Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_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: 7905731
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 39
Found at i:3402456 original size:45 final size:46
Alignment explanation
Indices: 3402407--3402550 Score: 213
Period size: 46 Copynumber: 3.2 Consensus size: 46
3402397 AATGCACCCC
* *
3402407 TATGCATTTCATTTATGGCATCCATTCATG-CCTTTTATATGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
*
3402452 TATGCATTTCATTTATGACATCCTTTCATGCCCCTTTT-TACGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATG-CCCTTTTATACGCTAT
*
3402498 TATACATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGAC-AT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACG-CTAT
3402544 TATGCAT
1 TATGCAT
3402551 AACTATACAT
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
45 35 0.39
46 47 0.53
47 7 0.08
ACGTcount: A:0.22, C:0.23, G:0.10, T:0.45
Consensus pattern (46 bp):
TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
Found at i:3402671 original size:68 final size:68
Alignment explanation
Indices: 3402572--3403181 Score: 920
Period size: 68 Copynumber: 9.0 Consensus size: 68
3402562 TAGTCTTTTA
* * * * *
3402572 CTCAAAGGCATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTTTGTCAAATGCACA-TCT
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGT-T
3402636 AGGC
65 AGGC
* *
3402640 CTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAATTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3402705 GGC
66 GGC
* * * * *
3402708 CTTAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCGCAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
*
3402773 AGC
66 GGC
* *
3402776 CTCAAAGGCACTT-GCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATACACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3402840 GGC
66 GGC
* * * * *
3402843 CTCAAAGGCATTTAGCCTTTCATCTATCTGGCATAATTGACACCTATCTGTAAAATGTACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3402908 GGC
66 GGC
*
3402911 CTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3402975 GGC
66 GGC
* * * **
3402978 CTCAAAGGAACTTAGCCTTTCATCTAACTAGCATAATTGACACATTTCTACCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3403043 GGC
66 GGC
* *
3403046 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGCACAATTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3403111 GGC
66 GGC
* *
3403114 CTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
3403179 GGC
66 GGC
3403182 TATTAATATT
Statistics
Matches: 489, Mismatches: 50, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
67 121 0.25
68 367 0.75
69 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (68 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA
GGC
Found at i:3402842 original size:135 final size:136
Alignment explanation
Indices: 3402572--3403181 Score: 888
Period size: 135 Copynumber: 4.5 Consensus size: 136
3402562 TAGTCTTTTA
* * * * * * *
3402572 CTCAAAGGCATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTTTGTCAAATGCACA-TCT
1 CTCAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGT-T
*
3402636 AGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
65 AGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
3402701 ATTAGGC
130 ATTAGGC
* *
3402708 CTTAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCGCAGTTA
1 CTCAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
* * * *
3402773 AGCCTCAAAGGCACTT-GCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATACACAG
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
3402837 TTAGGC
131 TTAGGC
* * * * * *
3402843 CTCAAAGGCATTTAGCCTTTCATCT-ATCTGGCATAATTGACACCTATCTGTAAAATGTACAGTT
1 CTCAAAGACACTTAGCCTTTCATCTAAT-TGGCATAATTGACACCTTTATGTCAAATGCACAGTT
*
3402907 AGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCACA
65 AGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
*
3402971 GTTAGGC
130 ATTAGGC
* * * * **
3402978 CTCAAAGGA-ACTTAGCCTTTCATCTAACTAGCATAATTGACACATTTCTACCAAATGCACAGTT
1 CTCAAA-GACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTT
*
3403042 AGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGCACA
65 AGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACA
3403107 ATTAGGC
130 ATTAGGC
*
3403114 CTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
1 CTCAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
3403179 GGC
66 GGC
3403182 TATTAATATT
Statistics
Matches: 421, Mismatches: 46, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
134 2 0.00
135 237 0.56
136 181 0.43
137 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (136 bp):
CTCAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCACAGTTA
GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
TTAGGC
Found at i:3402945 original size:203 final size:204
Alignment explanation
Indices: 3402572--3403178 Score: 943
Period size: 203 Copynumber: 3.0 Consensus size: 204
3402562 TAGTCTTTTA
* * * *
3402572 CTCAAAGGCATTTAACCGTTCATCTAACTGGCATGATTGACACCTTT-TTGTCAAATGCACA-TC
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTT-TCAAATGCACAGT-
*
3402635 TAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
64 TAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC
* *
3402700 AATTAGGCCTTAAAGACACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATG
129 AATTAGGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATG
*
3402765 CGCAGTTAAGC
194 CACAGTTAAGC
*
3402776 CTCAAAGGCACTT-GCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATACACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCACAGTTA
* * * * * *
3402840 GGCCTCAAAGGCATTTAGCCTTTCATCTATCTGGCATAATTGACACCTATCTGTAAAATGTACAG
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
* * *
3402905 TTAGGCCTCAAAGGCATTTAGCCTTTCATCTAACTGGCATAATTGACA-CTTTCTGTCAAATGCA
131 TTAGGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCA
*
3402969 CAGTTAGGC
196 CAGTTAAGC
* * * **
3402978 CTCAAAGGAACTTAGCCTTTCATCTAACTAGCATAATTGACACATTTCTACCAAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCACAGTTA
*
3403043 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGCACAA
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
3403108 TTAGGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCA
131 TTAGGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCA
3403173 CAGTTA
196 CAGTTA
3403179 GGCTATTAAT
Statistics
Matches: 364, Mismatches: 35, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
202 34 0.09
203 294 0.81
204 36 0.10
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (204 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTTTCAAATGCACAGTTA
GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAA
TTAGGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTATGTCAAATGCA
CAGTTAAGC
Found at i:3403518 original size:55 final size:56
Alignment explanation
Indices: 3403394--3403555 Score: 263
Period size: 55 Copynumber: 2.9 Consensus size: 56
3403384 ACATATATTT
*
3403394 CCCATACGGAAATCCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
*
3403450 CCCATACGGAAATTCATACACTTAATATGAATTTCTTAG-TTTTGCACACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
** *
3403505 CCCATACAAAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACAC
1 CCCATACGGAAATTCATACACTTAGTATGAATTTCTT-AGTTTTTGCACAC
3403556 TCAGTGCCAT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
55 50 0.51
56 38 0.39
57 10 0.10
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (56 bp):
CCCATACGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTGCACACAAAGTG
Found at i:3407167 original size:20 final size:19
Alignment explanation
Indices: 3407123--3407169 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
3407113 TAAAATCCCT
* *
3407123 CTCTTTTCTCTTTTATTTC
1 CTCTTTTTTCGTTTATTTC
*
3407142 GT-TTTTTTCGTTTAGTTTC
1 CTCTTTTTTCGTTTA-TTTC
3407161 CTCTTTTTT
1 CTCTTTTTT
3407170 TCGAATGTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.04, C:0.19, G:0.06, T:0.70
Consensus pattern (19 bp):
CTCTTTTTTCGTTTATTTC
Found at i:3407666 original size:40 final size:40
Alignment explanation
Indices: 3407617--3407697 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
3407607 GATGGTTGAC
* *
3407617 CCAATGTGATACTGATCTAACTCCTTATATGATGGAAGAG
1 CCAAGGTGATACTGATCCAACTCCTTATATGATGGAAGAG
* * *
3407657 CCAAGGTGATGCTGATCCAACTCCTTATGTGATGGACGAG
1 CCAAGGTGATACTGATCCAACTCCTTATATGATGGAAGAG
3407697 C
1 C
3407698 GAAATGATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
CCAAGGTGATACTGATCCAACTCCTTATATGATGGAAGAG
Found at i:3407726 original size:42 final size:42
Alignment explanation
Indices: 3407663--3407768 Score: 158
Period size: 42 Copynumber: 2.5 Consensus size: 42
3407653 AGAGCCAAGG
* * * *
3407663 TGATGCTGATCCAACTCCTTATGTGATGGACGAGCGAAATGA
1 TGATGTTGATTCAACTCCTTATGTGATAGACAAGCGAAATGA
*
3407705 TGATGTTGATTCAACTTCTTATGTGATAGACAAGCGAAATGA
1 TGATGTTGATTCAACTCCTTATGTGATAGACAAGCGAAATGA
*
3407747 TGATGTTGATTTAACTCCTTAT
1 TGATGTTGATTCAACTCCTTAT
3407769 ACGATGGATG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (42 bp):
TGATGTTGATTCAACTCCTTATGTGATAGACAAGCGAAATGA
Found at i:3408010 original size:118 final size:118
Alignment explanation
Indices: 3407797--3408013 Score: 299
Period size: 118 Copynumber: 1.8 Consensus size: 118
3407787 TCGGTGCTGT
* * * * *
3407797 TCCAACTCCTTATGTGATGGAATCGAGCTAAGGTTGAACAAATTCTTCTCCTTATGAACTTTTTC
1 TCCAACTCCTTATGTGATGGAATCGAACCAAGGTTCAACAAATTCATCTCATTATGAACTTTTTC
* *
3407862 TCCATCATCGGATGAATGCTTCTCATTATGAACTCTCCCATTGGAAATGTTTA
66 TCCATCATCGGATGAATGATTCTAATTATGAACTCTCCCATTGGAAATGTTTA
* ** *
3407915 TCCACCTCCTTATGTGATGGAATCGAACCAAGGTTCATTAAGTTCATCTCATTATGAACTTTTTC
1 TCCAACTCCTTATGTGATGGAATCGAACCAAGGTTCAACAAATTCATCTCATTATGAACTTTTTC
* * * *
3407980 TCCCTCATCGTATGAGTTATTCTAATTATGAACT
66 TCCATCATCGGATGAATGATTCTAATTATGAACT
3408014 ATGCACTAGA
Statistics
Matches: 84, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
118 84 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (118 bp):
TCCAACTCCTTATGTGATGGAATCGAACCAAGGTTCAACAAATTCATCTCATTATGAACTTTTTC
TCCATCATCGGATGAATGATTCTAATTATGAACTCTCCCATTGGAAATGTTTA
Found at i:3409565 original size:54 final size:54
Alignment explanation
Indices: 3409500--3409691 Score: 188
Period size: 54 Copynumber: 3.6 Consensus size: 54
3409490 TCATAAAAAA
* * *
3409500 CCCTAAAAATTAGGCTTAGCTTCTAAAAAAATTCATTTGAAAACATCAAGAAAC
1 CCCTGAAAATTAGGCTTAGCTTATTAAAAAATTCATTTGAAAACATCAAGAAAC
** * ** *
3409554 CATTGAAAATTAGACTTAGCTTATTTCAAAATCCATTTGAAGAA-ATCAAGAAAC
1 CCCTGAAAATTAGGCTTAGCTTATTAAAAAATTCATTTGAA-AACATCAAGAAAC
* * *** * *
3409608 CCCTAAAAATTAGGCTTAACTTATTTCGACATTCATTTGAAAGCATCAAGAAAC
1 CCCTGAAAATTAGGCTTAGCTTATTAAAAAATTCATTTGAAAACATCAAGAAAC
* * * *
3409662 CCCTGAAAATCAAGCTTAGTTTCTTAAAAA
1 CCCTGAAAATTAGGCTTAGCTTATTAAAAA
3409692 TCACGTTAAC
Statistics
Matches: 108, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
53 1 0.01
54 105 0.97
55 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.29
Consensus pattern (54 bp):
CCCTGAAAATTAGGCTTAGCTTATTAAAAAATTCATTTGAAAACATCAAGAAAC
Found at i:3411851 original size:21 final size:20
Alignment explanation
Indices: 3411804--3411847 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
3411794 TTGCTTTATA
3411804 TTTTT-CTCTCTTATTTCTT
1 TTTTTGCTCTCTTATTTCTT
*
3411823 TATTTGCTCTCTTATTTCTT
1 TTTTTGCTCTCTTATTTCTT
3411843 TTTTT
1 TTTTT
3411848 TGCTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTGCTCTCTTATTTCTT
Found at i:3416750 original size:12 final size:12
Alignment explanation
Indices: 3416733--3416767 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
3416723 TCTCTCTTTT
3416733 TTATTTTATTTA
1 TTATTTTATTTA
3416745 TTATTTTA-TTA
1 TTATTTTATTTA
3416756 TTATTATTATTT
1 TTATT-TTATTT
3416768 TGGGATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTTTATTTA
Found at i:3416753 original size:17 final size:17
Alignment explanation
Indices: 3416731--3416768 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
3416721 TCTCTCTCTT
3416731 TTTTATT-TTATTTATTA
1 TTTTATTATTA-TTATTA
3416748 TTTTATTATTATTATTA
1 TTTTATTATTATTATTA
3416765 TTTT
1 TTTT
3416769 GGGATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTATTATTATTA
Found at i:3417119 original size:2 final size:2
Alignment explanation
Indices: 3417114--3417146 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3417104 ATGGAACATA
3417114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3417147 AAACGTACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3418364 original size:117 final size:118
Alignment explanation
Indices: 3418093--3418791 Score: 450
Period size: 118 Copynumber: 6.1 Consensus size: 118
3418083 TAATATAACT
** * *
3418093 GGTTAATTACTCAAAACATTATCAAGCACAATAACATATTAAGTAGCACTTATATAACGTAATAG
1 GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCACTTATATAACGTAATAG
* * *
3418158 GTAACACCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGATAACATAATC
66 GTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATA
**
3418211 GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTATATAACGTAATAG
1 GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCACTTATATAACGTAATAG
* * * *
3418276 GTAGCGCCTTTTT-AAGCTGTTGGGGCTTTAGAAATCTGACGATAACAAAATA
66 GTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATA
* *** * * * * * * * *
3418328 GGTTAATTA-TTTAATTTGTTAT-TAGTATTATCAACATTTTAGGTAACGCCTA-A-AATGT--T
1 GGTTAATTACTTGAA-ACATTATCAAGCATAAT-AACATATTAGGTAGCACTTATATAACGTAAT
** * * * * * * **
3418387 A-CCAA-A---GTTT-AAGATGATAGAGCCTTAGAAATCCGATGATAACATAACCA
64 AGGTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACA-AAATA
* **
3418437 -GTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGGTAGTGCTTATATAACGTAATAG
1 GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCACTTATATAACGTAATAG
* * * *
3418501 GTAGCGCCTTTTTAAAGCTAATGGGG-TTTTGAAAATCCGACGATAACAAAATA
66 GTAACACCTTTTTAAAGCTGATGGGGCTTTAG-AAATCCGACGATAACAAAATA
*** ** * * *
3418554 GGTTAATTACTT-AATTTGTTAT-TTGTATTATCAACATATTAGGTAATGC-C-TA-A-AATGT-
1 GGTTAATTACTTGAA-ACATTATCAAGCATAAT-AACATATTAGGT-A-GCACTTATATAACGTA
** * * ** * * **
3418612 -TA-CCAA-A---GTTT-AAGCTGATAGATCCTTAGAAATCTGACGATAACATAACCA
