Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 71 of 320
Found at i:21924569 original size:81 final size:81
Alignment explanation
Indices: 21924390--21924570 Score: 200
Period size: 81 Copynumber: 2.2 Consensus size: 81
21924380 CTCAAATTGT
* * * * **
21924390 AAAATTACCAAACTACCATTGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
** * *
21924455 TTTACCCTCGATTTAT
66 AATACCATCGATTTAC
* ***** *
21924471 AGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTAA
1 AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
*
21924536 AATACCATCGGTTTAC
66 AATACCATCGATTTAC
21924552 AAAATTACCAAAATACCCT
1 AAAATTACCAAAATACCCT
21924571 CGATCAGTAA
Statistics
Matches: 77, Mismatches: 23, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.36
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACCAA
AATACCATCGATTTAC
Found at i:21924719 original size:81 final size:81
Alignment explanation
Indices: 21924525--21924759 Score: 341
Period size: 81 Copynumber: 2.9 Consensus size: 81
21924515 CTCGATTTAC
** * * **
21924525 AAAATTACTAAAATACCA-TCGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCACT-GGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
21924589 AAATA-CCCTAGTTTGT
65 AAATACCCCTAGTTTGT
*
21924605 AAAATTGCTAAAATACC-CTTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
1 AAAATTACTAAAATACCAC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCA
21924669 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* * *
21924686 AAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAA
1 AAAATTACTAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
21924751 AATACCCCT
66 AATACCCCT
21924760 GATTTACAAA
Statistics
Matches: 140, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
80 59 0.42
81 80 0.57
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCACTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAGTTTGT
Found at i:21925796 original size:26 final size:26
Alignment explanation
Indices: 21925767--21925916 Score: 248
Period size: 26 Copynumber: 5.8 Consensus size: 26
21925757 GAGGAAGTGC
*
21925767 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21925793 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21925819 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
21925845 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21925871 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
21925897 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
21925917 ATTAAAGAGG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.09
26 105 0.91
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:21925845 original size:52 final size:52
Alignment explanation
Indices: 21925767--21925916 Score: 284
Period size: 52 Copynumber: 2.9 Consensus size: 52
21925757 GAGGAAGTGC
*
21925767 AAAAGGGCTTATGCCCTAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
21925819 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
21925871 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
21925917 ATTAAAGAGG
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 10 0.10
52 87 0.90
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:21926126 original size:42 final size:42
Alignment explanation
Indices: 21926061--21926152 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
21926051 TAGTCTCCCC
* ** *
21926061 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
21926103 AAATGGGCTTGCATATATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
*
21926145 AAACGGGC
1 AAATGGGC
21926153 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:21926223 original size:31 final size:31
Alignment explanation
Indices: 21926176--21926254 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
21926166 CGTTTACAGT
*
21926176 AAAGTCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
21926207 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
*
21926238 AAAGGCTTCGACCCAGT
1 AAAGGCTTCGGCCCAGT
21926255 AATCGTTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:21934842 original size:13 final size:13
Alignment explanation
Indices: 21934824--21934848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21934814 CTCGGCAGGG
21934824 ACACGCCCGTGTA
1 ACACGCCCGTGTA
21934837 ACACGCCCGTGT
1 ACACGCCCGTGT
21934849 GCGATTACTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:21935350 original size:27 final size:27
Alignment explanation
Indices: 21935318--21935371 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
21935308 CTTATTCTTA
*
21935318 GTGTTCTTAGAGTTAGTTAAGTTAGTT
1 GTGTTCTTAGAATTAGTTAAGTTAGTT
*
21935345 GTGTTCTTGGAATTAGTTAAGTTAGTT
1 GTGTTCTTAGAATTAGTTAAGTTAGTT
21935372 ATCATTGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.48
Consensus pattern (27 bp):
GTGTTCTTAGAATTAGTTAAGTTAGTT
Found at i:21939194 original size:26 final size:26
Alignment explanation
Indices: 21939158--21939209 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
21939148 TAGGTGATAC
21939158 CCTAACTGAGTATCACAATATCCCTT
1 CCTAACTGAGTATCACAATATCCCTT
21939184 CCTAACTGAGTATCACAATATCCCTT
1 CCTAACTGAGTATCACAATATCCCTT
21939210 ATTTTGGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (26 bp):
CCTAACTGAGTATCACAATATCCCTT
Found at i:21941427 original size:49 final size:49
Alignment explanation
Indices: 21941327--21941455 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
21941317 ATTAAAGTCA
* ** *
21941327 ATGCCGTGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
* * * * * *
21941376 ATGTCATGTCCCAAAAAGGTCTTACACTGGCCCTCATTTATCAATGTCG
1 ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
*
21941425 ATGCCATGTCCCAGACAGGTCTTACACTGAC
1 ATGCCATGTCCCAAACAGGTCTTACACTGAC
21941456 AGCTAACAAG
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAAACAGGTCTTACACTGACCCTCATATATCAAGGCCG
Found at i:21942063 original size:32 final size:31
Alignment explanation
Indices: 21941986--21942070 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
21941976 AGCCCTTCCT
* *
21941986 GCATTAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATACAACCAAAAACAGCAAATATA
* *
21942017 GCATAAAATGCAACCAAAAACAGCAAATTTA
1 GCATAAAATACAACCAAAAACAGCAAATATA
21942048 GCATAAAAATACAACCAAAAACA
1 GCAT-AAAATACAACCAAAAACA
21942071 TTAATTCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 32 0.65
32 17 0.35
ACGTcount: A:0.58, C:0.21, G:0.07, T:0.14
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAGCAAATATA
Found at i:21942792 original size:13 final size:14
Alignment explanation
Indices: 21942766--21942794 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21942756 ACTAATGATG
21942766 AATTAAACCATTAT
1 AATTAAACCATTAT
21942780 AATTAAA-CATTAT
1 AATTAAACCATTAT
21942793 AA
1 AA
21942795 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:21947843 original size:9 final size:9
Alignment explanation
Indices: 21947829--21947969 Score: 201
Period size: 9 Copynumber: 15.7 Consensus size: 9
21947819 TAAGTATAAT
21947829 TAAGTTATG
1 TAAGTTATG
*
21947838 TAAGTTCTG
1 TAAGTTATG
21947847 TAAGTTATG
1 TAAGTTATG
21947856 TAAGTTATG
1 TAAGTTATG
*
21947865 TAAGTTATA
1 TAAGTTATG
21947874 TAAGTTATG
1 TAAGTTATG
*
21947883 TGAGTTATG
1 TAAGTTATG
*
21947892 TGAGTTATG
1 TAAGTTATG
*
21947901 TGAGTTATG
1 TAAGTTATG
*
21947910 TGAGTTATG
1 TAAGTTATG
21947919 TAAGTTATG
1 TAAGTTATG
*
21947928 TAAGTTATA
1 TAAGTTATG
*
21947937 TAAGTTATA
1 TAAGTTATG
21947946 TAAGTTATG
1 TAAGTTATG
*
21947955 TGAGTTATG
1 TAAGTTATG
21947964 TAAGTT
1 TAAGTT
21947970 CAAGTATATA
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 122 1.00
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21948274 original size:29 final size:28
Alignment explanation
Indices: 21948241--21948307 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
21948231 CAAATGCAAA
*
21948241 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
*
21948269 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
21948298 AAATAAATTA
1 AAA-AAATTA
21948308 ATCCAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:21948574 original size:24 final size:24
Alignment explanation
Indices: 21948542--21948588 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
21948532 TTAACTTAAA
*
21948542 TGATAAAACGGATGATAATATTTG
1 TGATAAAACGGATGAGAATATTTG
*
21948566 TGATAAAACGTATGAGAATATTT
1 TGATAAAACGGATGAGAATATTT
21948589 AAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (24 bp):
TGATAAAACGGATGAGAATATTTG
Found at i:21951276 original size:24 final size:25
Alignment explanation
Indices: 21951244--21951303 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
21951234 ATCGATTGGT
21951244 TGCAACAGA-G-GAGTGCGACAGTGA
1 TGCAACAGAGGCGAGT-CGACAGTGA
*
21951268 TGCAACAGATGGTCGAGTCGACGGTGA
1 TGCAACAGA-GG-CGAGTCGACAGTGA
21951295 TGCAACAGA
1 TGCAACAGA
21951304 TGGTCAGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 9 0.29
26 1 0.03
27 17 0.55
28 4 0.13
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.15
Consensus pattern (25 bp):
TGCAACAGAGGCGAGTCGACAGTGA
Found at i:21951295 original size:27 final size:28
Alignment explanation
