Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_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: 2070395
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:681756 original size:45 final size:45
Alignment explanation
Indices: 681706--682026 Score: 480
Period size: 45 Copynumber: 7.1 Consensus size: 45
681696 ATTATTTTAT
* *** *
681706 TTTATGGCATCCTTTCATGCCTTTAATACATTATTGTGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
681751 TTTATGGCATCCTTTCATGCCTTTAATGCATCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
681796 TTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
681841 TTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
681886 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTGTGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
* * * * *
681931 TTTATGGCAACCTTTAATGTCTTTAATTCACTGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
* * * *
681976 TTTATGTCAACCTTTCATGTCTTTAATGCACTGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
682021 TTTATG
1 TTTATG
682027 TAATAAAAAC
Statistics
Matches: 259, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 259 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
Found at i:682495 original size:20 final size:20
Alignment explanation
Indices: 682470--682507 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
682460 TAATTCATTG
682470 TATCGATACCTTTCTCTTAC
1 TATCGATACCTTTCTCTTAC
682490 TATCGATACCTTTCTCTT
1 TATCGATACCTTTCTCTT
682508 GGTATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (20 bp):
TATCGATACCTTTCTCTTAC
Found at i:682513 original size:20 final size:20
Alignment explanation
Indices: 682469--682519 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
682459 GTAATTCATT
682469 GTATCGATACCTTTCTCTTA
1 GTATCGATACCTTTCTCTTA
* *
682489 CTATCGATACCTTTCTCTTG
1 GTATCGATACCTTTCTCTTA
*
682509 GTATCTATACC
1 GTATCGATACC
682520 CACAATAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (20 bp):
GTATCGATACCTTTCTCTTA
Found at i:684156 original size:26 final size:26
Alignment explanation
Indices: 684087--684159 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
684077 TATTGTATTG
*
684087 TAATGTAATGTAGTAGTTAATGTTTC
1 TAATGTAATGTAGTATTTAATGTTTC
*
684113 TAATGTAATGTAGGATTTAATG-TTC
1 TAATGTAATGTAGTATTTAATGTTTC
*
684138 TAATGTAATGTTTGTATTTAAT
1 TAATGTAATG-TAGTATTTAAT
684160 AAAATAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.31
26 29 0.69
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48
Consensus pattern (26 bp):
TAATGTAATGTAGTATTTAATGTTTC
Found at i:687394 original size:13 final size:13
Alignment explanation
Indices: 687364--687399 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
687354 ATTGTTGATA
*
687364 GTTGACTGTTGGCC
1 GTTGACT-TTGACC
687378 GTTGACTTTGACC
1 GTTGACTTTGACC
687391 GTTGACTTT
1 GTTGACTTT
687400 TTTTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.11, C:0.19, G:0.28, T:0.42
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:688034 original size:29 final size:29
Alignment explanation
Indices: 687999--688111 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
687989 TAATTCTACA
*
687999 TGGGATTAAATCCCCATCCTAATTCTGCT
1 TGGGATTAAATCCCCATCCTGATTCTGCT
* * *
688028 TGAGATTAAATCCCCGTCTTGATTCTG-T
1 TGGGATTAAATCCCCATCCTGATTCTGCT
* *
688056 ATGGGATTAAATCCCCATCCTGATTCAGCA
1 -TGGGATTAAATCCCCATCCTGATTCTGCT
*
688086 TGGGATTAAATCTCCATCCTGATTCT
1 TGGGATTAAATCCCCATCCTGATTCT
688112 ATTTAGTATC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (29 bp):
TGGGATTAAATCCCCATCCTGATTCTGCT
Found at i:688093 original size:58 final size:58
Alignment explanation
Indices: 687998--688111 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
687988 TTAATTCTAC
* * * *
687998 ATGGGATTAAATCCCCATCCTAATTCTGCTTGAGATTAAATCCCCGTCTTGATTCTGT
1 ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCTGT
* * *
688056 ATGGGATTAAATCCCCATCCTGATTCAGCATGGGATTAAATCTCCATCCTGATTCT
1 ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCT
688112 ATTTAGTATC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (58 bp):
ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCTGT
Found at i:689328 original size:14 final size:14
Alignment explanation
Indices: 689309--689339 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
689299 CTTCTACTTT
689309 CGAGTAGAACAACC
1 CGAGTAGAACAACC
689323 CGAGTAGAACAACC
1 CGAGTAGAACAACC
689337 CGA
1 CGA
689340 TTGACACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.29, G:0.23, T:0.06
Consensus pattern (14 bp):
CGAGTAGAACAACC
Found at i:696036 original size:21 final size:20
Alignment explanation
Indices: 695994--696060 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
695984 AATATGTAAA
695994 TCGCATTGCGATTTT-ATGAAT
1 TCGCATTGCGATTTTCA--AAT
*
696015 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTT-CAAAT
**
696036 TCGCAACGCGATTTTCAAAT
1 TCGCATTGCGATTTTCAAAT
696056 TCGCA
1 TCGCA
696061 ACGCGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.25
21 29 0.73
23 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTTCAAAT
Found at i:696056 original size:20 final size:20
Alignment explanation
Indices: 696022--696242 Score: 100
Period size: 20 Copynumber: 11.0 Consensus size: 20
696012 AATTCGCGTT
696022 GCGATTTTCCAAATTCGCAAC
1 GCGATTTT-CAAATTCGCAAC
696043 GCGATTTTCAAATTCGCAAC
1 GCGATTTTCAAATTCGCAAC
*
696063 GCGAATATGT-AAA-TCGCAAC
1 GCG-AT-TTTCAAATTCGCAAC
* *
696083 GCGAATCTGT-AAA-TCGTAAC
1 GCG-AT-TTTCAAATTCGCAAC
* *
696103 GTGAATCTGT-AAA-TCGCAAC
1 GCG-AT-TTTCAAATTCGCAAC
* ** *
696123 ACAGA-AGTCAAATTCGTAAC
1 GC-GATTTTCAAATTCGCAAC
* * *
696143 GCGATTTCCAAATTCGCCAT
1 GCGATTTTCAAATTCGCAAC
696163 GCGA-TTTCTAAATTCGCAAC
1 GCGATTTTC-AAATTCGCAAC
* * * ***
696183 GTGATTTACAAATTCACGTT
1 GCGATTTTCAAATTCGCAAC
*
696203 GCGATTTACAAATTCGCAAC
1 GCGATTTTCAAATTCGCAAC
* *
696223 TCGATATTT-GAATTCGCAAC
1 GCGAT-TTTCAAATTCGCAAC
696243 ACGAATTTTA
Statistics
Matches: 158, Mismatches: 33, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 8 0.05
20 127 0.80
21 19 0.12
22 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (20 bp):
GCGATTTTCAAATTCGCAAC
Found at i:696083 original size:40 final size:39
Alignment explanation
Indices: 695970--696122 Score: 128
Period size: 41 Copynumber: 3.8 Consensus size: 39
695960 CTCAGTTTCC
**
695970 AAATTCGCAACGCGAATATGTAAATCGCATTGCGATTTT
1 AAATTCGCAACGCGAATATGTAAATCGCAACGCGATTTT
*** * * **
696009 ATGAATTCGCGTTGCGATTTTCCAAATTCGCAACGCGATTTT
1 A--AATTCGCAACGCGAATATGTAAA-TCGCAACGCGATTTT
*
696051 CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATCTGT
1 -AAATTCGCAACGCGAATATGTAAATCGCAACGCG-AT-TTT
* * *
696093 AAA-TCGTAACGTGAATCTGTAAATCGCAAC
1 AAATTCGCAACGCGAATATGTAAATCGCAAC
696123 ACAGAAGTCA
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
39 1 0.01
40 34 0.39
41 37 0.42
42 15 0.17
43 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (39 bp):
AAATTCGCAACGCGAATATGTAAATCGCAACGCGATTTT
Found at i:696206 original size:40 final size:40
Alignment explanation
Indices: 696131--696227 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
696121 ACACAGAAGT
* * *
696131 CAAATTCGTAACGCGATTTCCAAATTCGCCATGCGATTT-
1 CAAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
* **
696170 CTAAATTCGCAACGTGATTTACAAATTCACGTTGCGATTTA
1 C-AAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
*
696211 CAAATTCGCAACTCGAT
1 CAAATTCGCAACGCGAT
696228 ATTTGAATTC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 46 0.96
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (40 bp):
CAAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
Found at i:696255 original size:19 final size:20
Alignment explanation
Indices: 696213--696255 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
696203 GCGATTTACA
*
696213 AATTCGCAACTCGATATTTG
1 AATTCGCAACACGATATTTG
*
696233 AATTCGCAACACGA-ATTTT
1 AATTCGCAACACGATATTTG
696252 AATT
1 AATT
696256 TTGCAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
AATTCGCAACACGATATTTG
Found at i:697047 original size:12 final size:12
Alignment explanation
Indices: 697026--697059 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
697016 ACCACATTTC
*
697026 CAATACCAAACA
1 CAATATCAAACA
697038 CAATATCAAACA
1 CAATATCAAACA
*
697050 CAATCTCAAA
1 CAATATCAAA
697060 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:697234 original size:24 final size:24
Alignment explanation
Indices: 697183--697236 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
697173 AGTATTCAAA
* *
697183 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
697207 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
697231 TTTGAT
1 TTTGAT
697237 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:699984 original size:25 final size:25
Alignment explanation
Indices: 699956--700005 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
699946 AAATCAATTA
*
699956 AACATTACTGTGGGTAAATTATTTG
1 AACATTACTATGGGTAAATTATTTG
** *
699981 AACATTGTTATGGGTACATTATTTG
1 AACATTACTATGGGTAAATTATTTG
700006 GAAAATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (25 bp):
AACATTACTATGGGTAAATTATTTG
Found at i:700408 original size:18 final size:18
Alignment explanation
Indices: 700387--700423 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
700377 GTAATTGGAG
700387 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
700405 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
700423 T
1 T
700424 ATAAATTTCG
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:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:700430 original size:24 final size:24
Alignment explanation
