATTTT-TT
* *
1871593 TATATATTTTTTTCTTCTTTT
1 T-TATATTTATTTATT-TTTT
*
1871614 TCTTTATTT-TTTATTTTTT
1 T-TATATTTATTTATTTTTT
1871633 TTATATTTATTT
1 TTATATTTATTT
1871645 TACTTACTAT
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
17 6 0.09
18 17 0.25
19 19 0.28
20 6 0.09
21 19 0.28
22 2 0.03
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (19 bp):
TTATATTTATTTATTTTTT
Found at i:1871613 original size:24 final size:23
Alignment explanation
Indices: 1871544--1871613 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 23
1871534 AGATTATATA
*
1871544 TATATATTATTTTTATTTTTTTAT
1 TATATATT-TTTTTATTCTTTTAT
*
1871568 TAT-TATTTTATTTATTTGTTTTATT
1 TATATATTTT-TTTA-TTCTTTTA-T
*
1871593 TATATATTTTTTTCTTCTTTT
1 TATATATTTTTTTATTCTTTT
1871614 TCTTTATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
22 2 0.05
23 8 0.21
24 16 0.41
25 7 0.18
26 6 0.15
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (23 bp):
TATATATTTTTTTATTCTTTTAT
Found at i:1871643 original size:51 final size:49
Alignment explanation
Indices: 1871521--1871644 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 49
1871511 TTAGTATATA
* *
1871521 TTTTTATTTTTTTAGATTATATATATATATTATTTTTATTTTTTTATTAT
1 TTTTTATTTTTTTATATT-TATTTATATATTATTTTTATTTTTTTATTAT
* * * *
1871571 TATTTTATTTATTTGT-TTTATTTATATATT-TTTTTCTTCTTTTTCTTTAT
1 T-TTTTATTTTTTTATATTTATTTATATATTATTTTTATT-TTTTT-ATTAT
1871621 TTTTTATTTTTTTTATATTTATTT
1 TTTTTA-TTTTTTTATATTTATTT
1871645 TACTTACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
48 7 0.11
49 21 0.34
50 15 0.25
51 18 0.30
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (49 bp):
TTTTTATTTTTTTATATTTATTTATATATTATTTTTATTTTTTTATTAT
Found at i:1873564 original size:7 final size:7
Alignment explanation
Indices: 1873547--1873580 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
1873537 GAACATTTCA
1873547 TGCATTTT
1 TGCA-TTT
1873555 TGCATTT
1 TGCATTT
1873562 TGCATTT
1 TGCATTT
1873569 TGCATTT
1 TGCATTT
1873576 TGCAT
1 TGCAT
1873581 ATACATTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 22 0.85
8 4 0.15
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (7 bp):
TGCATTT
Found at i:1874847 original size:12 final size:12
Alignment explanation
Indices: 1874832--1874873 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1874822 AAAAAATAGA
1874832 AAAAAAGCAAAG
1 AAAAAAGCAAAG
*
1874844 AAAAAAACAAAG
1 AAAAAAGCAAAG
**
1874856 -AAAAATTAAAG
1 AAAAAAGCAAAG
1874867 AAAAAAG
1 AAAAAAG
1874874 AAGACAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (12 bp):
AAAAAAGCAAAG
Found at i:1874847 original size:13 final size:12
Alignment explanation
Indices: 1874829--1874860 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
1874819 TAGAAAAAAT
1874829 AGAAAAAAAGCAA
1 AGAAAAAAA-CAA
1874842 AGAAAAAAACAA
1 AGAAAAAAACAA
1874854 AGAAAAA
1 AGAAAAA
1874861 TTAAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (12 bp):
AGAAAAAAACAA
Found at i:1875010 original size:69 final size:69
Alignment explanation
Indices: 1874933--1875070 Score: 206
Period size: 69 Copynumber: 2.0 Consensus size: 69
1874923 GATTCAAACT
* * *
1874933 ATGAGATTGATCAAGCATAATCATTTCCGAATCA-CTGAACCACTTCACTCGAAGATCAAAGAGC
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCATC-GAACCACTCCACTCGAAGATCAAAGAGC
1874997 ATCAA
65 ATCAA
* * *
1875002 ATGAGATTGATCAAGCACAATCATTTCTAAATCATCGAATCACTCCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAATCATTTCCAAATCATCGAACCACTCCACTCGAAGATCAAAGAGCA
1875067 TCAA
66 TCAA
1875071 TAGAGAGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
69 61 0.98
70 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAATCATTTCCAAATCATCGAACCACTCCACTCGAAGATCAAAGAGCA
TCAA
Found at i:1876036 original size:32 final size:32
Alignment explanation
Indices: 1875983--1876079 Score: 133
Period size: 32 Copynumber: 3.0 Consensus size: 32
1875973 AAGAAATGAG
* *
1875983 GAATATTGGGGGCATTCTTGGAGATTCAACATC
1 GAATATT-GGGGCTTTTTTGGAGATTCAACATC
1876016 GAATATTGGGGCTTTTTTGGAGATTCAACATC
1 GAATATTGGGGCTTTTTTGGAGATTCAACATC
* *
1876048 GAATATTGGGG-TATCTTTGGGGATTCAACATC
1 GAATATTGGGGCT-TTTTTGGAGATTCAACATC
1876080 CTGATATGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
31 1 0.02
32 51 0.86
33 7 0.12
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (32 bp):
