Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_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: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 43
Found at i:8193609 original size:30 final size:29
Alignment explanation
Indices: 8193545--8193609 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
8193535 ATTTGTACTA
* *
8193545 TTTTT-GTCCTTTGAGTTTATGTGTTTAC
1 TTTTTGGTCCTTTAAGTTTATATGTTTAC
8193573 TATTTTGGTCCTTGTAAGTTTATAT-TCTTAC
1 T-TTTTGGTCCTT-TAAGTTTATATGT-TTAC
8193604 TTTTTG
1 TTTTTG
8193610 CTCATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 1 0.03
29 4 0.13
30 12 0.39
31 14 0.45
ACGTcount: A:0.14, C:0.11, G:0.15, T:0.60
Consensus pattern (29 bp):
TTTTTGGTCCTTTAAGTTTATATGTTTAC
Found at i:8195475 original size:31 final size:30
Alignment explanation
Indices: 8195413--8195475 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
8195403 ATCTTATTTG
* *
8195413 TACTAACTCATTTTTCTCTTGTGTTTGTGT
1 TACTAACTCATTTTTCTCTTGTGCTTATGT
8195443 TACTAACTCATTTTTTCTCATT-TGCTTATGT
1 TACTAACTCA-TTTTTCTC-TTGTGCTTATGT
8195474 TA
1 TA
8195476 TTTTTCATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 10 0.34
31 17 0.59
32 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.56
Consensus pattern (30 bp):
TACTAACTCATTTTTCTCTTGTGCTTATGT
Found at i:8197262 original size:13 final size:12
Alignment explanation
Indices: 8197245--8197299 Score: 65
Period size: 13 Copynumber: 4.2 Consensus size: 12
8197235 GTGAAGAGAC
8197245 AAAAAAACAAAGAG
1 AAAAAAAC-AA-AG
8197259 AAAAGAAACAAAG
1 AAAA-AAACAAAG
*
8197272 AAAAAAGTCAAAG
1 AAAAAA-ACAAAG
8197285 AAAAAAACAAAG
1 AAAAAAACAAAG
8197297 AAA
1 AAA
8197300 TGAAAAGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
12 10 0.27
13 17 0.46
14 6 0.16
15 4 0.11
ACGTcount: A:0.78, C:0.07, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAAACAAAG
Found at i:8197269 original size:15 final size:15
Alignment explanation
Indices: 8197238--8197278 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
8197228 AATCAAAGTG
*
8197238 AAGAGACAAAAAAACA
1 AAGAGA-AAAGAAACA
8197254 AAGAGAAAAGAAACA
1 AAGAGAAAAGAAACA
*
8197269 AAGAAAAAAG
1 AAGAGAAAAG
8197279 TCAAAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.74
16 6 0.26
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAGAAAAGAAACA
Found at i:8198226 original size:32 final size:32
Alignment explanation
Indices: 8198184--8198247 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
8198174 AAGAAACAAT
*
8198184 GAATGATGGGGCATCTTTTGAG-ATTCAACATC
1 GAATGATGGGGCAT-ATTTGAGTATTCAACATC
* *
8198216 GAATGTTGGGGCATATTTGGGTATTCAACATC
1 GAATGATGGGGCATATTTGAGTATTCAACATC
8198248 CTGATGTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (32 bp):
GAATGATGGGGCATATTTGAGTATTCAACATC
Found at i:8198576 original size:36 final size:36
Alignment explanation
Indices: 8198525--8198630 Score: 153
Period size: 36 Copynumber: 3.0 Consensus size: 36
8198515 TTGAGATCGT
8198525 TTTCTC-AAAAGCAAATTTTGTCTTGCTTGAGACAA
1 TTTCTCTAAAAGCAAATTTTGTCTTGCTTGAGACAA
*
8198560 TTTCTCTAAAAACAAATTTTGT-TTCGCTTGAGACAA
1 TTTCTCTAAAAGCAAATTTTGTCTT-GCTTGAGACAA
* * *
8198596 TTTCTCTCAAAGCAAATTTCGTCTTGTTTGAGACA
1 TTTCTCTAAAAGCAAATTTTGTCTTGCTTGAGACA
8198631 TTTGTTTCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
35 8 0.13
36 53 0.84
37 2 0.03
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (36 bp):
TTTCTCTAAAAGCAAATTTTGTCTTGCTTGAGACAA
Found at i:8199053 original size:28 final size:26
Alignment explanation
Indices: 8199020--8199072 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
8199010 CTTGAGATAA
8199020 TTTCTTTTGAAATAAAAATCTTTGAGTT
1 TTTCTTTT-AAA-AAAAATCTTTGAGTT
*
8199048 TTTCTTTTTAAAAAAATCTTTGAGT
1 TTTCTTTTAAAAAAAATCTTTGAGT
8199073 ATACTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 2 0.08
28 8 0.33
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (26 bp):
TTTCTTTTAAAAAAAATCTTTGAGTT
Found at i:8199066 original size:26 final size:28
Alignment explanation
Indices: 8199033--8199097 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
8199023 CTTTTGAAAT
*
8199033 AAAAATCTTTGAGT-T-TTTCTTTTTAA
1 AAAAATCTTTGAGTATACTTCTTTTTAA
8199059 AAAAATCTTTGAGTATACTTCTTTTTAA
1 AAAAATCTTTGAGTATACTTCTTTTTAA
8199087 ACAAAAT-TTTG
1 A-AAAATCTTTG
8199098 TCTCTTTTGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 14 0.40
27 1 0.03
28 15 0.43
29 5 0.14
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (28 bp):
AAAAATCTTTGAGTATACTTCTTTTTAA
Found at i:8199279 original size:31 final size:30
Alignment explanation
Indices: 8199231--8199290 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
8199221 ACAAACCATC
*
8199231 ATCTTTTAGTCGTTTCTTTTGAAACAAAAG
1 ATCTTTGAGTCGTTTCTTTTGAAACAAAAG
8199261 ATCTTTGAGTCTGTTTCTTTTGAAACAAAA
1 ATCTTTGAGTC-GTTTCTTTTGAAACAAAA
8199291 TTTTATTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (30 bp):
ATCTTTGAGTCGTTTCTTTTGAAACAAAAG
Found at i:8199430 original size:276 final size:278
Alignment explanation
Indices: 8199086--8199723 Score: 1016
Period size: 278 Copynumber: 2.3 Consensus size: 278
8199076 CTTCTTTTTA
* *
8199086 AACAAAATTTTGTCTCTTTTGAGGCAGTTTCTTTTGGGAAAAAAAATATTTGAGTCTGTTTCCTT
1 AACAAAACTTTGTCTCTTTTGAGGCAGTTTCTTTT-GG-AAAAAAATCTTTGAGTCTGTTTCCTT
*
8199151 TGAAACAAAGCGTTGTCTCACTTGAGACAATTTTCCTCAAAATACCAAATTATGAATTTG-TTCA
64 TGAAACAAAGTGTTGTCTCACTTGAGACAATTTTCCTCAAAATACCAAATTATGAATTTGTTTCA
*
8199215 CTGAAAACAAACCATCATCTTTTAGTCGTTTCTTTTGAAACAAAAGATCTTTGAGTCTGTTTCTT
129 CTGAAAACAAACCATCATCTTTTAGTCGTTTCTTTTGAAACAAAAGATCTTTGAGTCCGTTTCTT
*
8199280 TTGAAACAAAATTTTATTTCTCTT-GAGACAGTTTTTT-GCAAAAAAATCTTTAAGTAGTTTCTG
194 TTGAAACAAAATTTTATCTCT-TTGGAGACAGTTTTTTCGCAAAAAAATCTTTAAGTAGTTTCTG
* *
8199343 TTGAAATACAAAATCTTTGAT
258 TTGAAACACAAAATCTTTGAG
* **
8199364 AATAATGCTTTGTCTCTTTTGAGGCAGTTTCTTTTGGAAAAAAATCTTTGAGTCTGTTTCCTTTG
1 AACAAAACTTTGTCTCTTTTGAGGCAGTTTCTTTTGGAAAAAAATCTTTGAGTCTGTTTCCTTTG
*
8199429 AAACAAAGTGTTATCTCACTTGAGACAATTTTCCTCAAAATACCAAATTATGAATTTGTTTCACT
66 AAACAAAGTGTTGTCTCACTTGAGACAATTTTCCTCAAAATACCAAATTATGAATTTGTTTCACT
8199494 GAAAACAAACCATCATCTTTTAGTCGTTTCTTTTGAAACAAAAGATCTTTGAGTCCGTTTCTTTT
131 GAAAACAAACCATCATCTTTTAGTCGTTTCTTTTGAAACAAAAGATCTTTGAGTCCGTTTCTTTT
* * *
8199559 GAAACAAAATTTTATCTCTTTGGAGATAGTTTTTTCGCGAAAAAATCTTTGAGTAGTTTCTGTTG
196 GAAACAAAATTTTATCTCTTTGGAGACAGTTTTTTCGCAAAAAAATCTTTAAGTAGTTTCTGTTG
8199624 AAACACAAAATCTTTGAG
261 AAACACAAAATCTTTGAG
* * * * *
8199642 AACAAAACTTTGTCTCTCTCGAGACAATTTCTTTT-GAGAAAAAATCTTTGAGTCTATTT-CTTT
1 AACAAAACTTTGTCTCTTTTGAGGCAGTTTCTTTTGGA-AAAAAATCTTTGAGTCTGTTTCCTTT
*
8199705 CGAAACAAAGTGTCGTCTC
65 -GAAACAAAGTGTTGTCTC
8199724 GCTAGAGATA
Statistics
Matches: 331, Mismatches: 24, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
276 85 0.26
277 108 0.33
278 138 0.42
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (278 bp):
AACAAAACTTTGTCTCTTTTGAGGCAGTTTCTTTTGGAAAAAAATCTTTGAGTCTGTTTCCTTTG
AAACAAAGTGTTGTCTCACTTGAGACAATTTTCCTCAAAATACCAAATTATGAATTTGTTTCACT
GAAAACAAACCATCATCTTTTAGTCGTTTCTTTTGAAACAAAAGATCTTTGAGTCCGTTTCTTTT
GAAACAAAATTTTATCTCTTTGGAGACAGTTTTTTCGCAAAAAAATCTTTAAGTAGTTTCTGTTG
AAACACAAAATCTTTGAG
Found at i:8199556 original size:31 final size:30
Alignment explanation
Indices: 8199508--8199567 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
8199498 ACAAACCATC
*
8199508 ATCTTTTAGTCGTTTCTTTTGAAACAAAAG
1 ATCTTTGAGTCGTTTCTTTTGAAACAAAAG
8199538 ATCTTTGAGTCCGTTTCTTTTGAAACAAAA
1 ATCTTTGAGT-CGTTTCTTTTGAAACAAAA
8199568 TTTTATCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (30 bp):
ATCTTTGAGTCGTTTCTTTTGAAACAAAAG
Found at i:8199867 original size:29 final size:30
Alignment explanation
Indices: 8199822--8199883 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
8199812 AAAATTTACA
8199822 ATCTTTGAGTCTGTTTCTTTTGAAA-CATT
1 ATCTTTGAGTCTGTTTCTTTTGAAACCATT
8199851 ATCTTTGAGTC-GATTTCTTTTGAAACCATT
1 ATCTTTGAGTCTG-TTTCTTTTGAAACCATT
8199881 ATC
1 ATC
8199884 CCTAAAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 1 0.03
29 23 0.74
30 7 0.23
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (30 bp):
ATCTTTGAGTCTGTTTCTTTTGAAACCATT
Found at i:8200055 original size:49 final size:49
Alignment explanation
Indices: 8199965--8200159 Score: 277
Period size: 49 Copynumber: 4.0 Consensus size: 49
8199955 GGAGCCGTGT
* *
8199965 CAACCATAGATAACCAGTCGT-CTCATCACGTAGGAATCGAGTTATCAC
1 CAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
8200013 CAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
1 CAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
* * *
8200062 TAACCATAGATAACCAGCCATCCTCATCACGTAGGAACCGAGTTATCAT
1 CAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
* * ** *
8200111 C-ACTCTTAGATAACCAGCCGTCCTTATCGTGTAGGAACCGAGTTGTCAC
1 CAAC-CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
8200160 AATTCCTGAA
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
48 22 0.17
49 110 0.83
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (49 bp):
CAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGAGTTATCAC
Found at i:8200100 original size:24 final size:24
Alignment explanation
Indices: 8200024--8200100 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
8200014 AACCATAGAT
*
8200024 AACCAGCCGTCCTCATCACGTAGG
1 AACCAGCCATCCTCATCACGTAGG
** * * *
8200048 AACCGAGTTATCACT-AAC-CATAGAT
1 AACC-AGCCATC-CTCATCACGTAG-G
8200073 AACCAGCCATCCTCATCACGTAGG
1 AACCAGCCATCCTCATCACGTAGG
8200097 AACC
1 AACC
8200101 GAGTTATCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
23 2 0.05
24 19 0.51
25 14 0.38
26 2 0.05
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (24 bp):
AACCAGCCATCCTCATCACGTAGG
Found at i:8200478 original size:3 final size:3
Alignment explanation
Indices: 8200472--8200511 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
8200462 TATTATTTAA
*
8200472 ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT AAT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8200512 TACAATTTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:8201932 original size:30 final size:30