Indices: 700379--700431 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
700369 TTTCATATGT
* * *
700379 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
700403 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
700427 AATTT
1 AATTT
700432 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:701601 original size:6 final size:6
Alignment explanation
Indices: 701590--701636 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
701580 AAGTAAAAGG
* * * *
701590 AAATCA AAATCA AAATCG CAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
701637 CCAATCACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.57, C:0.21, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:701612 original size:12 final size:12
Alignment explanation
Indices: 701591--701643 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
701581 AGTAAAAGGA
*
701591 AATCAAAATCAA
1 AATCAAAATCAC
** *
701603 AATCGCAATCGC
1 AATCAAAATCAC
*
701615 AATCAAAATCAA
1 AATCAAAATCAC
*
701627 AATCAAAATCCC
1 AATCAAAATCAC
701639 AATCA
1 AATCA
701644 CAACCGGCTT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.55, C:0.25, G:0.04, T:0.17
Consensus pattern (12 bp):
AATCAAAATCAC
Found at i:701636 original size:24 final size:24
Alignment explanation
Indices: 701591--701643 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
701581 AGTAAAAGGA
** *
701591 AATCAAAATCAAAATCGCAATCGC
1 AATCAAAATCAAAATCAAAATCCC
701615 AATCAAAATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCAAAATCCC
701639 AATCA
1 AATCA
701644 CAACCGGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.55, C:0.25, G:0.04, T:0.17
Consensus pattern (24 bp):
AATCAAAATCAAAATCAAAATCCC
Found at i:701931 original size:20 final size:20
Alignment explanation
Indices: 701918--702016 Score: 135
Period size: 20 Copynumber: 5.0 Consensus size: 20
701908 TCGCAACGCG
*
701918 AATTTGACTTTCGCGTTGCG
1 AATTTGACTTTCGCGTTGCA
701938 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
701958 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
* * *** *
701978 AATTTGAATATCGCAACGTA
1 AATTTGACTTTCGCGTTGCA
701998 AATTTGACTTTCGCGTTGC
1 AATTTGACTTTCGCGTTGC
702017 GAAAGTGTAC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCA
Found at i:701973 original size:40 final size:40
Alignment explanation
Indices: 701907--702019 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
701897 GAAATGCGAA
* *
701907 ATCGCAACGCGAATTTGACTTTCGCGTTGCGAATTTGACT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGAAT
* *** *
701947 TTCGCGTTGCAAATTTGACTTTCGCGTTGCAAATTTGAAT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGAAT
*
701987 ATCGCAACGTAAATTTGACTTTCGCGTTGCGAA
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCGAA
702020 AGTGTACCTT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (40 bp):
ATCGCAACGCAAATTTGACTTTCGCGTTGCGAATTTGAAT
Found at i:702190 original size:64 final size:65
Alignment explanation
Indices: 702079--702213 Score: 209
Period size: 64 Copynumber: 2.1 Consensus size: 65
702069 ATTTAAAACA
*
702079 ACAAATCAATTAAACAAGTAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
1 ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
*** * *
702144 ACAAATCAATTAAACAAGCAAAA-AATAATTCTTATTTCCTCATCAATTAAACAAATCAACTTTT
1 ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
702208 ACAAAT
1 ACAAAT
702214 ACATCAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
64 42 0.66
65 22 0.34
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (65 bp):
ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
Found at i:703442 original size:21 final size:20
Alignment explanation
Indices: 703409--703526 Score: 85
Period size: 21 Copynumber: 5.7 Consensus size: 20
703399 GTGAATCGGG
*
703409 CTCTCGAACGATGGGAGGGAC
1 CTCTTGAACGATGGGAGGG-C
* **
703430 CTCTTGAATGATGACAGGGGC
1 CTCTTGAACGATGGGA-GGGC
* *
703451 GTCTTGAACGGTGGGAAGGGC
1 CTCTTGAACGATGGG-AGGGC
**
703472 CTCTTGCAA-GATGATAGGGGC
1 CTCTTG-AACGATGGGA-GGGC
* *
703493 CTCTTGAATGATAGGAGAGGC
1 CTCTTGAACGATGGGAG-GGC
703514 CTCTTGAACGATG
1 CTCTTGAACGATG
703527 ACAGGTGAAT
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
20 4 0.05
21 63 0.86
22 6 0.08
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.22
Consensus pattern (20 bp):
CTCTTGAACGATGGGAGGGC
Found at i:703475 original size:42 final size:39
Alignment explanation
Indices: 703406--703531 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 39
703396 CATGTGAATC
*
703406 GGGCTCTCGAACGATGGGAGGGACCTCTTGAATGATGACAG
1 GGGCTCTTGAACGATGGGAGGG-CCTCTTGAA-GATGACAG
* *
703447 GGGCGTCTTGAACGGTGGGAAGGGCCTCTTGCAAGATGATAG
1 GGGC-TCTTGAACGATGGG-AGGGCCTCTTG-AAGATGACAG
* *
703489 GGGCCTCTTGAATGATAGGAGAGGCCTCTTGAACGATGACAG
1 GGG-CTCTTGAACGATGGGAG-GGCCTCTTGAA-GATGACAG
703531 G
1 G
703532 TGAATCGAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
41 8 0.11
42 57 0.79
43 7 0.10
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.21
Consensus pattern (39 bp):
GGGCTCTTGAACGATGGGAGGGCCTCTTGAAGATGACAG
Found at i:705601 original size:17 final size:17
Alignment explanation
Indices: 705579--705618 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
705569 GTTGAAGTAA
705579 TGCAATTCATTCAAGTT
1 TGCAATTCATTCAAGTT
705596 TGCAATTCATTCAAGTT
1 TGCAATTCATTCAAGTT
705613 T-CAATT
1 TGCAATT
705619 TGCAGAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
TGCAATTCATTCAAGTT
Found at i:705708 original size:19 final size:20
Alignment explanation
Indices: 705640--705710 Score: 92
Period size: 19 Copynumber: 3.6 Consensus size: 20
705630 AATAGTTTCT
* *
705640 GAAACTTAAGATCGCAACGC
1 GAAACTGAAAATCGCAACGC
*
705660 GAAAATGAAAATCGCAACGC
1 GAAACTGAAAATCGCAACGC
*
705680 CAAA-TGAAAATCGCAACGC
1 GAAACTGAAAATCGCAACGC
705699 GAAACT-AAAATC
1 GAAACTGAAAATC
705711 ATGTTGCGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.53
20 21 0.47
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAACTGAAAATCGCAACGC
Found at i:706206 original size:25 final size:26
Alignment explanation
Indices: 706178--706226 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
706168 ATTTGTGTTG
* * *
706178 CGAAATTAATATT-GTGTTTCGAATT
1 CGAAAATAAAATTCGTGTTGCGAATT
706203 CGAAAATAAAATTCGTGTTGCGAA
1 CGAAAATAAAATTCGTGTTGCGAA
706227 AATAAACGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (26 bp):
CGAAAATAAAATTCGTGTTGCGAATT
Found at i:706217 original size:19 final size:20
Alignment explanation
Indices: 706195--706232 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
706185 AATATTGTGT
706195 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
706214 TTCGTGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
706233 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:706297 original size:20 final size:21
Alignment explanation
Indices: 706290--706339 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
706280 TGCGATTTTA
706290 AAAATCGCGCTGCGAATTCAG
1 AAAATCGCGCTGCGAATTCAG
*
706311 AAAATCGCAAC-GCGAATTC-G
1 AAAATCGC-GCTGCGAATTCAG
706331 AAAAATCGC
1 -AAAATCGC
706340 AATGCGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (21 bp):
AAAATCGCGCTGCGAATTCAG
Found at i:706316 original size:21 final size:21
Alignment explanation
Indices: 706301--706346 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
706291 AAATCGCGCT
706301 GCGAATTC-AGAAAATCGCAAC
1 GCGAATTCGA-AAAATCGCAAC
*
706322 GCGAATTCGAAAAATCGCAAT
1 GCGAATTCGAAAAATCGCAAC
706343 GCGA
1 GCGA
706347 TTTACATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (21 bp):
GCGAATTCGAAAAATCGCAAC
Found at i:707566 original size:15 final size:15
Alignment explanation
Indices: 707546--707585 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
707536 CCAGATGTTA
707546 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
707561 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
707576 CGGGTACCCG
1 CGGGTACCCG
707586 ATACCCGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.17, C:0.30, G:0.35, T:0.17
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:708114 original size:11 final size:12
Alignment explanation
Indices: 708098--708126 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
708088 TATATTATAT
708098 ATATTTTC-AAA
1 ATATTTTCAAAA
708109 ATATTTTCAAAA
1 ATATTTTCAAAA
708121 ATATTT
1 ATATTT
708127 AAAAGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTTCAAAA
Found at i:709954 original size:45 final size:45
Alignment explanation
Indices: 709904--710224 Score: 480
Period size: 45 Copynumber: 7.1 Consensus size: 45
709894 ATTATTTTAT
* *** *
709904 TTTATGGCATCCTTTCATGCCTTTAATACATTATTGTGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
709949 TTTATGGCATCCTTTCATGCCTTTAATGCATCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
709994 TTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
710039 TTTATGGCATCCTTTCATGCCATTAATGCACCGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
*
710084 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTGTGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
* * * * *
710129 TTTATGGCAACCTTTAATGTCTTTAATTCACTGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
* * * *
710174 TTTATGTCAACCTTTCATGTCTTTAATGCACTGTTATGCATTTCA
1 TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
710219 TTTATG
1 TTTATG
710225 TAATAAAAAC
Statistics
Matches: 259, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 259 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.44
Consensus pattern (45 bp):
TTTATGGCATCCTTTCATGCCTTTAATGCACCGTTATGCATTTCA
Found at i:710693 original size:20 final size:20
Alignment explanation
Indices: 710668--710705 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
710658 TAATTCATTG