GAATATTGGGGCTTTTTTGGAGATTCAACATC
Found at i:1876869 original size:106 final size:106
Alignment explanation
Indices: 1876717--1877034 Score: 485
Period size: 106 Copynumber: 3.0 Consensus size: 106
1876707 GTGCCACCCG
* * * *
1876717 AGACAATACAAGTTCAACTTCACAACGAAGGGATGCCTGGTTGTCAACAAATAATTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTT
* *
1876782 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCA
66 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
*
1876823 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAGTTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTT
* *
1876888 CAAAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCG
66 CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
* *
1876929 AGACAACACAAGTTCAACTTCACAGCGAAGGGACAACTGGTTGTCAACAAACAATTT-CCAAGTT
1 AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAA-TT
* * * *
1876993 CCATAGCCAATTTCAACTTCACGGCGGAGGATATTGGACTCA
65 TCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
1877035 GAACAATACA
Statistics
Matches: 193, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 3 0.02
106 190 0.98
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (106 bp):
AGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCCAATTT
CAAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCA
Found at i:1877536 original size:65 final size:64
Alignment explanation
Indices: 1877348--1877536 Score: 218
Period size: 65 Copynumber: 2.9 Consensus size: 64
1877338 CCCTTGAAAC
* * * *
1877348 ACAAAATATTTGAATAAGTTCCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAA
1 ACAAAATCTTTGAAT-CGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAA
* * * ** * *
1877413 ACATAAA-CATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCTCTTGA
1 ACA-AAATCTTTG-AATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGA
1877477 A
64 A
* *
1877478 ACAAAATCTTTGAATCTGTTTCCCTTGAAACAAATTTCGTCTCCCTTGAGAAATTTTCT
1 ACAAAATCTTTGAATC-GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCT
1877537 GTTGGAACTA
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
64 6 0.06
65 90 0.89
66 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (64 bp):
ACAAAATCTTTGAATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCTCTTGAA
Found at i:1877732 original size:33 final size:34
Alignment explanation
Indices: 1877692--1877773 Score: 130
Period size: 36 Copynumber: 2.4 Consensus size: 34
1877682 TTTGAATACA
*
1877692 GTTTCTCTTGAAACAC-AAAAAACCTTTGAAATT
1 GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
1877725 GTTTCTCTTGAAACACAAAAAAAAACCTTTGAAAAT
1 GTTTCTCTTGAAACAC--AAAAAAACCTTTGAAAAT
1877761 GTTTCTCTTGAAA
1 GTTTCTCTTGAAA
1877774 TACCAAACCC
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 16 0.36
36 29 0.64
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (34 bp):
GTTTCTCTTGAAACACAAAAAAACCTTTGAAAAT
Found at i:1878919 original size:24 final size:25
Alignment explanation
Indices: 1878874--1878922 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1878864 ATTTTATGCA
* *
1878874 TTTTCATTTTTACTTTAGTATATAT
1 TTTTAATTTTTACATTAGTATATAT
*
1878899 TTTTAATTTTTAGATTA-TATATAT
1 TTTTAATTTTTACATTAGTATATAT
1878923 ATATATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (25 bp):
TTTTAATTTTTACATTAGTATATAT
Found at i:1879063 original size:48 final size:48
Alignment explanation
Indices: 1879011--1879156 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 48
1879001 TATATATATA
*
1879011 TATATATATTTTTACTTTTTTAT-TATTATTTTATTTATTTGTTTTATT
1 TATATATATTTTTACTTTTTTATCT-TTATTTTATTTATTTGTTTTACT
* *
1879059 TATATATATTTTTTCTTCTTTT-TCTTTATTTT-TTATATTTATTTTACT
1 TATATATATTTTTACTT-TTTTATCTTTATTTTATT-TATTTGTTTTACT
* * *
1879107 TACTATTTTATCTTTACTTTTTTTATCTTATCTTTTATTTAATTTGTTTT
1 TA-TA-TATATTTTTAC-TTTTTTATCTT-TATTTTATTT-ATTTGTTTT
1879157 TTCTTCATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 15
0.78 0.08 0.15
Matches are distributed among these distances:
47 2 0.03
48 37 0.46
49 7 0.09
50 12 0.15
51 6 0.08
52 6 0.08
53 10 0.12
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.72
Consensus pattern (48 bp):
TATATATATTTTTACTTTTTTATCTTTATTTTATTTATTTGTTTTACT
Found at i:1880669 original size:2 final size:2
Alignment explanation