Alignment explanation
Indices: 8201869--8201949 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
8201859 TTGTAATTAC
*
8201869 TTTTAAGTCATTTAAGTTTCTATTTTTGTTA
1 TTTT-AGTCATTTAAGTTTCTATTTTTGATA
*
8201900 TTTTAGTCTTTTAAGTTTCTATTTTAT-ATA
1 TTTTAGTCATTTAAGTTTCTATTTT-TGATA
* * *
8201930 TTTTAGACCTTAAAGTTTCT
1 TTTTAGTCATTTAAGTTTCT
8201950 GTTAATTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
30 39 0.89
31 5 0.11
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.59
Consensus pattern (30 bp):
TTTTAGTCATTTAAGTTTCTATTTTTGATA
Found at i:8202031 original size:29 final size:29
Alignment explanation
Indices: 8201880--8202058 Score: 91
Period size: 30 Copynumber: 6.1 Consensus size: 29
8201870 TTTAAGTCAT
* * *
8201880 TTAAGTTTCTATTTT-TGTTATTTTAGTCTT
1 TTAAATTTCTGTTTTAT-TTATTTTAGTC-C
* * * *
8201910 TTAAGTTTCTATTTTATATATTTTAGACC
1 TTAAATTTCTGTTTTATTTATTTTAGTCC
* *
8201939 TTAAAGTTTCTGTTAATTA-TT-GTTTACTCC
1 TTAAA-TTTCTGTT--TTATTTATTTTAGTCC
* * * * *
8201969 TTTAATTTTTGTTTCT-TCTAATTTAGCCC
1 TTAAATTTCTGTTT-TATTTATTTTAGTCC
*
8201998 TTTAAATTTTTGTTTTATTTATTTTAGTCC
1 -TTAAATTTCTGTTTTATTTATTTTAGTCC
*
8202028 TTAAGA-TTCTATTTT-TTTCATTTTAGTCC
1 TTAA-ATTTCTGTTTTATTT-ATTTTAGTCC
8202057 TT
1 TT
8202059 GAGGTTTCTA
Statistics
Matches: 117, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
27 1 0.01
28 5 0.04
29 41 0.35
30 65 0.56
31 2 0.02
32 3 0.03
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (29 bp):
TTAAATTTCTGTTTTATTTATTTTAGTCC
Found at i:8202074 original size:30 final size:29
Alignment explanation
Indices: 8202009--8202074 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
8201999 TTAAATTTTT
*
8202009 GTTTTATTTATTTTAGTCCTTAAGATTCTA
1 GTTTT-TTCATTTTAGTCCTTAAGATTCTA
* * *
8202039 TTTTTTTCATTTTAGTCCTTGAGGTTTCTA
1 GTTTTTTCATTTTAGTCCTT-AAGATTCTA
8202069 GTTTTT
1 GTTTTT
8202075 ACTTTTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.17, C:0.11, G:0.12, T:0.61
Consensus pattern (29 bp):
GTTTTTTCATTTTAGTCCTTAAGATTCTA
Found at i:8202080 original size:29 final size:28
Alignment explanation
Indices: 8202015--8202080 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
8202005 TTTTGTTTTA
*
8202015 TTTA-TTTTAGTCCTTAAGATTCTATTT
1 TTTACTTTTAGTCCTTAAGATTCTAGTT
* * *
8202042 TTTTCATTTTAGTCCTTGAGGTTTCTAGTT
1 TTTAC-TTTTAGTCCTT-AAGATTCTAGTT
8202072 TTTACTTTT
1 TTTACTTTT
8202081 TTATCCCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
27 3 0.10
29 15 0.48
30 13 0.42
ACGTcount: A:0.17, C:0.12, G:0.11, T:0.61
Consensus pattern (28 bp):
TTTACTTTTAGTCCTTAAGATTCTAGTT
Found at i:8202107 original size:30 final size:30
Alignment explanation
Indices: 8202073--8202131 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
8202063 TTTCTAGTTT
* *
8202073 TTACTTTTTTATCCCCTTAACTTTATGTAA
1 TTACTGTTTTATCCACTTAACTTTATGTAA
* *
8202103 TTACTGTTTTATCCATTTAAGTTTATGTA
1 TTACTGTTTTATCCACTTAACTTTATGTA
8202132 TTGGCCACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (30 bp):
TTACTGTTTTATCCACTTAACTTTATGTAA
Found at i:8203630 original size:24 final size:24
Alignment explanation
Indices: 8203602--8203678 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
8203592 TATTCAAATG
*
8203602 ATAAACGAACACAAATGAACAAAC
1 ATAAACGAACACAAACGAACAAAC
* * * *
8203626 GTAAATGAATACAAACGAACGAAC
1 ATAAACGAACACAAACGAACAAAC
* **
8203650 ATAAACAAACGTAAACGAACAAAC
1 ATAAACGAACACAAACGAACAAAC
8203674 ATAAA
1 ATAAA
8203679 ATTACTTGGG
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.61, C:0.18, G:0.10, T:0.10
Consensus pattern (24 bp):
ATAAACGAACACAAACGAACAAAC
Found at i:8205132 original size:30 final size:30
Alignment explanation
Indices: 8205098--8205155 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
8205088 ATTTATTAGG
*
8205098 TCCTTCTAGTTTT-TGTTTATACTATTTTAA
1 TCCTT-TAATTTTCTGTTTATACTATTTTAA
* *
8205128 TCCTTTAATTTTCTGTTTGTGCTATTTT
1 TCCTTTAATTTTCTGTTTATACTATTTT
8205156 GGTACTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.16, C:0.14, G:0.09, T:0.62
Consensus pattern (30 bp):
TCCTTTAATTTTCTGTTTATACTATTTTAA
Found at i:8217094 original size:27 final size:25
Alignment explanation
Indices: 8217064--8217113 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
8217054 AAATGATTGC
*
8217064 AATACACTGGATCTGCAAAATGACCAG
1 AATACACTGGA-ATG-AAAATGACCAG
*
8217091 AATACCCTGGAATGAAAATGACC
1 AATACACTGGAATGAAAATGACC
8217114 CAGGAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (25 bp):
AATACACTGGAATGAAAATGACCAG
Found at i:8218465 original size:32 final size:31
Alignment explanation
Indices: 8218393--8218470 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
8218383 TTAATGTGAC
* *
8218393 TCTTAGGTAGGCTCTGCGACCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
* **
8218424 TCTTGGGTAGGCCCTGC-AGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGA-CCCTAAGAT-CAT
8218456 TCTTAGGTAGGCCCT
1 TCTTAGGTAGGCCCT
8218471 ATGGCCCCGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
30 1 0.03
31 23 0.59
32 15 0.38
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.29
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
Found at i:8219901 original size:33 final size:34
Alignment explanation
Indices: 8219837--8219911 Score: 143
Period size: 34 Copynumber: 2.2 Consensus size: 34
8219827 AAGTTATTAA
8219837 ACAAATTGAAGATAATGAATTAAGTAGAATGTGG
1 ACAAATTGAAGATAATGAATTAAGTAGAATGTGG
8219871 ACAAATTGAAGATAATGAATT-AGTAGAATGTGG
1 ACAAATTGAAGATAATGAATTAAGTAGAATGTGG
8219904 ACAAATTG
1 ACAAATTG
8219912 TAGGATGAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 20 0.49
34 21 0.51
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.27
Consensus pattern (34 bp):
ACAAATTGAAGATAATGAATTAAGTAGAATGTGG
Found at i:8222324 original size:27 final size:25
Alignment explanation
Indices: 8222294--8222343 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
8222284 AAATGATTGC
*
8222294 AATACACTGGATCTGTAAAATGACCAG
1 AATACACTGGA-ATG-AAAATGACCAG
*
8222321 AATACCCTGGAATGAAAATGACC
1 AATACACTGGAATGAAAATGACC
8222344 CAAGAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (25 bp):
AATACACTGGAATGAAAATGACCAG
Found at i:8223675 original size:31 final size:32
Alignment explanation
Indices: 8223637--8223708 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
8223627 TAGATGGGCT
* *
8223637 CTGCGGCCCTGAGAT-TATTCTCGGGTAGGCC
1 CTGCGGCCCTAAGATGTATTCTCAGGTAGGCC
* *
8223668 CTGCGGCCCTAAGATGTGTTCTTAGGTAGGCC
1 CTGCGGCCCTAAGATGTATTCTCAGGTAGGCC
*
8223700 CTGTGGCCC
1 CTGCGGCCC
8223709 CGAACTCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
31 14 0.40
32 21 0.60
ACGTcount: A:0.12, C:0.29, G:0.32, T:0.26
Consensus pattern (32 bp):
CTGCGGCCCTAAGATGTATTCTCAGGTAGGCC
Found at i:8230309 original size:32 final size:32
Alignment explanation
Indices: 8230269--8230390 Score: 147
Period size: 32 Copynumber: 3.8 Consensus size: 32
8230259 AGGAATAATG
* *
8230269 GGGGCATCTTTAAAGGTTCAACATCAAATGTT
1 GGGGCATCTTTGAAGGTTCAACATTAAATGTT
8230301 GGGGCATCTTTGAAGGTTCAACATTAAATGTT
1 GGGGCATCTTTGAAGGTTCAACATTAAATGTT
* * * * *
8230333 GAGGCATTTTTGAAGATTCAACATTGAATATT
1 GGGGCATCTTTGAAGGTTCAACATTAAATGTT
* *
8230365 GGGTCATCTTTG-GGGATTCAACATTA
1 GGGGCATCTTTGAAGG-TTCAACATTA
8230391 TGATGTGAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 1 0.01
32 75 0.99
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (32 bp):
GGGGCATCTTTGAAGGTTCAACATTAAATGTT
Found at i:8230851 original size:64 final size:65
Alignment explanation
Indices: 8230684--8230862 Score: 299
Period size: 65 Copynumber: 2.8 Consensus size: 65
8230674 TCAATAAATA
*
8230684 AAGTTTCATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAACTTTCC
1 AAGTTTAATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAACTTTCC
* *
8230749 AAGTTTAATTCAG-GATCAATTTCAACTTCGCAGCGAAGGATATTGGACTCAACAAACAACTTTC
1 AAGTTTAATTCAGAG-TCAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAACTTTC
8230813 C
65 C
*
8230814 -AGTTTTATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTC
1 AAGTTTAATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTC
8230863 GAAGTGACAT
Statistics
Matches: 106, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
64 45 0.42
65 61 0.58
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (65 bp):
AAGTTTAATTCAGAGTCAATTTCAACTTCACATCGAAGGATATTGGACTCAACAAACAACTTTCC
Found at i:8231285 original size:115 final size:114
Alignment explanation
Indices: 8230946--8231621 Score: 878
Period size: 115 Copynumber: 5.9 Consensus size: 114
8230936 GAAATAGTAC
* * *
8230946 TTGGATTTCAACTTCACAACGAAA-GATATCCAATTCAAGGCTCAACTTCACAATGAATGG-GCC
1 TTGGATTTCAACTTCACGAC-AAAGGATATCCAATTCAAAGCTCAACTTCACAACGAA-GGAGCC
* * *
8231009 ATCCACGATTTCAACTTCACGACGAAAGATATCGTGACATTCATATTTAGA
64 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
*
8231060 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAA-GAAGGAGCCAT
1 TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCAT
*
8231124 CCACGATTTCAACTTCACGACGAAGGATATCATGTCATTCATCTTTAGA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * **
8231173 TTGGATTTTAACTTCACGACAAAGGATATCCAATTTAAAGCTCAACTTCACAATTTAAGGAGCCA
1 TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAA-CGAAGGAGCCA
8231238 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
65 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * * * *
8231288 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAACTTCATAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCAT
*
8231353 CCACGATTTCAACTTCACAACGAAGGATATCGT-TCCATTCATCTTTAG-
66 CCACGATTTCAACTTCACGACGAAGGATATCGTGT-CATTCATCTTTAGA
* *
8231401 TTGGGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAACTTTCACAACGAATGAGCC
1 TT-GGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAAC-TTCACAACGAAGGAGCC
* ** * ***
8231466 ATCCATGATTTCAACTTCACGACGAAGGATATCGTG-CACACAAGCAGCAATGCAA
64 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTC-ATC-TTTA-G--A
** * *
8231521 CCCTTGGATTTCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGT
1 ---TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGC
** *
8231586 CATCCGTGATTTCAAATTCACGACGAAGGATATCGT