710668 TATCGATACCTTTCTCTTAC
1 TATCGATACCTTTCTCTTAC
710688 TATCGATACCTTTCTCTT
1 TATCGATACCTTTCTCTT
710706 GGTATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (20 bp):
TATCGATACCTTTCTCTTAC
Found at i:710711 original size:20 final size:20
Alignment explanation
Indices: 710667--710717 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
710657 GTAATTCATT
710667 GTATCGATACCTTTCTCTTA
1 GTATCGATACCTTTCTCTTA
* *
710687 CTATCGATACCTTTCTCTTG
1 GTATCGATACCTTTCTCTTA
*
710707 GTATCTATACC
1 GTATCGATACC
710718 CACAATAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.43
Consensus pattern (20 bp):
GTATCGATACCTTTCTCTTA
Found at i:712354 original size:26 final size:26
Alignment explanation
Indices: 712285--712357 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
712275 TATTGTATTG
*
712285 TAATGTAATGTAGTAGTTAATGTTTC
1 TAATGTAATGTAGTATTTAATGTTTC
*
712311 TAATGTAATGTAGGATTTAATG-TTC
1 TAATGTAATGTAGTATTTAATGTTTC
*
712336 TAATGTAATGTTTGTATTTAAT
1 TAATGTAATG-TAGTATTTAAT
712358 AAAATAATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.31
26 29 0.69
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.48
Consensus pattern (26 bp):
TAATGTAATGTAGTATTTAATGTTTC
Found at i:715589 original size:13 final size:13
Alignment explanation
Indices: 715559--715594 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
715549 ATTGTTGATA
*
715559 GTTGACTGTTGGCC
1 GTTGACT-TTGACC
715573 GTTGACTTTGACC
1 GTTGACTTTGACC
715586 GTTGACTTT
1 GTTGACTTT
715595 TTTTTAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.11, C:0.19, G:0.28, T:0.42
Consensus pattern (13 bp):
GTTGACTTTGACC
Found at i:716234 original size:29 final size:29
Alignment explanation
Indices: 716199--716311 Score: 147
Period size: 29 Copynumber: 3.9 Consensus size: 29
716189 TAATTCTACA
*
716199 TGGGATTAAATCCCCATCCTAATTCTGCT
1 TGGGATTAAATCCCCATCCTGATTCTGCT
* * *
716228 TGAGATTAAATCCCCGTCTTGATTCTG-T
1 TGGGATTAAATCCCCATCCTGATTCTGCT
* *
716256 ATGGGATTAAATCCCCATCCTGATTCAGCA
1 -TGGGATTAAATCCCCATCCTGATTCTGCT
*
716286 TGGGATTAAATCTCCATCCTGATTCT
1 TGGGATTAAATCCCCATCCTGATTCT
716312 ATTTAGTATC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
28 1 0.01
29 70 0.99
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (29 bp):
TGGGATTAAATCCCCATCCTGATTCTGCT
Found at i:716293 original size:58 final size:58
Alignment explanation
Indices: 716198--716311 Score: 165
Period size: 58 Copynumber: 2.0 Consensus size: 58
716188 TTAATTCTAC
* * * *
716198 ATGGGATTAAATCCCCATCCTAATTCTGCTTGAGATTAAATCCCCGTCTTGATTCTGT
1 ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCTGT
* * *
716256 ATGGGATTAAATCCCCATCCTGATTCAGCATGGGATTAAATCTCCATCCTGATTCT
1 ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCT
716312 ATTTAGTATC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (58 bp):
ATGGGATTAAATCCCCATCCTAATTCAGCATGAGATTAAATCCCCATCCTGATTCTGT
Found at i:717527 original size:14 final size:14
Alignment explanation
Indices: 717508--717538 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
717498 CTTCTACTTT
717508 CGAGTAGAACAACC
1 CGAGTAGAACAACC
717522 CGAGTAGAACAACC
1 CGAGTAGAACAACC
717536 CGA
1 CGA
717539 TTGACACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.29, G:0.23, T:0.06
Consensus pattern (14 bp):
CGAGTAGAACAACC
Found at i:723874 original size:13 final size:13
Alignment explanation
Indices: 723858--723901 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
723848 ACGCGCACTG
*
723858 ATGACACGCATTT
1 ATGACACACATTT
*
723871 ATGACTCACATTT
1 ATGACACACATTT
723884 ATGACACACATTT
1 ATGACACACATTT
723897 ATGAC
1 ATGAC
723902 GCGTAATTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (13 bp):
ATGACACACATTT
Found at i:723920 original size:80 final size:80
Alignment explanation
Indices: 723817--723968 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
723807 TGAATCTTAG
*
723817 ATGACGCGAAATTGTGTACCATAAATCTATGACGCGCACTGATGACACGCATTTATGACTCACAT
1 ATGACGCGAAATTGTGTACCATAAAGCTATGACGCGCACTGATGACACGCATTTATGACTCACAT
723882 TTATGACACACATTT
66 TTATGACACACATTT
* * * * *
723897 ATGACGCGTAATTGTGTGCCATAAAGCTATGATGCGCATTGATGACACGCATTTATTACTCACAT
1 ATGACGCGAAATTGTGTACCATAAAGCTATGACGCGCACTGATGACACGCATTTATGACTCACAT
723962 TTATGAC
66 TTATGAC
723969 TCATTTATGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (80 bp):
ATGACGCGAAATTGTGTACCATAAAGCTATGACGCGCACTGATGACACGCATTTATGACTCACAT
TTATGACACACATTT
Found at i:723962 original size:13 final size:13
Alignment explanation
Indices: 723946--723992 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
723936 TGATGACACG
*
723946 CATTTATTACTCA
1 CATTTATGACTCA
723959 CATTTATGACT--
1 CATTTATGACTCA
723970 CATTTATGACTCA
1 CATTTATGACTCA
723983 CATTTATGAC
1 CATTTATGAC
723993 GTGCATTGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 11 0.35
13 20 0.65
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (13 bp):
CATTTATGACTCA
Found at i:723981 original size:24 final size:24
Alignment explanation
Indices: 723946--723992 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
723936 TGATGACACG
*
723946 CATTTATTACTCACATTTATGACT
1 CATTTATGACTCACATTTATGACT
723970 CATTTATGACTCACATTTATGAC
1 CATTTATGACTCACATTTATGAC
723993 GTGCATTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (24 bp):
CATTTATGACTCACATTTATGACT
Found at i:723999 original size:13 final size:11
Alignment explanation
Indices: 723959--723992 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
723949 TTATTACTCA
723959 CATTTATGACT
1 CATTTATGACT
723970 CATTTATGACT
1 CATTTATGACT
723981 CACATTTATGAC
1 --CATTTATGAC
723993 GTGCATTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (11 bp):
CATTTATGACT
Found at i:732121 original size:19 final size:20
Alignment explanation
Indices: 732084--732123 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
732074 TCTATTTTGC
*
732084 AAAGAATCGATCCCTTTTCA
1 AAAGAATCGATCCCATTTCA
*
732104 AAAGGATCGAT-CCATTTCA
1 AAAGAATCGATCCCATTTCA
732123 A
1 A
732124 GAAAGGATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (20 bp):
AAAGAATCGATCCCATTTCA
Found at i:734316 original size:54 final size:54
Alignment explanation
Indices: 734253--734413 Score: 225
Period size: 54 Copynumber: 3.0 Consensus size: 54
734243 CAACCCACAG
* *
734253 AATTAATCATATATTGATGAACGACCGTATAAGCACTATGTGTTCAACCCATGA
1 AATTCATCATATGTTGATGAACGACCGTATAAGCACTATGTGTTCAACCCATGA
* * * * *
734307 AATTCATCATATGTTGATGAACGACCGTATATGGACTATGTGTGCAACCCACGG
1 AATTCATCATATGTTGATGAACGACCGTATAAGCACTATGTGTTCAACCCATGA
* *
734361 AATTCATTATATGTTGATGAACGACCGTATAGGCACTATGTGTAT-AACCCATG
1 AATTCATCATATGTTGATGAACGACCGTATAAGCACTATGTGT-TCAACCCATG
734414 GATATTATAG
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 94 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (54 bp):
AATTCATCATATGTTGATGAACGACCGTATAAGCACTATGTGTTCAACCCATGA
Found at i:747061 original size:287 final size:286
Alignment explanation
Indices: 746546--747120 Score: 999
Period size: 287 Copynumber: 2.0 Consensus size: 286
746536 ATTTTTTCTA
* *
746546 AATAATTTTAGAGTTCATATTTTCTTTAATTAATTTGGTTGTTTTTTATTTGGGCTTAAAAATTA
1 AATAATTTTAGAGTTCATATTTTCTTCAATTAATTTGGTTATTTTTTATTTGGGCTTAAAAATTA
746611 CTAATTAGATTTTAAAATATAATGAGTTTAAGGTTAAAATTTATTAGGTATTAATATTTTAAACG
66 CTAATTAGATTTTAAAATATAATGAGTTTAAGGTTAAAATTTATTAGGTATTAATATTTTAAACG
*
746676 GGTCTGGAGATTGAACTAAACCTAAATGAACAGATTACTGAATGTTCACGAATGTAAATGAACAA
131 GGTCTGGAGATTGAACTAAACCTAAATGAACAGATTACTGAATGTTCACGAATGTAAATGAAAAA
*
746741 ACGAGCCATTTGTTTGTGTTCGTTCATTTAATTAAACAACCATAAAATATTGTTCATGTTTATCT
196 ACGAGCCATTTGTTTGTGTTCGTTCATTTAATTAAACAAACATAAAATATTGTTCATGTTTATCT
746806 GTTTCATAAATAAACAAACATAAATG
261 GTTTCATAAATAAACAAACATAAATG
*
746832 AATAATTTTAGAGTTTATATTTTCTTCAATTAATTTGGTTATTTTTTATTTGGGCTTAAAAATTA
1 AATAATTTTAGAGTTCATATTTTCTTCAATTAATTTGGTTATTTTTTATTTGGGCTTAAAAATTA
*
746897 CTAATTAGATTTTAAAATATTAATGATTTTAAGGTTAAAATTTATTAGGTATTAATATTTTAAAC
66 CTAATTAGATTTTAAAATA-TAATGAGTTTAAGGTTAAAATTTATTAGGTATTAATATTTTAAAC
*
746962 GGGTCTGGAGATTGAGCTAAACCTAAATGAACAGATTA-TCGAATGTTCACGAATGTAAATGAAA
130 GGGTCTGGAGATTGAACTAAACCTAAATGAACAGATTACT-GAATGTTCACGAATGTAAATGAAA
* * * *
747026 AAACGAGCCCTTTGTTTGTGTTCGTTCATTTAATTAAATAAACATAGAATATTGTTCATGTTTGT
194 AAACGAGCCATTTGTTTGTGTTCGTTCATTTAATTAAACAAACATAAAATATTGTTCATGTTTAT
* **
747091 TTGTTTCATAAATAAATGAACATAAATG
259 CTGTTTCATAAATAAACAAACATAAATG
747119 AA
1 AA
747121 CTTCATGTTG
Statistics
Matches: 273, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
286 82 0.30
287 191 0.70
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.41
Consensus pattern (286 bp):
AATAATTTTAGAGTTCATATTTTCTTCAATTAATTTGGTTATTTTTTATTTGGGCTTAAAAATTA
CTAATTAGATTTTAAAATATAATGAGTTTAAGGTTAAAATTTATTAGGTATTAATATTTTAAACG
GGTCTGGAGATTGAACTAAACCTAAATGAACAGATTACTGAATGTTCACGAATGTAAATGAAAAA
ACGAGCCATTTGTTTGTGTTCGTTCATTTAATTAAACAAACATAAAATATTGTTCATGTTTATCT
GTTTCATAAATAAACAAACATAAATG
Found at i:748954 original size:17 final size:17
Alignment explanation
Indices: 748934--748967 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
748924 TAAACAATAG
748934 TCAATCGCGGTCAATGA
1 TCAATCGCGGTCAATGA
* *
748951 TCAATGGTGGTCAATGA
1 TCAATCGCGGTCAATGA
748968 CTAGGCTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (17 bp):
TCAATCGCGGTCAATGA
Found at i:756165 original size:2 final size:2
Alignment explanation
Indices: 756158--756183 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
756148 AAATTCGAGG
756158 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
756184 ATTTTTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:756243 original size:23 final size:24
Alignment explanation
