Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 42
Found at i:8178579 original size:7 final size:7
Alignment explanation
Indices: 8178569--8178606 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
8178559 TCATTTTTTC
8178569 TTCCCTT
1 TTCCCTT
8178576 TTCCCTT
1 TTCCCTT
8178583 TTCCCTT
1 TTCCCTT
8178590 TTCCCTT
1 TTCCCTT
8178597 TTCCCTT
1 TTCCCTT
8178604 TTC
1 TTC
8178607 TTCTTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (7 bp):
TTCCCTT
Found at i:8178632 original size:17 final size:18
Alignment explanation
Indices: 8178610--8178651 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8178600 CCTTTTCTTC
*
8178610 TTTTTCTTTC-TTTTTGT
1 TTTTTCTATCATTTTTGT
*
8178627 TTTTTCCATCATTTTTGT
1 TTTTTCTATCATTTTTGT
8178645 TTTTTCT
1 TTTTTCT
8178652 CATTTTTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTCTATCATTTTTGT
Found at i:8178654 original size:16 final size:18
Alignment explanation
Indices: 8178620--8178658 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8178610 TTTTTCTTTC
8178620 TTTTTGTTTTTTCCATCA
1 TTTTTGTTTTTTCCATCA
8178638 TTTTTGTTTTTT-C-TCA
1 TTTTTGTTTTTTCCATCA
8178654 TTTTT
1 TTTTT
8178659 CTCTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.74
Consensus pattern (18 bp):
TTTTTGTTTTTTCCATCA
Found at i:8178665 original size:16 final size:16
Alignment explanation
Indices: 8178525--8178665 Score: 65
Period size: 16 Copynumber: 8.6 Consensus size: 16
8178515 CCTCCTTTTA
*
8178525 TTTCTCTTTTTTCATT
1 TTTCTCTTTTCTCATT
*
8178541 TTTCTCTTTTTTCATT
1 TTTCTCTTTTCTCATT
* **
8178557 TTTCATTTTTTCTTCCCT
1 TTTC-TCTTTTC-TCATT
* *
8178575 TTTCCCTTTTC-C-CT
1 TTTCTCTTTTCTCATT
* * *
8178589 TTTCCCTTTTCCCTTT
1 TTTCTCTTTTCTCATT
8178605 TCTTCT-TTTTCTTTC-TT
1 T-TTCTCTTTTC--TCATT
* *
8178622 TTTGTTTTTTCCATCATT
1 TTTCTCTTTT-C-TCATT
* *
8178640 TTTGTTTTTTCTCATT
1 TTTCTCTTTTCTCATT
8178656 TTTCTCTTTT
1 TTTCTCTTTT
8178666 ATTTCTTCTT
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
14 13 0.13
15 2 0.02
16 43 0.42
17 23 0.23
18 21 0.21
ACGTcount: A:0.04, C:0.24, G:0.01, T:0.70
Consensus pattern (16 bp):
TTTCTCTTTTCTCATT
Found at i:8187803 original size:45 final size:45
Alignment explanation
Indices: 8187635--8187799 Score: 303
Period size: 45 Copynumber: 3.7 Consensus size: 45
8187625 TTATTCACAA
* *
8187635 AAACCTAACTGCATGATCTCTAATTCGCATACATGTTCGAAAAAT
1 AAACCTAACCGCATGATATCTAATTCGCATACATGTTCGAAAAAT
8187680 AAACCTAACCGCATGATATCTAATTCGCATACATGTTCGAAAAAT
1 AAACCTAACCGCATGATATCTAATTCGCATACATGTTCGAAAAAT
*
8187725 AAACCTAACCGCATGATATCTAATTCGCATGCATGTTCGAAAAAT
1 AAACCTAACCGCATGATATCTAATTCGCATACATGTTCGAAAAAT
8187770 AAACCTAACCGCATGATATCTAATTCGCAT
1 AAACCTAACCGCATGATATCTAATTCGCAT
8187800 GCATTTATTC
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
AAACCTAACCGCATGATATCTAATTCGCATACATGTTCGAAAAAT
Found at i:8193683 original size:252 final size:252
Alignment explanation
Indices: 8193238--8193741 Score: 1008
Period size: 252 Copynumber: 2.0 Consensus size: 252
8193228 TGGACCAGCA
8193238 GTCTGGCTATCAATTAAGCTTAGGATCATTGTTTTCCTCCAGACCTCCAATATCATACAAGTTCC
1 GTCTGGCTATCAATTAAGCTTAGGATCATTGTTTTCCTCCAGACCTCCAATATCATACAAGTTCC
8193303 AATACAAATAGGCGAAAGTGTACTCATTGGTGAAAGTTTGTCTAAAAATAGTCCTCCAGATGTAG
66 AATACAAATAGGCGAAAGTGTACTCATTGGTGAAAGTTTGTCTAAAAATAGTCCTCCAGATGTAG
8193368 AATCTCAGCCTTTGATCATGAACTATCATAATGCAAGCACTTTAAACTATAATAATTACAATGCT
131 AATCTCAGCCTTTGATCATGAACTATCATAATGCAAGCACTTTAAACTATAATAATTACAATGCT
8193433 AGGAGCCTTAGAGATTCTTACTGGAAGTTCCAGTGCACATCTCCTTCAGCATCAGGG
196 AGGAGCCTTAGAGATTCTTACTGGAAGTTCCAGTGCACATCTCCTTCAGCATCAGGG
8193490 GTCTGGCTATCAATTAAGCTTAGGATCATTGTTTTCCTCCAGACCTCCAATATCATACAAGTTCC
1 GTCTGGCTATCAATTAAGCTTAGGATCATTGTTTTCCTCCAGACCTCCAATATCATACAAGTTCC
8193555 AATACAAATAGGCGAAAGTGTACTCATTGGTGAAAGTTTGTCTAAAAATAGTCCTCCAGATGTAG
66 AATACAAATAGGCGAAAGTGTACTCATTGGTGAAAGTTTGTCTAAAAATAGTCCTCCAGATGTAG
8193620 AATCTCAGCCTTTGATCATGAACTATCATAATGCAAGCACTTTAAACTATAATAATTACAATGCT
131 AATCTCAGCCTTTGATCATGAACTATCATAATGCAAGCACTTTAAACTATAATAATTACAATGCT
8193685 AGGAGCCTTAGAGATTCTTACTGGAAGTTCCAGTGCACATCTCCTTCAGCATCAGGG
196 AGGAGCCTTAGAGATTCTTACTGGAAGTTCCAGTGCACATCTCCTTCAGCATCAGGG
8193742 ATACCAGCAT
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
252 252 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (252 bp):
GTCTGGCTATCAATTAAGCTTAGGATCATTGTTTTCCTCCAGACCTCCAATATCATACAAGTTCC
AATACAAATAGGCGAAAGTGTACTCATTGGTGAAAGTTTGTCTAAAAATAGTCCTCCAGATGTAG
AATCTCAGCCTTTGATCATGAACTATCATAATGCAAGCACTTTAAACTATAATAATTACAATGCT
AGGAGCCTTAGAGATTCTTACTGGAAGTTCCAGTGCACATCTCCTTCAGCATCAGGG
Found at i:8195757 original size:51 final size:52
Alignment explanation
Indices: 8195663--8195763 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 52
8195653 AATTTACAAA
* *
8195663 TTAACACTTTAAAATATTTTTTTTTTAAATTTGACACCCCAAAATAAATTTG
1 TTAACACCTCAAAATATTTTTTTTTTAAATTTGACACCCCAAAATAAATTTG
*
8195715 TTAACACCTCAAAATA-TTTTTTTTTAAATTTGACACCTCAAAATAAATT
1 TTAACACCTCAAAATATTTTTTTTTTAAATTTGACACCCCAAAATAAATT
8195764 GTATAACTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 32 0.70
52 14 0.30
ACGTcount: A:0.40, C:0.15, G:0.03, T:0.43
Consensus pattern (52 bp):
TTAACACCTCAAAATATTTTTTTTTTAAATTTGACACCCCAAAATAAATTTG
Found at i:8202165 original size:23 final size:23
Alignment explanation
Indices: 8202139--8202194 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
8202129 CACTATAGTA
*
8202139 CAATTCTACGCGGCACTCCGATG
1 CAATTCTACGCGACACTCCGATG
* * *
8202162 CAATTCTACGTGACACTTCGGTG
1 CAATTCTACGCGACACTCCGATG
*
8202185 CAATTATACG
1 CAATTCTACG
8202195 AGCTGTGGTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (23 bp):
CAATTCTACGCGACACTCCGATG
Found at i:8212796 original size:29 final size:29
Alignment explanation
Indices: 8212763--8212849 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 29
8212753 AAAACTTGGT
8212763 GATAAAGTAAAAACACAATAACGAAAGTA
1 GATAAAGTAAAAACACAATAACGAAAGTA
* * * * **
8212792 GAT-AACT-ACAA-A-GAT-ACAGGACCT-
1 GATAAAGTAAAAACACAATAAC-GAAAGTA
8212816 GATAAAGTAAAAACACAATAACGAAAGTA
1 GATAAAGTAAAAACACAATAACGAAAGTA
8212845 GATAA
1 GATAA
8212850 CTACAAAGAT
Statistics
Matches: 39, Mismatches: 12, Indels: 14
0.60 0.18 0.22
Matches are distributed among these distances:
24 5 0.13
25 8 0.21
26 4 0.10
27 4 0.10
28 8 0.21
29 10 0.26
ACGTcount: A:0.57, C:0.13, G:0.15, T:0.15
Consensus pattern (29 bp):
GATAAAGTAAAAACACAATAACGAAAGTA
Found at i:8212826 original size:53 final size:53
Alignment explanation
Indices: 8212762--8212867 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
8212752 CAAAACTTGG
8212762 TGATAAAGTAAAAACACAATAACGAAAGTAGATAACTACAAAGATACAGGACC
1 TGATAAAGTAAAAACACAATAACGAAAGTAGATAACTACAAAGATACAGGACC
8212815 TGATAAAGTAAAAACACAATAACGAAAGTAGATAACTACAAAGATACAGGACC
1 TGATAAAGTAAAAACACAATAACGAAAGTAGATAACTACAAAGATACAGGACC
8212868 ATTGTGCAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.55, C:0.15, G:0.15, T:0.15
Consensus pattern (53 bp):
TGATAAAGTAAAAACACAATAACGAAAGTAGATAACTACAAAGATACAGGACC
Found at i:8218008 original size:8 final size:8
Alignment explanation
Indices: 8217989--8218032 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
8217979 ATTCTTATTC
*
8217989 TTTAAAAT
1 TTTATAAT
*
8217997 TTTATAAA
1 TTTATAAT
**
8218005 TTTATTTT
1 TTTATAAT
8218013 TTTATAAT
1 TTTATAAT
8218021 TTTATAAT
1 TTTATAAT
8218029 TTTA
1 TTTA
8218033 CTTTGAACGT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATAAT
Found at i:8219505 original size:17 final size:19
Alignment explanation
Indices: 8219466--8219506 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
8219456 TTTAAAAGTA
*
8219466 TAAAATATAAAAATATAAT
1 TAAAATATAAAAATATAAC
*
8219485 TAAAATA-AAAATTA-AAC
1 TAAAATATAAAAATATAAC
8219502 TAAAA
1 TAAAA
8219507 GATGTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAATATAAAAATATAAC
Found at i:8219704 original size:13 final size:14
Alignment explanation
Indices: 8219667--8219704 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
8219657 TATGAACAAA
8219667 AAAATATT-TTATAT
1 AAAATATTATT-TAT
8219681 AAAATATTATTTAT
1 AAAATATTATTTAT
8219695 AAAA-ATTATT
1 AAAATATTATT
8219705 CAATGAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.26
14 15 0.65
15 2 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
AAAATATTATTTAT
Found at i:8220267 original size:23 final size:23
Alignment explanation
Indices: 8220239--8220308 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
8220229 AGTTTGTTTA
* *
8220239 TATGACACGTTTTCATTTATTTT
1 TATGACATGTTTTCATTTATCTT
*
8220262 TATGACATATTTTCATTTATCTT
1 TATGACATGTTTTCATTTATCTT
* * *
8220285 TGTGACATGTTTTCTTTTGTCTT
1 TATGACATGTTTTCATTTATCTT
8220308 T
1 T
8220309 TGGCATATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.19, C:0.13, G:0.10, T:0.59
Consensus pattern (23 bp):
TATGACATGTTTTCATTTATCTT
Found at i:8224333 original size:31 final size:31
Alignment explanation
Indices: 8224295--8224356 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
8224285 GAACCTCGGC