63 CATCCACGATTTCAACTTCACGACGAAGGATATCGT
8231622 CCCCAACGGA
Statistics
Matches: 502, Mismatches: 43, Indels: 27
0.88 0.08 0.05
Matches are distributed among these distances:
112 2 0.00
113 108 0.22
114 144 0.29
115 154 0.31
116 1 0.00
117 1 0.00
121 49 0.10
122 41 0.08
123 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (114 bp):
TTGGATTTCAACTTCACGACAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGA
Found at i:8231478 original size:229 final size:227
Alignment explanation
Indices: 8230946--8231621 Score: 926
Period size: 229 Copynumber: 2.9 Consensus size: 227
8230936 GAAATAGTAC
* * * *
8230946 TTGGATTTCAACTTCACAACGAAAGATATCCAATTCAAGGCTCAACTTCACAATGAATGGGCCAT
1 TTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCAT
* *
8231011 CCACGATTTCAACTTCACGACGAAAGATATCGTGACATTCATATTTAGATTGGATTTCAACTTCA
66 CCACGATTTCAACTTCACGACGAAGGATATCGTG-CATTCATCTTTAGATTGGATTTCAACTTCA
8231076 CGACGAAGGATATCCAATTCAAAGCTCAACTTCACAA-GAAGGAGCCATCCACGATTTCAACTTC
130 CGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTC
*
8231140 ACGACGAAGGATATCATGTCATTCATCTTTAGA
195 ACGACGAAGGATATCGTGTCATTCATCTTTAGA
* * * * *
8231173 TTGGATTTTAACTTCACGACAAAGGATATCCAATTTAAAGCTCAACTTCACAATTTAAGGAGCCA
1 TTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAACTTCACAA-TGAATGAGCCA
8231238 TCCACGATTTCAACTTCACGACGAAGGATATCGTGTCATTCATCTTTAGATTGGATTTCAACTTC
65 TCCACGATTTCAACTTCACGACGAAGGATATCGTG-CATTCATCTTTAGATTGGATTTCAACTTC
* * * *
8231303 ATGACGAAGGATATCCAATTCAAGGCTCAACTTCATAACGAAGGGGCCATCCACGATTTCAACTT
129 ACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTT
*
8231368 CACAACGAAGGATATCGT-TCCATTCATCTTTAG-
194 CACGACGAAGGATATCGTGT-CATTCATCTTTAGA
*
8231401 TTGGGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAACTTTCACAACGAATGAGCC
1 TT-GGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAAC-TTCACAATGAATGAGCC
* ** * ***
8231466 ATCCATGATTTCAACTTCACGACGAAGGATATCGTGCACACAAGCAGCAATGCAACCCTTGGATT
64 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGCATTC-ATC-TTTA-G--A---TTGGATT
* * * **
8231531 TCAACTTCACGATGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAATGAGTCATCCGTGAT
121 TCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGAT
*
8231596 TTCAAATTCACGACGAAGGATATCGT
186 TTCAACTTCACGACGAAGGATATCGT
8231622 CCCCAACGGA
Statistics
Matches: 394, Mismatches: 42, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
227 47 0.12
228 111 0.28
229 139 0.35
230 8 0.02
231 1 0.00
233 1 0.00
236 87 0.22
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (227 bp):
TTGGATTTCAACTTCACGACAAAAGATATCCAATTCAAAGCTCAACTTCACAATGAATGAGCCAT
CCACGATTTCAACTTCACGACGAAGGATATCGTGCATTCATCTTTAGATTGGATTTCAACTTCAC
GACGAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGAGCCATCCACGATTTCAACTTCA
CGACGAAGGATATCGTGTCATTCATCTTTAGA
Found at i:8232122 original size:84 final size:84
Alignment explanation
Indices: 8231840--8232122 Score: 304
Period size: 84 Copynumber: 3.4 Consensus size: 84
8231830 GATTATATTC
* * * ** * *
8231840 AGCTCAAGGCAAGAATGGTTATCTTTC-ATTAAAGACCTTCGAGTTTGATTACATTCAGCACAAA
1 AGCTCAAGGCAAGAAGGGATATCTGTCAACAAAAGACCTTCAAGTTTGATTACATTCAGCTCAAA
* * *
8231904 GGCATATCAAATTTATA-TCAT
66 GGCACAT--TATTTGTAGT-AT
* * *
8231925 AACTCAAGGCTAGAAGGGATATCTGTCAAC-AAAGACCTTCAAGTTCGATTACATTCAGCTCAAA
1 AGCTCAAGGCAAGAAGGGATATCTGTCAACAAAAGACCTTCAAGTTTGATTACATTCAGCTCAAA
*
8231989 GGCACATTATTTGCAGCT-T
66 GGCACATTATTTGTAG-TAT
* * * *
8232008 AGCTCAAGGCAAGAAGAGCTATCTGCCAACAAAAGACCTTCAAGTTTGATTACACTCAGCTCAAA
1 AGCTCAAGGCAAGAAGGGATATCTGTCAACAAAAGACCTTCAAGTTTGATTACATTCAGCTCAAA
*
8232073 GACACATTATTTGTAGTAT
66 GGCACATTATTTGTAGTAT
* * *
8232092 AGCTCAAGGCGAGAAGGGTTATATGTCAACA
1 AGCTCAAGGCAAGAAGGGATATCTGTCAACA
8232123 GGAAACTGCT
Statistics
Matches: 166, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
83 32 0.19
84 73 0.44
85 60 0.36
86 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (84 bp):
AGCTCAAGGCAAGAAGGGATATCTGTCAACAAAAGACCTTCAAGTTTGATTACATTCAGCTCAAA
GGCACATTATTTGTAGTAT
Found at i:8232151 original size:84 final size:84
Alignment explanation
Indices: 8231927--8232153 Score: 228
Period size: 84 Copynumber: 2.7 Consensus size: 84
8231917 TATATCATAA
* * * * * * *
8231927 CTCAAGGCTAGAAGGGATATCTGTCAAC-AAAGACCTTCAAGTTCGATTACATTCAGCTCAAAGG
1 CTCAAGGCAAGAAGAGCTATATGCCAACAAAAGACCTGCAAGTTCGATTACATTCAGCTCAAAGA
8231991 CACATTATTTGCAGCTTAG
66 CACATTATTTGCAGCTTAG
* * * *
8232010 CTCAAGGCAAGAAGAGCTATCTGCCAACAAAAGACCTTCAAGTTTGATTACACTCAGCTCAAAGA
1 CTCAAGGCAAGAAGAGCTATATGCCAACAAAAGACCTGCAAGTTCGATTACATTCAGCTCAAAGA
*
8232075 CACATTATTTGTAG-TATAG
66 CACATTATTTGCAGCT-TAG
* * * * * * *
8232094 CTCAAGGCGAGAAGGGTTATATGTCAACAGGAA-A-CTGCTGAGTTCGATTCCATTCAGCTC
1 CTCAAGGCAAGAAGAGCTATATGCCAACA-AAAGACCTGC-AAGTTCGATTACATTCAGCTC
8232154 GATGACATAT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
83 28 0.23
84 91 0.75
85 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (84 bp):
CTCAAGGCAAGAAGAGCTATATGCCAACAAAAGACCTGCAAGTTCGATTACATTCAGCTCAAAGA
CACATTATTTGCAGCTTAG
Found at i:8237739 original size:14 final size:15
Alignment explanation
Indices: 8237720--8237764 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
8237710 GGGTTTGGAG
8237720 AACATAAACGAACA-
1 AACATAAACGAACAT
*
8237734 AACATAAATGAACAT
1 AACATAAACGAACAT
*
8237749 AA-ACAAACGAACAT
1 AACATAAACGAACAT
8237763 AA
1 AA
8237765 ATGATCGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 25 0.93
15 2 0.07
ACGTcount: A:0.64, C:0.18, G:0.07, T:0.11
Consensus pattern (15 bp):
AACATAAACGAACAT
Found at i:8237747 original size:24 final size:24
Alignment explanation
Indices: 8237719--8237768 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
8237709 CGGGTTTGGA
*
8237719 GAACATAAACGAACAAACATAAAT
1 GAACATAAACAAACAAACATAAAT
*
8237743 GAACATAAACAAACGAACATAAAT
1 GAACATAAACAAACAAACATAAAT
8237767 GA
1 GA
8237769 TCGAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (24 bp):
GAACATAAACAAACAAACATAAAT
Found at i:8239583 original size:18 final size:20
Alignment explanation
Indices: 8239560--8239596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8239550 TCAGTAATCC
8239560 TATTCCC-C-GGTAATCTTT
1 TATTCCCACTGGTAATCTTT
8239578 TATTCCCACTGGTAATCTT
1 TATTCCCACTGGTAATCTT
8239597 ACATTCCGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 1 0.06
20 9 0.53
ACGTcount: A:0.19, C:0.27, G:0.11, T:0.43
Consensus pattern (20 bp):
TATTCCCACTGGTAATCTTT
Found at i:8239874 original size:2 final size:2
Alignment explanation
Indices: 8239869--8240370 Score: 306
Period size: 2 Copynumber: 245.0 Consensus size: 2
8239859 TATGTGTGTG
8239869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
8239911 TA TA TA TA TA TA TA TA TA TA TA T- TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8239952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA CT- TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
8239994 TA TA TA CT- TA TT TCA TA CA TCA TA CA TA TA TA CT- TA TG TA TA
1 TA TA TA -TA TA TA T-A TA TA T-A TA TA TA TA TA -TA TA TA TA TA
*
8240036 TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTT TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * *
8240080 TA GTT TA TA GTT TA TA TA TA CTA TA TA GTT TA TA TA TT TCA TA GTT
1 TA -TA TA TA -TA TA TA TA TA -TA TA TA -TA TA TA TA TA T-A TA -TA
* *
8240126 TA TA GT- TA TA TA TT TA CTA TA TA GTT TA TA TA CT- TA TA CT- TA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA -TA TA TA -TA TA
* * *
8240168 TA TA TA TG TA CT- TT TA TA TA TA TA TA TA TA TA TA TA TA CA TCA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
* * * * *
8240211 TA CA TA TG TA CA TA CA T- TA TA TA TA GTA CA TA TCA T- TGA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA T-A T-A
8240253 T- TGA TCA -A TGA TA -A TA TA TA TA TA TA TA TA TA TA T- TCA TA
1 TA T-A T-A TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
* * * * *
8240293 CT- TA TG TA CA TA CA TCA TA CA CA TA TA CT- TA TA TA TA T- TA
1 -TA TA TA TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA TA
* *
8240333 TA TA TT TA TA -A TT TA TA TA TA TA TA CT- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
8240371 CACACATCAT
Statistics
Matches: 391, Mismatches: 59, Indels: 100
0.71 0.11 0.18
Matches are distributed among these distances:
1 20 0.05
2 330 0.84
3 41 0.10
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8240130 original size:7 final size:7
Alignment explanation
Indices: 8240071--8240141 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 7
8240061 TATATATATA
*
8240071 TATACTT
1 TATAGTT
8240078 TATAGTT
1 TATAGTT
8240085 TATAGTT
1 TATAGTT
8240092 TATA---
1 TATAGTT
* *
8240096 TATACTA
1 TATAGTT
8240103 TATAGTT
1 TATAGTT
*
8240110 TATATATT
1 TATA-GTT
8240118 TCATAGTT
1 T-ATAGTT
8240126 TATAGTT
1 TATAGTT
8240133 ATATA-TT
1 -TATAGTT
8240140 TA
1 TA
8240142 CTATATAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.08
6 2 0.04
7 34 0.64
8 10 0.19
9 3 0.06
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (7 bp):
TATAGTT
Found at i:8240155 original size:9 final size:9
Alignment explanation
Indices: 8240085--8240157 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
8240075 CTTTATAGTT
8240085 TATAGTTTA
1 TATAGTTTA
*
8240094 TATA-TACTA
1 TATAGT-TTA
8240103 TATAGTTTA
1 TATAGTTTA
8240112 TATA-TTT-
1 TATAGTTTA
*
8240119 CATAG-TT-
1 TATAGTTTA
8240126 TATAG-TTA
1 TATAGTTTA
*
8240134 TATATTTACTA
1 TATAGTT--TA
8240145 TATAGTTTA
1 TATAGTTTA
8240154 TATA
1 TATA
8240158 CTTATACTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
7 11 0.22
8 8 0.16
9 23 0.45
10 1 0.02
11 8 0.16
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (9 bp):
TATAGTTTA
Found at i:8240341 original size:17 final size:17
Alignment explanation
Indices: 8240315--8240370 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 17
8240305 CATCATACAC
*
8240315 ATATACTTATATATATT
1 ATATATTTATATATATT
8240332 ATATATTTATA-AT-TT
1 ATATATTTATATATATT
*
8240347 ATATATATATACTTATATT
1 ATATATTTATA--TATATT
8240366 ATATA
1 ATATA
8240371 CACACATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 12 0.36
