Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 29
Found at i:1462678 original size:37 final size:37
Alignment explanation
Indices: 1462628--1462741 Score: 158
Period size: 37 Copynumber: 3.1 Consensus size: 37
1462618 AAAGTCAAGT
*
1462628 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
1462665 CTTCACCAAAGAGTAGTGAAACAAA-CCATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* * * *
1462701 CTTCATCGAAGAGTAGTGAAGCATATCCTTTTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
1462738 CTTC
1 CTTC
1462742 TTGAAAGAGT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
36 30 0.45
37 37 0.55
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (37 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Found at i:1463188 original size:54 final size:54
Alignment explanation
Indices: 1463126--1463301 Score: 243
Period size: 54 Copynumber: 3.3 Consensus size: 54
1463116 GTAGTAAAGC
*
1463126 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * * *
1463180 AGAAGAAGATGTTCGAGTTTCATACTCTCTAGAGAAAGAGAGAGCGAACTCGT-
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
1463233 --AAGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
1463285 AG-AGAATATGTTCGAGT
1 AGAAGAAGATGTTCGAGT
1463302 CTTATACTCT
Statistics
Matches: 106, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
51 44 0.42
53 14 0.13
54 48 0.45
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:1463360 original size:55 final size:55
Alignment explanation
Indices: 1463293--1463553 Score: 305
Period size: 55 Copynumber: 4.7 Consensus size: 55
1463283 TAAGAGAATA
* * *
1463293 TGTTCGAGTCTTATACTCTCAGAAGGAATAGGGAGCAGACACGATTGTTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGAT
*
1463348 TGTTCGAGTCTTATACTCTCTAAAGAAATAGGGAGCATG-CACGATTATTGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCA-GACACGATTATTGAAGAT
* * * **
1463403 TGTTCGAGTCTCATACTCTCTGAAGCAATAGGGAGCAGACCCGATTACAGAAGAT
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGAT
* * * * *
1463458 TATTCGAGT-TCTAAACT-TCCTGAAAGAAAGAGGGAGC-GAACCCGTTTATTGAAGAT
1 TGTTCGAGTCT-TATACTCT-CTG-AAGAAATAGGGAGCAG-ACACGATTATTGAAGAT
* *
1463514 TGTTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGAC
1 TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGAC
1463554 TTATCATTTG
Statistics
Matches: 174, Mismatches: 23, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
54 3 0.02
55 126 0.72
56 44 0.25
57 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (55 bp):
TGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATTATTGAAGAT
Found at i:1463530 original size:111 final size:109
Alignment explanation
Indices: 1463129--1463553 Score: 372
Period size: 111 Copynumber: 3.9 Consensus size: 109
1463119 GTAAAGCAGA
* * * * * * **
1463129 AGAAGA-TGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCATAAGAAGAAGA-TGT
1 AGAAGATTGTTCGAGTTCTATACTTCCTAAAGAAAAAGGGAGCGAACCCGTTA-TTGAAGATTGT
* * * *
1463192 TCGAGT-TTCATACTCTCT-AGAGAAAGAGAGAGC-GAACTCG--TA-
65 TCGAGTCTT-ATACTCTCTGA-AGGAATAGGGAGCAG-ACACGATTAC
* * * * ** *
1463234 AGAAGA-TGTTCGAGTTCCATACTCCCTAAAGAAAAAGGGAGCGAACCTGTAAGAGAATA-TGTT
1 AGAAGATTGTTCGAGTTCTATACTTCCTAAAGAAAAAGGGAGCGAACCCGTTATTGAAGATTGTT
* **
1463297 CGAGTCTTATACTCTCAGAAGGAATAGGGAGCAGACACGATTGT
66 CGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTAC
* * * *
1463341 TGAAGATTGTTCGAG-TCTTATAC-TCTCTAAAGAAATAGGGAGC-ATGCACGATTATTGAAGAT
1 AGAAGATTGTTCGAGTTC-TATACTTC-CTAAAGAAAAAGGGAGCGA-ACCCG-TTATTGAAGAT
* * *
1463403 TGTTCGAGTCTCATACTCTCTGAAGCAATAGGGAGCAGACCCGATTAC
62 TGTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTAC
* * *
1463451 AGAAGATTATTCGAGTTCTAAACTTCCTGAAAGAAAGAGGGAGCGAACCCGTTTATTGAAGATTG
1 AGAAGATTGTTCGAGTTCTATACTTCCT-AAAGAAAAAGGGAGCGAACCCG-TTATTGAAGATTG
*
1463516 TTCGAGTCTTATACTCCCTGAAGGAATAGGGAGCAGAC
64 TTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGAC
1463554 TTATCATTTG
Statistics
Matches: 265, Mismatches: 39, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
104 36 0.14
105 52 0.20
106 1 0.00
107 9 0.03
108 30 0.11
109 6 0.02
110 61 0.23
111 69 0.26
112 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (109 bp):
AGAAGATTGTTCGAGTTCTATACTTCCTAAAGAAAAAGGGAGCGAACCCGTTATTGAAGATTGTT
CGAGTCTTATACTCTCTGAAGGAATAGGGAGCAGACACGATTAC
Found at i:1466364 original size:23 final size:23
Alignment explanation
Indices: 1466338--1466385 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1466328 ATAAAGTACA
*
1466338 ATAACATACTAGGTAGTGCTTAT
1 ATAACATAATAGGTAGTGCTTAT
** *
1466361 ATAATGTAATATGTAGTGCTTAT
1 ATAACATAATAGGTAGTGCTTAT
1466384 AT
1 AT
1466386 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (23 bp):
ATAACATAATAGGTAGTGCTTAT
Found at i:1466837 original size:23 final size:23
Alignment explanation
Indices: 1466811--1466873 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1466801 ATATAACCAC
1466811 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1466834 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1466857 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1466874 TTTTACCTAT
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:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1467253 original size:431 final size:432
Alignment explanation
Indices: 1466452--1467514 Score: 1996
Period size: 431 Copynumber: 2.5 Consensus size: 432
1466442 TATTACATTA
*
1466452 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
1466517 TTATGTTTCAATTTTTTGAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
*
1466582 TTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
*
1466647 -TA-A-TAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
196 CAACATTAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
*
1466709 TCTTAAAACTCACTCAAAAGATAACTTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
261 TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
1466774 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
326 TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
1466839 ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1466881 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1466946 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA-TTCA
66 TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
1467010 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
131 TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
1467075 CAACATTAA-ATATATCGTAACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
196 CAACATTAATATATATCGTAACGT-AAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
*
1467139 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
260 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACA
1467204 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
325 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
*
1467269 TATTACATTATATAAGCGTTACCTATTACATCATATTTTTACC
390 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1467312 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1467377 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1467442 ATTTGCAC-AAAAATTATTTGA-TTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
1467505 ACAACATTAA
195 ACAACATTAA
1467515 CCAAAGATAA
Statistics
Matches: 621, Mismatches: 7, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
428 68 0.11
429 124 0.20
430 15 0.02
431 341 0.55
432 62 0.10
433 11 0.02
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (432 bp):
TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA
CAACATTAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAA
TCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
TTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCT
ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:1467257 original size:21 final size:22
Alignment explanation
Indices: 1467232--1467304 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 22
1467222 ACACTTTACA
*
1467232 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
1467255 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
* * *
1467278 ATATAAGCGTTACCTATTACATC
1 ATATAAAC-ATACCTATTACATT
1467301 ATAT
1 ATAT
1467305 TTTTACCTAT
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:1467268 original size:23 final size:23
Alignment explanation
Indices: 1467242--1467304 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1467232 ATATAACCAC
1467242 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1467265 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGA
*
1467288 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1467305 TTTTACCTAT
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:1467776 original size:39 final size:39
Alignment explanation
Indices: 1467722--1467807 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
1467712 CAAGTTGTAG
*
1467722 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
1467761 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
1467800 ATTTTGAT
1 ATTTTGAT
1467808 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:1468087 original size:18 final size:18
Alignment explanation
Indices: 1468064--1468100 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1468054 CGAAATATAT
1468064 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1468082 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1468100 A
1 A
1468101 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:1468552 original size:28 final size:26
Alignment explanation
Indices: 1468520--1468581 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
1468510 GATAGATACT
*
1468520 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
1468548 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
1468571 TTACATTATAT
1 TTACAATATAT
1468582 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:1468559 original size:23 final size:23
Alignment explanation
Indices: 1468529--1468582 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
1468519 TTTACAATAT
* *
1468529 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
1468552 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
1468575 ATTATATA
1 ATTATATA
1468583 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:1471375 original size:183 final size:183
Alignment explanation
Indices: 1471067--1471875 Score: 1494
Period size: 183 Copynumber: 4.4 Consensus size: 183
1471057 CGACACATTT
* * * *
1471067 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1471132 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471197 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
1471250 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1471315 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471380 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
1471433 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1471498 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471563 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
1471615 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
*
1471680 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACAATTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471745 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * * * * *
1471798 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
**
1471863 ATTTTATTATAAT
66 ATTACATTATAAT
1471876 ATGTTGAAAG
Statistics
Matches: 612, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
182 181 0.30
183 431 0.70
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:1471767 original size:365 final size:366
Alignment explanation
Indices: 1471067--1471875 Score: 1521
Period size: 365 Copynumber: 2.2 Consensus size: 366
1471057 CGACACATTT
*
1471067 TAGGTTGTAGACATATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1471132 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471197 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
1471262 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
196 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
*
1471327 TTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
261 TTATGGGTTCCGATGTGTAAATGTCGACAATTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
1471392 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
326 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
1471433 TAGGTTGTAGACCTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