8224295 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
*
8224326 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAAACCTAGGTA
8224357 GACCCTCGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAAACCTAGGTA
Found at i:8232672 original size:21 final size:21
Alignment explanation
Indices: 8232646--8232685 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
8232636 CCCCCTTTGA
*
8232646 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
8232667 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
8232686 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:8236249 original size:31 final size:31
Alignment explanation
Indices: 8236211--8236276 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
8236201 AAGTCGAGGG
8236211 TTACCTATGTCTTTCGAGACATATGGAGAGA
1 TTACCTATGTCTTTCGAGACATATGGAGAGA
*
8236242 TTACCTATGTCTTTCGAGACATATGGATAGA
1 TTACCTATGTCTTTCGAGACATATGGAGAGA
8236273 TTAC
1 TTAC
8236277 ATACGTTGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.35
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAGACATATGGAGAGA
Found at i:8240719 original size:31 final size:30
Alignment explanation
Indices: 8240684--8240744 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
8240674 ATATTTAAGG
*
8240684 TTAAAATAAATATATAAAGTTATTTTTTTAA
1 TTAAAATAAATATATAAA-TAATTTTTTTAA
* *
8240715 TTAAAATAGATATTTAAATAATTTTTTTAA
1 TTAAAATAAATATATAAATAATTTTTTTAA
8240745 AAATTAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTAAAATAAATATATAAATAATTTTTTTAA
Found at i:8254223 original size:69 final size:69
Alignment explanation
Indices: 8254142--8254281 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
8254132 TGTTTGACAT
8254142 AAGAGTTCACTTCATTAATTTGTCTTTGAGATTTGTTTGTGGAAATTATGGCTATTTATCCTGTT
1 AAGAGTTCACTTCATTAATTTGTCTTTGAGATTTGTTTGTGGAAATTATGGCTATTTATCCTGTT
8254207 CTGG
66 CTGG
*
8254211 AAGAGTTTACTTCATTAATTTGTCTTTGAGATTTGTTTGTGGAAATTATGGCTATTTATCCTGTT
1 AAGAGTTCACTTCATTAATTTGTCTTTGAGATTTGTTTGTGGAAATTATGGCTATTTATCCTGTT
8254276 CTGG
66 CTGG
8254280 AA
1 AA
8254282 TTGTGTTCAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.46
Consensus pattern (69 bp):
AAGAGTTCACTTCATTAATTTGTCTTTGAGATTTGTTTGTGGAAATTATGGCTATTTATCCTGTT
CTGG
Found at i:8254766 original size:17 final size:18
Alignment explanation
Indices: 8254722--8254768 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8254712 TACATATTAT
8254722 TAATATAAAATACAAATAA
1 TAATATAAAATA-AAATAA
* * *
8254741 AAATCTAAAAT-ATATAA
1 TAATATAAAATAAAATAA
8254758 TAATATAAAAT
1 TAATATAAAAT
8254769 TTTAAAGAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 14 0.61
19 9 0.39
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATATAAAATAAAATAA
Found at i:8256504 original size:15 final size:15
Alignment explanation
Indices: 8256486--8256549 Score: 64
Period size: 15 Copynumber: 4.5 Consensus size: 15
8256476 TTTTCATATC
8256486 AATAATTTTTATTTA
1 AATAATTTTTATTTA
*
8256501 AAT-A-TATTA-TT-
1 AATAATTTTTATTTA
* *
8256512 GATGAATTTTTATATA
1 AAT-AATTTTTATTTA
8256528 AATAATTTTTATTTA
1 AATAATTTTTATTTA
8256543 AATAATT
1 AATAATT
8256550 AGAATTTCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
11 2 0.05
12 2 0.05
13 5 0.13
14 5 0.13
15 22 0.58
16 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
AATAATTTTTATTTA
Found at i:8256504 original size:42 final size:42
Alignment explanation
Indices: 8256457--8256550 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
8256447 AATAATAAAA
*
8256457 TAAATATATTATCGATAAATTTTCATATCAATAATTTTTATT
1 TAAATATATTATCGATAAATTTTCATATAAATAATTTTTATT
* * *
8256499 TAAATATATTATTGATGAATTTTTATATAAATAATTTTTATT
1 TAAATATATTATCGATAAATTTTCATATAAATAATTTTTATT
8256541 TAAATA-ATTA
1 TAAATATATTA
8256551 GAATTTCACT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (42 bp):
TAAATATATTATCGATAAATTTTCATATAAATAATTTTTATT
Found at i:8258497 original size:9 final size:9
Alignment explanation
Indices: 8258477--8258507 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
8258467 AATTTTCTAA
8258477 TAAATA-AT
1 TAAATATAT
8258485 TAAATATAT
1 TAAATATAT
8258494 TAAATATAT
1 TAAATATAT
8258503 TAAAT
1 TAAAT
8258508 TACTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.27
9 16 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAATATAT
Found at i:8258764 original size:16 final size:16
Alignment explanation
Indices: 8258728--8258758 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8258718 TTTGATGAAT
8258728 TTAACGAGCAACGAGC
1 TTAACGAGCAACGAGC
8258744 TTAACGAGCAACGAG
1 TTAACGAGCAACGAG
8258759 TCTAACAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.13
Consensus pattern (16 bp):
TTAACGAGCAACGAGC
Found at i:8258812 original size:30 final size:31
Alignment explanation
Indices: 8258762--8258821 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
8258752 CAACGAGTCT
* *
8258762 AACAACAAACTTTCTTAACAAGCACAAATCG
1 AACAACAAAATTTCTTAACAAACACAAATCG
8258793 AACAACAAAATTT-TTAACAAACACAAATC
1 AACAACAAAATTTCTTAACAAACACAAATC
8258822 AAATATTGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.53, C:0.23, G:0.03, T:0.20
Consensus pattern (31 bp):
AACAACAAAATTTCTTAACAAACACAAATCG
Found at i:8261100 original size:13 final size:13
Alignment explanation
Indices: 8261082--8261107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8261072 TTTTAAAATA
8261082 ATATATTATATTT
1 ATATATTATATTT
8261095 ATATATTATATTT
1 ATATATTATATTT
8261108 TAAACTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATATTATATTT
Found at i:8261116 original size:28 final size:27
Alignment explanation
Indices: 8261084--8261187 Score: 91
Period size: 28 Copynumber: 3.7 Consensus size: 27
8261074 TTAAAATAAT
*
8261084 ATATTATATTTATATATTATATTTTAA
1 ATATTAAATTTATATATTATATTTTAA
* * **
8261111 ACTATTAAATTAATATATTTTATAATAA
1 A-TATTAAATTTATATATTATATTTTAA
* * *
8261139 TGTATTTATAATGTATTTATTATATTTTAA
1 -ATA-TTA-AATTTATATATTATATTTTAA
8261169 ATGATTAAATTTATATATT
1 AT-ATTAAATTTATATATT
8261188 TTATAATATT
Statistics
Matches: 57, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.02
28 33 0.58
29 7 0.12
30 16 0.28
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (27 bp):
ATATTAAATTTATATATTATATTTTAA
Found at i:8261134 original size:30 final size:29
Alignment explanation
Indices: 8261094--8261192 Score: 71
Period size: 30 Copynumber: 3.4 Consensus size: 29
8261084 ATATTATATT
*
8261094 TATATATTATATTTTAAACTATTAAATTAA
1 TATATTTTATATTTTAAA-TATTAAATTAA
* * *
8261124 TATATTTTATA--ATAATGTATT-TA-TAA
1 TATATTTTATATTTTAA-ATATTAAATTAA
* *
8261150 TGTATTTATTATATTTTAAATGATTAAATTTA
1 TATA-TT-TTATATTTTAAAT-ATTAAATTAA
8261182 TATATTTTATA
1 TATATTTTATA
8261193 ATATTTTTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
26 6 0.12
27 3 0.06
28 12 0.24
29 1 0.02
30 21 0.41
31 3 0.06
32 5 0.10
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (29 bp):
TATATTTTATATTTTAAATATTAAATTAA
Found at i:8261169 original size:58 final size:56
Alignment explanation
Indices: 8261071--8261195 Score: 171
Period size: 58 Copynumber: 2.2 Consensus size: 56
8261061 ATATATGAAA
* *
8261071 ATTTTAAAATAATATATTATATTTATATATTATATTTTAAACT-ATTAAATTAATAT
1 ATTTTATAATAATATATTATATGTATATATTATATTTTAAA-TGATTAAATTAATAT
* * *
8261127 ATTTTATAATAATGTATTTATAATGTATTTATTATATTTTAAATGATTAAATTTATAT
1 ATTTTATAATAATATA-TTAT-ATGTATATATTATATTTTAAATGATTAAATTAATAT
8261185 ATTTTATAATA
1 ATTTTATAATA
8261196 TTTTTATTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 14 0.23
57 5 0.08
58 42 0.69
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (56 bp):
ATTTTATAATAATATATTATATGTATATATTATATTTTAAATGATTAAATTAATAT
Found at i:8261213 original size:20 final size:20
Alignment explanation
Indices: 8261178--8261216 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8261168 AATGATTAAA
8261178 TTTATATATTTTATAATATT
1 TTTATATATTTTATAATATT
8261198 TTTAT-TATTTTAATAATAT
1 TTTATATATTTT-ATAATAT
8261217 AACAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTATATATTTTATAATATT
Found at i:8261687 original size:21 final size:21
Alignment explanation
Indices: 8261663--8261704 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8261653 CATCCAAGAA
8261663 TGGATGGAATTCAATTCCCTT
1 TGGATGGAATTCAATTCCCTT
8261684 TGGATGGAATTCAATTCCCTT
1 TGGATGGAATTCAATTCCCTT
8261705 GTTGGAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
TGGATGGAATTCAATTCCCTT
Found at i:8262091 original size:27 final size:27
Alignment explanation
Indices: 8262060--8262126 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
8262050 TTTGTTCGGG
8262060 TCGGGTCGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
* *
8262087 TCGGGTCAGGTTTTTTAAGTGTTATAT
1 TCGGGTCGGGTTTTTTAAGTGTGATAT
8262114 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
8262127 AGGGTGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.13, C:0.09, G:0.33, T:0.45
Consensus pattern (27 bp):
TCGGGTCGGGTTTTTTAAGTGTGATAT
Found at i:8263224 original size:12 final size:12
Alignment explanation
Indices: 8263209--8263246 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