16 2 0.06
17 10 0.30
18 2 0.06
19 7 0.21
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTTATATATATT
Found at i:8240421 original size:56 final size:56
Alignment explanation
Indices: 8240353--8240482 Score: 127
Period size: 56 Copynumber: 2.3 Consensus size: 56
8240343 ATTTATATAT
** *
8240353 ATATACTT-ATATTATATACACACATCATACATATGTACATACATTATTAATCAATG
1 ATATA-TTAATATTATATACACACATCATACATAAATACATACATCATTAATCAATG
* * * ** * * *
8240409 ATATATTAATATTATGTGCATACATCATGTATAAATACATATATCATTGATCAATT
1 ATATATTAATATTATATACACACATCATACATAAATACATACATCATTAATCAATG
8240465 ATATATATATATATTATA
1 ATATAT-TA-ATATTATA
8240483 CATAAGTGGA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
55 2 0.03
56 48 0.81
57 2 0.03
58 7 0.12
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.41
Consensus pattern (56 bp):
ATATATTAATATTATATACACACATCATACATAAATACATACATCATTAATCAATG
Found at i:8247952 original size:20 final size:20
Alignment explanation
Indices: 8247929--8247978 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8247919 ACATTATTTA
8247929 AATATATAAACAATTAAAAC
1 AATATATAAACAATTAAAAC
* *
8247949 AATA-AAAATACAATTAGAAC
1 AATATATAA-ACAATTAAAAC
*
8247969 AATATTTAAA
1 AATATATAAA
8247979 AGTGGTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
19 3 0.12
20 19 0.79
21 2 0.08
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (20 bp):
AATATATAAACAATTAAAAC
Found at i:8249301 original size:3 final size:3
Alignment explanation
Indices: 8249293--8249451 Score: 255
Period size: 3 Copynumber: 52.7 Consensus size: 3
8249283 TTATTTATTA
* *
8249293 AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
**
8249339 AAT AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
8249387 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8249435 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
8249452 ATGGATAAAA
Statistics
Matches: 143, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
3 140 0.98
4 3 0.02
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:8249973 original size:96 final size:97
Alignment explanation
Indices: 8249783--8249983 Score: 251
Period size: 96 Copynumber: 2.1 Consensus size: 97
8249773 CATTATGAAC
* * ** * * *
8249783 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTTTGGCCATGTTGATCCATC
1 TTCTTCTCCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGGAAAAGATGATCCACC
* **
8249848 AAATGATGAATTTAAACAAAAAGTTGAACATG
66 AAATGATGAATTCAAACAAAAAGTTGAACAAA
*
8249880 TTCTTCTCCCTTCTTCAGATGAGTTCTTCTCATT-ATGAACTTTCTCTGGAAAAGATGATCTACC
1 TTCTTCTCCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGGAAAAGATGATCCACC
* *** *
8249944 AAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 AAATGATGAATTCAAACAAAAAGTTGAACAAA
8249976 TTCTTCTC
1 TTCTTCTC
8249984 ATTATGAACT
Statistics
Matches: 88, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 55 0.62
97 33 0.38
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (97 bp):
TTCTTCTCCCTTCTTCAGATGAGTTCTTCTCATTCATGAACTTTCTCTGGAAAAGATGATCCACC
AAATGATGAATTCAAACAAAAAGTTGAACAAA
Found at i:8250227 original size:118 final size:118
Alignment explanation
Indices: 8249880--8250624 Score: 1303
Period size: 118 Copynumber: 6.4 Consensus size: 118
8249870 GTTGAACATG
* *
8249880 TTCTTCTCCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T-TCTCTGGAAAAGATGATC
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
*
8249940 TACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
8249993 TTCTTCTTCCTTCTTCAGAT---GAGTTTTTCTCATTATGAACT-T-TCTCTGGAAAAGATGATC
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
8250053 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
8250106 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
8250171 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
8250224 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
8250289 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
8250342 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
8250407 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
8250460 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGAATGAT
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAG-ATGAT
* * * * * * *
8250525 CCATCAAGTGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAAC
65 CCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
8250579 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
8250625 ACCTTGCAAT
Statistics
Matches: 614, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
113 130 0.21
116 20 0.03
117 1 0.00
118 365 0.59
119 98 0.16
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (118 bp):
TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTCCCTCTGGAAAAGATGATC
CACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
Found at i:8251426 original size:52 final size:51
Alignment explanation
Indices: 8251306--8251451 Score: 249
Period size: 52 Copynumber: 2.9 Consensus size: 51
8251296 GTTCCTACCA
*
8251306 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TTCTGTCT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTCTGTCC
*
8251356 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCC
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT-TTCTGTCC
*
8251408 AACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT
8251452 GATAAATTCA
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
50 41 0.46
51 1 0.01
52 48 0.53
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (51 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTCTGTCC
Found at i:8251547 original size:52 final size:52
Alignment explanation
Indices: 8251482--8251689 Score: 355
Period size: 52 Copynumber: 4.0 Consensus size: 52
8251472 TCACTGATTG
* * *
8251482 GTTCTGTTAAACCAGATCAGATAACTCAAAGAATACTTCCAGAAGATGCTAT
1 GTTCTGATCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
8251534 GTTCTG-TCCAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGAT-CAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
8251586 GTTCTGATCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GTTCTGATCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
*
8251638 GTTCTGATCAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTAT
1 GTTCTGATCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
8251690 TGATCACATA
Statistics
Matches: 149, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
51 1 0.01
52 147 0.99
53 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (52 bp):
GTTCTGATCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
Found at i:8252633 original size:1 final size:1
Alignment explanation
Indices: 8252627--8252707 Score: 81
Period size: 1 Copynumber: 81.0 Consensus size: 1
8252617 ACCTTGACCC
* * * * * * * *
8252627 TTTTTTTTCTTTTTTTTCTTTTTCTTTTTTTTTTCTTTTTCTTTTTTTTCTTTTCTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
8252692 TCTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTT
8252708 CTTCAAGCAT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:8252648 original size:6 final size:6
Alignment explanation
Indices: 8252626--8252707 Score: 91
Period size: 6 Copynumber: 13.8 Consensus size: 6
8252616 CACCTTGACC
*
8252626 CTTTTT -TTTCTT TTTTTT CTTTTT CTTTTT -TTTTT CTTTTT CTTTTTT
1 CTTTTT CTTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT
*
8252674 TTCTTTT CTTTTT CTTTTT CTTTTT -TTTTT -TTTT
1 CT-TTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTT
8252708 CTTCAAGCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
5 17 0.25
6 38 0.56
7 13 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (6 bp):
CTTTTT
Found at i:8252656 original size:26 final size:25
Alignment explanation
Indices: 8252627--8252707 Score: 119
Period size: 26 Copynumber: 3.2 Consensus size: 25
8252617 ACCTTGACCC
8252627 TTTTTTTTCTTTTTTTTCTTTTTCTT
1 TTTTTTTTCTTTTTTTT-TTTTTCTT
8252653 TTTTTTTTCTTTTTCTTTTTTTTCTT
1 TTTTTTTTCTTTTT-TTTTTTTTCTT
* *
8252679 TTCTTTTTCTTTTTCTTTTTTT-TT
1 TTTTTTTTCTTTTTTTTTTTTTCTT
8252703 TTTTT
1 TTTTT
8252708 CTTCAAGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
24 6 0.12
25 7 0.14
26 35 0.69
27 3 0.06
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (25 bp):
TTTTTTTTCTTTTTTTTTTTTTCTT
Found at i:8252671 original size:32 final size:33
Alignment explanation
Indices: 8252630--8252710 Score: 139
Period size: 32 Copynumber: 2.5 Consensus size: 33
8252620 TTGACCCTTT
8252630 TTTTTCTTTTTTTTCTTTTTCTTTTT-TTTTTC
1 TTTTTCTTTTTTTTCTTTTTCTTTTTCTTTTTC
8252662 TTTTTCTTTTTTTTC-TTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTTTTCTTTTTCTTTTTCTTTTTC
*
8252694 TTTTTTTTTTTTTTCTT
1 TTTTTCTTTTTTTTCTT
8252711 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
31 10 0.22
32 35 0.76
33 1 0.02
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (33 bp):
TTTTTCTTTTTTTTCTTTTTCTTTTTCTTTTTC
Found at i:8262908 original size:17 final size:17
Alignment explanation
Indices: 8262886--8262927 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8262876 ATACTTGCAA
8262886 ATAAAACAT-ATAAATAT
1 ATAAAA-ATAATAAATAT
8262903 ATAAAAATAATAAATAT
1 ATAAAAATAATAAATAT
*
8262920 AAAAAAAT
1 ATAAAAAT
8262928 TTGAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAATAATAAATAT
Found at i:8265008 original size:3 final size:3
Alignment explanation
Indices: 8265000--8265171 Score: 263
Period size: 3 Copynumber: 56.7 Consensus size: 3
8264990 TTATTTATTA
* *
8265000 AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT AAAT ACT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT -AAT AAT
**
8265047 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
8265095 ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8265143 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
8265172 AATGGATAAA
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
3 147 0.96
4 6 0.04
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8284789 original size:25 final size:24
Alignment explanation
Indices: 8284733--8284789 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
8284723 TTTTTTTAAG
8284733 AAATA-TTAATTATAAATTTATTA
1 AAATATTTAATTATAAATTTATTA
