Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 94 of 410
Found at i:27554657 original size:37 final size:37
Alignment explanation
Indices: 27554578--27554699 Score: 90
Period size: 37 Copynumber: 3.2 Consensus size: 37
27554568 AAATATTAAA
* *
27554578 ATTTTTAAT-TTTTTTAAAGTTTTTAGTAATTGTTTAT
1 ATTTTTTATATTTTTTAAAATTTTTA-TAATTGTTTAT
27554615 A-TTTTTATATTTTTTAAAATTTTT-TAATT-TTTAGAT
1 ATTTTTTATATTTTTTAAAATTTTTATAATTGTTT--AT
* * * *
27554651 ATTTTTTGAAATTTTTAAATAATTTTATTGTAAGTTTTTTAT
1 ATTTTTT-ATATTTTTTAA-AA-TTT-TTATAA-TTGTTTAT
27554693 ATTTTTT
1 ATTTTTT
27554700 CCTTTTTAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
34 3 0.04
35 5 0.07
36 9 0.13
37 20 0.29
38 9 0.13
39 2 0.03
40 3 0.04
41 2 0.03
42 12 0.17
43 2 0.03
44 3 0.04
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (37 bp):
ATTTTTTATATTTTTTAAAATTTTTATAATTGTTTAT
Found at i:27554699 original size:9 final size:9
Alignment explanation
Indices: 27554578--27554699 Score: 52
Period size: 10 Copynumber: 12.8 Consensus size: 9
27554568 AAATATTAAA
*
27554578 ATTTTTAAT
1 ATTTTTTAT
*
27554587 -TTTTTTAA
1 ATTTTTTAT
*
27554595 AGTTTTTAGT
1 ATTTTTTA-T
*
27554605 AATTGTTTAT
1 -ATTTTTTAT
27554615 A-TTTTTAT
1 ATTTTTTAT
*
27554623 ATTTTTTAAA
1 ATTTTTT-AT
27554633 ATTTTTTA-
1 ATTTTTTAT
*
27554641 ATTTTTAGAT
1 ATTTTT-TAT
*
27554651 ATTTTTTGAA
1 ATTTTTT-AT
*
27554661 ATTTTTAAAT
1 ATTTTT-TAT
*
27554671 AATTTTATTGT
1 -ATTTT-TTAT
27554682 AAGTTTTTTAT
1 -A-TTTTTTAT
27554693 ATTTTTT
1 ATTTTTT
27554700 CCTTTTTAAA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
8 19 0.22
9 20 0.24
10 24 0.28
11 17 0.20
12 5 0.06
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:27559686 original size:43 final size:44
Alignment explanation
Indices: 27559638--27559824 Score: 193
Period size: 43 Copynumber: 4.3 Consensus size: 44
27559628 GTTACTGAAA
* * * *
27559638 TGTGATTACATGTAAGACTATGTCTAGGACATTGGCATTG-TAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* *
27559681 TGTGATTGCGTTTAAGACCATGTCTGGGACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* *
27559725 T-CGATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTTAT
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* * * * ** *
27559768 T-CGATTTCGTGTAAGACCCTATCTGGGACAGCGGCATCGATA-
1 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
* *
27559810 TGTGATAACATGTAA
1 TGTGATTACGTGTAA
27559825 AGCCATATTT
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 116 0.96
44 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAT
Found at i:27559793 original size:86 final size:86
Alignment explanation
Indices: 27559641--27559830 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 86
27559631 ACTGAAATGT
* * * * * *
27559641 GATTACATGTAAGACTATGTCTAGGACATTGGCATTGTATTGTGATTGCGTTTAAGACCATGTCT
1 GATTACATGTAAAACCATGTCTAGGACATTGGCATCGTATTGCGATTGCGTGTAAGACCATATCT
**
27559706 GGGACATTGGCATCGTTATTC
66 GGGACAGCGGCATCGTTATTC
* * * *
27559727 GATTACGTGTAAAACCATGTCTGGGACATTGGCATCGTTATT-CGATTTCGTGTAAGACCCTATC
1 GATTACATGTAAAACCATGTCTAGGACATTGGCATCG-TATTGCGATTGCGTGTAAGACCATATC
*
27559791 TGGGACAGCGGCATCGATATGT-
65 TGGGACAGCGGCATCGTTAT-TC
* *
27559813 GATAACATGTAAAGCCAT
1 GATTACATGTAAAACCAT
27559831 ATTTGGGATA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
86 81 0.94
87 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (86 bp):
GATTACATGTAAAACCATGTCTAGGACATTGGCATCGTATTGCGATTGCGTGTAAGACCATATCT
GGGACAGCGGCATCGTTATTC
Found at i:27565703 original size:46 final size:46
Alignment explanation
Indices: 27565650--27565825 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
27565640 TATTTGGGCA
27565650 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
27565696 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
27565743 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
27565789 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27565826 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:27565805 original size:93 final size:93
Alignment explanation
Indices: 27565646--27565817 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27565636 GGGATATTTG
* *
27565646 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27565711 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
27565739 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27565804 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
27565818 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27568761 original size:15 final size:15
Alignment explanation
Indices: 27568741--27568809 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
27568731 GTATCTTGGG
27568741 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
27568756 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
27568771 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
27568786 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
27568801 TTTCTTTAT
1 TTTCTTTAT
27568810 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:27568810 original size:30 final size:30
Alignment explanation
Indices: 27568732--27568819 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
27568722 CATAGTATCG
* * * *
27568732 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
27568762 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
27568792 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
27568820 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:27571256 original size:46 final size:46
Alignment explanation
Indices: 27571203--27571378 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
27571193 TATTTGGGCA
27571203 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
27571249 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
27571296 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
27571342 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27571379 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:27571358 original size:93 final size:93
Alignment explanation
Indices: 27571199--27571370 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
27571189 GGGATATTTG
* *
27571199 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27571264 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
27571292 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
27571357 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
27571371 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27577816 original size:6 final size:6
Alignment explanation
Indices: 27577807--27577831 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
27577797 AGTTTCCTTT
27577807 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
27577832 GTTTGGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:27583752 original size:23 final size:24
Alignment explanation
Indices: 27583710--27583754 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
27583700 TTGTATTAAA
*
27583710 TATAATATCATATATTTATATGTG
1 TATAATATCATATATATATATGTG
27583734 TATAATA-CATATATATATATG
1 TATAATATCATATATATATATG
27583755 AACCATATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (24 bp):
TATAATATCATATATATATATGTG
Found at i:27585076 original size:22 final size:20
Alignment explanation
Indices: 27585047--27585089 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
27585037 AAGAGAAGGA
27585047 AAATTTTTTCTTATTTTA-AAG
1 AAATTTTTT-TT-TTTTACAAG
27585068 AAATCTTTTTTTTTTTACAAG
1 AAAT-TTTTTTTTTTTACAAG
27585089 A
1 A
27585090 TTTATTACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
AAATTTTTTTTTTTTACAAG
Found at i:27586996 original size:40 final size:40
Alignment explanation
Indices: 27586944--27587052 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
27586934 CATGAATATG
* * * * *
27586944 CTATCAGGAGCACCGTAGTACTAACAGGAGTATGAAAGTA
1 CTATCAGAAGCACCATAGTGCTATCAGGAGTACGAAAGTA
* * *
27586984 CTATTAGAAGCACTATAGTGCTATCAAGAGTACGAAAGTA
1 CTATCAGAAGCACCATAGTGCTATCAGGAGTACGAAAGTA
* * *
27587024 CTGTCAGGAGCACCCTAGTGCTATCAGGA
1 CTATCAGAAGCACCATAGTGCTATCAGGA
27587053 ACACTTATTC
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (40 bp):
CTATCAGAAGCACCATAGTGCTATCAGGAGTACGAAAGTA
Found at i:27589715 original size:24 final size:24
Alignment explanation
Indices: 27589670--27589719 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
27589660 ATTTAGAGAG
*
27589670 TTTAACTATAATTAAATTTAATTAT
1 TTTAACTATAATTAAATATAA-TAT
27589695 TTTAA-TATAAGTT-AATATAATAT
1 TTTAACTATAA-TTAAATATAATAT
27589718 TT
1 TT
27589720 ATTAAGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
24 11 0.48
25 7 0.30
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAACTATAATTAAATATAATAT
Found at i:27589749 original size:14 final size:13
Alignment explanation
Indices: 27589730--27589759 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