Indices: 1880662--1880697 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1880652 TGTTTAACCG
1880662 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
1880698 AAAGCATCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1894543 original size:118 final size:118
Alignment explanation
Indices: 1894335--1894566 Score: 437
Period size: 118 Copynumber: 2.0 Consensus size: 118
1894325 TTATTCTATA
*
1894335 AAATAGGAATTTAATTTAAAATAAATAATATAAAGAGGGGTATTATTATAATTATTTCTAAATAT
1 AAATAGGAATTTAATTTAAAATAAATAATATAAAGAGGGGTATTATTATAATTATCTCTAAATAT
1894400 ATAAGGTATAATTATATTAGTTTTCAGTGTTGCTCTCAAACTAGTGTTGAGGG
66 ATAAGGTATAATTATATTAGTTTTCAGTGTTGCTCTCAAACTAGTGTTGAGGG
*
1894453 AAATAGGGATTTAATTTAAAATAAATAATATAAAGAGGGGTATTATTATAATTATCTCTAAATAT
1 AAATAGGAATTTAATTTAAAATAAATAATATAAAGAGGGGTATTATTATAATTATCTCTAAATAT
*
1894518 ATAAGGTATAATTATATTAGTTTTCAGTGTTGCTCTCAACCTAGTGTTG
66 ATAAGGTATAATTATATTAGTTTTCAGTGTTGCTCTCAAACTAGTGTTG
1894567 GAGGTAGCCT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 111 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (118 bp):
AAATAGGAATTTAATTTAAAATAAATAATATAAAGAGGGGTATTATTATAATTATCTCTAAATAT
ATAAGGTATAATTATATTAGTTTTCAGTGTTGCTCTCAAACTAGTGTTGAGGG
Found at i:1895409 original size:13 final size:13
Alignment explanation
Indices: 1895355--1895403 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
1895345 TGCGTCATAA
*
1895355 ATTTATGACGCGT
1 ATTTATGACGCGC
* *
1895368 ATTTATGACACAC
1 ATTTATGACGCGC
1895381 ATTTATGACGCGC
1 ATTTATGACGCGC
1895394 ATTTATGACG
1 ATTTATGACG
1895404 TTCATTGAGC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:1904286 original size:18 final size:18
Alignment explanation
Indices: 1904241--1904309 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
1904231 GTTCTTAAAG
*
1904241 AGTGGTCCTTCGGGATAT
1 AGTGGTCCTTCGGGACAT
** *
1904259 AGTGAACCTTCGGGACAC
1 AGTGGTCCTTCGGGACAT
* *
1904277 AGTGGTCCTTCAGGACGT
1 AGTGGTCCTTCGGGACAT
*
1904295 AGTGGTCCTACGGGA
1 AGTGGTCCTTCGGGA
1904310 TAAATTATAT
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1904309 original size:36 final size:36
Alignment explanation
Indices: 1904241--1904309 Score: 84
Period size: 36 Copynumber: 1.9 Consensus size: 36
1904231 GTTCTTAAAG
* * *
1904241 AGTGGTCCTTCGGGATATAGTGAACCTTCGGGACAC
1 AGTGGTCCTTCAGGACATAGTGAACCTACGGGACAC
* **
1904277 AGTGGTCCTTCAGGACGTAGTGGTCCTACGGGA
1 AGTGGTCCTTCAGGACATAGTGAACCTACGGGA
1904310 TAAATTATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (36 bp):
AGTGGTCCTTCAGGACATAGTGAACCTACGGGACAC
Found at i:1907457 original size:20 final size:20
Alignment explanation
Indices: 1907432--1907469 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1907422 TACATGTTAA
*
1907432 AGAATGCATCGATGCACTGT
1 AGAATGCACCGATGCACTGT
*
1907452 AGAATGTACCGATGCACT
1 AGAATGCACCGATGCACT
1907470 TTAATGGGAA
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:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCACCGATGCACTGT
Found at i:1908425 original size:64 final size:64
Alignment explanation
Indices: 1908356--1908512 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
1908346 TTGAAGGTGT
**
1908356 ATCGATGCACAGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAACATCGAATGCA-ATTAGT
1 ATCGATGCACAGGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-T
1908418 GC
63 GC
* * * *
1908420 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAAACATTGAATGCATTTTATGC
1 ATCGATGCA-CAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
* * *
1908484 ACCGATACACAAGTAGTGCATCGATGCAT
1 ATCGATGCACAGGTAGTGCATCGATGCAT
1908513 ACCTTCATTC
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 63 0.82
65 11 0.14
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.27
Consensus pattern (64 bp):
ATCGATGCACAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGC
Found at i:1908928 original size:29 final size:29
Alignment explanation
Indices: 1908889--1908998 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
1908879 TATGTGATAT
1908889 GAGAACATGACATGAGCTACATGATCACAA
1 GAGAA-ATGACATGAGCTACATGATCACAA
1908919 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1908948 GAGAAATGACATGAACTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
1908977 GAGAAATGACATAAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