*
8284756 ATATAATTTAATTATAAAATATTA-TA
1 AAAT-ATTTAATTAT-AAAT-TTATTA
8284782 AAATATTT
1 AAATATTT
8284790 TAGGTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 3 0.11
24 1 0.04
25 12 0.43
26 9 0.32
27 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
AAATATTTAATTATAAATTTATTA
Found at i:8284791 original size:26 final size:25
Alignment explanation
Indices: 8284738--8284791 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
8284728 TTAAGAAATA
*
8284738 TTAATTATAAATTTATTAATATAAT
1 TTAATTATAAATTTATTAAAATAAT
*
8284763 TTAATTATAAAATATTA-TAAAATATT
1 TTAATTAT-AAAT-TTATTAAAATAAT
8284789 TTA
1 TTA
8284792 GGTTAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 14 0.56
27 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTAATTATAAATTTATTAAAATAAT
Found at i:8287907 original size:14 final size:14
Alignment explanation
Indices: 8287890--8287926 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
8287880 CGAAGCCATT
8287890 CGACCGAGGGCATC
1 CGACCGAGGGCATC
8287904 CGACCGAGGGCATC
1 CGACCGAGGGCATC
8287918 CGACCGAGG
1 CGACCGAGG
8287927 CCATTCGAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.22, C:0.35, G:0.38, T:0.05
Consensus pattern (14 bp):
CGACCGAGGGCATC
Found at i:8287939 original size:14 final size:14
Alignment explanation
Indices: 8287879--8287930 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
8287869 CGTTGGGCAT
* *
8287879 CCGAAGCCATTCGA
1 CCGAGGCCATCCGA
*
8287893 CCGAGGGCATCCGA
1 CCGAGGCCATCCGA
*
8287907 CCGAGGGCATCCGA
1 CCGAGGCCATCCGA
8287921 CCGAGGCCAT
1 CCGAGGCCAT
8287931 TCGAGCGAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.23, C:0.37, G:0.31, T:0.10
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:8289079 original size:68 final size:67
Alignment explanation
Indices: 8288856--8289184 Score: 301
Period size: 68 Copynumber: 4.9 Consensus size: 67
8288846 AATTTTGAAA
* * * *
8288856 TAAATAATAATCAAGTGATCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTAA
1 TAAATAATAATCAA-AGATCAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAGTTTA
*
8288921 TCT
65 CCT
* * * * * * * * * *
8288924 TAAATAAAAAT-ATATAT--TAA-TTATATTAGATAATATATAAGTAACCAAATAGGTTTGTTTA
1 TAAATAATAATCAAAGATCAAAACATAAATTAAATAATATATAAGTGACCAAATA-GATAGTTTA
* *
8288985 TCA
65 CCT
* * *
8288988 TAAATAATAATC-GAGTAACCAAAACATAAATTAAATAATATATAAGTGATCAAATAGATAGTTT
1 TAAATAATAATCAAAG--ATCAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAGTTT
8289052 ACCT
64 ACCT
* * *
8289056 TAAATAATAATCAAACGATCAAAACATAAATTAAATAATATATAAGTGACAAAATAGGTAATTTA
1 TAAATAATAATCAAA-GATCAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAGTTTA
8289121 TCC-
65 -CCT
* * * * *
8289124 TAAATAATAATTAAAGAACCAAAATATAAATTAAATAATATATAACTGAACAAATAGATAG
1 TAAATAATAATCAAAG-ATCAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAG
8289185 GGCATTTTTG
Statistics
Matches: 210, Mismatches: 40, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
63 28 0.13
64 21 0.10
66 3 0.01
67 2 0.01
68 126 0.60
69 29 0.14
70 1 0.00
ACGTcount: A:0.53, C:0.08, G:0.09, T:0.30
Consensus pattern (67 bp):
TAAATAATAATCAAAGATCAAAACATAAATTAAATAATATATAAGTGACCAAATAGATAGTTTAC
CT
Found at i:8289159 original size:136 final size:132
Alignment explanation
Indices: 8288855--8289184 Score: 367
Period size: 132 Copynumber: 2.5 Consensus size: 132
8288845 TAATTTTGAA
* * * * * *
8288855 ATAAATAATAATCAAGTGATCAAAACATAAATTAGATAATATATAAGTGACCAAATAGGTAGTTA
1 ATAAATAATAATAAAGTAACCAAAACATAAATTAAATAATATATAAGTGAACAAATAGATAGTTA
* * * * * * * * **
8288920 ATCTTAAATAAAAATATATATTAATTATATTAGATAATATATAAGTAACCAAATAGGTTTGTTTA
66 ACCTTAAATAAAAATAAAGATAAAATAAATTAAATAATATATAAGTAACAAAATAGGTTAATTTA
8288985 TC
131 TC
** * *
8288987 ATAAATAATAATCGAGTAACCAAAACATAAATTAAATAATATATAAGTGATCAAATAGATAGTTT
1 ATAAATAATAATAAAGTAACCAAAACATAAATTAAATAATATATAAGTGAACAAATAGATAGTTA
* *
8289052 ACCTTAAATAATAATCAAACGATCAAAACATAAATTAAATAATATATAAGTGACAAAATAGG-TA
66 ACCTTAAATAAAAAT-AAA-GAT--AAA-ATAAATTAAATAATATATAAGTAACAAAATAGGTTA
8289116 ATTTATC
126 ATTTATC
* * *
8289123 CTAAATAATAATTAAAG-AACCAAAATATAAATTAAATAATATATAACTGAACAAATAGATAG
1 ATAAATAATAA-TAAAGTAACCAAAACATAAATTAAATAATATATAAGTGAACAAATAGATAG
8289185 GGCATTTTTG
Statistics
Matches: 167, Mismatches: 25, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
132 71 0.43
133 2 0.01
134 2 0.01
136 61 0.37
137 31 0.19
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.30
Consensus pattern (132 bp):
ATAAATAATAATAAAGTAACCAAAACATAAATTAAATAATATATAAGTGAACAAATAGATAGTTA
ACCTTAAATAAAAATAAAGATAAAATAAATTAAATAATATATAAGTAACAAAATAGGTTAATTTA
TC
Found at i:8310117 original size:37 final size:38
Alignment explanation
Indices: 8310030--8310129 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
8310020 AACCAAATGG
*
8310030 TTTATTTCCTTTTACAAAAC--AATAAAAATACAACGA
1 TTTATTTCCTTTTACAAAACAGAAAAAAAATACAACGA
*
8310066 TTTATTTCCTTTTACAAAACAGAAAAAAAATCCAACGA
1 TTTATTTCCTTTTACAAAACAGAAAAAAAATACAACGA
*
8310104 TTTATTTCC-TTTACAAAGCAGAAAAA
1 TTTATTTCCTTTTACAAAACAGAAAAA
8310130 TAAAATCAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
36 20 0.34
37 16 0.27
38 23 0.39
ACGTcount: A:0.46, C:0.17, G:0.05, T:0.32
Consensus pattern (38 bp):
TTTATTTCCTTTTACAAAACAGAAAAAAAATACAACGA
Found at i:8310147 original size:39 final size:38
Alignment explanation
Indices: 8310014--8310150 Score: 149
Period size: 36 Copynumber: 3.6 Consensus size: 38
8310004 ACAAATTCCC
* * *
8310014 AAAAAAAACCAAATGGTTTATTTCCTTTTACAAAAC--
1 AAAAAAAATCAAACGATTTATTTCCTTTTACAAAACAG
*
8310050 AATAAAAAT-ACAACGATTTATTTCCTTTTACAAAACAG
1 AAAAAAAATCA-AACGATTTATTTCCTTTTACAAAACAG
* *
8310088 AAAAAAAATCCAACGATTTATTTCC-TTTACAAAGCAG
1 AAAAAAAATCAAACGATTTATTTCCTTTTACAAAACAG
8310125 AAAAATAAAATCAAAC-AGTTTATTTC
1 -AAAA-AAAATCAAACGA-TTTATTTC
8310151 GATTTATTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
35 1 0.01
36 30 0.35
37 11 0.13
38 27 0.31
39 17 0.20
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.30
Consensus pattern (38 bp):
AAAAAAAATCAAACGATTTATTTCCTTTTACAAAACAG
Found at i:8310281 original size:125 final size:125
Alignment explanation
Indices: 8310030--8310341 Score: 347
Period size: 125 Copynumber: 2.5 Consensus size: 125
8310020 AACCAAATGG
* * *
8310030 TTTATTTCCTTTTACAAAACAATAA--AAATACAACGATTTATTTCC-TTTTACAAAACAGAAAA
1 TTTATTTCCTTTTACAAAATAAGAATTAAAT-CAACTATTTATTTCCTTTTTACAAAACAGAAAA
* *
8310092 AAAATCCAACGATTTATTTCCTTTACAAAGCAGAAAAATAAAATCAAACAGTTTATTTCGA
65 AAAATACAACGATTTATTTCCTTTACAAAACAGAAAAATAAAATCAAACAGTTTATTTCGA
* * * *
8310153 TTTATTTTCTTTTAC-AAATAGGAAATTAAATCCAACTATTTATTTCCTTTTTACAATATATGAA
1 TTTATTTCCTTTTACAAAATAAG-AATTAAAT-CAACTATTTATTTCCTTTTTACAAAACA-GAA
* ** * *
8310217 AACAAATACAACGA-TTATTTTTTTATATAAAACATG-AAAAT-AAATCAAACA-TTTGTTTCGA
63 AAAAAATACAACGATTTATTTCCTT-TACAAAACA-GAAAAATAAAATCAAACAGTTTATTTCGA
*
8310278 TTTATTTCCTTTTACAAAATAAGAATTAAATCAA-TGATTTATTT-CTTTTTACAAACCATGAAA
1 TTTATTTCCTTTTACAAAATAAGAATTAAATCAACT-ATTTATTTCCTTTTTACAAAACA-GAAA
8310341 A
64 A
8310342 TTAATCAAAC
Statistics
Matches: 160, Mismatches: 20, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
122 4 0.03
123 34 0.21
124 11 0.07
125 49 0.31
126 34 0.21
127 27 0.17
128 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (125 bp):
TTTATTTCCTTTTACAAAATAAGAATTAAATCAACTATTTATTTCCTTTTTACAAAACAGAAAAA
AAATACAACGATTTATTTCCTTTACAAAACAGAAAAATAAAATCAAACAGTTTATTTCGA
Found at i:8310348 original size:85 final size:88
Alignment explanation
Indices: 8310190--8310358 Score: 213
Period size: 85 Copynumber: 2.0 Consensus size: 88
8310180 AAATCCAACT
* * *
8310190 ATTTATTTCCTTTTTACAATATATGAAAACAAATACAACGATTATTTTTTTATATAAAACATGAA
1 ATTTATTTCCTTTTTACAAAATAAGAAAACAAATACAACGATTATTTTTTTATACAAAACATGAA
8310255 AATAAATCAAAC-ATTTGTTTCG
66 AATAAATCAAACGATTTGTTTCG
** * *
8310277 ATTTATTTCC-TTTTACAAAATAAG-AATTAAAT-CAATGATTTATTTCTTTT-TACAAACCATG
1 ATTTATTTCCTTTTTACAAAATAAGAAAACAAATACAACGA-TTATTT-TTTTATACAAAACATG
*
8310338 AAAATTAATCAAACGATTTGT
64 AAAATAAATCAAACGATTTGT
8310359 AACCCCCTAG
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
84 5 0.07
85 34 0.48
86 22 0.31
87 10 0.14
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (88 bp):
ATTTATTTCCTTTTTACAAAATAAGAAAACAAATACAACGATTATTTTTTTATACAAAACATGAA
AATAAATCAAACGATTTGTTTCG
Found at i:8311916 original size:5 final size:5
Alignment explanation
Indices: 8311902--8311934 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8311892 CAACGGTCAC
*
8311902 GGTCG AGTCG GGTCG GGTC- GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
8311935 AGACCGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.03, C:0.21, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:8311927 original size:14 final size:15
Alignment explanation
Indices: 8311902--8311934 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
8311892 CAACGGTCAC
8311902 GGTCGAGTCGGGTCG
1 GGTCGAGTCGGGTCG
8311917 GGTCG-GTCGGGTCG
1 GGTCGAGTCGGGTCG
8311931 GGTC
1 GGTC
8311935 AGACCGGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.03, C:0.21, G:0.55, T:0.21
Consensus pattern (15 bp):
GGTCGAGTCGGGTCG
Found at i:8311942 original size:19 final size:19
Alignment explanation
Indices: 8311901--8311943 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
8311891 TCAACGGTCA
* **
8311901 CGGTCGAGTCGGGTCGGGT
1 CGGTCGAGTCGGGTCAGAC
*
8311920 CGGTCGGGTCGGGTCAGAC
1 CGGTCGAGTCGGGTCAGAC
8311939 CGGTC
1 CGGTC
8311944 AAAACTGGGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.07, C:0.26, G:0.49, T:0.19
Consensus pattern (19 bp):
CGGTCGAGTCGGGTCAGAC
Found at i:8312544 original size:77 final size:75
Alignment explanation
Indices: 8312434--8312627 Score: 200
Period size: 77 Copynumber: 2.6 Consensus size: 75
8312424 TCTTAGGAAA
* * *
8312434 TTTCAAAGTAGAGAAATAA-ATTATACGATTTATTTCCTTTTACAAAAC-AGAAAAATAAATTCT
1 TTTCAAAATAGAAAAATAATA-TA-ACGATTTATTT-CTTTTACAAAACAAG-AAAATAAATTCA
*
8312497 ACGATTTATTTCCT
62 ACGATTTATTTCAT
* * *
8312511 TTTACAAAATAGGAAAAA-AATCTAACGATTTATTTTCTTATACAAAACAAGAAACTAAATTCAA
1 TTT-CAAAATA-GAAAAATAATATAACGATTTA-TTTCTTTTACAAAACAAGAAAATAAATTCAA
*
8312575 CGATTTGTTTCAT