62 ATAGGTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACA-AAATA
* * * * *
3418663 -ATTAATTACTGGAAACATTATCAAACATAATAACATATTAGGTAGCGCTTATGTAACGTAATAG
1 GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCACTTATATAACGTAATAG
** * * * * * *
3418727 GTTGCGCATTATTAAAGTTGATGGGGCCTTAGAAATCCGATGATAACAAAATA
66 GTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATA
3418780 GGTTAATTACTT
1 GGTTAATTACTT
3418792 AATTTGTTAT
Statistics
Matches: 424, Mismatches: 119, Indels: 76
0.68 0.19 0.12
Matches are distributed among these distances:
106 2 0.00
107 2 0.00
108 108 0.25
109 28 0.07
110 8 0.02
112 5 0.01
113 4 0.01
114 2 0.00
115 4 0.01
116 15 0.04
117 85 0.20
118 158 0.37
119 2 0.00
120 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (118 bp):
GGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGGTAGCACTTATATAACGTAATAG
GTAACACCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGATAACAAAATA
Found at i:3418478 original size:108 final size:108
Alignment explanation
Indices: 3418360--3418706 Score: 261
Period size: 108 Copynumber: 3.1 Consensus size: 108
3418350 TAGTATTATC
* * * *
3418360 AACATTTTAGGTAACGCCTAAAATGTTACCAAAGTTTAAGATGATAGAGCCTTAGAAATCCGATG
1 AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATAGAGCCTTAGAAATCCGACG
3418425 ATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAAT
66 ATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAAT
* * * ** ** * * ** *
3418468 AACATATTAGGTAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTAAT-GGGGTTTTG
1 AACATATTAGGTAATGCCTA-A-AATGT--TA-CCAAAG----TTT-AAGCTGATAGAGCCTTAG
** **** ** * *
3418532 AAAATCCGACGATAACA-AAATAGGTTAATTACTTA-ATTTGTTAT-TTGTATTAT
56 -AAATCCGACGATAACATAACCA-GTTAATTAC-TAGAAACATTATCAAGCATAAT
* *
3418585 CAACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATAGATCCTTAGAAATCTGAC
1 -AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATAGAGCCTTAGAAATCCGAC
* * *
3418650 GATAACATAACCAATTAATTACTGGAAACATTATCAAACATAAT
65 GATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAAT
3418694 AACATATTAGGTA
1 AACATATTAGGTA
3418707 GCGCTTATGT
Statistics
Matches: 168, Mismatches: 53, Indels: 36
0.65 0.21 0.14
Matches are distributed among these distances:
107 1 0.01
108 64 0.38
109 15 0.09
110 4 0.02
112 2 0.01
113 4 0.02
114 2 0.01
116 4 0.02
117 17 0.10
118 53 0.32
119 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (108 bp):
AACATATTAGGTAATGCCTAAAATGTTACCAAAGTTTAAGCTGATAGAGCCTTAGAAATCCGACG
ATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAAT
Found at i:3418641 original size:226 final size:226
Alignment explanation
Indices: 3418189--3418886 Score: 1060
Period size: 226 Copynumber: 3.1 Consensus size: 226
3418179 TGGGGCTTTG
* * *
3418189 GAAATCCGACGATAACATAATCGGTTAATTACTTGAAACATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
* *
3418254 TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTT-AAGCTGTTGGGGCTTTAGAAATCTGACGA
66 TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGA
* * *
3418318 TAACAAAATAGGTTAATTATTTAATTTGTTATTAGTATTATCAACATTTTAGGTAACGCCTAAAA
131 TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTAAAA
3418383 TGTTACCAAAGTTTAAGATGATAGAGCCTTA
196 TGTTACCAAAGTTTAAGATGATAGAGCCTTA
*
3418414 GAAATCCGATGATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
* *
3418479 TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTAATGGGG-TTTTGAAAATCCGACG
66 TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAG-AAATCCGACG
*
3418543 ATAACAAAATAGGTTAATTACTTAATTTGTTATTTGTATTATCAACATATTAGGTAATGCCTAAA
130 ATAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTAAA
* *
3418608 ATGTTACCAAAGTTTAAGCTGATAGATCCTTA
195 ATGTTACCAAAGTTTAAGATGATAGAGCCTTA
* * * *
3418640 GAAATCTGACGATAACATAACCAATTAATTACTGGAAACATTATCAAACATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
* * * * * * * *
3418705 TAGCGCTTATGTAACGTAATAGGTTGCGCATTATTAAAGTTGATGGGGCCTTAGAAATCCGATGA
66 TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGA
*
3418770 TAACAAAATAGGTTAATTACTTAATTTGTTATCAGTATTATCAACATATTAGGTAATGCCT-AAA
131 TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTAAAA
* * * *
3418834 TGTTAACAAAATTTAAGTTGATGGAGCCTTA
196 TGTTACCAAAGTTTAAGATGATAGAGCCTTA
* * *
3418865 GGAATCCGACAATAATATAACC
1 GAAATCCGACGATAACATAACC
3418887 GATTAATCAC
Statistics
Matches: 430, Mismatches: 40, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
225 147 0.34
226 280 0.65
227 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (226 bp):
GAAATCCGACGATAACATAACCAGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
TAGTGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTAGAAATCCGACGA
TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTAAAA
TGTTACCAAAGTTTAAGATGATAGAGCCTTA
Found at i:3418719 original size:23 final size:24
Alignment explanation
Indices: 3418693--3418738 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
3418683 TCAAACATAA
*
3418693 TAACATATTAGGTAGCGC-TTATG
1 TAACATAATAGGTAGCGCATTATG
* *
3418716 TAACGTAATAGGTTGCGCATTAT
1 TAACATAATAGGTAGCGCATTAT
3418739 TAAAGTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (24 bp):
TAACATAATAGGTAGCGCATTATG
Found at i:3423574 original size:18 final size:18
Alignment explanation
Indices: 3423551--3423589 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3423541 GCCAAAATTT
3423551 AAATTGAAATTCAAACTC
1 AAATTGAAATTCAAACTC
* *
3423569 AAATTGAAATTTAAATTC
1 AAATTGAAATTCAAACTC
3423587 AAA
1 AAA
3423590 CTATAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTGAAATTCAAACTC
Found at i:3423578 original size:24 final size:23
Alignment explanation
Indices: 3423545--3423608 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
3423535 AGTGGAGCCA
*
3423545 AAATTTAAATTGAAATTCAAACT
1 AAATTAAAATTGAAATTCAAACT
* *
3423568 CAAATTGAAATTTAAATTCAAACT
1 -AAATTAAAATTGAAATTCAAACT
*
3423592 ATAATTAAAAATGAAAT
1 A-AATTAAAATTGAAAT
3423609 GAACATGAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (23 bp):
AAATTAAAATTGAAATTCAAACT
Found at i:3426060 original size:200 final size:200
Alignment explanation
Indices: 3425714--3427034 Score: 1539
Period size: 200 Copynumber: 6.6 Consensus size: 200
3425704 TATCGATGTT
* *
3425714 TTCATACTGGACAAAAAGTATCAATACAACTTAAAAAAGTATCGATACTTTTTGTTTACCTATTC
1 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATCGATACTTTTTGTTTACCTATTC
* *
3425779 TCTCATTAAACCGATATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATCATCG
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCG
* * * * *
3425844 GTTTCGATGTTTTAAGGATCGATACTTATTAAATATGTATCGATACTTTATGTGTGCATCTCCTT
131 GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGTT
3425909 TGGGA
196 TGGGA
* *
3425914 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATTGATAATTTTTGTTTACCTATTC
1 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATCGATACTTTTTGTTTACCTATTC
*
3425979 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATCATCG
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCG
* * * *
3426044 GTTTCTATGCTTTAAGGATCGATACTTCTCATACATGTATCGATACTTTATGCGTCCATCTCGTT
131 GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGTT
3426109 TGGGA
196 TGGGA
* * * * *
3426114 TTCATACTGAACAAAAAGTATCGATACAACTT-AAAATAATATTGATACTTTTTGCTGACCTATT
1 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAAT-GTATCGATACTTTTTGTTTACCTATT
* * *
3426178 CTCTCATTAAACTGATATATTTTTACCGGTTACATTGTAAATTTACATATTACTTTATAATAATC
65 CTCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATC
* * * * * * *
3426243 GATTTCAATGTTTTATGGATCGATACTAATCATACATGTATCAATACTTTATGTGCGCATCTCGT
130 GGTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGT
3426308 TTGGGA
195 TTGGGA
* * * * * *
3426314 TTTATATTGGACAAAAAGTATCGATACAACTTAAAAAAGTAGCGATACTTTTTATTTACCTATTA
1 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATCGATACTTTTTGTTTACCTATTC
* ** * * * *
3426379 TCTTATTAAACCTATATATTTTTACCTGTTACATTGTATATTTACTTATTACTTTATAATAATTG
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCG
*
3426444 GTTTCGATGCTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGTT
131 GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGTT
**
3426509 TGTTA
196 TGGGA
* * * *
3426514 TTCATAGTAGATAAAAAGTATCGATACAACTTAAAAA-GTATCGATACTTTTTGTTTATCTATTC
1 TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATCGATACTTTTTGTTTACCTATTC
** * * * *
3426578 TCTCATTAAACTAGTATATTTTTACCAGTTACATTGTATATTTACCTGTTA-TGTTATAATTATC
66 TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACT-TTATAATAATC
* * * * **
3426642 AGTTTCGATGTTTTAAGGATCAATACTTCTCATACATGTATCGATACTTTATGCATATATCTCGT
130 GGTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGT
3426707 TTGGGA
195 TTGGGA
* * * * * * *
3426713 TTCATATTGGACTAAAAA-TATCGATACTATTTAAGTAA-GTATCGATACTTTATGTATACATAT
1 TTCATACTGGAC-AAAAAGTATCGATACAACTTAA-AAATGTATCGATACTTTTTGTTTACCTAT
* ** * * * *
3426776 TCTCTCATTAAACCGGTAAAAATATACCGCTTACATTGTAAATTTATCGATTACGTTTA-AATAA
64 TCTCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTAC-TTTATAATAA
* * * * ** * ** * *
3426840 TTGGTTTCGATGTTTTAAGAATCGATACTTTTAATATTTGTCTCGATACTTT-T-TTTACTAACT
128 TCGGTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGC-ATC-
*
3426903 TAAGTTTGGGA
191 T-CGTTTGGGA
** * * *
3426914 AGCATACTGGACATAAAGTATCGATACATA-TTAAAAAAT-TATCGATA-TGTTATGTTTACTTA
1 TTCATACTGGACAAAAAGTATCGATACA-ACTT-AAAAATGTATCGATACT-TTTTGTTTACCTA
* * *** * * **
3426976 TTTTATCATTAAAAAAGTCTATGTTTACCACTTACATTGTAAATTTACCTATTACTTTA
63 TTCTCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTA
3427035 AAGTAATAAA
Statistics
Matches: 961, Mismatches: 145, Indels: 30
0.85 0.13 0.03
Matches are distributed among these distances:
198 3 0.00
199 169 0.18
200 687 0.71
201 98 0.10
202 4 0.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (200 bp):
TTCATACTGGACAAAAAGTATCGATACAACTTAAAAATGTATCGATACTTTTTGTTTACCTATTC
TCTCATTAAACCGGTATATTTTTACCGGTTACATTGTAAATTTACCTATTACTTTATAATAATCG
GTTTCGATGTTTTAAGGATCGATACTTATCATACATGTATCGATACTTTATGCGTGCATCTCGTT
TGGGA
Found at i:3430103 original size:28 final size:25
Alignment explanation
Indices: 3430041--3430161 Score: 82
Period size: 28 Copynumber: 4.5 Consensus size: 25
3430031 TATAAAAACC
*
3430041 TTTTATAAATTA-AAATTAGGACAAT
1 TTTTATAAATTACAAA-AAGGACAAT
*
3430066 TTTTATAAATTAGGAAAAAGGACAATT
1 TTTTATAAATTA-CAAAAAGGACAA-T
* *
3430093 TGTTTCTAAATTACAAAAAGGATAAAGT
1 T-TTTATAAATTACAAAAAGGA-CAA-T
* *
3430121 TGTTTATAAATAACAATAAAGGGCAAAAT
1 T-TTTATAAATTACAA-AAA-GG-ACAAT
*
3430150 ATTTATAAATTA
1 TTTTATAAATTA
3430162 TAACGATTAG
Statistics
Matches: 79, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
25 12 0.15
26 7 0.09
27 13 0.16
28 37 0.47
29 4 0.05
30 5 0.06
31 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.12, T:0.35
Consensus pattern (25 bp):
TTTTATAAATTACAAAAAGGACAAT
Found at i:3432049 original size:14 final size:14
Alignment explanation
Indices: 3432030--3432056 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3432020 TAAGATACTA
3432030 TTTCCATCACCATC
1 TTTCCATCACCATC
3432044 TTTCCATCACCAT
1 TTTCCATCACCAT
3432057 AGTCCATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:3436396 original size:14 final size:14
Alignment explanation
Indices: 3436377--3436403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3436367 TAAGATACTA
3436377 TTTCCATCACCATC
1 TTTCCATCACCATC
3436391 TTTCCATCACCAT
1 TTTCCATCACCAT
3436404 AGTCCATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:3436623 original size:32 final size:33
Alignment explanation
Indices: 3436582--3436647 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
3436572 TTGATAACAT
*
3436582 TTCTATCCAT-TTCC-TTTCTTATCATTTCCTTTC
1 TTCTATCCATATTCCATTT-TAATCATTT-CTTTC
3436615 TTCT-TCCATATTCCATTTTAATCATTTCTTTC
1 TTCTATCCATATTCCATTTTAATCATTTCTTTC
3436647 T
1 T
3436648 ATTAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 11 0.37
33 16 0.53
34 3 0.10
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (33 bp):
TTCTATCCATATTCCATTTTAATCATTTCTTTC
Found at i:3436628 original size:18 final size:17
Alignment explanation
Indices: 3436582--3436628 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
3436572 TTGATAACAT
3436582 TTCTATCCATTTCCTTTC
1 TTCT-TCCATTTCCTTTC
*
3436600 TT-AT-CATTTCCTTTC
1 TTCTTCCATTTCCTTTC
3436615 TTCTTCCATATTCC
1 TTCTTCCAT-TTCC
3436629 ATTTTAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 13 0.54
16 2 0.08
17 3 0.12
18 6 0.25
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (17 bp):
TTCTTCCATTTCCTTTC
Found at i:3438021 original size:18 final size:18
Alignment explanation
Indices: 3437998--3438032 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3437988 AAAAATTTCT
* *
3437998 AAATTTCCAAATTAATCA
1 AAATTTCAAAACTAATCA
3438016 AAATTTCAAAACTAATC
1 AAATTTCAAAACTAATC
3438033 TGTTAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTTCAAAACTAATCA
Found at i:3438388 original size:6 final size:6
Alignment explanation
Indices: 3438377--3438417 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
3438367 GGAGTCATAA
* *
3438377 ATATAC ATATAC ATATAC ATATAC ATATAC AAATAA ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATA
3438418 TATAACACAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (6 bp):
ATATAC
Found at i:3438400 original size:18 final size:18
Alignment explanation
Indices: 3438373--3438417 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3438363 AAAAGGAGTC
*
3438373 ATAAATATACATATACAT
1 ATAAATATACATATACAA
*
3438391 ATACATATACATATACAA
1 ATAAATATACATATACAA
3438409 ATAAATATA
1 ATAAATATA
3438418 TATAACACAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATATACATATACAA
Found at i:3440963 original size:12 final size:12
Alignment explanation
Indices: 3440946--3440976 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3440936 TACTACTATA
3440946 TCTTCTTTCTTC
1 TCTTCTTTCTTC
3440958 TCTTCTTTCTTC
1 TCTTCTTTCTTC
*
3440970 TCCTCTT
1 TCTTCTT
3440977 CCCCTCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (12 bp):
TCTTCTTTCTTC
Found at i:3443736 original size:194 final size:194
Alignment explanation
Indices: 3443099--3443765 Score: 947
Period size: 194 Copynumber: 3.4 Consensus size: 194
3443089 TTTTCTTTTA
* *