1908999 GCATATAAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.09
29 65 0.84
30 5 0.06
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.17
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:1909101 original size:15 final size:15
Alignment explanation
Indices: 1909083--1909116 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1909073 GAGGGTACAA
1909083 TAGTCATTCGGGATG
1 TAGTCATTCGGGATG
*
1909098 TAGTCCTTCGGGATG
1 TAGTCATTCGGGATG
1909113 TAGT
1 TAGT
1909117 GGTCCTACGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.15, G:0.32, T:0.35
Consensus pattern (15 bp):
TAGTCATTCGGGATG
Found at i:1910617 original size:18 final size:18
Alignment explanation
Indices: 1910588--1910656 Score: 84
Period size: 18 Copynumber: 3.8 Consensus size: 18
1910578 GTTCTTAAGG
* *
1910588 AGTGGTCATTCGGGATAT
1 AGTGGTCCTTCGGGACAT
* *
1910606 AGTGGACCTTCGGGACAC
1 AGTGGTCCTTCGGGACAT
*
1910624 AGTGGTCCTTCGGGACGT
1 AGTGGTCCTTCGGGACAT
*
1910642 AGTGGTCCTACGGGA
1 AGTGGTCCTTCGGGA
1910657 TAACTTCTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1910636 original size:36 final size:36
Alignment explanation
Indices: 1910588--1910656 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
1910578 GTTCTTAAGG
* *
1910588 AGTGGTCATTCGGGATATAGTGGACCTTCGGGACAC
1 AGTGGTCATTCGGGACATAGTGGACCTACGGGACAC
* * *
1910624 AGTGGTCCTTCGGGACGTAGTGGTCCTACGGGA
1 AGTGGTCATTCGGGACATAGTGGACCTACGGGA
1910657 TAACTTCTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (36 bp):
AGTGGTCATTCGGGACATAGTGGACCTACGGGACAC
Found at i:1911797 original size:9 final size:9
Alignment explanation
Indices: 1911783--1911881 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
1911773 GCTGCTGGAA
1911783 ACCGGTTTG
1 ACCGGTTTG
*
1911792 ACCGGTTTTCA
1 ACCGG-TTT-G
1911803 ACCGGTTCTG
1 ACCGGTT-TG
1911813 ACCGGTTTG
1 ACCGGTTTG
*
1911822 ACCGGTTTTA
1 ACCGG-TTTG
*
1911832 ACCGGTTCG
1 ACCGGTTTG
1911841 AACCGGTTTG
1 -ACCGGTTTG
*
1911851 ACCGGTCTG
1 ACCGGTTTG
*
1911860 AATCGGTTTG
1 -ACCGGTTTG
*
1911870 ACCGGTCTG
1 ACCGGTTTG
1911879 ACC
1 ACC
1911882 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 32 0.44
10 35 0.48
11 6 0.08
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1911827 original size:19 final size:19
Alignment explanation
Indices: 1911783--1911881 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
1911773 GCTGCTGGAA
* *
1911783 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
1911803 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
1911822 ACCGGTTTTAACCGGTTC-G
1 ACCGG-TTTGACCGGTTCTG
1911841 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
1911860 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
1911879 ACC
1 ACC
1911882 CGACCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.06
19 41 0.59
20 15 0.22
21 9 0.13
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:1911845 original size:29 final size:31
Alignment explanation
Indices: 1911782--1911856 Score: 129
Period size: 29 Copynumber: 2.5 Consensus size: 31
1911772 GGCTGCTGGA
1911782 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1911813 -ACCGGTTTGACCGGTTTT-AACCGGTTC-G
1 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1911841 AACCGGTTTGACCGGT
1 AACCGGTTTGACCGGT
1911857 CTGAATCGGT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
28 1 0.02
29 24 0.56
30 18 0.42
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (31 bp):
AACCGGTTTGACCGGTTTTCAACCGGTTCTG
Found at i:1911866 original size:29 final size:28
Alignment explanation
Indices: 1911783--1911881 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 28
1911773 GCTGCTGGAA
1911783 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
*
1911813 ACCGGTTTGACCGGTTTTAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* * * *
1911841 AACCGGTTTGACCGGTCTGAATCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCG
*
1911870 ACCGGTCTGACC
1 ACCGGTTTGACC
1911882 CGACCCGACC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 12 0.19
29 36 0.58
30 14 0.23
ACGTcount: A:0.15, C:0.26, G:0.28, T:0.30
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:1911904 original size:22 final size:22
Alignment explanation
Indices: 1911878--1911920 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1911868 TGACCGGTCT