27589720 ATTAAGATAA
27589730 ATATTAAATTAAAT
1 ATATTAAATT-AAT
27589744 ATATTAAATTAAT
1 ATATTAAATTAAT
27589757 ATA
1 ATA
27589760 GTATTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATTAAT
Found at i:27591731 original size:22 final size:20
Alignment explanation
Indices: 27591689--27591733 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 20
27591679 ATGTAACAGT
27591689 TCAGATAAGATGCAAATAGA
1 TCAGATAAGATGCAAATAGA
*
27591709 TCAGATATAGATGTAGAATAGA
1 TCAGATA-AGATGCA-AATAGA
27591731 TCA
1 TCA
27591734 AAATCAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (20 bp):
TCAGATAAGATGCAAATAGA
Found at i:27592518 original size:63 final size:63
Alignment explanation
Indices: 27592335--27592522 Score: 174
Period size: 62 Copynumber: 3.0 Consensus size: 63
27592325 CCTCACACGT
* * * * * *
27592335 CCTGGACACACGGTTGTGTCCCT-GACCCGTGTGACC-CTAAATACCAAATAGTAAGTTACAC-A
1 CCTGGACACAAGCTCGTGTCCCTAG-CCCGTGTGACCTCT-AATTCCAAACAATAAGTTACACAA
* * * * *
27592397 CCTTGGACACAAGC-CGTG-CCCTTAGCCCTTGTGACCT-AAAGTACAAACAATGAGTTACACAA
1 CC-TGGACACAAGCTCGTGTCCC-TAGCCCGTGTGACCTCTAATTCCAAACAATAAGTTACACAA
*
27592459 CCTGGACACATGCTCGTGTCCCTAGCCCGTGTG-CCTCTAATTCGCAAACAATAAGTTACACAA
1 CCTGGACACAAGCTCGTGTCCCTAGCCCGTGTGACCTCTAATTC-CAAACAATAAGTTACACAA
27592522 C
1 C
27592523 TTACCACAAG
Statistics
Matches: 100, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
61 32 0.32
62 36 0.36
63 32 0.32
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (63 bp):
CCTGGACACAAGCTCGTGTCCCTAGCCCGTGTGACCTCTAATTCCAAACAATAAGTTACACAA
Found at i:27594112 original size:36 final size:36
Alignment explanation
Indices: 27594065--27594137 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
27594055 CAAAGAGTAA
27594065 ATTGATCATTTCTGTTAAAAATTTTCATTCATTTGT
1 ATTGATCATTTCTGTTAAAAATTTTCATTCATTTGT
27594101 ATTGATCATTTCTGTTAAAAATTTTCATTCATTTGT
1 ATTGATCATTTCTGTTAAAAATTTTCATTCATTTGT
27594137 A
1 A
27594138 CTGTTAAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (36 bp):
ATTGATCATTTCTGTTAAAAATTTTCATTCATTTGT
Found at i:27601222 original size:13 final size:13
Alignment explanation
Indices: 27601204--27601228 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27601194 ATAAATATGA
27601204 TTTTTATTTTTAT
1 TTTTTATTTTTAT
27601217 TTTTTATTTTTA
1 TTTTTATTTTTA
27601229 CTAATTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:27607030 original size:37 final size:37
Alignment explanation
Indices: 27606977--27607098 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
27606967 TTATTACGAA
*
27606977 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
27607014 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
27607051 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
27607088 GTCTCACCCGG
1 GTCTTACCCGG
27607099 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:27607255 original size:49 final size:49
Alignment explanation
Indices: 27607200--27607466 Score: 373
Period size: 49 Copynumber: 5.5 Consensus size: 49
27607190 TTTTACATTA
*
27607200 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
27607249 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
27607298 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* *
27607347 GTCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * * *
27607394 GCCA-TACGGCCTTATCAC--ACATATGCACTTTCACATTCATCGCATTG
1 GCCATTA-GGCCTTATCACATATATATACACTTTCACATTCATCACATCG
* * *
27607441 GCCATTCGACCTTATCACACATATAT
1 GCCATTAGGCCTTATCACATATATAT
27607467 GTATATCATA
Statistics
Matches: 202, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.01
47 81 0.40
48 1 0.00
49 118 0.58
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:27618353 original size:37 final size:37
Alignment explanation
Indices: 27618305--27618376 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
27618295 TATTAACAAA
* * *
27618305 TATGAAAAATAGATATAT-GAAAGTGAATTTAATATTT
1 TATGAAAAATAGAGA-ATCAAAAGGGAATTTAATATTT
*
27618342 TATGGAAAATAGAGAATCAAAAGGGAATTTAATAT
1 TATGAAAAATAGAGAATCAAAAGGGAATTTAATAT
27618377 CTTTCCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 2 0.07
37 28 0.93
ACGTcount: A:0.50, C:0.01, G:0.17, T:0.32
Consensus pattern (37 bp):
TATGAAAAATAGAGAATCAAAAGGGAATTTAATATTT
Found at i:27618434 original size:18 final size:20
Alignment explanation
Indices: 27618403--27618444 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
27618393 TTGACTTTTC
27618403 CTCTCTCTATC-TT-TCTTT
1 CTCTCTCTATCTTTATCTTT
27618421 CTCTCTC-ATCCTTTATCTTT
1 CTCTCTCTAT-CTTTATCTTT
27618441 CTCT
1 CTCT
27618445 TGTGTACTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.10
18 8 0.38
19 2 0.10
20 9 0.43
ACGTcount: A:0.07, C:0.36, G:0.00, T:0.57
Consensus pattern (20 bp):
CTCTCTCTATCTTTATCTTT
Found at i:27618707 original size:2 final size:2
Alignment explanation
Indices: 27618700--27618742 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
27618690 CTCTTTCTAC
27618700 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27618741 AT
1 AT
27618743 CACTGGTGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27620403 original size:20 final size:20
Alignment explanation
Indices: 27620378--27620427 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
27620368 AGGCACACGT
27620378 CCGTGTGGCCTGGGACATGC
1 CCGTGTGGCCTGGGACATGC
* *
27620398 CCGTGTGGCTTGGGACATGG
1 CCGTGTGGCCTGGGACATGC
*
27620418 CCGTGGGGCC
1 CCGTGTGGCC
27620428 AGGCCATGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.08, C:0.28, G:0.44, T:0.20
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGC
Found at i:27621162 original size:42 final size:42
Alignment explanation
Indices: 27621110--27621194 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
27621100 TATCTTTCAA
27621110 TACTGGTATAACAGTCACAGTCACATAACCAATAGCAATCAG
1 TACTGGTATAACAGTCACAGTCACATAACCAATAGCAATCAG
* * * *
27621152 TACTTGTATAACAGTTACAGTCACATAATCAATAGCAGTCAG
1 TACTGGTATAACAGTCACAGTCACATAACCAATAGCAATCAG
27621194 T
1 T
27621195 CTTTGTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (42 bp):
TACTGGTATAACAGTCACAGTCACATAACCAATAGCAATCAG
Found at i:27625297 original size:14 final size:14
Alignment explanation
Indices: 27625278--27625305 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27625268 ACATCAAACC
27625278 ATCTTTCTTTTTAA
1 ATCTTTCTTTTTAA
27625292 ATCTTTCTTTTTAA
1 ATCTTTCTTTTTAA
27625306 CGAATAACAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (14 bp):
ATCTTTCTTTTTAA
Found at i:27627695 original size:20 final size:20
Alignment explanation
Indices: 27627670--27627719 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
27627660 GGGGCACACA
27627670 CCCGTGTGGCCTGGGACATG
1 CCCGTGTGGCCTGGGACATG
*
27627690 CCCGTGTGGCTTGGGACATG
1 CCCGTGTGGCCTGGGACATG
*
27627710 GCCGTG-GGCC
1 CCCGTGTGGCC
27627720 AGGCCATGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.08, C:0.30, G:0.42, T:0.20
Consensus pattern (20 bp):
CCCGTGTGGCCTGGGACATG
Found at i:27630405 original size:15 final size:13
Alignment explanation
Indices: 27630384--27630417 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 13
27630374 TCTGTTTTTA
27630384 TTTTATTTTATATT
1 TTTTATTTTAT-TT
27630398 TGTTTATTTTATTT
1 T-TTTATTTTATTT
27630412 TTTTAT
1 TTTTAT
27630418 CAACTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.26
14 4 0.21
15 10 0.53
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:27634901 original size:40 final size:40
Alignment explanation
Indices: 27634856--27634936 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
27634846 CCAAACGCCA
*
27634856 CTATAGATCGAGAATTAGTGGCACTTTTTAAAAAACACCG
1 CTATAGATCAAGAATTAGTGGCACTTTTTAAAAAACACCG
** * *
27634896 CTATAGATCAATCATTAGTGGCGCTTTTTAAAAAATACCG
1 CTATAGATCAAGAATTAGTGGCACTTTTTAAAAAACACCG
27634936 C
1 C
27634937 AAAAAAATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
CTATAGATCAAGAATTAGTGGCACTTTTTAAAAAACACCG
Found at i:27635043 original size:40 final size:40
Alignment explanation
Indices: 27634982--27635060 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
27634972 GCTTTAGTGG
* *
27634982 CATTAGTGGCGCTTTTAGAAAAACGCCGCTATAGATCGAC
1 CATTAGTGGCGATTTTAGAAAAACACCGCTATAGATCGAC
*
27635022 CATTAGTGGCGATTTTTGAAAAACACCGCTATAGATCGA
1 CATTAGTGGCGATTTTAGAAAAACACCGCTATAGATCGA
27635061 GCTTTAGCAG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (40 bp):
CATTAGTGGCGATTTTAGAAAAACACCGCTATAGATCGAC
Found at i:27635084 original size:40 final size:40
Alignment explanation
Indices: 27635000--27635089 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
27634990 GCGCTTTTAG
* ** * *
27635000 AAAAACGCCGCTATAGATCGACCATTAGTGGCGATTTTTG
1 AAAAACACCGCTATAGATCGACCATTAGCAGCGATTTATC
* * *
27635040 AAAAACACCGCTATAGATCGAGCTTTAGCAGCGCTTTATC
1 AAAAACACCGCTATAGATCGACCATTAGCAGCGATTTATC