3443099 AAAGTATCGATAATATCTTACATATATTTATTAAAGTATCGATACCTTTAACATATCCA-GTAGC
1 AAAGTATCGATAATATCTTACATATACTTATTAAAGTATCGATACCTTCAACATAT-CAGGTAG-
* * * * *
3443163 GT-TTTACCT-GTTTTATCATACTGAAATCGGTTTTGTCATATTTTTATCTGTTATATTGTTATG
64 ATATTTA-CTGGTTTTGTCATATTGAAATCGGTTTTGTCATATTTTTACCTCTTATATTGTTATG
* * *
3443226 TATCGATACATGTTTATAAAGT-TTGATACTTTATAGGTTCTATTATTGCAATTCATTTAAATTC
128 TATCGATACATGTTTATAAAGTATCGATACTTTATAGGTGCTATTATTGCAATTCTTTTAAATTC
3443290 CT
193 CT
* * *
3443292 AAAGTATCGATAATATCTTACATATGCTTATTAAAGTATCGAGACCTTCAACATATTC-GGTATA
1 AAAGTATCGATAATATCTTACATATACTTATTAAAGTATCGATACCTTCAACATA-TCAGGTAGA
* * *
3443356 TATTTA-TCGGTTTTGTCATAATGAAACCGGTTTTATCATATTTTTACCTCTTATATTGTTATGT
65 TATTTACT-GGTTTTGTCATATTGAAATCGGTTTTGTCATATTTTTACCTCTTATATTGTTATGT
* *
3443420 ATCGATACATGTTTATAAAGTATCGATACTTTATAGGCGCTATTATTGCAATTCTTTTAAATTCG
129 ATCGATACATGTTTATAAAGTATCGATACTTTATAGGTGCTATTATTGCAATTCTTTTAAATTCC
3443485 T
194 T
**
3443486 AAAGTATCGATAATATGATACATATACTTATTAAAGTATCGATACCTTTC-ACATATCAGGTAGA
1 AAAGTATCGATAATATCTTACATATACTTATTAAAGTATCGATACC-TTCAACATATCAGGTAGA
*
3443550 TATTTACTGGTTTTGTCATATTGAAATTGGTTTTGTCATATTTTTACCTCTTATATTGTTATGTA
65 TATTTACTGGTTTTGTCATATTGAAATCGGTTTTGTCATATTTTTACCTCTTATATTGTTATGTA
3443615 TCGATACATGTTTATAAAGTATCGATACTTTATAGGTGCTATTATTGCAATTCTTTTAAATTCCT
130 TCGATACATGTTTATAAAGTATCGATACTTTATAGGTGCTATTATTGCAATTCTTTTAAATTCCT
* * * *
3443680 AAAGTATCGATAATATGC-TACTTATACTTATTACAGTATCGATACCTCCAACATATCTGGTA-A
1 AAAGTATCGATAATAT-CTTACATATACTTATTAAAGTATCGATACCTTCAACATATCAGGTAGA
* * *
3443743 TGCTTTACCGGTTTCGTCATATT
65 T-ATTTACTGGTTTTGTCATATT
3443766 TTTACCTGAT
Statistics
Matches: 426, Mismatches: 36, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
191 1 0.00
192 1 0.00
193 135 0.32
194 285 0.67
195 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (194 bp):
AAAGTATCGATAATATCTTACATATACTTATTAAAGTATCGATACCTTCAACATATCAGGTAGAT
ATTTACTGGTTTTGTCATATTGAAATCGGTTTTGTCATATTTTTACCTCTTATATTGTTATGTAT
CGATACATGTTTATAAAGTATCGATACTTTATAGGTGCTATTATTGCAATTCTTTTAAATTCCT
Found at i:3446484 original size:23 final size:21
Alignment explanation
Indices: 3446428--3446486 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
3446418 GTCTACGTGG
* * *
3446428 TCCTTCGGGACATATATGTAA
1 TCCTTTGGAACATATATGCAA
*
3446449 TCCTTTGGAACATATATGCAG
1 TCCTTTGGAACATATATGCAA
3446470 TCCTTTGAGACACATAT
1 TCCTTTG-GA-ACATAT
3446487 TTGGTCCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 24 0.75
22 2 0.06
23 6 0.19
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (21 bp):
TCCTTTGGAACATATATGCAA
Found at i:3446585 original size:23 final size:23
Alignment explanation
Indices: 3446558--3446617 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
3446548 TTTATATGGC
3446558 ACTTCGGTGCATTTCTACACGGA
1 ACTTCGGTGCATTTCTACACGGA
*** *
3446581 ACTTCGGTGCATTTCTATGTGGC
1 ACTTCGGTGCATTTCTACACGGA
3446604 ACTTCGGTGCATTT
1 ACTTCGGTGCATTT
3446618 ATACGAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
ACTTCGGTGCATTTCTACACGGA
Found at i:3452744 original size:39 final size:41
Alignment explanation
Indices: 3452663--3452750 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 41
3452653 TATATTTTAT
** *
3452663 AAAAATATGTTTATAATTATTTATTATATTTTAAACTGTTA
1 AAAAATATGTTTATAAGAATTTATTATATTTTAAACTATTA
*
3452704 AAAAATAT-TTTATAAGAATTT-TTATATTTTTAA-TAATTA
1 AAAAATATGTTTATAAGAATTTATTATATTTTAAACT-ATTA
3452743 AAAAATAT
1 AAAAATAT
3452751 ATTTTAACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
38 1 0.02
39 22 0.52
40 11 0.26
41 8 0.19
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (41 bp):
AAAAATATGTTTATAAGAATTTATTATATTTTAAACTATTA
Found at i:3452747 original size:40 final size:40
Alignment explanation
Indices: 3452663--3452756 Score: 102
Period size: 40 Copynumber: 2.3 Consensus size: 40
3452653 TATATTTTAT
** * *
3452663 AAAAATATGTTTATAATTATTTATTATATTTTAAACTGTTA
1 AAAAATAT-TTTATAAGAATTTATTATATTTTAAAATGTAA
3452704 AAAAATATTTTATAAGAATTT-TTATATTTTTAATAAT-TAA
1 AAAAATATTTTATAAGAATTTATTATA-TTTTAA-AATGTAA
3452744 AAAATATATTTTA
1 AAAA-ATATTTTA
3452757 ACAATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 5 0.11
40 23 0.50
41 18 0.39
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (40 bp):
AAAAATATTTTATAAGAATTTATTATATTTTAAAATGTAA
Found at i:3453810 original size:24 final size:25
Alignment explanation
Indices: 3453783--3453837 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 25
3453773 AATAAAAAGG
*
3453783 CAAAATAAGAAACTAAAA-A-AACTT
1 CAAAACAA-AAACTAAAACACAACTT
3453807 C-AAACAAAAACTAAAACACAACTT
1 CAAAACAAAAACTAAAACACAACTT
3453831 CACAAAC
1 CA-AAAC
3453838 CCAAAGACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 9 0.35
23 6 0.23
24 7 0.27
26 4 0.15
ACGTcount: A:0.64, C:0.22, G:0.02, T:0.13
Consensus pattern (25 bp):
CAAAACAAAAACTAAAACACAACTT
Found at i:3454796 original size:7 final size:6
Alignment explanation
Indices: 3454771--3454832 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
3454761 AGGGCCTGTA
* * * *
3454771 AAAAAT AAAAA- AAAAAT AAAATAT AATAAT AATAAT AATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAAAT
* *
3454819 AATAAT AATAAT AA
1 AAAAAT AAAAAT AA
3454833 TAACAAAAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
5 5 0.09
6 43 0.81
7 5 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
AAAAAT
Found at i:3454799 original size:3 final size:3
Alignment explanation
Indices: 3454785--3454835 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
3454775 ATAAAAAAAA
3454785 AAT AA- AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
3454831 AAT AA
1 AAT AA
3454836 CAAAAGATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.09
3 42 0.91
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3464933 original size:2 final size:2
Alignment explanation
Indices: 3464926--3464952 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3464916 TCAGTCTACA
3464926 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3464953 ACAATAATTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3465126 original size:85 final size:85
Alignment explanation
Indices: 3464976--3465143 Score: 202
Period size: 85 Copynumber: 2.0 Consensus size: 85
3464966 AAATACAATC
*
3464976 ATGACACACGAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAAAGACACGCAATGTAAGTCA
1 ATGACACACAAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAAAGACACGCAATGTAAGTCA
*
3465041 TACATGCGT-GTCATAAATTT
66 TAAATGC-TCGTCATAAATTT
* * * *
3465061 ATGACACACAAATGTGTGTCATCTTAATTTATGATGG-G-G-GCTTCAATGACGCTCAATG-AAC
1 ATGACACACAAATGTGTGTCATCTT--TTT-TAATGGCGTGTGCTTCAAAGACACGCAATGTAA-
3465122 GTCATAAATGCTCGTCATAAAT
62 GTCATAAATGCTCGTCATAAAT
3465144 GTGTGTCATA
Statistics
Matches: 72, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
84 3 0.04
85 59 0.82
86 1 0.01
87 4 0.06
88 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (85 bp):
ATGACACACAAATGTGTGTCATCTTTTTTAATGGCGTGTGCTTCAAAGACACGCAATGTAAGTCA
TAAATGCTCGTCATAAATTT
Found at i:3465137 original size:13 final size:13
Alignment explanation
Indices: 3465121--3465169 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
3465111 GCTCAATGAA
3465121 CGTCATAAATGCT
1 CGTCATAAATGCT
3465134 CGTCATAAATG-T
1 CGTCATAAATGCT
* *
3465146 GTGTCATAAATGCG
1 -CGTCATAAATGCT
*
3465160 CATCATAAAT
1 CGTCATAAAT
3465170 TCATGATGCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGCT
Found at i:3465144 original size:26 final size:26
Alignment explanation
Indices: 3465115--3465169 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
3465105 AATGACGCTC
* *
3465115 AATGAACGTCATAAATGCTCGTCATA
1 AATGAACGTCATAAATGCGCATCATA
***
3465141 AATGTGTGTCATAAATGCGCATCATA
1 AATGAACGTCATAAATGCGCATCATA
3465167 AAT
1 AAT
3465170 TCATGATGCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.29
Consensus pattern (26 bp):
AATGAACGTCATAAATGCGCATCATA
Found at i:3466999 original size:21 final size:21
Alignment explanation
Indices: 3466953--3467003 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
3466943 ATAGCCCTAA
* *
3466953 TTTTCTCTTCTATTTGTTTCT
1 TTTTCTCTTCTACTTGTTTAT
*
3466974 ATTTCTCTTCTAACTT-TTTAT
1 TTTTCTCTTCT-ACTTGTTTAT
3466995 TTTTCTCTT
1 TTTTCTCTT
3467004 TTCTACCCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.10, C:0.20, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTCTCTTCTACTTGTTTAT
Found at i:3471229 original size:21 final size:21
Alignment explanation
Indices: 3471204--3471244 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
3471194 CCATGCACAG
*
3471204 TGCTATAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
3471225 TGCTACAGTGCATCGATGCA
1 TGCTACAGTGCATCGATGCA
3471245 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:3472167 original size:31 final size:33
Alignment explanation
Indices: 3472080--3472236 Score: 132
Period size: 32 Copynumber: 5.0 Consensus size: 33
3472070 AACCTCGGCA
* *
3472080 ACTGTCCATAGGTC-CCAAAGAACCTAGGTAA-
1 ACTGTCCATATGTCTCCAAAGAACATAGGTAAT
* **
3472111 ACTATCCATATGT-TCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTCTCCAAAGAACATAGGTAAT
*
3472142 ACTGTCCATATGTCTCAAAAG-ACATAGGTAAT
1 ACTGTCCATATGTCTCCAAAGAACATAGGTAAT
** *
3472174 TTTGTTCATATGTC-CCGAAAG-ACATAGGTAAT
1 ACTGTCCATATGTCTCC-AAAGAACATAGGTAAT
* ***
3472206 TCTGTCCATATGT-TCTGTAGAACATAGGTAA
1 ACTGTCCATATGTCTCCAAAGAACATAGGTAA
3472237 ACCCTTGACT
Statistics
Matches: 101, Mismatches: 18, Indels: 13
0.77 0.14 0.10
Matches are distributed among these distances:
30 1 0.01
31 46 0.46
32 54 0.53
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (33 bp):
ACTGTCCATATGTCTCCAAAGAACATAGGTAAT
Found at i:3472195 original size:32 final size:32
Alignment explanation
Indices: 3472081--3472218 Score: 122
Period size: 31 Copynumber: 4.4 Consensus size: 32
3472071 ACCTCGGCAA
* * *
3472081 CTGTCCATAGGTCCC-AAAGAACCTAGGTAA-A
1 CTGTCCATATGTCCCAAAAG-ACATAGGTAATT
* * ** *
3472112 CTATCCATATGTTCC-TTAGAACATAGGT-ATA
1 CTGTCCATATGTCCCAAAAG-ACATAGGTAATT
*
3472143 CTGTCCATATGTCTCAAAAGACATAGGTAATT
1 CTGTCCATATGTCCCAAAAGACATAGGTAATT
* * *
3472175 TTGTTCATATGTCCCGAAAGACATAGGTAATT
1 CTGTCCATATGTCCCAAAAGACATAGGTAATT
3472207 CTGTCCATATGT
1 CTGTCCATATGT
3472219 TCTGTAGAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
30 1 0.01
31 43 0.50
32 42 0.49
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (32 bp):
CTGTCCATATGTCCCAAAAGACATAGGTAATT
Found at i:3474767 original size:64 final size:64
Alignment explanation
Indices: 3474714--3474876 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
3474704 CGGTGCACCA
*
3474714 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
3474778 TTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
3474843 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
3474877 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:3474848 original size:19 final size:19
Alignment explanation
Indices: 3474824--3474874 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
3474814 GAAAATATTC
3474824 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
3474843 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
3474862 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
3474875 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:3474916 original size:65 final size:64
Alignment explanation
Indices: 3474718--3474925 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
3474708 GCACCAAGTG
* * ** * *
3474718 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGGTTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGG-ATG
3474782 -
64 A
* * *
3474782 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGATGA
* *
3474846 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
3474908 CTGA
62 -TGA
3474912 TGCATCGGTGCATG
1 TGCATCGGTGCATG
3474926 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGATGA
Found at i:3475334 original size:31 final size:31
Alignment explanation
Indices: 3475255--3475315 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
3475245 ATTGATTTTG
3475255 AAAAACTTACTCCCCCTTACTATAGCACATC
1 AAAAACTTACTCCCCCTTACTATAGCACATC
3475286 AAAAACTTACTCCCCCTTACTATAGCACAT
1 AAAAACTTACTCCCCCTTACTATAGCACAT
3475316 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.34, G:0.03, T:0.26
Consensus pattern (31 bp):
AAAAACTTACTCCCCCTTACTATAGCACATC
Found at i:3483300 original size:64 final size:64
Alignment explanation
Indices: 3483247--3483409 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
3483237 CGGTGCACCA
*
3483247 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
3483311 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
3483376 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
3483410 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:3483381 original size:19 final size:19
Alignment explanation
Indices: 3483357--3483407 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
3483347 GAAAATATTC
3483357 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
3483376 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
3483395 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
3483408 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:3483449 original size:65 final size:65
Alignment explanation
Indices: 3483251--3483458 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
3483241 GCACCAAGTG
* * ** *
3483251 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
3483314 G-
64 GA
* * *
3483315 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
3483378 A
65 A
* *
3483379 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
3483441 CTGA
62 CTGA
3483445 TGCATCGGTGCATG
1 TGCATCGGTGCATG
3483459 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:3484514 original size:2 final size:2
Alignment explanation
Indices: 3484507--3484533 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3484497 AACAAATTTT
3484507 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
3484534 TATTAAAATC
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:3486286 original size:3 final size:3
Alignment explanation
Indices: 3486267--3486305 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
3486257 GTCTATAAAG
*
