Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 44 of 172
Found at i:11665648 original size:188 final size:189
Alignment explanation
Indices: 11665271--11665648 Score: 496
Period size: 188 Copynumber: 2.0 Consensus size: 189
11665261 ACTGGTGGCG
* * *
11665271 AAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATACCAGA
1 AAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGA
* * * *
11665336 TCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAGAAAACAGATCTTGTCTTCATGTACTGGC
66 TCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGAAAACAGATCTTATCTTCATGTACTGAC
* * * *
11665401 GTGAAGTAGATCAAATATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATCGA
131 GTGAAGTAGATCAAAGATACCAGATCATGCCTTCCCATACTGATAGCGAAGCAGATCGA
11665460 AAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGA-AACAGA
1 AAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGA
* * * * * * *
11665524 TCTTGTC-TCCCTATACTAGTGGTGGAGTAGATCGAAGAAAATAGATCTTATCTTCATGTATTGA
66 TCTTGCCTTCCC-ATACTAGTGGCGAAGCAGATCAAAGAAAACAGATCTTATCTTCATGTACTGA
* * *
11665588 CGTGAAGTAGATCAAAGATAGCATG-TCATGTCTTCCTATA-TCGATAGCGAAG-AGGATCGA
130 CGTGAAGTAGATCAAAGATACCA-GATCATGCCTTCCCATACT-GATAGCGAAGCA-GATCGA
11665648 A
1 A
11665649 TATACAGATT
Statistics
Matches: 164, Mismatches: 21, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
187 6 0.04
188 101 0.62
189 57 0.35
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (189 bp):
AAGCAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGA
TCTTGCCTTCCCATACTAGTGGCGAAGCAGATCAAAGAAAACAGATCTTATCTTCATGTACTGAC
GTGAAGTAGATCAAAGATACCAGATCATGCCTTCCCATACTGATAGCGAAGCAGATCGA
Found at i:11665881 original size:44 final size:46
Alignment explanation
Indices: 11665818--11665915 Score: 123
Period size: 44 Copynumber: 2.2 Consensus size: 46
11665808 CAGTAGAATC
* **
11665818 GATC-GAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTA
1 GATCGGAAGAAAGCAGATCTTGTCTTCACATATTGGACGTGAAGTA
* *
11665862 GATCGGAA-AAAGCAGATCTTGTCTTCCCATATTGGAGGTGAAGTA
1 GATCGGAAGAAAGCAGATCTTGTCTTCACATATTGGACGTGAAGTA
11665907 GATC-GAAGA
1 GATCGGAAGA
11665916 TACAAGTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
44 30 0.65
45 16 0.35
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (46 bp):
GATCGGAAGAAAGCAGATCTTGTCTTCACATATTGGACGTGAAGTA
Found at i:11666151 original size:128 final size:128
Alignment explanation
Indices: 11665918--11666155 Score: 361
Period size: 128 Copynumber: 1.9 Consensus size: 128
11665908 ATCGAAGATA
* * * **
11665918 CAAGTTTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAATAACCGGTCCTATCTCCTTGAAGT
1 CAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAATAACCAATCCTATCTCCTTGAAGT
** * *
11665983 TGCAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGATAGCGGATCGCAT
66 TGCAACGGAGTGGATTAAAACCACAGATCTCATCTATCTGAAGTTGCAGATAGCGGATCGCAT
*
11666046 CAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAACA-AACTAATCCTATCTCCTTGAAG
1 CAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAA-ATAACCAATCCTATCTCCTTGAAG
*
11666110 TTGCAACGGAGTGGATTATAACCACAGATCTCATCTATCTGAAGTT
65 TTGCAACGGAGTGGATTAAAACCACAGATCTCATCTATCTGAAGTT
11666156 ACAGTAGAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
128 97 0.99
129 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (128 bp):
CAAGTATTATCTCCCTGAAGTTGCAGTGGAGCAAACAGAAATAACCAATCCTATCTCCTTGAAGT
TGCAACGGAGTGGATTAAAACCACAGATCTCATCTATCTGAAGTTGCAGATAGCGGATCGCAT
Found at i:11667540 original size:22 final size:23
Alignment explanation
Indices: 11667483--11667542 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
11667473 GCCATATTTA
*
11667483 TACACATGCAT-TTTTCATATAG
1 TACATATGCATATTTTCATATAG
*
11667505 TACATACGCATATTTTCCATATA-
1 TACATATGCATATTTT-CATATAG
11667528 TA-ATATGCATATTTT
1 TACATATGCATATTTT
11667543 TAAGTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 21 0.64
23 6 0.18
24 6 0.18
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (23 bp):
TACATATGCATATTTTCATATAG
Found at i:11670259 original size:3 final size:3
Alignment explanation
Indices: 11670251--11670302 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
11670241 CCCAATCCAC
11670251 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11670299 TAT T
1 TAT T
11670303 GGCATTATTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11671645 original size:49 final size:49
Alignment explanation
Indices: 11671573--11671693 Score: 188
Period size: 49 Copynumber: 2.5 Consensus size: 49
11671563 CACGGCCATG
* * *
11671573 TGAAATCATGCAGGTCGTGTGGGTAGGCTATGTGGGGCACACGACCGTA
1 TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
* *
11671622 TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACTGTG
1 TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
*
11671671 TGAAATCATGCAGACCATGTGGG
1 TGAAATCATGCAGGCCATGTGGG
11671694 CCTTTAGGGT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.21
Consensus pattern (49 bp):
TGAAATCATGCAGGCCATGTGGGTAGGCCATGTGGGGCACACGACCGTA
Found at i:11671651 original size:13 final size:13
Alignment explanation
Indices: 11671633--11671657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11671623 GAAATCATGC
11671633 AGGCCATGTGGGT
1 AGGCCATGTGGGT
11671646 AGGCCATGTGGG
1 AGGCCATGTGGG
11671658 GCACACGACT
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:0.16, G:0.48, T:0.20
Consensus pattern (13 bp):
AGGCCATGTGGGT
Found at i:11673491 original size:48 final size:48
Alignment explanation
Indices: 11673420--11673614 Score: 194
Period size: 48 Copynumber: 4.1 Consensus size: 48
11673410 CTATGCGCAT
* * * *
11673420 CGATATTCTGTTATGACACAAGGGTGGCACTGACTGTGTGCGGGCCAC
1 CGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGCCAC
* * * *
11673468 CGATATTCTGTAATGATACAAGGGTGGCACAGACTGTGTGCAGGCCGC
1 CGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGCCAC
* * * * * *
11673516 CAATAACCTGTTAA-GATATAAGGGTGGCACGGACTATGTGCAGACCAC
1 CGATAATCTG-TAATGACACAAGGGTGGCACGGACTGTGTGCAGGCCAC
* * * * * *
11673564 CGAGAATCTGTTATCACACAAAGGTGGTACGGACTGTGTGCAAGCCAC
1 CGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGCCAC
11673612 CGA
1 CGA
11673615 GAAATCTATT
Statistics
Matches: 120, Mismatches: 25, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
47 2 0.02
48 115 0.96
49 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (48 bp):
CGATAATCTGTAATGACACAAGGGTGGCACGGACTGTGTGCAGGCCAC
Found at i:11679353 original size:48 final size:48
Alignment explanation
Indices: 11679290--11679486 Score: 196
Period size: 48 Copynumber: 4.1 Consensus size: 48
11679280 ATCGATATTT
* * *
11679290 TGTTATGACACAAGGGTGGCACGGACTGTGTGGAGCCCACCGATATTC
1 TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATAATC
* * * *
11679338 TGTTATGATACAAGGGTGGCACGGACTGTGTACAGGCCACCAATAACC
1 TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATAATC
* * * * * * ** *
11679386 TGTTAAGATATAAGGTTGGCGCGGACTATGTGCAGGCCATTGAGAATC
1 TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATAATC
* * * * *
11679434 TGTTATCACACAAAGGTGGTACAGACTGTGTGCAGGCCACCGAGAAATC
1 TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGA-TAATC
11679483 TGTT
1 TGTT
11679487 TTTATTTCAA
Statistics
Matches: 117, Mismatches: 31, Indels: 1
0.79 0.21 0.01
Matches are distributed among these distances:
48 109 0.93
49 8 0.07
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (48 bp):
TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACCGATAATC
Found at i:11683026 original size:21 final size:21
Alignment explanation
Indices: 11683002--11683043 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11682992 CCTTAAACAA
11683002 GAATATCAATGATGGTTAATC
1 GAATATCAATGATGGTTAATC
11683023 GAATATCAATGATGGTTAATC
1 GAATATCAATGATGGTTAATC
11683044 ATTAACTCTT
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:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
GAATATCAATGATGGTTAATC
Found at i:11688563 original size:16 final size:16
Alignment explanation
Indices: 11688542--11688574 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11688532 AAGTAATGTT
11688542 GCAGTGAGGTGTCAAG
1 GCAGTGAGGTGTCAAG
11688558 GCAGTGAGGTGTCAAG
1 GCAGTGAGGTGTCAAG
11688574 G
1 G
11688575 TAATGTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.45, T:0.18
Consensus pattern (16 bp):
GCAGTGAGGTGTCAAG
Found at i:11704348 original size:26 final size:27
Alignment explanation
Indices: 11704312--11704363 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
11704302 ATTTAAACGA
11704312 AGAAAGAGAAA-AAAA-AAAACAAAGAC
1 AGAAAGAGAAATAAAAGAAAA-AAAGAC
*
11704338 AGAAAGGGAAATAAAAGAAAAAAAGA
1 AGAAAGAGAAATAAAAGAAAAAAAGA
11704364 ATAAACCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 9 0.39
28 4 0.17
ACGTcount: A:0.75, C:0.04, G:0.19, T:0.02
Consensus pattern (27 bp):
AGAAAGAGAAATAAAAGAAAAAAAGAC
Found at i:11708677 original size:11 final size:10
Alignment explanation
Indices: 11708661--11708698 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11708651 TTAGTGTTAA
11708661 TTAATTAAAGG
1 TTAATT-AAGG
11708672 TTAATTAA-G
1 TTAATTAAGG
*
11708681 TTAATTAAGA
1 TTAATTAAGG
11708691 TTAATTAA
1 TTAATTAA
11708699 AAGTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 9 0.36
10 10 0.40
11 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (10 bp):
TTAATTAAGG
Found at i:11708694 original size:19 final size:19
Alignment explanation
Indices: 11708657--11708698 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
