Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 75 of 216
Found at i:22835901 original size:14 final size:14
Alignment explanation
Indices: 22835882--22835910 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22835872 GCATACTCAC
22835882 CTCCAGCCCACATG
1 CTCCAGCCCACATG
22835896 CTCCAGCCCACATG
1 CTCCAGCCCACATG
22835910 C
1 C
22835911 ATAATGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.52, G:0.14, T:0.14
Consensus pattern (14 bp):
CTCCAGCCCACATG
Found at i:22838241 original size:49 final size:49
Alignment explanation
Indices: 22838183--22838352 Score: 295
Period size: 49 Copynumber: 3.5 Consensus size: 49
22838173 TAAGAATATT
* * *
22838183 AACTATTTTGTATTTTATTAAATGAAATAATATTAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
22838232 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTTAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
22838281 AAATATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
22838330 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
22838353 TAATATAAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 114 1.00
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:22838515 original size:21 final size:21
Alignment explanation
Indices: 22838491--22838530 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
22838481 TTATGGTTGC
22838491 TCCGG-AGAGGATTCTGGTTTA
1 TCCGGTAGAGGA-TCTGGTTTA
*
22838512 TCCGGTAGGGGATCTGGTT
1 TCCGGTAGAGGATCTGGTT
22838531 GTCGGTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.33
Consensus pattern (21 bp):
TCCGGTAGAGGATCTGGTTTA
Found at i:22838797 original size:18 final size:18
Alignment explanation
Indices: 22838771--22838813 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22838761 GACTAGAAAA
* * *
22838771 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
22838789 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
22838807 AGGATAC
1 AGGATAC
22838814 CCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:22841042 original size:31 final size:29
Alignment explanation
Indices: 22841004--22841070 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
22840994 AATTTCAAAA
*
22841004 TTATATATAAATTATAATTTAATGTGTAATT
1 TTATATATAAATTATAATTT--TGTATAATT
* *
22841035 TTATATATAAATTTTTATTTTGTATAATT
1 TTATATATAAATTATAATTTTGTATAATT
22841064 TTATATA
1 TTATATA
22841071 AGAAATTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
31 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (29 bp):
TTATATATAAATTATAATTTTGTATAATT
Found at i:22841051 original size:27 final size:29
Alignment explanation
Indices: 22841021--22841079 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
22841011 TAAATTATAA
* *
22841021 TTTA-ATGTGTAATTTTATAT-ATAAATT
1 TTTATATGTATAATTTTATATAAGAAATT
*
22841048 TTTATTTTGTATAATTTTATATAAGAAATT
1 TTTA-TATGTATAATTTTATATAAGAAATT
22841078 TT
1 TT
22841080 GATTTTATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
29 14 0.54
30 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (29 bp):
TTTATATGTATAATTTTATATAAGAAATT
Found at i:22841095 original size:30 final size:29
Alignment explanation
Indices: 22841030--22841087 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
22841020 ATTTAATGTG
* * *
22841030 TAATTTTATATATAAATTTTTATTTTGTA
1 TAATTTTATATAGAAATTTTGATTTTATA
22841059 TAATTTTATATAAGAAATTTTGATTTTAT
1 TAATTTTATAT-AGAAATTTTGATTTTAT
22841088 CTTATTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (29 bp):
TAATTTTATATAGAAATTTTGATTTTATA
Found at i:22842265 original size:5 final size:5
Alignment explanation
Indices: 22842255--22842283 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
22842245 AATGGAATTT
22842255 GAATC GAATC GAATC GAATC GAATC GAAT
1 GAATC GAATC GAATC GAATC GAATC GAAT
22842284 ATATTTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (5 bp):
GAATC
Found at i:22843016 original size:45 final size:45
Alignment explanation
Indices: 22842965--22843058 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
22842955 AAAAGTGAGA
22842965 GGGAGTAAAAATTTTGAGAGAAAATAAAAGGTTTTCAGGGTTTTT
1 GGGAGTAAAAATTTTGAGAGAAAATAAAAGGTTTTCAGGGTTTTT
*
22843010 GGGAGTAAAAATTTTGGGAGAAAATAAAAGGTTTTCAGGGTTTTT
1 GGGAGTAAAAATTTTGAGAGAAAATAAAAGGTTTTCAGGGTTTTT
22843055 GGGA
1 GGGA
22843059 AATGGATTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (45 bp):
GGGAGTAAAAATTTTGAGAGAAAATAAAAGGTTTTCAGGGTTTTT
Found at i:22845006 original size:13 final size:14
Alignment explanation
Indices: 22844988--22845018 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
22844978 TTAAAAACTT
22844988 AGAATTTTTTTT-A
1 AGAATTTTTTTTCA
22845001 AGAATTTTTTTTCA
1 AGAATTTTTTTTCA
22845015 AGAA
1 AGAA
22845019 AACTCTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.52
Consensus pattern (14 bp):
AGAATTTTTTTTCA
Found at i:22845205 original size:16 final size:16
Alignment explanation
Indices: 22845180--22845222 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