3486267 AAT AAA AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3486306 GTAACAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3496384 original size:2 final size:2
Alignment explanation
Indices: 3496372--3496409 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3496362 ATCCTATCCC
3496372 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3496410 TTAGTGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:3498579 original size:2 final size:2
Alignment explanation
Indices: 3498572--3498632 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
3498562 TGGTTTGAGA
3498572 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
3498614 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
3498633 CATTCAGGTT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3499337 original size:16 final size:17
Alignment explanation
Indices: 3499306--3499343 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
3499296 CTCTCGGAAA
*
3499306 ATTTTAATTTATTATAT
1 ATTTTAATTAATTATAT
3499323 ATTTT-ATTAATTATAT
1 ATTTTAATTAATTATAT
3499339 ATTTT
1 ATTTT
3499344 CATATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTAATTAATTATAT
Found at i:3499372 original size:26 final size:25
Alignment explanation
Indices: 3499333--3499386 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
3499323 ATTTTATTAA
*
3499333 TTATATATTTTCATATTCTAAAATT
1 TTATAAATTTTCATATTCTAAAATT
*
3499358 TTATAAATTTATCATATTTTAAAATT
1 TTATAAATTT-TCATATTCTAAAATT
3499384 TTA
1 TTA
3499387 AAAAATCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 9 0.35
26 17 0.65
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATAAATTTTCATATTCTAAAATT
Found at i:3499389 original size:34 final size:32
Alignment explanation
Indices: 3499323--3499389 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 32
3499313 TTTATTATAT
* * *
3499323 ATTTTATTAATTATATATTTTCATATTCTAAA
1 ATTTTATAAATTATATATTTTAAAATTCTAAA
*
3499355 ATTTTATAAATTTATCATATTTTAAAATTTTAAA
1 ATTTTATAAA-TTAT-ATATTTTAAAATTCTAAA
3499389 A
1 A
3499390 AATCATCCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 9 0.31
33 4 0.14
34 16 0.55
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTTTATAAATTATATATTTTAAAATTCTAAA
Found at i:3500257 original size:32 final size:32
Alignment explanation
Indices: 3500190--3500269 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 32
3500180 CATATTAAAA
* *
3500190 TATATTTATTAATATTTCTAATAATACAATAT
1 TATATTTATTAATATTTATAATAAAACAATAT
*
3500222 TATATTT-TTAATA-TTATAATAAAATAATCATT
1 TATATTTATTAATATTTATAATAAAACAAT-A-T
*
3500254 TATATTATAATAATAT
1 TATATT-TATTAATAT
3500270 AAGATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 12 0.31
31 7 0.18
32 14 0.36
33 1 0.03
34 5 0.13
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAACAATAT
Found at i:3500310 original size:31 final size:32
Alignment explanation
Indices: 3500221--3500310 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 32
3500211 TAATACAATA
*
3500221 TTATATTTT--TAATATTATAATAAAATAATCAT
1 TTATATTTTAATAATA-TATAAT-AAATTATCAT
*
3500253 TTATATTATAATAATATA-AGAT--ATTAT-AT
1 TTATATTTTAATAATATATA-ATAAATTATCAT
*
3500282 TTTTATTTTAATAATATATAATAAATTAT
1 TTATATTTTAATAATATATAATAAATTAT
3500311 TAATAACTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
29 20 0.42
30 5 0.10
31 5 0.10
32 9 0.19
33 4 0.08
34 5 0.10
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATATTTTAATAATATATAATAAATTATCAT
Found at i:3500332 original size:23 final size:22
Alignment explanation
Indices: 3500275--3500332 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
3500265 AATATAAGAT
3500275 ATTATATT-TTTATT-TTAATA
1 ATTATATTATTTATTATTAATA
* **
3500295 A-TATATAATAAATTATTAATA
1 ATTATATTATTTATTATTAATA
3500316 ACTTATATTATTTATTA
1 A-TTATATTATTTATTA
3500333 ATTTTATAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
19 5 0.18
20 5 0.18
21 7 0.25
23 11 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATATTATTTATTATTAATA
Found at i:3502675 original size:21 final size:20
Alignment explanation
Indices: 3502628--3502675 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
3502618 TCTTGATGTA
*
3502628 ATATAATAAATTATTAAATC
1 ATATAATAAATTATTAAAGC
* *
3502648 ATAATAATGAATTAATTATAGC
1 AT-ATAATAAATT-ATTAAAGC
3502670 ATATAA
1 ATATAA
3502676 CATTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
ATATAATAAATTATTAAAGC
Found at i:3503610 original size:25 final size:26
Alignment explanation
Indices: 3503565--3503613 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
3503555 ATGCATTGCA
*
3503565 TGCATGTGAGGTTTTATTTACAAAGT
1 TGCATGTGAGCTTTTATTTACAAAGT
3503591 TGCA-GTGAGCTTTCTA-TTACAAA
1 TGCATGTGAGCTTT-TATTTACAAA
3503614 ATGGTTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (26 bp):
TGCATGTGAGCTTTTATTTACAAAGT
Found at i:3505645 original size:26 final size:26
Alignment explanation
Indices: 3505609--3505666 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
3505599 AACCACTATG
3505609 TCTCCATTTCAAATATTGTTTATACC
1 TCTCCATTTCAAATATTGTTTATACC
3505635 TCTCCATTTCAAATATTGTTTATACC
1 TCTCCATTTCAAATATTGTTTATACC
3505661 TCTCCA
1 TCTCCA
3505667 ATTGTTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (26 bp):
TCTCCATTTCAAATATTGTTTATACC
Found at i:3508167 original size:24 final size:27
Alignment explanation
Indices: 3508129--3508177 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
3508119 ATGTATTGTG
3508129 TGCATGTGAGGTTTT-AGTTACAAAGT
1 TGCATGTGAGGTTTTCAGTTACAAAGT
*
3508155 TGCA-GTGA-GTTTTCTGTTACAAA
1 TGCATGTGAGGTTTTCAGTTACAAA
3508178 ACGGTTCATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (27 bp):
TGCATGTGAGGTTTTCAGTTACAAAGT
Found at i:3514575 original size:20 final size:20
Alignment explanation
Indices: 3514546--3514596 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
3514536 CTGTCTGTCT
*
3514546 CGGCTCGGCTCGGCACGACA
1 CGGCTTGGCTCGGCACGACA
* *
3514566 CGGCTTGGCTTGGCACGACT
1 CGGCTTGGCTCGGCACGACA
3514586 CGGCTTGGCTC
1 CGGCTTGGCTC
3514597 ATGGTCGTGG
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:0.10, C:0.35, G:0.35, T:0.20
Consensus pattern (20 bp):
CGGCTTGGCTCGGCACGACA
Found at i:3514609 original size:6 final size:6
Alignment explanation
Indices: 3514598--3514625 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3514588 GCTTGGCTCA
3514598 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
3514626 AATACGTGTC
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:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (6 bp):
TGGTCG
Found at i:3518368 original size:28 final size:28
Alignment explanation
Indices: 3518328--3518384 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
3518318 CTCACTCACC
3518328 CTCAAAAATATTTCTAAATATGTCATTA
1 CTCAAAAATATTTCTAAATATGTCATTA
* * * *
3518356 CTCAAATATATTTCTGAATTTTTCATTA
1 CTCAAAAATATTTCTAAATATGTCATTA
3518384 C
1 C
3518385 ATATACAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.04, T:0.44
Consensus pattern (28 bp):
CTCAAAAATATTTCTAAATATGTCATTA
Found at i:3520703 original size:17 final size:17
Alignment explanation
Indices: 3520676--3520735 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
3520666 TATAAATATC
*
3520676 TGATAATTGTAATCATA
1 TGATAACTGTAATCATA
*
3520693 TGATATCTGTAAAT-ATA
1 TGATAACTGT-AATCATA
*
3520710 TGATAACTGAAAATCATA
1 TGATAACTG-TAATCATA
3520728 TGATAACT
1 TGATAACT
3520736 ATAAACATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 22 0.61
18 14 0.39
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (17 bp):
TGATAACTGTAATCATA
Found at i:3520730 original size:18 final size:18
Alignment explanation
Indices: 3520686--3520735 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
3520676 TGATAATTGT
* *
3520686 AATCATATGATATCTGTA
1 AATCATATGATAACTGAA
3520704 AAT-ATATGATAACTGAA
1 AATCATATGATAACTGAA
3520721 AATCATATGATAACT
1 AATCATATGATAACT
3520736 ATAAACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 15 0.52
18 14 0.48
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (18 bp):
AATCATATGATAACTGAA
Found at i:3520732 original size:35 final size:35
Alignment explanation
Indices: 3520641--3520740 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
3520631 AATCTGTGTC
* * *
3520641 TGATAACTGTAAAA-CATCTTATATCTATAAATATC
1 TGATAACTG-AAAATCATATGATATCTATAAATATA
* * *
3520676 TGATAATTG-TAATCATATGATATCTGTAAATATA
1 TGATAACTGAAAATCATATGATATCTATAAATATA
*
3520710 TGATAACTGAAAATCATATGATAACTATAAA
1 TGATAACTGAAAATCATATGATATCTATAAA
3520741 CATTTAGAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
33 2 0.04
34 25 0.47
35 26 0.49
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (35 bp):
TGATAACTGAAAATCATATGATATCTATAAATATA
Found at i:3540170 original size:21 final size:21
Alignment explanation
Indices: 3540144--3540186 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3540134 ATCTTAAAAG
*
3540144 GATTTGTTTGGTGTAGTTGGT
1 GATTTGGTTGGTGTAGTTGGT
3540165 GATTTGGTTGGTGTAGTTGGT
1 GATTTGGTTGGTGTAGTTGGT
3540186 G
1 G
3540187 GGGGCGTGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.00, G:0.42, T:0.49
Consensus pattern (21 bp):
GATTTGGTTGGTGTAGTTGGT
Found at i:3541346 original size:226 final size:226
Alignment explanation
Indices: 3540946--3541434 Score: 748
Period size: 226 Copynumber: 2.2 Consensus size: 226
3540936 CGCTTTTTTT
* *
3540946 AAGCTGATGGGGCCTTAGAAATCCGACGATAAAAAAATAGGTTAATTACTTGATTTGTTATCAAT
1 AAGCTGATGGGGCCTTAGAAATCCGACAATAAAAAAATAAGTTAATTACTTGATTTGTTATCAAT
* *
3541011 ATTATCAACATATTAAATAGTGTCTAAAATTTTACCAAAGTTTAAGCTGATAAAGCCTTAGAAAT
66 ATTATCAACATATTAAATAGCGTCTAAAATGTTACCAAAGTTTAAGCTGATAAAGCCTTAGAAAT
* *
3541076 CTAACAATAACAAAATAGGTTAATTACTAGAAACATTATCAACCATAATAACATAACAAGTAGCC
131 CTAACAATAACAAAATAGGTTAATTACTAGAAACATTATCAACCATAATAACATAACAAATAACC
*
3541141 CTTATTTAATGTAATAGGTAGCGTAAGTTTA
196 CTTATTTAATGTAATAGGTAGCGTAAGTTAA
* *
3541172 AAGCTTATGGGGCCTTAGAAATCCGACAATAACAAAATAAGTTAATTACTTGATTTGTTATCAAT
1 AAGCTGATGGGGCCTTAGAAATCCGACAATAAAAAAATAAGTTAATTACTTGATTTGTTATCAAT
** * ** *
3541237 ATTATCAACATATTAGGTAGCG-CTAAAAATGTTACCAAAGTTTAAGTTGATGGAGTCTTAGAAA
66 ATTATCAACATATTAAATAGCGTCT-AAAATGTTACCAAAGTTTAAGCTGATAAAGCCTTAGAAA
* * *
3541301 TCTTACGATAACAAAATAGGTTAATTACT-GAACACATTATCAACCATAATAGCATAACAAATAA
130 TCTAACAATAACAAAATAGGTTAATTACTAGAA-ACATTATCAACCATAATAACATAACAAATAA
* **
3541365 CGCTTATTTAATGTAATAGGTAGCGTCTGTTAA
194 CCCTTATTTAATGTAATAGGTAGCGTAAGTTAA
*
3541398 AAGCTGATGGGGCCTTAGAAATCTGACAATAAAAAAA
1 AAGCTGATGGGGCCTTAGAAATCCGACAATAAAAAAA
3541435 AATTAGCTGA
Statistics
Matches: 237, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
225 5 0.02
226 232 0.98
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (226 bp):
AAGCTGATGGGGCCTTAGAAATCCGACAATAAAAAAATAAGTTAATTACTTGATTTGTTATCAAT
ATTATCAACATATTAAATAGCGTCTAAAATGTTACCAAAGTTTAAGCTGATAAAGCCTTAGAAAT
CTAACAATAACAAAATAGGTTAATTACTAGAAACATTATCAACCATAATAACATAACAAATAACC
CTTATTTAATGTAATAGGTAGCGTAAGTTAA
Found at i:3542123 original size:199 final size:199
Alignment explanation
Indices: 3541674--3543808 Score: 1464
Period size: 199 Copynumber: 10.9 Consensus size: 199
3541664 TATACATGCA
* * **
3541674 TATCGATACTTGATGTTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTTCATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * * * ** * *
3541739 ATTAACCTATTACCTTACAGTAATAGGTTTCGAAATTAT-AAGTACCGATACTTTATATATGTGT
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATT-TCGCGTATCGATACTTTATACATGTGT
* * * *
3541803 ATCGACACATTT-TGCGTGCAAATTTTTTTGAGAAGCATACTGGAATAAAAATATCGATACCTAT
130 ATCGATAC-TTTGTGCGTGCAAA--TTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTAT
* *
3541867 ATAGAAAG
192 ACAAAAAG
* * * * * * *
3541875 TATCGATACTTGATATTTATGCCTATTATCAATATACCGTTAGACTTTTACCGTTGATATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
*
3541940 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCAATACTTTATACATGTGTA
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCGATACTTTATACATGTGTA
* * * *
3542005 TCGATACTTTGTGCGTGTAAATTGTTGAGAAGCATATTGGACTAAAAATATTGATACCTATACAA
131 TCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACAA
3542070 AAAG
196 AAAG
* * * * * *
3542074 TATCGACACTTTATGTTTACGCCTATTATCATTAAACCGGTACACTTTTACCATTAAAAATGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * *
3542139 ATTTACATATAACTTTAAAGTAATCT-GTTTCGAAATTAT-GCGTATCGATACATTATACACGTG
66 ATTTACCTATAACTTTAAAGTAAT-TGGTTTCGAAATT-TCGCGTATCGATACTTTATACATGTG
* * * * *
3542202 TATCGATATTTTGTGCGTGCAAATTGTTGTGAAGCATATTGAACTAAAAGTATCGATA-GT-T--
129 TATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATAC
* *
3542263 --TATG
194 AAAAAG
* * ** ** ** * * ** * * ** * * *
3542267 TTTAC-A-CCTATTATCATTAAACCGGTAAAC-TTTTACC-GTTGACATTGTA-AATTTAC-CTA
1 TAT-CGATACT-TTATGTTTACGCCTATTATCATTAAACCGGTAGAC-TTTTACCGTTGACATTG
* ** *** * * * * * * *
3542326 TAACTTTAAAGTAATCGGTTCAAAAT-TTTGTGTATCGATACTTTATACATGTGTATCGATATTT
63 TAAATTT-ACCT-ATAACTTTAAAGTAATTG-GTTTCGA-A-ATT-T-C--GCGTATCGATACTT
* * * * ** * * ** *
3542390 TATGCA--TG---CCA-A--TTGTTGAGAAGCATAAAGGACT-AAAAGTATCAATACCTATACAA
119 TATACATGTGTATCGATACTTTG-TGCG-TGCA-AATTG-TTGAGAAG---C-ATA-CTGGACTA
* *
3542446 AAAGTATCGATA-CT-T----TATG
175 AAAGTATCGATACCTATACAAAAAG
* * ** ** * ** * * *
3542465 T-T-TACTCCTATTATCATTAAACCGGTA-GA-C-TTTTACC-GTTGAC-ATT---G-T-AAATT
1 TATCGA-TACT-TTATGTTTACGCC--TATTATCATTAAACCGGTAGACTTTTACCGTTGACATT
* * * * * *
3542518 -TAGATGTAAC------TTTAAAGTATTTGGTTTCAAAATTTTGCGTATC-ATTACTTTATACAT
62 GTAAATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCGA-TACTTTATACAT
* * * *
3542575 ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTA
126 GTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTA
*
3542640 TGCAAAAAG
191 TACAAAAAG
* ** * *
3542649 TATCGATACTTTCTGTTTACGCCTATTATCATTAAACCAATACACTTTTACCGTTAACATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * * * *
3542714 ATTTACCTATAATTTTAAAGT-ATTCAGCTTC-AAAATTCTGTGTATCGATATTTTATACATGTG
66 ATTTACCTATAACTTTAAAGTAATT-GGTTTCGAAATTTC-GCGTATCGATACTTTATACATGTG
* *
3542777 TATCGATACTTTGTGCATGCAAATTGTTGAGAAGCATACTAGACTAAAAGTATCG------ATAC
129 TATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATAC
3542836 ------
194 AAAAAG
* * * **