1911878 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1911900 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1911921 GTTGACCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1911922 original size:7 final size:7
Alignment explanation
Indices: 1911910--1911953 Score: 81
Period size: 7 Copynumber: 6.4 Consensus size: 7
1911900 GACCCGACCC
1911910 GACCGTT
1 GACCGTT
1911917 GACCGTT
1 GACCGTT
1911924 GACCGTT
1 GACCGTT
1911931 GACCGTT
1 GACCGTT
1911938 GA-CGTT
1 GACCGTT
1911944 GACCGTT
1 GACCGTT
1911951 GAC
1 GAC
1911954 TTTCTTTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.17
7 30 0.83
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:1919147 original size:9 final size:9
Alignment explanation
Indices: 1919133--1919231 Score: 90
Period size: 10 Copynumber: 10.3 Consensus size: 9
1919123 GCTACTGGAA
1919133 ACCGGTTTG
1 ACCGGTTTG
*
1919142 ACCGGTTTTCA
1 ACCGG-TTT-G
1919153 ACCGGTTCTG
1 ACCGGTT-TG
1919163 ACCGGTTTG
1 ACCGGTTTG
*
1919172 ACCGGTTTCA
1 ACCGGTTT-G
*
1919182 ACCGGTTCG
1 ACCGGTTTG
1919191 AACCGGTTTG
1 -ACCGGTTTG
*
1919201 ACCGGTCTG
1 ACCGGTTTG
*
1919210 AATCGGTTTG
1 -ACCGGTTTG
*
1919220 ACCGGTCTG
1 ACCGGTTTG
1919229 ACC
1 ACC
1919232 CGACCCGACC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.47
11 6 0.08
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:1919177 original size:19 final size:19
Alignment explanation
Indices: 1919133--1919231 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
1919123 GCTACTGGAA
* *
1919133 ACCGGTTTGACCGGTTTTCA
1 ACCGGTTTGACCGGTTCT-G
1919153 ACCGGTTCTGACCGGTT-TG
1 ACCGGTT-TGACCGGTTCTG
*
1919172 ACCGGTTTCAACCGGTTC-G
1 ACCGGTTT-GACCGGTTCTG
1919191 AACCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
*
1919210 AATCGGTTTGACCGG-TCTG
1 -ACCGGTTTGACCGGTTCTG
1919229 ACC
1 ACC
1919232 CGACCCGACC
Statistics
Matches: 69, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.07
19 39 0.57
20 16 0.23
21 9 0.13
ACGTcount: A:0.15, C:0.27, G:0.28, T:0.29
Consensus pattern (19 bp):
ACCGGTTTGACCGGTTCTG
Found at i:1919195 original size:29 final size:30
Alignment explanation
Indices: 1919132--1919231 Score: 127
Period size: 29 Copynumber: 3.4 Consensus size: 30
1919122 GGCTACTGGA
1919132 AACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 AACCGGTTTGACCGG-TTTCAACCGGTTCTG
1919163 -ACCGGTTTGACCGGTTTCAACCGGTTC-G
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
* * *
1919191 AACCGGTTTGACCGGTCTGAATCGGTT-TG
1 AACCGGTTTGACCGGTTTCAACCGGTTCTG
*
1919220 -ACCGGTCTGACC
1 AACCGGTTTGACC
1919232 CGACCCGACC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
28 12 0.19
29 37 0.59
30 14 0.22
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (30 bp):
AACCGGTTTGACCGGTTTCAACCGGTTCTG
Found at i:1919238 original size:5 final size:5
Alignment explanation
Indices: 1919228--1919285 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
1919218 TGACCGGTCT
* *
1919228 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
1919277 GACCC GACC
1 GACCC GACC
1919286 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:1919254 original size:22 final size:22
Alignment explanation
Indices: 1919228--1919292 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
1919218 TGACCGGTCT
1919228 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1919250 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1919272 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1919293 GTTGACGTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1919294 original size:7 final size:7
Alignment explanation
Indices: 1919282--1919311 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
1919272 GACCCGACCC
1919282 GACCGTT
1 GACCGTT
1919289 GACCGTT
1 GACCGTT
1919296 GA-CGTT
1 GACCGTT
1919302 GACCGTT
1 GACCGTT
1919309 GAC
1 GAC
1919312 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:1919303 original size:13 final size:13
Alignment explanation
Indices: 1919285--1919311 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1919275 CCGACCCGAC
1919285 CGTTGACCGTTGA
1 CGTTGACCGTTGA
1919298 CGTTGACCGTTGA
1 CGTTGACCGTTGA
1919311 C
1 C
1919312 TTTCTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.30
Consensus pattern (13 bp):
CGTTGACCGTTGA
Found at i:1920264 original size:32 final size:31
Alignment explanation