Indices: 21951254--21951308 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
21951244 TGCAACAGAG
21951254 GAGTGCGACAGTGATGCAACAGATGGTC
1 GAGTGCGACAGTGATGCAACAGATGGTC
*
21951282 GAGT-CGACGGTGATGCAACAGATGGTC
1 GAGTGCGACAGTGATGCAACAGATGGTC
21951309 AGGTCCGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.27, C:0.18, G:0.36, T:0.18
Consensus pattern (28 bp):
GAGTGCGACAGTGATGCAACAGATGGTC
Found at i:21952044 original size:26 final size:26
Alignment explanation
Indices: 21952015--21952115 Score: 134
Period size: 26 Copynumber: 3.9 Consensus size: 26
21952005 AAGAATTAGA
*
21952015 TAAATTTTGAAATATTGAAAATTATT
1 TAAATTTTGAAATCTTGAAAATTATT
*
21952041 TAAAATTTGAAATCTTGAAAATTATT
1 TAAATTTTGAAATCTTGAAAATTATT
*
21952067 TAAAATTTT-AATTCTTGAAAATTATT
1 T-AAATTTTGAAATCTTGAAAATTATT
*
21952093 CTAAA-TTTGAAATCTTTAAAATT
1 -TAAATTTTGAAATCTTGAAAATT
21952116 TGAAATTATT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.05
26 56 0.85
27 7 0.11
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.46
Consensus pattern (26 bp):
TAAATTTTGAAATCTTGAAAATTATT
Found at i:21952265 original size:14 final size:15
Alignment explanation
Indices: 21952235--21952269 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
21952225 CTATCCTATT
*
21952235 AACCCTAAACCCTTA
1 AACCTTAAACCCTTA
21952250 AACCTTAAACCC-TA
1 AACCTTAAACCCTTA
21952264 AACCTT
1 AACCTT
21952270 GCATCCTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (15 bp):
AACCTTAAACCCTTA
Found at i:21952413 original size:38 final size:37
Alignment explanation
Indices: 21952348--21952451 Score: 122
Period size: 38 Copynumber: 2.8 Consensus size: 37
21952338 CCTTAAAATA
*
21952348 TTAACTCA-TAAA-CCATAAACCCCTAACCCATGTCCCC
1 TTAAC-CATTAAACCCAT-AACCCCTAACCCATATCCCC
* **
21952385 TTAACCATTAAACCCCTTAACCCCTAACCTTTATCCCC
1 TTAACCATTAAA-CCCATAACCCCTAACCCATATCCCC
*
21952423 TTAACCATTAAACCCATAACCCATAACCC
1 TTAACCATTAAACCCATAACCCCTAACCC
21952452 TTGACCCTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
36 2 0.04
37 23 0.40
38 29 0.51
39 3 0.05
ACGTcount: A:0.35, C:0.40, G:0.01, T:0.24
Consensus pattern (37 bp):
TTAACCATTAAACCCATAACCCCTAACCCATATCCCC
Found at i:21952442 original size:15 final size:15
Alignment explanation
Indices: 21952424--21952488 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
21952414 TTTATCCCCT
21952424 TAACCATTAAACCCA
1 TAACCATTAAACCCA
*
21952439 TAACCCA-T-AACCCT
1 TAA-CCATTAAACCCA
* *
21952453 TGACCCTTAAACCCA
1 TAACCATTAAACCCA
* *
21952468 TAACCCTTAAAACCCT
1 TAACCATT-AAACCCA
21952484 TAACC
1 TAACC
21952489 CATACCCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 16 0.40
16 14 0.35
ACGTcount: A:0.38, C:0.38, G:0.02, T:0.22
Consensus pattern (15 bp):
TAACCATTAAACCCA
Found at i:21952453 original size:29 final size:30
Alignment explanation
Indices: 21952420--21952488 Score: 95
Period size: 29 Copynumber: 2.3 Consensus size: 30
21952410 AACCTTTATC
*
21952420 CCCTTAACCATTAAACCCATAACCC-ATAA
1 CCCTTAACCATTAAACCCATAACCCTAAAA
* *
21952449 CCCTTGACCCTTAAACCCATAACCCTTAAAA
1 CCCTTAACCATTAAACCCATAACCC-TAAAA
21952480 CCCTTAACC
1 CCCTTAACC
21952489 CATACCCACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 23 0.68
31 11 0.32
ACGTcount: A:0.36, C:0.41, G:0.01, T:0.22
Consensus pattern (30 bp):
CCCTTAACCATTAAACCCATAACCCTAAAA
Found at i:21952495 original size:22 final size:22
Alignment explanation
Indices: 21952424--21952492 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
21952414 TTTATCCCCT
* *
21952424 TAACCATTAAACCCATAACCCA
1 TAACCCTTAAACCCTTAACCCA
*
21952446 TAACCCTT-GACCCTTAAACCCA
1 TAACCCTTAAACCCTT-AACCCA
21952468 TAACCCTTAAAACCCTTAACCCA
1 TAACCCTT-AAACCCTTAACCCA
21952491 TA
1 TA
21952493 CCCACTAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.12
22 21 0.52
23 8 0.20
24 6 0.15
ACGTcount: A:0.39, C:0.38, G:0.01, T:0.22
Consensus pattern (22 bp):
TAACCCTTAAACCCTTAACCCA
Found at i:21952573 original size:7 final size:7
Alignment explanation
Indices: 21952561--21952600 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
21952551 AATATTAACT
21952561 CATAAAC
1 CATAAAC
21952568 CATAAAC
1 CATAAAC
*
21952575 CCTAAAC
1 CATAAAC
21952582 CATAAAC
1 CATAAAC
*
21952589 CCTAAAC
1 CATAAAC
*
21952596 TATAA
1 CATAA
21952601 TGCTAATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (7 bp):
CATAAAC
Found at i:21952582 original size:14 final size:14
Alignment explanation
Indices: 21952563--21952600 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
21952553 TATTAACTCA
21952563 TAAACCATAAACCC
1 TAAACCATAAACCC
21952577 TAAACCATAAACCC
1 TAAACCATAAACCC
*
21952591 TAAACTATAA
1 TAAACCATAA
21952601 TGCTAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:21953354 original size:41 final size:42
Alignment explanation
Indices: 21953299--21953401 Score: 174
Period size: 41 Copynumber: 2.5 Consensus size: 42
21953289 TTTTGCGGGG
*
21953299 TTTTTCAAAAAGTGCCGCTAATACTCGATCATTAGCGG-TGT
1 TTTTTCAAAAAGTGCCGCTAATACTCGATCATTAGCGGCTCT
21953340 TTTTTCAAAAAGTGCCGCTAATACTCGATCATTAGCGGCTCT
1 TTTTTCAAAAAGTGCCGCTAATACTCGATCATTAGCGGCTCT
*
21953382 TTTTT-AAAAAGTGCCACTAA
1 TTTTTCAAAAAGTGCCGCTAA
21953402 AGGTGAACCT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 52 0.88
42 7 0.12
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (42 bp):
TTTTTCAAAAAGTGCCGCTAATACTCGATCATTAGCGGCTCT
Found at i:21953457 original size:40 final size:39
Alignment explanation
Indices: 21953293--21953505 Score: 158
Period size: 40 Copynumber: 5.3 Consensus size: 39
21953283 TAAATTTTTT
* * * *
21953293 GCGGGGTTTTTCAAAAAGTGCCGCTAATACTCGATCATTA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTC-ATCTTTA
* * *
21953333 GCGGTGTTTTTTCAAAAAGTGCCGCTAATACTCGATCATTA
1 GCGGCGTTTTTT-AAAAAGTGCCGCTAATGCTC-ATCTTTA
* * * * * * *
21953374 GCGGCTCTTTTTTAAAAAGTGCCACTAAAGGTGAACCTATA
1 GCGGC-GTTTTTTAAAAAGTGCCGCTAATGCT-CATCTTTA
* *
21953415 GCGGCGTTTTTTATAAAGCGCCGCTAATGCTCATTCTTTA
1 GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCA-TCTTTA
* * * *
21953455 GCGG-ATTTTTTGAAGAAGCGCCGCTAATGCTCGTTCTTTA
1 GCGGCGTTTTTT-AAAAAGTGCCGCTAATGCTC-ATCTTTA
*
21953495 GCAGCGTTTTT
1 GCGGCGTTTTT
21953506 CATTAAAAAA
Statistics
Matches: 139, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
39 7 0.05
40 65 0.47
41 61 0.44
42 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (39 bp):
GCGGCGTTTTTTAAAAAGTGCCGCTAATGCTCATCTTTA
Found at i:21955256 original size:21 final size:22
Alignment explanation
Indices: 21955230--21955270 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21955220 CACTAGACAG
*
21955230 AGGGGC-ACACGCCTGTGTGGA
1 AGGGGCAACACGCCCGTGTGGA
21955251 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
21955271 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.27, G:0.41, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGA
Found at i:21956543 original size:49 final size:47
Alignment explanation
Indices: 21956431--21956553 Score: 131
Period size: 47 Copynumber: 2.6 Consensus size: 47
21956421 GAATACCGAT
* * * * *
21956431 GCCATGTCCTAGACATGGTCTTACACCGGCTCATATCTTAAGTCGAT
1 GCCATGTCCTAGACATGGTCTTACACTGACTCATATCTCAAGGCGAC
* * *
21956478 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCGTCATCGAGGCTGAC
1 GCCATGTCCTAGACATGGTCTTACACTGACTCAT-ATC-TCAAGGC-GAC
*
21956527 GCCATGTCCTAGACATGGTTTTACACT
1 GCCATGTCCTAGACATGGTCTTACACT
21956554 AGCTCTCACA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 2 0.03
47 30 0.48
48 4 0.06
49 27 0.43
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCATGTCCTAGACATGGTCTTACACTGACTCATATCTCAAGGCGAC
Found at i:21956704 original size:46 final size:47
Alignment explanation
Indices: 21956426--21956746 Score: 203
Period size: 46 Copynumber: 6.8 Consensus size: 47
21956416 GGGTAGAATA
* ** * * *
21956426 CCGATGCCATGTCCTAGACATGGTCTTACACCGGCTCAT-ATCT-TAAG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC-TCGTCTCGAGG
* *
21956473 TCGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGTCATCGAGG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTCTCGTC-TCGAGG
* * * * * * *
21956522 CTGACGCCATGTCCTAGACATGGTTTTACACTAGCTCTCACATATCTG-TG
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTCT--CGTCTC-GAGG
* * * * *
21956572 TCGATTCCATGTCCCAGACATGGTCTTACACTA--ACACATCTCGTA-G
1 CCGA-TGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCG-AGG
* * * *
21956618 CCGATACATGTCCCATACAT-GTCTGACACTGGCT-TACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTCTCGAGG
** * *
21956664 CTAATGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATG
1 CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCGAGG
21956710 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 CCGATG-CATGTCCCAGACATGGTCTTACACTAGCTC
21956747 ACAATAACCC
Statistics
Matches: 213, Mismatches: 43, Indels: 35
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.04
45 16 0.08
46 58 0.27
47 48 0.23
48 17 0.08
49 32 0.15
50 30 0.14
51 3 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCGAGG
Found at i:21957433 original size:13 final size:13
Alignment explanation