27635080 AAAAACACCG
1 AAAAACACCG
27635090 TAAAAACATT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (40 bp):
AAAAACACCGCTATAGATCGACCATTAGCAGCGATTTATC
Found at i:27635478 original size:15 final size:15
Alignment explanation
Indices: 27635460--27635498 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
27635450 TACTATTTTA
27635460 AGGTTTATGGATTAT
1 AGGTTTATGGATTAT
*
27635475 AGGTTTAGGGATTAT
1 AGGTTTATGGATTAT
*
27635490 -GATTTATGG
1 AGGTTTATGG
27635499 TTTAAGGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (15 bp):
AGGTTTATGGATTAT
Found at i:27635481 original size:22 final size:21
Alignment explanation
Indices: 27635457--27635505 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
27635447 AGTTACTATT
*
27635457 TTAAGGTTTATGGA-TTATAGGT
1 TTAAGGATTAT-GATTTAT-GGT
*
27635479 TTAGGGATTATGATTTATGGT
1 TTAAGGATTATGATTTATGGT
27635500 TTAAGG
1 TTAAGG
27635506 GTTGGGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (21 bp):
TTAAGGATTATGATTTATGGT
Found at i:27635514 original size:14 final size:15
Alignment explanation
Indices: 27635497--27635561 Score: 73
Period size: 14 Copynumber: 4.5 Consensus size: 15
27635487 TATGATTTAT
27635497 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
27635511 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
* *
27635526 AG-TTAGGGGTTAGG
1 GGTTTAAGGGTTAGG
*
27635540 GG-TTAAGTGTTAGG
1 GGTTTAAGGGTTAGG
27635554 GGTTTAAG
1 GGTTTAAG
27635562 ATTTATGATT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
14 34 0.81
15 8 0.19
ACGTcount: A:0.20, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:27635516 original size:21 final size:22
Alignment explanation
Indices: 27635492--27635566 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
27635482 GGGATTATGA
*
27635492 TTTATGGTTTAAGGGTT-GGGG
1 TTTAAGGTTTAAGGGTTAGGGG
27635513 TTTAAGGTTT-AGGAGTTAGGGG
1 TTTAAGGTTTAAGG-GTTAGGGG
* * *
27635535 -TTAGGGGTTAAGTGTTAGGGG
1 TTTAAGGTTTAAGGGTTAGGGG
*
27635556 TTTAAGATTTA
1 TTTAAGGTTTA
27635567 TGATTTATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
20 3 0.07
21 27 0.63
22 13 0.30
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (22 bp):
TTTAAGGTTTAAGGGTTAGGGG
Found at i:27635664 original size:49 final size:50
Alignment explanation
Indices: 27635570--27635665 Score: 158
Period size: 49 Copynumber: 1.9 Consensus size: 50
27635560 AGATTTATGA
* **
27635570 TTTATGTTTTATGATTTTGGGTTTATGGGATATGGGTTAGGGGTTTAAGG
1 TTTATGGTTTATGATTTTGGGTTTATGGGATATGGGTTAAAGGTTTAAGG
27635620 TTTATGGTTTATG-TTTTGGGTTTATGGGATATGGGTTAAAGGTTTA
1 TTTATGGTTTATGATTTTGGGTTTATGGGATATGGGTTAAAGGTTTA
27635666 GATTAATTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
49 31 0.72
50 12 0.28
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (50 bp):
TTTATGGTTTATGATTTTGGGTTTATGGGATATGGGTTAAAGGTTTAAGG
Found at i:27636095 original size:40 final size:37
Alignment explanation
Indices: 27636023--27636096 Score: 94
Period size: 40 Copynumber: 1.9 Consensus size: 37
27636013 ATAATTGTAA
* *
27636023 AAGAGATAATATTAATTTTAATATATTAAAATTATTT
1 AAGAGATAATATAAACTTTAATATATTAAAATTATTT
*
27636060 AAGAGATAATAGATAAACTTTATATATATTGAAATTA
1 AAGAGATAAT--ATAAACTTTA-ATATATTAAAATTA
27636097 AAAAAATTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 10 0.32
39 8 0.26
40 13 0.42
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.41
Consensus pattern (37 bp):
AAGAGATAATATAAACTTTAATATATTAAAATTATTT
Found at i:27636235 original size:6 final size:6
Alignment explanation
Indices: 27636220--27636267 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
27636210 TTTAAATCTT
* *
27636220 TTTTTG TTTTTA TTTTTCA TATTTTG TTTTTG TTTTTG TTTTTG TTTT
1 TTTTTG TTTTTG TTTTT-G T-TTTTG TTTTTG TTTTTG TTTTTG TTTT
27636268 CTTAAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 31 0.82
7 3 0.08
8 4 0.11
ACGTcount: A:0.06, C:0.02, G:0.10, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:27636438 original size:40 final size:40
Alignment explanation
Indices: 27636394--27636477 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
27636384 AAAATTATAA
* * * *
27636394 AAAAGTCAAACATTAGCGGCGTTTATGATAAAAACACCGC
1 AAAAGGCAAACAATAGCAGCGTTTATGATAAAAACACCAC
*
27636434 AAAAGGCAAGCAATAGCAGCGTTTATGATAAAAACACCAC
1 AAAAGGCAAACAATAGCAGCGTTTATGATAAAAACACCAC
27636474 AAAA
1 AAAA
27636478 AATCAATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.17
Consensus pattern (40 bp):
AAAAGGCAAACAATAGCAGCGTTTATGATAAAAACACCAC
Found at i:27636594 original size:18 final size:18
Alignment explanation
Indices: 27636571--27636607 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
27636561 TTTCTCTCCC
*
27636571 CCCAATTTTCTCTTCTTT
1 CCCAATTTCCTCTTCTTT
*
27636589 CCCAATTTCCTTTTCTTT
1 CCCAATTTCCTCTTCTTT
27636607 C
1 C
27636608 TCAGCCATTC
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:0.11, C:0.35, G:0.00, T:0.54
Consensus pattern (18 bp):
CCCAATTTCCTCTTCTTT
Found at i:27636680 original size:72 final size:73
Alignment explanation
Indices: 27636559--27636708 Score: 203
Period size: 72 Copynumber: 2.1 Consensus size: 73
27636549 GACACCGTTT
** *
27636559 TATTTCTCTCCCCCCAATTTTCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAGCC
1 TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
27636624 TATTCCTC
66 TATTCCTC
* * * * *
27636632 TATTTCTCT-CCCCCGATTCCCTTTTCTTTCCCAGTTTCCTTTTTTTTCTCAGCCTTTCTCAACC
1 TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
* *
27636696 TGTTCTTC
66 TATTCCTC
27636704 TATTT
1 TATTT
27636709 TATACCCGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 58 0.87
73 9 0.13
ACGTcount: A:0.11, C:0.36, G:0.04, T:0.49
Consensus pattern (73 bp):
TATTTCTCTCCCCCCAATTCCCTCTTCTTTCCCAATTTCCTTTTCTTTCTCAGCCATTCTCAACC
TATTCCTC
Found at i:27636969 original size:61 final size:63
Alignment explanation
Indices: 27636894--27637023 Score: 174
Period size: 64 Copynumber: 2.1 Consensus size: 63
27636884 CTTCCTTTAA
*
27636894 TTTTCAATCATCTTA-AAATTTTAGA-AATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAACCATCTTAGAAATTTTAGATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
* * ** **
27636955 TTTTCAACCGTCTTAGAAATTTTTGATTTTTTTTTGTTTGGGTTTCTTATTTCTATTATATTAG
1 TTTTCAACCATCTTAGAAATTTTAGA-TAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
27637019 TTTTC
1 TTTTC
27637024 TAGTTTCCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
61 13 0.22
62 9 0.15
64 37 0.63
ACGTcount: A:0.23, C:0.09, G:0.10, T:0.58
Consensus pattern (63 bp):
TTTTCAACCATCTTAGAAATTTTAGATAATTTTAATTTGGGTTTCTTATTTCTATTATATTAG
Found at i:27637405 original size:21 final size:21
Alignment explanation
Indices: 27637379--27637421 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
27637369 AAGAAGCTTC
27637379 CATCTT-CTTCCAACAGATTGT
1 CATCTTCCTT-CAACAGATTGT
*
27637400 CATCTTCCTTCAATAGATTGT
1 CATCTTCCTTCAACAGATTGT
27637421 C
1 C
27637422 CTGTATATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (21 bp):
CATCTTCCTTCAACAGATTGT
Found at i:27640767 original size:23 final size:23
Alignment explanation
Indices: 27640731--27640832 Score: 159
Period size: 23 Copynumber: 4.4 Consensus size: 23
27640721 TGGTTGCTGC
*
27640731 TGTTTAAATGCTGTAAATTTAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
27640754 TGTTTAGATACTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
27640777 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
27640800 TATTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
27640823 TGTTTAAATG
1 TGTTTAAATG
27640833 TTCTTTGTGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 70 1.00
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:27642541 original size:20 final size:18
Alignment explanation
Indices: 27642491--27642600 Score: 59
Period size: 20 Copynumber: 5.9 Consensus size: 18
27642481 CTACAATATA
27642491 AACATTAAATTAA-ATTT
1 AACATTAAATTAATATTT
27642508 AACATTAAGA-TAATCACTTT
1 AACATTAA-ATTAAT-A-TTT
* *
27642528 AATATTAAATTAATA-TA
1 AACATTAAATTAATATTT
*
27642545 ATACTATTAATATAAATA-TT
1 A-AC-ATTAA-ATTAATATTT
*
27642565 AA-ATTAAATTTAATATTAA
1 AACATTAAA-TTAATATT-T
* *
27642584 AATATTAAAATAATATT
1 AACATTAAATTAATATT
27642601 ATTTTTGGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.01
17 23 0.32
18 3 0.04
19 18 0.25
20 28 0.38
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.41
Consensus pattern (18 bp):
AACATTAAATTAATATTT
Found at i:27642545 original size:25 final size:25
Alignment explanation
Indices: 27642506--27642561 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
27642496 TAAATTAAAT
27642506 TTAACATTAAGATAATCACT-TTAATA
1 TTAA-ATTAAGATAAT-ACTATTAATA
*
27642532 TTAAATTAATATAATACTATTAATA
1 TTAAATTAAGATAATACTATTAATA
27642557 -TAAAT
1 TTAAAT
27642562 ATTAAATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 8 0.29