22845170 TAAGTTATGC
22845180 GAACCCTTATGCATGA
1 GAACCCTTATGCATGA
* * *
22845196 GAACCATTATGTATGC
1 GAACCCTTATGCATGA
22845212 GAACCCTTATG
1 GAACCCTTATG
22845223 AATACAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (16 bp):
GAACCCTTATGCATGA
Found at i:22845238 original size:32 final size:32
Alignment explanation
Indices: 22845175--22845238 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
22845165 GGTAATAAGT
* * *
22845175 TATGCGAACCCTTATGCATGAGAACCATTATG
1 TATGCGAACCCTTATGAATGACAAACATTATG
22845207 TATGCGAACCCTTATGAAT-ACAAACACTTATG
1 TATGCGAACCCTTATGAATGACAAACA-TTATG
22845239 GATTTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 5 0.18
32 23 0.82
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (32 bp):
TATGCGAACCCTTATGAATGACAAACATTATG
Found at i:22845349 original size:24 final size:24
Alignment explanation
Indices: 22845321--22845371 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
22845311 ATATTGTGCG
*
22845321 AACCCTCATATGATTTAATATGCA
1 AACCCTCATATGAATTAATATGCA
* *
22845345 AACCCTCATGTGAATTAGTATGCA
1 AACCCTCATATGAATTAATATGCA
22845369 AAC
1 AAC
22845372 TATCATGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (24 bp):
AACCCTCATATGAATTAATATGCA
Found at i:22849690 original size:3 final size:3
Alignment explanation
Indices: 22849682--22849706 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
22849672 TTAAAATATG
22849682 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
22849707 ATTGTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22849953 original size:17 final size:17
Alignment explanation
Indices: 22849912--22849961 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
22849902 GTAAATAATA
* *
22849912 AAAAGAAATAAAAACA-
1 AAAAGAAAGAAAAAGAG
22849928 AAACA-AAAGAAAAAGAG
1 AAA-AGAAAGAAAAAGAG
*
22849945 AAAAGAAAGAAACAGAG
1 AAAAGAAAGAAAAAGAG
22849962 GCATTCGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.76, C:0.06, G:0.16, T:0.02
Consensus pattern (17 bp):
AAAAGAAAGAAAAAGAG
Found at i:22850652 original size:3 final size:3
Alignment explanation
Indices: 22850644--22850672 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22850634 ATGAGGTAAG
22850644 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22850673 AGATAGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:22852713 original size:24 final size:24
Alignment explanation
Indices: 22852678--22852736 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
22852668 GAACCTTCAA
* *
22852678 GCAAAACCTTATGTGATTTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
*
22852702 GCGAACCCTTATGTGATCTAGTAT
1 GCAAACCCTTATGTGATCTAGTAT
22852726 GCAAACCCTTA
1 GCAAACCCTTA
22852737 CATAAATAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (24 bp):
GCAAACCCTTATGTGATCTAGTAT
Found at i:22852842 original size:130 final size:129
Alignment explanation
Indices: 22852600--22852862 Score: 348
Period size: 130 Copynumber: 2.0 Consensus size: 129
22852590 ATTTCATTAG
* ** *
22852600 AACCCTTACATAAACATGTATACACACAAAATCTGTATAAATTGATAGGTAAACTGTAGCTGATA
1 AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCCGATA
* **
22852665 TACGAACCTTCAAGCAAAACCTTATGTGATTTAGTATGCGAACCCTTATGTGATCTAGTATGCA
66 TACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGCA
* * * * *
22852729 AACCCTTACATAAATAGGTATACATACTAACTCTGTTATAAATTGATAGACGAACTGTAGCCGAT
1 AACCCTTACATAAACAGGTATACACACAAAATCTG-TATAAATTGATAGACAAACTGTAGCCGAT
* * * *
22852794 ATGA-GAACCTTCATGTAAAACCTTATGTAATTTAGTACACGAAGCCTTATGTGATCTATTATGC
65 AT-ACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGC
*
22852858 G
129 A
22852859 AACC
1 AACC
22852863 TTGTATGTGC
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
129 30 0.26
130 84 0.73
131 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (129 bp):
AACCCTTACATAAACAGGTATACACACAAAATCTGTATAAATTGATAGACAAACTGTAGCCGATA
TACGAACCTTCAAGCAAAACCTTATGTAATTTAGTACACGAACCCTTATGTGATCTAGTATGCA
Found at i:22865189 original size:101 final size:102
Alignment explanation
Indices: 22865059--22865243 Score: 257
Period size: 101 Copynumber: 1.8 Consensus size: 102
22865049 AAAGTCATGG
** *
22865059 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTA-C-CAAAATGATAGGTCGTATTTGTAGT
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGCAAAATGAT-GGTCACATGTGTAGT
22865122 ACTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
65 ACTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
* * * * * *
22865160 TCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
*
22865225 CTATGTGCAGTCTACTATG
66 CTATGTGCAGGCTACTATG
22865244 TGAACCCGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
101 34 0.47
102 32 0.44
103 6 0.08
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATATGCAGGCTACTACGTGTATCGCAAAATGATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACTAGATAGCTTCGA
Found at i:22865244 original size:51 final size:50
Alignment explanation