1471498 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
66 ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
1471563 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGAC
131 TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
1471627 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
196 CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
1471692 TTATGGGTTCCGATGTGTAAATGTCGACAATTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
261 TTATGGGTTCCGATGTGTAAATGTCGACAATTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
1471757 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
326 ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
* * *
1471798 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTGCAAATTTACCT
1 TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
**
1471863 ATTTTATTATAAT
66 ATTACATTATAAT
1471876 ATGTTGAAAG
Statistics
Matches: 430, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
365 265 0.62
366 165 0.38
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (366 bp):
TAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCT
ATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACAT
TTTTCTTCCAATATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGAC
CTATTCGCTCATACAACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAA
TTATGGGTTCCGATGTGTAAATGTCGACAATTTTTTAAATCGTATCGACACATTTTTCTTCCAAT
ATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATA
Found at i:1473343 original size:3 final size:3
Alignment explanation
Indices: 1473335--1473409 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
1473325 ACTTGTTTGG
* * * ** * *
1473335 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
1473383 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1473410 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1473352 original size:12 final size:12
Alignment explanation
Indices: 1473339--1473421 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
1473329 GTTTGGATCA
*
1473339 TCATCTTCATCA
1 TCATCTTCATCG
* * *
1473351 TCATCATCGTCA
1 TCATCTTCATCG
1473363 TCATCTTCATCG
1 TCATCTTCATCG
* *
1473375 CCAGCTTCATCG
1 TCATCTTCATCG
*
1473387 TCATCATCATCG
1 TCATCTTCATCG
1473399 TCATCTTCATCG
1 TCATCTTCATCG
*
1473411 TCAGCTTCATC
1 TCATCTTCATC
1473422 TTCTGCGACC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:1473383 original size:36 final size:36
Alignment explanation
Indices: 1473343--1473421 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
1473333 GGATCATCAT
*
1473343 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
1473379 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
1473415 CTTCATC
1 CTTCATC
1473422 TTCTGCGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:1473422 original size:18 final size:18
Alignment explanation
Indices: 1473363--1473424 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
1473353 ATCATCGTCA
*
1473363 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
1473381 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
1473399 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
1473417 TCATCTTC
1 TCATCTTC
1473425 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:1473424 original size:6 final size:6
Alignment explanation
Indices: 1473339--1473424 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
1473329 GTTTGGATCA
* * * * * * * *
1473339 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
1473387 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
1473425 TGCGACCGCT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:1475767 original size:198 final size:197
Alignment explanation
Indices: 1474881--1475957 Score: 1968
Period size: 196 Copynumber: 5.5 Consensus size: 197
1474871 TTTAAATTAG
1474881 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1474946 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1475011 CGACACTTTTTATATACGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
1475074 TAG
195 AAA
1475077 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1475142 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1475207 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
1475270 TAG
195 AAA
1475273 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1475338 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATAATTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1475403 CGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
1475466 AA
196 AA
1475468 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1475533 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1475598 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
1475663 AAA
195 AAA
1475666 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1475731 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTAGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1475796 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTTCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
1475861 AAA
195 AAA
1475864 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1475929 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
1475958 CCTTTTGGCC
Statistics
Matches: 864, Mismatches: 11, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
193 1 0.00
194 44 0.05
195 144 0.17
196 332 0.38
197 47 0.05
198 296 0.34
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AA
Found at i:1476137 original size:19 final size:19
Alignment explanation
Indices: 1476106--1476154 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1476096 TTATATTCAC
1476106 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
1476125 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1476144 ATACAAAATTA
1 ATACAAAATTA
1476155 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1477981 original size:33 final size:33
Alignment explanation
Indices: 1477944--1478009 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1477934 CATCTTAATA
*
1477944 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1477977 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1478010 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1478083 original size:21 final size:21
Alignment explanation
Indices: 1478043--1478107 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1478033 CCCCTTATGC
* *
1478043 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
1478064 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
1478085 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
1478106 CT
1 CT
1478108 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:1480336 original size:17 final size:18
Alignment explanation
Indices: 1480314--1480356 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1480304 ATATATCCGG
1480314 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1480331 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1480351 TATCAT
1 TATCAT
1480357 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1480374 original size:20 final size:19
Alignment explanation
Indices: 1480319--1480365 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1480309 TCCGGTATCA
1480319 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1480338 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1480359 TTTTACC
1 TTTTACC
1480366 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1480513 original size:20 final size:20
Alignment explanation
Indices: 1480487--1480532 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1480477 CACTTTTAAA
1480487 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1480506 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1480527 TTTACC
1 TTTACC
1480533 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:1483289 original size:6 final size:6
Alignment explanation
Indices: 1483280--1483307 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1483270 TACATATACA
1483280 TATGTG TATGTG TATGTG TATGTG TATG
1 TATGTG TATGTG TATGTG TATGTG TATG
1483308 CGTGTGCGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:1483315 original size:6 final size:6
Alignment explanation
Indices: 1483306--1483343 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
1483296 TGTATGTGTA
1483306 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TG
1 TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TGCGTG TG
1483344 TGTATGTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
TGCGTG
Found at i:1483526 original size:2 final size:2
Alignment explanation
Indices: 1483519--1483562 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1483509 TCCAAGCATC
1483519 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
1483561 TA
1 TA
1483563 GTGAATCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1483669 original size:19 final size:19
Alignment explanation
Indices: 1483645--1483683 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1483635 AGATGATGAG
*
1483645 AAGTATTTATTACATACCA
1 AAGTATTTATTACACACCA
1483664 AAGTATTTATTACACACCA
1 AAGTATTTATTACACACCA
1483683 A
1 A
1483684 CAACATCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (19 bp):
AAGTATTTATTACACACCA
Found at i:1488695 original size:251 final size:248
Alignment explanation
Indices: 1488239--1488766 Score: 657
Period size: 251 Copynumber: 2.1 Consensus size: 248
1488229 ATCACAGTTG
* * *
1488239 TTATTTTAAAGCAAATCAAATGTAGTTGT-CTGGGTGGTGCAGTTGGTTATCATACTGGTCTAAA
1 TTATTTTGAAGCAAATCAAATGAAGTTGTCCTGGGTGGTGCAGTTGGTTATCATACTAGTCTAAA
* * * * * *
1488303 ACACTCGAGGTCTCTGGTCCAAATCCAGACCTAGACATTTATTTATGGATAAACTACATGTTTAA
66 ACACTAGAGGTCCCCGGTCCAAACCCAGACCTAAACATTTATTTATGAATAAACTACATGTTTAA
1488368 TATTTAAATTATTACTTTTGTTCCGTTTTGATACTTAAATTTTATTTTCAACATTGATCACTAAA
131 TATTTAAATTATTACTTTTGTTCCGTTTTGATACTTAAATTTTATTTTCAACATTGATCACTAAA
* * *
1488433 GTCGACTTGTGTCTAGTTCAATATATATCTAGGTAGTGAACAAATATTGTATAAATT
196 GTCGACTTGTGTCTAGTTC-A-ATAT-CCCA-ATAGTGAACAAATATTGTATAAATT
* * * * * *
1488490 TTATTTTGAAGCAAATCAAATGCAGTTGTCCT-GGTGTTGTAGTTGGTTATCATGCTAGTCTCAC
1 TTATTTTGAAGCAAATCAAATGAAGTTGTCCTGGGTGGTGCAGTTGGTTATCATACTAGTCTAAA
*** * * *
1488554 ACACTAGAGGTCCCCCGGTTTGAACCCGGGCCTAAACATTT-TTTATGAATAAACTATATGTTTA
66 ACACTAGAGGT-CCCCGGTCCAAACCCAGACCTAAACATTTATTTATGAATAAACTACATGTTTA
* ** * * * * *
1488618 ATATTTGAATTATTTTTTTTGTTCTGTTTTGATACTTAGATTTTATTTTCAATATTGGTCACTGA
130 ATATTTAAATTATTACTTTTGTTCCGTTTTGATACTTAAATTTTATTTTCAACATTGATCACTAA
* * * **
1488683 AGTTGTCTTGTGTCTAGTTCAATATCCCAATAGTGAATAAATATTGTATAGTTT
195 AGTCGACTTGTGTCTAGTTCAATATCCCAATAGTGAACAAATATTGTATAAATT
1488737 TTATTTTGAAGCAAATCAAATGAAGTTGTC
1 TTATTTTGAAGCAAATCAAATGAAGTTGTC
1488767 TTGTGTCTAG
Statistics
Matches: 238, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
247 50 0.21
248 2 0.01
249 4 0.02
250 1 0.00
251 159 0.67
252 22 0.09
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (248 bp):
TTATTTTGAAGCAAATCAAATGAAGTTGTCCTGGGTGGTGCAGTTGGTTATCATACTAGTCTAAA
ACACTAGAGGTCCCCGGTCCAAACCCAGACCTAAACATTTATTTATGAATAAACTACATGTTTAA
TATTTAAATTATTACTTTTGTTCCGTTTTGATACTTAAATTTTATTTTCAACATTGATCACTAAA
GTCGACTTGTGTCTAGTTCAATATCCCAATAGTGAACAAATATTGTATAAATT
Found at i:1491901 original size:3 final size:3
Alignment explanation
Indices: 1491737--1491884 Score: 278
Period size: 3 Copynumber: 49.3 Consensus size: 3
1491727 ACGTAGTAGA
*
1491737 ATT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1491785 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1491833 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1491881 ATT A
1 ATT A
1491885 CTACTACTAC
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 141 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1497031 original size:6 final size:6
Alignment explanation
Indices: 1497020--1497047 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
1497010 CTTAATTACA
1497020 AAAATT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAA
1497048 AAACTGATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:1497198 original size:10 final size:11
Alignment explanation
Indices: 1497144--1497211 Score: 54
Period size: 10 Copynumber: 6.5 Consensus size: 11
1497134 ATTAAAAGCG
1497144 AAAA-GAAATA
1 AAAATGAAATA
1497154 AAAATGAAAT-
1 AAAATGAAATA
* * *
1497164 GAAATTAGATA
1 AAAATGAAATA
* *
1497175 AATATTAAAATA
1 AA-AATGAAATA
1497187 AAAATG-AAT-
1 AAAATGAAATA
1497196 AAAATGAAATA