3542836 --T--ATA---T--GTTTACGCCTATTATCATTAAACCAGTAGACTGTTACCATTGATTTTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * *
3542892 ATTTACCTATAACTTTAAAGTAATCGGTTTC-AAAATTCTGCCTATGGATACTTTATACATGTGT
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTC-GCGTATCGATACTTTATACATGTGT
* * *
3542956 ATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACTAAAAGTATCGATACCTATACA
130 ATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACA
3543021 AAAAG
195 AAAAG
* * * * *
3543026 TATCGATACTTTATGTTTGCGCCTATTATCATTAAATCGGTAGACTTTTACTGTTTAGATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * *
3543091 ATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTAT-GCGTATCGATACTTTATACATGTAT
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATT-TCGCGTATCGATACTTTATACATGTGT
* * * *
3543155 ATCGATACTTTGTGCGTGCAAATTGTTGATAAGCATATTGGACTAAAAGTATTGATACTTATAC-
130 ATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACA
3543219 AAAAG
195 AAAAG
** * * *
3543224 TATCGATACTTTATGTTTACGCCTATTAT-ATTTAAATTGATAAACTTTTACTGTTGACATTGTA
1 TATCGATACTTTATGTTTACGCCTATTATCA-TTAAACCGGTAGACTTTTACCGTTGACATTGTA
*** * *
3543288 AATTTACCTATAACTTTAAAGTAATCATTTTCGAAATTTCGTGTATCGATACTGTATACATGTGT
65 AATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCGATACTTTATACATGTGT
* * * * *
3543353 ATCGATACTTAGTGCGTGCAAATTATTGAGAAGTATATTGTACTAAAAGTATCGATACCTATACA
130 ATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACA
3543418 AAAAG
195 AAAAG
* * * ** *
3543423 TATTGATACTTTATGTTTACACCTATTATCAATAAATTGATAGACTTTTACCGTTGACATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * * ** * * *** *
3543488 ATTTACATATAACTTTAAAGTAATCGGTTTCAAAATTCCATGTATCAATATTTTATTTTTATGTA
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCGATACTTTATACATGTGTA
* * * * *
3543553 TTGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATATTGATACCTATATAA
131 TCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACAA
3543618 AAAG
196 AAAG
** * * * * *
3543622 TATAAATACTTTATGTTTACGCATATTATTATTAAATCGGTAGGCTTTTACCGTTTACATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * ** *
3543687 ATTTACCTATAACTTTAAAGTAATAGGCTTCGAAGTTAT-AAGTATCAATACTTGTTATACA--T
66 ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATT-TCGCGTATCGATAC-T-TTATACATGT
* * * * *
3543749 GTATCGATATTTTTTACGTGTAAATTGTTGAGAATCATACTGGACTAAAAGTATCGATAC
128 GTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATAC
3543809 ATTTTGTTTA
Statistics
Matches: 1551, Mismatches: 281, Indels: 206
0.76 0.14 0.10
Matches are distributed among these distances:
177 1 0.00
178 179 0.12
179 7 0.00
180 5 0.00
181 1 0.00
182 5 0.00
183 13 0.01
184 31 0.02
185 17 0.01
186 7 0.00
187 2 0.00
190 12 0.01
191 17 0.01
192 39 0.03
193 38 0.02
194 9 0.01
196 5 0.00
197 8 0.01
198 253 0.16
199 758 0.49
200 13 0.01
201 131 0.08
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (199 bp):
TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
ATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCGATACTTTATACATGTGTA
TCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAGTATCGATACCTATACAA
AAAG
Found at i:3542301 original size:178 final size:177
Alignment explanation
Indices: 3542069--3542432 Score: 521
Period size: 178 Copynumber: 2.1 Consensus size: 177
3542059 TACCTATACA
* *
3542069 AAAAGTATCGACACTTTATGTTTACGCCTATTATCATTAAACCGGTACACTTTTACCATTAAAAA
1 AAAAGTATCGACACTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCATTAAAAA
* *
3542134 TGTAAATTTACATATAACTTTAAAGTAATCTGTTTCGAAATTATGCGTATCGATACATTATACAC
66 TGTAAATTTACATATAACTTTAAAGTAATC-GGTTCAAAATTATGCGTATCGATACATTATACAC
* * * **
3542199 GTGTATCGATATTTTGTGCGTGCAAATTGTTGTGAAGCATATTGAACT
130 GTGTATCGATATTTTATGCATGCAAATTGTTGAGAAGCATAAAGAACT
* * * * * *
3542247 AAAAGTATCGATAGTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCGTTGACAT
1 AAAAGTATCGACACTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCATTAAAAA
* * * * *
3542312 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTCAAAATTTTGTGTATCGATACTTTATACATG
66 TGTAAATTTACATATAACTTTAAAGTAATCGGTTCAAAATTATGCGTATCGATACATTATACACG
* *
3542377 TGTATCGATATTTTATGCATGCCAATTGTTGAGAAGCATAAAGGACT
131 TGTATCGATATTTTATGCATGCAAATTGTTGAGAAGCATAAAGAACT
3542424 AAAAGTATC
1 AAAAGTATC
3542433 AATACCTATA
Statistics
Matches: 164, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
177 78 0.48
178 86 0.52
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (177 bp):
AAAAGTATCGACACTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCATTAAAAA
TGTAAATTTACATATAACTTTAAAGTAATCGGTTCAAAATTATGCGTATCGATACATTATACACG
TGTATCGATATTTTATGCATGCAAATTGTTGAGAAGCATAAAGAACT
Found at i:3542378 original size:21 final size:21
Alignment explanation
Indices: 3542354--3542397 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3542344 TTCAAAATTT
3542354 TGTGTATCGATACTTTATACA
1 TGTGTATCGATACTTTATACA
* *
3542375 TGTGTATCGATATTTTATGCA
1 TGTGTATCGATACTTTATACA
3542396 TG
1 TG
3542398 CCAATTGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.45
Consensus pattern (21 bp):
TGTGTATCGATACTTTATACA
Found at i:3542892 original size:178 final size:178
Alignment explanation
Indices: 3542644--3543018 Score: 561
Period size: 178 Copynumber: 2.1 Consensus size: 178
3542634 TACCTATGCA
* * * *
3542644 AAAAGTATCGATACTTTCTGTTTACGCCTATTATCATTAAACCAATACACTTTTACCGTTAACAT
1 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAATACACTGTTACCATTAACAT
* * ** *
3542709 TGTAAATTTACCTATAATTTTAAAGTATTCAGCTTCAAAATTCTGTGTATCGATATTTTATACAT
66 TGTAAATTTACCTATAACTTTAAAGTAATCAGCTTCAAAATTCTGCCTATCGATACTTTATACAT
* *
3542774 GTGTATCGATACTTTGTGCATGCAAATTGTTGAGAAGCATACTAGACT
131 GTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTAGACT
* * * **
3542822 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTGTTACCATTGATTT
1 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAATACACTGTTACCATTAACAT
* * *
3542887 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGCCTATGGATACTTTATACAT
66 TGTAAATTTACCTATAACTTTAAAGTAATCAGCTTCAAAATTCTGCCTATCGATACTTTATACAT
*
3542952 GTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACT
131 GTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTAGACT
3543000 AAAAGTATCGATACCTATA
1 AAAAGTATCGATA-CTATA
3543019 CAAAAAGTAT
Statistics
Matches: 176, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
178 171 0.97
179 5 0.03
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (178 bp):
AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAATACACTGTTACCATTAACAT
TGTAAATTTACCTATAACTTTAAAGTAATCAGCTTCAAAATTCTGCCTATCGATACTTTATACAT
GTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTAGACT
Found at i:3542907 original size:377 final size:376
Alignment explanation
Indices: 3542445--3543808 Score: 1408
Period size: 377 Copynumber: 3.5 Consensus size: 376
3542435 TACCTATACA
* * *
3542445 AAAAGTATCGATACTTTATGTTTACTCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACAT
1 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTGACAT
** * * *
3542510 TGTAAATTTAGATGTAACTTTAAAGTATTTGGTTTCAAAATTTTGCGTATCATTACTTTATACAT
66 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTTTGCGTATCA-TACTTTATACAT
*
3542575 ATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTA
130 GTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTA
* * * * *
3542640 TGCAAAAAGTATCGATACTTTCTGTTTACGCCTATTATCATTAAACCAATACACTTTTACCGTTA
195 TACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAATCGATAGACTTTTACCGTTA
* *
3542705 ACATTGTAAATTTACCTATAATTTTAAAGTATTCAGCTTCAAAATTCTGTGTATCGATATTTTAT
260 ACATTGTAAATTTACCTATAACTTTAAAGTATTCAGTTTCAAAATTCTGTGTATCGATATTTTAT
*
3542770 ACATGTGTATCGATACTTTGTGCATGCAAATTGTTGAGAAGCATACTAGACT
325 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGACT
* * **
3542822 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTGTTACCATTGATTT
1 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTGACAT
* * *
3542887 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGCCTATGGATACTTTATACAT
66 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTTTGCGTAT-CATACTTTATACAT
* * * * *
3542952 GTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACTAAAAGTATCGATACCTA
130 GTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTA
* * * *
3543017 TACAAAAAGTATCGATACTTTATGTTTGCGCCTATTATCATTAAATCGGTAGACTTTTACTGTTT
195 TACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAATCGATAGACTTTTACCGTTA
* * * *
3543082 AGATTGTAAATTTACCTATAACTTTAAAGTAATT-AGTTTCAAAATTATGCGTATCGATACTTTA
260 ACATTGTAAATTTACCTATAACTTTAAAGT-ATTCAGTTTCAAAATTCTGTGTATCGATATTTTA
* *
3543146 TACATGTATATCGATACTTTGTGCGTGCAAATTGTTGATAAGCATATTGGACTAAAAGTATTGAT
324 TACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGC--A-T--AC------TA--G--
3543211 ACTTAT
374 AC---T
* ** * *
3543217 ACAAAAGTATCGATACTTTATGTTTACGCCTATTAT-ATTTAAA-TTGATAAACTTTTACTGTTG
1 --AAAAGTATCGATACTATATGTTTACGCCTATTATCA-TTAAACCAG-TAGACTTTTACCGTTG
** * * * *
3543280 ACATTGTAAATTTACCTATAACTTTAAAGTAATCATTTTCGAAATTTCGTGTATCGATACTGTAT
62 ACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTTTGCGTATC-ATACTTTAT
* * *
3543345 ACATGTGTATCGATACTTAGTGCGTGCAAATTATTGAGAAGT-ATATTGTACTAAAAGTATCGAT
126 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAA-TCATATTGAACTAAAAGTATCGAT
* * * *
3543409 ACCTATACAAAAAGTATTGATACTTTATGTTTACACCTATTATCAATAAATTGATAGACTTTTAC
190 ACCTATACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAATCGATAGACTTTTAC
* * * * ** *
3543474 CGTTGACATTGTAAATTTACATATAACTTTAAAGTAATCGGTTTCAAAATTCCATGTATCAATAT
255 CGTTAACATTGTAAATTTACCTATAACTTTAAAGTATTCAGTTTCAAAATTCTGTGTATCGATAT
*** * * * *
3543539 TTTATTTTTATGTATTGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACT
320 TTTATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGACT
* * * * *
3543596 AAAAATATTGATACCTATATAAAAAGTATAAATACTTTATGTTTACGCATATTATTATTAAATCG
1 AAAAGTATCGATA-CTATAT-----GT-T---TAC-----G----C-C-TATTATCATTAAACCA
* * * * * * *
3543661 GTAGGCTTTTACCGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATAGGCTTCGAAGTTAT
45 GTAGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTTT
** * * * * *
3543726 AAGTATCAATACTTGTTATACA--TGTATCGATATTTTTTACGTGTAAATTGTTGAGAATCATAC
110 GCGTATC-ATAC-T-TTATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATAT
*
3543789 TGGACTAAAAGTATCGATAC
172 TGAACTAAAAGTATCGATAC
3543809 ATTTTGTTTA
Statistics
Matches: 815, Mismatches: 119, Indels: 85
0.80 0.12 0.08
Matches are distributed among these distances:
377 333 0.41
378 9 0.01
379 2 0.00
380 1 0.00
382 4 0.00
383 2 0.00
384 2 0.00
386 1 0.00
387 3 0.00
388 2 0.00
390 1 0.00
392 5 0.01
394 1 0.00
395 2 0.00
396 5 0.01
397 309 0.38
398 124 0.15
399 3 0.00
400 6 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (376 bp):
AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTTTTACCGTTGACAT
TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTTTGCGTATCATACTTTATACATG
TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTAT
ACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAATCGATAGACTTTTACCGTTAA
CATTGTAAATTTACCTATAACTTTAAAGTATTCAGTTTCAAAATTCTGTGTATCGATATTTTATA
CATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGACT
Found at i:3543225 original size:575 final size:575
Alignment explanation
Indices: 3541674--3543808 Score: 2566
Period size: 575 Copynumber: 3.7 Consensus size: 575
3541664 TATACATGCA
* * * **
3541674 TATCGATACTTGATGTTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTTCATTGTAA
1 TATCGATACTTTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * * * * * * * *
3541739 ATTAACCTATTACCTTACAGTAATAGGTTTCGAAATTATAAGTACCGATACTTTATATATGTGTA
66 ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCT-GGTATCGATACTTTATACATGTGTA
* * * * *
3541804 TCGACACATTT-TGCGTGCAAATTTTTTTGAGAAGCATACTGGAATAAAAATATCGATACCTATA
130 TCGATAC-TTTGTGCATGCAAA--TTGTTGAGAAACATACTGGACTAAAAATATCGATACCTATA
* * * * * * * * *
3541868 TAGAAAGTATCGATACTTGATATTTATGCCTATTATCAATATACCGTTAGACTTTTACCGTTGAT
192 CAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGAC
* *
3541933 ATTGTAAATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATT-TCGCGTATCAATACTTTATA
257 ATTGTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTAT-GCGTATCAATACTTTATA
* * *
3541997 CATGTGTATCGATACTTTGTGCGTGTAAATTGTTGAGAAGCATATTGGACTAAAAATATTGATAC
321 CATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATAC
* * *
3542062 CTATACAAAAAGTATCGACACTTTATGTTTACGCCTATTATCATTAAACCGGTACACTTTTACCA
386 CTATACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATACACTTTTACCG
* * * * * *
3542127 TTAAAAATGTAAATTTACATATAACTTTAAAGTAATCTGTTTCGAAATTATGCGTATCGATACAT
451 TTAACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCGAAATT-TGTGTATCGATACTT
* * * *
3542192 TATACACGTGTATCGATATTTTGTGCGTGCAAATTGTTGTGAAGCATA-TTGAACTAAAAG
515 TATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGAACTAAAAG
* *
3542252 TATCGATAGTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCGTTGACATTGTAA
1 TATCGATACTTTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
*
3542317 ATTTACCTATAACTTTAAAGTAATCGG-TTCAAAATTTTGTGTATCGATACTTTATACATGTGTA
66 ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTG-GTATCGATACTTTATACATGTGTA
* * * * ** * *
3542381 TCGATATTTTATGCATGCCAATTGTTGAGAAGCATAAAGGACTAAAAGTATCAATACCTATACAA
130 TCGATACTTTGTGCATGCAAATTGTTGAGAAACATACTGGACTAAAAATATCGATACCTATACAA
*
3542446 AAAGTATCGATACTTTATGTTTACTCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATT
195 AAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATT
** * * * * * *
3542511 GTAAATTTAGATGTAACTTTAAAGTATTTGGTTTCAAAATTTTGCGTATCATTACTTTATACATA
260 GTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCAATACTTTATACATG
* *
3542576 TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATATTGAACTAAAAGTATCGATACCTAT
325 TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATACCTAT
* * *
3542641 GCAAAAAGTATCGATACTTTCTGTTTACGCCTATTATCATTAAACCAATACACTTTTACCGTTAA
390 ACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATACACTTTTACCGTTAA
* * * * *
3542706 CATTGTAAATTTACCTATAATTTTAAAGTATTCAGCTTCAAAATTCTGTGTATCGATATTTTATA
455 CATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCGAAATT-TGTGTATCGATACTTTATA
*
3542771 CATGTGTATCGATACTTTGTGCATGCAAATTGTTGAGAAGCATACTAG-ACTAAAAG