Indices: 1920180--1920256 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
1920170 CTAATGTGAC
* *
1920180 TCTTAGGTAGGCTCTGCGGCCCTGAGATTAT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
** *
1920211 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGGCCCTAAGAT-TAT
1920243 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
1920257 CACGGCCCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGGCCCTAAGATTAT
Found at i:1920282 original size:63 final size:63
Alignment explanation
Indices: 1920180--1920303 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
1920170 CTAATGTGAC
* ** * *
1920180 TCTTAGGTAGGCTCTGCGGCCCTGAGATTATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
1920243 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTTGGGTAGGCTCTCAGGCCCTAAGATGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAAT-TATTCTCGGGTAGGCCCTCAGGCCCTAAGATGT
1920304 TCCCTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.94
64 2 0.04
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATTATTCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:1923531 original size:23 final size:23
Alignment explanation
Indices: 1923434--1923535 Score: 96
Period size: 23 Copynumber: 4.4 Consensus size: 23
1923424 GAGTCGAGGG
* *
1923434 TTCTACGCGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGAGACAT
*
1923457 TTATACGTGGTCCTTCGAGACAT
1 TTCTACGTGGTCCTTCGAGACAT
* * *
1923480 TTCTACGCGGTCCTTTGAGACAA
1 TTCTACGTGGTCCTTCGAGACAT
* * * * *
1923503 TACTATGTGGTCCTTTGGGATAT
1 TTCTACGTGGTCCTTCGAGACAT
*
1923526 TTCTATGTGG
1 TTCTACGTGG
1923536 CACTTCTGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.36
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGAGACAT
Found at i:1923669 original size:6 final size:6
Alignment explanation
Indices: 1923658--1923697 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
1923648 TAATGAACTG
* * *
1923658 TGATAA TGATAA TGATAG TGACAA TGATAA TGATGA TGAT
1 TGATAA TGATAA TGATAA TGATAA TGATAA TGATAA TGAT
1923698 GCCGATGAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (6 bp):
TGATAA
Found at i:1923683 original size:18 final size:18
Alignment explanation
Indices: 1923657--1923691 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1923647 ATAATGAACT
*
1923657 GTGATAATGATAATGATA
1 GTGACAATGATAATGATA
1923675 GTGACAATGATAATGAT
1 GTGACAATGATAATGAT
1923692 GATGATGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (18 bp):
GTGACAATGATAATGATA
Found at i:1926236 original size:16 final size:17
Alignment explanation
Indices: 1926186--1926237 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
1926176 TAAAAAAATA
1926186 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
1926203 GA-TT-AAA-TTAAGAGT
1 AATTTGAAAGTT-AGAGT
1926218 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
1926234 AATT
1 AATT
1926238 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 11 0.38
17 5 0.17
18 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:1931363 original size:52 final size:52
Alignment explanation
Indices: 1931285--1931383 Score: 189
Period size: 52 Copynumber: 1.9 Consensus size: 52
1931275 TTTGGTAAGG
*
1931285 TGGAAATATGGGTAAGTAAAATGGGTGTATTGGCAGTTTGGAAAAGAGTTTA
1 TGGAAATATGGGCAAGTAAAATGGGTGTATTGGCAGTTTGGAAAAGAGTTTA
1931337 TGGAAATATGGGCAAGTAAAATGGGTGTATTGGCAGTTTGGAAAAGA
1 TGGAAATATGGGCAAGTAAAATGGGTGTATTGGCAGTTTGGAAAAGA
1931384 AAACTCTTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.35, C:0.03, G:0.33, T:0.28
Consensus pattern (52 bp):
TGGAAATATGGGCAAGTAAAATGGGTGTATTGGCAGTTTGGAAAAGAGTTTA
Found at i:1933192 original size:19 final size:17
Alignment explanation
Indices: 1933160--1933194 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
1933150 TTGCAAATGC
1933160 ATGTTTAAACTGTGTTA
1 ATGTTTAAACTGTGTTA
1933177 ATGTATTAATACTGTGTT
1 ATGT-TTAA-ACTGTGTT
1933195 TACAATGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (17 bp):
ATGTTTAAACTGTGTTA
Found at i:1933950 original size:12 final size:14
Alignment explanation
Indices: 1933918--1933946 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1933908 TTAAGCAAAC
1933918 ATAATTTTTTATTT
1 ATAATTTTTTATTT
1933932 ATAATTTTTTATTT
1 ATAATTTTTTATTT
1933946 A
1 A
1933947 ATTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATAATTTTTTATTT
Found at i:1933977 original size:13 final size:13
Alignment explanation
Indices: 1933961--1933985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1933951 AAAAAACGAA
1933961 CATAAATTAATGT
1 CATAAATTAATGT
1933974 CATAAATTAATG
1 CATAAATTAATG
1933986 ATTTAATAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
CATAAATTAATGT
Found at i:1938755 original size:23 final size:23
Alignment explanation
Indices: 1938715--1938770 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
1938705 TATCTCTTGT
* *
1938715 TTTTAGGAATAATGTTTTCGTTA
1 TTTTAGGGATAATGTTTTCATTA
* *
1938738 TTTTAGGGATCATTTTTTCATTA
1 TTTTAGGGATAATGTTTTCATTA
1938761 TTTTAGGGAT
1 TTTTAGGGAT
1938771 TTTGAAGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.54
Consensus pattern (23 bp):
TTTTAGGGATAATGTTTTCATTA
Found at i:1952656 original size:43 final size:43
Alignment explanation
Indices: 1952608--1952727 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
1952598 GCTAAAGTTT
* * * * *
1952608 GCGGCGTTTTTCCCATAAATGCCGCAATAGGTGTTGATATTTA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGATCTTGAGATTTA
*
1952651 GCGGCGTTTTTTCCACAAACGCCGCAATAGATCTTGAGATTTA
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGATCTTGAGATTTA
* * * *
1952694 GCAGCGTTTTTCCCACAAACACTGCAAAAGATCT
1 GCGGCGTTTTTCCCACAAACGCCGCAATAGATCT
1952728 GGTAAACGCC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 66 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (43 bp):
GCGGCGTTTTTCCCACAAACGCCGCAATAGATCTTGAGATTTA
Found at i:1954706 original size:15 final size:15
Alignment explanation
Indices: 1954688--1954717 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1954678 CCACGGTGCT
*
1954688 CCCGGAATCCTGCGC
1 CCCGAAATCCTGCGC
1954703 CCCGAAATCCTGCGC
1 CCCGAAATCCTGCGC
1954718 GATTGTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (15 bp):
CCCGAAATCCTGCGC
Found at i:1961614 original size:24 final size:20
Alignment explanation
Indices: 1961587--1961644 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
1961577 GCATAAGGAG
*
1961587 TGCATCGATGCACATGTTAAGGGA
1 TGCATCGATGCAC-TG-T-A-GAA
*
1961611 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
1961631 TGCATCGATGCACT
1 TGCATCGATGCACT
1961645 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
21 1 0.03
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:1963248 original size:23 final size:22
Alignment explanation
Indices: 1963171--1963248 Score: 75
Period size: 23 Copynumber: 3.4 Consensus size: 22
1963161 TCCTTAGGGA
**
1963171 CATTTTATATGGCACTTCGGTG
1 CATTTTACGTGGCACTTCGGTG
* * *
1963193 TAGTTCTACGCGGCACTTCGGTG
1 CA-TTTTACGTGGCACTTCGGTG
*
1963216 CAATTTTACGTGGCACTTAGGTG
1 C-ATTTTACGTGGCACTTCGGTG
1963239 CATTTATACG
1 CATTT-TACG
1963249 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
22 5 0.11
23 38 0.86
24 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (22 bp):
CATTTTACGTGGCACTTCGGTG
Found at i:1965597 original size:21 final size:21
Alignment explanation
Indices: 1965571--1965612 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1965561 CCAGAATGGG
*
1965571 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1965592 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1965613 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1965746 original size:19 final size:19
Alignment explanation
Indices: 1965722--1965784 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
1965712 CTCGGGGTAT
*
1965722 TGTTCAAACAGTGATTTAC
1 TGTTCAAACAGTAATTTAC
* *
1965741 TGTTCAAATAGTAATTTTC
1 TGTTCAAACAGTAATTTAC
* *
1965760 TGTTCAAATAGTAAATTAC
1 TGTTCAAACAGTAATTTAC
*
1965779 TATTCA
1 TGTTCA
1965785 TAAAAACATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
TGTTCAAACAGTAATTTAC
Found at i:1965884 original size:29 final size:31
Alignment explanation
Indices: 1965850--1965909 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1965840 AAATTTTGAA
*
1965850 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1965879 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1965910 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1967202 original size:19 final size:20
Alignment explanation
Indices: 1967159--1967206 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
1967149 TCTATATCCT