11708647 ATGTTTAGTG
*
11708657 TTAATTAATTAAAGGTTAA
1 TTAATTAATTAAAGATTAA
11708676 TTAAGTTAATT-AAGATTAA
1 TTAA-TTAATTAAAGATTAA
11708695 TTAA
1 TTAA
11708699 AAGTTAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (19 bp):
TTAATTAATTAAAGATTAA
Found at i:11714220 original size:18 final size:17
Alignment explanation
Indices: 11714194--11714234 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
11714184 AATAAAGTTT
*
11714194 AAAAATCTAAATAGTCC
1 AAAAATCTAAAGAGTCC
*
11714211 AAAAAGTCTAGAGAGTCC
1 AAAAA-TCTAAAGAGTCC
11714229 AAAAAT
1 AAAAAT
11714235 TTACAGAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (17 bp):
AAAAATCTAAAGAGTCC
Found at i:11714642 original size:90 final size:89
Alignment explanation
Indices: 11714484--11714649 Score: 314
Period size: 90 Copynumber: 1.9 Consensus size: 89
11714474 CCTAACCACT
11714484 ACACACATATGGGTATAAAGAACCTATCCAACCCTACACACCACTCAGTGTCGTTAGGACACTTT
1 ACACACATATGGGTATAAAGAACCTATCCAACCCTACACACCACTCAGTGTCGTTAGGACACTTT
11714549 ACAGAATAGTTACATATAATCCCA
66 ACAGAATAGTTACATATAATCCCA
*
11714573 ACACACCATATGGGTATAAAGCACCTATCCAACCCTACACACCACTCAGTGTCGTTAGGACACTT
1 ACACA-CATATGGGTATAAAGAACCTATCCAACCCTACACACCACTCAGTGTCGTTAGGACACTT
11714638 TACAGAATAGTT
65 TACAGAATAGTT
11714650 GCAGTTGAGC
Statistics
Matches: 75, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
89 5 0.07
90 70 0.93
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (89 bp):
ACACACATATGGGTATAAAGAACCTATCCAACCCTACACACCACTCAGTGTCGTTAGGACACTTT
ACAGAATAGTTACATATAATCCCA
Found at i:11714722 original size:16 final size:16
Alignment explanation
Indices: 11714701--11714731 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11714691 TACAAAATAC
11714701 TTAATATAGCATATAA
1 TTAATATAGCATATAA
11714717 TTAATATAGCATATA
1 TTAATATAGCATATA
11714732 TCAGACATGC
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:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
TTAATATAGCATATAA
Found at i:11715398 original size:76 final size:75
Alignment explanation
Indices: 11715305--11715452 Score: 251
Period size: 76 Copynumber: 2.0 Consensus size: 75
11715295 AAAAGCGATA
* * *
11715305 AACCTTACCTTCGTGGATTGAAAACCAACAAAAAAACCCAAAACAGATTGAAAAATACTTGCAAA
1 AACCTTACATTCATGGATTGAAAACCAACAAAAAAAACCAAAACAGATTGAAAAATACTTGCAAA
11715370 ATATGGAACGT
66 AT-TGGAACGT
*
11715381 AACCTTACATTCATGGATTGAAAACCAACAAAAAAAACCAAAACTGATTGAAAAATACTTGCAAA
1 AACCTTACATTCATGGATTGAAAACCAACAAAAAAAACCAAAACAGATTGAAAAATACTTGCAAA
11715446 ATTGGAA
66 ATTGGAA
11715453 TATGAAACAC
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
75 5 0.07
76 63 0.93
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.20
Consensus pattern (75 bp):
AACCTTACATTCATGGATTGAAAACCAACAAAAAAAACCAAAACAGATTGAAAAATACTTGCAAA
ATTGGAACGT
Found at i:11723151 original size:18 final size:18
Alignment explanation
Indices: 11723128--11723162 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11723118 TGCGTGTGTG
11723128 AATAG-AAATGAAGAAATA
1 AATAGAAAATG-AGAAATA
11723146 AATAGAAAATGAGAAAT
1 AATAGAAAATGAGAAAT
11723163 GAGAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (18 bp):
AATAGAAAATGAGAAATA
Found at i:11725486 original size:57 final size:59
Alignment explanation
Indices: 11725373--11725520 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
11725363 AATTGACGGT
11725373 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCAAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATCC-AT-CTGATATAGCCCTCCCAAAGAATATGTG-G
*
11725436 AAAAAGATCTAGCCCGGACGGGTGAT-C-T-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
* * * *
11725492 AAAATGGATTTATCCCGGACGGGTAATCC
1 AAAA-AGATCTAGCCCGGACGGGTGATCC
11725521 GAATTAAGGT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.06
57 44 0.56
58 1 0.01
59 1 0.01
61 1 0.01
62 21 0.27
63 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (59 bp):
AAAAAGATCTAGCCCGGACGGGTGATCCATCTGATATAGCCCTCCCAAAGAATATGTGG
Found at i:11725764 original size:67 final size:67
Alignment explanation
Indices: 11725646--11725773 Score: 204
Period size: 67 Copynumber: 1.9 Consensus size: 67
11725636 ATATTACAGA
* *
11725646 GGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAGGTTTGCAGGAGTGTGCTCTCTTGTA
1 GGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAAGTTCGCAGGAGTGTGCTCTCTTGTA
11725711 GG
66 GG
* *
11725713 GGATTTAGCCTGGACTGGTAATTCC-GCTGTAAGAAATGAAGTTCGCGGGAGTGTGCTCTCT
1 GGATTTAGCCTGGACTAGTAA-TCCTGCTGTAAGAAATGAAGTTCGCAGGAGTGTGCTCTCT
11725774 GAATTGAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
67 53 0.95
68 3 0.05
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.30
Consensus pattern (67 bp):
GGATTTAGCCTGGACTAGTAATCCTGCTGTAAGAAATGAAGTTCGCAGGAGTGTGCTCTCTTGTA
GG
Found at i:11729073 original size:23 final size:21
Alignment explanation
Indices: 11729003--11729112 Score: 123
Period size: 23 Copynumber: 5.1 Consensus size: 21
11728993 CCTGATCAGT
*
11729003 ATACAACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
11729023 AAACGACACACGATGTGCCTG
1 ATACGACACATAAAGTGCCTG
11729044 ATACGACACATAAAGTGCCTAAG
1 ATACGACACATAAAGTGCCT--G
11729067 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
11729088 ATGTACGACACATAAAGTGTCTG
1 A--TACGACACATAAAGTGCCTG
11729111 AT
1 AT
11729113 CGGGAAAGCC
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.11
21 27 0.36
23 41 0.54
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:11730096 original size:4 final size:4
Alignment explanation
Indices: 11730081--11730127 Score: 53
Period size: 4 Copynumber: 11.8 Consensus size: 4
11730071 TAAACCCTAG
*
11730081 TCTT TCCTT TCTT TCTCT T-TT TCTT T-TT TTTT TCTT TCTT TCTT TCT
1 TCTT T-CTT TCTT TCT-T TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCT
11730128 CCCCTGTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
3 5 0.13
4 27 0.71
5 6 0.16
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TCTT
Found at i:11730198 original size:19 final size:19
Alignment explanation
Indices: 11730174--11730223 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
11730164 TGTTTCTTTC
11730174 TTTCTTTTACTTCATTTGA
1 TTTCTTTTACTTCATTTGA
* *
11730193 TTTCTTTTATTTCATTTTA
1 TTTCTTTTACTTCATTTGA
11730212 TTT-TATTTACTT
1 TTTCT-TTTACTT
11730224 TATGTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 1 0.04
19 26 0.96
ACGTcount: A:0.16, C:0.12, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTCTTTTACTTCATTTGA
Found at i:11730212 original size:10 final size:10
Alignment explanation
Indices: 11730174--11730219 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
11730164 TGTTTCTTTC
11730174 TTTC-TTTTA
1 TTTCATTTTA
* *
11730183 CTTCATTTGA
1 TTTCATTTTA
11730193 TTTC-TTTTA
1 TTTCATTTTA
11730202 TTTCATTTTA
1 TTTCATTTTA
*
11730212 TTTTATTT
1 TTTCATTT
11730220 ACTTTATGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 11 0.37
10 19 0.63
ACGTcount: A:0.15, C:0.11, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTCATTTTA
Found at i:11734863 original size:9 final size:8
Alignment explanation
Indices: 11734828--11734859 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
11734818 GCCCTTAGAT
11734828 GAAAAAAA
1 GAAAAAAA
11734836 GAAAAAAA
1 GAAAAAAA
11734844 GAAAAAAA
1 GAAAAAAA
11734852 GAAAAAAA
1 GAAAAAAA
11734860 AGAATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:11746604 original size:49 final size:44
Alignment explanation
Indices: 11746402--11746611 Score: 249
Period size: 44 Copynumber: 4.7 Consensus size: 44
11746392 TTTTAATCCG
* * * *
11746402 CTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* * * *
11746446 CTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
* * * *
11746490 GTCCACTGCAACTTCAGGGAGATAAGGTTTGTGGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
*
11746534 CTTCACTGCAACTTCAGGGAGATAAGATTTGTAGCCCGTCTTCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTA----G-CTTCAATCTA
*
11746583 CTCCACTGCAACTTCAAGGAGATAAGATT
1 CTCCACTGCAACTTCAGGGAGATAAGATT
11746612 AGTGAAAAAA
Statistics
Matches: 141, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
44 104 0.74
48 1 0.01
49 36 0.26
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTA
Found at i:11749417 original size:9 final size:8
Alignment explanation
Indices: 11749382--11749413 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
11749372 GCCCTTAGAT
11749382 GAAAAAAA
1 GAAAAAAA
11749390 GAAAAAAA
1 GAAAAAAA
11749398 GAAAAAAA
1 GAAAAAAA
11749406 GAAAAAAA
1 GAAAAAAA
11749414 AGAATAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:11761294 original size:92 final size:89
Alignment explanation
Indices: 11761131--11761527 Score: 288
Period size: 92 Copynumber: 4.4 Consensus size: 89
11761121 GCCCGTCTTC
* * *
11761131 AATCTACTCCACTGCAACTTCA-AGGAGATAAGAT-TAGTTTAT-TTTTAACCTGTTCCACTGTA
1 AATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTAGTTTATACTTTAACCTGTTCCACTGCA
11761193 ACTTCAGGGAGATAAGGTTTGATAT
65 ACTTCAGGGAGATAAGGTTTGATAT
* * *
11761218 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGCTTTAATCTGTTCCATTG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTA-G-TTTATA-CTTTAACCTGTTCCACTG
* * * * *
11761283 CAACTTTAGGGAAATAAGATTCGCTATCTT
63 CAACTTCAGGGAGATAAGGTTTG--AT-AT
* * * * **
11761313 CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT--TGTA-AC-TTCACCTACTCCACTGCA
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGTTTATACTTTAACCTGTTCCACTGCA
* *
11761373 ACTTCAGGGAGATAATGTTTGCTAT