519 CATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGAACTAAAAG
* * * * * **
3542827 TATCGATACTATATGTTTACGCCTATTATCATTAAACCAGTAGACTGTTACCATTGATTTTGTAA
1 TATCGATACTTTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* *
3542892 ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGCCTATGGATACTTTATACATGTGTA
66 ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTG-GTATCGATACTTTATACATGTGTA
* *
3542957 TCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACTAAAAGTATCGATACCTATACAA
130 TCGATACTTTGTGCATGCAAATTGTTGAGAAACATACTGGACTAAAAATATCGATACCTATACAA
* * * * *
3543022 AAAGTATCGATACTTTATGTTTGCGCCTATTATCATTAAATCGGTAGACTTTTACTGTTTAGATT
195 AAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATT
*
3543087 GTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCGATACTTTATACATG
260 GTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCAATACTTTATACATG
* * * *
3543152 TATATCGATACTTTGTGCGTGCAAATTGTTGATAAGCATATTGGACTAAAAGTATTGATACTTAT
325 TGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATACCTAT
** * * *
3543217 AC-AAAAGTATCGATACTTTATGTTTACGCCTATTAT-ATTTAAATTGATAAACTTTTACTGTTG
390 ACAAAAAGTATCGATACTTTATGTTTACGCCTATTATCA-TTAAACCGATACACTTTTACCGTTA
* *
3543280 ACATTGTAAATTTACCTATAACTTTAAAGTAATCATTTTCGAAATTTCGTGTATCGATACTGTAT
454 ACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCGAAATTT-GTGTATCGATACTTTAT
* * *
3543345 ACATGTGTATCGATACTTAGTGCGTGCAAATTATTGAGAAGTATATTGTACTAAAAGTATCGATA
518 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAG--CA---TAC------TA--GA-A
3543410 CCTATACAAAAAG
569 -C--T---AAAAG
* * ** *
3543423 TATTGATACTTTATGTTTACACCTATTATCAATAAATTGATAGACTTTTACCGTTGACATTGTAA
1 TATCGATACTTTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * *** *
3543488 ATTTACATATAACTTTAAAGTAATCGGTTTCAAAATTCCAT-GTATCAATATTTTATTTTTATGT
66 ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATT-C-TGGTATCGATACTTTATACATGTGT
* * * *
3543552 ATTGATACTTTGTGCGTGCAAATTGTTGAGAAGA-ATACTGGACTAAAAATATTGATACCTATAT
129 ATCGATACTTTGTGCATGCAAATTGTTGAGAA-ACATACTGGACTAAAAATATCGATACCTATAC
** * * * * *
3543616 AAAAAGTATAAATACTTTATGTTTACGCATATTATTATTAAATCGGTAGGCTTTTACCGTTTACA
193 AAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACA
* * * **
3543681 TTGTAAATTTACCTATAACTTTAAAGTAA-TAGGCTTCGAAGTTATAAGTATCAATACTTGTTAT
258 TTGTAAATTTACCTATAACTTTAAAGTAATTA-GTTTCAAAATTATGCGTATCAATAC-T-TTAT
* * * * * *
3543745 ACA--TGTATCGATATTTTTTACGTGTAAATTGTTGAGAATCATACTGGACTAAAAGTATCGATA
320 ACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATA
3543808 C
385 C
3543809 ATTTTGTTTA
Statistics
Matches: 1340, Mismatches: 183, Indels: 50
0.85 0.12 0.03
Matches are distributed among these distances:
574 2 0.00
575 598 0.45
576 271 0.20
577 45 0.03
578 80 0.06
580 3 0.00
586 2 0.00
588 1 0.00
590 1 0.00
591 1 0.00
593 1 0.00
595 2 0.00
596 322 0.24
597 3 0.00
598 8 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (575 bp):
TATCGATACTTTATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
ATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGGTATCGATACTTTATACATGTGTAT
CGATACTTTGTGCATGCAAATTGTTGAGAAACATACTGGACTAAAAATATCGATACCTATACAAA
AAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTG
TAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCAATACTTTATACATGT
GTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTGGACTAAAAGTATCGATACCTATA
CAAAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATACACTTTTACCGTTAAC
ATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCGAAATTTGTGTATCGATACTTTATACA
TGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTAGAACTAAAAG
Found at i:3543561 original size:397 final size:396
Alignment explanation
Indices: 3542822--3543710 Score: 1175
Period size: 397 Copynumber: 2.2 Consensus size: 396
3542812 ATACTAGACT
* * * * *
3542822 AAAAGTATCGATACTATATGTTTACGCCTATTATCA-TTAAA-CCAGTAGACTGTTACCATTGAT
1 AAAAGTATCGATACTTTATGTTTACGCCTATTAT-ATTTAAATCGA-TAGACTTTTACCGTTGAC
* * * *
3542885 TTTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGCCTATGGATACTTTATAC
64 ATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCAAAATTCTG-CTATCGATACTGTATAC
* *
3542950 ATGTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACTAAAAGTATCGATACC
128 ATGTGTATCGATACTTAGTGCATGCAAATTATTAAGAAACATACTGGACTAAAAGTATCGATACC
* * * * *
3543015 TATACAAAAAGTATCGATACTTTATGTTTGCGCCTATTATCATTAAATCGGTAGACTTTTACTGT
193 TATACAAAAAGTATCGATACTTTATGTTTACACCTATTATCAATAAATCGATAGACTTTTACCGT
* * * * *
3543080 TTAGATTGTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCGATACTTT
258 TGACATTGTAAATTTACATATAACTTTAAAGTAATCAGTTTCAAAATTAT-CGTATCAATACTTT
* * * *
3543145 ATACATGTATATCGATACTTTGTGCGTGCAAATTGTTGATAAGCATATTGGACTAAAAGTATTGA
322 ATACATGTATATCGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATATTGA
3543210 TA-CT-TATA
387 TACCTATATA
* * *
3543218 CAAAAGTATCGATACTTTATGTTTACGCCTATTATATTTAAATTGATAAACTTTTACTGTTGACA
1 -AAAAGTATCGATACTTTATGTTTACGCCTATTATATTTAAATCGATAGACTTTTACCGTTGACA
* *
3543283 TTGTAAATTTACCTATAACTTTAAAGTAATCATTTTCGAAATTTCGTG-TATCGATACTGTATAC
65 TTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTC-AAAATTC-TGCTATCGATACTGTATAC
* * ** * *
3543347 ATGTGTATCGATACTTAGTGCGTGCAAATTATTGAGAAGTATATTGTACTAAAAGTATCGATACC
128 ATGTGTATCGATACTTAGTGCATGCAAATTATTAAGAAACATACTGGACTAAAAGTATCGATACC
* *
3543412 TATACAAAAAGTATTGATACTTTATGTTTACACCTATTATCAATAAATTGATAGACTTTTACCGT
193 TATACAAAAAGTATCGATACTTTATGTTTACACCTATTATCAATAAATCGATAGACTTTTACCGT
* *
3543477 TGACATTGTAAATTTACATATAACTTTAAAGTAATCGGTTTCAAAATTCCAT-GTATCAATATTT
258 TGACATTGTAAATTTACATATAACTTTAAAGTAATCAGTTTCAAAATT--ATCGTATCAATACTT
**
3543541 TATTTTTATGTAT-T-GATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATAT
321 TA--TACATGTATATCGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATAT
3543604 TGATACCTATATA
384 TGATACCTATATA
** * * * *
3543617 AAAAGTATAAATACTTTATGTTTACGCATATTAT-TATTAAATCGGTAGGCTTTTACCGTTTACA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATAT-TTAAATCGATAGACTTTTACCGTTGACA
3543681 TTGTAAATTTACCTATAACTTTAAAGTAAT
65 TTGTAAATTTACCTATAACTTTAAAGTAAT
3543711 AGGCTTCGAA
Statistics
Matches: 430, Mismatches: 51, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
396 1 0.00
397 321 0.75
398 93 0.22
399 15 0.03
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (396 bp):
AAAAGTATCGATACTTTATGTTTACGCCTATTATATTTAAATCGATAGACTTTTACCGTTGACAT
TGTAAATTTACCTATAACTTTAAAGTAATCAGTTTCAAAATTCTGCTATCGATACTGTATACATG
TGTATCGATACTTAGTGCATGCAAATTATTAAGAAACATACTGGACTAAAAGTATCGATACCTAT
ACAAAAAGTATCGATACTTTATGTTTACACCTATTATCAATAAATCGATAGACTTTTACCGTTGA
CATTGTAAATTTACATATAACTTTAAAGTAATCAGTTTCAAAATTATCGTATCAATACTTTATAC
ATGTATATCGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATATTGATACC
TATATA
Found at i:3543801 original size:774 final size:767
Alignment explanation
Indices: 3541674--3543900 Score: 2485
Period size: 774 Copynumber: 2.9 Consensus size: 767
3541664 TATACATGCA
* * **
3541674 TATCGATACTTGATGTTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTTCATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
* * * * * * *
3541739 ATTAACCTATTACCTTACAGTAATAGGTTTCGAAATTATAAGTACCGATACTTTATATATGTGTA
66 ATTTACCTATAACTTTAAAGTAATA-GTTTCGAAATT-TGAGTATCGATACTTTATACATGTGTA
* * * * * *
3541804 TCGACACATTTTGCGTGCAAATTTTTTTGAGAAGCATACTGGAA-TAAAAATATCGATACCTATA
129 TCGATAC-TTGTGCGTGCAAA--TTATTGAGAAGTATA-TTGAACTAAAAGTATCGATACCTATA
* * * * * * * *
3541868 TAGAAAGTATCGATACTTGATATTTATGCCTATTATCAATATACCGTTAGACTTTTACCGTTGAT
190 CAAAAAGTATCGATACTTTATGTTTACGCCTATTATCAATAAACCGATAGACTTTTACCGTTGAC
* * * * *
3541933 ATTGTAAATTTACCTATAACTTTAAAGTAATTGGTTTCGAAATTTCGCGTATCAATACTTTATAC
255 ATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCCGTGTATCAATATTTTATAC
* *
3541998 ATGTGTATCGATACTTTGTGCGTGTAAATTGTTGAGAAGCATATTGGACTAAAAATATTGATACC
320 ATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAATATTGATACC
* * *
3542063 TATACAAAAAGTATCGACACTTTATGTTTACGCCTATTATCATTAAACCGGTACACTTTTACCAT
385 TATATAAAAAGTAT--ATACTTTATGTTTACG-CTATTATCATTAAACCGGTAGACTTTTACCAT
* * * *
3542128 TAAAAATGTAAATTTACATATAACTTTAAAGTAATCTGTTTCGAAATTATGCGTATCGATACATT
447 TAAAATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATGCGTATCGATACTTT
* * * *
3542193 ATACACGTGTATCGATATTTTGTGCGTGCAAATTGTTGTGAAGCATATTGAACTAAAAGTATCGA
512 ATACA-GTGTATCGATATTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAGTATCGA
* * * *
3542258 TAGTTTATGTTTACACCTATTATCATTAAACCGGTAAACTTTTACCGTTGACATTGTAAATTTAC
576 TACTTTATGTTTACGCCTATTATCATTAAATCGGTAAACTTTTACCGTTTACATTGTAAATTTAC
* * * * * *
3542323 CTATAACTTTAAAGTAATCGGTTCAAAATTTTGTGTATCGATACTTTATACATGTGTATCGATAT
641 CTATAACTTTAAAGTAATAGTTTCAAAATTATGCGTATCGATACTTTATACATGTATATCGATAC
*
3542388 TTTATGCATGCCAATTGTTGAGAAGCATAAAGGACTAAAAGTATCAATACCTATACAAAAAG
706 TTTATGCATGCAAATTGTTGAGAAGCATAAAGGACTAAAAGTATCAATACCTATACAAAAAG
*
3542450 TATCGATACTTTATGTTTACTCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
1 TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
** * * * * * *
3542515 ATTTAGATGTAACTTTAAAGTATTTGGTTTCAAAATTTTGCGTATC-ATTACTTTATACATATGT
66 ATTTACCTATAACTTTAAAGTA-ATAGTTTCGAAA-TTTGAGTATCGA-TACTTTATACATGTGT
* *
3542579 ATCGATACTTTGTGCGTGCAAATTGTTGAGAA-TCATATTGAACTAAAAGTATCGATACCTATGC
128 ATCGATAC-TTGTGCGTGCAAATTATTGAGAAGT-ATATTGAACTAAAAGTATCGATACCTATAC
* * * * *
3542643 AAAAAGTATCGATACTTTCTGTTTACGCCTATTATCATTAAACCAATACACTTTTACCGTTAACA
191 AAAAAGTATCGATACTTTATGTTTACGCCTATTATCAATAAACCGATAGACTTTTACCGTTGACA
* * * * * *
3542708 TTGTAAATTTACCTATAATTTTAAAGTATTCAGCTTCAAAATTCTGTGTATCGATATTTTATACA
256 TTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCCGTGTATCAATATTTTATACA
* * * *
3542773 TGTGTATCGATACTTTGTGCATGCAAATTGTTGAGAAGCATACTAGACTAAAAGTATCGATA-CT
321 TGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAATATTGATACCT
* * * *
3542837 ATAT-----GT-T-TAC-----G----C-CTATTATCATTAAACCAGTAGACTGTTACCATTGAT
386 ATATAAAAAGTATATACTTTATGTTTACGCTATTATCATTAAACCGGTAGACTTTTACCATTAAA
* * * * *
3542885 TTTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCTGCCTATGGATACTTTATAC
451 ATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATGCGTATCGATACTTTATAC
* * *
3542950 ATGTGTATCGATACTTTGTGCATGCAAATTGTTAAGAAACATACTGGACTAAAAGTATCGATACC
516 A-GTGTATCGATATTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAGTATCGATA-C
* *
3543015 TATACAAAAAGTATCGATACTTTATGTTTGCGCCTATTATCATTAAATCGGTAGACTTTTACTGT
579 T-T--------TAT-G----TTTA------CGCCTATTATCATTAAATCGGTAAACTTTTACCGT
*
3543080 TTAGATTGTAAATTTACCTATAACTTTAAAGTAATTAGTTTCAAAATTATGCGTATCGATACTTT
624 TTACATTGTAAATTTACCTATAACTTTAAAGTAA-TAGTTTCAAAATTATGCGTATCGATACTTT
* * * ** **
3543145 ATACATGTATATCGATACTTTGTGCGTGCAAATTGTTGATAAGCATATTGGACTAAAAGTATTGA
688 ATACATGTATATCGATACTTTATGCATGCAAATTGTTGAGAAGCATAAAGGACTAAAAGTATCAA
*
3543210 TACTTATAC-AAAAG
753 TACCTATACAAAAAG
** * * *
3543224 TATCGATACTTTATGTTTACGCCTATTAT-ATTTAAATTGATAAACTTTTACTGTTGACATTGTA
1 TATCGATACTTTATGTTTACGCCTATTATCA-TTAAACCGGTAGACTTTTACCGTTGACATTGTA
* * *
3543288 AATTTACCTATAACTTTAAAGTAATCATTTTCGAAATTTCGTGTATCGATACTGTATACATGTGT
65 AATTTACCTATAACTTTAAAGTAAT-AGTTTCGAAATTT-GAGTATCGATACTTTATACATGTGT
*
3543353 ATCGATACTTAGTGCGTGCAAATTATTGAGAAGTATATTGTACTAAAAGTATCGATACCTATACA
128 ATCGATACTT-GTGCGTGCAAATTATTGAGAAGTATATTGAACTAAAAGTATCGATACCTATACA
* * **
3543418 AAAAGTATTGATACTTTATGTTTACACCTATTATCAATAAATTGATAGACTTTTACCGTTGACAT
192 AAAAGTATCGATACTTTATGTTTACGCCTATTATCAATAAACCGATAGACTTTTACCGTTGACAT
* * ***
3543483 TGTAAATTTACATATAACTTTAAAGTAATCGGTTTCAAAATTCCATGTATCAATATTTTATTTTT
257 TGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCCGTGTATCAATATTTTATACAT
* * *
3543548 ATGTATTGATACTTTGTGCGTGCAAATTGTTGAGAAGAATACTGGACTAAAAATATTGATACCTA
322 GTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAATATTGATACCTA
* * * * *
3543613 TATAAAAAGTATAAATACTTTATGTTTACGCATATTATTATTAAATCGGTAGGCTTTTACCGTTT
387 TATAAAAAGTAT--ATACTTTATGTTTACGC-TATTATCATTAAACCGGTAGACTTTTACCATTA
* * * * ** *
3543678 ACATTGTAAATTTACCTATAACTTTAAAGTAATAGGCTTCGAAGTTATAAGTATCAATACTTGTT
449 AAATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATGCGTATCGATAC-T-TT
* * * *
3543743 ATACA-TGTATCGATATTTTTTACGTGTAAATTGTTGAGAATCATACTGGACTAAAAGTATCGAT
512 ATACAGTGTATCGATATTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAGTATCGAT
* *
3543807 ACATTT-TGTTTACG-CTATTATCATTAAATC--AAATTATTTTTACCGTTTACATTGTAAATTT
577 AC-TTTATGTTTACGCCTATTATCATTAAATCGGTAA--ACTTTTACCGTTTACATTGTAAATTT
** * *
3543868 ATGTTTTACTTTAAAGTAATATGTTTCAAAATT
639 ACCTATAACTTTAAAGTAATA-GTTTCAAAATT
3543901 CTATGTATCG
Statistics
Matches: 1206, Mismatches: 185, Indels: 123
0.80 0.12 0.08
Matches are distributed among these distances:
753 142 0.12
754 1 0.00
755 2 0.00
759 1 0.00
763 3 0.00
764 3 0.00
767 1 0.00
768 6 0.00
771 1 0.00
772 2 0.00
773 81 0.07
774 587 0.49
775 98 0.08
776 121 0.10
777 3 0.00
780 6 0.00
781 1 0.00
784 4 0.00
785 1 0.00
786 1 0.00
789 1 0.00
793 1 0.00
794 3 0.00
795 128 0.11
796 1 0.00
797 7 0.01
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (767 bp):
TATCGATACTTTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTACCGTTGACATTGTAA
ATTTACCTATAACTTTAAAGTAATAGTTTCGAAATTTGAGTATCGATACTTTATACATGTGTATC
GATACTTGTGCGTGCAAATTATTGAGAAGTATATTGAACTAAAAGTATCGATACCTATACAAAAA
GTATCGATACTTTATGTTTACGCCTATTATCAATAAACCGATAGACTTTTACCGTTGACATTGTA
AATTTACCTATAACTTTAAAGTAATCGGTTTCAAAATTCCGTGTATCAATATTTTATACATGTGT
ATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTAAAAATATTGATACCTATATA
AAAAGTATATACTTTATGTTTACGCTATTATCATTAAACCGGTAGACTTTTACCATTAAAATTGT
AAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATGCGTATCGATACTTTATACAGTGT
ATCGATATTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAGTATCGATACTTTATGT
TTACGCCTATTATCATTAAATCGGTAAACTTTTACCGTTTACATTGTAAATTTACCTATAACTTT
AAAGTAATAGTTTCAAAATTATGCGTATCGATACTTTATACATGTATATCGATACTTTATGCATG
CAAATTGTTGAGAAGCATAAAGGACTAAAAGTATCAATACCTATACAAAAAG
Found at i:3544115 original size:26 final size:26
Alignment explanation
Indices: 3544079--3544137 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
3544069 ATATACTTAT
*
3544079 AGTATAGGTATCGATACAGAAACATA
1 AGTATGGGTATCGATACAGAAACATA
*