63 CGATTTATTTCAT
* *
8312588 TTTCCAAATAGAAAAATAATATGA-GA-TTATTTCTTTTACA
1 TTTCAAAATAGAAAAATAATATAACGATTTATTTCTTTTACA
8312628 GATAGAATCA
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
73 10 0.10
74 3 0.03
75 8 0.08
76 11 0.11
77 47 0.47
78 15 0.15
79 5 0.05
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (75 bp):
TTTCAAAATAGAAAAATAATATAACGATTTATTTCTTTTACAAAACAAGAAAATAAATTCAACGA
TTTATTTCAT
Found at i:8312555 original size:38 final size:39
Alignment explanation
Indices: 8312447--8312606 Score: 175
Period size: 39 Copynumber: 4.2 Consensus size: 39
8312437 CAAAGTAGAG
*
8312447 AAATAAATTATACGATTTATTTCCTTTTACAAAACAGAA
1 AAATAAATTCTACGATTTATTTCCTTTTACAAAACAGAA
* *
8312486 AAATAAATTCTACGATTTATTTCCTTTTACAAAATAGGA
1 AAATAAATTCTACGATTTATTTCCTTTTACAAAACAGAA
* *
8312525 AAA-AAA-TCTAACGATTTATTTTCTTATACAAAACA-AGA
1 AAATAAATTCT-ACGATTTATTTCCTTTTACAAAACAGA-A
* * * * * *
8312563 AACTAAATTCAACGATTTGTTTCATTTT-CCAAATAGAA
1 AAATAAATTCTACGATTTATTTCCTTTTACAAAACAGAA
8312601 AAATAA
1 AAATAA
8312607 TATGAGATTA
Statistics
Matches: 100, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
37 3 0.03
38 39 0.39
39 56 0.56
40 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (39 bp):
AAATAAATTCTACGATTTATTTCCTTTTACAAAACAGAA
Found at i:8312748 original size:56 final size:55
Alignment explanation
Indices: 8312686--8313061 Score: 250
Period size: 56 Copynumber: 6.6 Consensus size: 55
8312676 AAGTTTCCCT
* *
8312686 AGAAAATAAATTTAACAATTTATTTCTTTTAACAAA-ATAATCATTTAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTT-TCTT-ACAAATATAATCATTTAAGATTCTCA
* * * * *
8312742 AGAAAATAAAATTTAACAATTTATTTATTTTTA-AATGATAGAATCATCTACGATTCTCA
1 AGAAAAT-AAATTCAACAATTTA-TT-TTCTTACAA--ATATAATCATTTAAGATTCTCA
** * * ** * *
8312801 AG-AAAT-AATTTGATAATTTAATTTTCTTACAAAGT-TAGTCATTCCATATTTTCA
1 AGAAAATAAATTCAACAATTT-ATTTTCTTACAAA-TATAATCATTTAAGATTCTCA
* *
8312855 AGAAAATAAATTCAACAA--TATTTTCCCTAACAAAGTTAGAATCATTTAAGA-TCTCA
1 AGAAAATAAATTCAACAATTTATTTT--CTTACAAA--TATAATCATTTAAGATTCTCA
* * *
8312911 AGGAAATAAATTCAAC-ATTTATTTTCCTTACAAAGTTAAAATCATTCAAGATTCTCA
1 AGAAAATAAATTCAACAATTTATTTT-CTTACAAA--TATAATCATTTAAGATTCTCA
* * *
8312968 A-AGAAATAAATTCAAACAATTTATTTTCCTTACAAGTTTTGAATCATTTAAGATTCTTA
1 AGA-AAATAAATTC-AACAATTTATTTT-CTTACAA-ATAT-AATCATTTAAGATTCTCA
* * *
8313027 AGGAAATAAATTCAACAATATATTTCCCTTACAAA
1 AGAAAATAAATTCAACAATTTATTT-TCTTACAAA
8313062 GTTAGAATCA
Statistics
Matches: 256, Mismatches: 39, Indels: 49
0.74 0.11 0.14
Matches are distributed among these distances:
53 5 0.02
54 15 0.06
55 18 0.07
56 74 0.29
57 47 0.18
58 33 0.13
59 64 0.25
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.37
Consensus pattern (55 bp):
AGAAAATAAATTCAACAATTTATTTTCTTACAAATATAATCATTTAAGATTCTCA
Found at i:8312804 original size:59 final size:56
Alignment explanation
Indices: 8312686--8312805 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 56
8312676 AAGTTTCCCT
* *
8312686 AGAAAATAAATTTAACAATTTATTTCTTTTAACAAAATAATCATTTAAGATTCTCA
1 AGAAAATAAATTTAACAATTTATTTCTTTTAACAAAAGAATCATCTAAGATTCTCA
* * *
8312742 AGAAAATAAAATTTAACAATTTATTTATTTTTAA-ATGATAGAATCATCTACGATTCTCA
1 AGAAAAT-AAATTTAACAATTTATTT-CTTTTAACA--AAAGAATCATCTAAGATTCTCA
8312801 AGAAA
1 AGAAA
8312806 TAATTTGATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
56 7 0.13
57 19 0.35
58 6 0.11
59 23 0.42
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.38
Consensus pattern (56 bp):
AGAAAATAAATTTAACAATTTATTTCTTTTAACAAAAGAATCATCTAAGATTCTCA
Found at i:8312941 original size:111 final size:113
Alignment explanation
Indices: 8312780--8313066 Score: 320
Period size: 111 Copynumber: 2.5 Consensus size: 113
8312770 TTTTAAATGA
* * * *
8312780 TAGAATCATCTACGATTCTCAA-GAAATAATTTGATA-ATTTAATTTT-CTTACAAAGTTAGTCA
1 TAGAATCATTTAAGATTCTCAAGGAAATAAATTCA-ACATTT-ATTTTCCTTACAAAGTTAGTCA
* * *
8312842 TTCCATATTTTC-AAGAAAATAAATTC-AACAA-TATTTTCCCTAACAAAG-T
64 TTCAAGATTCTCAAAG-AAATAAATTCAAACAATTATTTT-CCTAAC-AAGTT
*
8312891 TAGAATCATTTAAGA-TCTCAAGGAAATAAATTCAACATTTATTTTCCTTACAAAGTTAAAATCA
1 TAGAATCATTTAAGATTCTCAAGGAAATAAATTCAACATTTATTTTCCTTACAAAGTT--AGTCA
*
8312955 TTCAAGATTCTCAAAGAAATAAATTCAAACAATTTATTTTCCTTACAAGTT
64 TTCAAGATTCTCAAAGAAATAAATTCAAACAA-TTATTTTCCTAACAAGTT
* * * *
8313006 TTGAATCATTTAAGATTCTTAAGGAAATAAATTCAACAATATATTTCCCTTACAAAGTTAG
1 TAGAATCATTTAAGATTCTCAAGGAAATAAATTCAAC-ATTTATTTTCCTTACAAAGTTAG
8313067 AATCAACGCA
Statistics
Matches: 150, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
110 12 0.08
111 38 0.25
113 23 0.15
114 11 0.07
115 21 0.14
116 26 0.17
117 19 0.13
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (113 bp):
TAGAATCATTTAAGATTCTCAAGGAAATAAATTCAACATTTATTTTCCTTACAAAGTTAGTCATT
CAAGATTCTCAAAGAAATAAATTCAAACAATTATTTTCCTAACAAGTT
Found at i:8313013 original size:59 final size:58
Alignment explanation
Indices: 8312724--8313071 Score: 349
Period size: 56 Copynumber: 6.1 Consensus size: 58
8312714 TTAACAAAAT
* * ** * *
8312724 AATCATTTAAGATTCTCAAGAAAATAAAATTTAACAATTTATTTATTTTTA-AATGATAG
1 AATCATTTAAGATTCTCAAGGAAAT-AAATTCAACAATTTATTT-TCCTTACAAAGTTAG
* * ** *
8312783 AATCATCTACGATTCTCAA-GAAAT-AATTTGATAATTTAATTTT-CTTACAAAGTTAG
1 AATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTT-ATTTTCCTTACAAAGTTAG
** * * * *
8312839 --TCATTCCATATTTTCAAGAAAATAAATTCAACAA--TATTTTCCCTAACAAAGTTAG
1 AATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTT-CCTTACAAAGTTAG
*
8312894 AATCATTTAAGA-TCTCAAGGAAATAAATTCAAC-ATTTATTTTCCTTACAAAGTTAA
1 AATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAG
* * *
8312950 AATCATTCAAGATTCTCAAAGAAATAAATTCAAACAATTTATTTTCCTTAC-AAGTTTTG
1 AATCATTTAAGATTCTCAAGGAAATAAATTC-AACAATTTATTTTCCTTACAAAG-TTAG
* * *
8313009 AATCATTTAAGATTCTTAAGGAAATAAATTCAACAATATATTTCCCTTACAAAGTTAG
1 AATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAG
8313067 AATCA
1 AATCA
8313072 ACGCAAGATT
Statistics
Matches: 238, Mismatches: 36, Indels: 31
0.78 0.12 0.10
Matches are distributed among these distances:
53 5 0.02
54 12 0.05
55 20 0.08
56 67 0.28
57 34 0.14
58 35 0.15
59 65 0.27
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.37
Consensus pattern (58 bp):
AATCATTTAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAG
Found at i:8313083 original size:59 final size:58
Alignment explanation
Indices: 8312826--8313071 Score: 297
Period size: 59 Copynumber: 4.3 Consensus size: 58
8312816 ATTTAATTTT
* * * *
8312826 CTTACAAAGTTAG--TCATTCCATATTTTCAAGAAAATAAATTCAACAATAT-TTTCC
1 CTTACAAAGTTAGAATCATTCAAGATTCTCAAGGAAATAAATTCAACAATATATTTCC
* * * *
8312881 CTAACAAAGTTAGAATCATTTAAGA-TCTCAAGGAAATAAATTCAAC-ATTTATTTTC
1 CTTACAAAGTTAGAATCATTCAAGATTCTCAAGGAAATAAATTCAACAATATATTTCC
* * * *
8312937 CTTACAAAGTTAAAATCATTCAAGATTCTCAAAGAAATAAATTCAAACAATTTATTTTC
1 CTTACAAAGTTAGAATCATTCAAGATTCTCAAGGAAATAAATTC-AACAATATATTTCC
* * *
8312996 CTTAC-AAGTTTTGAATCATTTAAGATTCTTAAGGAAATAAATTCAACAATATATTTCC
1 CTTACAAAG-TTAGAATCATTCAAGATTCTCAAGGAAATAAATTCAACAATATATTTCC
8313054 CTTACAAAGTTAGAATCA
1 CTTACAAAGTTAGAATCA
8313072 ACGCAAGATT
Statistics
Matches: 163, Mismatches: 20, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
55 15 0.09
56 45 0.28
57 24 0.15
58 31 0.19
59 48 0.29
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (58 bp):
CTTACAAAGTTAGAATCATTCAAGATTCTCAAGGAAATAAATTCAACAATATATTTCC
Found at i:8313109 original size:116 final size:115
Alignment explanation
Indices: 8312858--8313097 Score: 308
Period size: 116 Copynumber: 2.1 Consensus size: 115
8312848 ATTTTCAAGA
* *
8312858 AAATAAATTC-AACAA--TATTTTCCCTAACAAAG-TTAGAATCATTTAAGATCTCAAGGAAATA
1 AAATAAATTCAAACAATTTATTTT-CCTTAC-AAGTTTTGAATCATTTAAGATCTCAAGGAAATA
* * **
8312919 AATTCAACATTTATTTTCCTTACAAAGTTAAAATCATTCAAGATTCTCAAAG
64 AATTCAACATATATTTCCCTTACAAAGTTAAAATCACGCAAGATTCTCAAAG
*
8312971 AAATAAATTCAAACAATTTATTTTCCTTACAAGTTTTGAATCATTTAAGATTCTTAAGGAAATAA
1 AAATAAATTCAAACAATTTATTTTCCTTACAAGTTTTGAATCATTTAAGA-TCTCAAGGAAATAA
* * *
8313036 ATTCAACAATATATTTCCCTTACAAAGTTAGAATCAACGCAAGATTCTACGATG
65 ATTCAAC-ATATATTTCCCTTACAAAGTTAAAATC-ACGCAAGATTCT-CAAAG
8313090 AAATAAAT
1 AAATAAAT
8313098 CAGTGATTAT
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
113 10 0.09
114 8 0.07
115 20 0.18
116 26 0.24
117 24 0.22
118 10 0.09
119 11 0.10
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (115 bp):
AAATAAATTCAAACAATTTATTTTCCTTACAAGTTTTGAATCATTTAAGATCTCAAGGAAATAAA
TTCAACATATATTTCCCTTACAAAGTTAAAATCACGCAAGATTCTCAAAG
Found at i:8313841 original size:14 final size:13
Alignment explanation
Indices: 8313816--8313862 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
8313806 GGCCAAAGGT
*
8313816 TATATAATAATAA
1 TATATAACAATAA
8313829 TACTATAACAATAA
1 TA-TATAACAATAA
8313843 TATCATGAACAATAA
1 TAT-AT-AACAATAA
8313858 TATAT
1 TATAT
8313863 TAAAGCTCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 3 0.10
14 16 0.53
15 11 0.37
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (13 bp):
TATATAACAATAA
Found at i:8319363 original size:10 final size:10
Alignment explanation
Indices: 8319344--8319388 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
8319334 TTTTTTATTA
*
8319344 ATATTATAAT
1 ATATTTTAAT
8319354 ATATTTTAAT
1 ATATTTTAAT
*
8319364 AT-TTTTCAT
1 ATATTTTAAT
8319373 ATATTTTAAT
1 ATATTTTAAT
*
8319383 TTATTT
1 ATATTT
8319389 ATTTATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:8322965 original size:24 final size:24
Alignment explanation
Indices: 8322932--8322984 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
8322922 TTAGGGTTAA
*
8322932 TATATTTTCATCTGC-TAAAATTT
1 TATATTTTCATCTACTTAAAATTT
*
8322955 TATATGTTTCATTTACTTTAAAATTT
1 TATAT-TTTCATCTAC-TTAAAATTT
8322981 TATA
1 TATA
8322985 AGTTCACCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
26 12 0.48
ACGTcount: A:0.32, C:0.09, G:0.04, T:0.55
Consensus pattern (24 bp):
TATATTTTCATCTACTTAAAATTT
Found at i:8324934 original size:26 final size:26
Alignment explanation
Indices: 8324878--8324936 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
8324868 AACACCTAAT
*
8324878 TTTTAAACTAAATAGTTCAAAATTAC