1967159 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTTCATTTTGG
* *
1967179 CTTTCAAAATTT-ATTTTTG
1 TTTTCAAAATTTCATTTTGG
1967198 TTTTCAAAA
1 TTTTCAAAA
1967207 GAAAATCGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.54
Consensus pattern (20 bp):
TTTTCAAAATTTCATTTTGG
Found at i:1968444 original size:21 final size:21
Alignment explanation
Indices: 1968418--1968459 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1968408 CCAGAATGGG
*
1968418 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
1968439 GGGAATCGATAGCCCTTCATA
1 GGGAATCGATACCCCTTCATA
1968460 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:1968593 original size:19 final size:19
Alignment explanation
Indices: 1968569--1968631 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
1968559 CTCGGGGTAT
*
1968569 TGTTCAAACAGTGATTTAC
1 TGTTCAAACAGTAATTTAC
* *
1968588 TGTTCAAATAGTAATTTTC
1 TGTTCAAACAGTAATTTAC
* *
1968607 TGTTCAAATAGTAAATTAC
1 TGTTCAAACAGTAATTTAC
*
1968626 TATTCA
1 TGTTCA
1968632 TAAAAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
TGTTCAAACAGTAATTTAC
Found at i:1968728 original size:29 final size:31
Alignment explanation
Indices: 1968696--1968755 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1968686 AAATTTTGAA
*
1968696 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1968725 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1968756 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:1976909 original size:2 final size:2
Alignment explanation
Indices: 1976902--1976936 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1976892 GATGCAGCTT
1976902 TA TA 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 TA TA T
1976937 TCATTAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1977570 original size:35 final size:35
Alignment explanation
Indices: 1977523--1977608 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 35
1977513 AAAACAGTCA
* * *
1977523 TCAATTTCATTCTAAATCCC-AATTTCCAAAGTAAT
1 TCAATTTAATTCTAAA-CCCTAAATTCCAAAATAAT
* * *
1977558 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
*
1977593 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
1977609 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 3 0.07
35 40 0.93
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCTAAATTCCAAAATAAT
Found at i:1977602 original size:21 final size:21
Alignment explanation
Indices: 1977577--1977619 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1977567 TTCTAAACCC
1977577 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1977598 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
1977619 T
1 T
1977620 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:1977778 original size:14 final size:16
Alignment explanation
Indices: 1977742--1977778 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1977732 TATTAATGTA
1977742 TGAATCATTTATATTTT
1 TGAAT-ATTTATATTTT
1977759 TGAATATTT-TATTTT
1 TGAATATTTATATTTT
1977774 T-AATA
1 TGAATA
1977779 AGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TGAATATTTATATTTT
Found at i:1984429 original size:3 final size:3
Alignment explanation
Indices: 1984421--1984533 Score: 199
Period size: 3 Copynumber: 37.7 Consensus size: 3
1984411 TTTTTATCCA
* *
1984421 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1984469 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1984517 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
1984534 AATATATATT
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 104 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:1985041 original size:16 final size:18
Alignment explanation
Indices: 1985020--1985053 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1985010 AAGAAGGAAG
1985020 ACAGAAA-AAAA-AAAAC
1 ACAGAAAGAAAAGAAAAC
1985036 ACAGAAAGAAAAGAAAAC
1 ACAGAAAGAAAAGAAAAC
1985054 TACTAAACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (18 bp):
ACAGAAAGAAAAGAAAAC
Found at i:1986652 original size:6 final size:7
Alignment explanation
Indices: 1986631--1986655 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1986621 TGTCTCTATT
1986631 AATTAAA
1 AATTAAA
1986638 AATTAAA
1 AATTAAA
1986645 AATTAAA
1 AATTAAA
1986652 AATT
1 AATT
1986656 TATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Done.