Indices: 21957415--21957439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21957405 CTAAAAGTAC
21957415 AAAAATCATCAAG
1 AAAAATCATCAAG
21957428 AAAAATCATCAA
1 AAAAATCATCAA
21957440 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:21972386 original size:19 final size:20
Alignment explanation
Indices: 21972349--21972387 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
21972339 ATAATGAGCA
21972349 TATATAACATATCATTCATT
1 TATATAACATATCATTCATT
21972369 TATAT-ACAT-TCATATCATT
1 TATATAACATATCAT-TCATT
21972388 CGTTGTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAACATATCATTCATT
Found at i:21972667 original size:42 final size:43
Alignment explanation
Indices: 21972567--21972726 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
21972557 AGCTTGTACA
** * * *
21972567 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* * * *
21972610 ATGCCACTGTCCCAGAAAGGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
* *
21972652 ATGCCATTGTCCCAGACATGGTCTTACATGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AATATCG
*
21972696 ATGCCAACGTCCCAGACATGGTCTTACACGA
1 ATGCCAATGTCCCAGACATGGTCTTACACGA
21972727 TAACACATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 28 0.29
43 39 0.40
44 30 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATATCG
Found at i:21976939 original size:28 final size:28
Alignment explanation
Indices: 21976907--21977005 Score: 92
Period size: 28 Copynumber: 3.4 Consensus size: 28
21976897 ACAGTGCATG
*
21976907 CAGTAACAGTCTGGGCCTAAGCCCTATT
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
* *
21976935 CAGTATCAGTACAGTCTGGGCCTTAGCCTTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCCTATA
*
21976968 CAGTAACAGTGC-GGGCCTAAGCCCAATA
1 CAGTAACAGT-CTGGGCCTAAGCCCTATA
*
21976996 CAGTATCAGT
1 CAGTAACAGT
21977006 ACAGTGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
28 30 0.52
29 1 0.02
30 2 0.03
31 2 0.03
33 23 0.40
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATA
Found at i:21976950 original size:33 final size:33
Alignment explanation
Indices: 21976907--21977010 Score: 119
Period size: 33 Copynumber: 3.3 Consensus size: 33
21976897 ACAGTGCATG
*
21976907 CAGTAACAGTCTGGGCCTAAGCCCTATTCAGTAT
1 CAGT-ACAGTCTGGGCCTAAGCCCTATACAGTAT
* * *
21976941 CAGTACAGTCTGGGCCTTAGCCTTATACAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
*
21976974 CAGT---G-C-GGGCCTAAGCCCAATACAGTAT
1 CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
21977002 CAGTACAGT
1 CAGTACAGT
21977011 GTAATGCAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
28 22 0.38
29 1 0.02
30 1 0.02
31 1 0.02
33 29 0.50
34 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATACAGTAT
Found at i:21977198 original size:27 final size:26
Alignment explanation
Indices: 21977168--21977219 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21977158 AAAAATAGTA
*
21977168 AATGTGGCAAAGCCACCAGTAACAGTG
1 AATGTGACAAAGCCACCAGT-ACAGTG
* *
21977195 AATGTGACATAGTCACCAGTACAGT
1 AATGTGACAAAGCCACCAGTACAGT
21977220 ACTTCCTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
AATGTGACAAAGCCACCAGTACAGTG
Found at i:21977386 original size:27 final size:27
Alignment explanation
Indices: 21977356--21977527 Score: 209
Period size: 27 Copynumber: 6.4 Consensus size: 27
21977346 GGCATAATCA
* * *
21977356 TCATTTTACCATACATGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
21977383 TCATTTTACCCTATAGGGGCATTACGT
1 TCATTTTACCCTACAGGGGCATTACGG
* *
21977410 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * *
21977437 TTATTTTACCATACAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
21977464 TCATTTTACCCTACAGTGGCATTACAG
1 TCATTTTACCCTACAGGGGCATTACGG
* *
21977491 TCATTTTACCCTAAAGGGGCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
21977518 TTATTTTACC
1 TCATTTTACC
21977528 AATTTTGGTG
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:21977495 original size:81 final size:81
Alignment explanation
Indices: 21977358--21977528 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
21977348 CATAATCATC
* * *
21977358 ATTTTACCATACATGGGTATTACGGTCATTTTACCCTATAGGGGCATTACGTTCATTTTACCCTA
1 ATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGTTCATTTTACCCTA
* *
21977423 TAGGGGTATTACGGTT
66 AAGGGGCATTACGGTT
* *
21977439 ATTTTACCATACAGGGGCATTATGGTCATTTTACCCTACAGTGGCATTACAG-TCATTTTACCCT
1 ATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTAC-GTTCATTTTACCCT
*
21977503 AAAGGGGCATTATGGTT
65 AAAGGGGCATTACGGTT
21977520 ATTTTACCA
1 ATTTTACCA
21977529 ATTTTGGTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 80 0.99
82 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGTTCATTTTACCCTA
AAGGGGCATTACGGTT
Found at i:21981954 original size:47 final size:47
Alignment explanation
Indices: 21981875--21982098 Score: 269
Period size: 47 Copynumber: 4.8 Consensus size: 47
21981865 GATATGCATT
* *
21981875 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TCGAG
* * * *
21981923 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTCGAG
21981969 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-CGAG
* * * *
21982015 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAG
* *
21982062 ATGTGAGCCAGTGTAAGACCATGTCTGGAACATGGCA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
21982099 GACCATGTCT
Statistics
Matches: 153, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.02
46 61 0.40
47 66 0.43
48 23 0.15
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAG
Found at i:21981982 original size:46 final size:47
Alignment explanation
Indices: 21981875--21982095 Score: 254
Period size: 46 Copynumber: 4.7 Consensus size: 47
21981865 GATATGCATT
* * *
21981875 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG
* * * *
21981923 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCAAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAG
21981969 ATGTA-AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAG
1 ATG-AGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAG
* * * *
21982015 ATGATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAG
* *
21982062 ATGTGAGCCAGTGTAAGACCATGTCTGGAACATG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
21982096 GCAGACCATG
Statistics
Matches: 150, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.02
46 63 0.42
47 62 0.41
48 22 0.15
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAG
Found at i:21982040 original size:93 final size:93
Alignment explanation
Indices: 21981880--21982095 Score: 269
Period size: 93 Copynumber: 2.3 Consensus size: 93
21981870 GCATTATGAG
* *
21981880 AGCCAATGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGAGAGCTAGTGTAAGACATG
*
21981945 TCTGGGACAT-GCATCGGCCTCAAAATGTA
65 TCTGGGACATGGCATC-GACTCAAAATGTA
* *
21981974 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGC-TACGAGATGATAG-TCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGAGAGCT-AGTGTAAGA-CA
** * *
21982036 TGTCTGGGACATGGCATCGACTTGAGATGTG
63 TGTCTGGGACATGGCATCGACTCAAAATGTA
*
21982067 AGCCAGTGTAAGACCATGTCTGGAACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATG
21982096 GCAGACCATG
Statistics
Matches: 107, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 25 0.23
93 49 0.46
94 31 0.29
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGAGAGCTAGTGTAAGACATGT
CTGGGACATGGCATCGACTCAAAATGTA
Found at i:21982101 original size:21 final size:21
Alignment explanation
Indices: 21982077--21982119 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
21982067 AGCCAGTGTA
21982077 AGACCATGTCTGGAACATGGC
1 AGACCATGTCTGGAACATGGC
*
21982098 AGACCATGTCTGGGACATGGC
1 AGACCATGTCTGGAACATGGC
21982119 A
1 A
21982120 TTTGTAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (21 bp):
AGACCATGTCTGGAACATGGC
Found at i:21982975 original size:37 final size:37
Alignment explanation
Indices: 21982916--21983024 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
21982906 AGCTCAGATG
* *
21982916 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21982953 AAATCTCCACACGTAGTCATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
21982990 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
21983025 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:21983223 original size:48 final size:48
Alignment explanation
Indices: 21983165--21983504 Score: 599
Period size: 48 Copynumber: 7.0 Consensus size: 48
21983155 ATATACACAC
* *
21983165 ATCTCCTACATATTTCACACTAGCCATTCGGGTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21983213 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21983261 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21983309 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
21983357 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21983405 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * *
21983453 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACACATATAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
21983503 AT
1 AT
21983505 TTATCTTGTG
Statistics
Matches: 282, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
48 241 0.85
50 41 0.15