1 TTTTCAACTAAATAGTTCAAAATTAC
8324904 TTTTCAACTAAATAGTTCAAAATTAC
1 TTTTCAACTAAATAGTTCAAAATTAC
8324930 TTTTCAA
1 TTTTCAA
8324937 AAATATTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.41
Consensus pattern (26 bp):
TTTTCAACTAAATAGTTCAAAATTAC
Found at i:8325615 original size:42 final size:42
Alignment explanation
Indices: 8325549--8325629 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
8325539 CTGAACTTGA
8325549 CTCGACTCGACTCGAAAACTCTGAAAT-AGAGCTCGTGAGTAG
1 CTCGACTCGACTCGAAAACTCTGAAATGA-AGCTCGTGAGTAG
* * *
8325591 CTCGACTCGAACTTGAAATC-CTGAACTGAAGCTCGTGAG
1 CTCGACTCG-ACTCGAAAACTCTGAAATGAAGCTCGTGAG
8325630 CAGCGAAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 25 0.74
43 9 0.26
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (42 bp):
CTCGACTCGACTCGAAAACTCTGAAATGAAGCTCGTGAGTAG
Found at i:8328409 original size:32 final size:32
Alignment explanation
Indices: 8328372--8328434 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
8328362 AGGACATGAC
8328372 TGTAACCAAATTGTACGAATCTCAAATTTTGT
1 TGTAACCAAATTGTACGAATCTCAAATTTTGT
*
8328404 TGTAACCAAATTGTACGAATCTCAAGTTTTG
1 TGTAACCAAATTGTACGAATCTCAAATTTTG
8328435 ACCCTTTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (32 bp):
TGTAACCAAATTGTACGAATCTCAAATTTTGT
Found at i:8329516 original size:20 final size:20
Alignment explanation
Indices: 8329491--8329544 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
8329481 GACCAACAAA
8329491 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
8329511 TTCGCAACAC-AGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
8329531 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
8329545 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:8329591 original size:20 final size:20
Alignment explanation
Indices: 8329568--8329613 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8329558 TGCGCTTTTC
* *
8329568 CAAATTCACAACGCTATAGT
1 CAAATTCACAACGCGAAAGT
8329588 CAAATTCACAACGCGAAAGT
1 CAAATTCACAACGCGAAAGT
8329608 CAAATT
1 CAAATT
8329614 TGCAACTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (20 bp):
CAAATTCACAACGCGAAAGT
Found at i:8329631 original size:19 final size:19
Alignment explanation
Indices: 8329607--8329695 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
8329597 AACGCGAAAG
*
8329607 TCAAATTTGCAACTGAATT
1 TCAAATTCGCAACTGAATT
8329626 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
8329645 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
8329664 TCAAATTCGTAACTGAATT
1 TCAAATTCGCAACTGAATT
8329683 TCAAATTCGCAAC
1 TCAAATTCGCAAC
8329696 AGGTTTTAGT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:8329631 original size:39 final size:38
Alignment explanation
Indices: 8329587--8329695 Score: 119
Period size: 38 Copynumber: 2.8 Consensus size: 38
8329577 AACGCTATAG
*
8329587 TCAAATTCACAACGCGAAAGTCAAATTTGCAACTGAATT
1 TCAAATTCACAAC-CGAAAGTCAAATTCGCAACTGAATT
* * **
8329626 TCAAATTCGCAACTGAATTTCAAATTCGCAACTGAATT
1 TCAAATTCACAACCGAAAGTCAAATTCGCAACTGAATT
** * **
8329664 TCAAATTCGTAACTGAATTTCAAATTCGCAAC
1 TCAAATTCACAACCGAAAGTCAAATTCGCAAC
8329696 AGGTTTTAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
38 52 0.81
39 12 0.19
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (38 bp):
TCAAATTCACAACCGAAAGTCAAATTCGCAACTGAATT
Found at i:8330467 original size:13 final size:13
Alignment explanation
Indices: 8330449--8330478 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8330439 TTCCAATACC
8330449 AAACACAATATCA
1 AAACACAATATCA
*
8330462 AAACACAATCTCA
1 AAACACAATATCA
8330475 AAAC
1 AAAC
8330479 CCACAACCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (13 bp):
AAACACAATATCA
Found at i:8331477 original size:14 final size:14
Alignment explanation
Indices: 8331454--8331489 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8331444 TTAGCAGTAG
8331454 CAAT-GGATGCTAA
1 CAATGGGATGCTAA
8331467 CAATGGGATGCTAA
1 CAATGGGATGCTAA
8331481 CAATGGGAT
1 CAATGGGAT
8331490 ACTGCCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (14 bp):
CAATGGGATGCTAA
Found at i:8333281 original size:18 final size:18
Alignment explanation
Indices: 8333260--8333296 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8333250 GTAATTGGAG
8333260 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
8333278 TTTGAGTTTTAATTTCAA
1 TTTGAATTTAAATTTCAA
8333296 T
1 T
8333297 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:8333303 original size:24 final size:24
Alignment explanation
Indices: 8333252--8333304 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
8333242 TTTCATATGT
* * *
8333252 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
8333276 AATTTGAGTTTTAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
8333300 AATTT
1 AATTT
8333305 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.36, C:0.04, G:0.11, T:0.49
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:8333651 original size:39 final size:39
Alignment explanation
Indices: 8333608--8333694 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
8333598 TCTGATGCTC
8333608 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
8333647 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
8333686 ATCAAAATC
1 ATCAAAATC
8333695 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:8333931 original size:20 final size:20
Alignment explanation
Indices: 8333908--8333946 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8333898 AATAAGCGTT
*
8333908 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
8333928 GCGAAAGTCAAATTCGCAA
1 GCGAAAGTCAAATTCGCAA
8333947 ACAGAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:8335312 original size:21 final size:21
Alignment explanation
Indices: 8335286--8335330 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8335276 GATTTCTGGG
* *
8335286 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
8335307 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
8335328 CAA
1 CAA
8335331 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:8336268 original size:103 final size:103
Alignment explanation
Indices: 8336043--8336260 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
8336033 GTCGAGGGTC
* * *
8336043 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACATATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
* *
8336108 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
8336146 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
*
8336211 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
8336249 TATGTGGTCCTT
1 TATGTGGTCCTT
8336261 ATGGACATTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:8336343 original size:23 final size:23
Alignment explanation
Indices: 8336267--8336344 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
8336257 CCTTATGGAC
* *
8336267 ATTATTATATGGCACTACGGTGAA
1 ATTA-TATGTGGCACTACGGTGCA
* * * *
8336291 ATTCTACGCGGCACTCCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
8336314 ATTATATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
8336337 ATTATATG
1 ATTATATG
8336345 AGCTATGGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 41 0.93
24 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:8341951 original size:102 final size:103
Alignment explanation
Indices: 8341768--8341984 Score: 373
Period size: 102 Copynumber: 2.1 Consensus size: 103
8341758 GTCGAGGGTC
* *
8341768 TATGTGGTCTTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
* *
8341833 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
8341871 TATGTGGTCCTTC-GGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAT
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
*
8341935 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
8341973 TATGTGGTCCTT
1 TATGTGGTCCTT
8341985 ATGGACATTA
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 96 0.89
103 12 0.11
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGATGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:8346626 original size:22 final size:22
Alignment explanation
Indices: 8346598--8346639 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
8346588 GAGATAGATG
8346598 GATTTCGTCGGAAATGGGGACA
1 GATTTCGTCGGAAATGGGGACA
*
8346620 GATTTCGTCGGAGATGGGGA
1 GATTTCGTCGGAAATGGGGA
8346640 TGGATGTCGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (22 bp):
GATTTCGTCGGAAATGGGGACA
Found at i:8346797 original size:20 final size:20
Alignment explanation
Indices: 8346772--8346820 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
8346762 GCGTAAAAAC
8346772 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
8346792 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
8346812 ATTTGACTT
1 ATTTGACTT
8346821 CTGTGTTGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:8346828 original size:20 final size:20
Alignment explanation
Indices: 8346772--8346831 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
8346762 GCGTAAAAAC
8346772 ATTTGACTT-TCGCGTTGCGA
1 ATTTGACTTCT-GCGTTGCGA
8346792 ATTTGACTATC-GCGTTGCGA
1 ATTTGACT-TCTGCGTTGCGA
*
8346812 ATTTGACTTCTGTGTTGCGA
1 ATTTGACTTCTGCGTTGCGA
8346832 TTTACATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 33 0.92
21 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.25, T:0.40
Consensus pattern (20 bp):
ATTTGACTTCTGCGTTGCGA
Found at i:8346888 original size:20 final size:20
Alignment explanation
Indices: 8346846--8346892 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8346836 CATATTCACA
*
8346846 TTGCGAAATTGGAAACTGGG
1 TTGCGAAATTGGAAACTGCG
*
8346866 TTGCGAAATTGG-AATTCGCG
1 TTGCGAAATTGGAAACT-GCG
8346886 TTGCGAA
1 TTGCGAA
8346893 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.28
Consensus pattern (20 bp):
TTGCGAAATTGGAAACTGCG
Found at i:8347583 original size:2 final size:2
Alignment explanation
Indices: 8347576--8347604 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8347566 TTCAATTCAT
8347576 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8347605 TAATTTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8350120 original size:23 final size:23
Alignment explanation