65 ACTTCAGGGAGATAAGGTTTGATAT
* * * * * * * **
11761398 GATCTGCTCTATTGCAGCTTCAGAGAGACAAGATCTACAATTTATAGCTTCAATTTGTTCCACTG
1 AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCT--AGTTTATA-CTTTAACCTGTTCCACTG
* * * *
11761463 CAACTTTAGGGAGATAAGATTCGCTATCTT
63 CAACTTCAGGGAGATAAGGTTTG--AT-AT
* * *
11761493 CAGTCTGCTTCACTGCAACTTCAGGGAGATAAGAT
1 -AATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
11761528 TTGCTATGAT
Statistics
Matches: 233, Mismatches: 55, Indels: 35
0.72 0.17 0.11
Matches are distributed among these distances:
84 26 0.11
85 3 0.01
86 1 0.00
87 30 0.13
88 32 0.14
89 5 0.02
90 7 0.03
91 4 0.02
92 62 0.27
94 3 0.01
95 4 0.02
96 56 0.24
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (89 bp):
AATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTAGTTTATACTTTAACCTGTTCCACTGCAA
CTTCAGGGAGATAAGGTTTGATAT
Found at i:11761380 original size:180 final size:180
Alignment explanation
Indices: 11760955--11761528 Score: 619
Period size: 180 Copynumber: 3.2 Consensus size: 180
11760945 GTTTTAATCC
* * ** *
11760955 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAATTTGCTCCACTGCAACTTTAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTC-ACCTGCTCCACTGCAACTTCAGGGA
* * * * * * * *
11761020 GATAAGATTGGTATCTTCAATCTGGTCCACTGCAACTTCAGGGAGATAAG------G-TTTGTGG
65 GATAAGGTTTG-AT-AT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAG
* * * *
11761078 CTTTAATCTACTT-CACTGCAACTTCAGGGAGATAAGATTTG-TAGCCCGTCTTCAATCT
127 CTTTAATCT-GTTCCACTGCAACTTTAGGGAGATAAGATTCGCTA-----TCTTCAGTCT
* * ** * * *
11761136 ACTCCACTGCAACTTCAAGGAGATAAGATTAGTTTATTTTTAACCTGTTCCACTGTAACTTCAGG
1 GCTCCACTGCAACTTCAGGGAGATAAGATTAG--TA-ACTTCACCTGCTCCACTGCAACTTCAGG
11761201 GAGATAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGC
63 GAGATAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGC
* *
11761266 TTTAATCTGTTCCATTGCAACTTTAGGGAAATAAGATTCGCTATCTTCAGTCT
128 TTTAATCTGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCT
*
11761319 GCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCACCTACTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAACTTCACCTGCTCCACTGCAACTTCAGGGA
* * * * * * *
11761383 GATAATGTTTGCTATGATCTGCTCTATTGCAGCTTCAGAGAGACAAGATCTACAATTTATAGCTT
65 GATAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGCTT
* *
11761448 CAATTTGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCT
130 TAATCTGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCT
*
11761499 GCTTCACTGCAACTTCAGGGAGATAAGATT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT
11761529 TGCTATGATC
Statistics
Matches: 335, Mismatches: 45, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
179 2 0.01
180 185 0.55
181 32 0.10
182 2 0.01
183 67 0.20
184 4 0.01
186 3 0.01
187 38 0.11
188 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (180 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTAGTAACTTCACCTGCTCCACTGCAACTTCAGGGAG
ATAAGGTTTGATATAATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGCTTT
AATCTGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCT
Found at i:11761559 original size:48 final size:45
Alignment explanation
Indices: 11760950--11761566 Score: 388
Period size: 44 Copynumber: 13.6 Consensus size: 45
11760940 TTATTGTTTT
* * * *
11760950 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * *
11760994 AATTTGCTCCACTGCAACTTTAGGGAGATAAGATT-GGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * ** *
11761038 AATCTGGTCCACTGCAACTTCAGGGAGATAAGGTTTG-TGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * *
11761082 AATCTACTTCACTGCAACTTCAGGGAGATAAGATTTG-TAGCCCGTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTA-----TCTTC
* * * * * *
11761131 AATCTACTCCACTGCAACTTCAAGGAGATAAGATTAGTTTATTTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCG-CTATCTTC
* * * * * *
11761177 AACCTGTTCCACTGTAACTTCAGGGAGATAAGGTTTG--AT-AT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * * *
11761218 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACGATTTATAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-CG--CTAT--CTTC
* * * *
11761269 AATCTGTTCCATTGCAACTTTAGGGAAATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* *
11761314 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCTATCTTC
* * *
11761358 -ACCTACTCCACTGCAACTTCAGGGAGATAATG-TTTGCTA---T-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAA-GATTCGCTATCTTC
* * * * * * **
11761398 GATCTGCTCTATTGCAGCTTCAGAGAGACAAGATCTACAATTTATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-C--GCTAT--CTTC
* * *
11761449 AATTTGTTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * *
11761494 AGTCTGCTTCACTGCAACTTCAGGGAGATAAGATTTGCTATGATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGC--T-ATCTTC
11761542 AATC--CATCCCACTGCAACTTCAGGG
1 AATCTGC-T-CCACTGCAACTTCAGGG
11761567 GTATTGGATT
Statistics
Matches: 447, Mismatches: 86, Indels: 76
0.73 0.14 0.12
Matches are distributed among these distances:
40 1 0.00
41 53 0.12
42 5 0.01
43 32 0.07
44 115 0.26
45 71 0.16
46 36 0.08
47 10 0.02
48 25 0.06
49 40 0.09
50 4 0.01
51 55 0.12
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
Found at i:11762430 original size:21 final size:21
Alignment explanation
Indices: 11762404--11762449 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11762394 CTTGGCCTTT
*
11762404 TTTTTCATTTCTCTTT-TTTTG
1 TTTTTCATTTCT-TTTCTTTTC
*
11762425 TTTTTCTTTTCTTTTCTTTTC
1 TTTTTCATTTCTTTTCTTTTC
11762446 TTTT
1 TTTT
11762450 CTCTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTCATTTCTTTTCTTTTC
Found at i:11762434 original size:5 final size:5
Alignment explanation
Indices: 11762400--11762451 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
11762390 TCACCTTGGC
11762400 CTTTT -TTTT CATTTCT CTTTT -TTTGT -TTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT C-TTT-T CTTTT CTTT-T CTTTT CTTTT CTTTT CTTTT
11762445 CTTTT CT
1 CTTTT CT
11762452 CTTTTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 8 0.19
5 26 0.62
6 6 0.14
7 2 0.05
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (5 bp):
CTTTT
Found at i:11765025 original size:3 final size:3
Alignment explanation
Indices: 11765017--11765071 Score: 83
Period size: 3 Copynumber: 18.3 Consensus size: 3
11765007 ATTAATATTG
* * *
11765017 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA GAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11765065 TAA TAA T
1 TAA TAA T
11765072 GGTAGTAACA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:11765078 original size:15 final size:15
Alignment explanation
Indices: 11765016--11765085 Score: 77
Period size: 15 Copynumber: 4.7 Consensus size: 15
11765006 AATTAATATT
11765016 GTAATAATAATAATA
1 GTAATAATAATAATA
*
11765031 ATAATAATAATAATA
1 GTAATAATAATAATA
* * *
11765046 ATAATAATAATGAGA
1 GTAATAATAATAATA
**
11765061 GTAATAATAATGGTA
1 GTAATAATAATAATA
*
11765076 GTAACAATAA
1 GTAATAATAA
11765086 AAAATACACT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 48 1.00
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.30
Consensus pattern (15 bp):
GTAATAATAATAATA
Found at i:11765330 original size:15 final size:14
Alignment explanation
Indices: 11765310--11765360 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11765300 ACAATATGTT
*
11765310 AATAATAAGTATATA
1 AATAATAAGGATA-A
*
11765325 AATAATAAGGGTAA
1 AATAATAAGGATAA
11765339 AATAATAATGG-TAA
1 AATAATAA-GGATAA
11765353 CAATAATA
1 -AATAATA
11765361 TTAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (14 bp):
AATAATAAGGATAA
Found at i:11766941 original size:46 final size:47
Alignment explanation
Indices: 11766864--11767096 Score: 283
Period size: 46 Copynumber: 4.9 Consensus size: 47
11766854 TCTATTCCAC
* * *
11766864 TGCAACACCAGGGAAATAAGATTCGCAGCCTTCAGCCTTAATCTA-T
1 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
* * * *
11766910 TGCAACGCCAGGGAAATACGATTTGCTGCCTTTAGCTTTAATCTATTCCAC
1 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTA---C-T
* *
11766961 TGCAACGCCAAGGAAATAAGATTCGCTGCCTTTAGCTTTAATCTACT
1 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
* *
11767008 AG-AACTCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC-
1 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
* * *
11767053 TACAATGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCT
1 TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
11767097 GATCCACTTT
Statistics
Matches: 161, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
46 117 0.73
47 1 0.01
48 1 0.01
51 42 0.26
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (47 bp):
TGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACT
Found at i:11766948 original size:97 final size:97
Alignment explanation
Indices: 11766845--11767096 Score: 336
Period size: 97 Copynumber: 2.6 Consensus size: 97
11766835 CCATAATTTG
* * *
11766845 TAGCTTTAATCTATTCCACTGCAACACCAGGGAAATAAGATTCGCAGCCTTCAGCCTTAATCTA-
1 TAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
* * *
11766909 TTGCAACGCCAGGGAAATACGATTTGCTGCCTT
66 TAG-AACGCCAGGGAAATAAGATTCGCTGCCTT
* *
11766942 TAGCTTTAATCTATTCCACTGCAACGCCAAGGAAATAAGATTCGCTGCCTTTAGCTTTAATCTAC
1 TAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
*
11767007 TAGAACTCCAGGGAAATAAGATTCGCTGCCTT
66 TAGAACGCCAGGGAAATAAGATTCGCTGCCTT
* * * *
11767039 CAGCTTTAATC---T--ACTACAATGCCAGGGAAATAAGATTCGTTGCCTTCAGCTTTAATCT
1 TAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCT
11767097 GATCCACTTT
Statistics
Matches: 139, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
92 41 0.29
94 1 0.01
97 95 0.68
98 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (97 bp):
TAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTAC
TAGAACGCCAGGGAAATAAGATTCGCTGCCTT
Found at i:11767112 original size:21 final size:21
Alignment explanation
Indices: 11767086--11767125 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11767076 CGTTGCCTTC
11767086 AGCTTTAATCTGA-TCCACTTT
1 AGCTTTAATCT-ATTCCACTTT
11767107 AGCTTTAATCTATTCCACT
1 AGCTTTAATCTATTCCACT
11767126 GCAACGTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.42
Consensus pattern (21 bp):
AGCTTTAATCTATTCCACTTT
Found at i:11767594 original size:24 final size:24
Alignment explanation
Indices: 11767567--11767615 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11767557 ATTGCCATTG
*
11767567 CTGTAATCTTCAAGGTTTAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
*
11767591 CTGTAATCTTCAGGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
11767615 C
1 C
11767616 CGTACTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (24 bp):
CTGTAATCTTCAAGGTTCAATCCA
Found at i:11768596 original size:45 final size:44
Alignment explanation
Indices: 11768545--11768630 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 44
11768535 CTTTTTCTTT
* *
11768545 TTTTTAGGACTCAAAGTGCCATTTGTGGGTTTTCACCTTGGTCTC
1 TTTTTAGGACTCAAAGCGCCATTTGTAGGTTTTCA-CTTGGTCTC
*
11768590 TTTTTAGGACTCAAAGCGCCCTTTGTAGGTTTTCACTTGGT
1 TTTTTAGGACTCAAAGCGCCATTTGTAGGTTTTCACTTGGT
11768631 TCATTCTCCC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 6 0.16
45 32 0.84
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (44 bp):
TTTTTAGGACTCAAAGCGCCATTTGTAGGTTTTCACTTGGTCTC
Found at i:11778143 original size:16 final size:16
Alignment explanation
Indices: 11778122--11778155 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11778112 TTTTATGATG
* *
11778122 AAATGCTATGCAGTCA
1 AAATGCCATGCAATCA
11778138 AAATGCCATGCAATCA
1 AAATGCCATGCAATCA
11778154 AA
1 AA
11778156 GCAAAACACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (16 bp):
AAATGCCATGCAATCA
Found at i:11779986 original size:15 final size:14
Alignment explanation
Indices: 11779966--11780016 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
11779956 ATATGGTAAT
*
11779966 AATAATAAGTATATA
1 AATAATAAGGATA-A
*
11779981 AATAATAAGGGTAA
1 AATAATAAGGATAA
11779995 AATAATAATGG-TAA
1 AATAATAA-GGATAA
11780009 CAATAATA
1 -AATAATA
11780017 TTAAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.59, C:0.02, G:0.12, T:0.27
Consensus pattern (14 bp):
AATAATAAGGATAA
Found at i:11799090 original size:27 final size:28
Alignment explanation
Indices: 11799002--11799099 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
11798992 CCTGAGATTG
* * * *
11799002 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
11799031 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
11799059 ACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
11799086 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
11799100 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:11799113 original size:29 final size:27
Alignment explanation
Indices: 11799032--11799113 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
11799022 AATTGTACAG
* *
11799032 CACTAAGTGTGCGAGTTTGATTATATAA
1 CACTAAGTGTGCGA-CTTAATTATATAA
* * *
11799060 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAA
*
11799087 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
11799114 TTTTGAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 20 0.43
29 5 0.11
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAA
Found at i:11820876 original size:16 final size:16
Alignment explanation
Indices: 11820851--11820890 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
11820841 TTATTAAATT
11820851 ATTTTAAATTAATTAA
1 ATTTTAAATTAATTAA
*
11820867 ATTTTCAATTAATTAA
1 ATTTTAAATTAATTAA
11820883 AGTTTTAA
1 A-TTTTAA
11820891 CACAATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAAATTAATTAA
Found at i:11822952 original size:43 final size:43
Alignment explanation
Indices: 11822860--11822985 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
11822850 ATTTATGTGG
* * * * * *
11822860 AAAAACACCGCTATAAAACATGACCTTTAGTGGTGCCTTCCCC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCACC
* * *
11822903 AAAAACGTCGCTATAGAACATGACCTTTAGCGGCACTTTTACC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCACC
* * *
11822946 ATAAACGCCGCTAAAGGACATGACCTTTAGCGGCGCTTTC
1 AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTC
11822986 CCTACAAACA
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTATAGAACATGACCTTTAGCGGCGCTTTCACC
Found at i:11823482 original size:18 final size:18
Alignment explanation
Indices: 11823459--11823495 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11823449 TAAAGGAAGT
11823459 AAATTTTAACAAACCCAA
1 AAATTTTAACAAACCCAA
11823477 AAATTTTAACAAACCCAA
1 AAATTTTAACAAACCCAA
11823495 A
1 A
11823496 CAAAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (18 bp):
AAATTTTAACAAACCCAA
Found at i:11823977 original size:40 final size:41
Alignment explanation
Indices: 11823855--11824020 Score: 228
Period size: 41 Copynumber: 4.1 Consensus size: 41
11823845 AATTTAAAAA
* **
11823855 TTTGCGGCGTTTATCGTAAAAACGTTGCTATTGCCTTACCT
1 TTTGCGGCGTTTATGGTAAAAACGCCGCTATTGCCTTACCT
* * *
11823896 TTTGTGGCGTTTATGGTAAAAATGCCGCTATTGCCTAACCT
1 TTTGCGGCGTTTATGGTAAAAACGCCGCTATTGCCTTACCT
*
11823937 TTTGCGGCGTTTATGGT-AAAACGCCGCGATTGCCTTACCT
1 TTTGCGGCGTTTATGGTAAAAACGCCGCTATTGCCTTACCT
* * *
11823977 TTTGCGGCGTTTATGGGAGAAACACCGCTATTGCC-TACCT
1 TTTGCGGCGTTTATGGTAAAAACGCCGCTATTGCCTTACCT
11824017 TTTG
1 TTTG
11824021 AGGTGTTTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 45 0.41
41 65 0.59
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (41 bp):
TTTGCGGCGTTTATGGTAAAAACGCCGCTATTGCCTTACCT
Found at i:11823991 original size:81 final size:81
Alignment explanation
Indices: 11823855--11824020 Score: 235
Period size: 81 Copynumber: 2.0 Consensus size: 81
11823845 AATTTAAAAA
** * * * **
11823855 TTTGCGGCGTTTATCGTAAAAACGTTGCTATTGCCTTACCTTTTGTGGCGTTTATGGTAAAAATG
1 TTTGCGGCGTTTATCGTAAAAACGCCGCGATTGCCTTACCTTTTGCGGCGTTTATGGGAAAAACA
11823920 CCGCTATTGCCTAACCT
66 CCGCTATTGCCT-ACCT
* *
11823937 TTTGCGGCGTTTATGGT-AAAACGCCGCGATTGCCTTACCTTTTGCGGCGTTTATGGGAGAAACA
1 TTTGCGGCGTTTATCGTAAAAACGCCGCGATTGCCTTACCTTTTGCGGCGTTTATGGGAAAAACA
11824001 CCGCTATTGCCTACCT
66 CCGCTATTGCCTACCT
11824017 TTTG
1 TTTG
11824021 AGGTGTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
80 8 0.11
81 51 0.68
82 16 0.21
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.36
Consensus pattern (81 bp):
TTTGCGGCGTTTATCGTAAAAACGCCGCGATTGCCTTACCTTTTGCGGCGTTTATGGGAAAAACA
CCGCTATTGCCTACCT
Found at i:11824531 original size:27 final size:27
Alignment explanation
Indices: 11824500--11824551 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
11824490 TTTCACATTC
*
11824500 TTTCATTAGCGACATGTTTTACATTTA
1 TTTCATTAGCAACATGTTTTACATTTA
*
11824527 TTTCATTAGCAACATGTTTTTCATT
1 TTTCATTAGCAACATGTTTTACATT
11824552 AGCAACCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (27 bp):
TTTCATTAGCAACATGTTTTACATTTA
Found at i:11832738 original size:6 final size:6
Alignment explanation
Indices: 11832727--11832765 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11832717 TGGTTTTCTC
*
11832727 AAAATG AAAATG GAAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
11832766 TTCATTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:11832750 original size:18 final size:19
Alignment explanation
Indices: 11832727--11832765 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
11832717 TGGTTTTCTC
11832727 AAAATGAAAATG-GAAATG
1 AAAATGAAAATGAGAAATG
11832745 AAAATGAAAATGAGAAATG
1 AAAATGAAAATGAGAAATG
11832764 AA
1 AA
11832766 TTCATTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (19 bp):
AAAATGAAAATGAGAAATG
Found at i:11840060 original size:24 final size:24
Alignment explanation
Indices: 11840033--11840078 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11840023 AGAACAGTCC
* * *
11840033 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAACGAGCAGCTT
11840057 CAAAAGCAAATGAACGAGCAGC
1 CAAAAGCAAATGAACGAGCAGC
11840079 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.20, G:0.26, T:0.09
Consensus pattern (24 bp):
CAAAAGCAAATGAACGAGCAGCTT
Found at i:11857956 original size:17 final size:16
Alignment explanation
Indices: 11857930--11857961 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11857920 CTAATCTGTT
11857930 TAAATGTAAATACTTG
1 TAAATGTAAATACTTG
11857946 TAAATTGTAAATACTT
1 TAAA-TGTAAATACTT
11857962 CGATCCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
TAAATGTAAATACTTG
Found at i:11858053 original size:12 final size:12
Alignment explanation
Indices: 11858038--11858063 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11858028 TTCCATTTTA
11858038 TTTTATTTTGTT
1 TTTTATTTTGTT
11858050 TTTTATTTTGTT
1 TTTTATTTTGTT
11858062 TT
1 TT
11858064 GCTTGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTATTTTGTT
Found at i:11865367 original size:16 final size:19
Alignment explanation
Indices: 11865342--11865378 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
11865332 TTTTTGGTTT
11865342 TTTTTCTTTCT-TT-AATC
1 TTTTTCTTTCTATTGAATC
11865359 TTTTT-TTTCTATTGAATC