3544105 AGTATGGGTATCGATACAGAAACGTA
1 AGTATGGGTATCGATACAGAAACATA
3544131 AGTATGG
1 AGTATGG
3544138 ATATAGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.41, C:0.10, G:0.25, T:0.24
Consensus pattern (26 bp):
AGTATGGGTATCGATACAGAAACATA
Found at i:3545489 original size:12 final size:12
Alignment explanation
Indices: 3545472--3545514 Score: 77
Period size: 12 Copynumber: 3.6 Consensus size: 12
3545462 CAAAGCTCTT
3545472 ATTCAAATTGAA
1 ATTCAAATTGAA
*
3545484 ATTCAAACTGAA
1 ATTCAAATTGAA
3545496 ATTCAAATTGAA
1 ATTCAAATTGAA
3545508 ATTCAAA
1 ATTCAAA
3545515 ACTGTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (12 bp):
ATTCAAATTGAA
Found at i:3545503 original size:6 final size:6
Alignment explanation
Indices: 3545472--3545514 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
3545462 CAAAGCTCTT
* * * *
3545472 ATTCAA ATTGAA ATTCAA ACTGAA ATTCAA ATTGAA ATTCAA A
1 ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA ATTCAA A
3545515 ACTGTATAAT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (6 bp):
ATTCAA
Found at i:3557634 original size:11 final size:11
Alignment explanation
Indices: 3557618--3557656 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
3557608 AAACTCGAAA
3557618 CTCGATTCAAG
1 CTCGATTCAAG
**
3557629 CTCGATTTTGAG
1 CTCGA-TTCAAG
3557641 CTCGATTCAAG
1 CTCGATTCAAG
3557652 CTCGA
1 CTCGA
3557657 AAACGAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:3559155 original size:35 final size:35
Alignment explanation
Indices: 3559102--3559177 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
3559092 TAGGGTTTAA
* *
3559102 GGTTTAGGTTTTAAGGTTTAGTGCTTATGGCTTAG
1 GGTTTAAGTCTTAAGGTTTAGTGCTTATGGCTTAG
* *
3559137 GGTTTAAGTCTTAGGGTTTAGTGTTTATGGCTTAG
1 GGTTTAAGTCTTAAGGTTTAGTGCTTATGGCTTAG
3559172 GGTTTA
1 GGTTTA
3559178 GGGATTAGAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.17, C:0.05, G:0.32, T:0.46
Consensus pattern (35 bp):
GGTTTAAGTCTTAAGGTTTAGTGCTTATGGCTTAG
Found at i:3559162 original size:7 final size:7
Alignment explanation
Indices: 3559089--3559238 Score: 95
Period size: 7 Copynumber: 21.4 Consensus size: 7
3559079 ACATAACTGA
3559089 GTTTAGG
1 GTTTAGG
*
3559096 GTTTAAG
1 GTTTAGG
3559103 GTTTAGG
1 GTTTAGG
* *
3559110 TTTTAAG
1 GTTTAGG
*
3559117 GTTTAGT
1 GTTTAGG
* *
3559124 GCTTATG
1 GTTTAGG
*
3559131 GCTTAGG
1 GTTTAGG
*
3559138 GTTTA-A
1 GTTTAGG
3559144 GTCTTAGG
1 GT-TTAGG
*
3559152 GTTTAGT
1 GTTTAGG
*
3559159 GTTTATG
1 GTTTAGG
*
3559166 GCTTAGG
1 GTTTAGG
3559173 GTTTAGG
1 GTTTAGG
* *
3559180 GATTAGA
1 GTTTAGG
*
3559187 GTTAAGG
1 GTTTAGG
* *
3559194 GTTCAGT
1 GTTTAGG
* *
3559201 ATTTATG
1 GTTTAGG
*
3559208 GCTTAGG
1 GTTTAGG
*
3559215 ATTTAGG
1 GTTTAGG
*
3559222 GATTAGG
1 GTTTAGG
3559229 GTTTAGG
1 GTTTAGG
3559236 GTT
1 GTT
3559239 CATTAAAAAT
Statistics
Matches: 102, Mismatches: 39, Indels: 4
0.70 0.27 0.03
Matches are distributed among these distances:
6 2 0.02
7 98 0.96
8 2 0.02
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:3559195 original size:42 final size:42
Alignment explanation
Indices: 3559149--3559240 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
3559139 TTTAAGTCTT
* * *
3559149 AGGGTTTAGTGTTTATGGCTTAGGGTTTAGGGATTAGAGTTA
1 AGGGTTCAGTATTTATGGCTTAGGATTTAGGGATTAGAGTTA
* *
3559191 AGGGTTCAGTATTTATGGCTTAGGATTTAGGGATTAGGGTTT
1 AGGGTTCAGTATTTATGGCTTAGGATTTAGGGATTAGAGTTA
3559233 AGGGTTCA
1 AGGGTTCA
3559241 TTAAAAATAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (42 bp):
AGGGTTCAGTATTTATGGCTTAGGATTTAGGGATTAGAGTTA
Found at i:3561957 original size:2 final size:2
Alignment explanation
Indices: 3561950--3562029 Score: 160
Period size: 2 Copynumber: 40.0 Consensus size: 2
3561940 GATTCCAAAG
3561950 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
3561992 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
3562030 CCTTCCCCAT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3563275 original size:178 final size:178
Alignment explanation
Indices: 3562967--3563292 Score: 503
Period size: 178 Copynumber: 1.8 Consensus size: 178
3562957 CAATAAATTA
3562967 GTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAATTTAT
1 GTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAATTTAT
* ** *
3563032 AAGTATAGATACTTGTGATACGTGTATCGATACTTGTGCATGCAAATTGTTTTTGATGCATATTG
66 AAGTATAGATACTTGTAATACGTGTATCGATACTTGTGCATGCAAATTGTTTGAGAAGCATATTG
* *
3563097 GAATACAAGTATTGATACTTTACGTTTACACCTCATTTCATTAAACCG
131 GAATAAAAGTATCGATACTTTACGTTTACACCTCATTTCATTAAACCG
* *
3563145 GTAGATTTTTATCGTTTACATTGTAAATTTCCCTATTACTTTAAAGTAATAGGTTTCGAAA-TTA
1 GTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTC-AAATTTA
* ** *
3563209 TAAGTATCGATACTTGTAATACGTGTATCGATACTTTGTGTGTGCAAATTG-TTGAGAAGTATAT
65 TAAGTATAGATACTTGTAATACGTGTATCGATAC-TTGTGCATGCAAATTGTTTGAGAAGCATAT
*
3563273 TGGACTAAAAGTATCGATAC
129 TGGAATAAAAGTATCGATAC
3563293 CAATACAAAA
Statistics
Matches: 133, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
178 116 0.87
179 17 0.13
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.40
Consensus pattern (178 bp):
GTAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAATTTAT
AAGTATAGATACTTGTAATACGTGTATCGATACTTGTGCATGCAAATTGTTTGAGAAGCATATTG
GAATAAAAGTATCGATACTTTACGTTTACACCTCATTTCATTAAACCG
Found at i:3563457 original size:200 final size:200
Alignment explanation
Indices: 3563103--3564108 Score: 1004
Period size: 200 Copynumber: 5.0 Consensus size: 200
3563093 ATTGGAATAC
* * ** * *
3563103 AAGTATTGATACTTTACGTTTACACCTCATT-TCATTAAACCGGTAGATTTTTATCGTTTACATT
1 AAGTATCGATACTTTATGTTTATGCCT-ATTATCATTAAACCGATAGATTTTTACCGTTTACATT
* * * * *
3563167 GTAAATTTCCCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTGTAATACG
65 GTAAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATACA
* ** * * * * **
3563232 TGTATCGATACTTTGTGTGTGCAAATTG-TTGAGAAGTATATTGGACTAAAAGTATCGATACCAA
130 TGTATCGATACTTTTTGCATGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACTTA
* *
3563296 TACAAAA
195 TA-TAAT
*
3563303 AAGTATCGATACTTTATGTTTATGCATATTATCATTAAACCGATAGATTTTTACCGTTTACATTG
1 AAGTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTTTACATTG
* * * *
3563368 TAAATTTTCCTATTAATTTAAAGTATTAGGTTTCGAAATTATAAGTATCGATACTTGTGATACAT
66 TAAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATACAT
* * * * * **
3563433 GTATTGATACTTTTTGCATGCAAATTGTTTGCGATGAATATTGGAATACAAGTATAAATACTTAT
131 GTATCGATACTTTTTGCATGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACTTAT
3563498 ATAAT
196 ATAAT
* * * * * *
3563503 AAGTATCAATACATTATGATTATGCCTATTATCATTAAACCGATAGATTTTTACCATTTTTCGTT
1 AAGTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACC-GTTTACATT
* * * *
3563568 GTAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTACCAATACTTGTTATACA
65 GTAAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATACA
* * * * *
3563633 TGTATCGATATTTTTTTGCGTGCAAATTG-TTCAGATGCACACTGGAATAAAAGTATTGATACTT
130 TGTATCGATA-CTTTTTGCATGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACTT
3563697 ATATAAT
194 ATATAAT
* *
3563704 AAGTATCGATACTTTATGTTTATGTCTATTATCATTAAA-C-ATTAGATTTTTACCGTTTTCATT
1 AAGTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGA-TAGATTTTTACCGTTTACATT
* * * **
3563767 ATAAATTTACC---T-ATTTCAAGAAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATATG
65 GTAAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATACA
* * * *
3563828 TGTATTGATACTTTTTACGA-GCAAATTGTTTGAGATGCATACTGGACTAAAAATATCGATA-TG
130 TGTATCGATACTTTTTGC-ATGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACT-
* *
3563891 TATTTAGT
193 TATATAAT
* * * * *
3563899 AAGTATCAATACTTTATGTTTATGCCTATTATCATTCAACCAACAGATTTTTACTGTTATGAACA
1 AAGTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTT-T--ACA
* * * * **
3563964 ---TATATTTACCTATT-ATTGTAAAGTAATAGGTTTCAAAATTACATGTATTGATAC-T-TTAT
63 TTGTAAATTTACCTATTAATT-TAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTAT
* * * * * * *
3564023 ATATGAGTATAGATACTTTGTTG-AGGGTAAATTGTTTGATATCCATACTAGAATAAAAGTATCG
127 ACAT--GTATCGATACTTT-TTGCA-TGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCG
** *
3564087 ATACAGATATAAA
188 ATACTTATATAAT
3564100 AAGTATCGA
1 AAGTATCGA
3564109 AATTGGACAT
Statistics
Matches: 675, Mismatches: 108, Indels: 45
0.82 0.13 0.05
Matches are distributed among these distances:
194 15 0.02
195 120 0.18
196 24 0.04
197 2 0.00
198 7 0.01
199 28 0.04
200 244 0.36
201 219 0.32
202 16 0.02
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (200 bp):
AAGTATCGATACTTTATGTTTATGCCTATTATCATTAAACCGATAGATTTTTACCGTTTACATTG
TAAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATCAATACTTGTTATACAT
GTATCGATACTTTTTGCATGCAAATTGTTTGAGATGCATACTGGAATAAAAGTATCGATACTTAT
ATAAT
Found at i:3563708 original size:21 final size:20
Alignment explanation
Indices: 3563679--3563717 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3563669 GCACACTGGA
*
3563679 ATAAAAGTATTGATACTTAT
1 ATAAAAGTATCGATACTTAT
3563699 ATAATAAGTATCGATACTT
1 ATAA-AAGTATCGATACTT
3563718 TATGTTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (20 bp):
ATAAAAGTATCGATACTTAT
Found at i:3564079 original size:396 final size:399
Alignment explanation
Indices: 3563168--3564108 Score: 1075
Period size: 396 Copynumber: 2.4 Consensus size: 399
3563158 GTTTACATTG
* *
3563168 TAAATTTCCCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTGTA-ATACG
1 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTGTATATA-G
* * * * * * *
3563232 TGTATCGATACTTTG-TGTGTGCAAATTGTTGAGAAGTATATTGGACTAAAAGTATCGATACCAA
65 AGTATCGATACTTTGTTGAGTGCAAATTGTTGAGATGCATACTGGAATAAAAGTATCGATACAAA
*
3563296 TACAAAAAAGTATCGATACTTTATGTTTATGCATATTATCATTAAACCGATAGATTTTTACCGTT
130 TA-TAAAAAGTATCGATACTTTATGTTTATGCATATTATCATTAAACCGATAGATTTTTACCGTT
* * * * *
3563361 TACATTGTAAATTTTCCTATTAATTTAAAGTATTAGGTTTCGAAATTATAAGTATCGATACTTGT
194 TACATTATAAATTTACC--TTAATTTAAAGAAATAGGTTTCGAAATTATAAGTATCAATACTTGT
* * * * *
3563426 GATACATGTATTGATACTTTTTGCATGCAAATTGTTTGCGATGAATATTGGAATACAAGTATAAA
257 GATACATGTATTGATACTTTTTACATGCAAATTGTTTGAGATGAATACTGGAATAAAAATATAAA
* *
3563491 TACTTATATAATAAGTATCAATACATTATGATTATGCCTATTATCATTAAACCGATAGATTTTTA
322 TACTTATATAATAAGTATCAATACATTATGATTATGCCTATTATCATTAAACCAACAGATTTTTA
* ***
3563556 CCATTTTTCGTTG
387 CCATTTATCGACA
* * * *
3563569 TAAAATTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTACCAATACTTGT-TATACA
1 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTGTATATAGA
* * * * * * **
3563633 TGTATCGATATTTTTTTGCGTGCAAATTGTTCAGATGCACACTGGAATAAAAGTATTGATACTTA
66 -GTATCGATACTTTGTTGAGTGCAAATTGTTGAGATGCATACTGGAATAAAAGTATCGATACAAA
*
3563698 TATAATAAGTATCGATACTTTATGTTTATGTC-TATTATCATTAAA-C-ATTAGATTTTTACCGT
130 TATAAAAAGTATCGATACTTTATGTTTATG-CATATTATCATTAAACCGA-TAGATTTTTACCGT
* * *
3563760 TTTCATTATAAATTTACC-T-ATTTCAAGAAATAGGTTTCGAAATTATAAGTATCAATACTTGTT
193 TTACATTATAAATTTACCTTAATTTAAAGAAATAGGTTTCGAAATTATAAGTATCAATACTTGTG
** * * **
3563823 ATATGTGTATTGATACTTTTTACGA-GCAAATTGTTTGAGATGCATACTGGACTAAAAATATCGA
258 ATACATGTATTGATACTTTTTAC-ATGCAAATTGTTTGAGATGAATACTGGAATAAAAATATAAA
* * * * *
3563887 TA-TGTATTTAGTAAGTATCAATACTTTATGTTTATGCCTATTATCATTCAACCAACAGATTTTT
322 TACT-TATATAATAAGTATCAATACATTATGATTATGCCTATTATCATTAAACCAACAGATTTTT
3563951 A-C-TGTTAT-GAACA
386 ACCAT-TTATCG-ACA
* * * *
3563964 TATATTTACCTATTA-TTGTAAAGTAATAGGTTTCAAAATTACATGTATTGATACTT-TATATAT
1 TAAATTTACCTATTACTT-TAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTGTATATA-
* * * * * *
3564027 GAGTATAGATACTTTGTTGAGGGTAAATTGTTTGATATCCATACTAGAATAAAAGTATCGATACA
64 GAGTATCGATACTTTGTTGAGTGCAAATTG-TTGAGATGCATACTGGAATAAAAGTATCGATACA
*
3564092 GATATAAAAAGTATCGA
128 AATATAAAAAGTATCGA
3564109 AATTGGACAT
Statistics
Matches: 453, Mismatches: 74, Indels: 31
0.81 0.13 0.06
Matches are distributed among these distances:
394 5 0.01
395 77 0.17
396 189 0.42
397 2 0.00
399 1 0.00
400 30 0.07
401 107 0.24
402 42 0.09
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.40
Consensus pattern (399 bp):
TAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTGTATATAGA
GTATCGATACTTTGTTGAGTGCAAATTGTTGAGATGCATACTGGAATAAAAGTATCGATACAAAT
ATAAAAAGTATCGATACTTTATGTTTATGCATATTATCATTAAACCGATAGATTTTTACCGTTTA
CATTATAAATTTACCTTAATTTAAAGAAATAGGTTTCGAAATTATAAGTATCAATACTTGTGATA
CATGTATTGATACTTTTTACATGCAAATTGTTTGAGATGAATACTGGAATAAAAATATAAATACT
TATATAATAAGTATCAATACATTATGATTATGCCTATTATCATTAAACCAACAGATTTTTACCAT
TTATCGACA
Found at i:3566835 original size:18 final size:17
Alignment explanation
Indices: 3566808--3566843 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
3566798 TTAACTTTGG
*
3566808 TCATCACATACATAATT
1 TCATCACATACAAAATT
3566825 TCATCCACATACAAAATT
1 TCAT-CACATACAAAATT
3566843 T
1 T
3566844 GGCTTACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCACATACAAAATT
Found at i:3571324 original size:21 final size:21
Alignment explanation
Indices: 3571300--3571365 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
3571290 ATTGTCCAAT
*
3571300 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
*
3571321 AAACTTGAAATCCATAACAAG
1 AAACTTGAAATCCATAACAAC
* *
3571342 ATACTTGAAATCCATAATAAC
1 AAACTTGAAATCCATAACAAC
3571363 AAA
1 AAA
3571366 TCAAAGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.52, C:0.21, G:0.06, T:0.21
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:3573057 original size:418 final size:418
Alignment explanation
Indices: 3572273--3573116 Score: 1661
Period size: 418 Copynumber: 2.0 Consensus size: 418
3572263 TAATGTGAGC
*
3572273 CATTAGCAAAAAGGGCTTGAAAATAATCCGGAAGCACGACTCCACAGTTATTCTCTTTAGGAGTC
1 CATTAGGAAAAAGGGCTTGAAAATAATCCGGAAGCACGACTCCACAGTTATTCTCTTTAGGAGTC
3572338 ATTGTTCCCTCTTCCTTCCCTAAGCTTAGATGTTGTAAGTTCACAAAAACTGATGATGCAGCTTT
66 ATTGTTCCCTCTTCCTTCCCTAAGCTTAGATGTTGTAAGTTCACAAAAACTGATGATGCAGCTTT
3572403 GGTGGCATCATTAGATAAAGGTGCATAAGAATTTGGGGCAGATGCATTAGAACCTATTGAGGTTA
131 GGTGGCATCATTAGATAAAGGTGCATAAGAATTTGGGGCAGATGCATTAGAACCTATTGAGGTTA
3572468 GATACCATAGGGTCAAAAACAAAGACACATATCCGACAATAATATTTTGCTTCATTGCAAGCATA
196 GATACCATAGGGTCAAAAACAAAGACACATATCCGACAATAATATTTTGCTTCATTGCAAGCATA
3572533 AAATTAAAACAATATAACCAACTATTTATAAAGGCACTTCTCATTCAACCATTCAATAGCACACC
261 AAATTAAAACAATATAACCAACTATTTATAAAGGCACTTCTCATTCAACCATTCAATAGCACACC