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:21991226 original size:20 final size:20
Alignment explanation
Indices: 21991189--21991227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21991179 CTACGCTATA
* *
21991189 TTTTGGATTTAGTTTTTTGT
1 TTTTAGATTTAGTATTTTGT
*
21991209 TTTTAGATTTTGTATTTTG
1 TTTTAGATTTAGTATTTTG
21991228 GTTGTTTTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.18, T:0.69
Consensus pattern (20 bp):
TTTTAGATTTAGTATTTTGT
Found at i:22009223 original size:42 final size:43
Alignment explanation
Indices: 22009123--22009236 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 43
22009113 GTTTCAATGT
* * *
22009123 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGACGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATACCGACGC
* * ** * *
22009165 CGTGTCCCTAACATGGTCTTATACGAAATCA-CATACCGAGGC
1 CATATCCCCGATATGGTCTTATACGAAATCATCATACCGACGC
* *
22009207 CATATCCCGGATATGGTCTTATACGGAATC
1 CATATCCCCGATATGGTCTTATACGAAATC
22009237 TTAATAACCT
Statistics
Matches: 56, Mismatches: 15, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 55 0.98
43 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (43 bp):
CATATCCCCGATATGGTCTTATACGAAATCATCATACCGACGC
Found at i:22012680 original size:49 final size:49
Alignment explanation
Indices: 22012576--22012840 Score: 146
Period size: 49 Copynumber: 5.6 Consensus size: 49
22012566 ACATTAAAGT
* *
22012576 CAATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAGGC
1 CAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATACATCGAGGC
* * * * *
22012625 CAATGCCATGTCCCAGACAGGTTTTACACTAGCTCTCATCCATTG-GTGT
1 CAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATACATCGAG-GC
* * * *
22012674 CGATGCCATG-CCTTAGACAGGTCTTACACTGAA-ACACA-ACA---A-GC
1 CAATGCCATGTCC-CAGACAGGTCTTACACT-AACTCTCATACATCGAGGC
** ** * * *
22012718 TGACACCATGTCCCAGACAGGTCTTACACTAGCT-TGTATATC-CCGAGGC
1 CAATGCCATGTCCCAGACAGGTCTTACACTAACTCT-CATA-CATCGAGGC
* * * * * *
22012767 CGATG--ATGTCCCAGACATGTCTTACACTAGCTCTCGT-C-TCAATGC
1 CAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATACATCGAGGC
* *
22012812 CGATG-CATGTCCCAGACATGTCTTACACT
1 CAATGCCATGTCCCAGACAGGTCTTACACT
22012841 GGCTCACATA
Statistics
Matches: 169, Mismatches: 32, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
43 1 0.01
44 25 0.15
45 13 0.08
46 24 0.14
47 27 0.16
48 7 0.04
49 71 0.42
50 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
CAATGCCATGTCCCAGACAGGTCTTACACTAACTCTCATACATCGAGGC
Found at i:22012831 original size:46 final size:47
Alignment explanation
Indices: 22012724--22012849 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 47
22012714 AAGCTGACAC
* * * *
22012724 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCCCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCTACATCCCAAGGCCGATG
* * *
22012772 -ATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAAGGCCGATG
*
22012817 CATGTCCCAGACATGTCTTACACTGGCTC-ACAT
1 CATGTCCCAGACATGTCTTACACTAGCTCTACAT
22012850 ACCACCCAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
45 11 0.16
46 31 0.46
47 25 0.37
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTACATCCCAAGGCCGATG
Found at i:22013123 original size:29 final size:29
Alignment explanation
Indices: 22013091--22013149 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
22013081 CCAACTTTTG
22013091 ACACATCATAAGCATGTTTCAATCATCTC
1 ACACATCATAAGCATGTTTCAATCATCTC
22013120 ACACATCATAAGCATGTTTCAATCATCTC
1 ACACATCATAAGCATGTTTCAATCATCTC
22013149 A
1 A
22013150 ATATCCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.31
Consensus pattern (29 bp):
ACACATCATAAGCATGTTTCAATCATCTC
Found at i:22015881 original size:30 final size:30
Alignment explanation
Indices: 22015837--22015894 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
22015827 CAAATATTAT
22015837 ATTTTAGCAAAATTACACTTTTGCCCCTAA
1 ATTTTAGCAAAATTACACTTTTGCCCCTAA
* *
22015867 ATTTTATCATAATTACACTTTTGCCCCT
1 ATTTTAGCAAAATTACACTTTTGCCCCT
22015895 TAGCTTGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.24, G:0.05, T:0.41
Consensus pattern (30 bp):
ATTTTAGCAAAATTACACTTTTGCCCCTAA
Found at i:22023376 original size:25 final size:25
Alignment explanation
Indices: 22023324--22023377 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
22023314 AAGTACTTGA
**
22023324 ACTTGGCTTCTTGGTTCAAATTGGT
1 ACTTGGCTTCTTGGTTCAAATTAAT
*
22023349 ACTTGGCTTTTTGG-TCAAAATTAAT
1 ACTTGGCTTCTTGGTTC-AAATTAAT
22023374 ACTT
1 ACTT
22023378 TCTGTGAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (25 bp):
ACTTGGCTTCTTGGTTCAAATTAAT
Found at i:22023444 original size:31 final size:33
Alignment explanation
Indices: 22023404--22023470 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 33
22023394 TTGAACCATG
* * *
22023404 AAGCTAAGTTTAGGTA-TTAATTGG-AATAAAA
1 AAGCCAAGTTCAGGTACCTAATTGGAAATAAAA
22023435 AAGCCAAGTTCAGGTACCTAATTGGATAATAAAA
1 AAGCCAAGTTCAGGTACCTAATTGGA-AATAAAA
22023469 AA
1 AA
22023471 AAGTTTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.47
32 7 0.23
34 9 0.30
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
AAGCCAAGTTCAGGTACCTAATTGGAAATAAAA
Found at i:22025364 original size:24 final size:24
Alignment explanation
Indices: 22025336--22025384 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
22025326 CTTGAGCCTT
22025336 ATTGGATTACATTTTAAAGAAAGA
1 ATTGGATTACATTTTAAAGAAAGA
*
22025360 ATTGGATTACATTTTAAAGGAAGA
1 ATTGGATTACATTTTAAAGAAAGA
22025384 A
1 A
22025385 ATACCACCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (24 bp):
ATTGGATTACATTTTAAAGAAAGA
Found at i:22038525 original size:34 final size:34
Alignment explanation
Indices: 22038486--22038554 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
22038476 ATGGCCTTTC
22038486 ACTTTTTTTGTTAATTAAGTTAATTAATTTAATT
1 ACTTTTTTTGTTAATTAAGTTAATTAATTTAATT
22038520 ACTTTTTTTGTTAATTAAGTTAATTAATTTAATT
1 ACTTTTTTTGTTAATTAAGTTAATTAATTTAATT
22038554 A
1 A
22038555 ATCTCATGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (34 bp):
ACTTTTTTTGTTAATTAAGTTAATTAATTTAATT
Found at i:22038556 original size:9 final size:9
Alignment explanation
Indices: 22038496--22038556 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
22038486 ACTTTTTTTG
*
22038496 TTAATTAAG
1 TTAATTAAT
22038505 TTAATTAAT
1 TTAATTAAT
*
22038514 TTAATTACT
1 TTAATTAAT
*
22038523 TT--TT-TT
1 TTAATTAAT
*
22038529 GTTAATTAAG
1 -TTAATTAAT
22038539 TTAATTAAT
1 TTAATTAAT
22038548 TTAATTAAT
1 TTAATTAAT
22038557 CTCATGTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 1 0.02
7 4 0.10
9 37 0.88
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (9 bp):
TTAATTAAT
Found at i:22046212 original size:27 final size:27
Alignment explanation
Indices: 22046146--22046269 Score: 133
Period size: 27 Copynumber: 4.6 Consensus size: 27
22046136 CTCAATAGTG
* * *
22046146 TCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCAACATAGT-TAAT
** *
22046174 TCGCACACTTAGTGCCGCATGGTTAAT
1 TCGCACACTTAGTGCAACATAGTTAAT
* *
22046201 TCGCACACTTAGTGCATCATA-TTCATT
1 TCGCACACTTAGTGCAACATAGTT-AAT
* *
22046228 TCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCAACATAGTTAAT
22046255 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
22046270 TGTACAATTT
Statistics
Matches: 81, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 58 0.72
28 21 0.26
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTTAAT
Found at i:22046242 original size:54 final size:55
Alignment explanation
Indices: 22046146--22046270 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 55
22046136 CTCAATAGTG
** * * *
22046146 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTTAAT
1 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAA
* **
22046201 TCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAA
1 TCGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAA
22046255 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
22046271 GTACAATTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 39 0.65
55 21 0.35
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAA
Found at i:22048678 original size:21 final size:21
Alignment explanation
Indices: 22048654--22048722 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
22048644 AGATTCTATG
*
22048654 GAATGGGAAAATAATTTTGTA
1 GAATGGGAAAATAATTTTATA
* * * *
22048675 GAAT-AGAAATTTTAGATTCTATG
1 GAATGGGAAA--ATA-ATTTTATA
*
22048698 GAATGGGAAAATAATTTTTTA
1 GAATGGGAAAATAATTTTATA
22048719 GAAT
1 GAAT
22048723 ACCAATTAGA
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
20 4 0.12
21 13 0.38
22 4 0.12
23 9 0.26
24 4 0.12
ACGTcount: A:0.42, C:0.01, G:0.20, T:0.36
Consensus pattern (21 bp):
GAATGGGAAAATAATTTTATA
Found at i:22048683 original size:44 final size:44
Alignment explanation
Indices: 22048634--22048723 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
22048624 ATGAAGGAGT
22048634 TAGAAATTTTAGATTCTATGGAATGGGAAAATAATTTTGTAGAA
1 TAGAAATTTTAGATTCTATGGAATGGGAAAATAATTTTGTAGAA
*
22048678 TAGAAATTTTAGATTCTATGGAATGGGAAAATAATTTTTTAGAA
1 TAGAAATTTTAGATTCTATGGAATGGGAAAATAATTTTGTAGAA
22048722 TA