8263199 GTTATTTAAA
8263209 CGGGTATTGGGC
1 CGGGTATTGGGC
*
8263221 CGGGTATTGGGT
1 CGGGTATTGGGC
*
8263233 CAGGTATTGGGC
1 CGGGTATTGGGC
8263245 CG
1 CG
8263247 AGAATCGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.11, C:0.16, G:0.47, T:0.26
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:8263256 original size:24 final size:24
Alignment explanation
Indices: 8263211--8263263 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8263201 TATTTAAACG
* * *
8263211 GGTATTGGGCCGGGTATTGGGTCA
1 GGTATTGGGCCGAGAATCGGGTCA
*
8263235 GGTATTGGGCCGAGAATCGGGTCG
1 GGTATTGGGCCGAGAATCGGGTCA
8263259 GGTAT
1 GGTAT
8263264 ATATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.45, T:0.26
Consensus pattern (24 bp):
GGTATTGGGCCGAGAATCGGGTCA
Found at i:8263929 original size:13 final size:13
Alignment explanation
Indices: 8263873--8263916 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
8263863 TTTAATATTT
*
8263873 ATCGGGTCGGGT-
1 ATCGGGGCGGGTA
8263885 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
8263898 ATCGGGGCGGGTA
1 ATCGGGGCGGGTA
8263911 ATCGGG
1 ATCGGG
8263917 TAATCGGGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.14, C:0.16, G:0.52, T:0.18
Consensus pattern (13 bp):
ATCGGGGCGGGTA
Found at i:8264692 original size:21 final size:21
Alignment explanation
Indices: 8264667--8264706 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
8264657 ATTTTTTAAA
8264667 TTTCTTTATAT-TTTATATTTT
1 TTTCTTTATATCTTT-TATTTT
8264688 TTTCTTTATATCTTTTATT
1 TTTCTTTATATCTTTTATT
8264707 GATAAATCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTATATCTTTTATTTT
Found at i:8274919 original size:20 final size:20
Alignment explanation
Indices: 8274773--8275028 Score: 101
Period size: 20 Copynumber: 12.3 Consensus size: 20
8274763 ATGACCAATA
*
8274773 AATTCGCAACGCGAACTCC-
1 AATTCGCAACGCGAATTCCT
* *
8274792 AATTTCGCAACTC-AAGTTCCA
1 AA-TTCGCAACGCGAA-TTCCT
* *
8274813 AAATCGCAACGCGAATAT-GT
1 AATTCGCAACGCGAAT-TCCT
* * * *
8274833 AAATCGCAACACAGAAGT-CA
1 AATTCGCAACGC-GAATTCCT
* *
8274853 AATTCGCAACAAG-GAATTTCA
1 AATTCGCAAC--GCGAATTCCT
* *
8274874 AATTCGCAACGCGGACTCC-
1 AATTCGCAACGCGAATTCCT
* *
8274893 AATTTCGCAACGCGATTTTCT
1 AA-TTCGCAACGCGAATTCCT
* *
8274914 AATTCGCGACGCTAATTCCT
1 AATTCGCAACGCGAATTCCT
* *
8274934 AATTCGCGATTCGCAACGCGATTTTCCA
1 -A------ATTCGCAACGCGA-ATTCCT
* * *
8274962 AATTCGCAATGCGATTTTCT
1 AATTCGCAACGCGAATTCCT
* *
8274982 AATTCGCGACGCTAATTCCT
1 AATTCGCAACGCGAATTCCT
* *
8275002 AATTCGCGACGCTAATTCCT
1 AATTCGCAACGCGAATTCCT
8275022 AATTCGC
1 AATTCGC
8275029 GATTCACAAC
Statistics
Matches: 181, Mismatches: 36, Indels: 39
0.71 0.14 0.15
Matches are distributed among these distances:
19 7 0.04
20 123 0.68
21 35 0.19
27 12 0.07
28 4 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (20 bp):
AATTCGCAACGCGAATTCCT
Found at i:8274968 original size:21 final size:20
Alignment explanation
Indices: 8274942--8274993 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
8274932 CTAATTCGCG
8274942 ATTCGCAACGCGATTTTCCAA
1 ATTCGCAACGCGATTTT-CAA
* *
8274963 ATTCGCAATGCGATTTTCTA
1 ATTCGCAACGCGATTTTCAA
*
8274983 ATTCGCGACGC
1 ATTCGCAACGC
8274994 TAATTCCTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (20 bp):
ATTCGCAACGCGATTTTCAA
Found at i:8274986 original size:48 final size:47
Alignment explanation
Indices: 8274896--8274990 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 47
8274886 GGACTCCAAT
* * *
8274896 TTCGCAACGCGATTTTCTAATTCGCGACGCTAATTCCTAATTCGCGA
1 TTCGCAACGCGATTTTCAAATTCGCAACGCGAATTCCTAATTCGCGA
* * *
8274943 TTCGCAACGCGATTTTCCAAATTCGCAATGCGATTTTCTAATTCGCGA
1 TTCGCAACGCGATTTT-CAAATTCGCAACGCGAATTCCTAATTCGCGA
8274991 CGCTAATTCC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
47 16 0.39
48 25 0.61
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (47 bp):
TTCGCAACGCGATTTTCAAATTCGCAACGCGAATTCCTAATTCGCGA
Found at i:8275029 original size:20 final size:20
Alignment explanation
Indices: 8274912--8275030 Score: 103
Period size: 20 Copynumber: 5.5 Consensus size: 20
8274902 ACGCGATTTT
8274912 CTAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTC
*
8274932 CTAATTCGCGATTCGCAACGCGATTTTC
1 CTAATTCGCGA--CGCTA----A--TTC
* * * * * *
8274960 CAAATTCGCAATGCGATTTT
1 CTAATTCGCGACGCTAATTC
8274980 CTAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTC
8275000 CTAATTCGCGACGCTAATTC
1 CTAATTCGCGACGCTAATTC
8275020 CTAATTCGCGA
1 CTAATTCGCGA
8275031 TTCACAACAC
Statistics
Matches: 78, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
20 58 0.74
22 4 0.05
26 4 0.05
28 12 0.15
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (20 bp):
CTAATTCGCGACGCTAATTC
Found at i:8275072 original size:20 final size:20
Alignment explanation
Indices: 8275049--8275092 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8275039 ACAATTTTGT
8275049 AATTCAGAATTAGCATCGCG
1 AATTCAGAATTAGCATCGCG
* *
8275069 AATTCGGAATTAGCGTCGCG
1 AATTCAGAATTAGCATCGCG
8275089 AATT
1 AATT
8275093 TGGAAAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (20 bp):
AATTCAGAATTAGCATCGCG
Found at i:8275097 original size:20 final size:20
Alignment explanation
Indices: 8275055--8275207 Score: 83
Period size: 20 Copynumber: 7.2 Consensus size: 20
8275045 TTGTAATTCA
* *
8275055 GAATTAGCATCGCGAATTCG
1 GAATTAGCGTCGCGAATTTG
8275075 GAATTAGCGTCGCGAATTTG
1 GAATTAGCGTCGCGAATTTG
* *
8275095 GAAAATCGCGTTGCGAATCGCGAATTAG
1 G--AAT----TAGCG--TCGCGAATTTG
*
8275123 GAATTAGCGTCGCGAATTAG
1 GAATTAGCGTCGCGAATTTG
* * *
8275143 AAAATCA-CGTTGCGAATTTG
1 -GAATTAGCGTCGCGAATTTG
* *
8275163 GAATTAGCGTCGCAAAATTG
1 GAATTAGCGTCGCGAATTTG
* * **
8275183 GAGTTCGCGTTTCGAATTTG
1 GAATTAGCGTCGCGAATTTG
*
8275203 AAATT
1 GAATT
8275208 TCGTGTTGTT
Statistics
Matches: 101, Mismatches: 22, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
19 4 0.04
20 68 0.67
21 4 0.04
22 7 0.07
26 7 0.07
28 11 0.11
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (20 bp):
GAATTAGCGTCGCGAATTTG
Found at i:8275169 original size:47 final size:48
Alignment explanation
Indices: 8275063--8275159 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
8275053 CAGAATTAGC
* * *
8275063 ATCGCGAATTCGGAATTAGCGTCGCGAATTTGGAAAATCGCGTTGCGA
1 ATCGCGAATTAGGAATTAGCGTCGCGAATTTAGAAAATCACGTTGCGA
8275111 ATCGCGAATTAGGAATTAGCGTCGCGAA-TTAGAAAATCACGTTGCGA
1 ATCGCGAATTAGGAATTAGCGTCGCGAATTTAGAAAATCACGTTGCGA
8275158 AT
1 AT
8275160 TTGGAATTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 19 0.41
48 27 0.59
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (48 bp):
ATCGCGAATTAGGAATTAGCGTCGCGAATTTAGAAAATCACGTTGCGA
Found at i:8275244 original size:20 final size:20
Alignment explanation
Indices: 8275216--8275304 Score: 169
Period size: 20 Copynumber: 4.5 Consensus size: 20
8275206 TTTCGTGTTG
*
8275216 TTCCTAATTCGCGACGCTAA
1 TTCCGAATTCGCGACGCTAA
8275236 TTCCGAATTCGCGACGCTAA
1 TTCCGAATTCGCGACGCTAA
8275256 TTCCGAATTCGCGACGCTAA
1 TTCCGAATTCGCGACGCTAA
8275276 TTCCGAATTCGCGACGCTAA
1 TTCCGAATTCGCGACGCTAA
8275296 TTCCGAATT
1 TTCCGAATT
8275305 ACAAAATCGC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (20 bp):
TTCCGAATTCGCGACGCTAA
Found at i:8275322 original size:20 final size:20
Alignment explanation
Indices: 8275299--8275384 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
8275289 ACGCTAATTC
*
8275299 CGAATTACAAAATCGCGTTG
1 CGAATTAGAAAATCGCGTTG
* * * *
8275319 CGAATTAGGAATTAGCGTCG
1 CGAATTAGAAAATCGCGTTG
*
8275339 CGAATTAGAAAATCGCATTG
1 CGAATTAGAAAATCGCGTTG
* **
8275359 CGAATTTGGAAAATCATGTTG
1 CGAA-TTAGAAAATCGCGTTG
8275380 CGAAT
1 CGAAT
8275385 CGCGAATTAG
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 35 0.69
21 16 0.31
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (20 bp):
CGAATTAGAAAATCGCGTTG
Found at i:8275432 original size:20 final size:20
Alignment explanation
Indices: 8275387--8275425 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8275377 TTGCGAATCG
* *
8275387 CGAATTAGGAATTAGCGTCA
1 CGAATTAGGAATTAACGCCA
8275407 CGAATTAGGAATTAACGCC
1 CGAATTAGGAATTAACGCC
8275426 GTGAATTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (20 bp):
CGAATTAGGAATTAACGCCA
Found at i:8275508 original size:20 final size:20
Alignment explanation
Indices: 8275459--8275592 Score: 99
Period size: 20 Copynumber: 6.6 Consensus size: 20
8275449 GAAATTAGAG
*
8275459 TTCGCGTTGCGAATTT-TAAA
1 TTCGCGTTGCG-ATTTACAAA
* *
8275479 TTCCGTGTTGCGATTTATAAA
1 TT-CGCGTTGCGATTTACAAA
*
8275500 TTCGCGTTGCGATTTACATA
1 TTCGCGTTGCGATTTACAAA
*** *
8275520 TTATAGTTGCGATTTACATA
1 TTCGCGTTGCGATTTACAAA
** **
8275540 TTATCGTTGCGATTTACCTA
1 TTCGCGTTGCGATTTACAAA
* *
8275560 TTTGCGTTGCGAATTTATAAA
1 TTCGCGTTGCG-ATTTACAAA
*
8275581 ATCGCGTTGCGA
1 TTCGCGTTGCGA
8275593 GTTTGGAACC
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
20 66 0.69
21 29 0.31
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (20 bp):
TTCGCGTTGCGATTTACAAA
Found at i:8275548 original size:40 final size:40
Alignment explanation