1 TTTTTCTTTCTATTGAATC
11865377 TT
1 TT
11865379 GATTAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.14, C:0.14, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTCTTTCTATTGAATC
Found at i:11868174 original size:27 final size:27
Alignment explanation
Indices: 11868136--11868187 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
11868126 AGGTCAATCA
* *
11868136 ATGACTGAAATACTCCCATAGGGTACC
1 ATGACCGAAATACCCCCATAGGGTACC
11868163 ATGACCGAAATACCCCCATAGGGTA
1 ATGACCGAAATACCCCCATAGGGTA
11868188 AAATGACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTACC
Found at i:11868193 original size:27 final size:27
Alignment explanation
Indices: 11868135--11868194 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
11868125 GAGGTCAATC
* * *
11868135 AATGACTGAAATACTCCCATAGGGTAC
1 AATGACCGAAATACCCCCATAGGGTAA
*
11868162 CATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
11868189 AATGAC
1 AATGAC
11868195 TATTATACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:11868393 original size:26 final size:26
Alignment explanation
Indices: 11868357--11868411 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
11868347 TGGAGGAAGT
11868357 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGTAGCTTTGCTGCG
*
11868383 ATACTATTACTTGTAGCTTTGCTGCG
1 ATACTATTACTGGTAGCTTTGCTGCG
11868409 ATA
1 ATA
11868412 TTGGTGTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGTAGCTTTGCTGCG
Found at i:11870780 original size:17 final size:17
Alignment explanation
Indices: 11870747--11870780 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11870737 GGTAGTTTCG
*
11870747 GTTTAATAATTAAATTA
1 GTTTAATAAATAAATTA
*
11870764 GTTTAATAAATATATTA
1 GTTTAATAAATAAATTA
11870781 ATTTCTCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
GTTTAATAAATAAATTA
Found at i:11872026 original size:21 final size:21
Alignment explanation
Indices: 11872002--11872064 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
11871992 TTCAATTTAA
*
11872002 ACAAAAAGCATTGATACCTTT
1 ACAAAAAGTATTGATACCTTT
11872023 ACAAAAAGTATTGATACCTTT
1 ACAAAAAGTATTGATACCTTT
11872044 ACAAAAAGTATTGATACCTTT
1 ACAAAAAGTATTGATACCTTT
11872065 TACCAAGCTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (21 bp):
ACAAAAAGTATTGATACCTTT
Found at i:11874967 original size:44 final size:42
Alignment explanation
Indices: 11874768--11875140 Score: 139
Period size: 44 Copynumber: 8.6 Consensus size: 42
11874758 GATTTGCTCT
** * **
11874768 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCA
1 CTGCAACTTCAGAGAGATAAGA--CTTGCTTTTAATCTGCTCCA
* * * * **
11874812 CTACAACTTCAGGGAGATAGGATTATCGGC-TTTAGCCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGACT-T--GCTTTTAATCTGCTCCA
* * ** * * *
11874856 CTGCAACTTCAGGGAGATGAGGTTTTCCATCTTCAGTCTGC-CTCA
1 CTGCAACTTCAGAGAGAT-AAGACTTGC-T-TTTAATCTGCTC-CA
* * * *
11874901 CTGCAACTTAAG-GAGTACAAGACTTGCTTACTTAGTTTGCTCCA
1 CTGCAACTTCAGAGAG-ATAAGACTTGCTT--TTAATCTGCTCCA
* * * * * *
11874945 CTGCAACTTCAGAGAGATAAGACTAG-ATGTGATCTACT-CT
1 CTGCAACTTCAGAGAGATAAGACTTGCTTTTAATCTGCTCCA
* ** * *
11874985 CTGCAACTTCAGAGAAATAAGATCCAAGGTTTTAAT-TCACTCCA
1 CTGCAACTTCAGAGAGATAAGA--CTTGCTTTTAATCT-GCTCCA
* * * * *
11875029 CTGCAAATTCAGGGAGATAGGATTATCGGC-TTTAACCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGACT-T--GCTTTTAATCTGCTCCA
* * *
11875073 CTGCAACTTCAGAGAGATGAGATTTGCTTACTTAGTCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGACTTGCTT--TTAATCTGCTCCA
*
11875117 CTGCAACTTCAGGGAGATAAGACT
1 CTGCAACTTCAGAGAGATAAGACT
11875141 AGATGAGATC
Statistics
Matches: 245, Mismatches: 59, Indels: 50
0.69 0.17 0.14
Matches are distributed among these distances:
40 22 0.09
41 7 0.03
42 7 0.03
43 10 0.04
44 165 0.67
45 34 0.14
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
CTGCAACTTCAGAGAGATAAGACTTGCTTTTAATCTGCTCCA
Found at i:11875210 original size:84 final size:84
Alignment explanation
Indices: 11874939--11875219 Score: 262
Period size: 84 Copynumber: 3.3 Consensus size: 84
11874929 TACTTAGTTT
* * * *
11874939 GCTCCACTGCAACTTCAGAGAGATAAGACTAGATGTGATCTACTCTCTGCAACTTCAGAGAAATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATA
* *
11875004 AGATCCAAGGTTTTAATTC
66 AGATCCAACGTTTTAATCC
* * * * * * * *
11875023 ACTCCACTGCAAATTCAGGGAGATAGGATTATCGGCTTTA-ACCTGCTCCACTGCAACTTCAGAG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTA---G-ATGAGATCTGCT-CTCTGCAACTTCAGAG
* *** * *
11875087 AGATGAGAT-TTGC-TTACTTAGTCT
61 AGATAAGATCCAACGTT--TTAATCC
* * *
11875111 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCGACTTTAAAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATA
11875176 AGATCCAACGTTTTAATCC
66 AGATCCAACGTTTTAATCC
*
11875195 GTTCCACTGCAACTTCAGGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
11875220 GGATTATTGG
Statistics
Matches: 149, Mismatches: 38, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
84 77 0.52
85 8 0.05
86 4 0.03
87 6 0.04
88 54 0.36
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCCAACGTTTTAATCC
Found at i:11878288 original size:21 final size:20
Alignment explanation
Indices: 11878264--11878311 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
11878254 GTGATCTGTA
11878264 AACCCTGTTGCATAT-TGTGCG
1 AACCCTGTT--ATATATGTGCG
*
11878285 AACCCAGTTATATCATGTGCG
1 AACCCTGTTATAT-ATGTGCG
11878306 AACCCT
1 AACCCT
11878312 ATATTATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
21 19 0.83
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (20 bp):
AACCCTGTTATATATGTGCG
Found at i:11878971 original size:17 final size:18
Alignment explanation
Indices: 11878946--11878979 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11878936 TATGGGTATT
*
11878946 TTATTTTATGT-TAATTG
1 TTATATTATGTCTAATTG
11878963 TTATATTATGTCTAATT
1 TTATATTATGTCTAATT
11878980 TATAGCTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.03, G:0.09, T:0.62
Consensus pattern (18 bp):
TTATATTATGTCTAATTG
Found at i:11880640 original size:21 final size:23
Alignment explanation
Indices: 11880592--11880642 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
11880582 AGCACATTTG
*
11880592 CACAGTGAGTTACATAGGCTACTCA
1 CACAGTGAGTTACAAAGG--ACTCA
11880617 CACAGTGAGTTACAAAGG-CTACA
1 CACAGTGAGTTACAAAGGACT-CA
11880640 CAC
1 CAC
11880643 GGCCGTGTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.08
23 5 0.21
25 17 0.71
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (23 bp):
CACAGTGAGTTACAAAGGACTCA
Found at i:11892753 original size:21 final size:21
Alignment explanation
Indices: 11892729--11892774 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
11892719 CTCATTCCAC
* *
11892729 TTAAGT-TTTTTTTATACTTGA
1 TTAAGTATTTTATTA-ACTTAA
11892750 TTAAGTATTTTATTAACTTAA
1 TTAAGTATTTTATTAACTTAA
11892771 TTAA
1 TTAA
11892775 TTAGGTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (21 bp):
TTAAGTATTTTATTAACTTAA
Found at i:11893204 original size:16 final size:16
Alignment explanation
Indices: 11893180--11893228 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
11893170 TTCGCTATAT
* *
11893180 TGGATTAGAGGCGTAA
1 TGGAATAGAGGTGTAA
11893196 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
11893212 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
11893228 T
1 T
11893229 AGCAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.02, G:0.37, T:0.27
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:11893481 original size:18 final size:17
Alignment explanation
Indices: 11893460--11893494 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
11893450 TTATTATTAA
*
11893460 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
11893478 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
11893495 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:11893690 original size:119 final size:120
Alignment explanation
Indices: 11893440--11893726 Score: 470
Period size: 119 Copynumber: 2.4 Consensus size: 120
11893430 TTAATCATAT
11893440 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
11893505 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAAAATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
11893560 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAAT-A
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
11893623 TTAAAATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TCAAAATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
11893679 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
11893727 TTATCATACT
Statistics
Matches: 154, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
118 2 0.01
119 93 0.60
120 57 0.37
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAAAATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:11897733 original size:14 final size:14
Alignment explanation
Indices: 11897710--11897744 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
11897700 TTGGGTTGAG
11897710 AAAATAATTTAATT
1 AAAATAATTTAATT
*
11897724 AAAATTATTTAATT
1 AAAATAATTTAATT
11897738 AAAATAA
1 AAAATAA
11897745 ATAACATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATAATTTAATT
Found at i:11901464 original size:51 final size:50
Alignment explanation
Indices: 11901401--11901586 Score: 214
Period size: 51 Copynumber: 3.7 Consensus size: 50
11901391 CCGGTTCACA
* * * * *
11901401 TAGTAGCATGCACATAGTACTATACATGTGACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATCTGGTACACG
* * * * * *