Indices: 756193--756243 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
756183 AATTTTTTAA
756193 TAAT-TTAATTTTTATTTTTGGTT
1 TAATATTAATTTTTATTTTTGGTT
756216 T--TATTATATTTTTA-TTTT-GTT
1 TAATATTA-ATTTTTATTTTTGGTT
756237 TAATATT
1 TAATATT
756244 TTTATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
21 5 0.21
22 7 0.29
23 12 0.50
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (24 bp):
TAATATTAATTTTTATTTTTGGTT
Found at i:756251 original size:20 final size:21
Alignment explanation
Indices: 756200--756279 Score: 62
Period size: 22 Copynumber: 3.9 Consensus size: 21
756190 TAATAATTTA
*
756200 ATTTTTAT-TTTTGGTTTTATT
1 ATTTTTATATTTT-GTTTTAAT
756221 ATATTTT-TATTTTG-TTTAAT
1 AT-TTTTATATTTTGTTTTAAT
* *
756241 ATTTTTATATTTTGAATTTAAA
1 ATTTTTATATTTTG-TTTTAAT
*
756263 ATATTT-TATTTT-TTTTA
1 ATTTTTATATTTTGTTTTA
756280 CAAAATCAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 8 0.16
20 14 0.28
21 10 0.20
22 18 0.36
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTTATATTTTGTTTTAAT
Found at i:757082 original size:23 final size:23
Alignment explanation
Indices: 757034--757091 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 23
757024 ACCCAACTTG
757034 ATTTAGGATAATTAATATATATT
1 ATTTAGGATAATTAATATATATT
* *
757057 ATTTAGTATATTTCAATATTTATATT
1 ATTTAGGATAATT-AATA--TATATT
*
757083 GTTTAGGAT
1 ATTTAGGAT
757092 TTCGTTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 11 0.39
24 4 0.14
26 13 0.46
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (23 bp):
ATTTAGGATAATTAATATATATT
Found at i:758293 original size:26 final size:26
Alignment explanation
Indices: 758243--758291 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
758233 TAAAAAACAA
*
758243 AAAATAAAATAAACATCAAAGAAACG
1 AAAATAAAATAAAAATCAAAGAAACG
*
758269 AAAATAAAGTAAAAAT-AAAGAAA
1 AAAATAAAATAAAAATCAAAGAAA
758292 ACAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.12
Consensus pattern (26 bp):
AAAATAAAATAAAAATCAAAGAAACG
Found at i:758357 original size:39 final size:39
Alignment explanation
Indices: 758312--758392 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
758302 TATATACATA
758312 ATAGTAATAGGTCATATAAATAAACTATTAAAAGTATAT
1 ATAGTAATAGGTCATATAAATAAACTATTAAAAGTATAT
758351 ATAGTAATAGGTCATATAAATAAACTATTAAAAGTATAT
1 ATAGTAATAGGTCATATAAATAAACTATTAAAAGTATAT
758390 ATA
1 ATA
758393 TATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (39 bp):
ATAGTAATAGGTCATATAAATAAACTATTAAAAGTATAT
Found at i:758392 original size:2 final size:2
Alignment explanation
Indices: 758385--758418 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
758375 CTATTAAAAG
758385 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
758419 CAATAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:758394 original size:43 final size:43
Alignment explanation
Indices: 758290--758396 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 43
758280 AAAATAAAGA
* *
758290 AAACAATTAAAA-TATATACATAATAGTAATAGGTCATATAAAT
1 AAACTATTAAAAGTATATATAT-ATAGTAATAGGTCATATAAAT
758333 AAACTATTAAAAG----TATATATAGTAATAGGTCATATAAAT
1 AAACTATTAAAAGTATATATATATAGTAATAGGTCATATAAAT
758372 AAACTATTAAAAGTATATATATATA
1 AAACTATTAAAAGTATATATATATA
758397 TATATATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
39 34 0.60
40 4 0.07
43 19 0.33
ACGTcount: A:0.54, C:0.06, G:0.07, T:0.33
Consensus pattern (43 bp):
AAACTATTAAAAGTATATATATATAGTAATAGGTCATATAAAT
Found at i:758701 original size:20 final size:21
Alignment explanation
Indices: 758647--758701 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
758637 AATAATTAAA
* *
758647 ATATATATATAGTAATATACG
1 ATATATATATAGTATTAAACG
758668 -TATATATATA-TATTAAACG
1 ATATATATATAGTATTAAACG
758687 ATATA-ATATAGTATT
1 ATATATATATAGTATT
758702 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (21 bp):
ATATATATATAGTATTAAACG
Found at i:772305 original size:19 final size:20
Alignment explanation
Indices: 772281--772325 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
772271 TTTCCCAAAA
* *
772281 AGTTTCGATACT-TTTCAGG
1 AGTTTCGAAACTATCTCAGG
772300 AGTTTCGAAACTATCTCAGG
1 AGTTTCGAAACTATCTCAGG
772320 AGTTTC
1 AGTTTC
772326 AAAAGTTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
AGTTTCGAAACTATCTCAGG
Found at i:778145 original size:55 final size:54
Alignment explanation
Indices: 778110--778856 Score: 792
Period size: 55 Copynumber: 13.8 Consensus size: 54
778100 AATGGGTCTT
778110 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * *
778165 CTCCCTTTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAATGGGTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * * *
778220 CTCCCTCTTATTTTAGGGAGTATAGGACTCGAAAAATCTTCAGCAAACGTGTCTG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
*
778275 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACATGTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * * * * * *
778330 CTCCCTCTTCTTTCAAGGAGCATTGGACTCGAAAAATCTTCAGTAAACGTTTCCA
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * * * * **
778385 CTCCCTATTCTTTTAGGGAGTATAGGACTCAAACAATCTTTAGCAAACGGGTCTA
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
*
778440 CTCCCTCTTCTTTCAGGGAGTATAGGACTTGAACAATCTTCATCAAACGTGTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * *
778495 CTCCCTTTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAACAAATGTGACCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTC-ACAAACGTGTCCG
** * **
778550 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATC--GGCAAACGGGTTTG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCACAAACGTGTCCG
* * * * * *
778602 CTCCTTCTTCTTTCAAGGAGTATATGACTCGAATAATCTTTAGTAAACGTGTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAACGTGTCCG
* * ** * **
778657 CTCCCTCTTCTTTTAGGGAGTATAAGACTCGAACAATCTTTGGCAAACGGGTTTG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATC-TTCACAAACGTGTCCG
** * ** * * * *
778712 CTCTTTCTTATTTCAATGAGTATGGGGCTCGAACAATCTTCAACAAATGTGTCTG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTC-ACAAACGTGTCCG
* *
778767 CTCCCTCTTCTTTCAGGGAATATAGGA-T-----AATCTTCATAAAACAG-GTCCG
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCA-CAAAC-GTGTCCG
* * *
778816 CTCCCTCTTCTTTTAAGGAGTATAGGACTCGAAAAATCTTC
1 CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTC
778857 GGAAAACAAG
Statistics
Matches: 573, Mismatches: 105, Indels: 28
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.00
49 38 0.07
50 2 0.00
52 41 0.07
54 3 0.01
55 485 0.85
56 3 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (54 bp):
CTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCACAAACGTGTCCG
Found at i:778401 original size:165 final size:165
Alignment explanation
Indices: 778103--778856 Score: 891
Period size: 165 Copynumber: 4.6 Consensus size: 165
778093 TTCGAAAAAT
*
778103 GGGTCTTCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
1 GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
* * *
778168 CCTTTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAATGGGTCCGCTCCCTCTTATTT
66 CCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTCCCTCTTATTT
*
778233 TAGGGAGTATAGGACTCGAAAAATCTTCAGCAAAC
131 CAGGGAGTATAGGACTCGAAAAATCTTCAGCAAAC
* *
778268 GTGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACATGTCCGCTC
1 GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
* * * * * * * * *
778333 CCTCTTCTTTCAAGGAGCATTGGACTCGAAAAATCTTCAGTAAACGTTTCCACTCCCTATTCTTT
66 CCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTCCCTCTTATTT
* *
778398 TAGGGAGTATAGGACTC-AAACAATCTTTAGCAAAC
131 CAGGGAGTATAGGACTCGAAA-AATCTTCAGCAAAC
* * *
778433 GGGTCTACTCCCTCTTCTTTCAGGGAGTATAGGACTTGAACAATCTTCATCAAACGTGTCCGCTC
1 GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
* * * * *
778498 CCTTTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAACAAATGTGACCGCTCCCTCTTCTTT
66 CCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTCCCTCTTATTT
* *
778563 CAGGGAGTATAGGACTCGAACAA---TCGGCAAAC
131 CAGGGAGTATAGGACTCGAAAAATCTTCAGCAAAC
* * * * * * *
778595 GGGTTTGCTCCTTCTTCTTTCAAGGAGTATATGACTCGAATAATCTTTAGTAAACGTGTCCGCTC
1 GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
* * ** * ** **
778660 CCTCTTCTTTTAGGGAGTATAAGACTCGAACAATCTTTGGCAAACGGGTTTGCTCTTTCTTATTT
66 CCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTCCCTCTTATTT
** * * * * *
778725 CAATGAGTATGGGGCTCGAACAATCTTCAACAAAT
131 CAGGGAGTATAGGACTCGAAAAATCTTCAGCAAAC
* * **
778760 GTGTCTGCTCCCTCTTCTTTCAGGGAATATAGGA-T-----AATCTTCATAAAACAG-GTCCGCT
1 GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAAC-GTGTCCGCT
* * *
778818 CCCTCTTCTTTTAAGGAGTATAGGACTCGAAAAATCTTC
65 CCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTC
778857 GGAAAACAAG
Statistics
Matches: 502, Mismatches: 81, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
159 53 0.11
160 1 0.00
162 132 0.26
164 4 0.01
165 310 0.62
166 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (165 bp):
GGGTCTGCTCCCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTC
CCTCTTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGCAAACGTGTCCGCTCCCTCTTATTT
CAGGGAGTATAGGACTCGAAAAATCTTCAGCAAAC
Found at i:793607 original size:22 final size:22
Alignment explanation
Indices: 793582--793624 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
793572 CAACAAGAAC
*
793582 TGAAATTAACCCTAACCGAAAT
1 TGAAATTAACCCGAACCGAAAT
*
793604 TGAAATTAACCCGAACTGAAA
1 TGAAATTAACCCGAACCGAAA
793625 ACAATCCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (22 bp):
TGAAATTAACCCGAACCGAAAT
Found at i:793620 original size:38 final size:38
Alignment explanation
Indices: 793560--793642 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
793550 TAAAATTTAG