Indices: 8275485--8275592 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 40
8275475 TAAATTCCGT
* *
8275485 GTTGCGATTTATAAATTCGCGTTGCGATTTACATATTATA
1 GTTGCGATTTACAAATTAGCGTTGCGATTTACATATTATA
* * * *
8275525 GTTGCGATTTACATATTATCGTTGCGATTTACCTATT-TGC
1 GTTGCGATTTACAAATTAGCGTTGCGATTTACATATTAT-A
* * *
8275565 GTTGCGAATTTATAAAATCGCGTTGCGA
1 GTTGCG-ATTTACAAATTAGCGTTGCGA
8275593 GTTTGGAACC
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.02
40 38 0.69
41 16 0.29
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (40 bp):
GTTGCGATTTACAAATTAGCGTTGCGATTTACATATTATA
Found at i:8281010 original size:3 final size:3
Alignment explanation
Indices: 8281002--8281040 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
8280992 AACAGAGACT
8281002 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
8281041 GAGACTCAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:8286909 original size:20 final size:21
Alignment explanation
Indices: 8286854--8286910 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
8286844 TATATTAGTG
* *
8286854 AAATATATTCTTTAATTATTA
1 AAATATATTATTTTATTATTA
* **
8286875 AAA-ATATAAAGTTATTA-TA
1 AAATATATTATTTTATTATTA
8286894 AAATATATTATTTTATT
1 AAATATATTATTTTATT
8286911 TATTTTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 5 0.19
20 19 0.70
21 3 0.11
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATATATTATTTTATTATTA
Found at i:8287813 original size:60 final size:60
Alignment explanation
Indices: 8287742--8287869 Score: 186
Period size: 60 Copynumber: 2.1 Consensus size: 60
8287732 AACATAATGG
* * * *
8287742 ATAGTCGGGTGACCATTTTGTAACTTTTAATAGTCGAGGAACTCAACAAAGTAACA-CTCT
1 ATAGTCGGGTGACCATTTTATAACTTTTAATAATCAAGGAACTCAACAAAGTAAAATC-CT
* *
8287802 ATAGTCGGGTGACCATTTTATAACTTTTAATAATCAAGGAACTTAATAAAGTAAAATCCT
1 ATAGTCGGGTGACCATTTTATAACTTTTAATAATCAAGGAACTCAACAAAGTAAAATCCT
8287862 ATAGTCGG
1 ATAGTCGG
8287870 AAACCAATTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 60 0.98
61 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (60 bp):
ATAGTCGGGTGACCATTTTATAACTTTTAATAATCAAGGAACTCAACAAAGTAAAATCCT
Found at i:8293989 original size:32 final size:32
Alignment explanation
Indices: 8293953--8294014 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8293943 CATCTATTTT
8293953 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
8293985 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
8294015 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:8300000 original size:2 final size:2
Alignment explanation
Indices: 8299993--8300021 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8299983 TTCCAAAGAC
8299993 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
8300022 CCTAATAACT
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:8303496 original size:22 final size:20
Alignment explanation
Indices: 8303448--8303501 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 20
8303438 AAGCTTTCAT
8303448 TTATTATTATTTTTTAAAAA
1 TTATTATTATTTTTTAAAAA
*
8303468 TGT-TTATTCATTTTTCTAATAA
1 T-TATTATT-ATTTTT-TAAAAA
8303490 TTATTATT-TTTT
1 TTATTATTATTTT
8303502 ACCTCATTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
20 10 0.34
21 8 0.28
22 11 0.38
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATTATTATTTTTTAAAAA
Found at i:8310198 original size:12 final size:12
Alignment explanation
Indices: 8310181--8310232 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 12
8310171 TTTTTACTTC
8310181 TTTATTATTATA
1 TTTATTATTATA
8310193 TTTATTTACATTAT-
1 TTTA-TT--ATTATA
*
8310207 TTTTTTATT-TA
1 TTTATTATTATA
8310218 TTTATTATTATA
1 TTTATTATTATA
8310230 TTT
1 TTT
8310233 TTTCCTCCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
10 1 0.03
11 11 0.33
12 9 0.27
13 4 0.12
14 3 0.09
15 5 0.15
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTATTATA
Found at i:8310215 original size:21 final size:22
Alignment explanation
Indices: 8310182--8310235 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
8310172 TTTTACTTCT
* *
8310182 TTATTATTATATTTATTTA-CA
1 TTATTTTTTTATTTATTTATCA
*
8310203 TTATTTTTTTATTTATTTATTA
1 TTATTTTTTTATTTATTTATCA
8310225 TTATATTTTTT
1 TTAT-TTTTTT
8310236 CCTCCCTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 17 0.61
22 5 0.18
23 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (22 bp):
TTATTTTTTTATTTATTTATCA
Found at i:8310408 original size:15 final size:14
Alignment explanation
Indices: 8310366--8310403 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
8310356 TATATATATA
8310366 TATTTTC-TTATTT
1 TATTTTCATTATTT
8310379 TATTTTCATTATTT
1 TATTTTCATTATTT
8310393 T-TTTT-ATTATT
1 TATTTTCATTATT
8310404 ATTTTACATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 6 0.25
13 11 0.46
14 7 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTCATTATTT
Found at i:8321968 original size:105 final size:105
Alignment explanation
Indices: 8321786--8322370 Score: 1125
Period size: 105 Copynumber: 5.6 Consensus size: 105
8321776 AGGTTTTACC
8321786 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
8321851 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
8321891 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
8321956 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
8321996 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
8322061 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
8322101 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
8322166 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAACTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
8322206 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
8322271 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
* *
8322311 CAGAGCCAATTTCAACTTCACAACGAAGGTTATTGGACTCCAGACAATGCAAGTTCAACT
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
8322371 CAACCTCATG
Statistics
Matches: 474, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 474 1.00
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGCTTGTCAACAAACATTTCTCAATTT
Found at i:8323781 original size:2 final size:2
Alignment explanation
Indices: 8323770--8323803 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8323760 ACTTATATGT
*
8323770 TA TA -A TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8323804 GTACACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8324080 original size:19 final size:21
Alignment explanation
Indices: 8324056--8324096 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
8324046 TATTATTATA
8324056 TTTATTTA-CATTAT-TTTTT
1 TTTATTTATCATTATATTTTT
*
8324075 TTTATTTATTATTATATTTTT
1 TTTATTTATCATTATATTTTT
8324096 T
1 T
8324097 CCTCCCTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTATTTATCATTATATTTTT
Found at i:8324252 original size:14 final size:14
Alignment explanation
Indices: 8324226--8324268 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8324216 TATATATATA
8324226 TATTTTC-TTATTT
1 TATTTTCATTATTT
8324239 TATTTTCATTATTT
1 TATTTTCATTATTT
*
8324253 T-TTTATTATTATTT
1 TATTT-TCATTATTT
8324267 TA
1 TA
8324269 CATGTACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTCATTATTT
Found at i:8326498 original size:15 final size:15
Alignment explanation
Indices: 8326462--8326521 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
8326452 TATGTATCAT
*
8326462 TTAAAATTAATTGTA
1 TTAAAATTAATTTTA
*
8326477 -AAAAATTAATTTTA
1 TTAAAATTAATTTTA
*
8326491 TTAAAATTTATTTATA
1 TTAAAATTAATTT-TA
8326507 TATAAAATATAATTT
1 T-TAAAAT-TAATTT
8326522 ATTTATTAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.33
15 10 0.28
16 3 0.08
17 6 0.17
18 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
TTAAAATTAATTTTA
Found at i:8329447 original size:2 final size:2
Alignment explanation
Indices: 8329440--8329501 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
8329430 TGGTTAACTA
8329440 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
8329482 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
8329502 TTGAATATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8330704 original size:27 final size:27
Alignment explanation
Indices: 8330674--8330726 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
8330664 TCACTTCCTC
*
8330674 CAATCTTTTAAAATCTATAATTTAGTT
1 CAATCTTTTAAAATCTAAAATTTAGTT
*
8330701 CAATCTTTTAAAATTTAAAATTTAGT
1 CAATCTTTTAAAATCTAAAATTTAGT
8330727 CTTTAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
CAATCTTTTAAAATCTAAAATTTAGTT
Found at i:8330889 original size:2 final size:2
Alignment explanation
Indices: 8330882--8330921 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8330872 TATTTGGTTA
8330882 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
8330922 GTCAATTTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8337902 original size:20 final size:20
Alignment explanation
Indices: 8337808--8338123 Score: 316
Period size: 20 Copynumber: 15.4 Consensus size: 20
8337798 GATTTTCCAT
* ** *
8337808 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
8337828 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