25 16 0.57
26 4 0.14
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (25 bp):
TTAAATTAAGATAATACTATTAATA
Found at i:27642588 original size:31 final size:32
Alignment explanation
Indices: 27642485--27642588 Score: 86
Period size: 31 Copynumber: 3.2 Consensus size: 32
27642475 ATTTATCTAC
* *
27642485 AATATAAACATTAAATTAAATTTAACATTAAGA
1 AATATAAATATTAAATTAAATTTAATATT-AGA
* * * **
27642518 TAATCACTTTAATATTAAATT-AATATAATACTATT
1 -AAT-A--TAAATATTAAATTAAATTTAATATTAGA
27642553 AATATAAATATTAAATTAAATTTAATATTA-A
1 AATATAAATATTAAATTAAATTTAATATTAGA
27642584 AATAT
1 AATAT
27642589 TAAAATAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
31 17 0.31
32 10 0.18
33 1 0.02
34 6 0.11
35 2 0.04
36 8 0.15
37 11 0.20
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (32 bp):
AATATAAATATTAAATTAAATTTAATATTAGA
Found at i:27647977 original size:63 final size:63
Alignment explanation
Indices: 27647910--27648044 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 63
27647900 CAGAGTAGTA
* * * * * * *
27647910 AATGATTGCGCGTGCAGTA-ATGCTTGTGGAAGATAAATTGGTGTTGTATGTGTTGATGTAGGG
1 AATGATTGCGAGTGCAG-AGATGCTTGTAGAAAATAAACTAGTGTTGTATGTATTAATGTAGGG
* * *
27647973 AATGATTGCGAGTGCTGAGGTGCTTGTAGAAAATAAACTATTGTTGTATGTATTAATGTAGGG
1 AATGATTGCGAGTGCAGAGATGCTTGTAGAAAATAAACTAGTGTTGTATGTATTAATGTAGGG
27648036 AATGATTGC
1 AATGATTGC
27648045 CTGTGCTAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
62 1 0.02
63 60 0.98
ACGTcount: A:0.27, C:0.07, G:0.31, T:0.35
Consensus pattern (63 bp):
AATGATTGCGAGTGCAGAGATGCTTGTAGAAAATAAACTAGTGTTGTATGTATTAATGTAGGG
Found at i:27648069 original size:63 final size:63
Alignment explanation
Indices: 27647951--27648074 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 63
27647941 GATAAATTGG
* * * * * * *
27647951 TGTTGTATGTGTTGATGTAGGGAATGATTGCGAGTGCTGAGGTGCTTGTAGAAAATAAACTAT
1 TGTTGTATGTATTAATGTAGGGAATGATTGCCAGTGCTAAAGTACATGTAGAAAATAAACTAT
*
27648014 TGTTGTATGTATTAATGTAGGGAATGATTGCCTGTGCTAAAGTACATGT-GAAAAATAAACT
1 TGTTGTATGTATTAATGTAGGGAATGATTGCCAGTGCTAAAGTACATGTAG-AAAATAAACT
27648075 GAAGTTGAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
62 1 0.02
63 51 0.98
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (63 bp):
TGTTGTATGTATTAATGTAGGGAATGATTGCCAGTGCTAAAGTACATGTAGAAAATAAACTAT
Found at i:27649731 original size:10 final size:10
Alignment explanation
Indices: 27649716--27649742 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
27649706 AAGAGTAAAG
27649716 AAAAGAAACA
1 AAAAGAAACA
27649726 AAAAGAAACA
1 AAAAGAAACA
27649736 AAAAGAA
1 AAAAGAA
27649743 TAGAGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.07, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAACA
Found at i:27651253 original size:23 final size:23
Alignment explanation
Indices: 27651223--27651309 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
27651213 GCTTTACTGA
* *
27651223 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
27651246 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
27651267 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
27651289 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
27651310 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:27652780 original size:25 final size:23
Alignment explanation
Indices: 27652752--27652805 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
27652742 ACATAAAAAA
27652752 TTAATAATCTAAACTGTATAATAAT
1 TTAATAATCTAAA-TGTA-AATAAT
* *
27652777 TTAAT-ATGTAAATTTAAATAAT
1 TTAATAATCTAAATGTAAATAAT
27652799 TTAATAA
1 TTAATAA
27652806 ATTTTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 11 0.42
23 4 0.15
24 6 0.23
25 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (23 bp):
TTAATAATCTAAATGTAAATAAT
Found at i:27652996 original size:14 final size:14
Alignment explanation
Indices: 27652974--27653066 Score: 98
Period size: 14 Copynumber: 6.7 Consensus size: 14
27652964 AAAAATTGGG
*
27652974 AATTTAGAATAAAA
1 AATTGAGAATAAAA
* *
27652988 AATTGAGAATTAAC
1 AATTGAGAATAAAA
27653002 AATTGAGAATAAAA
1 AATTGAGAATAAAA
* **
27653016 AATTGAGAACAAGC
1 AATTGAGAATAAAA
27653030 AATTGAGAAT-AAA
1 AATTGAGAATAAAA
* * *
27653043 AATCGAGAACAAGA
1 AATTGAGAATAAAA
27653057 AATTGAGAAT
1 AATTGAGAAT
27653067 CAAATTGTGG
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
13 9 0.15
14 53 0.85
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (14 bp):
AATTGAGAATAAAA
Found at i:27653051 original size:27 final size:28
Alignment explanation
Indices: 27652974--27653066 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
27652964 AAAAATTGGG
* *
27652974 AATTTAGAATAAAAAATTGAGAATTAA-C
1 AATTGAGAATAAAAAATTGAGAA-CAAGC
27653002 AATTGAGAATAAAAAATTGAGAACAAGC
1 AATTGAGAATAAAAAATTGAGAACAAGC
* *
27653030 AATTGAGAAT-AAAAATCGAGAACAAGA
1 AATTGAGAATAAAAAATTGAGAACAAGC
27653057 AATTGAGAAT
1 AATTGAGAAT
27653067 CAAATTGTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
27 27 0.45
28 33 0.55
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.22
Consensus pattern (28 bp):
AATTGAGAATAAAAAATTGAGAACAAGC
Found at i:27655057 original size:13 final size:13
Alignment explanation
Indices: 27655039--27655082 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
27655029 CATGATAAAT
*
27655039 ATAAATTATATTA
1 ATAAATTATAATA
27655052 ATAAATT-TAATA
1 ATAAATTATAATA
*
27655064 ATTAAATTATAAAA
1 A-TAAATTATAATA
27655078 ATAAA
1 ATAAA
27655083 AATATTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATTATAATA
Found at i:27661439 original size:23 final size:23
Alignment explanation
Indices: 27661387--27661474 Score: 83
Period size: 23 Copynumber: 4.0 Consensus size: 23
27661377 TCTAATCAGT
* *
27661387 ATACGACACA-TAAGTGCTTG-A
1 ATACGACACACAAAGTGCCTGAA
* *
27661408 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
27661430 ATACGACACATAAAGTGCCTGAT
1 ATACGACACACAAAGTGCCTGAA
* *
27661453 ATACAACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
27661475 TCGGCAAAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
20 8 0.14
21 8 0.14
22 2 0.04
23 38 0.68
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:27661474 original size:46 final size:43
Alignment explanation
Indices: 27661387--27661474 Score: 104
Period size: 46 Copynumber: 2.0 Consensus size: 43
27661377 TCTAATCAGT
* * * *
27661387 ATACGACACATAAGTGCTTGAAACGACACACGAGGTGCCTGAA
1 ATACGACACATAAGTGCCTGAAACAACACACAAAGTGCCTGAA
*
27661430 ATACGACACATAAAGTGCCTGATATACAACACATAAAGTGCCTGA
1 ATACGACACAT-AAGTGCCTGA-A-ACAACACACAAAGTGCCTGA
27661475 TCGGCAAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 11 0.30
44 9 0.24
45 1 0.03
46 16 0.43
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (43 bp):
ATACGACACATAAGTGCCTGAAACAACACACAAAGTGCCTGAA
Found at i:27661475 original size:23 final size:23
Alignment explanation
Indices: 27661421--27661475 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
27661411 GACACACGAG
* *
27661421 GTGCCTGAAATACGACACATAAA
1 GTGCCTGATATACAACACATAAA
27661444 GTGCCTGATATACAACACATAAA
1 GTGCCTGATATACAACACATAAA
27661467 GTGCCTGAT
1 GTGCCTGAT
27661476 CGGCAAAGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (23 bp):
GTGCCTGATATACAACACATAAA
Found at i:27661633 original size:23 final size:23
Alignment explanation
Indices: 27661593--27661637 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
27661583 TTCAGTCACA
27661593 ATTTCTCACATTTTCAATTCAATC
1 ATTTCTCACATTTTCAA-TCAATC
*
27661617 ATTTTTCAC-TTTTCAATCAAT
1 ATTTCTCACATTTTCAATCAAT
27661638 TTTCAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 7 0.35
24 8 0.40
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTTCTCACATTTTCAATCAATC
Found at i:27665773 original size:40 final size:40
Alignment explanation
Indices: 27665714--27665921 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
27665704 CAATTGAATG
* * * *
27665714 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
27665754 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
27665794 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
27665834 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
27665874 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
27665914 ATATCCGG
1 ATATCCGG
27665922 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:27665852 original size:80 final size:80
Alignment explanation
Indices: 27665715--27665921 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
27665705 AATTGAATGA
* * ** * * *
27665715 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
27665780 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
27665793 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
27665858 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
27665875 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