1 TA
22048724 CCAATTAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.38
Consensus pattern (44 bp):
TAGAAATTTTAGATTCTATGGAATGGGAAAATAATTTTGTAGAA
Found at i:22051773 original size:19 final size:19
Alignment explanation
Indices: 22051737--22051773 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22051727 TTCGAGAAGG
* *
22051737 AATTTTAATTTTTTTTTGA
1 AATTTTAATTGTTATTTGA
22051756 AATTTTAATTGTTATTTG
1 AATTTTAATTGTTATTTG
22051774 TTTATGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (19 bp):
AATTTTAATTGTTATTTGA
Found at i:22057702 original size:15 final size:15
Alignment explanation
Indices: 22057665--22057706 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
22057655 TTATGATATG
22057665 GTATCTTGGATTTCT
1 GTATCTTGGATTTCT
*
22057680 GTACCTTGGATATT-T
1 GTATCTTGGAT-TTCT
*
22057695 TTATCTTGGATT
1 GTATCTTGGATT
22057707 CCTCTGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 20 0.87
16 2 0.09
ACGTcount: A:0.17, C:0.12, G:0.19, T:0.52
Consensus pattern (15 bp):
GTATCTTGGATTTCT
Found at i:22077620 original size:80 final size:79
Alignment explanation
Indices: 22077536--22077707 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
22077526 GGACTAAGAT
*
22077536 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
22077600 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
22077616 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
22077681 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
22077695 CCGAAGGCATTTG
1 CCGAAGGCATTTG
22077708 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:22077687 original size:39 final size:39
Alignment explanation
Indices: 22077483--22077705 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
22077473 TTGAATGCTG
* * * * *
22077483 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
22077523 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
22077562 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
22077603 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
22077643 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
22077682 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
22077706 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:22077725 original size:79 final size:80
Alignment explanation
Indices: 22077563--22077740 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
22077553 AGATACAAAT
* * * *
22077563 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
22077628 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
22077643 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
22077707 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
22077722 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22077741 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:22083574 original size:39 final size:39
Alignment explanation
Indices: 22083531--22083607 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
22083521 GATATATTCC
*
22083531 AGCACGTAGCCTGCAGACCTCAAGTCTGGATATGTTTCT
1 AGCACGTAGCCTGCAGACCTCAAGTCCGGATATGTTTCT
* **
22083570 AGCACGTAGCCTGCGGATGTCAAGTCCGGATATGTTTC
1 AGCACGTAGCCTGCAGACCTCAAGTCCGGATATGTTTC
22083608 CAAATATCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (39 bp):
AGCACGTAGCCTGCAGACCTCAAGTCCGGATATGTTTCT
Found at i:22084281 original size:21 final size:21
Alignment explanation
Indices: 22084255--22084295 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
22084245 TGCATATTCT
22084255 AATTTCATAAACTAATTTACG
1 AATTTCATAAACTAATTTACG
22084276 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
22084296 CAAATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:22086126 original size:5 final size:5
Alignment explanation
Indices: 22086116--22086140 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
22086106 GATGTTTTAG
22086116 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
22086141 GTGCAAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:22089999 original size:40 final size:40
Alignment explanation
Indices: 22089936--22090137 Score: 277
Period size: 40 Copynumber: 5.0 Consensus size: 40
22089926 TGGGATTTAA
*
22089936 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGAGG-CTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCG-GGACTTAGC
** *
22089976 CCGGATATAGTAGTTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
22090016 TCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
22090056 CCGGA-ATTAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
22090096 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
22090136 CC
1 CC
22090138 TGTTATAATC
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:22099894 original size:13 final size:13
Alignment explanation
Indices: 22099876--22099900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22099866 CCTGGTACAC
22099876 GCCCGTGTCCTTG
1 GCCCGTGTCCTTG
22099889 GCCCGTGTCCTT
1 GCCCGTGTCCTT
22099901 CACATGGCCA
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:0.00, C:0.40, G:0.28, T:0.32
Consensus pattern (13 bp):
GCCCGTGTCCTTG
Found at i:22101029 original size:46 final size:46
Alignment explanation
Indices: 22100948--22101038 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
22100938 CGTAACAGAT
* * *
22100948 GCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCAAGGCCGAA
1 GCATGTCCCAAACATGTCTTACACTAGCCTACGTCTCAAGGCCGAA
*
22100994 GCATGTCCCAAACATGTCTTACACTAGCACT-CGTCTCAATGCCGA
1 GCATGTCCCAAACATGTCTTACACTAGC-CTACGTCTCAAGGCCGA
22101039 TGCCATCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 39 0.98
47 1 0.03
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (46 bp):
GCATGTCCCAAACATGTCTTACACTAGCCTACGTCTCAAGGCCGAA
Found at i:22101675 original size:24 final size:24
Alignment explanation
Indices: 22101643--22101688 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
22101633 TAAAATAGTC
22101643 CTTTGAGGTGTTTTCATGCTAATT
1 CTTTGAGGTGTTTTCATGCTAATT
22101667 CTTTGAGGTGTTTTCATGCTAA
1 CTTTGAGGTGTTTTCATGCTAA
22101689 CACCTTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.48
Consensus pattern (24 bp):
CTTTGAGGTGTTTTCATGCTAATT
Found at i:22105645 original size:22 final size:22
Alignment explanation
Indices: 22105612--22105681 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
22105602 TAACATGTGT
22105612 CACATATA-TCATGAGCTCAGAC
1 CACATA-ACTCATGAGCTCAGAC
22105634 CACATAACTCATGAGCTCAGAC
1 CACATAACTCATGAGCTCAGAC
*
22105656 CACATAACTCATGAGCTCAGAT
1 CACATAACTCATGAGCTCAGAC
22105678 CACA
1 CACA
22105682 CAGTCCTTAG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.37, C:0.30, G:0.13, T:0.20
Consensus pattern (22 bp):
CACATAACTCATGAGCTCAGAC
Found at i:22107219 original size:19 final size:19
Alignment explanation
Indices: 22107195--22107236 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
22107185 TCTTCTCAAA
22107195 CATTAAATCCCCAATTCAT
1 CATTAAATCCCCAATTCAT
22107214 CATTAAATCCCCAATTCAT
1 CATTAAATCCCCAATTCAT
22107233 CATT
1 CATT
22107237 CCCACTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (19 bp):
CATTAAATCCCCAATTCAT
Found at i:22110287 original size:43 final size:44
Alignment explanation
Indices: 22110167--22110287 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 44
22110157 AGTTCGTACG
* *
22110167 ATGCCAAC-ATCCCAGACTTGGTCTTACATGT-AATCAAATATCA
1 ATGCC-ACTATCCCAGACATGGTCTTACACGTAAATCAAATATCA
* * * *
22110210 ATGCCACTATCCAATACAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCACTATCCCAGACATGGTCTTACACGTAAATCAAATATCA
* *
22110252 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATC
1 ATG-CCACTATCCCAGACATGGTCTTACACGTAAATC
22110288 TCAAATTGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 25 0.40
43 38 0.60
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (44 bp):
ATGCCACTATCCCAGACATGGTCTTACACGTAAATCAAATATCA
Found at i:22112522 original size:25 final size:25
Alignment explanation
Indices: 22112484--22112555 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
22112474 CGATAAACGG
* *
22112484 TAAGCTCATTCGAGCTGAGTATCGA
1 TAAGCTCGTACGAGCTGAGTATCGA
* *
22112509 TAAGCTC-TCACGAGCTGAGAATCGG
1 TAAGCTCGT-ACGAGCTGAGTATCGA
22112534 TAAGCTCGTACGAGCTGCAGTA
1 TAAGCTCGTACGAGCTG-AGTA
22112556 AGGCTACAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 35 0.88
26 4 0.10
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (25 bp):
TAAGCTCGTACGAGCTGAGTATCGA
Found at i:22123418 original size:40 final size:39
Alignment explanation
Indices: 22123354--22123449 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
22123344 CTATCTCGGT
*
22123354 ATCGTACACTTAGTGCCTCATATAGCCAAAGCTATTCCAA
1 ATCGCACACTTAGTG-CTCATATAGCCAAAGCTATTCCAA
* * * * *
22123394 TTTGCACACTTAGTGCTACTTATAGCCGAAGCTATTTCAA
1 ATCGCACACTTAGTGCT-CATATAGCCAAAGCTATTCCAA
22123434 ATCGCACACTTAGTGC
1 ATCGCACACTTAGTGC
22123450 CGAACATAGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
39 2 0.04
40 45 0.96
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (39 bp):
ATCGCACACTTAGTGCTCATATAGCCAAAGCTATTCCAA
Found at i:22124326 original size:21 final size:21
Alignment explanation