11901452 TAGTAGCCTGCACATAGTACTACACACATAATCGA-AGCTATCCGGTACACA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-ATCTGGTACACG
*
11901503 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCA-TCTGGTACACG
11901553 TAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA
11901587 AGCAACTTCA
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 1 0.01
50 45 0.41
51 63 0.57
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATCTGGTACACG
Found at i:11901518 original size:102 final size:101
Alignment explanation
Indices: 11901391--11901579 Score: 308
Period size: 102 Copynumber: 1.9 Consensus size: 101
11901381 TCAATGATAC
* * *
11901391 CCGGTTCACATAGTAGCATGCACATAGTACTATACATGTGACCATTTTCA-TCTGATACACGTAG
1 CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGACC--TATCATTCTGATACACGTAG
11901455 TAGCCTGCACATAGTACTACACACATAATCGAAGCTAT
64 TAGCCTGCACATAGTACTACACACATAATCGAAGCTAT
* *
11901493 CCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCTGGTACACGTAGTA
1 CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGACCTATCATTCTGATACACGTAGTA
11901558 GCCTGCACATAGTACTACACAC
66 GCCTGCACATAGTACTACACAC
11901580 GTGACCAAGC
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 4 0.05
101 37 0.46
102 40 0.49
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGACCTATCATTCTGATACACGTAGTA
GCCTGCACATAGTACTACACACATAATCGAAGCTAT
Found at i:11901529 original size:26 final size:26
Alignment explanation
Indices: 11901497--11901578 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
11901487 AGCTATCCGG
11901497 TACACATAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
** **
11901523 TACACAT-GT-GACCT--ATCATTCTGG
1 TACACATAGTAG-CCTGCA-CATAGTAC
*
11901547 TACACGTAGTAGCCTGCACATAGTAC
1 TACACATAGTAGCCTGCACATAGTAC
11901573 TACACA
1 TACACA
11901579 CGTGACCAAG
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 10 0.25
26 17 0.43
27 1 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACATAGTAC
Found at i:11902779 original size:12 final size:13
Alignment explanation
Indices: 11902746--11902786 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
11902736 TGGTTTACAA
11902746 ATTTATTTTATTT
1 ATTTATTTTATTT
*
11902759 -TTAATTTTATTT
1 ATTTATTTTATTT
11902771 ATTTA-TTTATTT
1 ATTTATTTTATTT
11902783 ATTT
1 ATTT
11902787 TTATTCCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:11903268 original size:16 final size:17
Alignment explanation
Indices: 11903247--11903286 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11903237 AAAATAAAAG
11903247 AAAGAGAATA-AAGAAC
1 AAAGAGAATATAAGAAC
* *
11903263 AAAGAGAATATGAGAGC
1 AAAGAGAATATAAGAAC
11903280 AAAGAGA
1 AAAGAGA
11903287 GAACGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.62, C:0.05, G:0.25, T:0.07
Consensus pattern (17 bp):
AAAGAGAATATAAGAAC
Found at i:11904689 original size:6 final size:6
Alignment explanation
Indices: 11904666--11904730 Score: 78
Period size: 6 Copynumber: 10.5 Consensus size: 6
11904656 TTAGGTCATC
* *
11904666 TTTATT TTT-TCT TTTATT TCTATT TGTAGTGT TTTATT TTTATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTATT
11904716 TTTATT TTTATT TTT
1 TTTATT TTTATT TTT
11904731 TTGAATTCCA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
5 1 0.02
6 44 0.85
7 3 0.06
8 4 0.08
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:11904765 original size:3 final size:3
Alignment explanation
Indices: 11904757--11904784 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11904747 TTTTTAATCC
11904757 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11904785 TCTCCTTTAT
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):
TAT
Found at i:11905594 original size:10 final size:10
Alignment explanation
Indices: 11905572--11905609 Score: 53
Period size: 9 Copynumber: 4.0 Consensus size: 10
11905562 TAGGTTTTTT
11905572 TAAAAAA-AA
1 TAAAAAATAA
*
11905581 TAAATAATAA
1 TAAAAAATAA
11905591 TAAAAAATAA
1 TAAAAAATAA
11905601 -AAAAAATAA
1 TAAAAAATAA
11905610 GGCAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 15 0.58
10 11 0.42
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
TAAAAAATAA
Found at i:11905608 original size:19 final size:19
Alignment explanation
Indices: 11905572--11905609 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11905562 TAGGTTTTTT
*
11905572 TAAAAAAAATAAATAATAA
1 TAAAAAAAATAAAAAATAA
11905591 TAAAAAATAA-AAAAAATAA
1 TAAAAAA-AATAAAAAATAA
11905610 GGCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (19 bp):
TAAAAAAAATAAAAAATAA
Found at i:11910748 original size:104 final size:104
Alignment explanation
Indices: 11910483--11910851 Score: 647
Period size: 104 Copynumber: 3.6 Consensus size: 104
11910473 TAACCGTTAT
* *
11910483 TGGTGGATCTCGCACTTAGCACCACC-CTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11910547 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
11910586 TGGTGGAT-ATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
11910649 GAATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
11910690 TGGTGGAT-ACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
11910754 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
11910793 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
11910852 TTATATACAA
Statistics
Matches: 256, Mismatches: 5, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
103 125 0.49
104 131 0.51
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11911209 original size:29 final size:29
Alignment explanation
Indices: 11911176--11911239 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11911166 TAATCCACCA
11911176 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
11911205 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
11911235 CCCAA
1 CCCAA
11911240 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:11911213 original size:30 final size:30
Alignment explanation
Indices: 11911183--11911239 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11911173 CCACCCAACT
11911183 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
11911212 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
11911240 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:11916194 original size:52 final size:50
Alignment explanation
Indices: 11916130--11916313 Score: 189
Period size: 52 Copynumber: 3.7 Consensus size: 50
11916120 CCGGTTCACA
* * *
11916130 TAGTAGCATGCACATAGTACTATACATGTGGACCATTTTCATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGT-GACCA-TTTCATCTGGTACACG
** * * * *
11916182 TAGTAGCCTGCACATAGTACTACACACATAATCGAACTTC--C-GGTACACA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-C-CATTTCATCTGGTACACG
*
11916231 TAGTAG-CTGCACATAGTACTACACATGTGACC-TATCATTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTCA-TCTGGTACACG
*
11916280 TAGTAGCCTGCACATAGTACTACACACGTGACCA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA
11916314 AGCAACTTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.02
47 1 0.01
48 22 0.21
49 25 0.23
50 26 0.24
51 1 0.01
52 29 0.27
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTTCATCTGGTACACG
Found at i:11916294 original size:98 final size:100
Alignment explanation
Indices: 11916120--11916306 Score: 299
Period size: 98 Copynumber: 1.9 Consensus size: 100
11916110 TCAATGATAC
* * *
11916120 CCGGTTCACATAGTAGCATGCACATAGTACTATACATGTGGACCATTTTCATCTGATACACGTAG
1 CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGGACCA-TATCATCTGATACACGTAG
11916185 TAGCCTGCACATAGTACTACACACATAATCGAACTT
65 TAGCCTGCACATAGTACTACACACATAATCGAACTT
*
11916221 CCGGTACACATAGTAGC-TGCACATAGTACTACACATGT-GACC-TATCATTCTGGTACACGTAG
1 CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGGACCATATCA-TCTGATACACGTAG
11916283 TAGCCTGCACATAGTACTACACAC
65 TAGCCTGCACATAGTACTACACAC
11916307 GTGACCAAGC
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
97 4 0.05
98 37 0.46
99 4 0.05
100 20 0.25
101 16 0.20
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (100 bp):
CCGGTACACATAGTAGCATGCACATAGTACTACACATGTGGACCATATCATCTGATACACGTAGT
AGCCTGCACATAGTACTACACACATAATCGAACTT
Found at i:11917471 original size:4 final size:4
Alignment explanation
Indices: 11917462--11917501 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
11917452 TGGTTTACAA
*
11917462 ATTT ATTT ATTT -TTA ATTTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT
11917502 TATATCTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 2 0.06
4 27 0.84
5 3 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:11919391 original size:19 final size:17
Alignment explanation
Indices: 11919367--11919434 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 17
11919357 TTAGGTCATC
11919367 TTTATTTTTTTTCTTTAT
1 TTTATTTTTTTT-TTTAT
* *
11919385 TTCTATTTGTAGTGTTTTAT
1 TT-TATTT-T-TTTTTTTAT
11919405 TTTATTTTTATTTTTTATT
1 TTTATTTTT-TTTTTTA-T
11919424 TTTATTTTTTT
1 TTTATTTTTTT
11919435 GAATTCCAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
18 11 0.27
19 20 0.49
20 8 0.20
21 2 0.05
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.79
Consensus pattern (17 bp):
TTTATTTTTTTTTTTAT
Found at i:11919422 original size:13 final size:13
Alignment explanation
Indices: 11919367--11919433 Score: 61
Period size: 13 Copynumber: 5.2 Consensus size: 13
11919357 TTAGGTCATC
11919367 TTTATTTTT-TTT
1 TTTATTTTTATTT
*
11919379 CTTTATTTCTA-TT
1 -TTTATTTTTATTT
*
11919392 TGTAGTGTTTTA--T
1 TTTA-T-TTTTATTT
11919405 TTTATTTTTATTT
1 TTTATTTTTATTT
11919418 TTTATTTTTATTT
1 TTTATTTTTATTT
11919431 TTT
1 TTT