Indices: 22865057--22865245 Score: 177
Period size: 51 Copynumber: 3.7 Consensus size: 50
22865047 TGAAAGTCAT
* * * * * *
22865057 GGTCACGTGTGTAGTACTATATGCAGGCTACTACGTGTACCAAAATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGTGATA
** * * *
22865107 GGTCGTATTTGTAGTACTATGTGCAGGCTACTATGCGTACTAGATAGCT--TC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTAC--GATAG-TGATA
* * *
22865158 GATCACGTGTGTAGTACTATGTGTAGGCTACTATGTGTATCGGATAGTGAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTA-C-GATAGTGATA
*
22865209 GGTCACATGTGTAGTACTATGTGCAGTCTACTATGTG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
22865246 AACCCGTATC
Statistics
Matches: 110, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
50 34 0.31
51 71 0.65
52 4 0.04
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACGATAGTGATA
Found at i:22872159 original size:49 final size:48
Alignment explanation
Indices: 22871997--22872179 Score: 166
Period size: 49 Copynumber: 3.8 Consensus size: 48
22871987 TGAAAGTGAA
* *
22871997 AGTGAT-GGTCACGTGTTTAGTACTATGTGCAGGCTACTACGTGTACCA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGT--CAT
* ** *
22872045 AATGATAGGTCGTATGTGTAGCACTATGTGCAGGCTACTAC--GTCAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTCAT
** *
22872091 ACCGATAGCTTCGATCATGTGTAGTACTATGTGCAGGCTACTACGTGTCGGAT
1 AGTGATAG-GTC-A-CATGTGTAGTACTATGTGCAGGCTACTACGTGTC--AT
22872144 AGTGAT-GGTCACATGTGT-GTA-TATGTGCAGG-TACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
22872180 TGTGAACCAG
Statistics
Matches: 111, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
45 2 0.02
46 11 0.10
47 14 0.13
48 8 0.07
49 63 0.57
50 1 0.01
51 5 0.05
52 1 0.01
53 6 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (48 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTCAT
Found at i:22872182 original size:23 final size:24
Alignment explanation
Indices: 22872107--22872183 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 24
22872097 AGCTTCGATC
22872107 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTA-TATGTGCAGG-TACT
* * *
22872133 ACGTGTCGGATA-GTG-ATGGTCAC-
1 ATGTGTAGTATATGTGCA-GGT-ACT
22872156 ATGTGT-GTATATGTGCAGGTACT
1 ATGTGTAGTATATGTGCAGGTACT
22872179 ATGTG
1 ATGTG
22872184 AACCAGTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
22 6 0.15
23 18 0.44
24 8 0.20
25 2 0.05
26 7 0.17
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.34
Consensus pattern (24 bp):
ATGTGTAGTATATGTGCAGGTACT
Found at i:22872417 original size:16 final size:16
Alignment explanation
Indices: 22872396--22872427 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22872386 TGATTGAAAG
*
22872396 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
22872412 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
22872428 GCAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:22874700 original size:83 final size:81
Alignment explanation
Indices: 22874583--22874809 Score: 208
Period size: 83 Copynumber: 2.7 Consensus size: 81
22874573 TTATATCATT
* * * * * *
22874583 AAATCAAAATAAAATC-TATTAAACGACAGGAATAAATCCCGAAATAGAATTGTTTGA-TTACGT
1 AAATC-AAACAAAATCTTGTTAAACGGC-GGAATAAATCCCGAAACAGAATTATTTAATTTA-G-
*
22874646 CTTTG-TTTGGAAACAAAACA
62 -TTCGATTTGGAAACAAAACA
* * * * * *
22874666 ATATCGAATAAAATCTTGTTAAACGGCGATAATAAATCCTGAAACAGATTTATTTAATTTAGTTC
1 AAATCAAACAAAATCTTGTTAAACGGCG-GAATAAATCCCGAAACAGAATTATTTAATTTAGTTC
*
22874731 GAATTTGGAAACAAAATA
65 G-ATTTGGAAACAAAACA
* * *
22874749 AAATCAAACAAAATCTTTTTAAACGGCGGAATAAATCCCAAAACAGATTTTATTTAATTTA
1 AAATCAAACAAAATCTTGTTAAACGGCGGAATAAATCCCGAAACAGA-ATTATTTAATTTA
22874810 ATATCTCTTT
Statistics
Matches: 119, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
81 3 0.03
82 26 0.22
83 87 0.73
84 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (81 bp):
AAATCAAACAAAATCTTGTTAAACGGCGGAATAAATCCCGAAACAGAATTATTTAATTTAGTTCG
ATTTGGAAACAAAACA
Found at i:22877365 original size:15 final size:16
Alignment explanation
Indices: 22877335--22877374 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
22877325 CAAAAAACTA
*
22877335 AAATAATATTTATATT
1 AAATAATATATATATT
22877351 AAATAA-ATATATATT
1 AAATAATATATATATT
22877366 AAAT-ATATA
1 AAATAATATA
22877375 ACATTTGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.68
16 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATAATATATATATT
Found at i:22877914 original size:15 final size:17
Alignment explanation
Indices: 22877901--22877933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22877891 ATAAATAAAA
22877901 GATTTTTGAATAAAGAT
1 GATTTTTGAATAAAGAT
*
22877918 GGTTTTTGAATAAAGA
1 GATTTTTGAATAAAGA
22877934 ATTAATCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (17 bp):
GATTTTTGAATAAAGAT
Found at i:22885471 original size:17 final size:16
Alignment explanation
Indices: 22885398--22885546 Score: 79
Period size: 17 Copynumber: 8.7 Consensus size: 16
22885388 TTAATCATTT
22885398 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