* ** *
793560 CGAAACTGAAATCAACAAGAACTGAAATTAACCCTAAC
1 CGAAATTGAAATCAACAAGAACTGAAAACAACCCGAAC
* ** *
793598 CGAAATTGAAATTAACCCGAACTGAAAACAATCCGAAC
1 CGAAATTGAAATCAACAAGAACTGAAAACAACCCGAAC
793636 CGAAATT
1 CGAAATT
793643 AACACAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.48, C:0.23, G:0.12, T:0.17
Consensus pattern (38 bp):
CGAAATTGAAATCAACAAGAACTGAAAACAACCCGAAC
Found at i:793623 original size:16 final size:16
Alignment explanation
Indices: 793605--793693 Score: 63
Period size: 16 Copynumber: 5.6 Consensus size: 16
793595 AACCGAAATT
*
793605 GAAATTAACCCGAACT
1 GAAATTAACCCGAACC
** *
793621 GAAAACAATCCGAACC
1 GAAATTAACCCGAACC
* * **
793637 GAAATTAACACAAATT
1 GAAATTAACCCGAACC
**
793653 GAAAGAAACCCGAACC
1 GAAATTAACCCGAACC
793669 GAATATTAACCC-AACC
1 GAA-ATTAACCCGAACC
*
793685 GAATTTAAC
1 GAAATTAAC
793694 TCGACCCAAA
Statistics
Matches: 52, Mismatches: 20, Indels: 3
0.69 0.27 0.04
Matches are distributed among these distances:
15 5 0.10
16 41 0.79
17 6 0.12
ACGTcount: A:0.48, C:0.25, G:0.11, T:0.16
Consensus pattern (16 bp):
GAAATTAACCCGAACC
Found at i:793641 original size:32 final size:32
Alignment explanation
Indices: 793605--793682 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
793595 AACCGAAATT
* *
793605 GAAATTAACCCGAACTGAAA-ACAATCCGAACC
1 GAAATTAACCCAAACTGAAAGA-AACCCGAACC
* *
793637 GAAATTAACACAAATTGAAAGAAACCCGAACC
1 GAAATTAACCCAAACTGAAAGAAACCCGAACC
793669 GAATATTAACCCAA
1 GAA-ATTAACCCAA
793683 CCGAATTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 29 0.74
33 10 0.26
ACGTcount: A:0.50, C:0.24, G:0.12, T:0.14
Consensus pattern (32 bp):
GAAATTAACCCAAACTGAAAGAAACCCGAACC
Found at i:798962 original size:379 final size:379
Alignment explanation
Indices: 798263--799025 Score: 1481
Period size: 379 Copynumber: 2.0 Consensus size: 379
798253 TGGAAAATAA
*
798263 ACCAAGTACAAGTAATATCCCTATAACCAGATTATTGAGAATGCAAAATAAAAGCGGAAAAATAA
1 ACCAAGTACAAGTAATATCCCTATAACCAGATTAGTGAGAATGCAAAATAAAAGCGGAAAAATAA
*
798328 TACCCGAAATTGATAACGGAGTTCAGCCAATTGTGCTTACGTCTCCGGACTGCTGCAGATCTTTT
66 TACCCGAAATTGATAACGGAGTTCAGCCAACTGTGCTTACGTCTCCGGACTGCTGCAGATCTTTT
798393 ACTAAGAGAGAAAATTTACAGGTGTTTACAAAACACTCACTACTCACAAGAAAACTCTCTAGTAT
131 ACTAAGAGAGAAAATTTACAGGTGTTTACAAAACACTCACTACTCACAAGAAAACTCTCTAGTAT
798458 TGGGAGAAAGAAATGATTTTTGGGATGGTTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAA
196 TGGGAGAAAGAAATGATTTTTGGGATGGTTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAA
*
798523 ACTTAAGGACTTAATCTTGTAAATACCCTAAAGCCTAGGGATTAATTATGATTATCCCATTATCA
261 ACTTAAGGACTTAATCTTGTAAATACCCTAAAACCTAGGGATTAATTATGATTATCCCATTATCA
798588 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
326 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
*
798642 ACCAAGTACAAGTAATTTCCCTATAACCAGATTAGTGAGAATGCAAAATAAAAGCGGAAAAATAA
1 ACCAAGTACAAGTAATATCCCTATAACCAGATTAGTGAGAATGCAAAATAAAAGCGGAAAAATAA
798707 TACCCGAAATTGATAACGGAGTTCAGCCAACTGTGCTTACGTCTCCGGACTGCTGCAGATCTTTT
66 TACCCGAAATTGATAACGGAGTTCAGCCAACTGTGCTTACGTCTCCGGACTGCTGCAGATCTTTT
*
798772 ACTAAGAGAGAAAATTTGCAGGTGTTTACAAAACACTCACTACTCACAAGAAAACTCTCTAGTAT
131 ACTAAGAGAGAAAATTTACAGGTGTTTACAAAACACTCACTACTCACAAGAAAACTCTCTAGTAT
798837 TGGGAGAAAGAAATGATTTTTGGGATGGTTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAA
196 TGGGAGAAAGAAATGATTTTTGGGATGGTTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAA
798902 ACTTAAGGACTTAATCTTGTAAATACCCTAAAACCTAGGGATTAATTATGATTATCCCATTATCA
261 ACTTAAGGACTTAATCTTGTAAATACCCTAAAACCTAGGGATTAATTATGATTATCCCATTATCA
798967 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
326 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
799021 ACCAA
1 ACCAA
799026 ACTTTGAAAA
Statistics
Matches: 379, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
379 379 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (379 bp):
ACCAAGTACAAGTAATATCCCTATAACCAGATTAGTGAGAATGCAAAATAAAAGCGGAAAAATAA
TACCCGAAATTGATAACGGAGTTCAGCCAACTGTGCTTACGTCTCCGGACTGCTGCAGATCTTTT
ACTAAGAGAGAAAATTTACAGGTGTTTACAAAACACTCACTACTCACAAGAAAACTCTCTAGTAT
TGGGAGAAAGAAATGATTTTTGGGATGGTTTTGAAGCTAAATGAGCTAGGGTATTTATAGTTGAA
ACTTAAGGACTTAATCTTGTAAATACCCTAAAACCTAGGGATTAATTATGATTATCCCATTATCA
TTTTTCAACAAACATCTACCAAACTTTGAAAAACTATTTTTCAAAGAAACATTT
Found at i:799040 original size:21 final size:21
Alignment explanation
Indices: 799016--799076 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
799006 TTCAAAGAAA
799016 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
799037 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
799051 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
799072 CATTT
1 CATTT
799077 TTTTCAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:799050 original size:35 final size:35
Alignment explanation
Indices: 798968--799077 Score: 168
Period size: 35 Copynumber: 3.1 Consensus size: 35
798958 CCATTATCAT
* * *
798968 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTG-AAAACCA
799003 TTTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
799039 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
799074 TTTT
1 TTTT
799078 TTTCAAAGTT
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 39 0.56
36 11 0.16
37 20 0.29
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (35 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAAACCA
Found at i:803044 original size:12 final size:12
Alignment explanation
Indices: 803027--803051 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
803017 ACTATTCACG
803027 TGAATAGTAACC
1 TGAATAGTAACC
803039 TGAATAGTAACC
1 TGAATAGTAACC
803051 T
1 T
803052 CGCAAAAAAT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAATAGTAACC
Found at i:808282 original size:168 final size:168
Alignment explanation
Indices: 807997--808337 Score: 637
Period size: 168 Copynumber: 2.0 Consensus size: 168
807987 ACCTTTGTTA
807997 AGCCTGAAAGTAGCTTTTGCTCCACATGGACTTTCATTCCTTGTTCTGACATGTGTCCAAGTTTC
1 AGCCTGAAAGTAGCTTTTGCTCCACATGGACTTTCATTCCTTGTTCTGACATGTGTCCAAGTTTC
* *
808062 TGATGCTATAGCATTGTAGAATCTGAACTACATGAGGTAACAGAGGCTTCTTCTTGTAGCAAAGT
66 TGATGCCATAGCATTGTAGAATCTGAACTACATGAGGTAACAGAGGCTTCTTCTTGTAGAAAAGT
808127 CTTTCCCTTCAGCATATACAAGTTTGATGCTATCTTTT
131 CTTTCCCTTCAGCATATACAAGTTTGATGCTATCTTTT
*
808165 AGCCTGGAAGTAGCTTTTGCTCCACATGGACTTTCATTCCTTGTTCTGACATGTGTCCAAGTTTC
1 AGCCTGAAAGTAGCTTTTGCTCCACATGGACTTTCATTCCTTGTTCTGACATGTGTCCAAGTTTC
808230 TGATGCCATAGCATTGTAGAATCTGAACTACATGAGGTAACAGAGGCTTCTTCTTGTAGAAAAGT
66 TGATGCCATAGCATTGTAGAATCTGAACTACATGAGGTAACAGAGGCTTCTTCTTGTAGAAAAGT
* *
808295 CTTTCCCTTCAGCATGTACAAGTTTGCTGCTATCTTTT
131 CTTTCCCTTCAGCATATACAAGTTTGATGCTATCTTTT
808333 AGCCT
1 AGCCT
808338 TTCATCACCA
Statistics
Matches: 168, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (168 bp):
AGCCTGAAAGTAGCTTTTGCTCCACATGGACTTTCATTCCTTGTTCTGACATGTGTCCAAGTTTC
TGATGCCATAGCATTGTAGAATCTGAACTACATGAGGTAACAGAGGCTTCTTCTTGTAGAAAAGT
CTTTCCCTTCAGCATATACAAGTTTGATGCTATCTTTT
Found at i:811467 original size:2 final size:2
Alignment explanation
Indices: 811462--811490 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
811452 ATAGTGTGTG
811462 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
811491 GAAATTATAA
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:817513 original size:63 final size:63
Alignment explanation
Indices: 817414--817540 Score: 254
Period size: 63 Copynumber: 2.0 Consensus size: 63
817404 ACCTTATCGA
817414 TTCTTTGTCCGCACATGAGATAAAACTTAACAATATGGTTTAAGAAGAGAAATGAGACCAGGT
1 TTCTTTGTCCGCACATGAGATAAAACTTAACAATATGGTTTAAGAAGAGAAATGAGACCAGGT
817477 TTCTTTGTCCGCACATGAGATAAAACTTAACAATATGGTTTAAGAAGAGAAATGAGACCAGGT
1 TTCTTTGTCCGCACATGAGATAAAACTTAACAATATGGTTTAAGAAGAGAAATGAGACCAGGT
817540 T
1 T
817541 AGGTTAGTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (63 bp):
TTCTTTGTCCGCACATGAGATAAAACTTAACAATATGGTTTAAGAAGAGAAATGAGACCAGGT
Found at i:819831 original size:43 final size:43
Alignment explanation
Indices: 819766--820015 Score: 240
Period size: 43 Copynumber: 5.9 Consensus size: 43
819756 TGAGAACAAA
* * * *
819766 AAACGCCGCAATAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGTCGCAAAAGTTCGAGATCTATAGCGGCGTTTTTGGAAC
** **
819809 AAACGAAGCAAAAGTTCGAGATCTATAGC-G-GTTTTTTAAAC
1 AAACGTCGCAAAAGTTCGAGATCTATAGCGGCGTTTTTGGAAC
** * * * *
819850 AAACCCCACAAAAGGTCGTGATATATAGCGGCGTTTTTGGAAC
1 AAACGTCGCAAAAGTTCGAGATCTATAGCGGCGTTTTTGGAAC
* * * * *
819893 AAATGTCGCAAAAGTTTGA-AACATATAGCGGCGTATTTGGAAT
1 AAACGTCGCAAAAGTTCGAGATC-TATAGCGGCGTTTTTGGAAC
* *
819936 AAATGTCGTAAAAGGTT-GAGATCTATAGCGGCGTTTTTGGAAC
1 AAACGTCGCAAAA-GTTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
819979 AAACGTCGCAAAAGGTC-ATATCTATAGCGGCGTTTTT
1 AAACGTCGCAAAAGTTCGAGATCTATAGCGGCGTTTTT
820016 TATACAAACG
Statistics
Matches: 166, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
41 31 0.19
42 24 0.14
43 106 0.64
44 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (43 bp):
AAACGTCGCAAAAGTTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:824595 original size:15 final size:15
Alignment explanation
Indices: 824553--824596 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
824543 AATCATTTTA
824553 ATTTGTTTATTTAATT
1 ATTT-TTTATTTAATT
*
824569 ATTTTTCT-TTTATTT
1 ATTTTT-TATTTAATT
824584 ATTTTTTATTTAA
1 ATTTTTTATTTAA
824597 AAAACAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTTATTTAATT
Found at i:830005 original size:5 final size:5
Alignment explanation
Indices: 829987--830051 Score: 62
Period size: 5 Copynumber: 12.8 Consensus size: 5
829977 ACCCATTTCG
** *
829987 TTTTA TTTTCA TTTTA -TTTA -TTTA TTTTA TTTTA TTTTA TTAGA TGCTTAA