3572598 TAAAGAAGTAAAAACCAATACATAAGTAATTTCTACCACAGCGATAAATAACAGTTTTTGGACTC
326 TAAAGAAGTAAAAACCAATACATAAGTAATTTCTACCACAGCGATAAATAACAGTTTTTGGACTC
3572663 TCCATACATGTCACAAAGAACATTAGAA
391 TCCATACATGTCACAAAGAACATTAGAA
3572691 CATTAGGAAAAAGGGCTTGAAAATAATCCGGAAGCACGACTCCACAGTTATTCTCTTTAGGAGTC
1 CATTAGGAAAAAGGGCTTGAAAATAATCCGGAAGCACGACTCCACAGTTATTCTCTTTAGGAGTC
3572756 ATTGTTCCCTCTTCCTTCCCTAAGCTTAGATGTTGTAAGTTCACAAAAACTGATGATGCAGCTTT
66 ATTGTTCCCTCTTCCTTCCCTAAGCTTAGATGTTGTAAGTTCACAAAAACTGATGATGCAGCTTT
3572821 GGTGGCATCATTAGATAAAGGTGCATAAGAATTTGGGGCAGATGCATTAGAACCTATTGAGGTTA
131 GGTGGCATCATTAGATAAAGGTGCATAAGAATTTGGGGCAGATGCATTAGAACCTATTGAGGTTA
*
3572886 GATACCATAGGGTCAAAAGCAAAGACACATATCCGACAATAATATTTTGCTTCATTGCAAGCATA
196 GATACCATAGGGTCAAAAACAAAGACACATATCCGACAATAATATTTTGCTTCATTGCAAGCATA
*
3572951 AAATTAAAACAATATAATCAACTATTTATAAAGGCACTTCTCATTCAACCATTCAATAGCACACC
261 AAATTAAAACAATATAACCAACTATTTATAAAGGCACTTCTCATTCAACCATTCAATAGCACACC
3573016 TAAAGAAGTAAAAACCAATACATAAGTAATTTCTACCACAGCGATAAATAACAGTTTTTGGACTC
326 TAAAGAAGTAAAAACCAATACATAAGTAATTTCTACCACAGCGATAAATAACAGTTTTTGGACTC
3573081 TCCATACATGTCACAAAGAACATTAGAA
391 TCCATACATGTCACAAAGAACATTAGAA
3573109 CATTAGGA
1 CATTAGGA
3573117 GACTTTTTTC
Statistics
Matches: 423, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
418 423 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (418 bp):
CATTAGGAAAAAGGGCTTGAAAATAATCCGGAAGCACGACTCCACAGTTATTCTCTTTAGGAGTC
ATTGTTCCCTCTTCCTTCCCTAAGCTTAGATGTTGTAAGTTCACAAAAACTGATGATGCAGCTTT
GGTGGCATCATTAGATAAAGGTGCATAAGAATTTGGGGCAGATGCATTAGAACCTATTGAGGTTA
GATACCATAGGGTCAAAAACAAAGACACATATCCGACAATAATATTTTGCTTCATTGCAAGCATA
AAATTAAAACAATATAACCAACTATTTATAAAGGCACTTCTCATTCAACCATTCAATAGCACACC
TAAAGAAGTAAAAACCAATACATAAGTAATTTCTACCACAGCGATAAATAACAGTTTTTGGACTC
TCCATACATGTCACAAAGAACATTAGAA
Found at i:3574135 original size:35 final size:36
Alignment explanation
Indices: 3574065--3574136 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
3574055 CATGGAAAGA
*
3574065 TAGTTTTCACCAGTAAGTTAAAATATGTTAGAATTG
1 TAGTTTTCACCAATAAGTTAAAATATGTTAGAATTG
*
3574101 TAGTTTTCACCAATAAGTTAAAA-ATGTTCGAATTG
1 TAGTTTTCACCAATAAGTTAAAATATGTTAGAATTG
3574136 T
1 T
3574137 TTTACTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 12 0.35
36 22 0.65
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (36 bp):
TAGTTTTCACCAATAAGTTAAAATATGTTAGAATTG
Found at i:3575465 original size:19 final size:20
Alignment explanation
Indices: 3575424--3575480 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
3575414 GCTCTTTACC
** *
3575424 GGTTTTCTCAAATTGAAATT
1 GGTTTTCTCAAATTTCAACT
3575444 GGTTTT-TCAAATTTCAACT
1 GGTTTTCTCAAATTTCAACT
* *
3575463 GGTTTTGTCAATTTTCAA
1 GGTTTTCTCAAATTTCAA
3575481 TTGACTTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (20 bp):
GGTTTTCTCAAATTTCAACT
Found at i:3577579 original size:31 final size:30
Alignment explanation
Indices: 3577544--3577630 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
3577534 TCAATAAAGT
3577544 TTAAAAAATTATAAAATACTTATTAAATTTA
1 TTAAAAAATTATAAAATA-TTATTAAATTTA
* *
3577575 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAAATTATAAAA-TATTATTAAATTTA
* *
3577606 TCT-AAATACTATAAAATAATTATTA
1 T-TAAAAAATTATAAAAT-ATTATTA
3577631 TATTATCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
30 1 0.02
31 44 0.92
32 3 0.06
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAAATTATAAAATATTATTAAATTTA
Found at i:3577606 original size:20 final size:20
Alignment explanation
Indices: 3577539--3577606 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
3577529 TTTCGTCAAT
*
3577539 AAAG-TTTAAAAAATTA-TA
1 AAAGATTTATAAAATTATTA
* * *
3577557 AAATACTTATTAAATTTATTA
1 AAAGATTTA-TAAAATTATTA
3577578 AAAGA-TTATAAAATTATTA
1 AAAGATTTATAAAATTATTA
3577597 ATAA-ATTTAT
1 A-AAGATTTAT
3577607 CTAAATACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.08
19 15 0.38
20 15 0.38
21 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAGATTTATAAAATTATTA
Found at i:3582840 original size:24 final size:24
Alignment explanation
Indices: 3582780--3582840 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
3582770 AACATCCAAA
*
3582780 CAAACAATTCAAATATCCAAAAATC
1 CAAAC-ATTCAAATATCAAAAAATC
* **
3582805 CAAAAACACAAAT-TCAAACAAATC
1 CAAACATTCAAATATCAAA-AAATC
3582829 CAAACATTCAAA
1 CAAACATTCAAA
3582841 ATGTTTTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 4 0.14
24 20 0.71
25 4 0.14
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (24 bp):
CAAACATTCAAATATCAAAAAATC
Found at i:3591128 original size:128 final size:128
Alignment explanation
Indices: 3590900--3591153 Score: 474
Period size: 128 Copynumber: 2.0 Consensus size: 128
3590890 GAAACCCTGG
* *
3590900 TAGCGATAAAACGAGCTGGGCATGGGCCGAATGGACAGAATGTGAAGAATGGGCCACTTCCACGT
1 TAGCGATAAAAAGAACTGGGCATGGGCCGAATGGACAGAATGTGAAGAATGGGCCACTTCCACGT
3590965 CCTACCTCATTTTTTAAAATAAATTTTATAATATCCTAAATTCCTAATTATAATTTTAGCACT
66 CCTACCTCATTTTTTAAAATAAATTTTATAATATCCTAAATTCCTAATTATAATTTTAGCACT
3591028 TAGCGATAAAAAGAACTGGGCATGGGCCGAATGGA-AGGAATGTGAAGAATGGGCCACTTCCACG
1 TAGCGATAAAAAGAACTGGGCATGGGCCGAATGGACA-GAATGTGAAGAATGGGCCACTTCCACG
3591092 TCCTACCTCATTTTTTAAAATAAATTTTATAATATCCTAAATTCCTAATTATAATTTTAGCA
65 TCCTACCTCATTTTTTAAAATAAATTTTATAATATCCTAAATTCCTAATTATAATTTTAGCA
3591154 TCTCTCATCT
Statistics
Matches: 123, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
127 1 0.01
128 122 0.99
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (128 bp):
TAGCGATAAAAAGAACTGGGCATGGGCCGAATGGACAGAATGTGAAGAATGGGCCACTTCCACGT
CCTACCTCATTTTTTAAAATAAATTTTATAATATCCTAAATTCCTAATTATAATTTTAGCACT
Found at i:3591190 original size:12 final size:13
Alignment explanation
Indices: 3591165--3591193 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3591155 CTCTCATCTT
3591165 TTTAATTCTTTAA
1 TTTAATTCTTTAA
3591178 TTTAATT-TTTAA
1 TTTAATTCTTTAA
3591190 TTTA
1 TTTA
3591194 GATAGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATTCTTTAA
Found at i:3591510 original size:2 final size:2
Alignment explanation
Indices: 3591503--3591533 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3591493 TACATTTGAG
3591503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3591534 ATTCTTAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3593226 original size:15 final size:13
Alignment explanation
Indices: 3593192--3593239 Score: 71
Period size: 13 Copynumber: 3.6 Consensus size: 13
3593182 GAAATAACTC
3593192 AATAAA-ATAAAA
1 AATAAATATAAAA
3593204 AATAAATATAAAA
1 AATAAATATAAAA
3593217 AATACTAATATAAAA
1 AATA--AATATAAAA
3593232 AATAAATA
1 AATAAATA
3593240 AAAGGAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.18
13 14 0.42
15 13 0.39
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAATATAAAA
Found at i:3593290 original size:5 final size:5
Alignment explanation
Indices: 3593253--3593309 Score: 51
Period size: 5 Copynumber: 11.0 Consensus size: 5
3593243 GGAAAAAGGT
* * * **
3593253 AATAA AATAA TAAAACA AATAA GATAC AATAA AATAA AATAA ACCAA AATAA
1 AATAA AATAA -AATA-A AATAA AATAA AATAA AATAA AATAA AATAA AATAA
3593305 AATAA
1 AATAA
3593310 TGAAATAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
5 33 0.82
6 6 0.15
7 1 0.03
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:3593484 original size:17 final size:18
Alignment explanation
Indices: 3593443--3593489 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
3593433 AAAAAGTCAG
*
3593443 AAGAAAAATATAATAAAA
1 AAGAAAAACATAATAAAA
*
3593461 AACAAAAACA-AATAAAA
1 AAGAAAAACATAATAAAA
*
3593478 GAGAAAAA-ATAA
1 AAGAAAAACATAA
3593490 ATAAGAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 1 0.04
17 15 0.62
18 8 0.33
ACGTcount: A:0.79, C:0.04, G:0.06, T:0.11
Consensus pattern (18 bp):
AAGAAAAACATAATAAAA
Found at i:3593502 original size:18 final size:16
Alignment explanation
Indices: 3593446--3593506 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 16
3593436 AAGTCAGAAG
3593446 AAAAATATAATAAAAAA
1 AAAAATA-AATAAAAAA
*
3593463 CAAAAACAAATAAAAGAGA
1 -AAAAATAAATAAAA-A-A
*
3593482 AAAAATAAATAAGAATA
1 AAAAATAAATAA-AAAA
3593499 AAAAATAA
1 AAAAATAA
3593507 GAATATATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 16 0.43
18 18 0.49
19 3 0.08
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAAATAAATAAAAAA
Found at i:3602175 original size:11 final size:11
Alignment explanation
Indices: 3602156--3602186 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3602146 CCAATTCTCT
*
3602156 CTTCTCTTTCC
1 CTTCCCTTTCC
3602167 CTTCCCTTTCC
1 CTTCCCTTTCC
3602178 CTTCCCTTT
1 CTTCCCTTT
3602187 AACCATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (11 bp):
CTTCCCTTTCC
Found at i:3605307 original size:63 final size:63
Alignment explanation
Indices: 3605236--3605371 Score: 159
Period size: 63 Copynumber: 2.2 Consensus size: 63
3605226 TTCAAGGTGT
* ** *
3605236 ATCGATGCACTCTTTAAAGAAG-AAACATCGAATGCAATTAGTGCATCGATGCATAAGG-AGTGC
1 ATCGATGCACCCCCTAAA-AAGAAAACATCGAAGGCAATTAGTGCATCGATGCAT-AGGTAGTGC
* ** * *
3605299 ATCGATGCACCCCCTAAAATGAAAACATCGAAGGTGATTGGTGCATCGATGCATGGGTAGTGC
1 ATCGATGCACCCCCTAAAAAGAAAACATCGAAGGCAATTAGTGCATCGATGCATAGGTAGTGC
3605362 ATCGATGCAC
1 ATCGATGCAC
3605372 ATGTTAAAGG
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
62 4 0.06
63 58 0.94
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (63 bp):
ATCGATGCACCCCCTAAAAAGAAAACATCGAAGGCAATTAGTGCATCGATGCATAGGTAGTGC
Found at i:3605386 original size:24 final size:24
Alignment explanation
Indices: 3605359--3605415 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
3605349 GCATGGGTAG
3605359 TGCATCGATGCACATGTTAAAGGA
1 TGCATCGATGCACATGTTAAAGGA
*
3605383 TGCATAGATGCACATGTTAAAGGA
1 TGCATCGATGCACATGTTAAAGGA
3605407 TGCATCGAT
1 TGCATCGAT
3605416 ACACTATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (24 bp):
TGCATCGATGCACATGTTAAAGGA
Found at i:3606094 original size:23 final size:25
Alignment explanation
Indices: 3606063--3606112 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 25
3606053 CGGGACATAC
3606063 AGTGATCCTTCGGGAT-AA-TTCAT
1 AGTGATCCTTCGGGATAAATTTCAT
*
3606086 AGTGGTCCTTCGGGATAAATTTCAT
1 AGTGATCCTTCGGGATAAATTTCAT
3606111 AG
1 AG
3606113 CCCCTAGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.62
24 2 0.08
25 7 0.29
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (25 bp):
AGTGATCCTTCGGGATAAATTTCAT
Found at i:3608235 original size:24 final size:24
Alignment explanation
Indices: 3608208--3608253 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
3608198 AAATATGAAA
*
3608208 TGGATC-TGGATACAGTGGTATATT
1 TGGATCATGG-TAAAGTGGTATATT
3608232 TGGATCATGGTAAAGTGGTATA
1 TGGATCATGGTAAAGTGGTATA
3608254 GTAAAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.35
Consensus pattern (24 bp):
TGGATCATGGTAAAGTGGTATATT
Found at i:3609194 original size:24 final size:24
Alignment explanation
Indices: 3609167--3609264 Score: 99
Period size: 24 Copynumber: 4.1 Consensus size: 24
3609157 TATATCAAAA
* *
3609167 ATCATAACATAATCCAGGTCAAGT
1 ATCATATCAAAATCCAGGTCAAGT
*
3609191 ATCATATCAAAATCCAAGTCAAGT
1 ATCATATCAAAATCCAGGTCAAGT
*
3609215 ATTCA-ATCAGAATCCAGGTCAAGT
1 A-TCATATCAAAATCCAGGTCAAGT
** * * *
3609239 ATCCGATCAGAATCCAAGTCAGGT
1 ATCATATCAAAATCCAGGTCAAGT
3609263 AT
1 AT
3609265 TATAATAGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 2 0.03
24 59 0.92
25 3 0.05
ACGTcount: A:0.40, C:0.21, G:0.14, T:0.24
Consensus pattern (24 bp):
ATCATATCAAAATCCAGGTCAAGT
Found at i:3610883 original size:17 final size:19
Alignment explanation
Indices: 3610845--3610885 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
3610835 AAATAAAACT
3610845 AATATTTCTTATGCACATC
1 AATATTTCTTATGCACATC
*
3610864 AATATTT-TTAT-CAGATC
1 AATATTTCTTATGCACATC
3610881 AATAT
1 AATAT
3610886 GTCTGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTCTTATGCACATC
Found at i:3611750 original size:18 final size:18
Alignment explanation
Indices: 3611727--3611783 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
3611717 GCCGGTCAAT
3611727 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
* * *
3611745 GGTCAACGGTTCGGATCA
1 GGTCAACGGGTCGGGTCG
3611763 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
3611781 GGT
1 GGT
3611784 TGTGACTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.14, C:0.21, G:0.46, T:0.19
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:3615179 original size:25 final size:23
Alignment explanation
Indices: 3615135--3615184 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
3615125 CGGGACATAC
*
3615135 AGTGATCCTTCGGGATATTTCAT
1 AGTGATCCTTCGGGAAATTTCAT
*
3615158 AGTGGTCCTTCGGGACAAATTTCAT
1 AGTGATCCTTCGGG--AAATTTCAT
3615183 AG
1 AG
3615185 CCCCTAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
25 10 0.43
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (23 bp):
AGTGATCCTTCGGGAAATTTCAT
Found at i:3619138 original size:158 final size:159
Alignment explanation
Indices: 3618843--3619159 Score: 600
Period size: 158 Copynumber: 2.0 Consensus size: 159
3618833 AATTATATTT
*
3618843 TGACATCAAAACGATAGTTGTCAATGCTTCTAACGTTTGATTAAATAGTCACTTTGGCCTATATT
1 TGACATCAAAACGATAGTTGTCAATGCTTCTAACATTTGATTAAATAGTCACTTTGGCCTATATT
3618908 CTTTTTTTAGCATTTGACCCCTAACGTTTCCATATATGCAAAAAGACCCCATGTGGATGAAAATC
66 CTTTTTTTAGCATTTGACCCCTAACGTTTCCATATATGCAAAAAGACCCCATGTGGATGAAAATC
*
3618973 GTTACTCAGCAAACCATCAATGCTCCATA
131 GTTACTCAACAAACCATCAATGCTCCATA
3619002 TGACATCAAAACGATAGTTGTCAATGCTTCTAACATTTGATTAAATAGTCACTTTGGCCTATATT
1 TGACATCAAAACGATAGTTGTCAATGCTTCTAACATTTGATTAAATAGTCACTTTGGCCTATATT
3619067 C-TTTTTTAGCATTTGACCCCTAACGTTTCCATATATGCAAAAAGACCCCATGTGGATGAAAATC
66 CTTTTTTTAGCATTTGACCCCTAACGTTTCCATATATGCAAAAAGACCCCATGTGGATGAAAATC
*
3619131 GTTACTCAACGAACCATCAATGCTCCATA
131 GTTACTCAACAAACCATCAATGCTCCATA
3619160 ATAGGAGCTT
Statistics
Matches: 155, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
158 90 0.58
159 65 0.42
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (159 bp):
TGACATCAAAACGATAGTTGTCAATGCTTCTAACATTTGATTAAATAGTCACTTTGGCCTATATT
CTTTTTTTAGCATTTGACCCCTAACGTTTCCATATATGCAAAAAGACCCCATGTGGATGAAAATC
GTTACTCAACAAACCATCAATGCTCCATA
Done.