Indices: 22124288--22124327 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22124278 ATTCATCACA
*
22124288 CATGCATGTCACAACATCAAT
1 CATGCATGGCACAACATCAAT
22124309 CATGCATGGC-CAACCATCA
1 CATGCATGGCACAA-CATCA
22124328 TGTTCACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.20
Consensus pattern (21 bp):
CATGCATGGCACAACATCAAT
Found at i:22128630 original size:46 final size:45
Alignment explanation
Indices: 22128580--22128751 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
22128570 TGAGCATCCA
22128580 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
22128626 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* *
22128673 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
* *
22128719 AGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
22128752 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:22128732 original size:93 final size:93
Alignment explanation
Indices: 22128573--22128743 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
22128563 GGATGGTTGA
* *
22128573 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
22128638 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
22128666 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
22128731 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
22128744 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:22131726 original size:15 final size:15
Alignment explanation
Indices: 22131706--22131761 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
22131696 ATATCTTGGG
22131706 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
22131721 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
22131736 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
22131751 TTTCTTTATTC
1 TTTCTTTATTC
22131762 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:22135773 original size:18 final size:18
Alignment explanation
Indices: 22135750--22135786 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
22135740 TCTTGATCTA
22135750 TATGTATTCAAAATTAAC
1 TATGTATTCAAAATTAAC
22135768 TATGTATTCAAAATTAAC
1 TATGTATTCAAAATTAAC
22135786 T
1 T
22135787 CTTTTATTCG
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:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (18 bp):
TATGTATTCAAAATTAAC
Found at i:22139217 original size:17 final size:17
Alignment explanation
Indices: 22139195--22139236 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
22139185 AATTTGGTTA
22139195 TTTATTTTTTAATTATT
1 TTTATTTTTTAATTATT
22139212 TTTATTTTTTAATTATT
1 TTTATTTTTTAATTATT
22139229 TATTATTT
1 T-TTATTT
22139237 ATGATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTTTAATTATT
Found at i:22139238 original size:11 final size:11
Alignment explanation
Indices: 22139192--22139238 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
22139182 TGCAATTTGG
*
22139192 TTATTTATTTT
1 TTATTTATTAT
*
22139203 TTAATTATT-T
1 TTATTTATTAT
* *
22139213 TTATTTTTTAA
1 TTATTTATTAT
22139224 TTATTTATTAT
1 TTATTTATTAT
22139235 TTAT
1 TTAT
22139239 GATTTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTATTAT
Found at i:22142270 original size:49 final size:49
Alignment explanation
Indices: 22142213--22142388 Score: 210
Period size: 50 Copynumber: 3.5 Consensus size: 49
22142203 CTGCTACGCA
*
22142213 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCCGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCCGTACACG
** **
22142262 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT-TTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCCG-TACACG
* * ** * *
22142312 TAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-TTATCCCGTACACG
22142363 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
22142389 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 34 0.31
50 43 0.39
51 31 0.28
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCCGTACACG
Found at i:22142396 original size:101 final size:99
Alignment explanation
Indices: 22142213--22142396 Score: 269
Period size: 101 Copynumber: 1.8 Consensus size: 99
22142203 CTGCTACGCA
*
22142213 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCCGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCCGTACACATAGTAGCCTGCACTTA
*
22142278 GTACTACACACGTGACCTAACCATTTGATACACG
66 GTACTACACACGCGACCTAACCATTTGATACACG
* * * ** *
22142312 TAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACATGACCA-A-TTATCCCGTACACATAGTAGCCTGCACT
*
22142377 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
22142397 CACAATAGAT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 32 0.43
100 1 0.01
101 41 0.55
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCCGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATTTGATACACG
Found at i:22144632 original size:7 final size:7
Alignment explanation
Indices: 22144622--22144658 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
22144612 AAGAGAGAAT
22144622 GATGAGG
1 GATGAGG
22144629 GATGAGG
1 GATGAGG
22144636 GATGAGG
1 GATGAGG
*
22144643 GATGATG
1 GATGAGG
*
22144650 AATGAGG
1 GATGAGG
22144657 GA
1 GA
22144659 ATGAAGGGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.51, T:0.16
Consensus pattern (7 bp):
GATGAGG
Found at i:22145967 original size:3 final size:3
Alignment explanation
Indices: 22145959--22145999 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
22145949 CTTTCGTTGT
22145959 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22146000 TAGCATGAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22147900 original size:55 final size:53
Alignment explanation
Indices: 22147718--22147972 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
22147708 ACACGGGTAC
* * * * *
22147718 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * *
22147767 CTTACCATTGCCATGTCTTGACATGGTCATACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * *
22147820 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGTCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AA
* ***
22147875 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAGA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGA-A
* * * *
22147928 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
22147973 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 3 0.02
53 46 0.27
54 10 0.06
55 70 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:22147909 original size:108 final size:110
Alignment explanation
Indices: 22147765--22147965 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
22147755 ATCCTTTTGA
* *
22147765 AACTTACCATTGCCATGTCTTGACATGGTCATACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCATACATGATATCCTTGCCTTA-GAGACCTCACCAA
22147828 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
* * * *
22147873 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAGACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCATACATGATATCCTTGCCTTAGAGACCTCACCAAT
*
22147938 TGTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
22147966 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.57
109 7 0.08
110 27 0.33
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCATACATGATATCCTTGCCTTAGAGACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATAGT
Found at i:22156051 original size:54 final size:54
Alignment explanation
Indices: 22155969--22156077 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
22155959 AGCAAAGAGC
*
22155969 TCCTTTTCAATTACCATATAATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCA
1 TCCTTTTCAATGACCATATAATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCA
22156023 TCCTTTTCAATGACCATATAATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCA
1 TCCTTTTCAATGACCATATAATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCA
22156077 T
1 T
22156078 AGTAAATAGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (54 bp):
TCCTTTTCAATGACCATATAATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCA
Found at i:22156970 original size:13 final size:13
Alignment explanation
Indices: 22156952--22156980 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22156942 TCAACAATCG
22156952 TTTGATCACTTCC
1 TTTGATCACTTCC
22156965 TTTGATCACTTCC
1 TTTGATCACTTCC
22156978 TTT
1 TTT
22156981 CATAATAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.52
Consensus pattern (13 bp):
TTTGATCACTTCC
Found at i:22170126 original size:45 final size:45
Alignment explanation
Indices: 22170047--22170154 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 45
22170037 TTTCGCCTGT
22170047 TAGGCTCG-AGGCCCG-ATATCAGTTCACCGACATTATAGCCTAC
1 TAGGCTCGAAGGCCCGAATATCAGTTCACCGACATTATAGCCTAC
* ** *
22170090 TAGGCTCGAAGGCCCGAATAGT-A-TCTCACCGGCATTATAGTTTGC
1 TAGGCTCGAAGGCCCGAATA-TCAGT-TCACCGACATTATAGCCTAC
* *
22170135 TAAGCTCAAAGGCCCGAATA
1 TAGGCTCGAAGGCCCGAATA
22170155 ATCAAGTCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 8 0.15
44 8 0.15
45 38 0.69
46 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (45 bp):
TAGGCTCGAAGGCCCGAATATCAGTTCACCGACATTATAGCCTAC
Found at i:22170518 original size:43 final size:43
Alignment explanation
Indices: 22170485--22170679 Score: 320