22885414 TAATACTTATCAAGATAAATA
1 TAATA--T-T-AA-ATTAATA
* * *
22885435 TTAGATTAAATTAATC
1 TAATATTAAATTAATA
22885451 TAATATTAAATTTAATA
1 TAATATTAAA-TTAATA
22885468 TAATATTAAGA-TAATCA
1 TAATATTAA-ATTAAT-A
22885485 CTTTAATATTAAATTAATA
1 ---TAATATTAAATTAATA
* * * *
22885504 AAATACT--ATCAAGA
1 TAATATTAAATTAATA
*
22885518 TAAGTATTAAATTATATT
1 TAA-TATTAAATTA-ATA
22885536 TAATATTAAAT
1 TAATATTAAAT
22885547 CTATTAAAAT
Statistics
Matches: 100, Mismatches: 17, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
14 7 0.07
15 3 0.03
16 27 0.27
17 28 0.28
18 7 0.07
19 4 0.04
20 15 0.15
21 9 0.09
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:22886425 original size:17 final size:17
Alignment explanation
Indices: 22886403--22886437 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
22886393 AATGGCCTCA
*
22886403 TCATGTGTGTGTTACCC
1 TCATGTGTATGTTACCC
22886420 TCATGTGTATGTTACCC
1 TCATGTGTATGTTACCC
22886437 T
1 T
22886438 TATATGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (17 bp):
TCATGTGTATGTTACCC
Found at i:22888817 original size:13 final size:14
Alignment explanation
Indices: 22888798--22888895 Score: 75
Period size: 13 Copynumber: 7.2 Consensus size: 14
22888788 TCATCAAGAG
22888798 GAAAATGATTATAT
1 GAAAATGATTATAT
22888812 -AAAATGATTATAT
1 GAAAATGATTATAT
*
22888825 GAACCA-G-TTATAT
1 GAA-AATGATTATAT
22888838 GGAAAATGCA-TATAT
1 -GAAAATG-ATTATAT
22888853 -AAAATGATTATAT
1 GAAAATGATTATAT
**
22888866 GAATTTG-TTATAT
1 GAAAATGATTATAT
*
22888879 GCAAAT-AGTTATAT
1 GAAAATGA-TTATAT
22888893 GAA
1 GAA
22888896 TTGTGTATAC
Statistics
Matches: 66, Mismatches: 8, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
12 1 0.02
13 40 0.61
14 19 0.29
15 6 0.09
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (14 bp):
GAAAATGATTATAT
Found at i:22889882 original size:15 final size:15
Alignment explanation
Indices: 22889862--22889905 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
22889852 CTATGTATGC
* *
22889862 AAAACATAATAGACG
1 AAAACACAAAAGACG
22889877 AAAACACAAAAGACG
1 AAAACACAAAAGACG
*
22889892 GAAACACAAAAGAC
1 AAAACACAAAAGAC
22889906 ATAATAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.64, C:0.18, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAACACAAAAGACG
Found at i:22915834 original size:27 final size:27
Alignment explanation
Indices: 22915804--22915859 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
22915794 TACAAGGAGT
22915804 AAGTCAATAATTTGATCAATACTCATA
1 AAGTCAATAATTTGATCAATACTCATA
22915831 AAGTCAATAATTTGATCAATACTCATA
1 AAGTCAATAATTTGATCAATACTCATA
22915858 AA
1 AA
22915860 CACCTGAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (27 bp):
AAGTCAATAATTTGATCAATACTCATA
Found at i:22920478 original size:16 final size:18
Alignment explanation
Indices: 22920452--22920484 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22920442 TTAAATTAAC
22920452 TAAACTAA-TTTCTCAAT
1 TAAACTAATTTTCTCAAT
22920469 TAAA-TAATTTTCTCAA
1 TAAACTAATTTTCTCAA
22920485 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAACTAATTTTCTCAAT
Found at i:22929121 original size:3 final size:3
Alignment explanation
Indices: 22929113--22929142 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
22929103 CATTCCTCAC
22929113 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22929143 CACAAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22935032 original size:3 final size:3
Alignment explanation
Indices: 22935024--22935049 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22935014 GAGTAAAAAC
22935024 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
22935050 AAGTTCGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22935526 original size:32 final size:31
Alignment explanation
Indices: 22935471--22935531 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 31
22935461 GTGTTCACTT
22935471 AACTATTCAAAAATTTTAGTTTAAGTCATTG
1 AACTATTCAAAAATTTTAGTTTAAGTCATTG
22935502 AACTATTCAAAAAAATTTTA-TTTAAGTCAT
1 AACTATTC--AAAAATTTTAGTTTAAGTCAT
22935532 GAGGCTGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 8 0.29
32 10 0.36
33 10 0.36
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
AACTATTCAAAAATTTTAGTTTAAGTCATTG
Found at i:22937852 original size:43 final size:44
Alignment explanation
Indices: 22937795--22937882 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
22937785 ATTTACATAA
*
22937795 AAAAAAGTAAAATTTTAATGGGTATTTAATGAAAATAA-TAAAT
1 AAAAAACTAAAATTTTAATGGGTATTTAATGAAAATAATTAAAT
** * *
22937838 AAAAAACTAAAATTTTAATTTGTGTTTAATGAGAATAATTAAAT
1 AAAAAACTAAAATTTTAATGGGTATTTAATGAAAATAATTAAAT
22937882 A
1 A
22937883 TTATGATTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 33 0.85
44 6 0.15
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.35
Consensus pattern (44 bp):
AAAAAACTAAAATTTTAATGGGTATTTAATGAAAATAATTAAAT
Found at i:22938873 original size:22 final size:22
Alignment explanation