27665922 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:27672975 original size:40 final size:40
Alignment explanation
Indices: 27672916--27673123 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
27672906 CAATTGAATG
* * * *
27672916 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
27672956 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
27672996 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
27673036 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
27673076 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
27673116 ATATCCGG
1 ATATCCGG
27673124 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:27673054 original size:80 final size:80
Alignment explanation
Indices: 27672917--27673123 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
27672907 AATTGAATGA
* * ** * * *
27672917 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
27672982 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
27672995 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
27673060 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
27673077 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
27673124 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:27677580 original size:28 final size:26
Alignment explanation
Indices: 27677511--27677628 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 26
27677501 AAATGTCCAA
27677511 CCAAAACACACCAG---TATAATCCT
1 CCAAAACACACCAGATATATAATCCT
*
27677534 CCAAAACACACCAG---TATAATCTT
1 CCAAAACACACCAGATATATAATCCT
27677557 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG-AT-ATATAATCCT
*
27677585 CCCAAACACACCAGAATAATATAATCCCT
1 CCAAAACACACCAG-AT-ATATAAT-CCT
27677614 CCAAAACACACCAGA
1 CCAAAACACACCAGA
27677629 ATAGCACAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
23 36 0.43
28 31 0.37
29 16 0.19
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (26 bp):
CCAAAACACACCAGATATATAATCCT
Found at i:27677614 original size:29 final size:28
Alignment explanation
Indices: 27677525--27677631 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
27677515 AACACACCAG
27677525 TATAATCCTCCAAAACACACCAG-----
1 TATAATCCTCCAAAACACACCAGAATAA
* * *
27677548 TATAATCTTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
27677576 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
27677604 TATAATCCCTCCAAAACACACCAGAATA
1 TATAAT-CCTCCAAAACACACCAGAATA
27677632 GCACAAAGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.31
28 30 0.42
29 20 0.28
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:27687214 original size:23 final size:23
Alignment explanation
Indices: 27687145--27687208 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
27687135 TACCTGATCA
27687145 ATATACGACACAT-AAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
*
27687167 AAATACGACACATAAAGTGCCTG
1 ATATACGACACATAAAGTGCCTG
27687190 ATATACGACACATAAAGTG
1 ATATACGACACATAAAGTG
27687209 TTTGATCGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 12 0.31
23 27 0.69
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (23 bp):
ATATACGACACATAAAGTGCCTG
Found at i:27687372 original size:23 final size:26
Alignment explanation
Indices: 27687318--27687376 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
27687308 CATATAAATC
*
27687318 TCAATTCAGTCATAATTTCTCACATTT
1 TCAATTCAATCAT-ATTTCTCACATTT
27687345 TCAATTCAATCAT-TTT-TCAC-TTT
1 TCAATTCAATCATATTTCTCACATTT
27687368 TCAA-TCAAT
1 TCAATTCAAT
27687377 TTTCAATTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 5 0.16
23 7 0.23
24 4 0.13
25 3 0.10
27 12 0.39
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (26 bp):
TCAATTCAATCATATTTCTCACATTT
Found at i:27687789 original size:22 final size:22
Alignment explanation
Indices: 27687728--27687795 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
27687718 TGAATGCTTC
*
27687728 TATGCTTTCTTTCCTTTTT-CTT
1 TATGCTTTATTT-CTTTTTACTT
* * * *
27687750 T-TGTTTTGTTTCTATTTATTT
1 TATGCTTTATTTCTTTTTACTT
27687771 TATGCTTTATTTCTTTTTACTT
1 TATGCTTTATTTCTTTTTACTT
27687793 TAT
1 TAT
27687796 TTAATTTATA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 5 0.14
21 11 0.31
22 20 0.56
ACGTcount: A:0.10, C:0.13, G:0.06, T:0.71
Consensus pattern (22 bp):
TATGCTTTATTTCTTTTTACTT
Found at i:27690030 original size:18 final size:20
Alignment explanation
Indices: 27689986--27690032 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
27689976 AGATGAAATA
27689986 TTTT-CTTCTCTTCTCACTC
1 TTTTCCTTCTCTTCTCACTC
*
27690005 TTTGTCCTTCTCTTTTC-CT-
1 TTT-TCCTTCTCTTCTCACTC
27690024 TTTTCCTTC
1 TTTTCCTTC
27690033 AATTGGGTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 6 0.24
20 3 0.12
21 10 0.40
ACGTcount: A:0.02, C:0.34, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTCCTTCTCTTCTCACTC
Found at i:27693658 original size:40 final size:39
Alignment explanation
Indices: 27693597--27693820 Score: 179
Period size: 40 Copynumber: 5.6 Consensus size: 39
27693587 CCTTTGGTGG
* * *
27693597 CTTTAGCAGTGCTTTCTAAAAACGCCGCTAAAGGT-CGA-
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGGTAC-AC
* * *
27693635 GTATTAGCGGCGCTTTTCTAAAAACGCCGCTATATGTACAC
1 CT-TTAGCGGCGCTTTT-TAAAAACGCCGCTAAAGGTACAC
* * *
27693676 CTTTAGCGGCGCATTTTAGAAAACGCCGCTAAAGAT-CAAG
1 CTTTAGCGGCGCTTTTTA-AAAACGCCGCTAAAGGTAC-AC
*
27693716 CATTAGCGGCGCTTTTTTAAGAAACGCCGCTATAA-GTACAC
1 CTTTAGCGGCGC-TTTTTAA-AAACGCCGCTA-AAGGTACAC
* * * *
27693757 CTTTAGCGGCGCCTTTTAAAAAACGCCGCTAATGCT-CGAT
1 CTTTAGCGGCG-CTTTTTAAAAACGCCGCTAAAGGTAC-AC
*
27693797 CTTTAGCGGCGTTTTTTGAAAAAC
1 CTTTAGCGGCGCTTTTT-AAAAAC
27693821 ACCACAAAAA
Statistics
Matches: 149, Mismatches: 23, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
38 1 0.01
39 20 0.13
40 88 0.59
41 36 0.24
42 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGGTACAC
Found at i:27693803 original size:81 final size:80
Alignment explanation
Indices: 27693614--27693820 Score: 283
Period size: 81 Copynumber: 2.6 Consensus size: 80
27693604 AGTGCTTTCT
* * *
27693614 AAAAACGCCGCTAAAGGTCGAGT-ATTAGCGGCGCTTTTCTAAAAACGCCGCTATATGTACACCT
1 AAAAACGCCGCTAAAGATCGA-TCATTAGCGGCGCTTTTTTAAAAACGCCGCTATAAGTACACCT
27693678 TTAGCGGCGCATTTTA
65 TTAGCGGCGCATTTTA
* * *
27693694 GAAAACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTACACCT
1 AAAAACGCCGCTAAAGATCGATCATTAGCGGCGCTTTTTTAA-AAACGCCGCTATAAGTACACCT
*
27693759 TTAGCGGCGCCTTTTA
65 TTAGCGGCGCATTTTA
* * *
27693775 AAAAACGCCGCTAATGCTCGATCTTTAGCGGCG-TTTTTTGAAAAAC
1 AAAAACGCCGCTAAAGATCGATCATTAGCGGCGCTTTTTT-AAAAAC
27693821 ACCACAAAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 46 0.41
81 65 0.59
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (80 bp):
AAAAACGCCGCTAAAGATCGATCATTAGCGGCGCTTTTTTAAAAACGCCGCTATAAGTACACCTT
TAGCGGCGCATTTTA
Found at i:27694076 original size:22 final size:21
Alignment explanation
Indices: 27694052--27694173 Score: 86
Period size: 22 Copynumber: 5.7 Consensus size: 21
27694042 ATGTATTACG
* *
27694052 GGTTTAGGGATTATGGTTTATG
1 GGTTTAGGGATTAGGGTTTA-A
* *
27694074 GGTTAAAGG-TTAGGGTTTAA
1 GGTTTAGGGATTAGGGTTTAA
*
27694094 GTTTTAGGGTATTAGGGTTTAA
1 GGTTTAGGG-ATTAGGGTTTAA
*
27694116 GGTTTAGGGGTTAAGGG-TTAA
1 GGTTTAGGGATT-AGGGTTTAA
* ** **
27694137 GGATTTATGTTTTATTGTTTAA
1 GG-TTTAGGGATTAGGGTTTAA
*
27694159 GGTTTAGGGGTTAGG
1 GGTTTAGGGATTAGG
27694174 AGCTAGGAAT
Statistics
Matches: 76, Mismatches: 19, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
20 6 0.08
21 27 0.36
22 43 0.57
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (21 bp):
GGTTTAGGGATTAGGGTTTAA
Found at i:27694128 original size:43 final size:43
Alignment explanation
Indices: 27694054--27694190 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
27694044 GTATTACGGG
* * ** *
27694054 TTTAGGG-ATTATGGTTTATGGGTTAAAGGTTAGGGTTTAA-GT
1 TTTAGGGTATTATGGTTTAAGGTTTAGGGGTTAGGG-TTAAGGA
*
27694096 TTTAGGGTATTAGGGTTTAAGGTTTAGGGGTTAAGGGTTAAGGA
1 TTTAGGGTATTATGGTTTAAGGTTTAGGGGTT-AGGGTTAAGGA
* * * *
27694140 TTTA-TGTTTTATTGTTTAAGGTTTAGGGGTTAGGAGCT-AGGAA
1 TTTAGGGTATTATGGTTTAAGGTTTAGGGGTTAGG-GTTAAGG-A
27694183 TTTAGGGT
1 TTTAGGGT
27694191 TTAGATTAAT
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
42 13 0.17
43 53 0.69
44 11 0.14
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (43 bp):
TTTAGGGTATTATGGTTTAAGGTTTAGGGGTTAGGGTTAAGGA
Found at i:27694193 original size:7 final size:7
Alignment explanation
Indices: 27694051--27694173 Score: 68
Period size: 7 Copynumber: 17.3 Consensus size: 7
27694041 TATGTATTAC
27694051 GGGTTTA
1 GGGTTTA
*
27694058 GGGATTA
1 GGGTTTA
*
27694065 TGGTTTA
1 GGGTTTA
*
27694072 TGGGTTAA
1 -GGGTTTA
*
27694080 AGG-TTA
1 GGGTTTA
27694086 GGGTTTA
1 GGGTTTA
* *
27694093 AGTTTTA
1 GGGTTTA
27694100 GGGTATTA
1 GGGT-TTA
27694108 GGGTTTA
1 GGGTTTA
*
27694115 AGGTTTA
1 GGGTTTA
*