Indices: 8350090--8350133 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8350080 CAAAACATGT
8350090 ATTTGTATTAAGGGCAGATTCGA
1 ATTTGTATTAAGGGCAGATTCGA
8350113 ATTTGTATTAAGGGCAGATTC
1 ATTTGTATTAAGGGCAGATTC
8350134 TTCAAGTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (23 bp):
ATTTGTATTAAGGGCAGATTCGA
Found at i:8353894 original size:8 final size:8
Alignment explanation
Indices: 8353871--8353911 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
8353861 TAAAAAAATC
*
8353871 TAAAATTC
1 TAAAATTT
8353879 TAAAATTT
1 TAAAATTT
8353887 TAAAATTT
1 TAAAATTT
* *
8353895 GATAATTT
1 TAAAATTT
8353903 TAAAATTT
1 TAAAATTT
8353911 T
1 T
8353912 GGATCCGCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (8 bp):
TAAAATTT
Found at i:8354244 original size:2 final size:2
Alignment explanation
Indices: 8354237--8354291 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
8354227 AGCGAAAGGG
8354237 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8354279 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
8354292 TATTCATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8358705 original size:5 final size:5
Alignment explanation
Indices: 8358690--8358770 Score: 80
Period size: 5 Copynumber: 16.4 Consensus size: 5
8358680 TTTGTTCTTC
* *
8358690 ATTAT -TTAT ATTAT ATAAT A-TAT ATTTAT ATTAT ATAAT A-TAT ATTTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT ATTAT A-TTAT
*
8358739 ATTAT ATAAT A-TAT ATTTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT AT
8358771 ATTCAGCTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
4 13 0.21
5 38 0.60
6 12 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:8358730 original size:18 final size:20
Alignment explanation
Indices: 8358692--8358772 Score: 153
Period size: 20 Copynumber: 4.0 Consensus size: 20
8358682 TGTTCTTCAT
8358692 TATTTATATTATATAATATA
1 TATTTATATTATATAATATA
8358712 TATTTATATTATATAATATA
1 TATTTATATTATATAATATA
8358732 TATTTATATTATATAATATA
1 TATTTATATTATATAATATA
*
8358752 TATTTATATTATATTATATA
1 TATTTATATTATATAATATA
8358772 T
1 T
8358773 TCAGCTATAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTATATTATATAATATA
Found at i:8358790 original size:2 final size:2
Alignment explanation
Indices: 8358696--8358772 Score: 71
Period size: 2 Copynumber: 42.5 Consensus size: 2
8358686 CTTCATTATT
*
8358696 TA TA T- TA TA TA -A TA TA TA TT TA TA T- TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8358734 TT TA TA T- TA TA TA -A TA TA TA TT TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8358772 T
1 T
8358773 TCAGCTATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
1 8 0.13
2 53 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:8359873 original size:27 final size:28
Alignment explanation
Indices: 8359837--8359908 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
8359827 TTTCTTTTTC
8359837 TTATTATTATTTATTTAAATA-GTATAT
1 TTATTATTATTTATTTAAATATGTATAT
* * *
8359864 TTATTATTATCCATATTTAATTATGTATTT
1 TTATTATTAT--TTATTTAAATATGTATAT
*
8359894 TTATTATTAATTATT
1 TTATTATTATTTATT
8359909 CTCATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
27 10 0.27
28 4 0.11
29 9 0.24
30 14 0.38
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (28 bp):
TTATTATTATTTATTTAAATATGTATAT
Found at i:8359986 original size:2 final size:2
Alignment explanation
Indices: 8359979--8360022 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
8359969 TAATTTATGA
8359979 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
8360021 AT
1 AT
8360023 CACTACTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8371062 original size:5 final size:5
Alignment explanation
Indices: 8371047--8371087 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
8371037 TTTGTTCTTC
*
8371047 ATTAT -TTAT ATTAT ATAAT A-TAT ATTTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT A-TTAT ATTAT ATTAT AT
8371088 ATTCAGCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 7 0.23
5 20 0.65
6 4 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:8371074 original size:20 final size:20
Alignment explanation
Indices: 8371049--8371089 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
8371039 TGTTCTTCAT
8371049 TATTTATATTATATAATATA
1 TATTTATATTATATAATATA
*
8371069 TATTTATATTATATTATATA
1 TATTTATATTATATAATATA
8371089 T
1 T
8371090 TCAGCTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTATATTATATAATATA
Found at i:8379826 original size:42 final size:42
Alignment explanation
Indices: 8379773--8379862 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
8379763 ATTTGGCCAT
*
8379773 TTGGGTTTTAAATGGATTTTAACTTTTAAATGGATTGGGGCA
1 TTGGGTTTTAAATGGATTTTAACTTTTAAATGGATTAGGGCA
*
8379815 TTGGGTTTTAAATGGGTTTTAACTTTTAAATGGATTAGGGCA
1 TTGGGTTTTAAATGGATTTTAACTTTTAAATGGATTAGGGCA
8379857 TTGGGT
1 TTGGGT
8379863 CGGCTGAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.04, G:0.28, T:0.43
Consensus pattern (42 bp):
TTGGGTTTTAAATGGATTTTAACTTTTAAATGGATTAGGGCA
Found at i:8381683 original size:16 final size:17
Alignment explanation
Indices: 8381662--8381695 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8381652 TTGAGTATTT
8381662 TTAGTTG-GGTTTAAAA
1 TTAGTTGAGGTTTAAAA
*
8381678 TTAGTTGAGTTTTAAAA
1 TTAGTTGAGGTTTAAAA
8381695 T
1 T
8381696 ATTAATGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTAGTTGAGGTTTAAAA
Found at i:8384829 original size:19 final size:20
Alignment explanation
Indices: 8384793--8384840 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
8384783 TCTAAATCCT
* *
8384793 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTCCATTTTAG
8384813 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
8384832 CTTTCAAAA
1 TTTTCAAAA
8384841 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:8386403 original size:20 final size:19
Alignment explanation
Indices: 8386378--8386415 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8386368 ATATAAATGG
*
8386378 ACTTTGAATTATTTTTGAAA
1 ACTTTGAA-AATTTTTGAAA
8386398 ACTTTGAAAATTTTTGAA
1 ACTTTGAAAATTTTTGAA
8386416 TAAATTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (19 bp):
ACTTTGAAAATTTTTGAAA
Found at i:8400353 original size:82 final size:83
Alignment explanation
Indices: 8400209--8400371 Score: 247
Period size: 82 Copynumber: 2.0 Consensus size: 83
8400199 TATATTTTTG
*
8400209 TTTATGTCACATGTTTCATTTATCGGACAAAAACTGTTTGTCTTTTTCGTCTTTGTCATATCCTT
1 TTTATGTCACATGTTTCATTTATC-GACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTT
*
8400274 ATTAACACAATAATGTTTA
65 ATTAACACAAGAATGTTTA
* * * * *
8400293 TTTATGTCACATGTTTCATTTATC-AGAAAAATTGGTTGTCTTTTTCTTCTTTGTCTTATCCTTG
1 TTTATGTCACATGTTTCATTTATCGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTTA
8400357 TTAACACAAGAATGT
66 TTAACACAAGAATGT
8400372 ACAAAAAGGG
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 48 0.67
84 24 0.33
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (83 bp):
TTTATGTCACATGTTTCATTTATCGACAAAAACTGGTTGTCTTTTTCGTCTTTGTCATATCCTTA
TTAACACAAGAATGTTTA
Found at i:8400445 original size:21 final size:21
Alignment explanation
Indices: 8400419--8400466 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
8400409 GGTCAAAAAA
*
8400419 AATATTTTAAATATTATTATT
1 AATATTTTAAATATTAATATT
* * *
8400440 AGTATTTTTATTATTAATATT
1 AATATTTTAAATATTAATATT
8400461 AATATT
1 AATATT
8400467 AAATTGCTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
AATATTTTAAATATTAATATT
Found at i:8401422 original size:22 final size:24
Alignment explanation
Indices: 8401376--8401423 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
8401366 TAACTTTACA
8401376 ATATATTTATTCTTACCTTAATATTT
1 ATATATTTATTCTTA-C-TAATATTT
8401402 ATAT-TTTATTCTTA-TAATATTT
1 ATATATTTATTCTTACTAATATTT
8401424 TAAAATTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
25 10 0.45
26 4 0.18
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (24 bp):
ATATATTTATTCTTACTAATATTT
Found at i:8401467 original size:21 final size:23
Alignment explanation
Indices: 8401441--8401494 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
8401431 AGATAAAAAT
8401441 AAAATAT-ATTTTT-TAGTTAAA
1 AAAATATAATTTTTGTAGTTAAA
8401462 AAAATATAATTTTTGTAGTTAAA
1 AAAATATAATTTTTGTAGTTAAA
*
8401485 ATAAAAATAA
1 A-AAATATAA
8401495 AATATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 7 0.24
22 6 0.21
23 9 0.31
24 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (23 bp):
AAAATATAATTTTTGTAGTTAAA
Found at i:8401471 original size:52 final size:52
Alignment explanation
Indices: 8401414--8401512 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
8401404 ATTTTATTCT
*
8401414 TATAATATTTTAAAATT-AGATAAAAATAAAATATATTTTTTAGTTAAAAAAA
1 TATAAT-TTTTAAAATTAAAATAAAAATAAAATATATTTTTTAGTTAAAAAAA
** *
8401466 TATAATTTTTGTAGTTAAAATAAAAATAAAATATATTTTTTAGTTAA
1 TATAATTTTTAAAATTAAAATAAAAATAAAATATATTTTTTAGTTAA
8401513 GATAAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 7 0.17
52 35 0.83
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (52 bp):
TATAATTTTTAAAATTAAAATAAAAATAAAATATATTTTTTAGTTAAAAAAA
Found at i:8401504 original size:29 final size:31
Alignment explanation
Indices: 8401462--8401520 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
8401452 TTTAGTTAAA
8401462 AAAATATAATTTTTGTAGTTAAAATAAAAAT
1 AAAATATAATTTTTGTAGTTAAAATAAAAAT
*
8401493 AAAATAT-ATTTTT-TAGTTAAGATAAAAA
1 AAAATATAATTTTTGTAGTTAAAATAAAAA
8401521 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 14 0.52
30 6 0.22
31 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAATATAATTTTTGTAGTTAAAATAAAAAT
Found at i:8401522 original size:31 final size:31
Alignment explanation
Indices: 8401462--8401527 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
8401452 TTTAGTTAAA
*
8401462 AAAATATAATTTTTGTAGTTAAAATAAAAAT
1 AAAATATAATTTTTGTAGTTAAAAAAAAAAT
8401493 AAAATAT-ATTTTT-TAGTTAAGATAAAAAAAT
1 AAAATATAATTTTTGTAGTTAA-A-AAAAAAAT
8401524 AAAA
1 AAAA
8401528 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 7 0.22
30 7 0.22
31 18 0.56
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (31 bp):
AAAATATAATTTTTGTAGTTAAAAAAAAAAT
Done.