1 TTTTA TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T--TTTA
830038 TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
830052 TCTCTGAACA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
4 8 0.16
5 35 0.69
6 5 0.10
7 3 0.06
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:830020 original size:18 final size:19
Alignment explanation
Indices: 829988--830023 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
829978 CCCATTTCGT
829988 TTTATTTTCATTTTATTTA
1 TTTATTTTCATTTTATTTA
830007 TTTATTTT-ATTTTATTT
1 TTTATTTTCATTTTATTT
830024 TATTAGATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTCATTTTATTTA
Found at i:830045 original size:27 final size:23
Alignment explanation
Indices: 829987--830051 Score: 76
Period size: 27 Copynumber: 2.6 Consensus size: 23
829977 ACCCATTTCG
*
829987 TTTTATTTTCATTTTATTTATTTA
1 TTTTATTTT-ATTTTATTGATTTA
830011 TTTTATTTTATTTTATTAGATGCTTAA
1 TTTTATTTTATTTTATT-GAT--TT-A
830038 TTTTATTTTATTTT
1 TTTTATTTTATTTT
830052 TCTCTGAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
23 8 0.22
24 11 0.31
26 2 0.06
27 15 0.42
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTATTTTATTTTATTGATTTA
Found at i:832340 original size:15 final size:15
Alignment explanation
Indices: 832298--832341 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
832288 AATCTCTTTA
832298 ATTTGTTTATTTAATT
1 ATTT-TTTATTTAATT
*
832314 ATTTTTCT-TTTATTT
1 ATTTTT-TATTTAATT
832329 ATTTTTTATTTAA
1 ATTTTTTATTTAA
832342 AAAAAACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
ATTTTTTATTTAATT
Found at i:834214 original size:82 final size:83
Alignment explanation
Indices: 833978--834245 Score: 278
Period size: 82 Copynumber: 3.3 Consensus size: 83
833968 TTTAGCAGCG
* * *
833978 TTTGTATAAAAACGCCACTAAAAC-AAT-AGTTTATAGC-GTCGTTTTTACAAAAATGCCACTAA
1 TTTGTATAAAAACGCCACT-AAACGTATGAGTTTATAGCGGT-GTTTATATAAAAATGCCACTAA
* *
834040 AACAA-GAGTCTATAGCAACA
64 AA-AACGAGTCTATAACGACA
* * * * * * * *
834060 TTTATATAAAAACGCCACTGAA-GTACGAGTTTTTACCGGCGTTTGTATAAAAATGCCACTAAAG
1 TTTGTATAAAAACGCCACTAAACGTATGAGTTTATAGCGGTGTTTATATAAAAATGCCACTAAAA
* *
834124 CACGAGTCTTTAACGACA
66 AACGAGTCTATAACGACA
* *
834142 TTTGTATAAAAACGCCACT-AACGTATGAGTCTATAGCGGTGTTTATATAAAAACGCCACTAAAA
1 TTTGTATAAAAACGCCACTAAACGTATGAGTTTATAGCGGTGTTTATATAAAAATGCCACTAAAA
* *
834206 AACAAGTCTATAACGACG
66 AACGAGTCTATAACGACA
* *
834224 TTTGTACAAAAATGCCACTAAA
1 TTTGTATAAAAACGCCACTAAA
834246 ATACACGTCT
Statistics
Matches: 151, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
81 6 0.04
82 142 0.94
83 3 0.02
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (83 bp):
TTTGTATAAAAACGCCACTAAACGTATGAGTTTATAGCGGTGTTTATATAAAAATGCCACTAAAA
AACGAGTCTATAACGACA
Found at i:834256 original size:41 final size:40
Alignment explanation
Indices: 833976--834267 Score: 206
Period size: 41 Copynumber: 7.1 Consensus size: 40
833966 TCTTTAGCAG
* * *
833976 CGTTTGTATAAAAACGCCACTAAAACAATAGTTTATAGCGT
1 CGTTTGTATAAAAACGCCACTAAAAC-ACAGTCTATAGCGA
* * * * *
834017 CGTTTTTACAAAAATGCCACTAAAACAAGAGTCTATAGCAA
1 CGTTTGTATAAAAACGCCACTAAAAC-ACAGTCTATAGCGA
* * * ** * * * *
834058 CATTTATATAAAAACGCCACTGAAGTACGAGTTTTTACCGG
1 CGTTTGTATAAAAACGCCACTAAAACAC-AGTCTATAGCGA
* * * *
834099 CGTTTGTATAAAAATGCCACTAAAGCACGAGTCTTTAACGA
1 CGTTTGTATAAAAACGCCACTAAAACAC-AGTCTATAGCGA
* *** * *
834140 CATTTGTATAAAAACGCCACTAACGTATGAGTCTATAGCGG
1 CGTTTGTATAAAAACGCCACTAAAACA-CAGTCTATAGCGA
* * * *
834181 TGTTTATATAAAAACGCCACTAAAAAACAAGTCTATAACGA
1 CGTTTGTATAAAAACGCCACTAAAACAC-AGTCTATAGCGA
* * * *
834222 CGTTTGTACAAAAATGCCACTAAAATACACGTCTATAGCGG
1 CGTTTGTATAAAAACGCCACTAAAACACA-GTCTATAGCGA
834263 CGTTT
1 CGTTT
834268 TTAAAATACT
Statistics
Matches: 195, Mismatches: 52, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
40 2 0.01
41 193 0.99
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (40 bp):
CGTTTGTATAAAAACGCCACTAAAACACAGTCTATAGCGA
Found at i:837010 original size:6 final size:6
Alignment explanation
Indices: 837001--837027 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
836991 CGAAAATTAA
837001 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
837028 AATTCGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:837141 original size:2 final size:2
Alignment explanation
Indices: 837134--837188 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
837124 CAAAGGGAAA
837134 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
837176 AT CT AT AA AT AT A
1 AT AT AT AT AT AT A
837189 AAAATAATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:837283 original size:16 final size:15
Alignment explanation
Indices: 837256--837286 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
837246 CATAGCAAAT
837256 AATAAATAATAATAA
1 AATAAATAATAATAA
837271 AATAAAGTAATAATAA
1 AATAAA-TAATAATAA
837287 TATATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AATAAATAATAATAA
Found at i:837426 original size:17 final size:16
Alignment explanation
Indices: 837383--837430 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
837373 TAATAGTAAG
* **
837383 AAATAAAAAAAACCAA
1 AAATAAAAAATATAAA
*
837399 AAATAAGAAATATAAA
1 AAATAAAAAATATAAA
837415 AAATAGAAAAATATAA
1 AAATA-AAAAATATAA
837431 CTAAAAACGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (16 bp):
AAATAAAAAATATAAA
Found at i:839200 original size:106 final size:106
Alignment explanation
Indices: 839013--839336 Score: 418
Period size: 106 Copynumber: 3.0 Consensus size: 106
839003 GTTGTGAAGT
*
839013 TGAAATTGGGAAATTGTTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 TGAAAATGGGAAATTG-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* * *
839078 TCTGGAGTTCACTATCCTTCGTTGTGAAGTTGAAATTGGGTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
839120 TGAAAATGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAAATGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
839185 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATCGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* ** ** * * *
839226 TG-AAATCGGGAAGTTGTTGGTTGACAGTCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
1 TGAAAAT-GGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* * * * *
839290 TCTCGG-GTAGCACGATATCCTCCGTCGTGGAGTTGAAATTGGTTC
65 TCT-GGAGT--C-CAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
839335 TG
1 TG
839337 GAATCTTCAA
Statistics
Matches: 193, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
105 4 0.02
106 142 0.74
107 17 0.09
108 1 0.01
109 29 0.15
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (106 bp):
TGAAAATGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:839817 original size:65 final size:65
Alignment explanation
Indices: 839713--839893 Score: 299
Period size: 65 Copynumber: 2.8 Consensus size: 65
839703 GACAAAATTT
839713 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
839778 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
839843 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
839894 CTATCTCAAG
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 93 0.87
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:839884 original size:102 final size:101
Alignment explanation
Indices: 839778--840133 Score: 577
Period size: 102 Copynumber: 3.5 Consensus size: 101
839768 TCAATGTTTA
* **
839778 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
839843 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGA-AAAATTT
839880 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * *
839945 TGTTTCAAGAGAAACTGTCTCGATGGAGAAGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGAA-AAATTT
*
839982 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
840047 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAG-AAAAATTT
* * * **
840084 TGTTTCAAGGGAAACTGTCTCAATAGAGACAAAGTTTGTTTCAAGGGAAA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA
840134 CTGTCTCAAG
Statistics
Matches: 236, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
101 1 0.00
102 233 0.99
103 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (101 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAATTT
Found at i:839894 original size:37 final size:37
Alignment explanation
Indices: 839843--840151 Score: 200
Period size: 37 Copynumber: 8.9 Consensus size: 37
839833 TCAATGTTTA
* *
839843 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
*
839880 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
839916 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
839944 ATGTTTCAAGAGAAACTGTCTCGATG-GAGA-AGGAATTT
1 -TGTTTCAAGGGAAACTGTCTC-AAGAGAGACA-AAATTT
* *
839982 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-CT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
** * *
840018 CATTTCAAGGGAAA-TGTTTTC-A-A-TG------TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGAGAGACAAAATTT
* * *
840046 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
840084 TGTTTCAAGGGAAACTGTCTCAATAGAGAC-AAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
840120 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
840152 TGGTGAGCAC
Statistics
Matches: 205, Mismatches: 37, Indels: 60
0.68 0.12 0.20
Matches are distributed among these distances:
28 3 0.01
29 28 0.14
30 5 0.02
32 2 0.01
33 2 0.01
34 2 0.01
35 4 0.02
36 69 0.34
37 83 0.40
38 7 0.03
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:839953 original size:50 final size:50
Alignment explanation
Indices: 839899--840058 Score: 119
Period size: 50 Copynumber: 3.2 Consensus size: 50
839889 GGAAACTATC
839899 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