1 AAAATGAAATA
1497207 AAAAT
1 AAAAT
1497212 ATAAAATTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
9 6 0.14
10 17 0.39
11 13 0.30
12 8 0.18
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (11 bp):
AAAATGAAATA
Found at i:1497217 original size:33 final size:33
Alignment explanation
Indices: 1497149--1497218 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
1497139 AAGCGAAAAG
* * * *
1497149 AAATAAAAATGAAATGAAATTAGATAAATATTA
1 AAATAAAAATGAAATAAAATGAAATAAAAATTA
1497182 AAATAAAAATG-AATAAAATGAAATAAAAATATA
1 AAATAAAAATGAAATAAAATGAAATAAAAAT-TA
1497215 AAAT
1 AAAT
1497219 TTTAAAAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (33 bp):
AAATAAAAATGAAATAAAATGAAATAAAAATTA
Found at i:1498258 original size:25 final size:25
Alignment explanation
Indices: 1498240--1498291 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
1498230 AATAAGAAAT
1498240 TAAAAA-AATAATAGTAATAAATAA
1 TAAAAATAATAATAGTAATAAATAA
* *
1498264 TAAAAATAATAATAATAAAAAAATAA
1 TAAAAATAATAATAGT-AATAAATAA
1498290 TA
1 TA
1498292 TTATTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 8 0.33
26 10 0.42
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (25 bp):
TAAAAATAATAATAGTAATAAATAA
Found at i:1498259 original size:39 final size:39
Alignment explanation
Indices: 1498204--1498291 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
1498194 ACTGGACCTG
* *
1498204 AAAAAAA-AA-AGAAATAAA-ATTAAATGAATAAGAA-ATT
1 AAAAAAATAATAGAAATAAATAATAAA--AATAAGAATAAT
* *
1498241 AAAAAAATAATAGTAATAAATAATAAAAATAATAATAAT
1 AAAAAAATAATAGAAATAAATAATAAAAATAAGAATAAT
1498280 AAAAAAATAATA
1 AAAAAAATAATA
1498292 TTATTTAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
37 7 0.16
38 9 0.21
39 22 0.51
40 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (39 bp):
AAAAAAATAATAGAAATAAATAATAAAAATAAGAATAAT
Found at i:1498261 original size:22 final size:22
Alignment explanation
Indices: 1498216--1498282 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
1498206 AAAAAAAAGA
* *
1498216 AATAAAATTAAATGAATAAGAAATT
1 AATAAAAAT-AAT-AATAATAAA-T
*
1498241 AA-AAAAATAATAGTAATAAAT
1 AATAAAAATAATAATAATAAAT
1498262 AATAAAAATAATAATAATAAA
1 AATAAAAATAATAATAATAAA
1498283 AAAATAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.08
22 24 0.65
23 3 0.08
24 5 0.14
25 2 0.05
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (22 bp):
AATAAAAATAATAATAATAAAT
Found at i:1498302 original size:22 final size:19
Alignment explanation
Indices: 1498240--1498292 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 19
1498230 AATAAGAAAT
1498240 TAAAAAAATAATAGTAATAAA
1 TAAAAAAATAATA-T-ATAAA
1498261 TAATAAAAATAATA-AT-AA
1 TAA-AAAAATAATATATAAA
1498279 TAAAAAAATAATAT
1 TAAAAAAATAATAT
1498293 TATTTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.33
18 5 0.17
19 2 0.07
21 3 0.10
22 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAAAATAATATATAAA
Found at i:1498432 original size:2 final size:2
Alignment explanation
Indices: 1498421--1498462 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1498411 TTTTCAAAAT
1498421 TA TA -A 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
1498462 T
1 T
1498463 TTTCAAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1498432 original size:36 final size:34
Alignment explanation
Indices: 1498315--1498541 Score: 191
Period size: 36 Copynumber: 6.6 Consensus size: 34
1498305 TATATATATA
* * * * *
1498315 TATATTATATTTATTTTCCAAAATGTTTTTAAAAT
1 TATA-TATATATATTTTCAAAAATATTTTCAAAAC
*
1498350 TATATATTATATATTTT-TAAAATATTTTCAAAAAC
1 TATATA-TATATATTTTCAAAAATATTTTC-AAAAC
*
1498385 TATATATTATATATTTTCAAAAATAATTTTCAAAAT
1 TATATA-TATATATTTTCAAAAAT-ATTTTCAAAAC
* * * * *
1498421 TATA-ATATATA-TAT-ATATATA-TAT-ATATA-
1 TATATATATATATTTTCAAAAATATTTTCA-AAAC
1498450 TATATATATATATTTTCAAAAATCATTTTCAAAAC
1 TATATATATATATTTTCAAAAAT-ATTTTCAAAAC
*
1498485 CATATAATATATATTTTCAAAAATAATTTTCAAAAC
1 TATAT-ATATATATTTTCAAAAAT-ATTTTCAAAAC
*
1498521 TATATA-ATATACTTTCAAAAA
1 TATATATATATATTTTCAAAAA
1498542 CCGATTTAAA
Statistics
Matches: 158, Mismatches: 21, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
29 5 0.03
30 11 0.07
31 3 0.02
32 8 0.05
33 3 0.02
34 35 0.22
35 41 0.26
36 46 0.29
37 6 0.04
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (34 bp):
TATATATATATATTTTCAAAAATATTTTCAAAAC
Found at i:1498490 original size:100 final size:100
Alignment explanation
Indices: 1498350--1498531 Score: 289
Period size: 100 Copynumber: 1.8 Consensus size: 100
1498340 TTTTTAAAAT
* * *
1498350 TATATATTATATATTTTTAAAATATTTTCAAAAACTATATATTATATATTTTCAAAAATAATTTT
1 TATATATTATATATTTTAAAAATATTTTCAAAAACCATATAATATATATTTTCAAAAATAATTTT
1498415 CAAAA-T-TATAATATATATATATATATATATATA
66 CAAAACTATATAATATATATATATATATATATATA
1498448 TATATATATATATATTTTCAAAAATCATTTTC-AAAACCATATAATATATATTTTCAAAAATAAT
1 TATATAT-TATATATTTT-AAAAAT-ATTTTCAAAAACCATATAATATATATTTTCAAAAATAAT
1498512 TTTCAAAACTATATAATATA
63 TTTCAAAACTATATAATATA
1498532 CTTTCAAAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
98 7 0.09
99 10 0.13
100 43 0.57
101 7 0.09
102 9 0.12
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (100 bp):
TATATATTATATATTTTAAAAATATTTTCAAAAACCATATAATATATATTTTCAAAAATAATTTT
CAAAACTATATAATATATATATATATATATATATA
Found at i:1498562 original size:100 final size:99
Alignment explanation
Indices: 1498358--1498571 Score: 220
Period size: 100 Copynumber: 2.1 Consensus size: 99
1498348 ATTATATATT
* * * *
1498358 ATATATTTTTAAAATATTTTCAAAAACTATATATTATATATTTTCAAAAATAATTTTCAAAATTA
1 ATATATTTTAAAAATATTTTCAAAAACCATATAATATATATTTTCAAAAATAATTTTCAAAACTA
* * * * * * *
1498423 TAATATATATATATATATATATATATATATATAT
66 TAATATATATATATAAAAACAGATATATAAAAAA
1498457 ATATATTTTCAAAAATCATTTTC-AAAACCATATAATATATATTTTCAAAAATAATTTTCAAAAC
1 ATATATTTT-AAAAAT-ATTTTCAAAAACCATATAATATATATTTTCAAAAATAATTTTCAAAAC
* * *
1498521 TAT-ATA-ATATACTTTCAAAAACCGATTTA-AAAAAA
64 TATAATATATATA-TAT-AAAAACAGATATATAAAAAA
1498556 ACTATATATTTAAAAA
1 A-TATAT-TTTAAAAA
1498572 AAAAAAAATC
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
98 5 0.05
99 18 0.19
100 63 0.66
101 9 0.09
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (99 bp):
ATATATTTTAAAAATATTTTCAAAAACCATATAATATATATTTTCAAAAATAATTTTCAAAACTA
TAATATATATATATAAAAACAGATATATAAAAAA
Found at i:1500404 original size:37 final size:36
Alignment explanation
Indices: 1500287--1500562 Score: 181
Period size: 35 Copynumber: 7.8 Consensus size: 36
1500277 TAAAAATATA
* * *
1500287 TATATAATATATGGTTTTGAAAAAATGTTTGAAAACATT
1 TATATAATATATAGTTTT-TAAAAATTTTTGAAAAC--T
* *
1500326 TATATATTATATAATTTTTAAAACA-TTTTGAAAA-T
1 TATATAATATATAGTTTTTAAAA-ATTTTTGAAAACT
* *
1500361 AAATATAATATATAGTTTTTAAAATGTTTTTGAAAACT
1 -TATATAATATATAGTTTTTAAAA-ATTTTTGAAAACT
* * *
1500399 TATATAATACATAGTTTTGAAAACA--TTT--ATAC-
1 TATATAATATATAGTTTTTAAAA-ATTTTTGAAAACT
* *
1500431 -AT-T-ATATA-A-TTTTTAAAAACATTTT-AAAAAT
1 TATATAATATATAGTTTTTAAAAA-TTTTTGAAAACT
1500462 ATATATAATATATAGTTTTTAAAACATTTTTGAAAA--
1 -TATATAATATATAGTTTTTAAAA-ATTTTTGAAAACT
* * *
1500498 TATATAATATATAATTTTTAAAACATTTTT-TAAATT
1 TATATAATATATAGTTTTTAAAA-ATTTTTGAAAACT
*
1500534 TATATATTATAT-GTTTTTAAAATATTTTT
1 TATATAATATATAGTTTTTAAAA-ATTTTT
1500563 ATAGAATATT
Statistics
Matches: 192, Mismatches: 26, Indels: 42
0.74 0.10 0.16
Matches are distributed among these distances:
26 1 0.01
27 8 0.04
28 1 0.01
29 7 0.04
30 3 0.02
31 2 0.01
33 5 0.03
34 4 0.02
35 53 0.28
36 32 0.17
37 42 0.22
38 18 0.09
39 16 0.08
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAAATTTTTGAAAACT
Found at i:1500418 original size:100 final size:99
Alignment explanation
Indices: 1500314--1500525 Score: 327
Period size: 101 Copynumber: 2.1 Consensus size: 99
1500304 TGAAAAAATG
* *
1500314 TTTGAAAACATTTATATATTATATAATTTTT-AAAACATTTTGAAAATAAATATAATATATAGTT
1 TTTGAAAACATTTATACATTATATAATTTTTAAAAACATTTTAAAAATAAATATAATATATAGTT
** *
1500378 TTTAAAATGTTTTTGAAAACTTATATAATACATAGT
66 TTTAAAACATTTTTGAAAA--TATATAATACATAAT
*
1500414 TTTGAAAACATTTATACATTATATAATTTTTAAAAACATTTTAAAAATATATATAATATATAGTT
1 TTTGAAAACATTTATACATTATATAATTTTTAAAAACATTTTAAAAATAAATATAATATATAGTT
*
1500479 TTTAAAACATTTTTGAAAATATATAATATATAAT
66 TTTAAAACATTTTTGAAAATATATAATACATAAT
*
1500513 TTTTAAAACATTT
1 TTTGAAAACATTT
1500526 TTTAAATTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
99 25 0.24
100 30 0.29
101 48 0.47
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (99 bp):
TTTGAAAACATTTATACATTATATAATTTTTAAAAACATTTTAAAAATAAATATAATATATAGTT
TTTAAAACATTTTTGAAAATATATAATACATAAT
Found at i:1500443 original size:27 final size:26
Alignment explanation
Indices: 1500387--1500454 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
1500377 TTTTAAAATG
1500387 TTTTTGAAAAC-TTATATAATACAT-A
1 TTTTTGAAAACATT-TATAATACATAA
* *
1500412 GTTTTGAAAACATTTATACATTATATAA
1 TTTTTGAAAACATTTATA-A-TACATAA
*
1500440 TTTTTAAAAACATTT
1 TTTTTGAAAACATTT
1500455 TAAAAATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.40
26 3 0.09
27 4 0.11
28 14 0.40
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (26 bp):
TTTTTGAAAACATTTATAATACATAA
Found at i:1500585 original size:34 final size:34
Alignment explanation
Indices: 1500439--1500586 Score: 124
Period size: 35 Copynumber: 4.2 Consensus size: 34
1500429 ACATTATATA
* *
1500439 ATTTTTAAAAACA-TTTTAAAAATATATATAATATAT
1 ATTTTT-AAAACATTTTTATAAATATATAT-TTAT-T
* *
1500475 AGTTTTTAAAACATTTTTGA-AAATATATAATATATA
1 A-TTTTTAAAACATTTTT-ATAAATATAT-ATTTATT
*
1500511 ATTTTTAAAACATTTTT-TAAATTTATATATTATAT
1 ATTTTTAAAACATTTTTATAAATATATAT-TTAT-T
* *
1500546 GTTTTTAAAATATTTTTATAGAATAT-TATTTATT
1 ATTTTTAAAACATTTTTATA-AATATATATTTATT
1500580 ATTTTTA
1 ATTTTTA
1500587 TTATTTTTTT
Statistics
Matches: 95, Mismatches: 8, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
33 2 0.02
34 17 0.18
35 35 0.37
36 13 0.14
37 25 0.26
38 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (34 bp):
ATTTTTAAAACATTTTTATAAATATATATTTATT
Found at i:1500606 original size:13 final size:13
Alignment explanation
Indices: 1500571--1500608 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
1500561 TTATAGAATA
*
1500571 TTATTTATTATTT
1 TTATTTATTTTTT
1500584 TTA-TTATTTTTT
1 TTATTTATTTTTT
*
1500596 TTATTTCTTTTTT
1 TTATTTATTTTTT
1500609 ATTCGGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTATTTATTTTTT
Found at i:1501860 original size:2 final size:2
Alignment explanation
Indices: 1501853--1501923 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
1501843 TATTCATGTG
1501853 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
1501895 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 T
1501924 TCCTTTTTTA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1505546 original size:95 final size:94
Alignment explanation
Indices: 1505378--1505621 Score: 305
Period size: 95 Copynumber: 2.7 Consensus size: 94
1505368 TATAATATTA
** * *
1505378 TATATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTAGTTAAACGCCCCGGCTTTATGGA
* *
1505443 TAATATTCAGCTAGCCTGATAAAGGTAAT
66 TAAGATTCAGCTAACCTGATAAAGGTAAT
*
1505472 TATACTATACAATAAAGTTTGAACTGTCCCTCTA-AGGCAATTAGTTAAACGCCCCGGCTTTATG
1 TATA-TATACAATAAAGCTTGAACTGTCCCTCTAGA-GCAATTAGTTAAACGCCCCGGCTTTATG
*
1505536 GATAAGATTCAGCTAACCTGATAAAGGTGAT
64 GATAAGATTCAGCTAACCTGATAAAGGTAAT
*
1505567 TAT-T-T--AAT-AAG--T----TGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGGA
1 TATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTAGTTAAACGCCCCGGCTTTATGGA
1505621 T
66 T
1505622 CCAGCTAACC
Statistics
Matches: 138, Mismatches: 9, Indels: 17
0.84 0.05 0.10
Matches are distributed among these distances:
83 40 0.29
84 1 0.01
87 1 0.01
89 3 0.02
90 3 0.02
92 1 0.01
93 1 0.01
94 5 0.04
95 83 0.60
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (94 bp):
TATATATACAATAAAGCTTGAACTGTCCCTCTAGAGCAATTAGTTAAACGCCCCGGCTTTATGGA
TAAGATTCAGCTAACCTGATAAAGGTAAT
Found at i:1507038 original size:165 final size:164
Alignment explanation
Indices: 1506744--1508555 Score: 1583
Period size: 165 Copynumber: 10.9 Consensus size: 164
1506734 TAAACAAACT
* * * * *
1506744 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGATCCGCGAGTTCGAT-TACACTC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAAGACCCTCGAGTTCGATCTACACTC
* * ***
1506808 AGCTTCGAGGGTACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGAC
66 AGCTTCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-GTGACCAAAGAC
* *
1506873 CTTCGAGTTCGACTACGCTCAGATCCAAGGTACATC
129 CTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
1506909 ATTTGAATCATAGCTTAAGTCGAGAAGGGCTATCTGTCGAAGACCCTCGAGTTCGATC-ACACTC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAAGACCCTCGAGTTCGATCTACACTC
* * * * *
1506973 AGCTTTGAGAGAACATCATTTACAGCATAACTCAA-TGCTAGAAGGGTTATCTGTGACCAAAAGA
66 AGCTTCGAG-GCACATCATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATCTGTGACC-AAAGA
1507037 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
1507074 ATTT-ACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAATGACCTTCGAGTTCGA-CTA
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGTC-A--AA-GACCCTCGAGTTCGATCTA
* * * * * * * * *
1507137 CGCTTAACTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA--TATG-CCAAA
61 CACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAA
* * ** * *
1507199 GA-CTCACGAGTTCGAATATACTCAGCTTCGAGGGCACATC
126 GACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * * *
1507239 ATTTGCAGCATAACTTAAATCGAGAAGAGTTATTTGCCAACCAAAAACCTTTGAGTTCGA-CTAC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTG----TCAAAGACCCTCGAGTTCGATCTAC
* * * * * * * *
1507303 GCTCAGCTCCAAGGCACGTCATTTGCAACATAGCTTAAGTCGAGAAGGGATATC--TG-CTAAAG
62 ACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAG
* * * * * *
1507365 ACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * *
1507404 ATTT-ACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGA-CTA
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGT---C-AAAGACCCTCGAGTTCGATCTA
** * * * * * * **
1507467 TGCTCAGCTCCAAGGAATATCATTGGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAA
61 CACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAA
* * *
1507532 AGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGTATATC
125 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
1507572 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGA-TCTGCGAGTTCGAT-TACACT
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAAGACCCT-CGAGTTCGATCTACACT
* * ***
1507635 CAGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGA
65 CAGCTTCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-GTGACCAAAGA
*
1507700 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
1507737 ATTTGAATCATAGCTTAAGTCGAGAAGGGTTATCTG-CTAAAGACCCTTGAGTTCGAT-TACACT
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-AAAGACCCTCGAGTTCGATCTACACT
* * * * * *
1507800 CAGCTTCGAGGGAACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
65 CAGCTTCGA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACC-AAAGA
1507865 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
1507902 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAATGACCTTCGAGTTCGA-CTAC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-A--AA-GACCCTCGAGTTCGATCTAC
* * * * * * * * *
1507966 GCTCAACTCCAAGTCATATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTA--TATG-CCAAAT
62 ACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAG
* * * *
1508028 ACCCTCGAGTTCGACTATGCTCAGCTTCGAGGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
1508067 ATTT-ACAGCATAACTCAAGGCTAGAATGGTTATCTGTCACCAAAGACCTTCGAGTT-TAACTAC
1 ATTTGA-AGCATAACTTAAGTCGAGAAGGGTTATCTGT---CAAAGACCCTCGAGTTCGATCTAC
* * * * * * * **
1508130 GCTCAGCTCCAAGGTATATCATTTGAAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAA
62 ACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-TGACCAAA
* * *
1508195 GACCTTCGAGTTCGACTATGCTCATCTCCAAGGCACATA
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
1508234 ATTTGCAGCATACCTTAAGTCGAGAAGGGTTATCTGTCGAAGACCCTCGAGTTCGAT-TATACTC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAAGACCCTCGAGTTCGATCTACACTC
* * * * * *
1508298 AACTACGAGGGCACATAATTTACAGCATAACTCAAAG-CTAGAAGGGTTATCTGTGACCAAAAGA
66 AGCTTCGA-GGCACATCATTTGCAGCATAACT-TAAGTCGAGAAGGGTTATCTGTGACC-AAAGA
*
1508362 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATC
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * ** *
1508399 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACATTCGATTTCGA-CTAC
1 ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTG----TCAAAGACCCTCGAGTTCGATCTAC
* * * * * *** *
1508463 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGTGTTATCTACCAACCTAA
62 ACTCAGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-GTGACCAAA
*
1508528 GACCTTCGAGTTTGACTACGCTCAGCTC
126 GACCTTCGAGTTCGACTACGCTCAGCTC
1508556 AGAGGAAAAC
Statistics
Matches: 1353, Mismatches: 229, Indels: 127
0.79 0.13 0.07
Matches are distributed among these distances:
163 4 0.00
164 173 0.13
165 813 0.60
166 16 0.01
167 44 0.03
168 198 0.15
169 105 0.08
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (164 bp):
ATTTGAAGCATAACTTAAGTCGAGAAGGGTTATCTGTCAAAGACCCTCGAGTTCGATCTACACTC
AGCTTCGAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTGACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:1507297 original size:249 final size:244
Alignment explanation
Indices: 1506744--1508560 Score: 1796
Period size: 249 Copynumber: 7.3 Consensus size: 244
1506734 TAAACAAACT
* * * *
1506744 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-CCAAAGATCC-GCGAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGA-CCTTCGAGTTCGACTACGCT
* * * *
1506807 CAGCTTCGAGGGTACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGA
65 CAGC-TCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAAGA
* * * * *
1506872 CCTTCGAGTTCGACTACGCTCAGATCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGG
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* * * * * *** *
1506937 GCTATCTGTCGAAGACCCTCGAGTTCGA-TCACACTCAGCTTTGAGAGAACATC
193 GTTATCTGCCAAAGACCTTCGAGTTCGACT-ACGCTCAGCTCCAAG-GCACATC
* * *
1506990 ATTTACAGCATAACTCAA-TGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGT-CGAGAAGGGTTATC--TGACC-AAAGACCTTCGAGTTCGACTAC
* * *
1507054 GCTCAGCTCCAAGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAT
62 GCTCAGCTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCC-ACCAAA
* * * *
1507119 GACCTTCGAGTTCGACTACGCTTAACTCCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAA
126 GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * * * ** * *
1507184 GGGCTATATGCCAAAGA-CTCACGAGTTCGAATATACTCAGCTTCGAGGGCACATC
191 GGGTTATCTGCCAAAGACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * *
1507239 ATTTGCAGCATAACTTAAATCGAGAAGAGTTATTTGCCAACCAAAAACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACG
* * * * * * * *
1507304 CTCAGCTCCAAGGCACGTCATTTGCAACATAGCTTAAGTCGAGAAGGGATATCTG---CTAAAGA
63 CTCAGCTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGA
* * * * * * * * * * *
1507366 CCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCTAGAAG
128 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
* * *
1507431 GGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGAATATC
192 GGTTATC--TG-CC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * *
1507488 ATTGGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTACG
* * * * * *
1507553 CTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG---CCAAAGA
63 CTCAGCTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGA
* * * * * * *
1507615 TCTGCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAG
128 CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAG
* * *
1507680 AGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATC
192 GGTTATCT----GCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * *
1507737 ATTTGAATCATAGCTTAAGTCGAGAAGGGTTATCTG-CTAAAGACCCTT-GAGTTCGATTACACT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGA-CCTTCGAGTTCGACTACGCT
* * * * *
1507800 CAGCTTCGAGGGAACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGA
65 CAGC-TCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACC-AAAGA
1507865 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* * *
1507930 GTTATCTGCCAACCAATGACCTTCGAGTTCGACTACGCTCAACTCCAAGTCATATC
193 GTTATCTGCC-A--AA-GACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
1507986 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATG-CCAAATACCCTCGAGTTCGACTATGCTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
* * * * *
1508050 AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAATGGTTATCTGTCACCAAAGACC
66 AGC-TCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACC
** * * * *
1508115 TTCGAGTTTAACTACGCTCAGCTCCAAGGTATATCATTTGAAGCATAACTTAAGTCGAGAAAGGT
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* * *
1508180 TATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCATCTCCAAGGCACATA
195 TATCTG----CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * **
1508234 ATTTGCAGCATACCTTAAGTCGAGAAGGGTTATCTG-TCGAAGACCCTCGAGTTCGATTATACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
* * * * **
1508298 AACTACGAGGGCACATAATTTACAGCATAACTCAAAG-CTAGAAGGGTTATCTGTGACCAAAAGA
66 AGCT-CGAGGGCACATCATTTACAGCATAACT-TAAGTCGAGAAGGGTTATCTGCCACC-AAAGA
* *
1508362 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTAGCATAACTTAAGTCGAGAAGG
128 CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGG
* * *
1508427 GTTATCTGCCAACCAAAGACATTCGATTTCGACTACGCTCAGCTCCAAGGCATATC
193 GTTATCTG----CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
1508483 ATTTGCAGCATAACTTAAGTCGAGAAGTGTTATCT-ACCAACCTAAGACCTTCGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACC-A---AAGACCTTCGAGTTCGACTAC
1508547 GCTCAGCTCAGAGG
62 GCTCAGCTC-GAGG
1508561 AAAACCAAAT
Statistics
Matches: 1341, Mismatches: 183, Indels: 87
0.83 0.11 0.05
Matches are distributed among these distances:
245 50 0.04
246 111 0.08
247 4 0.00
248 220 0.16
249 843 0.63
250 80 0.06
251 3 0.00
252 3 0.00
253 27 0.02
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (244 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCTC
AGCTCGAGGGCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
ATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:1507518 original size:414 final size:414
Alignment explanation
Indices: 1506744--1508555 Score: 2412
Period size: 414 Copynumber: 4.4 Consensus size: 414
1506734 TAAACAAACT
* *
1506744 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGA-TCCGCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACT-CGCGAGTTCGACTACACTC
* * *
1506808 AGCTTCGAGGGTACATCATTTGCAACATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGAC
65 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGAC
*
1506873 CTTCGAGTTCGACTACGCTCAGATCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGG
* * * * *
1506938 CTATCTG-TCGAAGACCCTCGAGTTCGATCACACTCAGCTTTGAGAGAACATCATTTACAGCATA
195 TTATCTGCT-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATA
*
1507002 ACTCAATGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
259 ACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAG
*
1507067 GCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAATGACCTTCGAGTTC
324 GCACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTC
*
1507132 GACTACGCTTAACTCCAAGGCATATC
389 GACTACGCTCAACTCCAAGGCATATC
* * * * * *
1507158 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATATGCCAAAGACTCACGAGTTCGAATATACTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACTCGCGAGTTCGACTACACTCA
* * * *
1507223 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGAGTTATTTGCCAACCAAAAACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGACC
* * *
1507288 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACGTCATTTGCAA-CATAGCTTAAGTCGAGAAGGG
131 TTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTG-AATCATAGCTTAAGTCGAGAAGGG
* * * *
1507352 ATATCTGCTAAAGACCCTCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAA
195 TTATCTGCTAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATAA
*
1507417 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGG
260 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * ** *
1507482 AATATCATTGGCAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
325 CACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
* * *
1507547 ATTACGCTCAGCTCCAAGGTATATC
390 ACTACGCTCAACTCCAAGGCATATC
* *
1507572 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAAAGA-TCTGCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACTC-GCGAGTTCGACTACACTC
*
1507636 AGCTTCGAGGGTACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGAC
65 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGAC
1507701 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGG
*
1507766 TTATCTGCTAAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATAA
195 TTATCTGCTAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATAA
*
1507831 CTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
260 CTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* *
1507896 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAATGACCTTCGAGTTCG
325 CACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCG
*
1507961 ACTACGCTCAACTCCAAGTCATATC
390 ACTACGCTCAACTCCAAGGCATATC
* * * * * **
1507986 ATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATATGCCAAATACCCTCGAGTTCGACTATGCTCA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACTCGCGAGTTCGACTACACTCA
* * * * **
1508051 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAATG-GTTATCTGTC-ACCAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAA-GAGTTATCTACCAACCAAAGAC
** * * * *
1508114 CTTCGAGTTTAACTACGCTCAGCTCCAAGGTATATCATTTGAAGCATAACTTAAGTCGAGAAAGG
130 CTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGG
* * * ** * * * * * *
1508179 TTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCATC-TCCAAGGCACATAATTTGCAGC
195 TTATCTG----CTAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGC
* * * * * * * ** *
1508243 ATACCTTAAGTCGAGAAGGGTTATCTGT---C-GAAGACCCTCGAGTTCGATTATACTCAACTAC
256 ATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCT-C
* * * * * **
1508304 GAGGGCACATAATTTACAGCATAACTCAAAG-CTAGAAGGGTTATCTG-TGACCAAAAGACCTTC
320 CAAGGCACATCATTTACAGCATAACT-TAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTC
*
1508367 GAGTTCGACTACGCTCAGCTCCAAGGCATATC
383 GAGTTCGACTACGCTCAACTCCAAGGCATATC
* * *
1508399 ATTTGTAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACAT-TCGATTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG----CCAAAGAC-TCGCGAGTTCGACTAC
* * * * * *
1508463 GCTCAGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGTGTTATCTACCAACCTA
61 ACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAA
*
1508527 AGACCTTCGAGTTTGACTACGCTCAGCTC
126 AGACCTTCGAGTTCGACTACGCTCAGCTC
1508556 AGAGGAAAAC
Statistics
Matches: 1235, Mismatches: 142, Indels: 39
0.87 0.10 0.03
Matches are distributed among these distances:
412 27 0.02
413 190 0.15
414 848 0.69
415 7 0.01
416 81 0.07
417 82 0.07
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (414 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAAGACTCGCGAGTTCGACTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATCTACCAACCAAAGACC
TTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGAATCATAGCTTAAGTCGAGAAGGGT
TATCTGCTAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGAACATCATTTACAGCATAAC
TCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
ACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGA
CTACGCTCAACTCCAAGGCATATC
Found at i:1509283 original size:36 final size:35
Alignment explanation
Indices: 1509186--1509482 Score: 231
Period size: 37 Copynumber: 8.1 Consensus size: 35
1509176 TGCAAATTGT
* * *
1509186 TTTTGAATA-TATATATATAATATGGTTTTGAAAACA
1 TTTTGAAAATTATATA-AT-ATATAGTTTTTAAAACA
* *
1509222 TGTTTGAAAACATTTATATATTATATAATTTTTAAAACA
1 T-TTTG-AAA-A-TTATATAATATATAGTTTTTAAAACA
* *
1509261 TTTTGAAAATAAATATAATATATAGTTTTTAAAACGT
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAAC-A
* *
1509298 TTTTGAAAACTTATATAATACATAGTTTTGAAAACA
1 TTTTGAAAA-TTATATAATATATAGTTTTTAAAACA
* * *
1509334 TTTTTGAAAACATTTATATATTATAAAATTTTTAAAAACA
1 -TTTTG-AAA-A-TTATATAATATATAGTTTTT-AAAACA
* ****
1509374 TTTTAAAAATATATATAATATATAGTTTTTAATTTT
1 TTTTGAAAAT-TATATAATATATAGTTTTTAAAACA
*
1509410 TTTTGAAAA-TATATAATATATAATTTTTAAAACA
1 TTTTGAAAATTATATAATATATAGTTTTTAAAACA
* * * *
1509444 TTTTTTAAATTTATATATTATAT-GTTTTTAAAATA
1 -TTTTGAAAATTATATAATATATAGTTTTTAAAACA
1509479 TTTT
1 TTTT
1509483 TATAGTATAT
Statistics
Matches: 208, Mismatches: 38, Indels: 32
0.75 0.14 0.12
Matches are distributed among these distances:
34 24 0.12
35 18 0.09
36 45 0.22
37 59 0.28
38 13 0.06
39 36 0.17
40 7 0.03
41 6 0.03
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (35 bp):
TTTTGAAAATTATATAATATATAGTTTTTAAAACA
Found at i:1509283 original size:112 final size:109
Alignment explanation
Indices: 1509161--1509482 Score: 361
Period size: 112 Copynumber: 2.9 Consensus size: 109
1509151 ATATATATCT
* * *
1509161 ATATATTATATAGTTTGCAAATTGTTTTTGAATATATATATATAATATGGTTTTGAAAACATGTT
1 ATATAATATATAGTTT-TAAATTGTTTTTGAA-ATATATATATAATATAGTTTTGAAAACAT-TT
*
1509226 TGAAAACATTTATATATTATATAATTTTTAAAACATTTTGAAAATAA
63 TGAAAACATTTATATATTATATAATTTTTAAAACATTTTAAAAATAA
**
1509273 ATATAATATATAGTTTTTAAAACGTTTTTGAAA-ACT-TATATAATACATAGTTTTGAAAACATT
1 ATATAATATATAG-TTTTAAATTGTTTTTGAAATA-TATATATAAT--ATAGTTTTGAAAACA-T
* *
1509336 TTTGAAAACATTTATATATTATAAAATTTTTAAAAACATTTTAAAAATAT
61 TTTGAAAACATTTATATATTATATAATTTTT-AAAACATTTTAAAAATAA
* * * *
1509386 ATATAATATATAGTTTTTAATTTTTTTTGAAA-ATATATA-ATATATAATTTTTAAAACATTTT-
1 ATATAATATATAGTTTTAAATTGTTTTTGAAATATATATATA-ATATAGTTTTGAAAACATTTTG
** * *
1509448 TTAA-ATTTATATATTATAT-GTTTTTAAAATATTTT
65 AAAACATTTATATATTATATAATTTTTAAAACATTTT
1509483 TATAGTATAT
Statistics
Matches: 183, Mismatches: 19, Indels: 23
0.81 0.08 0.10
Matches are distributed among these distances:
105 9 0.05
106 5 0.03
107 14 0.08
108 2 0.01
109 4 0.02
110 22 0.12
111 4 0.02
112 90 0.49
113 33 0.18
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (109 bp):
ATATAATATATAGTTTTAAATTGTTTTTGAAATATATATATAATATAGTTTTGAAAACATTTTGA
AAACATTTATATATTATATAATTTTTAAAACATTTTAAAAATAA
Found at i:1509340 original size:12 final size:12
Alignment explanation
Indices: 1509323--1509348 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1509313 TAATACATAG
1509323 TTTTGAAAACAT
1 TTTTGAAAACAT
1509335 TTTTGAAAACAT
1 TTTTGAAAACAT
1509347 TT
1 TT
1509349 ATATATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTTTGAAAACAT
Found at i:1509386 original size:28 final size:28
Alignment explanation
Indices: 1509333--1509386 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
1509323 TTTTGAAAAC
* * *
1509333 ATTTTTGAAAACATTTATATATTATAAA
1 ATTTTTAAAAACATTTATAAAATATAAA
1509361 ATTTTTAAAAACATTT-TAAAAATATA
1 ATTTTTAAAAACATTTAT-AAAATATA
1509387 TATAATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 1 0.05
28 21 0.95
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (28 bp):
ATTTTTAAAAACATTTATAAAATATAAA
Found at i:1511051 original size:15 final size:15
Alignment explanation
Indices: 1511031--1511061 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1511021 CCGTGACACT
1511031 CATATCGATAATTAG
1 CATATCGATAATTAG
1511046 CATATCGATAATTAG
1 CATATCGATAATTAG
1511061 C
1 C
1511062 GAGAAGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (15 bp):
CATATCGATAATTAG
Found at i:1515937 original size:2 final size:2
Alignment explanation
Indices: 1515930--1515973 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
1515920 ATCTATGTTT
* *
1515930 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TT 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
1515972 TA
1 TA
1515974 GGGGGGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:1515951 original size:14 final size:14
Alignment explanation
Indices: 1515932--1515972 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
1515922 CTATGTTTTA
1515932 TATATATATATATT
1 TATATATATATATT
1515946 TATATATATATATT
1 TATATATATATATT
1515960 TATATATATATAT
1 TATATATATATAT
1515973 AGGGGGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATATATATATT
Found at i:1517888 original size:2 final size:2
Alignment explanation
Indices: 1517877--1517932 Score: 82
Period size: 2 Copynumber: 29.0 Consensus size: 2
1517867 AGTCTTACGG
1517877 AT AT -T AT AT AT AT A- AT AT -T AT AT GAT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
1517917 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
1517933 GTGGAAGATG
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.06
2 45 0.90
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1531224 original size:13 final size:13
Alignment explanation
Indices: 1531206--1531233 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1531196 TCTAGGTCAG
1531206 CGTTTGCAATTCA
1 CGTTTGCAATTCA
1531219 CGTTTGCAATTCA
1 CGTTTGCAATTCA
1531232 CG
1 CG
1531234 CCTTCTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (13 bp):
CGTTTGCAATTCA
Found at i:1532005 original size:15 final size:15
Alignment explanation
Indices: 1531985--1532015 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1531975 GTTAAAAGAA
1531985 TTGATTAATTTAATT
1 TTGATTAATTTAATT
*
1532000 TTGATTAATTTGATT
1 TTGATTAATTTAATT
1532015 T
1 T
1532016 AATTGAGGAT
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:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (15 bp):
TTGATTAATTTAATT
Found at i:1536706 original size:14 final size:15
Alignment explanation
Indices: 1536665--1536710 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
1536655 AATTACTGGA
1536665 ACTGGAAAATGAATT
1 ACTGGAAAATGAATT
**
1536680 ACTGGAATTTGAATT
1 ACTGGAAAATGAATT
1536695 -CTGGAAAATGAATT
1 ACTGGAAAATGAATT
1536709 AC
1 AC
1536711 ATTTCTGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (15 bp):
ACTGGAAAATGAATT
Found at i:1536736 original size:14 final size:15
Alignment explanation
Indices: 1536719--1536750 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1536709 ACATTTCTGG
1536719 AAAACATTTTCCG-A
1 AAAACATTTTCCGTA
1536733 AAAACATTTTCCGTA
1 AAAACATTTTCCGTA
1536748 AAA
1 AAA
1536751 TGAATTACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (15 bp):
AAAACATTTTCCGTA
Found at i:1536925 original size:22 final size:22
Alignment explanation
Indices: 1536900--1536966 Score: 53
Period size: 28 Copynumber: 2.8 Consensus size: 22
1536890 ATCATAAAAC
1536900 TTAATATTATTATTTTAAAATA
1 TTAATATTATTATTTTAAAATA
1536922 TTAAAATAATTTATTTATTATTAAAATA
1 TT--AAT-A-TTA-TTATT-TTAAAATA
* * *
1536950 TTATTTTTATAATTTTA
1 TTAATATTATTATTTTA
1536967 TTAATAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
22 5 0.14
23 4 0.11
24 6 0.17
25 1 0.03
26 5 0.14
27 5 0.14
28 10 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATATTATTATTTTAAAATA
Found at i:1537104 original size:23 final size:23
Alignment explanation
Indices: 1537055--1537117 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
1537045 GTGTTATATT
* **
1537055 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
* *
1537078 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATATTAATTAAA
1537101 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
1537118 AAATAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 21 0.66
24 1 0.03
25 10 0.31
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:1537145 original size:19 final size:20
Alignment explanation
Indices: 1537093--1537145 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
1537083 TTAAATATCT
1537093 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
1537112 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
1537133 TTATTAAATATAT
1 TTATTAAATATAT
1537146 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.25
20 9 0.32
21 6 0.21
22 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:1537250 original size:22 final size:21
Alignment explanation
Indices: 1537215--1537267 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
1537205 ATTGATTATT
1537215 TTATATATAATATTACAAATA
1 TTATATATAATATTACAAATA
* *
1537236 TTATATTATATTATTATAAATA
1 TTATA-TATAATATTACAAATA
1537258 TTA-ATA-AATA
1 TTATATATAATA
1537268 AATAAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 6 0.21
22 17 0.61
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTATATATAATATTACAAATA
Found at i:1542246 original size:116 final size:118
Alignment explanation
Indices: 1542035--1542266 Score: 326
Period size: 116 Copynumber: 1.9 Consensus size: 118
1542025 TAGAACTTTT
*
1542035 TATTTATTTATTTTATAATGCTAACTAACTTATCAGTTGGAACAAGATGAAAGCATGAGAGGAAA
1 TATTTATTTATTTTATAATGCTAACTAACTTATCAGTTGG----AGATGAAAACATGAGAGGAAA
* * * *
1542100 AGGGTAAACGCATTAACTTTAATGGATTAGAGGTTTCTATTGTTTTAACTCAATATA
62 AGGGTAAACGCATCAACTTTAATGGATTAGAGGTTTCAACTATTTTAACTCAATATA
*