27694122 GGGGTTAA
1 -GGGTTTA
*
27694130 GGGTTAA
1 GGGTTTA
*
27694137 GGATTTA
1 GGGTTTA
* *
27694144 TGTTTTA
1 GGGTTTA
**
27694151 TTGTTTA
1 GGGTTTA
*
27694158 AGGTTTA
1 GGGTTTA
*
27694165 GGGGTTA
1 GGGTTTA
27694172 GG
1 GG
27694174 AGCTAGGAAT
Statistics
Matches: 87, Mismatches: 25, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
6 4 0.05
7 66 0.76
8 17 0.20
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:27696931 original size:2 final size:2
Alignment explanation
Indices: 27696924--27696967 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
27696914 TGTTACTCTG
27696924 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
27696966 AT
1 AT
27696968 TTAATAAGCT
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:27697915 original size:2 final size:2
Alignment explanation
Indices: 27697908--27697934 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27697898 GCTGCTACAG
27697908 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
27697935 AGCTAACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:27699004 original size:43 final size:42
Alignment explanation
Indices: 27698955--27699090 Score: 218
Period size: 42 Copynumber: 3.2 Consensus size: 42
27698945 AGGTCATATT
* * *
27698955 TTTAGCGGCGTTTTTAGGAAAAGCGCCACTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTTTA-TAAATGCGCCGCTAAAGGTCCTGGTC
*
27698998 TTTAGCGGCGTTTTTATAAATGCGCCGCTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTTTATAAATGCGCCGCTAAAGGTCCTGGTC
*
27699040 TTTATCGGCGTTTTTATAAATGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTTTATAAATGCGCCGCTAAAGGTCCTGGTC
27699082 TTTAGCGGC
1 TTTAGCGGC
27699091 AGTGTATATA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 70 0.81
43 16 0.19
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTATAAATGCGCCGCTAAAGGTCCTGGTC
Found at i:27703033 original size:13 final size:13
Alignment explanation
Indices: 27703017--27703043 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27703007 TCTATTTCCA
27703017 TATTCTGTATCTG
1 TATTCTGTATCTG
27703030 TATTCTGTATCTG
1 TATTCTGTATCTG
27703043 T
1 T
27703044 GTTTAGGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTCTGTATCTG
Found at i:27703256 original size:13 final size:14
Alignment explanation
Indices: 27703237--27703277 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
27703227 ATAGGGGTAA
27703237 GATTCTGTATATCT
1 GATTCTGTATATCT
*
27703251 -ATTCTGTACATCT
1 GATTCTGTATATCT
27703264 GATTCTG-ATATCT
1 GATTCTGTATATCT
27703277 G
1 G
27703278 TATTTGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:27707485 original size:26 final size:26
Alignment explanation
Indices: 27707456--27707563 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
27707446 TGGTACAAAT
27707456 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
27707482 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27707508 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
27707534 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
27707560 TGAT
1 TGAT
27707564 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:27710089 original size:2 final size:2
Alignment explanation
Indices: 27710082--27710114 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
27710072 GGACATTTAG
27710082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27710115 GTTAAATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27710847 original size:40 final size:40
Alignment explanation
Indices: 27710686--27710829 Score: 243
Period size: 40 Copynumber: 3.6 Consensus size: 40
27710676 ATATATGTGC
27710686 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
* **
27710726 AAGGCATTCGTACTTGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
27710766 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
* *
27710806 AAGGCATTCGTGCTGGTTGTTATA
1 AAGGCATTCGTGCGGGTTATTATA
27710830 TCCGAGCCAA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
Found at i:27710847 original size:80 final size:80
Alignment explanation
Indices: 27710686--27710847 Score: 243
Period size: 80 Copynumber: 2.0 Consensus size: 80
27710676 ATATATGTGC
*
27710686 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACTTGTTATTATAA
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTATTATAA
* ** *
27710751 CCGGGTTAAGTCCCG
66 CCGAGCCAAATCCCG
* * *
27710766 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTGTTATAT
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTATTATAA
*
27710831 CCGAGCCAAATTCCG
66 CCGAGCCAAATCCCG
27710846 AA
1 AA
27710848 AGTATTTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (80 bp):
AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTACTGGTTATTATAA
CCGAGCCAAATCCCG
Found at i:27718413 original size:2 final size:2
Alignment explanation
Indices: 27718406--27718436 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27718396 GGACATTTAG
27718406 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
27718437 GTTAAATTCG
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:27719064 original size:40 final size:40
Alignment explanation
Indices: 27719007--27719110 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
27718997 ATATATGTAC
*
27719007 AAGGCATTCGTGGGGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
*
27719047 AAGGCATTCGTGCGGGTTATTATAACTGGGTTAAGTCCCG
1 AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
* *
27719087 AAGGCATTCGTGCTGGTTGTTATA
1 AAGGCATTCGTGCGGGTTATTATA
27719111 TCCGAGCCAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (40 bp):
AAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCG
Found at i:27735409 original size:2 final size:2
Alignment explanation
Indices: 27735402--27735428 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27735392 AAAGAAGACA
27735402 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
27735429 AATATTGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27737073 original size:29 final size:27
Alignment explanation
Indices: 27737022--27737075 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
27737012 TATATATGTA
**
27737022 TTTTTTTTAATTATGAGTTTAGGTCTT
1 TTTTTTTTAATTATGAGAATAGGTCTT
27737049 TTTTTTTTATATTTATGAGAATAGGTC
1 TTTTTTTTA-A-TTATGAGAATAGGTC
27737076 AGTGAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 1 0.04
29 13 0.57
ACGTcount: A:0.22, C:0.04, G:0.15, T:0.59
Consensus pattern (27 bp):
TTTTTTTTAATTATGAGAATAGGTCTT
Found at i:27741695 original size:40 final size:39
Alignment explanation
Indices: 27741650--27741857 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
27741640 CGGAATACAA
*
27741650 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
27741690 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
27741730 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
27741770 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
27741810 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
27741850 CCGGATAT
1 CCGGATAT
27741858 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:27741790 original size:80 final size:81
Alignment explanation
Indices: 27741650--27741855 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
27741640 CGGAATACAA
* * *
27741650 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
27741714 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
27741730 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
27741793 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
27741810 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
27741856 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:27743697 original size:46 final size:44
Alignment explanation
Indices: 27743638--27743752 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
27743628 ACAGGACAGA
* *
27743638 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
27743684 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
27743728 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
27743753 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:27743733 original size:44 final size:45
Alignment explanation
Indices: 27743638--27743771 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
27743628 ACAGGACAGA
* *
27743638 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
27743684 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
27743728 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
27743772 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:27757555 original size:28 final size:27
Alignment explanation
Indices: 27757492--27757561 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
27757482 ATAGTGAGTC
*
27757492 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
27757519 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