Indices: 22938826--22938878 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
22938816 AACTAGAATT
* *
22938826 GTATCAGTAAAAGGGTTCCCAT
1 GTATCGGTAAAAGGGTTCCCAA
* *
22938848 GTATTGGTAAAAGGGTTCTCAA
1 GTATCGGTAAAAGGGTTCCCAA
22938870 GTATCGGTA
1 GTATCGGTA
22938879 GAAGTTTGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (22 bp):
GTATCGGTAAAAGGGTTCCCAA
Found at i:22940688 original size:73 final size:72
Alignment explanation
Indices: 22940611--22940794 Score: 181
Period size: 73 Copynumber: 2.5 Consensus size: 72
22940601 CGGGTTGTAT
* * * **
22940611 ATCGGGAAGCTCATAAGAGCCATAATTGGGAAGCTCATGTGAGCCAATAACAGTTAGCTTCGAAG
1 ATCGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCAAGCGAGCC-ATAACAGGAAGCTTCGAAG
22940676 AGCCATTA
65 AGCCATTA
* * * * * **
22940684 ATCGGGAAGCTC-TAGATAGCCATAAATCGGGAAGTTTAAGCGAGCCATATCGGGAAGCTTCGGG
1 ATCGGGAAGCTCATA-AGAGCCAT-AATCGGGAAGCTCAAGCGAGCCATAACAGGAAGCTTCGAA
22940748 GAGCCATTA
64 GAGCCATTA
* * *
22940757 ATCAGGAAGCTCAAAAAGAGCCTTTAATCGGGAAGCTC
1 ATCGGGAAGCTC-ATAAGAGCC-ATAATCGGGAAGCTC
22940795 TAAAGAGCCA
Statistics
Matches: 88, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
72 2 0.02
73 51 0.58
74 33 0.38
75 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (72 bp):
ATCGGGAAGCTCATAAGAGCCATAATCGGGAAGCTCAAGCGAGCCATAACAGGAAGCTTCGAAGA
GCCATTA
Found at i:22940704 original size:25 final size:25
Alignment explanation
Indices: 22940611--22940805 Score: 111
Period size: 25 Copynumber: 7.9 Consensus size: 25
22940601 CGGGTTGTAT
22940611 ATCGGGAAGCTCATA-AGAGCCA-TA
1 ATCGGGAAGCTC-TAGAGAGCCATTA
* * *
22940635 ATTGGGAAGCTC-ATGTGAGCCAATA
1 ATCGGGAAGCTCTA-GAGAGCCATTA
* ** *
22940660 A-CAGTTAGCT-TCGAAGAGCCATTA
1 ATCGGGAAGCTCTAG-AGAGCCATTA
* *
22940684 ATCGGGAAGCTCTAGATAGCCATAA
1 ATCGGGAAGCTCTAGAGAGCCATTA
* *
22940709 ATCGGGAAG-TTTAAGCGAGCCA-T-
1 ATCGGGAAGCTCT-AGAGAGCCATTA
* *
22940732 ATCGGGAAGCT-TCGGGGAGCCATTA
1 ATCGGGAAGCTCT-AGAGAGCCATTA
* * * *
22940757 ATCAGGAAGCTCAAAAAGAGCCTTTA
1 ATCGGGAAGCTC-TAGAGAGCCATTA
*
22940783 ATCGGGAAGCTCTAAAGAGCCAT
1 ATCGGGAAGCTCTAGAGAGCCAT
22940806 ATAACAGGAC
Statistics
Matches: 127, Mismatches: 31, Indels: 25
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 18 0.14
24 35 0.28
25 52 0.41
26 21 0.17
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
ATCGGGAAGCTCTAGAGAGCCATTA
Found at i:22940783 original size:26 final size:25
Alignment explanation
Indices: 22940748--22940827 Score: 83
Period size: 26 Copynumber: 3.2 Consensus size: 25
22940738 AAGCTTCGGG
22940748 GAGCCATTAATCAGGAAGCTCAAAAA
1 GAGCCATTAATCAGGAAGCTC-AAAA
* * *
22940774 GAGCCTTTAATCGGGAAGCTCTAAA
1 GAGCCATTAATCAGGAAGCTCAAAA
*
22940799 GAGCCATATAA-CAGGACA-CTCATAA
1 GAGCCAT-TAATCAGGA-AGCTCAAAA
22940824 GAGC
1 GAGC
22940828 TATGATGTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 22 0.49
26 23 0.51
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.17
Consensus pattern (25 bp):
GAGCCATTAATCAGGAAGCTCAAAA
Found at i:22942867 original size:29 final size:28
Alignment explanation
Indices: 22942835--22942948 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 28
22942825 AAGGCTAAGA
*
22942835 TAGCCACAAAAGGATCCATTTAACAGAGG
1 TAGCCAC-AAAGGATCCTTTTAACAGAGG
* * * *
22942864 TAGCCACAAAGACATTCTTTTAATAGAGT
1 TAGCCACAAAG-GATCCTTTTAACAGAGG
*
22942893 TTGCCACAAAGGCATCCTTTTAACAGAGG
1 TAGCCACAAAGG-ATCCTTTTAACAGAGG
22942922 TCA-CCACAAA-GACTTCCTTTTAACAGA
1 T-AGCCACAAAGGA--TCCTTTTAACAGA
22942949 TATTGCTACA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 5 0.07
29 63 0.91
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (28 bp):
TAGCCACAAAGGATCCTTTTAACAGAGG
Found at i:22942915 original size:58 final size:58
Alignment explanation
Indices: 22942837--22943027 Score: 189
Period size: 58 Copynumber: 3.3 Consensus size: 58
22942827 GGCTAAGATA
* *
22942837 GCCACAAAAGG-ATCCATTTAACAGAGGTAGCCACAAAGACATTCTTTTAATAGAGTTT
1 GCCAC-AAAGGCATCCTTTTAACAGAGGTAGCCACAAAGACATTCTTTTAACAGAGTTT
22942895 GCCACAAAGGCATCCTTTTAACAGAGGTCA-CCACAAAGAC-TTCCTTTTAACAGA-TATT
1 GCCACAAAGGCATCCTTTTAACAGAGGT-AGCCACAAAGACATT-CTTTTAACAGAGT-TT
* * * * * * * * *
22942953 GCTACAAATGCTTCCTTTTAATAGAGATTGCCACAAAAACA-TCTTTT--CAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGGTAGCCACAAAGACATTCTTTTAACAGAGTTT
*
22943008 GCCACAAAGGCGTCCTTTTA
1 GCCACAAAGGCATCCTTTTA
22943028 TAGAAATTGC
Statistics
Matches: 112, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
55 22 0.20
57 13 0.12
58 76 0.68
59 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (58 bp):
GCCACAAAGGCATCCTTTTAACAGAGGTAGCCACAAAGACATTCTTTTAACAGAGTTT
Found at i:22942971 original size:87 final size:83
Alignment explanation
Indices: 22942880--22943043 Score: 204
Period size: 87 Copynumber: 1.9 Consensus size: 83
22942870 CAAAGACATT
* ** * *
22942880 CTTTTAATAGAGTTTGCCACAAAGGCATCCTTTTAACAGAGGTCA-CCACAAAGACTTCCTTTTA
1 CTTTTAATAGAGATTGCCACAAAAACAT-CTTTT--CAGAGAT-AGCCACAAAGACGTCCTTTT-