Period size: 43 Copynumber: 4.6 Consensus size: 43
22170475 GGTATTACAT
* * *
22170485 CTGCTAGGCACGAAGGCTCGAATACACATCACCGGTACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
* *
22170528 CTGTTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
*
22170571 CTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
22170614 CTGCTAGGCACGAAGGCCCGAAT-CACATCACCGGCACTAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
*
22170656 CTGCTAGGCATGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
22170680 TAATACTAGC
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
42 40 0.28
43 103 0.72
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGC
Found at i:22170720 original size:38 final size:38
Alignment explanation
Indices: 22170672--22170744 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
22170662 GGCATGAAGG
* * * *
22170672 CCCGAATATAATACTAGCACTAGGCTTGCGGGATTAAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTAAT
*
22170710 CCCGGATATAATACCAGCACGAAGCCTGCGGGATT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATT
22170745 TAAACCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTAAT
Found at i:22174612 original size:45 final size:45
Alignment explanation
Indices: 22174513--22174638 Score: 127
Period size: 45 Copynumber: 2.9 Consensus size: 45
22174503 TTTCTCAAAC
* * *
22174513 CACCGGTATTTTA-CCTGTTAGGCTCG-AGGCCCG-ATATCAGTT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGTT
22174555 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-TCT
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT-T
* ** * *
22174600 CACTGGCATTATAGTTTGCTAAGCTCAAAGGCCCGAATA
1 CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
22174639 ATCAAGTCAA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
42 11 0.15
43 12 0.17
44 8 0.11
45 39 0.55
46 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGTT
Found at i:22175015 original size:43 final size:43
Alignment explanation
Indices: 22174967--22175164 Score: 308
Period size: 43 Copynumber: 4.6 Consensus size: 43
22174957 CCGGCATTAT
22174967 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
22175010 GCCTGCTAGGCACGAAGGCCTGAATACACATCATCAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
22175053 GCCTGCTAGGCACGAAGGCTCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
22175096 GCCTGCTAGGCACGAAGG-CTGAAATACACATCACCGACACTAA
1 GCCTGCTAGGCACGAAGGCCCG-AATACACATCACCGGCACGAA
22175139 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
22175165 TAATACCAGC
Statistics
Matches: 141, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 138 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.32, G:0.24, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:22175208 original size:129 final size:129
Alignment explanation
Indices: 22174954--22175185 Score: 326
Period size: 129 Copynumber: 1.8 Consensus size: 129
22174944 ACATATCATT
* * *
22174954 TCACCGGCATTATGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAG
* * * *
22175019 GCACGAAGGCCTGAATACACATCATCAGCACGAAGCCTGCTAGGCACGAAGGCTCGAATACACA
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGATAGAATACACA
* *
22175083 TCACCGGCACTAAGCCTGCTAGGCACGAAGG-CTGAAATACACATCACCGACACTAAGCCTGCTA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCG-AATACACATCACCGACACGAAGCCTGCTA
* * *
22175147 GGCACGAAGGCCCGAATATA-AT-ACCAGCACTAGGCCTGC
65 GGCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
22175186 GGGATTTATC
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
127 14 0.15
128 4 0.04
129 74 0.80
ACGTcount: A:0.31, C:0.32, G:0.23, T:0.14
Consensus pattern (129 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAG
GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACGAAGGATAGAATACACA
Found at i:22175210 original size:38 final size:38
Alignment explanation
Indices: 22175157--22175240 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
22175147 GGCACGAAGG
* *
22175157 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
* * *
22175195 CCCGGATATAATACCAGCACGAAGCCTGCGGGTTTTAA
1 CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
*
22175233 CCCAAATA
1 CCCGAATA
22175241 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTGCGGGATTTAT
Found at i:22177505 original size:20 final size:20
Alignment explanation
Indices: 22177471--22177545 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
22177461 GATACGTGGG
22177471 ATATGATAT-ACATGAAT-T
1 ATATGATATCACATGAATAT
22177489 ATATGATATACACATG-ATAT
1 ATATGATAT-CACATGAATAT
*
22177509 GTATGATATGCACATG-ATAT
1 ATATGATAT-CACATGAATAT
* *
22177529 GTATGAAATGCACATGA
1 ATATGATAT-CACATGA
22177546 TGTAATCATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.18
19 2 0.04
20 39 0.78
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.33
Consensus pattern (20 bp):
ATATGATATCACATGAATAT
Found at i:22177546 original size:20 final size:20
Alignment explanation
Indices: 22177499--22177546 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
22177489 ATATGATATA
*
22177499 CACATGATATGTATGATATG
1 CACATGATATGTATGAAATG
22177519 CACATGATATGTATGAAATG
1 CACATGATATGTATGAAATG
22177539 CACATGAT
1 CACATGAT
22177547 GTAATCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (20 bp):
CACATGATATGTATGAAATG
Found at i:22177638 original size:26 final size:26
Alignment explanation
Indices: 22177596--22177731 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
22177586 GAGGAAGTGC
22177596 AAAAGGGC-TATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
22177621 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
22177647 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
22177673 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
22177699 AAAAGGGCTT-TGCCCTAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
22177722 AAAAGAGGCT
1 AAAAG-GGCT
22177732 AGGCCTCCAG
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 7 0.07
25 16 0.16
26 72 0.72
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:22177673 original size:52 final size:52
Alignment explanation
Indices: 22177596--22177731 Score: 217
Period size: 52 Copynumber: 2.7 Consensus size: 52
22177586 GAGGAAGTGC
22177596 AAAAGGGC-TATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
22177647 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
22177699 AAAAGGGCTT-TGCCCTAG-TTATT-AAAAGAGGCT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCT
22177732 AGGCCTCCAG
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
49 5 0.06
50 9 0.11
51 15 0.19
52 52 0.64
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:22179260 original size:12 final size:12
Alignment explanation
Indices: 22179245--22179270 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22179235 CGAGGCCGCA
22179245 GACGTGGTCGCG
1 GACGTGGTCGCG
22179257 GACGTGGTCGCG
1 GACGTGGTCGCG
22179269 GA
1 GA
22179271 AGGGTGCAAG
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:0.12, C:0.23, G:0.50, T:0.15
Consensus pattern (12 bp):
GACGTGGTCGCG
Found at i:22185814 original size:20 final size:20
Alignment explanation
Indices: 22185789--22185833 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
22185779 ATACGTGGGA
22185789 TATGATATACACATGATATG
1 TATGATATACACATGATATG
*
22185809 TATGATATGCACATGATATG
1 TATGATATACACATGATATG
22185829 TATGA
1 TATGA
22185834 AATGTACATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.36
Consensus pattern (20 bp):
TATGATATACACATGATATG
Found at i:22185842 original size:20 final size:20
Alignment explanation
Indices: 22185798--22185845 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
22185788 ATATGATATA
*
22185798 CACATGATATGTATGATATG
1 CACATGATATGTATGAAATG
22185818 CACATGATATGTATGAAATG
1 CACATGATATGTATGAAATG
*
22185838 TACATGAT
1 CACATGAT
22185846 GTAATCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (20 bp):
CACATGATATGTATGAAATG
Found at i:22185944 original size:26 final size:25
Alignment explanation
Indices: 22185891--22185946 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 25
22185881 GATGAAGTGC
**
22185891 AAAAGGGCTATGCCCCAGTTTATTG
1 AAAAGGGCTATGCCCCAGTTTACCG
22185916 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGC-TATGCCCCAGTTTACCG
22185942 AAAAG
1 AAAAG
22185947 CCCCAGTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCG
Found at i:22188520 original size:68 final size:67
Alignment explanation
Indices: 22188474--22188631 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 67
22188464 ATACTATATA
22188474 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
22188539 AAT
65 AAT
22188542 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
22188607 AAT
65 AAT
* *
22188610 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
22188632 TCCAAGTGAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 88 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:22205890 original size:68 final size:67
Alignment explanation
Indices: 22205844--22206001 Score: 262
Period size: 68 Copynumber: 2.3 Consensus size: 67
22205834 ATACTATATA
* * *