27757547 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27757562 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:27765819 original size:3 final size:3
Alignment explanation
Indices: 27765811--27765838 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
27765801 TTTCTGCATT
27765811 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
27765839 ATGATAGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:27766098 original size:16 final size:16
Alignment explanation
Indices: 27766077--27766108 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27766067 CTATTGTTAC
27766077 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
27766093 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
27766109 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:27766151 original size:3 final size:3
Alignment explanation
Indices: 27766133--27766264 Score: 103
Period size: 3 Copynumber: 44.3 Consensus size: 3
27766123 TCATTGTTTC
* * * * *
27766133 TTA TTA TT- TTA CTA TTA TTA TCTA ATA -TA TCA TCA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
* *
27766177 TT- TTCA TTA TAA CTTA ATA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TT-A TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
27766222 TTA TTA TTA TTA TTA TTA TT- TAA TATA TTA TTT TTA CTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
27766265 CGTCATATTG
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
2 9 0.09
3 87 0.84
4 8 0.08
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:27770289 original size:15 final size:15
Alignment explanation
Indices: 27770269--27770297 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27770259 TTACTTTCCA
27770269 AGAGGTAGAAAAGAG
1 AGAGGTAGAAAAGAG
27770284 AGAGGTAGAAAAGA
1 AGAGGTAGAAAAGA
27770298 AAATCTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.38, T:0.07
Consensus pattern (15 bp):
AGAGGTAGAAAAGAG
Found at i:27778556 original size:205 final size:205
Alignment explanation
Indices: 27778176--27779093 Score: 1322
Period size: 205 Copynumber: 4.5 Consensus size: 205
27778166 TAGGCCGCAG
* * * * *
27778176 CATAACAGATCTGGTCTACAGATG-TTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTAGCCTTCAGATGTTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
27778240 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
66 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* * * * **
27778305 AAGATGATTTGTTGTCTCTGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGG
131 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGG
27778370 AGAGCAGACA
196 AGAGCAGACA
* *
27778380 CATAGCAGATCTCGCCTTCAGATGATTT-CACTGAAGCAGATCCAAGATGGTTTGGCATCCTTAT
1 CATAGCAGATCTAGCCTTCAGATG-TTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
27778444 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
* * * * **
27778509 TAAGATGATTTGTCGTCTCTGTGTTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
130 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATG
*
27778574 GAGAGCAAACA
195 GAGAGCAGACA
27778585 CATAGCAGATCTAGCCTTCAGATGATTT-CACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 CATAGCAGATCTAGCCTTCAGATG-TTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
27778649 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCAC--G--T--GA--AAGCAAATC
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
* * *
27778706 TAAGATGATTTGTCATCTCTGTATTGTCAAAGAACAAAT-GAAAGTCTAGCATCTCCACTTCAAT
130 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCG-AAGTCTGGCATCTCCACTTCAAT
*
27778770 GGAGAGCAGATA
194 GGAGAGCAGACA
* * * *
27778782 CATAGTAGATCT-GACCTTCAGATGTTTATACTGAAGCAAAATCCAAGATGATTTGGCATCCTTG
1 CATAGCAGATCTAG-CCTTCAGATGTTTACACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTG
* * *
27778846 TGCTTATAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAAC
64 TGTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAAT
*
27778911 CTAAGATGATTTGTGGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAT
129 CTAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAT
*
27778976 GGAGAGCAGATA
194 GGAGAGCAGACA
* * *
27778988 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTAGCCTTCAGATGTTTACACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGT
* * * *
27779053 GCTTACAAGGAACAAATTGAAGACATAGCAGATTTGACTTT
65 GTTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTT
27779094 TAGATGTTCC
Statistics
Matches: 655, Mismatches: 43, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
196 5 0.01
197 101 0.15
198 67 0.10
199 2 0.00
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 22 0.03
205 275 0.42
206 178 0.27
207 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (205 bp):
CATAGCAGATCTAGCCTTCAGATGTTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGG
AGAGCAGACA
Found at i:27778964 original size:403 final size:406
Alignment explanation
Indices: 27778194--27779093 Score: 1323
Period size: 403 Copynumber: 2.2 Consensus size: 406
27778184 ATCTGGTCTA
* *
27778194 CAGATG-TTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCG
1 CAGATGTTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG
**
27778258 AAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTTGTCTC
66 AAGACATAGCTGATTTGGCTTTCACG-GA-TA-GA-GAAGCAAATCTAAGATGATTTGTCATCTC
* * * * * **
27778323 TGTATTGTTAGAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAG
127 TGTATTGTCAAAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGACACATAGCAG
* * *
27778388 ATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTATGTTTACAAG
192 ATCTCGCCTTCAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTATGCTTACAAG
*
27778453 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
257 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAACCTAAGATGAT
* * * * **
27778518 TTGTCGTCTCTGTGTTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAAA
322 TTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAA
*
27778583 CACATAGCAGATCTAGCCTT
387 CACATAGCAGATCTAACCTT
27778603 CAGATGATTT-CACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATC
1 CAGATG-TTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATC
27778667 GAAGACATAGCTGATTTGGCTTTCAC-G-T-GA-AAGCAAATCTAAGATGATTTGTCATCTCTGT
65 GAAGACATAGCTGATTTGGCTTTCACGGATAGAGAAGCAAATCTAAGATGATTTGTCATCTCTGT
* *
27778728 ATTGTCAAAGAACAAAT-GAAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGTAGAT
130 ATTGTCAAAGAACAAATCG-AAGTCTAGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGAT
* * *
27778792 CT-GACCTTCAGATG-TTTATACTGAAGCAAAATCCAAGATGATTTGGCATCCTTGTGCTTATAA
194 CTCG-CCTTCAGATGATTT-CACTGAAGC-AAATCCAAGATGATTTGGCATCCTTATGCTTACAA
27778855 GGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAACCTAAGATGA
256 GGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAACCTAAGATGA
* *
27778920 TTTGTGGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAG
321 TTTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAA
*
27778985 ATACATAGCAGATCTAACCTT
386 ACACATAGCAGATCTAACCTT
* * * *
27779006 CAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATT
1 CAGATGTTTACACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATC
* *
27779071 GAAGACATAGCAGATTTGACTTT
65 GAAGACATAGCTGATTTGGCTTT
27779094 TAGATGTTCC
Statistics
Matches: 447, Mismatches: 36, Indels: 21
0.89 0.07 0.04
Matches are distributed among these distances:
401 5 0.01
402 105 0.23
403 184 0.41
404 65 0.15
406 1 0.00
408 1 0.00
409 6 0.01
410 78 0.17
411 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (406 bp):
CAGATGTTTACACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCG
AAGACATAGCTGATTTGGCTTTCACGGATAGAGAAGCAAATCTAAGATGATTTGTCATCTCTGTA
TTGTCAAAGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGACACATAGCAGATCT
CGCCTTCAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTATGCTTACAAGGAAC
AAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAACCTAAGATGATTTGT
CGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAAACACA
TAGCAGATCTAACCTT
Found at i:27779282 original size:44 final size:44
Alignment explanation
Indices: 27779234--27779477 Score: 187
Period size: 44 Copynumber: 5.6 Consensus size: 44
27779224 CCGTATTGTC
* *
27779234 AGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTAT
1 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
* * ** * *
27779278 AGGGAA-TAGATCGAAGATAGCAGAACTGACATTCCTGTGCTTA-
1 AGGGAACAAG-TTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
* * ** *
27779321 CGGCGAAGC-AGATCGAAGATTTCAGCA--TGGAATCCCTGTGCTTAT
1 AGG-GAA-CAAG-TTGAAGATAGCAG-ATTTGGCATCCCTGTGCTTAT
*
27779366 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTAT
1 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
** * * * *
27779410 AATGAACAAGTTGACGACAGCAGATTTGGCATCCCTATGTTTAT
1 AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
* *