*
22942944 ACAGATATTGCTACAAATGCTTC
61 ACAGAAATTGCTACAAATGCTTC
* *
22942967 CTTTTAATAGAGATTGCCACAAAAACATCTTTTCAGAGATAGCCACAAAGGCGTCCTTTTATAGA
1 CTTTTAATAGAGATTGCCACAAAAACATCTTTTCAGAGATAGCCACAAAGACGTCCTTTTACAGA
22943032 AATTGCTACAAA
66 AATTGCTACAAA
22943044 GGAACTTCTT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
83 16 0.24
84 22 0.32
86 5 0.07
87 25 0.37
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (83 bp):
CTTTTAATAGAGATTGCCACAAAAACATCTTTTCAGAGATAGCCACAAAGACGTCCTTTTACAGA
AATTGCTACAAATGCTTC
Found at i:22943043 original size:28 final size:29
Alignment explanation
Indices: 22942853--22943045 Score: 144
Period size: 29 Copynumber: 6.8 Consensus size: 29
22942843 AAAGGATCCA
* * *
22942853 TTTAACAGAGGTAGCCACAAAGACATT-CT
1 TTTAACAGAGATTGCCACAAAGGC-TTCCT
* * *
22942882 TTTAATAGAGTTTGCCACAAAGGCATCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* ** *
22942911 TTTAACAGAGGTCACCACAAAGACTTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* * *
22942940 TTTAACAGATATTGCTACAAATGCTTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* ** *
22942969 TTTAATAGAGATTGCCACAAAAACAT-CT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* *
22942997 TTT--CAGAGATAGCCACAAAGGCGTCCT
1 TTTAACAGAGATTGCCACAAAGGCTTCCT
* * *
22943024 TTT-ATAGAAATTGCTACAAAGG
1 TTTAACAGAGATTGCCACAAAGG
22943046 AACTTCTTTA
Statistics
Matches: 128, Mismatches: 33, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
26 16 0.12
27 5 0.04
28 20 0.16
29 87 0.68
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (29 bp):
TTTAACAGAGATTGCCACAAAGGCTTCCT
Found at i:22947040 original size:45 final size:44
Alignment explanation
Indices: 22946967--22947123 Score: 188
Period size: 45 Copynumber: 3.5 Consensus size: 44
22946957 CACATAGCAT
* * * * * * *
22946967 CACCCTTATAGTCAATGATACTCGGTGGAATTAGCACATAACAAC
1 CACCTTTATAATCAATG-TACCCAGTGGAATCAGCACACAGCAAC
* *
22947012 CACCTTCATAATCAATAGTACCCAGTGGAACCAGCACACAGCAAC
1 CACCTTTATAATCAAT-GTACCCAGTGGAATCAGCACACAGCAAC
*
22947057 CACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAGCAAC
1 CACCTTTATAATCAATG-TACCCAGTGGAATCAGCACACAGCAAC
22947102 CACCTTTATAATCAATGGTACC
1 CACCTTTATAATCAAT-GTACC
22947124 TGGTACACGT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
44 1 0.01
45 94 0.97
46 2 0.02
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.22
Consensus pattern (44 bp):
CACCTTTATAATCAATGTACCCAGTGGAATCAGCACACAGCAAC
Found at i:22957307 original size:33 final size:33
Alignment explanation
Indices: 22957264--22957329 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
22957254 ACCATGTGTT
*
22957264 AGCACTCTTTGTGTAAGCTTCCCATCTATCCGA
1 AGCACACTTTGTGTAAGCTTCCCATCTATCCGA
*
22957297 AGCACACTTTGTGTAAGCTTCCCATGTATCCGA
1 AGCACACTTTGTGTAAGCTTCCCATCTATCCGA
22957330 TATTATTCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.32
Consensus pattern (33 bp):
AGCACACTTTGTGTAAGCTTCCCATCTATCCGA
Found at i:22960805 original size:20 final size:21
Alignment explanation
Indices: 22960780--22960835 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
22960770 AGTCAATTTT
22960780 TATCGATACTTTATATA-AAG
1 TATCGATACTTTATATATAAG
*
22960800 TATCGAT-CTTTAGGA-ATAAG
1 TATCGATACTTTA-TATATAAG
*
22960820 TATCGATATTTTATAT
1 TATCGATACTTTATAT
22960836 TGGTATTGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 19 0.66
21 4 0.14
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (21 bp):
TATCGATACTTTATATATAAG
Found at i:22972015 original size:21 final size:21
Alignment explanation
Indices: 22971989--22972042 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
22971979 ACATTGATCG
22971989 TTCCATACAAACGATACATTC
1 TTCCATACAAACGATACATTC
* * *
22972010 TTCCATACAAATGGTACATTT
1 TTCCATACAAACGATACATTC
*
22972031 TTCCATAGAAAC
1 TTCCATACAAAC
22972043 TTCATCATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.31
Consensus pattern (21 bp):
TTCCATACAAACGATACATTC
Found at i:22990436 original size:13 final size:13
Alignment explanation
Indices: 22990407--22990445 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
22990397 AATTTTGTTT
*
22990407 TTTTATTATTATTA
1 TTTTATTAAT-TTA
*
22990421 TTTTATTCATTTA
1 TTTTATTAATTTA
22990434 TTTTATTAATTT
1 TTTTATTAATTT
22990446 TCATTGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTATTAATTTA
Found at i:22995883 original size:27 final size:27
Alignment explanation
Indices: 22995460--22995883 Score: 440
Period size: 27 Copynumber: 15.7 Consensus size: 27
22995450 ATACCTTCGA
* * **
22995460 AGGGTAAAATGATCGAAATA-CCCTCA
1 AGGGTAAAATGACCGTAATACCCCTGT
* * ** * *
22995486 ATGGGTAAAATGACTGAAATGGCCTTAT
1 A-GGGTAAAATGACCGTAATACCCCTGT
22995514 AGGGTAAAATGACCGTAATACCCC-GAT
1 AGGGTAAAATGACCGTAATACCCCTG-T
* * *
22995541 AGGATAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
22995568 AGGGTAAAATGACCGTAATACCCCGGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
22995595 AGGATAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