22205844 GTAGCTAGGTCACATGTGTGTTACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTAC-TAAGAGATA
22205909 AAT
65 AAT
22205912 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACGTAAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTAC-TAAGAGATA
22205977 AAT
65 AAT
*
22205980 GTAGCTAGGTCACATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
22206002 TCCAAGTGAA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 86 1.00
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGAGATGTATCCCATGTAGACAAGAGAGCTACTAAGAGATAA
AT
Found at i:22207473 original size:46 final size:43
Alignment explanation
Indices: 22207388--22207509 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 43
22207378 GGGTAGAATA
22207388 CCGATGCCATGTCCTAGACATGGTCTTACACTGACACATCTCGTA-G
1 CCGATG-CATGTCC-AGACAT-GTCTTACACTGACACATCTCG-AGG
* *
22207434 CCGATGCATGTCTCAGACATCTCTTACACTGGCTTACATCTCGAGG
1 CCGATGCATGTC-CAGACATGTCTTACACTGAC--ACATCTCGAGG
22207480 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGT-CCAGACATGTCTTACACT
22207510 AGCTCTTGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
44 11 0.16
45 13 0.19
46 43 0.63
47 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (43 bp):
CCGATGCATGTCCAGACATGTCTTACACTGACACATCTCGAGG
Found at i:22220819 original size:46 final size:48
Alignment explanation
Indices: 22220715--22220827 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
22220705 TGTCTTCGAC
** * *
22220715 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
* * *
22220763 ATGGGCTTACATGGCTCATTCCTATCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
22220809 ATGGACTTACATGGCTCAT
1 ATGGACTTACATGGCTCAT
22220828 ATCTGTCCTG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 21 0.37
47 1 0.02
48 35 0.61
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTATCTCCAAAGCCATATATATATAAT
Found at i:22220831 original size:42 final size:45
Alignment explanation
Indices: 22220736--22220831 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
22220726 TGAATTATTC
* *
22220736 CTATCTCCAATGCCATATATATATAATATGGGCTTACATGGCTCA
1 CTATCTCCAAAGCCATATATATATAATATGGACTTACATGGCTCA
* *
22220781 TTCCTATCTCCAAAGCCATATA-A-CTGATATGGACTTACATGGCTCA
1 ---CTATCTCCAAAGCCATATATATATAATATGGACTTACATGGCTCA
22220827 -TATCT
1 CTATCT
22220832 GTCCTGTCCT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 5 0.11
46 20 0.45
47 1 0.02
48 18 0.41
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (45 bp):
CTATCTCCAAAGCCATATATATATAATATGGACTTACATGGCTCA
Found at i:22225168 original size:46 final size:47
Alignment explanation
Indices: 22225056--22225174 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
22225046 TGTCTTCGAC
* * * *
22225056 ATGGACTTACA-TGAATTATTCCTGTCTCCAATGCCATATATATATAT
1 ATGGACTTACATTG-CTCATTCCTGTCTCCAAAGCCATATATATAGAT
* *
22225103 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-ACT-GAT
1 ATGGACTTACATTGCTCATTCCTGTCTCCAAAGCCATATATA-TAGAT
*
22225149 ATGGACTTACATTGCTCATTTCTGTC
1 ATGGACTTACATTGCTCATTCCTGTC
22225175 CTGTCCTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
46 26 0.43
47 34 0.56
48 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (47 bp):
ATGGACTTACATTGCTCATTCCTGTCTCCAAAGCCATATATATAGAT
Found at i:22228513 original size:27 final size:26
Alignment explanation
Indices: 22228482--22228659 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
22228472 TAAATTGTAC
22228482 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
22228509 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
22228535 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
22228563 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
22228591 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* * *
22228618 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
22228645 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22228660 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.01
27 100 0.79
28 25 0.20
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:22228598 original size:82 final size:81
Alignment explanation
Indices: 22228483--22228638 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
22228473 AAATTGTACA
* * *
22228483 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
22228547 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
22228564 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
22228629 TGCGAGTTGA
65 TGCGAATTGA
22228639 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:22228650 original size:82 final size:81
Alignment explanation
Indices: 22228479--22228659 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
22228469 GATTAAATTG
* * *
22228479 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
22228544 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
22228560 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
22228624 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
22228642 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
22228660 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:22254147 original size:24 final size:24
Alignment explanation
Indices: 22254120--22254171 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
22254110 TTAGTAAGTC
*
22254120 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
22254144 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
22254168 AAAT
1 AAAT
22254172 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:22257174 original size:41 final size:41
Alignment explanation
Indices: 22257119--22257357 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
22257109 GAATGTAATA
* *
22257119 CAGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTT
22257160 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
22257201 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* *
22257242 CAGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTT
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
* * *
22257283 CAGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAAT
1 CAGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TT
* * **
22257324 CAGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
22257358 ATCTGTTTAA
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 168 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTT
Found at i:22264806 original size:41 final size:41
Alignment explanation
Indices: 22264752--22264989 Score: 297
Period size: 41 Copynumber: 5.8 Consensus size: 41
22264742 AATGTAATAA
* *
22264752 AGACGTTACGTCTAGCAGGCTTAATGCCGGTGAAGTA-A-TTC
1 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTG-A-TACATTTC
22264793 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
1 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
22264834 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
1 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
* *
22264875 AGACTATATGTCTAGCAGGCTTAATGCCGGTGATACATTTC
1 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
* * *
22264916 AGACTATATGTCTAGCAGGC-TAAGTGCCGGTG-TAC-TGAATC
1 AGACTTTAAGTCTAGCAGGCTTAA-TGCCGGTGATACAT--TTC
* * **
22264957 AGGCTTTAAGCCTAGCAGGCAAAATGCCGGTGA
1 AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGA
22264990 ATCTGTTTAA
Statistics
Matches: 180, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 3 0.02
40 8 0.04
41 167 0.93
42 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
AGACTTTAAGTCTAGCAGGCTTAATGCCGGTGATACATTTC
Found at i:22279482 original size:50 final size:49
Alignment explanation
Indices: 22279402--22279595 Score: 196
Period size: 50 Copynumber: 4.0 Consensus size: 49
22279392 GTCCTTGTAT
* * * * *
22279402 ATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTGGATTTTGA
1 ATATTTGGCCATA-AGGTATGCACATATGTGATATTATATTTGATTTTGA
* *
22279452 ATATTTGGCCATGAAGGTATGCACAAATGTGATATTATATTTGAATTTGA
1 ATATTTGGCCAT-AAGGTATGCACATATGTGATATTATATTTGATTTTGA
* * * * * * * *
22279502 ATATTCGGCCAT-A--TAAGTACATATTTGATGTTAAATTTGATCTTGC
1 ATATTTGGCCATAAGGTATGCACATATGTGATATTATATTTGATTTTGA
*
22279548 ATATTTGACCATATAGGTATGCACATATGTGATATTATATTTGATTTT
1 ATATTTGGCCATA-AGGTATGCACATATGTGATATTATATTTGATTTT
22279596 CTATCGACCA
Statistics
Matches: 114, Mismatches: 25, Indels: 10
0.77 0.17 0.07
Matches are distributed among these distances:
46 34 0.30
48 2 0.02
50 77 0.68
51 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (49 bp):
ATATTTGGCCATAAGGTATGCACATATGTGATATTATATTTGATTTTGA
Found at i:22287994 original size:40 final size:40
Alignment explanation
Indices: 22287950--22288211 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
22287940 GCTCCTCGTT
* *
22287950 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
22287990 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
22288030 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22288069 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
22288108 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
22288147 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
22288188 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
22288212 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Done.