8337848 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8337868 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
8337888 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
8337908 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8337928 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
8337948 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8337968 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
8337988 AATCGCAACGCGTAATGCGTATCCGTA
1 AATCGCAA--C-----GCGTATCCGTA
8338015 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
8338035 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
8338055 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
8338075 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
8338095 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
8338115 AATCACAAC
1 AATCGCAAC
8338124 ACTTAAATTT
Statistics
Matches: 251, Mismatches: 30, Indels: 30
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.01
20 225 0.90
21 3 0.01
22 1 0.00
25 1 0.00
27 18 0.07
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:8338063 original size:87 final size:87
Alignment explanation
Indices: 8337914--8338084 Score: 265
Period size: 87 Copynumber: 2.0 Consensus size: 87
8337904 GGTAAATCGC
* * *
8337914 AATGCGTATCCGTATATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAACTGCAACGT
1 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCATATCCGTAAACTGCAACGA
*
8337979 GTATCCGTAAATCGCAACGCGT
66 GAATCCGTAAATCGCAACGCGT
8338001 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTAAA-TCGCAAC
1 AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCAT-ATCCGTAAACT-GCAAC
*
8338064 GAGAATCTGTAAATCGCAACG
64 GAGAATCCGTAAATCGCAACG
8338085 ATAATCCGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
86 2 0.03
87 75 0.97
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (87 bp):
AATGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCATATCCGTAAACTGCAACGA
GAATCCGTAAATCGCAACGCGT
Found at i:8338845 original size:24 final size:24
Alignment explanation
Indices: 8338806--8338852 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
8338796 AAATTTGGTC
8338806 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
8338830 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
8338853 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:8339044 original size:12 final size:12
Alignment explanation
Indices: 8339027--8339051 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8339017 ATATAATCCT
8339027 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8339039 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8339051 G
1 G
8339052 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:8341357 original size:19 final size:19
Alignment explanation
Indices: 8341335--8341646 Score: 430
Period size: 19 Copynumber: 17.4 Consensus size: 19
8341325 CGGAAAATAC
*
8341335 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8341354 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
8341368 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
8341388 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
8341402 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341421 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
8341440 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
8341454 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
8341473 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341492 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341511 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341530 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341549 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341568 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341587 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
8341601 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341620 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
8341639 AATCGCAA
1 AATCGCAA
8341647 CGAGATAATC
Statistics
Matches: 264, Mismatches: 8, Indels: 42
0.84 0.03 0.13
Matches are distributed among these distances:
14 38 0.14
15 1 0.00
16 14 0.05
17 12 0.05
18 2 0.01
19 184 0.70
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:8341450 original size:52 final size:55
Alignment explanation
Indices: 8341363--8341646 Score: 394
Period size: 52 Copynumber: 5.2 Consensus size: 55
8341353 AAATCCCAAC
*
8341363 ATGAAAATCGCAATGCGGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
8341416 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGACA-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGA-ATGAAAATCGCAATGCGAA
*
8341468 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
8341525 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
8341582 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATGCGAA
8341634 ATGAAAATCGCAA
1 ATGAAAATCGCAA
8341647 CGAGATAATC
Statistics
Matches: 221, Mismatches: 2, Indels: 17
0.92 0.01 0.07
Matches are distributed among these distances:
52 109 0.49
53 16 0.07
54 6 0.03
55 7 0.03
57 83 0.38
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (55 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATGCGAA
Found at i:8341647 original size:52 final size:55
Alignment explanation
Indices: 8341335--8341668 Score: 386
Period size: 52 Copynumber: 6.3 Consensus size: 55
8341325 CGGAAAATAC
* *
8341335 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GC-GAAATG-A
*
8341388 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
* *
8341440 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
8341492 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-GCGAAATG-A
8341549 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
*
8341601 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
8341653 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
8341669 TATAAACGCA
Statistics
Matches: 262, Mismatches: 6, Indels: 27
0.89 0.02 0.09
Matches are distributed among these distances:
48 9 0.03
49 1 0.00
50 1 0.00
51 2 0.01
52 129 0.49
53 24 0.09
54 7 0.03
55 6 0.02
57 83 0.32
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.15
Consensus pattern (55 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAGCGAAATGA
Found at i:8341784 original size:19 final size:19
Alignment explanation
Indices: 8341675--8341776 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
8341665 AAATTATAAA
8341675 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
8341694 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
8341714 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
8341730 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
8341747 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
8341766 CGCATTGCGAT
1 CGCATTGCGAT
8341777 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:8341902 original size:14 final size:14
Alignment explanation
Indices: 8341883--8341919 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8341873 CATCAATTAC
8341883 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8341897 ACAAATCATCTTTT
1 ACAAATCAACTTTT
8341911 ACAAATCAA
1 ACAAATCAA
8341920 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8343896 original size:14 final size:14
Alignment explanation
Indices: 8343877--8343933 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8343867 GCGAAATGAA
*
8343877 AATCGCAACGACAG
1 AATCGCAACGAAAG
8343891 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
8343908 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
8343924 AATCGCAACG
1 AATCGCAACG
8343934 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:8343904 original size:33 final size:33
Alignment explanation
Indices: 8343858--8343950 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
8343848 GCGAAACCAA
*
8343858 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
8343891 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
8343924 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
8343951 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:8343915 original size:19 final size:19
Alignment explanation
Indices: 8343821--8343955 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
8343811 TAGTTTACTT
* *
8343821 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
8343841 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
8343860 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
8343879 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
8343893 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
8343912 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
8343926 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
8343945 TCGCAATGCGA
1 TCGCAACGCGA
8343956 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:8343973 original size:19 final size:19
Alignment explanation
Indices: 8343951--8344079 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
8343941 AAAATCGCAA