22995622 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
22995649 AGGGTAAAATGACCGTAATGCCTCC-AT
1 AGGGTAAAATGACCGTAATACC-CCTGT
* * * * *
22995676 AAGGTAAAATAACTGAAATACCCCCGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
22995703 AGGATAAAATGACCGTAATACCCCGGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
22995730 AGGGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * ** *
22995757 AGGGTAAAATGATCGTAGTACCTTTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
22995784 AGGGTAAAATGACCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * * *
22995811 AGGGTAAAATGATCATAATGCCTCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* *
22995838 AGGGTAAAATTACTGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
22995865 AGGGTAAAATGACCATAAT
1 AGGGTAAAATGACCGTAAT
22995884 GCCCTGGTGG
Statistics
Matches: 327, Mismatches: 65, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
26 3 0.01
27 318 0.97
28 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTGT
Found at i:22996187 original size:64 final size:63
Alignment explanation
Indices: 22996100--22996312 Score: 203
Period size: 64 Copynumber: 3.3 Consensus size: 63
22996090 CTTTGTTGCG
* * *
22996100 ATGCTACTGATGGCTTTGTGCCGGTCATAGTACCATTACTGATGGCTTTGTG-TCAATCATATTA
1 ATGCTACCGATGGCTTTGTGCCGGTCAT-GTACCATTACTGATGGCTGTGTGCT-AATCATATCA
* * * * ** * *
22996164 CTGTTACCGATGGCTGTGTGCCGGTCATTTCATTATTACTGATGGCAGTGTGCTGATCATATCA
1 ATGCTACCGATGGCTTTGTGCCGGTCATGT-ACCATTACTGATGGCTGTGTGCTAATCATATCA
* * * ***
22996228 ATGCTACTGATGGCTTTGCGCCGATCATGTTACCATTACTGATGGCTGTGTGCCGGTCATATCA
1 ATGCTACCGATGGCTTTGTGCCGGTCATG-TACCATTACTGATGGCTGTGTGCTAATCATATCA
* **
22996292 CTGCTATTGATGGCTTTGTGC
1 ATGCTACCGATGGCTTTGTGC
22996313 TAGTCACATT
Statistics
Matches: 120, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
63 1 0.01
64 117 0.98
65 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (63 bp):
ATGCTACCGATGGCTTTGTGCCGGTCATGTACCATTACTGATGGCTGTGTGCTAATCATATCA
Found at i:22996303 original size:32 final size:32
Alignment explanation
Indices: 22996104--22996312 Score: 168
Period size: 32 Copynumber: 6.5 Consensus size: 32
22996094 GTTGCGATGC
* **
22996104 TACTGATGGCTTTGTGCCGGTCATAGT-ACCAT
1 TACTGATGGCTTTGTGCCGATCATA-TCACTGT
* * *
22996136 TACTGATGGCTTTGTGTCAATCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * * * * *
22996168 TACCGATGGCTGTGTGCCGGTCATTTCATTAT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
** * * *
22996200 TACTGATGGCAGTGTGCTGATCATATCAATGC
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * * **
22996232 TACTGATGGCTTTGCGCCGATCATGTTACCAT
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
* * *
22996264 TACTGATGGCTGTGTGCCGGTCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATCACTGT
*
22996296 TATTGATGGCTTTGTGC
1 TACTGATGGCTTTGTGC
22996313 TAGTCACATT
Statistics
Matches: 134, Mismatches: 42, Indels: 2
0.75 0.24 0.01
Matches are distributed among these distances:
31 1 0.01
32 133 0.99
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATCACTGT
Found at i:22996312 original size:96 final size:96
Alignment explanation
Indices: 22996101--22996313 Score: 241
Period size: 96 Copynumber: 2.2 Consensus size: 96
22996091 TTTGTTGCGA
* * * * * *
22996101 TGCTACTGATGGCTTTGTGCCGGTCATAGTACCATTACTGATGGCTTTGTGTCAATCATATTACT
1 TGCTACTGATGGCTTTGTGCTGATCATAGTACAATTACTGATGGCTTTGCGCCAATCATATTACC
* * *
22996166 GTTACCGATGGCTGTGTGCCGGTCATTTCAT
66 ATTACCGATGGCTGTGTGCCGGTCATATCAC
** ** * *
22996197 TATTACTGATGGCAGTGTGCTGATCATA-T-CAATGCTACTGATGGCTTTGCGCCGATCATGTTA
1 TGCTACTGATGGCTTTGTGCTGATCATAGTACAAT--TACTGATGGCTTTGCGCCAATCATATTA
*
22996260 CCATTACTGATGGCTGTGTGCCGGTCATATCAC
64 CCATTACCGATGGCTGTGTGCCGGTCATATCAC
*
22996293 TGCTATTGATGGCTTTGTGCT
1 TGCTACTGATGGCTTTGTGCT
22996314 AGTCACATTA
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
94 3 0.03
95 1 0.01
96 90 0.96
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (96 bp):
TGCTACTGATGGCTTTGTGCTGATCATAGTACAATTACTGATGGCTTTGCGCCAATCATATTACC
ATTACCGATGGCTGTGTGCCGGTCATATCAC
Found at i:23004742 original size:15 final size:16
Alignment explanation
Indices: 23004722--23004753 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23004712 CTACTGTGTG
23004722 TTTTCTT-TACTTTTT
1 TTTTCTTGTACTTTTT
23004737 TTTTCTTGTACTTTTT
1 TTTTCTTGTACTTTTT
23004753 T
1 T
23004754 CTTGTTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTCTTGTACTTTTT
Found at i:23006324 original size:24 final size:24
Alignment explanation
Indices: 23006297--23006345 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
23006287 AAACATGCAA
*
23006297 CAGAGTATGTTGCCAAATGTGAGT
1 CAGAGTATGTTGCCAAATGTAAGT
23006321 CAGAGTATGTTGCCAAATGTAAGT
1 CAGAGTATGTTGCCAAATGTAAGT
23006345 C
1 C
23006346 CTGCCAGAAA
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:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (24 bp):
CAGAGTATGTTGCCAAATGTAAGT