*** ** * * * * *** * *
839949 TCAAGAGA-A-ACTGTCTCGA-TGGAGAAGGAATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAAT-TC-ATTTCA-AGGGAAATGT-TTTCAATGTTTA-TGTT
*
840001 TCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
1 TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
840051 TCAAGAGA
1 TCAAGAGA
840059 AACTGTCTCA
Statistics
Matches: 73, Mismatches: 29, Indels: 16
0.62 0.25 0.14
Matches are distributed among these distances:
48 2 0.03
49 5 0.07
50 26 0.36
51 16 0.22
52 18 0.25
53 5 0.07
54 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (50 bp):
TCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTT
Found at i:840129 original size:36 final size:36
Alignment explanation
Indices: 840047--840151 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
840037 TCAATGTTTA
* * * *
840047 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAG-ACAAAGTT
*
840084 TGTTTCAAGGGAAACTGTCTCAATAGAGACAAAGTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
840120 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
840152 TGGTGAGCAC
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 37 0.60
37 25 0.40
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAGTT
Found at i:841059 original size:22 final size:22
Alignment explanation
Indices: 841034--841077 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
841024 ATTTTTGTTC
841034 ATTTGATGCT-AAATGGTTTGAT
1 ATTTGATGCTCAAA-GGTTTGAT
841056 ATTTGATGCTCAAAGGTTTGAT
1 ATTTGATGCTCAAAGGTTTGAT
841078 GGGGTAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (22 bp):
ATTTGATGCTCAAAGGTTTGAT
Found at i:841761 original size:16 final size:16
Alignment explanation
Indices: 841729--841768 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
841719 CTCTTTTTTC
841729 TTTGTT-TTTTGCTTT
1 TTTGTTCTTTTGCTTT
841744 TTTGCTTCTTTT-CTTT
1 TTTG-TTCTTTTGCTTT
841760 TTTGTTCTT
1 TTTGTTCTT
841769 GATTGAATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 10 0.43
17 4 0.17
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (16 bp):
TTTGTTCTTTTGCTTT
Found at i:842945 original size:22 final size:20
Alignment explanation
Indices: 842919--842963 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
842909 ATTTAATTTC
*
842919 ATGTATATGAAAATGCTTAAAA
1 ATGTAGATGAAAATGC--AAAA
*
842941 ATGTAGATGAAGATGCAAAA
1 ATGTAGATGAAAATGCAAAA
842961 ATG
1 ATG
842964 CAAGAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
22 14 0.67
ACGTcount: A:0.49, C:0.04, G:0.20, T:0.27
Consensus pattern (20 bp):
ATGTAGATGAAAATGCAAAA
Found at i:844917 original size:10 final size:11
Alignment explanation
Indices: 844902--844940 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
844892 GATCATAGCA
844902 AATAAT-AAAT
1 AATAATAAAAT
844912 AATAATAAAAT
1 AATAATAAAAT
*
844923 AA-AGTAAAAT
1 AATAATAAAAT
844933 AATAATAA
1 AATAATAA
844941 TATATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:845080 original size:17 final size:16
Alignment explanation
Indices: 845037--845084 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
845027 TAATAGTAAG
* **
845037 AAATAAAAAAAACCAA
1 AAATAAAAAATATAAA
*
845053 AAATAAGAAATATAAA
1 AAATAAAAAATATAAA
845069 AAATAGAAAAATATAA
1 AAATA-AAAAATATAA
845085 CTAAAACGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.15
Consensus pattern (16 bp):
AAATAAAAAATATAAA
Found at i:847676 original size:15 final size:15
Alignment explanation
Indices: 847656--847718 Score: 92
Period size: 15 Copynumber: 4.3 Consensus size: 15
847646 ATTATCGATG
847656 AATTTTTATATAAAT
1 AATTTTTATATAAAT
847671 AA-TTTTATATAAAT
1 AATTTTTATATAAAT
* *
847685 ACTTTTTATTTAAAT
1 AATTTTTATATAAAT
*
847700 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
847715 AATT
1 AATT
847719 AAAATTTCAC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
14 13 0.30
15 31 0.70
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:847698 original size:29 final size:30
Alignment explanation
Indices: 847658--847715 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
847648 TATCGATGAA
847658 TTTTTATATAAATAA-TTTTATATAAATAC
1 TTTTTATATAAATAATTTTTATATAAATAC
* *
847687 TTTTTATTTAAATAATTTTTATTTAAATA
1 TTTTTATATAAATAATTTTTATATAAATA
847716 ATTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTTTATATAAATAATTTTTATATAAATAC
Found at i:848345 original size:24 final size:22
Alignment explanation
Indices: 848291--848347 Score: 60
Period size: 25 Copynumber: 2.4 Consensus size: 22
848281 CAAACGTGAG
*
848291 AATAATAAATAAAACAAGAAAA
1 AATAATAAACAAAACAAGAAAA
*
848313 AATGGAATATAACAAAACACGAAAAA
1 AAT--AATA-AACAAAACAAG-AAAA
848339 AATAATAAA
1 AATAATAAA
848348 AATAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 8 0.28
25 9 0.31
26 7 0.24
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (22 bp):
AATAATAAACAAAACAAGAAAA
Found at i:848358 original size:19 final size:19
Alignment explanation
Indices: 848336--848377 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
848326 AAAACACGAA
848336 AAAAATAATA-AAAATAAAT
1 AAAAATAA-ACAAAATAAAT
*
848355 AAAAATAAACAAAATGAAT
1 AAAAATAAACAAAATAAAT
848374 AAAA
1 AAAA
848378 TGTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAATAAACAAAATAAAT
Found at i:848379 original size:9 final size:10
Alignment explanation
Indices: 848336--848377 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
848326 AAAACACGAA
848336 AAAAAT-AAT
1 AAAAATAAAT
848345 AAAAATAAAT
1 AAAAATAAAT
848355 AAAAATAAA-
1 AAAAATAAAT
* *
848364 CAAAATGAAT
1 AAAAATAAAT
848374 AAAA
1 AAAA
848378 TGTTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:848603 original size:18 final size:18
Alignment explanation
Indices: 848568--848628 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 18
848558 TGATATTAAG
* *
848568 AAAA-AAAATAATGGAAA
1 AAAATAAAATAAAGTAAA
848585 AAAATAAAATAAAGTAAA
1 AAAATAAAATAAAGTAAA
* * *
848603 AATATAATATATA-TAAA
1 AAAATAAAATAAAGTAAA
*
848620 TAAATAAAA
1 AAAATAAAA
848629 ACAAAAATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 14 0.40
18 21 0.60
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (18 bp):
AAAATAAAATAAAGTAAA
Found at i:848690 original size:16 final size:16
Alignment explanation
Indices: 848600--848679 Score: 60
Period size: 16 Copynumber: 5.1 Consensus size: 16
848590 AAAATAAAGT
848600 AAAAATATAATATAT-
1 AAAAATATAATATATA
* * *
848615 ATAAATA-AATAAAAA
1 AAAAATATAATATATA
*
848630 CAAAAATAGAATAT-TA
1 -AAAAATATAATATATA
848646 AGAAAATAT-ATATATA
1 A-AAAATATAATATATA
*
848662 AAAACATATAAAATATA
1 AAAA-ATATAATATATA
848679 A
1 A
848680 TATTAAGAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
14 5 0.10
15 14 0.28
16 20 0.40
17 11 0.22
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATATAATATATA
Found at i:848737 original size:2 final size:2
Alignment explanation
Indices: 848730--848780 Score: 68
Period size: 2 Copynumber: 25.0 Consensus size: 2
848720 TTAATACATC
*
848730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TGA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA TA
848774 TA -A TA TA
1 TA TA TA TA
848781 AATAAAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
1 1 0.02
2 40 0.91
3 3 0.07
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:848804 original size:20 final size:19
Alignment explanation
Indices: 848776--848830 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
848766 GATATATATA
**
848776 ATATAAATAAAAAAGGAAT
1 ATATAAATAAAAAAAAAAT
848795 ATAGTAAATAAATAAAAAAAT
1 ATA-TAAATAAA-AAAAAAAT
*
848816 ATATAATTAAAAAAA
1 ATATAAATAAAAAAA
848831 TATATATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 15 0.48
21 9 0.29
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (19 bp):
ATATAAATAAAAAAAAAAT
Found at i:848821 original size:16 final size:16
Alignment explanation
Indices: 848802--848836 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
848792 AATATAGTAA
848802 ATAAATAAAAAAATAT
1 ATAAATAAAAAAATAT
*
848818 ATAATTAAAAAAATAT
1 ATAAATAAAAAAATAT
848834 ATA
1 ATA
848837 TGTAGGGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATAAAAAAATAT
Found at i:848826 original size:24 final size:23
Alignment explanation
Indices: 848769--848813 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
848759 GATATGAGAT
848769 ATATA-TAATATAAATAAAAAAGGA
1 ATATAGTAA-ATAAATAAAAAA-GA
848793 ATATAGTAAATAAATAAAAAA
1 ATATAGTAAATAAATAAAAAA
848814 ATATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
ATATAGTAAATAAATAAAAAAGA
Found at i:851231 original size:67 final size:65
Alignment explanation
Indices: 851124--851307 Score: 174
Period size: 65 Copynumber: 2.8 Consensus size: 65
851114 AAGATATCTG
* ** * ** **
851124 TTGTTTCATGA-AAACGGTCTCAAGGGAAACAAGTTTTTGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTATCTCAAGGGAGACAA-AATTTGTTTTAAGGGAAATAAATTCAAAGA-
*
851188 TT
64 TA
851190 TGTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTT-AGGGCAAATAAATTCAAAGA
1 T-TGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTTAAGGG-AAATAAATTCAAAGA
851254 TA
64 TA
* * * ** * *
851256 TTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAAT
1 TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTTAAGGGAAAT
851308 TGTCTCAAAA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
65 40 0.41
66 10 0.10
67 30 0.31
68 18 0.18
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTATCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATA
Found at i:851292 original size:65 final size:67
Alignment explanation
Indices: 851159--851307 Score: 178
Period size: 65 Copynumber: 2.3 Consensus size: 67
851149 GAAACAAGTT
** * *
851159 TTTGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGAAACTATCTCAAGGGAGACAA
1 TTTGTTTTAAGGGAAATAAATTCAAAGATTATGTGTTTCAAGAGAAACTATCTCAAGAGAGACAA