8343951 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
8343970 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
8343984 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
8344003 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
8344017 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
8344036 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
8344055 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
8344075 TGCGA
1 TGCGA
8344080 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:8343993 original size:33 final size:33
Alignment explanation
Indices: 8343951--8344042 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
8343941 AAAATCGCAA
8343951 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
8343984 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
8344017 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
8344043 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:8344413 original size:93 final size:93
Alignment explanation
Indices: 8344123--8344593 Score: 903
Period size: 93 Copynumber: 5.1 Consensus size: 93
8344113 TTGAATGGAT
8344123 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344188 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
8344216 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344279 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
8344307 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344372 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
8344400 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344464 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
8344492 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
8344557 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
8344585 AAATTTACT
1 AAATTTACT
8344594 AAGCAATCTA
Statistics
Matches: 372, Mismatches: 3, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 87 0.23
92 99 0.27
93 186 0.50
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:8344432 original size:184 final size:185
Alignment explanation
Indices: 8344123--8344593 Score: 917
Period size: 185 Copynumber: 2.6 Consensus size: 185
8344113 TTGAATGGAT
8344123 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344188 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
8344252 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
8344307 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
8344372 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
8344437 TATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
8344492 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
8344557 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
8344594 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
184 127 0.45
185 157 0.55
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:8346319 original size:14 final size:14
Alignment explanation
Indices: 8346300--8346389 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
8346290 TTGAAATGAA
8346300 AATCGCAACGAGAG
1 AATCGCAACGAGAG
8346314 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
8346331 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
8346347 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
8346366 AATCGCAACGAGAG
1 AATCGCAACGAGAG
8346380 AATCGCAACG
1 AATCGCAACG
8346390 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:8346337 original size:33 final size:33
Alignment explanation
Indices: 8346292--8346406 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
8346282 TCTTTTGGTT
8346292 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
8346325 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8346358 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
8346391 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8346407 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:8346338 original size:19 final size:18
Alignment explanation
Indices: 8346299--8346411 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
8346289 GTTGAAATGA
8346299 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
8346314 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
8346331 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
8346347 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
8346364 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
8346380 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
8346397 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
8346412 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:8346442 original size:14 final size:14
Alignment explanation
Indices: 8346423--8346477 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
8346413 TTTGGTTTCG
8346423 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
8346437 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
8346456 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
8346470 CGTTGCGA
1 CGTTGCGA
8346478 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:8346455 original size:33 final size:33
Alignment explanation
Indices: 8346407--8346477 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
8346397 AAAATCGCAA
**
8346407 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
8346440 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
8346473 TGCGA
1 TGCGA
8346478 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:8346485 original size:33 final size:33
Alignment explanation
Indices: 8346418--8346499 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
8346408 GCGATTTTGG
***
8346418 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
8346451 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
8346484 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
8346500 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:8346504 original size:20 final size:20
Alignment explanation
Indices: 8346430--8346518 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
8346420 TCGCGTTGCG
8346430 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
8346450 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
8346463 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
8346483 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
8346503 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
8346519 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:8346640 original size:33 final size:33
Alignment explanation
Indices: 8346598--8346668 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
8346588 AATACTAACT
*
8346598 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
8346631 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
8346664 TGAAA
1 TGAAA
8346669 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:8346902 original size:22 final size:22
Alignment explanation
Indices: 8346850--8346904 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
8346840 TGGTTGTGAG
**
8346850 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
8346872 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
8346894 GGATTTCTTCG
1 GGATTTCTTCG
8346905 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:8347075 original size:20 final size:20
Alignment explanation
Indices: 8347050--8347242 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
8347040 CTTTAAATAT
8347050 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
8347070 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
8347092 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
8347111 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
8347131 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
8347151 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
8347171 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
8347191 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
8347211 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
8347231 CGCGTTGCGATT
1 CGCGTTGCGATT
8347243 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:8347237 original size:60 final size:60
Alignment explanation
Indices: 8347050--8347242 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
8347040 CTTTAAATAT
**
8347050 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
8347111 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
8347171 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
8347231 CGCGTTGCGATT
1 CGCGTTGCGATT
8347243 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:8347323 original size:20 final size:20
Alignment explanation
Indices: 8347298--8347349 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
8347288 AAGAATCGCG
*
8347298 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
8347318 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
8347338 TTGCGATTCTGG
1 TTGCGATTCTGG
8347350 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:8355831 original size:23 final size:24
Alignment explanation
Indices: 8355785--8355833 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
8355775 TAATTAAAAA
* * *
8355785 TTAAAAAAACACATCCATGTTTAT