11919434 TGAATTCCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.11
12 4 0.09
13 32 0.71
14 4 0.09
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.79
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:11919433 original size:7 final size:6
Alignment explanation
Indices: 11919367--11919432 Score: 62
Period size: 6 Copynumber: 10.5 Consensus size: 6
11919357 TTAGGTCATC
* * *
11919367 TTTATT TTTTTT CTTTATT TCTATT TGTAGTGT TTTA-T TTTATT TTTATTT
1 TTTATT TTTATT -TTTATT TTTATT TTTA-T-T TTTATT TTTATT TTTA-TT
11919418 TTTATT TTTATT TTT
1 TTTATT TTTATT TTT
11919433 TTGAATTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
5 5 0.10
6 29 0.58
7 12 0.24
8 4 0.08
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:11919467 original size:3 final size:3
Alignment explanation
Indices: 11919459--11919486 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11919449 TTTTTAATCC
11919459 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11919487 TCTCCTTTAT
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):
TAT
Found at i:11920276 original size:12 final size:12
Alignment explanation
Indices: 11920250--11920288 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11920240 AGGTTTTTTA
11920250 AAAAAAAATAAAT
1 AAAAAAAA-AAAT
* *
11920263 AATAATAAAAAT
1 AAAAAAAAAAAT
11920275 AAAAAAAAAAAT
1 AAAAAAAAAAAT
11920287 AA
1 AA
11920289 GGCAATATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAAAAAAAAT
Found at i:11925296 original size:27 final size:27
Alignment explanation
Indices: 11925265--11925316 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
11925255 CCAATGAACC
*
11925265 GGGGAATCAGCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
11925292 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
11925317 TTTCACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:11925307 original size:104 final size:104
Alignment explanation
Indices: 11925127--11925497 Score: 541
Period size: 104 Copynumber: 3.5 Consensus size: 104
11925117 TAACCGTTAT
* * ** *
11925127 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
11925192 AATCAGTACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* *
11925231 TGGTGGAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
11925295 GAATCAGCACATAGCAACCCCTTTTCACATTTC-AAGAATA
65 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAG-ATA
*
11925335 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTGCGCAACCCCTCGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTT-AGCAACCCCTCGGGG
* *
11925400 GAATCAGCACATAGCAACCCCCCTTTTTACATTTCAAAGATG
65 GAATCAGCACATAGCAA-CCCCC-TTTCACATTTCAAAGATA
* **
11925442 TGGTGGATCACGCACATAGCA-CACCAATGAATCGGGAAATCAGCACACAGCAACCC
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
11925498 TTTATATACA
Statistics
Matches: 243, Mismatches: 17, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
103 3 0.01
104 137 0.56
105 39 0.16
106 28 0.12
107 33 0.14
108 3 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (104 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:11932825 original size:27 final size:28
Alignment explanation
Indices: 11932795--11932850 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
11932785 ACCCGCTGAA
*
11932795 TCGGGGAATCAGCACTTAGC-AACCCCC
1 TCGGGGAATCAGCACATAGCAAACCCCC
*
11932822 TCGGGGAATCAGTACATAGCAAACCCCC
1 TCGGGGAATCAGCACATAGCAAACCCCC
11932850 T
1 T
11932851 TTCACATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.16
Consensus pattern (28 bp):
TCGGGGAATCAGCACATAGCAAACCCCC
Found at i:11933066 original size:103 final size:102
Alignment explanation
Indices: 11932761--11933130 Score: 523
Period size: 103 Copynumber: 3.6 Consensus size: 102
11932751 TAACCGTTAT
* * **
11932761 TGGTGGATCTCGCACTTAGCACGCACCCGCTGAATCGGGGAATCAGCACTTAGCAACCCCCTCGG
1 TGGTGGATCACGCACATAGCAC-CA-CCAATGAATC-GGGAATCAGCACTTAGCAA-CCCCTCGG
* *
11932826 GGAATCAGTACATAGCAAACCCCCTTTCACATTTCAAAGATA
62 GGAATCAGCACATAGC-AACCCCCTTTTACATTTCAAAGATA
* *
11932868 TGGTGGAT-ATCGCACTTAGCACCACCAATGAA-CCGGAATCAGCACTTAGC-ACACCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGAATCAGCACTTAGCAAC-CCCTCGGGG
11932930 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
64 AATCAGCACATAGCAACCCCCTTTT-ACATTTCAAAGATA
11932970 TGGTGGATCACGCACATAGCACCACCAATGATATCGGGAATCAGCAC-TAGCAACCCCTCGGGGA
1 TGGTGGATCACGCACATAGCACCACCAATGA-ATCGGGAATCAGCACTTAGCAACCCCTCGGGGA
*
11933034 ATCAGCACATAGCAACCCCCTTTTATCATTTCAAAGATG
65 ATCAGCACATAGCAACCCCCTTTTA-CATTTCAAAGATA
**
11933073 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGAATCAGCACTTAGCAACCCCT
11933131 TTATATACAA
Statistics
Matches: 244, Mismatches: 10, Indels: 22
0.88 0.04 0.08
Matches are distributed among these distances:
101 11 0.05
102 81 0.33
103 109 0.45
104 15 0.06
105 6 0.02
106 2 0.01
107 20 0.08
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (102 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGAATCAGCACTTAGCAACCCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
Found at i:11933580 original size:21 final size:20
Alignment explanation
Indices: 11933556--11933598 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11933546 AAAAAATGTT
11933556 TGAAAAATGAAAAAATGAAAA
1 TGAAAAATG-AAAAATGAAAA
11933577 TGAAAAATGAAAAATGAAAA
1 TGAAAAATGAAAAATGAAAA
11933597 TG
1 TG
11933599 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (20 bp):
TGAAAAATGAAAAATGAAAA
Found at i:11933598 original size:6 final size:7
Alignment explanation
Indices: 11933556--11933596 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
11933546 AAAAAATGTT
11933556 TGAAAAA
1 TGAAAAA
11933563 TGAAAAAA
1 TG-AAAAA
11933571 TG-AAAA
1 TGAAAAA
11933577 TGAAAAA
1 TGAAAAA
11933584 TGAAAAA
1 TGAAAAA
11933591 TGAAAA
1 TGAAAA
11933597 TGGAGAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
TGAAAAA
Found at i:11935054 original size:128 final size:128
Alignment explanation
Indices: 11934825--11935228 Score: 675
Period size: 128 Copynumber: 3.1 Consensus size: 128
11934815 TCAATGAAAT
* *
11934825 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAATAGGTTGAGAAATTACAGATATTGTCTCCCTAA
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTG-GAAATTACAGATCTTGTCTCCCTAA
11934890 GCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
65 GCAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
*
11934954 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGATTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
11935019 CAATAACGGAGCAGATCAAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAACAGATTTAAGC
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
11935082 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * * *
11935147 CAGTAGTGAAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGC
66 CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
* *
11935210 CGATAA-TCCTATCTCCCTG
1 C-ACAAGTCCTATGTCCCTG
11935229 AAGTTGTAGT
Statistics
Matches: 258, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
128 218 0.84
129 40 0.16
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (128 bp):
CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
CAATAGCGGAGCAGATCGAAGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGC
Found at i:11936233 original size:32 final size:31
Alignment explanation
Indices: 11936195--11936258 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
11936185 ACACTTATTT
11936195 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
11936227 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
11936258 T
1 T
11936259 ACATATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:11936518 original size:41 final size:41
Alignment explanation
Indices: 11936473--11936669 Score: 317
Period size: 41 Copynumber: 4.8 Consensus size: 41
11936463 ACCGGCTCTT
*
11936473 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11936514 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11936555 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11936596 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11936637 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11936670 TAACGATAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 8
0.93 0.03 0.05
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 139 0.94
42 2 0.01
43 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11938187 original size:13 final size:13
Alignment explanation
Indices: 11938171--11938195 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11938161 ACATCGAATG
11938171 CACACAAAATAAA
1 CACACAAAATAAA
11938184 CACACAAAATAA
1 CACACAAAATAA
11938196 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11943870 original size:32 final size:31
Alignment explanation
Indices: 11943832--11943895 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
11943822 ACACTTATTT
11943832 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
11943864 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
11943895 T
1 T
11943896 ATACATATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:11944157 original size:41 final size:41
Alignment explanation
Indices: 11944112--11944267 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
11944102 ACCGGCTCTT
*
11944112 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11944153 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
11944194 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
11944235 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