1542157 TATTTATTTATTTTATAATGCTAACTAACTTATCAGTT-G-GATGAAAACATGAGAGGAAAGGGG
1 TATTTATTTATTTTATAATGCTAACTAACTTATCAGTTGGAGATGAAAACATGAGAGGAAAAGGG
* *
1542220 TAGACTC-TGCAACTTTAATGGATTAGAGGTTTCAACTATTTTAACTC
66 TAAACGCAT-CAACTTTAATGGATTAGAGGTTTCAACTATTTTAACTC
1542267 CATACGGATA
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
115 1 0.01
116 61 0.60
121 1 0.01
122 38 0.38
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (118 bp):
TATTTATTTATTTTATAATGCTAACTAACTTATCAGTTGGAGATGAAAACATGAGAGGAAAAGGG
TAAACGCATCAACTTTAATGGATTAGAGGTTTCAACTATTTTAACTCAATATA
Found at i:1545198 original size:24 final size:24
Alignment explanation
Indices: 1545106--1545214 Score: 71
Period size: 24 Copynumber: 4.5 Consensus size: 24
1545096 AAACGGAGAT
* *
1545106 ATCAGAAATCA-AAGTATAATTCAA
1 ATCAGAAATCAGAA-CAGAATTCAA
* * *
1545130 GTCA-AATATCATAACAGAA-TCGAG
1 ATCAGAA-ATCAGAACAGAATTC-AA
* * *
1545154 ATAAGAAATCAGAACATAATTCAT
1 ATCAGAAATCAGAACAGAATTCAA
* *
1545178 ATCAGAAATCAGAATAGAATTTAA
1 ATCAGAAATCAGAACAGAATTCAA
*
1545202 ATCGGAAATCAGA
1 ATCAGAAATCAGA
1545215 TAAAATATTC
Statistics
Matches: 65, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
23 4 0.06
24 55 0.85
25 6 0.09
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAA
Found at i:1556132 original size:106 final size:106
Alignment explanation
Indices: 1555947--1556156 Score: 303
Period size: 106 Copynumber: 2.0 Consensus size: 106
1555937 CCTTGTCAAA
* * * *
1555947 ACCAGTCCACCCTTCTCTCTCATTTGTTCTAACGACGAAAACTCATATCATAAAAGTTGTATTTG
1 ACCAGTCCACCCTTCTCTCTCATTTGTTCTAACAACGAAAACCCACATCATAAAAATTGTATTTG
* * *
1556012 GTGAAGGATTTTGCTTTTTTTTTTAATCAAAACCCATATCG
66 GTGAAGGACTTTGCTTGTGTTTTTAATCAAAACCCATATCG
* * *
1556053 ACCAGTCCACCCTTTTCTCTCATTTGTTCTAATAACGAAAACCCACGTCATAAAAATTGTATTTG
1 ACCAGTCCACCCTTCTCTCTCATTTGTTCTAACAACGAAAACCCACATCATAAAAATTGTATTTG
* * *
1556118 GTGAAGGGCTTTGCTTGTGTTTTTCATGAAAACCCATAT
66 GTGAAGGACTTTGCTTGTGTTTTTAATCAAAACCCATAT
1556157 TAGAAAAATT
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (106 bp):
ACCAGTCCACCCTTCTCTCTCATTTGTTCTAACAACGAAAACCCACATCATAAAAATTGTATTTG
GTGAAGGACTTTGCTTGTGTTTTTAATCAAAACCCATATCG
Found at i:1556247 original size:34 final size:34
Alignment explanation
Indices: 1556204--1556328 Score: 129
Period size: 34 Copynumber: 3.8 Consensus size: 34
1556194 TTCGTCCTAC
1556204 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
1556238 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1556273 GCTAGGATTC--A-----AAAAATAGGATAGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
1556302 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
1556329 CCACAAGCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 13 0.18
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:1556724 original size:18 final size:17
Alignment explanation
Indices: 1556685--1556727 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1556675 ATTATATGGA
1556685 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1556701 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
1556719 TATTATTAT
1 TATTATTAT
1556728 ATGTATATAT
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:1556987 original size:2 final size:2
Alignment explanation
Indices: 1556982--1557006 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1556972 CTTATAACTT
1556982 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
1557007 TTTTATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1559796 original size:8 final size:8
Alignment explanation
Indices: 1559776--1559821 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
1559766 ATGCCTCGAA
1559776 CATTTTATG
1 CATTTT-TG
*
1559785 CATTCTTG
1 CATTTTTG
1559793 CA-TTTTG
1 CATTTTTG
1559800 CATTTTTG
1 CATTTTTG
*
1559808 CCTTTTTG
1 CATTTTTG
1559816 CATTTT
1 CATTTT
1559822 CATCTACATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.19
8 21 0.66
9 5 0.16
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (8 bp):
CATTTTTG
Found at i:1559818 original size:23 final size:24
Alignment explanation
Indices: 1559776--1559821 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1559766 ATGCCTCGAA
1559776 CATTTTATGCATTCTTGCATTTTG
1 CATTTTATGCATTCTTGCATTTTG
* *
1559800 CATTTT-TGCCTTTTTGCATTTT
1 CATTTTATGCATTCTTGCATTTT
1559822 CATCTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.13, C:0.17, G:0.11, T:0.59
Consensus pattern (24 bp):
CATTTTATGCATTCTTGCATTTTG
Found at i:1560943 original size:9 final size:9
Alignment explanation
Indices: 1560917--1560989 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
1560907 AGATTCAATC
*
1560917 AGAATAAAA
1 AGAAAAAAA
**
1560926 AGAGCAAAA
1 AGAAAAAAA
1560935 AG-AAAAAA
1 AGAAAAAAA
1560943 AGAAGAAGCAAA
1 AGAA-AA--AAA
*
1560955 A-AAACAAA
1 AGAAAAAAA
1560963 AGCAAAAAAA
1 AG-AAAAAAA
*
1560973 AGAACAAAA
1 AGAAAAAAA
1560982 AGAAAAAA
1 AGAAAAAA
1560990 GAAAAAGGGA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
8 10 0.20
9 23 0.46
10 11 0.22
11 2 0.04
12 4 0.08
ACGTcount: A:0.78, C:0.07, G:0.14, T:0.01
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:1560955 original size:14 final size:13
Alignment explanation
Indices: 1560931--1560995 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
1560921 TAAAAAGAGC
1560931 AAAAAGAA--AAA
1 AAAAAGAAGCAAA
*
1560942 AAGAAGAAGCAAA
1 AAAAAGAAGCAAA
*
1560955 AAAACAAAAGCAAA
1 AAAA-AGAAGCAAA
1560969 AAAAAGAA-CAAA
1 AAAAAGAAGCAAA
*
1560981 AAGAAAAAAG-AAA
1 AA-AAAGAAGCAAA
1560994 AA
1 AA
1560996 GGGACAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 7 0.16
12 6 0.14
13 19 0.43
14 12 0.27
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAGCAAA
Found at i:1560955 original size:15 final size:14
Alignment explanation
Indices: 1560932--1560972 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1560922 AAAAAGAGCA
*
1560932 AAAAG-AAAAAAAG
1 AAAAGCAAAAAAAC
1560945 AAGAAGCAAAAAAAC
1 AA-AAGCAAAAAAAC
1560960 AAAAGCAAAAAAA
1 AAAAGCAAAAAAA
1560973 AGAACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 2 0.08
14 14 0.56
15 9 0.36
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAGCAAAAAAAC
Found at i:1561627 original size:22 final size:22
Alignment explanation
Indices: 1561599--1561649 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1561589 CCCCATCAAT
1561599 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
1561621 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
1561643 CCTTTGA
1 CCTTTGA
1561650 CCAAACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:1562640 original size:65 final size:66
Alignment explanation
Indices: 1562526--1562709 Score: 255
Period size: 66 Copynumber: 2.8 Consensus size: 66
1562516 CTCTCTTGAG
* *
1562526 ACAGTTTCCCTTGAAATAAAATTCCGTCTC-CATTGAGACAGTTTATCTTGAAACATAAACATTG
1 ACAGTTTCCCTTGAAAT-AAATTTCGTCTCTC-TTGAGACAGTTTCTCTTGAAACATAAACATTG
*
1562590 GAA
64 AAA
* *
1562593 ACA-TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACATTGAA
1 ACAGTTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
1562657 A
66 A
* * * *
1562658 ACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAA
1 ACAGTTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAA
1562710 TAAATTTTGT
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
65 45 0.43
66 56 0.54
67 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (66 bp):
ACAGTTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAA
A
Found at i:1562702 original size:102 final size:100
Alignment explanation
Indices: 1562596--1562850 Score: 325
Period size: 102 Copynumber: 2.5 Consensus size: 100
1562586 ATTGGAAACA
* *
1562596 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAGTTTCTCTTGAAACATAAACA-TTGAAAAC
1 TTTCCCTTGAAAT-AATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAACATTTGAAAA-
*
1562660 AG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
63 AGTTTTCT-TTGAAACAAATTTCGTCTACCTTGAGACAG
* * * *
1562698 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATG
1 TTTCCCTTGAAAT-AATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAACATTTGAAAAAG
* *
1562763 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGATAG
65 TTTTCTTTGAAACAAATTTCGTCTACCTTGAGACAG
** *
1562799 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
1 TTTCCCTT-GAAATAA-TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
1562851 TTTTCGTCTA
Statistics
Matches: 135, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
101 40 0.30
102 95 0.70
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (100 bp):
TTTCCCTTGAAATAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAACATTTGAAAAAGT
TTTCTTTGAAACAAATTTCGTCTACCTTGAGACAG
Found at i:1562707 original size:36 final size:36
Alignment explanation
Indices: 1562658--1562887 Score: 197
Period size: 36 Copynumber: 6.6 Consensus size: 36
1562648 AACATTGAAA
*
1562658 ACAGTTTCTCTTGAAACAAATTTCGTCTATCTTGAG
1 ACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
* * *
1562694 ACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAG
1 ACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
*
1562730 ACAGTTTCCCTTGAAACAAA------ATAT-TTGA-
1 ACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
* * * **
1562758 ATATGTTTTCTTTGAAACAAATTTCGTCTCCCTTGAG
1 ACA-GTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
* ** * * * *
1562795 ATAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG
1 ACAGTTTCCCTTGAAAC-AAATTTCGTCTATCTTGAG
* * *
1562832 ACAGTTTCTCTTGAAACAATTTTCGTCTATCTTAAG
1 ACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
*
1562868 ACAATTTCCCTTGAAACAAA
1 ACAGTTTCCCTTGAAACAAA
1562888 ATCTTTGAAT
Statistics
Matches: 155, Mismatches: 29, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.01
29 19 0.12
30 2 0.01
35 1 0.01
36 98 0.63
37 33 0.21
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
ACAGTTTCCCTTGAAACAAATTTCGTCTATCTTGAG
Found at i:1562870 original size:138 final size:137
Alignment explanation
Indices: 1562660--1562950 Score: 377
Period size: 138 Copynumber: 2.1 Consensus size: 137
1562650 CATTGAAAAC
*
1562660 AGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTC
1 AGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTATC
* * * * ** *
1562725 TTGAGACAGTTTCCCTTGAAACAAAATATTTGAATATGTTTTCTTTGAAACAAATTTCGTCTCCC
66 TTAAGACAATTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTCCC
1562790 TTGAGAT
131 TTGAGAT
* * * * * * *
1562797 AGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTA
1 AGTTTCTCTTGAAAC-AAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTT-GTCTA
* *
1562861 TCTTAAGACAATTTCCCTTGAAACAAAATCTTTGAATATATTTCCCCTAAAACAAATTTTGTCTC
64 TCTTAAGACAATTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTC
*
1562926 CCTTGAGAC
129 CCTTGAGAT
* *
1562935 AATTACTCTTGAAACA
1 AGTTTCTCTTGAAACA
1562951 CAAAATCTTC
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
137 20 0.15
138 110 0.85
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (137 bp):
AGTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTATC
TTAAGACAATTTCCCTTGAAACAAAATATTTGAATATATTTCCCCTAAAACAAATTTCGTCTCCC
TTGAGAT
Found at i:1562979 original size:67 final size:66
Alignment explanation
Indices: 1562866--1563002 Score: 186
Period size: 67 Copynumber: 2.1 Consensus size: 66
1562856 GTCTATCTTA
* **
1562866 AGACAATTTCCCTTGAAACAAAATCTTTGAATATATTTCCCCTAAAACA-AATTTTGTCTCCCTT
1 AGACAATTACCCTTGAAACAAAATCTTCAAATATATTTCCCCTAAAACATAATTTTGTCTCCCTT
1562930 G
66 G
* * * *
1562931 AGACAATTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTTTCCC
1 AGACAATTACCCTTG-AA-ACAAAATCTTCAAATATATTTCCCCTAAAACATAATTTTGTCTCCC
1562996 TTG
64 TTG
1562999 AGAC
1 AGAC
1563003 CGTTTCTCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
65 13 0.21
66 2 0.03
67 28 0.45
68 19 0.31
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (66 bp):
AGACAATTACCCTTGAAACAAAATCTTCAAATATATTTCCCCTAAAACATAATTTTGTCTCCCTT
G
Found at i:1563017 original size:68 final size:67
Alignment explanation
Indices: 1562883--1563018 Score: 182
Period size: 68 Copynumber: 2.0 Consensus size: 67
1562873 TTCCCTTGAA
** *
1562883 ACAAAATCTTTGAATATATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCTTGAA
1 ACAAAATCTTCAAATATATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCATGAA
1562948 AC
66 AC
* * * ** *
1562950 ACAAAATCTTCAAATTTATTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGA
1 ACAAAATCTTCAAATATATTTCCCCTAAAACA-AATTTTGTCTCCCTTGAGACAATTACTCATGA
1563015 AAC
65 AAC
1563018 A
1 A
1563019 ACAGATATCT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
67 28 0.47
68 31 0.53
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (67 bp):
ACAAAATCTTCAAATATATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTACTCATGAA
AC
Found at i:1563972 original size:98 final size:97
Alignment explanation
Indices: 1563654--1564071 Score: 379
Period size: 105 Copynumber: 4.0 Consensus size: 97
1563644 ATATCGTGGC
* * * *
1563654 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAACTTCTC
1 ACTCAAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCT-GCTGTCAAC--A-AA-----C
* *
1563719 AATTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
57 AATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1563760 ACTCCAGACAACGCAAGTTCAACTTCACGGCGAAGGGACCGCTGCTTGTCAACGATAACTTCTCA
1 ACTCAAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCTGC-TGTCAAC-A-AA-----CA
* *
1563825 ATTTCAGG-GCCAATTTCAACTTCACAGCGGAGGATATTGG
58 ATTTC-GGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
1563865 ACCCAAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAATTTCGG
1 ACTCAAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCTG-CTGTCAACAAACAATTTCGG
*
1563930 AGCCAATCTCAACTTCACAACGAAGGATATTGG
65 AGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
1563963 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCT-GCTGTCAACAAACAA--TTTC
* *
1564028 GGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
63 -G-----GAGCCAATTTCAACTTCACAACGAAGGATATTGG
1564069 ACT
1 ACT
1564072 TGGAACAATG
Statistics
Matches: 265, Mismatches: 34, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
97 2 0.01
98 86 0.32
99 1 0.00
100 4 0.02
101 1 0.00
103 2 0.01
104 1 0.00
105 88 0.33
106 80 0.30
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (97 bp):
ACTCAAGACAACACAAGTTCAACTTCACAGCGAAGGGACGGCTGCTGTCAACAAACAATTTCGGA
GCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:1564663 original size:34 final size:34
Alignment explanation
Indices: 1564620--1564744 Score: 120
Period size: 34 Copynumber: 3.8 Consensus size: 34
1564610 TTCGTCCTAC
1564620 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* *
1564654 TAGGATTCAAACTCCTAAAGATATGATAGAATTTT
1 TAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
*
1564689 GCTAGGATTC--A-----AAAAATAGGATTGAATTT
1 --TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
* * *
1564718 TATGATTTAAACTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
1564745 CCACAAGCAC
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
27 6 0.08
29 4 0.05
30 12 0.16
34 39 0.53
35 4 0.05
37 8 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (34 bp):
TAGGATTCAAACTCCTAAAAATAGGATAGAATTT
Found at i:1565140 original size:18 final size:17
Alignment explanation
Indices: 1565101--1565143 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1565091 ATTATATGGA
1565101 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
1565117 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
1565135 TATTATTAT
1 TATTATTAT
1565144 ATGTATATAT
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:1565211 original size:2 final size:2
Alignment explanation
Indices: 1565204--1565230 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1565194 ATTTTACTAT
1565204 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 T
1565231 TTCTTTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1566350 original size:22 final size:22
Alignment explanation
Indices: 1566320--1566362 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1566310 TAAAAAAATC
*
1566320 AAACTTTTAAAAATATAACAAT
1 AAACATTTAAAAATATAACAAT
1566342 AAACATTTAAAAATATAACAA
1 AAACATTTAAAAATATAACAA
1566363 AGAAAACGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (22 bp):
AAACATTTAAAAATATAACAAT
Found at i:1567500 original size:59 final size:61
Alignment explanation
Indices: 1567427--1567561 Score: 166
Period size: 59 Copynumber: 2.2 Consensus size: 61
1567417 AAAAAAAATA
* * * *
1567427 CATTTAGGACCTAATTTAGAGGAATCAAAATTGCAAGGCCTAATTACT-AGC-AAATTATG
1 CATTTAGGACCTAATTAAGAAGAATCAAAATTACAAGACCTAATTACTAAGCAAAATTATG
* * ** * *
1567486 CATTTAAGACCTAATTAAGAATAATCATGATTATAAGACCTAATTACTAATCAAAATTATG
1 CATTTAGGACCTAATTAAGAAGAATCAAAATTACAAGACCTAATTACTAAGCAAAATTATG
1567547 CATTTAGGACCTAAT
1 CATTTAGGACCTAAT
1567562 CATAAGATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 39 0.62
60 2 0.03
61 22 0.35
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (61 bp):
CATTTAGGACCTAATTAAGAAGAATCAAAATTACAAGACCTAATTACTAAGCAAAATTATG
Found at i:1567560 original size:32 final size:31
Alignment explanation
Indices: 1567465--1567561 Score: 103
Period size: 29 Copynumber: 3.2 Consensus size: 31
1567455 AATTGCAAGG
*
1567465 CCTAATTACT-AGCAAATTATGCATTTAAGA
1 CCTAATTACTAATCAAATTATGCATTTAAGA
** *
1567495 CCTAATTAAGAAT--AATCATG-ATTATAAGA
1 CCTAATTACTAATCAAATTATGCATT-TAAGA
*
1567524 CCTAATTACTAATCAAAATTATGCATTTAGGA
1 CCTAATTACTAATC-AAATTATGCATTTAAGA
1567556 CCTAAT
1 CCTAAT
1567562 CATAAGATTC
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
28 3 0.06
29 22 0.42
30 8 0.15
31 1 0.02
32 16 0.30
33 3 0.06
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.33
Consensus pattern (31 bp):
CCTAATTACTAATCAAATTATGCATTTAAGA
Found at i:1574617 original size:65 final size:65
Alignment explanation
Indices: 1574513--1574646 Score: 268
Period size: 65 Copynumber: 2.1 Consensus size: 65
1574503 TAAAATTCTC
1574513 GTGTTCTTTCGTTTTCTTTACCCGTTTTCGTCAACACCATCTTTAATTGTATTTTACATAAAGAA
1 GTGTTCTTTCGTTTTCTTTACCCGTTTTCGTCAACACCATCTTTAATTGTATTTTACATAAAGAA
1574578 GTGTTCTTTCGTTTTCTTTACCCGTTTTCGTCAACACCATCTTTAATTGTATTTTACATAAAGAA
1 GTGTTCTTTCGTTTTCTTTACCCGTTTTCGTCAACACCATCTTTAATTGTATTTTACATAAAGAA
1574643 GTGT
1 GTGT
1574647 ACCTGGAGGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.46
Consensus pattern (65 bp):
GTGTTCTTTCGTTTTCTTTACCCGTTTTCGTCAACACCATCTTTAATTGTATTTTACATAAAGAA
Found at i:1585867 original size:36 final size:38
Alignment explanation
Indices: 1585775--1585871 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
1585765 TTAATACTAT
* * * *
1585775 ATATCATATATGTTTTTTTAAAAATTGTTTTCAAAACC
1 ATATAATATATATATTTTCAAAAATTGTTTTCAAAACC
* **
1585813 ATATAATATATATATTTTCAAAAATTGTTTTTAAAATT
1 ATATAATATATATATTTTCAAAAATTGTTTTCAAAACC
1585851 ATAT-A-ATATATATTTTCAAAA
1 ATATAATATATATATTTTCAAAA
1585872 CTATATATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
36 16 0.31
37 1 0.02
38 35 0.67
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (38 bp):
ATATAATATATATATTTTCAAAAATTGTTTTCAAAACC
Found at i:1585871 original size:61 final size:60
Alignment explanation
Indices: 1585802--1585923 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 60
1585792 TTAAAAATTG
* * * *
1585802 TTTTCAAAACCATATAATATATATATTTTCAAAAATTGTTTTTAAAATTATATAATATATA
1 TTTTCAAAACCATATAATATATACATTTTCAAAAA-TATTTTCAAAACTATATAATATATA
* * *
1585863 TTTTCAAAACTATATATTATATACATTTTCAAAAATATTTTCAAAACTATATATTATATA
1 TTTTCAAAACCATATAATATATACATTTTCAAAAATATTTTCAAAACTATATAATATATA
1585923 T
1 T
1585924 ATATATATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 22 0.41
61 32 0.59
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (60 bp):
TTTTCAAAACCATATAATATATACATTTTCAAAAATATTTTCAAAACTATATAATATATA
Found at i:1585900 original size:23 final size:23
Alignment explanation
Indices: 1585840--1585900 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
1585830 TCAAAAATTG
* * *
1585840 TTTTTAAAATTATATAATATATA
1 TTTTCAAAAATATATAATATACA
*
1585863 TTTTCAAAACTATATATTATATACA
1 TTTTCAAAA--ATATATAATATACA
1585888 TTTTCAAAAATAT
1 TTTTCAAAAATAT
1585901 TTTCAAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 12 0.38
25 20 0.62
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTCAAAAATATATAATATACA
Found at i:1585909 original size:37 final size:38
Alignment explanation
Indices: 1585860--1586172 Score: 246
Period size: 37 Copynumber: 8.7 Consensus size: 38
1585850 TATATAATAT
*
1585860 ATATTTTCAAAACTATATA-T-TATATACATTTTCAAAA
1 ATATTTTCAAAACTATATATTATATATATATTTTC-AAA
1585897 ATATTTTCAAAACTATATATTATATATATATATATTCAAA
1 ATATTTTCAAAACTATATATTATATATATAT-T-TTCAAA
*
1585937 ATATTTTTAAAACTATATATTATATATATATTTTCAAA
1 ATATTTTCAAAACTATATATTATATATATATTTTCAAA
*
1585975 ATATTTATAAAAACTATATA-T-TATATATATTTTC---
1 ATATTT-TCAAAACTATATATTATATATATATTTTCAAA
*
1586009 --A-----AAA-CTATATAATATATAT-T-TTTT-AAA
1 ATATTTTCAAAACTATATATTATATATATATTTTCAAA
* *
1586036 ATCATTTTTAAAAACTATATA-T-TGTATAT--TTTCAAA
1 AT-A-TTTTCAAAACTATATATTATATATATATTTTCAAA
*
1586072 ATGTTTTCAAAAACTATATA-T-TATATATATTTTCAAA
1 ATATTTTC-AAAACTATATATTATATATATATTTTCAAA
* * *
1586109 ATGTTTTTAAAAACTATATA--ATATATATATTCTCAAAA
1 AT-ATTTTCAAAACTATATATTATATATATATTTTC-AAA
* *
1586147 ATCGTTTTCAAAACTATATAATATAT
1 AT-ATTTTCAAAACTATATATTATAT
1586173 TTTCAAAAAA
Statistics
Matches: 233, Mismatches: 13, Indels: 57
0.77 0.04 0.19
Matches are distributed among these distances:
25 11 0.05
26 5 0.02
27 5 0.02
30 1 0.00
32 1 0.00
34 4 0.02
35 25 0.11
36 10 0.04
37 71 0.30
38 38 0.16
39 21 0.09
40 38 0.16
41 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.01, T:0.46
Consensus pattern (38 bp):
ATATTTTCAAAACTATATATTATATATATATTTTCAAA
Found at i:1585950 original size:77 final size:79
Alignment explanation
Indices: 1585860--1586004 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 79
1585850 TATATAATAT
*
1585860 ATATTTTCAAAACTATATA-T-TATATACATTTTCAAAAATATTT-TCAAAACTATATATTATAT
1 ATATTTTCAAAACTATATATTATATATACATTTTC-AAAATATTTATAAAAACTATATATTATAT
1585922 ATATATATATTCAAA
65 ATATATATATTCAAA
* *
1585937 ATATTTTTAAAACTATATATTATATATATATTTTCAAAATATTTATAAAAACTATATATTATATA
1 ATATTTTCAAAACTATATATTATATATACATTTTCAAAATATTTATAAAAACTATATATTATATA
1586002 TAT
66 TAT
1586005 TTTCAAAACT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 18 0.29
78 10 0.16
79 34 0.55
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (79 bp):
ATATTTTCAAAACTATATATTATATATACATTTTCAAAATATTTATAAAAACTATATATTATATA
TATATATATTCAAA
Found at i:1586018 original size:25 final size:25
Alignment explanation
Indices: 1585975--1586036 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
1585965 TATTTTCAAA
*
1585975 ATATTTATAAAAACTATATATTATAT
1 ATATTT-TAAAAACTATATAATATAT
*
1586001 ATATTTTCAAAACTATATAATATAT
1 ATATTTTAAAAACTATATAATATAT
*
1586026 ATTTTTTAAAA
1 ATATTTTAAAA
1586037 TCATTTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTAAAAACTATATAATATAT
Found at i:1586085 original size:97 final size:102
Alignment explanation
Indices: 1585802--1586109 Score: 308
Period size: 97 Copynumber: 3.1 Consensus size: 102
1585792 TTAAAAATTG
* * *
1585802 TTTTCAAAACCATATA-ATATATATAT-T-TTCAAAAATTGTTTTTAAAA-TTATA-TA-ATATA
1 TTTTCAAAACTATATATATATATATATATATTC-AAAA-TATTTTTAAAACATATATTATATATA
* * * * *
1585861 TATTTTCAAAACTATATATTATATAC-AT-T-TTCAAAAATA
64 TATTTTCAAAA-TATTTA-TAAAAACTATATATT-ATATATA
1585900 TTTTCAAAACTATATATTATATATATATATATTCAAAATATTTTTAAAACTATATATTATATATA
1 TTTTCAAAACTATATA-TATATATATATATATTCAAAATATTTTTAAAAC-ATATATTATATATA
1585965 TATTTTCAAAATATTTATAAAAACTATATATTATATATA
64 TATTTTCAAAATATTTATAAAAACTATATATTATATATA
* *
1586004 TTTTCAAAACTATATA-ATATATAT-T-T-TTTAAAATCATTTTTAAAA-ACTATA-TAT-TGTA
1 TTTTCAAAACTATATATATATATATATATATTCAAAAT-ATTTTTAAAACA-TATATTATATATA
*
1586062 TATTTTCAAAATGTTT-TCAAAAACTATATATTATATATA
64 TATTTTCAAAATATTTAT-AAAAACTATATATTATATATA
1586101 TTTTCAAAA
1 TTTTCAAAA
1586110 TGTTTTTAAA
Statistics
Matches: 185, Mismatches: 11, Indels: 29
0.82 0.05 0.13
Matches are distributed among these distances:
96 1 0.01
97 48 0.26
98 19 0.10
99 11 0.06
100 31 0.17
101 6 0.03
102 20 0.11
103 9 0.05
104 38 0.21
105 2 0.01
ACGTcount: A:0.45, C:0.07, G:0.01, T:0.46
Consensus pattern (102 bp):
TTTTCAAAACTATATATATATATATATATATTCAAAATATTTTTAAAACATATATTATATATATA
TTTTCAAAATATTTATAAAAACTATATATTATATATA
Found at i:1586183 original size:134 final size:134
Alignment explanation
Indices: 1585813--1586146 Score: 331
Period size: 134 Copynumber: 2.4 Consensus size: 134
1585803 TTTCAAAACC
* * * *
1585813 ATATAATATATATATTTTCAAAA-ATTGTTTTTAAAATTATATAATATATAT-TT-TCAAAACTA
1 ATATTATATATATATTTTCAAAATA-T-TTATAAAAACTATATAATATATATATTCTCAAAACTA
* * *
1585875 TATATTATATAC-ATTTTCAAAAAT-ATTTTCAAAACTATATATTATATATATATATATTCAAAA