1 TTAAAAAAAAAAATCCAAGTTTAT
8355809 TTAAAAAAAAAAATCCAAG-TTAT
1 TTAAAAAAAAAAATCCAAGTTTAT
8355832 TT
1 TT
8355834 CTACTTGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
TTAAAAAAAAAAATCCAAGTTTAT
Found at i:8356359 original size:31 final size:30
Alignment explanation
Indices: 8356324--8356388 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 30
8356314 AATTCAATCT
8356324 TTTATATCTCTTAACAAGAATATGATATTC
1 TTTATATCTCTTAACAAGAATATGATATTC
8356354 ATTTATATCTCTTAACAAGAATATGATATTC
1 -TTTATATCTCTTAACAAGAATATGATATTC
8356385 TTTA
1 TTTA
8356389 GCTTCCTCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (30 bp):
TTTATATCTCTTAACAAGAATATGATATTC
Found at i:8367622 original size:59 final size:59
Alignment explanation
Indices: 8367505--8367624 Score: 145
Period size: 59 Copynumber: 2.0 Consensus size: 59
8367495 GTCGAATGAC
* * *
8367505 CATTTTGTAACTTTTAATAGCTGAGGGACTCAACAAAGCAATTCTCAATAGTCGGGGAT
1 CATTTTGTAACTTTTAATAACTGAGGGACTCAACAAAACAATTCTCAATAATCGGGGAT
* * * *
8367564 CATTTTGTAACTTTTAATAATTG-GGGATTCAACAAAATAATATC-CTATAATCGAGGGAT
1 CATTTTGTAACTTTTAATAACTGAGGGACTCAACAAAACAAT-TCTCAATAATCG-GGGAT
8367623 CA
1 CA
8367625 ATTATGTACT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 22 0.42
59 30 0.58
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (59 bp):
CATTTTGTAACTTTTAATAACTGAGGGACTCAACAAAACAATTCTCAATAATCGGGGAT
Found at i:8372269 original size:23 final size:25
Alignment explanation
Indices: 8372216--8372269 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 25
8372206 TAAACTGTAC
*
8372216 TTTTATACAACACTTTTGAAAGTTCA
1 TTTT-TACAACACTTTTAAAAGTTCA
8372242 TTTTTACAACA-TTTTAAAAG-TCA
1 TTTTTACAACACTTTTAAAAGTTCA
8372265 TTTTT
1 TTTTT
8372270 TTAAATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.30
24 8 0.30
25 7 0.26
26 4 0.15
ACGTcount: A:0.33, C:0.13, G:0.06, T:0.48
Consensus pattern (25 bp):
TTTTTACAACACTTTTAAAAGTTCA
Found at i:8372272 original size:25 final size:26
Alignment explanation
Indices: 8372216--8372270 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
8372206 TAAACTGTAC
* *
8372216 TTTTATACAACACTTTTGAAAGTTCA
1 TTTTTTACAACACTTTTAAAAGTTCA
8372242 -TTTTTACAACA-TTTTAAAAG-TCA
1 TTTTTTACAACACTTTTAAAAGTTCA
8372265 TTTTTT
1 TTTTTT
8372271 TAAATAAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 3 0.12
24 13 0.50
25 10 0.38
ACGTcount: A:0.33, C:0.13, G:0.05, T:0.49
Consensus pattern (26 bp):
TTTTTTACAACACTTTTAAAAGTTCA
Found at i:8384706 original size:2 final size:2
Alignment explanation
Indices: 8384699--8384736 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8384689 CATAAATTTA
8384699 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
8384737 GAGAACTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8385677 original size:42 final size:43
Alignment explanation
Indices: 8385603--8385720 Score: 211
Period size: 43 Copynumber: 2.8 Consensus size: 43
8385593 AACATTACTA
*
8385603 GGTAATAAT-TTATTACCAATAGTAACATTTTTTAGTTAAAAT
1 GGTAATAATGTCATTACCAATAGTAACATTTTTTAGTTAAAAT
8385645 GGTAATAATGTCATTACCAATAGTAACATTTTTTAGTTAAAAT
1 GGTAATAATGTCATTACCAATAGTAACATTTTTTAGTTAAAAT
*
8385688 GGTAATAATGTCATTACCAATAGTAGCATTTTT
1 GGTAATAATGTCATTACCAATAGTAACATTTTT
8385721 GTAATGTGTC
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 9 0.12
43 64 0.88
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (43 bp):
GGTAATAATGTCATTACCAATAGTAACATTTTTTAGTTAAAAT
Found at i:8398052 original size:25 final size:25
Alignment explanation
Indices: 8398018--8398068 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8398008 TTGCGGGAGC
8398018 AGAAATCGATTACGCATAGGAAATG
1 AGAAATCGATTACGCATAGGAAATG
8398043 AGAAATCGATTACGCATAGGAAATG
1 AGAAATCGATTACGCATAGGAAATG
8398068 A
1 A
8398069 TAAACACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.20
Consensus pattern (25 bp):
AGAAATCGATTACGCATAGGAAATG
Found at i:8407628 original size:29 final size:29
Alignment explanation
Indices: 8407593--8407675 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
8407583 AAACTAAATT
*
8407593 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
8407622 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
8407651 GATGTCATTGCTTACATCAATTTAA
1 GATGTCATTGCTTACATC-ATTTAA
8407676 GGGAGGGTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.88
30 6 0.12
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:8411976 original size:29 final size:29
Alignment explanation
Indices: 8411933--8412013 Score: 135
Period size: 29 Copynumber: 2.8 Consensus size: 29
8411923 CTCACCTAAC
8411933 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
8411963 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
8411992 TAAATGATGTAAGTAATGACAT
1 TAAATGATGTAAGCAATGACAT
8412014 TAATTTAGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:8419213 original size:2 final size:2
Alignment explanation
Indices: 8419206--8419236 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8419196 GAGTATTTTG
8419206 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
8419237 AAGTTTTGGT
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:8420050 original size:23 final size:23
Alignment explanation
Indices: 8420020--8420064 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
8420010 ATGTCACTTT
8420020 TAAACCATTATTAG-TGCCAACTA
1 TAAACCATTATT-GTTGCCAACTA
8420043 TAAACCATTATTGTTGCCAACT
1 TAAACCATTATTGTTGCCAACT
8420065 TACAATGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.33
Consensus pattern (23 bp):
TAAACCATTATTGTTGCCAACTA
Found at i:8422230 original size:64 final size:61
Alignment explanation
Indices: 8422162--8422376 Score: 188
Period size: 64 Copynumber: 3.5 Consensus size: 61
8422152 TTGAAGGTGT
* *
8422162 ATCGATGCACAGGAAGTGCATCGATGCACTCTTTTAAAATAAATACATCGAATGCAATTCATGC
1 ATCGATGCACAAGAAGTGCATCGATGCA-TC-TCTAAAATAAA-ACATCGAATGCAATTCATGC
* * * *
8422226 ATCGATGCATAAGTAGTGCATCGATGCATC-CT--AATGAAACATCGAATGCAATTCGTGC
1 ATCGATGCACAAGAAGTGCATCGATGCATCTCTAAAATAAAACATCGAATGCAATTCATGC
* * * * * * * *
8422284 ATCGATACAAAAGTAGTGCATCAATGCATCTCAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCACAAGAAGTGCATCGATGCATCTC--TAA-AATAAAACATCGAATGCAATTCATGC
*
8422348 ACCGATGCATC-AGTAA-TGCATCGATGCAT
1 ATCGATGCA-CAAG-AAGTGCATCGATGCAT
8422377 ACCTTCATTA
Statistics
Matches: 123, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
58 46 0.37
59 6 0.05
61 2 0.02
63 2 0.02
64 66 0.54
65 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (61 bp):
ATCGATGCACAAGAAGTGCATCGATGCATCTCTAAAATAAAACATCGAATGCAATTCATGC
Found at i:8422271 original size:58 final size:62
Alignment explanation
Indices: 8422206--8422376 Score: 197
Period size: 58 Copynumber: 2.8 Consensus size: 62
8422196 TAAAATAAAT
8422206 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATC-C-TAAT-GA-A
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCTCATAATAGACA
* * * * *
8422264 ACATCGAATGCAATTCGTGCATCGATACAAAAGTAGTGCATCAATGCATCTCAGTAATAATACA
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCTCA-TAAT-AGACA
* * * * * *
8422328 ACATCGAATACATTTTATGCACCGATGCATCAGTAATGCATCGATGCAT
1 ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCAT
8422377 ACCTTCATTA
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
58 46 0.50
59 1 0.01
61 4 0.04
63 1 0.01
64 40 0.43
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (62 bp):
ACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCTCATAATAGACA
Found at i:8435882 original size:31 final size:31
Alignment explanation
Indices: 8435839--8435900 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
8435829 AATATTAATC
* *
8435839 TATTGTTATAAAATAATTATTAAATATATCA
1 TATTATTATAAAATAATCATTAAATATATCA
*
8435870 TATTATTATAAAATAATCATTAAATTTATCA
1 TATTATTATAAAATAATCATTAAATATATCA
8435901 AATTCTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (31 bp):
TATTATTATAAAATAATCATTAAATATATCA
Found at i:8435911 original size:36 final size:33
Alignment explanation
Indices: 8435828--8435914 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 33
8435818 TAAAATGCCG
* * *
8435828 AAATAT-TAATCTATTGTTATAAAATAATTATT
1 AAATATATCATCTATTATTATAAAATAATCATT
8435860 AAATATATCA--TATTATTATAAAATAATCATT
1 AAATATATCATCTATTATTATAAAATAATCATT
*
8435891 AAATTTATCAAATTCTATTATTAT
1 AAATATATC--A-TCTATTATTAT
8435915 TTTATAACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
31 27 0.60
32 6 0.13
33 3 0.07
36 9 0.20
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (33 bp):
AAATATATCATCTATTATTATAAAATAATCATT
Found at i:8436010 original size:11 final size:11
Alignment explanation
Indices: 8435970--8436009 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
8435960 TTAAAGTTTT
8435970 AATAATTATAA
1 AATAATTATAA
8435981 AATAATTATAA
1 AATAATTATAA
*
8435992 AATAATTTTAA
1 AATAATTATAA
*
8436003 CATAATT
1 AATAATT
8436010 TAATATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
AATAATTATAA
Found at i:8440518 original size:15 final size:15
Alignment explanation