11944268 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:11945808 original size:13 final size:13
Alignment explanation
Indices: 11945790--11945814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11945780 CCATCGAATG
11945790 CACACAAAATAAA
1 CACACAAAATAAA
11945803 CACACAAAATAA
1 CACACAAAATAA
11945815 TATTAAAATA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:11946092 original size:44 final size:44
Alignment explanation
Indices: 11945980--11946093 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
11945970 TCGCATCAGG
** * *
11945980 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAGGAAACAAG
1 TCTTATCTCCCTAAGGTTGCAGTGGAGCAGACCGAAGAAACAAA
* *** *
11946024 TCTTATCCCCCTGAA-GTCATAGTGGGGCAGACCGAAGAAGA-AAA
1 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACCGAAGAA-ACAAA
11946068 TCTTATCTCCCTAAGGTTGCAGTGGA
1 TCTTATCTCCCTAAGGTTGCAGTGGA
11946094 ACAAATTGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
43 2 0.04
44 48 0.91
45 3 0.06
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (44 bp):
TCTTATCTCCCTAAGGTTGCAGTGGAGCAGACCGAAGAAACAAA
Found at i:11947762 original size:3 final size:3
Alignment explanation
Indices: 11947754--11947781 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11947744 TTTTTAATCC
11947754 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11947782 TCTCCTTTAT
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):
TAT
Found at i:11947875 original size:14 final size:15
Alignment explanation
Indices: 11947856--11947889 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11947846 TCGAATTTAG
*
11947856 TATTTATTT-TAATA
1 TATTTATTTATAACA
11947870 TATTTATTTATAACA
1 TATTTATTTATAACA
11947885 TATTT
1 TATTT
11947890 TAATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTATTTATAACA
Found at i:11948954 original size:22 final size:22
Alignment explanation
Indices: 11948912--11948956 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11948902 ATCAGAAATC
*
11948912 CTACCCAATCAGCCTCTACACT
1 CTACCCAATCAGCCTCAACACT
*
11948934 CTACTCCATTCAGCC-CAACACT
1 CTAC-CCAATCAGCCTCAACACT
11948956 C
1 C
11948957 CATGTGGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (22 bp):
CTACCCAATCAGCCTCAACACT
Found at i:11949195 original size:27 final size:27
Alignment explanation
Indices: 11949156--11949225 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
11949146 AACATAAAGC
*
11949156 ATAT-AGTCGTTTTATAACATAGGGGA
1 ATATAAGTCATTTTATAACATAGGGGA
** * *
11949182 ATA-ACAGTCATTTTACCACATGGGGGC
1 ATATA-AGTCATTTTATAACATAGGGGA
11949209 ATATAAGTCATTTTATA
1 ATATAAGTCATTTTATA
11949226 CCAGTTTGGG
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.09
27 30 0.88
28 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (27 bp):
ATATAAGTCATTTTATAACATAGGGGA
Found at i:11955415 original size:19 final size:18
Alignment explanation
Indices: 11955366--11955419 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
11955356 TCTAAATATT
11955366 TTTTATAATTTTTATAATA
1 TTTTATAATTTTT-TAATA
*
11955385 TTTTA-AA-ATTTTAATA
1 TTTTATAATTTTTTAATA
11955401 TTTTAGTAATTTTTTAATA
1 TTTTA-TAATTTTTTAATA
11955420 AAAAGTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.33
17 3 0.10
18 4 0.13
19 13 0.43
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTATAATTTTTTAATA
Found at i:11955418 original size:8 final size:9
Alignment explanation
Indices: 11955365--11955418 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
11955355 TTCTAAATAT
11955365 TTTTTATAA
1 TTTTTATAA
11955374 TTTTTATAA
1 TTTTTATAA
*
11955383 TATTTTAAAA
1 T-TTTTATAA
*
11955393 TTTTAAT-A
1 TTTTTATAA
11955401 -TTTTAGTAA
1 TTTTTA-TAA
11955410 TTTTT-TAA
1 TTTTTATAA
11955418 T
1 T
11955419 AAAAAGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
7 4 0.11
8 6 0.16
9 15 0.41
10 12 0.32
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11955726 original size:9 final size:9
Alignment explanation
Indices: 11955714--11955787 Score: 58
Period size: 10 Copynumber: 7.6 Consensus size: 9
11955704 AGTTTTATTT
*
11955714 TTTTTATCA
1 TTTTTATAA
*
11955723 TTTTAATAA
1 TTTTTATAA
11955732 TTTTTATATGA
1 TTTTTATA--A
*
11955743 TTATGTATAA
1 TT-TTTATAA
*
11955753 CTTTTTATAGT
1 -TTTTTATA-A
11955764 TTTTTATAA
1 TTTTTATAA
11955773 TTTTTAATAA
1 TTTTT-ATAA
11955783 TTTTT
1 TTTTT
11955788 CTTTAATTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
9 19 0.37
10 23 0.44
11 5 0.10
12 5 0.10
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11955954 original size:19 final size:18
Alignment explanation
Indices: 11955901--11955958 Score: 53
Period size: 21 Copynumber: 2.9 Consensus size: 18
11955891 AGTTTATGTT
*
11955901 TTTATATTTTTATAAAATA
1 TTTATATTTTT-TATAATA
*
11955920 TTTTTAATTTAATTTATAATA
1 TTTAT-ATTT--TTTATAATA
11955941 TTTATAGTTTTTTATAAT
1 TTTATA-TTTTTTATAAT
11955959 TTTTTTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 12 0.38
20 5 0.16
21 13 0.41
22 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTATATTTTTTATAATA
Found at i:11955975 original size:97 final size:99
Alignment explanation
Indices: 11955863--11956061 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 99
11955853 GCTTTTATCA
11955863 TTTTTCCATATTTTCAATAAATTATAATAGTTTATG-TTTTTATATTTTTATAAAATA-TTTTTA
1 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATTTTTATAAAATATTTTTTA
11955926 ATTTAATTTATAATATTTATAGTTTTTTATAATT
66 ATTTAATTTATAATATTTATAGTTTTTTATAATT
11955960 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATTTTTATAAAATATTTTTTT
1 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATTTTTATAAAATA-TTTTTT
11956025 AATTTAATTTATAATATTTATAGTTTTTTATAATT
65 AATTTAATTTATAATATTTATAGTTTTTTATAATT
11956060 TT
1 TT
11956062 CTAGATTTGT
Statistics
Matches: 99, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
97 36 0.36
98 21 0.21
100 42 0.42
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (99 bp):
TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATTTTTATAAAATATTTTTTA
ATTTAATTTATAATATTTATAGTTTTTTATAATT
Found at i:11956001 original size:48 final size:47
Alignment explanation
Indices: 11955863--11956009 Score: 190
Period size: 48 Copynumber: 3.1 Consensus size: 47
11955853 GCTTTTATCA
11955863 TTTTTCCATATTTTCAATAAATTATAATAGTTTATG-TTTTTATATT
1 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATT
*** * *
11955909 TTTATAAAATATTTTTAATTTAATTTATAATA-TTTATAGTTTTTTATAATT
1 TTT-TTCCATATTTTCAA--TAAATTATAATAGTTTAT-GTTTTTTAT-ATT
11955960 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATT
1 TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATT
11956007 TTT
1 TTT
11956010 ATAAAATATT
Statistics
Matches: 84, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
46 3 0.04
47 16 0.19
48 25 0.30
49 17 0.20
50 17 0.20
51 6 0.07
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (47 bp):
TTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATT
Found at i:11956054 original size:19 final size:19
Alignment explanation
Indices: 11956032--11956091 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
11956022 TTTAATTTAA
11956032 TTTATAATATTTATAGTTT
1 TTTATAATATTTATAGTTT
*
11956051 TTTATAAT-TTTCTAGATTT
1 TTTATAATATTTATAG-TTT
*
11956070 GTTATAATATTTTAATAGTTT
1 TTTATAATA-TTT-ATAGTTT
11956091 T
1 T
11956092 AGGCTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.18
19 18 0.55
21 6 0.18
22 3 0.09
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTATAATATTTATAGTTT
Found at i:11956062 original size:97 final size:94
Alignment explanation
Indices: 11955855--11956062 Score: 344
Period size: 97 Copynumber: 2.1 Consensus size: 94
11955845 TTTTGTAAGC
*
11955855 TTTTATCATTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTATATTTTTATAAAATA
1 TTTTAT-AATTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTATATTTTTATAAAATA
11955920 TTTTTAATTTAATTTATAATATTTATAGTT
65 TTTTTAATTTAATTTATAATATTTATAGTT
11955950 TTTTATAATTTTTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTTATATTTTTATAAA
1 TTTTATAA---TTTTCCATATTTTCAATAAATTATAATAGTTTATG-TTTTTATATTTTTATAAA
11956015 ATATTTTTTTAATTTAATTTATAATATTTATAGTT
62 ATA--TTTTTAATTTAATTTATAATATTTATAGTT
11956050 TTTTATAATTTTC
1 TTTTATAATTTTC
11956063 TAGATTTGTT
Statistics
Matches: 106, Mismatches: 1, Indels: 10
0.91 0.01 0.09
Matches are distributed among these distances:
94 1 0.01
95 6 0.06
97 40 0.38
98 21 0.20
100 38 0.36
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.61
Consensus pattern (94 bp):
TTTTATAATTTTCCATATTTTCAATAAATTATAATAGTTTATGTTTTTATATTTTTATAAAATAT
TTTTAATTTAATTTATAATATTTATAGTT
Found at i:11956132 original size:30 final size:31
Alignment explanation
Indices: 11956098--11956155 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11956088 TTTTAGGCTT
* *
11956098 AAATAATT-AAAATTGAATTAAGCCCTCATA
1 AAATAATTAAAAAGTCAATTAAGCCCTCATA
11956128 AAATAATTAAAAAGTCAATTAAGCCCTC
1 AAATAATTAAAAAGTCAATTAAGCCCTC
11956156 CGTATCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.28
Consensus pattern (31 bp):
AAATAATTAAAAAGTCAATTAAGCCCTCATA
Found at i:11957808 original size:21 final size:21
Alignment explanation
Indices: 11957782--11957825 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11957772 ACAATATAAT
*
11957782 ATCTAAAATAAACACTTTATG
1 ATCTAAAAAAAACACTTTATG
* *
11957803 ATCTAAAAAAAATACTTTTTG
1 ATCTAAAAAAAACACTTTATG
11957824 AT
1 AT
11957826 AGTAACAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (21 bp):
ATCTAAAAAAAACACTTTATG
Done.