64 TATAATATATACTA-TAT--AAAATCATTTT--AAA--A-A-ACTATATATATATATATTCAAAA
*
1585938 TATTTTTAAAACTAT
120 TATTTTAAAAACTAT
* *
1585953 ATATTATATATATATTTTCAAAATATTTATAAAAACTATATATTATATATATTTTCAAAACTATA
1 ATATTATATATATATTTTCAAAATATTTATAAAAACTATATAATATATATATTCTCAAAACTATA
* * * * * * *
1586018 TAATATATATTTTTTAAAATCATTTTTAAAAACTATATATTGTATATTTTCAAAATGTTTTCAAA
66 TAATATATACTATATAAAATCATTTTAAAAAACTATATA-TATATATATTCAAAATATTTT-AAA
1586083 AACTAT
129 AACTAT
* *
1586089 ATA-T-TATATATATTTTCAAAATGTTTTTAAAAACTATATAATATATATATTCTCAAAA
1 ATATTATATATATATTTTCAAAATATTTATAAAAACTATATAATATATATATTCTCAAAA
1586147 ATCGTTTTCA
Statistics
Matches: 169, Mismatches: 18, Indels: 20
0.82 0.09 0.10
Matches are distributed among these distances:
134 57 0.34
135 20 0.12
136 12 0.07
138 2 0.01
139 25 0.15
140 30 0.18
141 23 0.14
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (134 bp):
ATATTATATATATATTTTCAAAATATTTATAAAAACTATATAATATATATATTCTCAAAACTATA
TAATATATACTATATAAAATCATTTTAAAAAACTATATATATATATATTCAAAATATTTTAAAAA
CTAT
Found at i:1586407 original size:23 final size:23
Alignment explanation
Indices: 1586375--1586463 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 23
1586365 ATATAATCAG
* *
1586375 CAAACACAAAACATAACACTAAT
1 CAAACTCAAAACATAACACTAAA
* * ** *
1586398 CAAACTCAAATCACAGGATTAAA
1 CAAACTCAAAACATAACACTAAA
*
1586421 CAAACTCAAATCATAACA-TCAAA
1 CAAACTCAAAACATAACACT-AAA
*
1586444 AAAACTCAAAACATAACACT
1 CAAACTCAAAACATAACACT
1586464 TATAATAACA
Statistics
Matches: 52, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
22 1 0.02
23 50 0.96
24 1 0.02
ACGTcount: A:0.57, C:0.25, G:0.02, T:0.16
Consensus pattern (23 bp):
CAAACTCAAAACATAACACTAAA
Found at i:1591297 original size:17 final size:17
Alignment explanation
Indices: 1591275--1591312 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1591265 CGTCTCTCAT
1591275 GACGTGGAGCTAGCTCG
1 GACGTGGAGCTAGCTCG
1591292 GACGTGGAGCTAGCTCG
1 GACGTGGAGCTAGCTCG
1591309 GACG
1 GACG
1591313 AAACTCCGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.16
Consensus pattern (17 bp):
GACGTGGAGCTAGCTCG
Found at i:1600275 original size:26 final size:26
Alignment explanation
Indices: 1600244--1600296 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1600234 TATATCACTC
* *
1600244 TAAAAATTTATTTG-TATTTATATATA
1 TAAAAATTT-TATGCTATTAATATATA
1600270 TAAAAATTTTATGCTATTAATATATA
1 TAAAAATTTTATGCTATTAATATATA
1600296 T
1 T
1600297 TTTTTTACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (26 bp):
TAAAAATTTTATGCTATTAATATATA
Found at i:1601536 original size:19 final size:18
Alignment explanation
Indices: 1601490--1601538 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
1601480 TTTGTTCATG
*
1601490 AAAAAAAATATAAATTAT
1 AAAAAAATTATAAATTAT
1601508 AAAATGAAATTATAAATTATT
1 AAAA--AAATTATAAATTA-T
1601529 AAAAAAATTA
1 AAAAAAATTA
1601539 AACCTATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 12 0.44
21 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAAAATTATAAATTAT
Found at i:1605441 original size:150 final size:147
Alignment explanation
Indices: 1605208--1605506 Score: 517
Period size: 150 Copynumber: 2.0 Consensus size: 147
1605198 GTGTACATCC
*
1605208 TACAATTTTATTTATGCCACATATAAAAAATTATGATGTTAATATATACGTGCTCACTCTAAATT
1 TACAATTTTATTTATGCCACATATAAAAAATTATGATGTTAATATATACGTGCGCACTCTAAATT
1605273 TTTTTTAGATTCATCACTTGTTATATAACTTAATCTTTTTTGAGAATATTTTAAAATTTTAATGA
66 TTTTTTAGATTCATCACTTGTTATATAACTTAATCTTTTTTGAGAATATTTTAAAATTTTAAT-A
*
1605338 TTTTTTATGAGAGAGTTATA
130 ATTTTTAT--GAGAGTTATA
* * *
1605358 TACAATTTTATTTTTGCCTCATATAAAAAATTATGTTGTTAATATATACGTGCGCACTCTAAATT
1 TACAATTTTATTTATGCCACATATAAAAAATTATGATGTTAATATATACGTGCGCACTCTAAATT
*
1605423 TTTTTTAGATTCATCACTTGTTATATAACTTAATCTTTTTTGAGAATCTTTTAAAATTTTAATAA
66 TTTTTTAGATTCATCACTTGTTATATAACTTAATCTTTTTTGAGAATATTTTAAAATTTTAATAA
1605488 TTTTTATGAGAGTTATA
131 TTTTTATGAGAGTTATA
1605505 TA
1 TA
1605507 TATATATATA
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
147 12 0.08
149 8 0.06
150 123 0.86
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (147 bp):
TACAATTTTATTTATGCCACATATAAAAAATTATGATGTTAATATATACGTGCGCACTCTAAATT
TTTTTTAGATTCATCACTTGTTATATAACTTAATCTTTTTTGAGAATATTTTAAAATTTTAATAA
TTTTTATGAGAGTTATA
Found at i:1605508 original size:2 final size:2
Alignment explanation
Indices: 1605501--1605529 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1605491 TTATGAGAGT
1605501 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 T
1605530 TAAAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1627922 original size:21 final size:20
Alignment explanation
Indices: 1627836--1627993 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
1627826 AAATGACCAA
**
1627836 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1627855 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1627875 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1627895 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1627916 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1627937 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
1627957 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1627978 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1627994 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1628055 original size:20 final size:20
Alignment explanation
Indices: 1627961--1628189 Score: 248
Period size: 20 Copynumber: 11.4 Consensus size: 20
1627951 GATTTTCCAG
* ** *
1627961 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
1627981 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
1628001 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1628021 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
1628041 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1628061 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1628081 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
1628101 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1628121 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1628141 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
1628161 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
1628181 AATCACAAC
1 AATCGCAAC
1628190 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:1628921 original size:24 final size:24
Alignment explanation
Indices: 1628882--1628928 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1628872 AAATTTGGTC
1628882 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1628906 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1628929 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1629120 original size:12 final size:12
Alignment explanation
Indices: 1629103--1629127 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1629093 ATATAATCCT
1629103 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1629115 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1629127 G
1 G
1629128 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1631493 original size:19 final size:19
Alignment explanation
Indices: 1631424--1631684 Score: 292
Period size: 19 Copynumber: 14.7 Consensus size: 19
1631414 GCAACGAGAG
1631424 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1631443 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1631457 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1631477 AATCGCAATTCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1631496 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1631515 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1631529 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1631549 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1631568 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1631582 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1631601 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1631620 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1631639 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1631653 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1631672 AATCGCATTGCGA
1 AATCGCAATGCGA
1631685 TTCTCTCGTT
Statistics
Matches: 207, Mismatches: 13, Indels: 44
0.78 0.05 0.17
Matches are distributed among these distances:
14 42 0.20
15 3 0.01
16 6 0.03
17 8 0.04
18 2 0.01
19 118 0.57
20 28 0.14
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1631514 original size:72 final size:72
Alignment explanation
Indices: 1631424--1631648 Score: 323
Period size: 72 Copynumber: 3.1 Consensus size: 72
1631414 GCAACGAGAG
* *
1631424 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATTCG
1 AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1631489 AAATGAA
66 AAATGAA
* *
1631496 AATCGCAACGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
1631560 GAAATGAA
65 GAAATGAA
* * * *
1631568 AATCGCAACGAGAGAATCG-CAATGCGAA-ATGAAAATCGCAATGC-GAAATGAAAATCGCAATG
1 AATCGCAACGCGA-AAT-GAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATG
1631630 CGAAATGAA
64 CGAAATGAA
1631639 AATCGCAACG
1 AATCGCAACG
1631649 AGAGAATCGC
Statistics
Matches: 139, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
71 38 0.27
72 91 0.65
73 9 0.06
74 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (72 bp):
AATCGCAACGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:1631545 original size:53 final size:52
Alignment explanation
Indices: 1631410--1631678 Score: 302
Period size: 53 Copynumber: 5.1 Consensus size: 52
1631400 CAGAAATTAC
*
1631410 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * *
1631457 AATCGCAATGCGGAAATGAAAATCGCAATTCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1631515 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
1631568 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* * * * * *
1631620 AATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATGCGAAATTAA
1 AATCGCAACGAGAGAATCG-CAATGCGAAATGA-A-AATCGCAATGCGAAATGAA
1631672 AATCGCA
1 AATCGCA
1631679 TTGCGATTCT
Statistics
Matches: 195, Mismatches: 12, Indels: 25
0.84 0.05 0.11
Matches are distributed among these distances:
47 8 0.04
49 1 0.01
50 8 0.04
51 7 0.04
52 76 0.39
53 79 0.41
55 2 0.01
56 1 0.01
58 13 0.07
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1631662 original size:33 final size:33
Alignment explanation
Indices: 1631549--1631678 Score: 197
Period size: 33 Copynumber: 3.8 Consensus size: 33
1631539 CGGAAATGAA
1631549 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
1631582 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
1631620 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
1631653 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
1631679 TTGCGATTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
33 54 0.61
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:1631718 original size:124 final size:123
Alignment explanation
Indices: 1631424--1631684 Score: 409
Period size: 124 Copynumber: 2.1 Consensus size: 123
1631414 GCAACGAGAG
* * *
1631424 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATTC
1 AATCGCAATGCG-AATGAAAATCGCAACGA-GACAATCGCAATGC-GAAATGAAAATCGCAATGC
1631488 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
63 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
1631549 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCG-AATGAAAATCGCAACGAGACAATCGCAATGCGAAATGAAAATCGCAATGCGA
* *
1631614 AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATTAA
65 AATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
1631672 AATCGCATTGCGA
1 AATCGCAATGCGA
1631685 TTCTCTCGTT
Statistics
Matches: 129, Mismatches: 6, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
122 1 0.01
123 18 0.14
124 69 0.53
125 40 0.31
126 1 0.01
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (123 bp):
AATCGCAATGCGAATGAAAATCGCAACGAGACAATCGCAATGCGAAATGAAAATCGCAATGCGAA
ATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:1631787 original size:52 final size:53
Alignment explanation
Indices: 1631674--1631790 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
1631664 GAAATTAAAA
1631674 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
*
1631727 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
1631779 TCGCATTGCGAT
1 TCGCATTGCGAT
1631791 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTAATT
Done.