27779454 GGGGAAC-AGATCGAAGA-AGCAGAT
1 AGGGAACAAG-TTGAAGATAGCAGAT
27779478 CAAGAACTCA
Statistics
Matches: 160, Mismatches: 30, Indels: 21
0.76 0.14 0.10
Matches are distributed among these distances:
42 1 0.01
43 24 0.15
44 118 0.74
45 16 0.10
46 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (44 bp):
AGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTAT
Found at i:27779977 original size:26 final size:26
Alignment explanation
Indices: 27779931--27780014 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 26
27779921 TATTTTGGAG
*
27779931 AGAAGAGA--TTTTTTTTGAGATTCA
1 AGAAGAGATTTTTTTTTTTAGATTCA
27779955 AGAAGAGATTTTTTTTTTTAGATTCA
1 AGAAGAGATTTTTTTTTTTAGATTCA
*
27779981 AGAGGAGATTTTTCTTTTTTTTGAGATTCA
1 AGAAGAGA--TTT-TTTTTTTT-AGATTCA
27780011 AGAA
1 AGAA
27780015 CAAAAAATCA
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 8 0.16
26 22 0.43
28 3 0.06
29 8 0.16
30 10 0.20
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (26 bp):
AGAAGAGATTTTTTTTTTTAGATTCA
Found at i:27780476 original size:3 final size:3
Alignment explanation
Indices: 27780468--27780497 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
27780458 TGCATTTTAA
27780468 TAT TAT TAT TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA
27780498 GTGTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:27780599 original size:3 final size:3
Alignment explanation
Indices: 27780591--27780620 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27780581 TGTATTTCTA
27780591 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27780621 ATGGTAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:27780746 original size:16 final size:15
Alignment explanation
Indices: 27780715--27780757 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
27780705 CCTTCATTCC
*
27780715 ATTATTATTATTACT
1 ATTATTATTTTTACT
27780730 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
27780746 ATCATTATTTTT
1 ATTATTATTTTT
27780758 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:27780882 original size:16 final size:16
Alignment explanation
Indices: 27780861--27780892 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27780851 CTATTGTTAC
27780861 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
27780877 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
27780893 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:27780900 original size:3 final size:3
Alignment explanation
Indices: 27780892--27781066 Score: 83
Period size: 3 Copynumber: 58.0 Consensus size: 3
27780882 TTCTCATCAC
* * * *
27780892 TAT TAT TAT AATT TAT CAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
27780938 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
27780983 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAG CAT TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
27781029 T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
27781067 CGTCATATTG
Statistics
Matches: 127, Mismatches: 32, Indels: 26
0.69 0.17 0.14
Matches are distributed among these distances:
2 10 0.08
3 102 0.80
4 15 0.12
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:27796501 original size:16 final size:17
Alignment explanation
Indices: 27796472--27796504 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27796462 ACATATAAAG
*
27796472 TAAATGAAATAAAAGAA
1 TAAATGAAACAAAAGAA
27796489 TAAA-GAAACAAAAGAA
1 TAAATGAAACAAAAGAA
27796505 AAGAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
TAAATGAAACAAAAGAA
Found at i:27796576 original size:19 final size:19
Alignment explanation
Indices: 27796552--27796588 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27796542 GAAACAAGGG
*
27796552 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
27796571 AAGGAAAGAAAGAAAAAG
1 AAGGAAAGAAAGAAAAAG
27796589 GAAAAATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:27797314 original size:18 final size:18
Alignment explanation
Indices: 27797291--27797325 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27797281 TACTGAAAAA
27797291 TTGACTGCTACCGAATAT
1 TTGACTGCTACCGAATAT
* *
27797309 TTGACTGTTACTGAATA
1 TTGACTGCTACCGAATA
27797326 AATGATTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (18 bp):
TTGACTGCTACCGAATAT
Found at i:27802535 original size:16 final size:17
Alignment explanation
Indices: 27802506--27802538 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27802496 ACATATAAAG
*
27802506 TAAATGAAATAAAAGAA
1 TAAATGAAACAAAAGAA
27802523 TAAA-GAAACAAAAGAA
1 TAAATGAAACAAAAGAA
27802539 AAGAAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (17 bp):
TAAATGAAACAAAAGAA
Found at i:27802610 original size:19 final size:19
Alignment explanation
Indices: 27802586--27802625 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
27802576 GAAACAAGGG
*
27802586 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
27802605 AAGGAAAGAAAGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
27802624 AA
1 AA
27802626 AAAAATGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:27802625 original size:10 final size:10
Alignment explanation
Indices: 27802590--27802630 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
27802580 CAAGGGAAGG
*
27802590 AAAGAAGGAA
1 AAAGAAAGAA
*
27802600 AAAGAAAG-G
1 AAAGAAAGAA
27802609 AAAGAAAGAA
1 AAAGAAAGAA
27802619 AAAGAAA-AA
1 AAAGAAAGAA
27802628 AAA
1 AAA
27802631 TGAGATTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:27803004 original size:18 final size:17
Alignment explanation
Indices: 27802957--27803004 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
27802947 TGGAAAAATG
27802957 AATTAAA-TTGAATTGA
1 AATTAAATTTGAATTGA
27802973 AATTAAATTATGAA-TGA
1 AATTAAATT-TGAATTGA
27802990 AATTGAAAATTTGAA
1 AATT--AAATTTGAA
27803005 AGTTTACTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 8 0.29
19 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.35
Consensus pattern (17 bp):
AATTAAATTTGAATTGA
Found at i:27803348 original size:18 final size:18
Alignment explanation
Indices: 27803325--27803359 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27803315 TACTGAAAAA
27803325 TTGACTGCTACCGAATAT
1 TTGACTGCTACCGAATAT
* *
27803343 TTGACTGTTACTGAATA
1 TTGACTGCTACCGAATA
27803360 AATGATTGAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (18 bp):
TTGACTGCTACCGAATAT
Found at i:27807219 original size:17 final size:17
Alignment explanation
Indices: 27807197--27807232 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27807187 TGTCTCTTGA
*
27807197 TGAACAGTTGTATCTTT
1 TGAACAATTGTATCTTT
27807214 TGAACAATTGTATCTTT
1 TGAACAATTGTATCTTT
27807231 TG
1 TG
27807233 GTGAATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (17 bp):
TGAACAATTGTATCTTT
Found at i:27807985 original size:16 final size:15
Alignment explanation
Indices: 27807960--27808016 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
27807950 GACTACCGAT
27807960 AAAAAATAATATAAC
1 AAAAAATAATATAAC
27807975 AAAATAATAAT-T---
1 AAAA-AATAATATAAC
**
27807987 AAATTATAATATAAC
1 AAAAAATAATATAAC
27808002 ACAAAAATAATATAA
1 A-AAAAATAATATAA
27808017 TCTACGAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
11 5 0.16
12 4 0.12
15 6 0.19
16 17 0.53
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATAATATAAC
Found at i:27816932 original size:15 final size:16
Alignment explanation
Indices: 27816899--27816942 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 16
27816889 AAATCCTTAG
27816899 AAAAGAAGAAAAGTTAAA
1 AAAAGAA-AAAAG-TAAA
27816917 AAAAGAAAAAAG-AAA
1 AAAAGAAAAAAGTAAA
27816932 AAAAGTAAAAA
1 AAAAG-AAAAA
27816943 CTTAAAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.32
16 5 0.20
17 5 0.20
18 7 0.28
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (16 bp):
AAAAGAAAAAAGTAAA
Found at i:27820355 original size:27 final size:29
Alignment explanation
Indices: 27820316--27820370 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 29
27820306 TTTGACCGTT
27820316 TTAATTAACTT-AATAT-TTAATATTTTC
1 TTAATTAACTTAAATATATTAATATTTTC
** *
27820343 TTAATTATTTTAAATATATTTATATTTT
1 TTAATTAACTTAAATATATTAATATTTT
27820371 ATAATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 9 0.39
28 5 0.22
29 9 0.39
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (29 bp):
TTAATTAACTTAAATATATTAATATTTTC
Found at i:27821790 original size:16 final size:15
Alignment explanation
Indices: 27821745--27821791 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
27821735 ATAATATATC
27821745 ATAATTTATTTAAATA
1 ATAATTT-TTTAAATA
*
27821761 A-AA-TATTTAAATA
1 ATAATTTTTTAAATA
27821774 ATAATTTTTTAATATA
1 ATAATTTTTTAA-ATA
27821790 AT
1 AT
27821792 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 8 0.31
16 6 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATAATTTTTTAAATA
Done.