851224 AA
66 AA
* * **
851226 TTTGTTTT-AGGGCAAATAAATTCAAAGA-TAT-TGTTTCAAGGGAAACTGTCTCAAGAGAGATG
1 TTTGTTTTAAGGG-AAATAAATTCAAAGATTATGTGTTTCAAGAGAAACTATCTCAAGAGAGACA
851288 AAA
65 AAA
* *
851291 TTTGTTTCAAGAGAAAT
1 TTTGTTTTAAGGGAAAT
851308 TGTCTCAAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
65 40 0.57
66 9 0.13
67 21 0.30
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (67 bp):
TTTGTTTTAAGGGAAATAAATTCAAAGATTATGTGTTTCAAGAGAAACTATCTCAAGAGAGACAA
AA
Found at i:851312 original size:36 final size:36
Alignment explanation
Indices: 851256--851480 Score: 191
Period size: 36 Copynumber: 6.4 Consensus size: 36
851246 TTCAAAGATA
* *
851256 TTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAT
* * *
851292 TTGTTTCAAGAGAAATTGTCTCAAAAGAGACAAAACT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-T
* * * *
851329 TAG-TTCGAAAAGAAACTGTCTCAAGGGAGATGAAAT
1 TTGTTTC-AAGAGAAACTGTCTCAAGAGAGACGAAAT
* * *
851365 TTGTTTCAA-ATAAAACATAT-TC---A-A-A--TAAT
1 TTGTTTCAAGA-GAAAC-TGTCTCAAGAGAGACGAAAT
* *
851394 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAT
*
851430 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAAT
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAT
* *
851466 TTATTTCAAGTGAAA
1 TTGTTTCAAGAGAAA
851481 TGTTTTCAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
28 2 0.01
29 18 0.12
31 1 0.01
32 2 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 95 0.63
37 30 0.20
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (36 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAT
Found at i:851316 original size:65 final size:65
Alignment explanation
Indices: 851247--851453 Score: 170
Period size: 65 Copynumber: 3.1 Consensus size: 65
851237 GCAAATAAAT
*
851247 TCAAAGATA-TTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAATTGT
1 TCAAAGA-ACTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAAATGT
851311 C
65 C
** *
851312 TCAAAAGAGACAAAACTTAG-TTCGAAAAGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAA-A
1 TC--AA-AG----AACTT-GTTTC-AAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGA
* *
851375 TAAAACATAT-
57 -GAAA-ATGTC
* * ** * *
851385 TCAAATAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTC
1 TCAAAGAACTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAAATGTC
851450 TCAA
1 TCAA
851454 GAGAGACGAA
Statistics
Matches: 110, Mismatches: 17, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
64 2 0.02
65 43 0.39
66 7 0.06
67 2 0.02
68 2 0.02
70 1 0.01
71 3 0.03
72 7 0.06
73 41 0.37
74 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (65 bp):
TCAAAGAACTTGTTTCAAGGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAAATGTC
Found at i:851365 original size:138 final size:138
Alignment explanation
Indices: 851201--851460 Score: 360
Period size: 138 Copynumber: 1.9 Consensus size: 138
851191 GTGTTTCAAG
* ** * *
851201 AGAAACTATCTCAAGGGAGACAAAATTTGTTTTAGGGCAAATAAATTCAAAG-ATATTGTTTCAA
1 AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAAT-TTGTTTCAA
** *
851265 GGGAAACTGTCTCAAGAGAGATGAAATTTGTTTCAAGAGAAATTGTCTCAAAAGAGACAAAACTT
65 GGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAACTT
851330 AGTTCGAAA
130 AGTTCGAAA
* ** * * *
851339 AGAAACTGTCTCAAGGGAGATGAAATTTGTTTCAAATAAAACATATTCAAATAATTTGTTTCAAG
1 AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
* *
851404 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC
66 GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGAC
851461 GAAATTTATT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
138 103 0.98
139 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (138 bp):
AGAAACTATCTCAAGGGAGACAAAATTTGTTTCAAAGAAAACAAATTCAAAGAATTTGTTTCAAG
GGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAAAGAGACAAAACTTA
GTTCGAAA
Found at i:851489 original size:101 final size:101
Alignment explanation
Indices: 851289--851550 Score: 312
Period size: 101 Copynumber: 2.6 Consensus size: 101
851279 AGAGAGATGA
* * * **
851289 AATTTGTTTCAAGAGAAATTGTCTCAAAAGAGACAAAACTTAG-TTCGAAAAGAAACTGTCTCAA
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTC-AAGGGAAACTGTCTCAA
* * *
851353 GGGAGATGAAATTTGTTTCAAATAAAACATATTCAAAT
65 GAGAGACGAAATTTATTTCAAATAAAACATATTC-AAT
*
851391 AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAG
1 AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
* * ** *
851455 AGAGACGAAATTTATTTCAAGTGAAATGTTTTCAAT
66 AGAGACGAAATTTATTTCAAATAAAACATATTCAAT
** * * *
851491 GTTTATCTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTGT
1 AATT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGT
851551 AGACACCCAT
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
100 5 0.04
101 75 0.54
102 58 0.42
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (101 bp):
AATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAG
AGAGACGAAATTTATTTCAAATAAAACATATTCAAT
Found at i:851627 original size:3 final size:3
Alignment explanation
Indices: 851579--851612 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
851569 GGATTATAAA
851579 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
851613 ATGTTACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:860244 original size:9 final size:9
Alignment explanation
Indices: 860223--860340 Score: 77
Period size: 10 Copynumber: 12.8 Consensus size: 9
860213 CTTAAAGATA
860223 AAAAAAATG
1 AAAAAAATG
860232 --AAAAATG
1 AAAAAAATG
860239 AAAAAAATG
1 AAAAAAATG
860248 AAAAAAAATG
1 -AAAAAAATG
860258 AAAAAAAATG
1 -AAAAAAATG
* *
860268 AAAAAATTAA
1 AAAAAAAT-G
860278 ATAGAAAAAT-
1 A-A-AAAAATG
860288 AGAAAAAATGG
1 A-AAAAAAT-G
860299 AAAAAAAAT-
1 -AAAAAAATG
*
860308 AAAAAAA-C
1 AAAAAAATG
*
860316 AAAAAAGAAG
1 AAAAAA-ATG
860326 AAAAAAA-G
1 AAAAAAATG
860334 AAAAAAA
1 AAAAAAA
860341 ACAAAAAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 25
0.75 0.04 0.20
Matches are distributed among these distances:
7 7 0.08
8 21 0.23
9 22 0.24
10 28 0.30
11 8 0.09
12 6 0.07
ACGTcount: A:0.80, C:0.01, G:0.10, T:0.09
Consensus pattern (9 bp):
AAAAAAATG
Found at i:860245 original size:10 final size:10
Alignment explanation
Indices: 860232--860355 Score: 90
Period size: 9 Copynumber: 13.1 Consensus size: 10
860222 AAAAAAAATG
860232 AAAAATG-AA
1 AAAAATGAAA
860241 AAAAATGAAA
1 AAAAATGAAA
860251 AAAAATGAAA
1 AAAAATGAAA
860261 AAAAATG-AA
1 AAAAATGAAA
* *
860270 AAAATTAAATA
1 AAAAATGAA-A
*
860281 GAAAAAT-AGA
1 -AAAAATGAAA
860291 AAAAATGGAAA
1 AAAAAT-GAAA
860302 AAAAAT-AAA
1 AAAAATGAAA
860311 AAAACA--AAA
1 AAAA-ATGAAA
*
860320 AAGAA-G-AA
1 AAAAATGAAA
860328 AAAAA-GAAA
1 AAAAATGAAA
*
860337 AAAAA-CAAA
1 AAAAATGAAA
860346 AAAAAT-AAA
1 AAAAATGAAA
860355 A
1 A
860356 GGGGGTTCAA
Statistics
Matches: 97, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
8 8 0.08
9 52 0.54
10 22 0.23
11 10 0.10
12 5 0.05
ACGTcount: A:0.81, C:0.02, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:860303 original size:1 final size:1
Alignment explanation
Indices: 860299--860355 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
860289 GAAAAAATGG
* * * * * * *
860299 AAAAAAAATAAAAAAACAAAAAAGAAGAAAAAAAGAAAAAAAACAAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
860356 GGGGGTTCAA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.88, C:0.04, G:0.05, T:0.04
Consensus pattern (1 bp):
A
Found at i:861719 original size:55 final size:55
Alignment explanation
Indices: 861635--862026 Score: 612
Period size: 55 Copynumber: 7.2 Consensus size: 55
861625 TGAAGCAAAA
*
861635 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
861690 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
861745 GAAGATT-GTGGA-TCTTATACTCTCTGAAGAAATAGGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACGCGATCGTT
* *
861799 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
861854 GAAGATT-GTGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* * *
861907 GAAGATTGTTCGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
* *
861962 GAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
*
862017 GGAGATTATT
1 GAAGATTATT
862027 GTTCGAGTTC
Statistics
Matches: 307, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
53 68 0.22
54 33 0.11
55 184 0.60
56 22 0.07
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (55 bp):
GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTT
Found at i:861839 original size:109 final size:110
Alignment explanation
Indices: 861635--862026 Score: 684
Period size: 109 Copynumber: 3.6 Consensus size: 110
861625 TGAAGCAAAA
861635 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
861700 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
*
861745 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGGCAGACGCGATCGTTGAAGATTAT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATA-GGGGGCAGACGCGATCGTTGAAGATTAT
861808 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
65 TCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* *
861854 GAAGATTG-TGGA-TCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
* *
861917 CGAGTCTTATACTCTCTGAATAAATAGGGGGCAGACGCGATTGTT
66 CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
* *
861962 GAAAATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGGAGATTATT
1 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
862027 GTTCGAGTTC
Statistics
Matches: 271, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
108 100 0.37
109 114 0.42
110 57 0.21
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (110 bp):
GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTATT
CGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGAT
Done.