Indices: 8440498--8440528 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8440488 GTCCAAGTGA
8440498 TCATTATCCCATTTC
1 TCATTATCCCATTTC
8440513 TCATTATCCCATTTC
1 TCATTATCCCATTTC
8440528 T
1 T
8440529 TCCGTCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
TCATTATCCCATTTC
Found at i:8444833 original size:4 final size:4
Alignment explanation
Indices: 8444824--8444849 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8444814 TTTTTTTGAT
8444824 GATG GATG GATG GATG GATG GATG GA
1 GATG GATG GATG GATG GATG GATG GA
8444850 GAGAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.50, T:0.23
Consensus pattern (4 bp):
GATG
Found at i:8452956 original size:277 final size:277
Alignment explanation
Indices: 8452462--8453017 Score: 1040
Period size: 277 Copynumber: 2.0 Consensus size: 277
8452452 CATCAAAACA
8452462 TAATAAATGAAAAATACATTTTAATGCATTGTAAGACTATTCATTCTGGCATTTAAAATTAAAAA
1 TAATAAATGAAAAATACATTTTAATGCATTGTAAGACTATTCATTCTGGCATTTAAAATTAAAAA
*
8452527 TAAGTATATAAGAAATAACTTCAGAGATGGGGTTAAAAACTGTTTATTTGACTAAAATATTCATC
66 TAAGTATATAAGAAATAACGTCAGAGATGGGGTTAAAAACTGTTTATTTGACTAAAATATTCATC
*
8452592 TGGGGCTTGTTTATAACATAACCACACAAATTGAAATTCTTTCAAATCATGCGAAAAATAAATCA
131 TGGGGCTTGTTTATAACATAACCACACAAATTGAAATTCTTTCAAATCATGCGAAAAACAAATCA
8452657 GAACCATCATGAAATACTTTAGTAATGAATATCGAAGCCCATAAAGGTAAATCACAACACATGGG
196 GAACCATCATGAAATACTTTAGTAATGAATATCGAAGCCCATAAAGGTAAATCACAACACATGGG
* *
8452722 AATTCATTATATGGTTT
261 AATTCATGATATGATTT
8452739 TAATAAATGAAAAATACATTTTAATGCATTGTAAGACTATTCATTCTGGCATTTAAAATTAAAAA
1 TAATAAATGAAAAATACATTTTAATGCATTGTAAGACTATTCATTCTGGCATTTAAAATTAAAAA
8452804 TAAGTATATAAGAAATAACGTCAGAGATGGGGTTAAAAACTGTTTATTTGACTAAAATATTCATC
66 TAAGTATATAAGAAATAACGTCAGAGATGGGGTTAAAAACTGTTTATTTGACTAAAATATTCATC
*
8452869 TGGGGCTTGTTTCTAACATAACCACACAAATTGAAATTCTTTCAAATCATGCGAAAAACAAATCA
131 TGGGGCTTGTTTATAACATAACCACACAAATTGAAATTCTTTCAAATCATGCGAAAAACAAATCA
* *
8452934 GAACCATCATGAAATACTTTAGTAATGAATATCGAAGCCCTTAAAGGTAAATCAGAACACATGGG
196 GAACCATCATGAAATACTTTAGTAATGAATATCGAAGCCCATAAAGGTAAATCACAACACATGGG
*
8452999 AGTTCATGATATGATTT
261 AATTCATGATATGATTT
8453016 TA
1 TA
8453018 TTAGATTACC
Statistics
Matches: 271, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
277 271 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (277 bp):
TAATAAATGAAAAATACATTTTAATGCATTGTAAGACTATTCATTCTGGCATTTAAAATTAAAAA
TAAGTATATAAGAAATAACGTCAGAGATGGGGTTAAAAACTGTTTATTTGACTAAAATATTCATC
TGGGGCTTGTTTATAACATAACCACACAAATTGAAATTCTTTCAAATCATGCGAAAAACAAATCA
GAACCATCATGAAATACTTTAGTAATGAATATCGAAGCCCATAAAGGTAAATCACAACACATGGG
AATTCATGATATGATTT
Found at i:8463180 original size:19 final size:20
Alignment explanation
Indices: 8463156--8463206 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
8463146 AATGACCAAT
8463156 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
8463175 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
8463195 AAAATCGCAACG
1 AAAATCGCAACG
8463207 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:8463200 original size:20 final size:20
Alignment explanation
Indices: 8463156--8463536 Score: 219
Period size: 20 Copynumber: 18.6 Consensus size: 20
8463146 AATGACCAAT
* *
8463156 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
8463175 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
8463195 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
8463215 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
8463235 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
8463256 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
8463279 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
8463299 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
8463319 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
8463342 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
8463362 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
8463382 ATAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
8463402 AGAATCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
8463425 AAAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
8463445 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
8463465 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
8463485 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
*
8463505 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
8463525 AAAATCGCAACG
1 AAAATCGCAACG
8463537 TTAAAAAGAA
Statistics
Matches: 290, Mismatches: 57, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
19 17 0.06
20 214 0.74
21 14 0.05
23 45 0.16
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:8463388 original size:83 final size:83
Alignment explanation
Indices: 8463281--8463534 Score: 370
Period size: 83 Copynumber: 3.1 Consensus size: 83
8463271 TTTAGAAGAA
*
8463281 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAAAA
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAA
8463346 TCGCAATGCGACTGAGAG
66 TCGCAATGCGACTGAGAG
* *
8463364 AATCGCAATGCGATTTATATAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAA
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAA
8463429 TCGCAATGCGACTGAGAG
66 TCGCAATGCGACTGAGAG
* * * * * *
8463447 AATCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAGAATCGCAATGCGA-TT-G-AGAGAA
1 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAA
* * * *
8463509 TCGCAACGCGATTTAGAA
66 TCGCAATGCGACTGAGAG
8463527 AATCGCAA
1 AATCGCAA
8463535 CGTTAAAAAG
Statistics
Matches: 156, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
80 27 0.17
81 1 0.01
82 2 0.01
83 126 0.81
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.20
Consensus pattern (83 bp):
AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAA
TCGCAATGCGACTGAGAG
Found at i:8463406 original size:103 final size:100
Alignment explanation
Indices: 8463281--8463536 Score: 377
Period size: 103 Copynumber: 2.5 Consensus size: 100
8463271 TTTAGAAGAA
* * * * *
8463281 AATCGCAATGCGATTGATAGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAAAA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTGAGAAAATCGCAACGCGA-CT-G-AGAAAA
*
8463346 TCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAT
63 TCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
* *
8463384 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGA-TT-G-AGAAAATCGCAACGCGACTGAGAAAA
8463449 TCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
63 TCGCAATGCGACTGAGAGAATCGCAATGCGATTTATAG
*
8463487 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTTAGAAAATCGCAACG
1 AATCGCAATGCGATTGAGAGAATCGCAACGCGATTGAGAAAATCGCAACG
8463537 TTAAAAAGAA
Statistics
Matches: 140, Mismatches: 10, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
100 13 0.09
102 2 0.01
103 106 0.76
104 3 0.02
105 2 0.01
106 14 0.10
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (100 bp):
AATCGCAATGCGATTGAGAGAATCGCAACGCGATTGAGAAAATCGCAACGCGACTGAGAAAATCG
CAATGCGACTGAGAGAATCGCAATGCGATTTATAG
Found at i:8463634 original size:6 final size:6
Alignment explanation
Indices: 8463623--8463654 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
8463613 GACACGTATT
8463623 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
8463655 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:8464466 original size:20 final size:20
Alignment explanation
Indices: 8464441--8464484 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8464431 TTTTTAACTA
*
8464441 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
8464461 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
8464481 TTCT
1 TTCT
8464485 AAATCGCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:8464494 original size:20 final size:20
Alignment explanation
Indices: 8464471--8464788 Score: 183
Period size: 20 Copynumber: 15.6 Consensus size: 20
8464461 TTCTTTTTAA
8464471 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
8464491 CGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
8464511 CATTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
8464531 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
8464551 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
8464571 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
8464594 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
8464614 CATTGCGATTATATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
8464634 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
8464654 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
8464677 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
8464698 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
8464716 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
8464738 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
8464758 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
8464777 CGTTGCGATTTT
1 CGTTGCGATTTT
8464789 ATTGGTTATT
Statistics
Matches: 241, Mismatches: 46, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 174 0.72
21 14 0.06
22 6 0.02
23 28 0.12
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Done.