Found at i:23007712 original size:16 final size:16
Alignment explanation
Indices: 23007691--23007724 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
23007681 AGACACGCGT
23007691 TTTTATTAAGTTTTAA
1 TTTTATTAAGTTTTAA
23007707 TTTTATTAAGTTTTAA
1 TTTTATTAAGTTTTAA
23007723 TT
1 TT
23007725 ATGTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTATTAAGTTTTAA
Found at i:23007746 original size:21 final size:21
Alignment explanation
Indices: 23007707--23007746 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23007697 TAAGTTTTAA
*
23007707 TTTTATTAAGTTTTAATTATG
1 TTTTATTAAGTTTCAATTATG
* *
23007728 TTTTCTTAAGTTTCCATTA
1 TTTTATTAAGTTTCAATTA
23007747 AGTGAATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (21 bp):
TTTTATTAAGTTTCAATTATG
Found at i:23015067 original size:32 final size:32
Alignment explanation
Indices: 23014997--23015060 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
23014987 AAAATATTTT
23014997 AAATATTTTAATATAATTTAATATAAAATTAA
1 AAATATTTTAATATAATTTAATATAAAATTAA
23015029 AAATATTTTAATATAATTTAATATAAAATTAA
1 AAATATTTTAATATAATTTAATATAAAATTAA
23015061 TTATATTAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AAATATTTTAATATAATTTAATATAAAATTAA
Found at i:23015151 original size:58 final size:59
Alignment explanation
Indices: 23015058--23015178 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 59
23015048 AATATAAAAT
* *
23015058 TAATTATATTAAGAATGTTATTAAATTATATATTATTTTTATTAAAGTATATTTAATAA
1 TAATTATATTAAGAATATAATTAAATTATATATTATTTTTATTAAAGTATATTTAATAA
* * *
23015117 TAATTATATTCA-AATATAATTAAATTATTTATTATTTTTATTAAATTATATTTAATAA
1 TAATTATATTAAGAATATAATTAAATTATATATTATTTTTATTAAAGTATATTTAATAA
23015175 TAAT
1 TAAT
23015179 CCTATTAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 46 0.81
59 11 0.19
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (59 bp):
TAATTATATTAAGAATATAATTAAATTATATATTATTTTTATTAAAGTATATTTAATAA
Found at i:23015152 original size:26 final size:27
Alignment explanation
Indices: 23015081--23015152 Score: 71
Period size: 26 Copynumber: 2.7 Consensus size: 27
23015071 AATGTTATTA
23015081 AATTATATATTATTT-TTATTAAAGTAT
1 AATTA-ATATTATTTATTATTAAAGTAT
* * *
23015108 ATTTAATAATAATTA-TATTCAAA-TAT
1 AATTAATATTATTTATTATT-AAAGTAT
23015134 AATTAA-ATTATTTATTATT
1 AATTAATATTATTTATTATT
23015153 TTTATTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
25 6 0.17
26 23 0.64
27 7 0.19
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (27 bp):
AATTAATATTATTTATTATTAAAGTAT
Found at i:23018610 original size:29 final size:29
Alignment explanation
Indices: 23018523--23018610 Score: 133
Period size: 29 Copynumber: 3.0 Consensus size: 29
23018513 TTGTGGAAGA
*
23018523 GGTGGAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAATTCGT
* *
23018552 AGTGAAGAACTTGTTC-TGTAAGAATTCGT
1 GGTGAAGAACTTGTTCGT-TGAGAATTCGT
23018581 GGTGAAGAACTTGTTCGTTGAGAATTCGT
1 GGTGAAGAACTTGTTCGTTGAGAATTCGT
23018610 G
1 G
23018611 TCAATGTGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
28 1 0.02
29 50 0.96
30 1 0.02
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.34
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCGTTGAGAATTCGT
Found at i:23018758 original size:24 final size:24
Alignment explanation
Indices: 23018713--23018759 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
23018703 ATTTATTAAT
*
23018713 ATAATATATTTAGCATTTATTAGC
1 ATAATATATTTAGCATTGATTAGC
* *
23018737 ATAATATATTTGGTATTGATTAG
1 ATAATATATTTAGCATTGATTAG
23018760 AATTAAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
ATAATATATTTAGCATTGATTAGC
Found at i:23019205 original size:17 final size:17
Alignment explanation
Indices: 23019185--23019217 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23019175 ATTAAAAATC
23019185 ATAT-TTTTTTATATTTA
1 ATATATTTTTTA-ATTTA
23019202 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
23019218 TAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:23019224 original size:20 final size:21
Alignment explanation
Indices: 23019174--23019227 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
23019164 AAATAAATTT
* *
23019174 TATTAAAAATCATATTTTTTTA
1 TATTTAAAAT-ATATTTTTTAA
23019196 TATTT--AATATATTTTTTAA
1 TATTTAAAATATATTTTTTAA
23019215 T-TTTAAAATATAT
1 TATTTAAAATATAT
23019228 AGTAACAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 10 0.36
22 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTTAAAATATATTTTTTAA
Found at i:23026792 original size:40 final size:40
Alignment explanation
Indices: 23026680--23026799 Score: 150
Period size: 40 Copynumber: 3.0 Consensus size: 40
23026670 CATGGGTCCG
* * *
23026680 ATATAAGTAAGACCATAGCTAAAAGATGCTATGGCATCAT
1 ATATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAT
* * *
23026720 AAATGAGTAAGACCATAGCTGTAATATGTTATGGCATCAT
1 ATATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAT
* ** *
23026760 ATATGAGTAAGACCTTAGCTGAAAGACATTATGACATCAT
1 ATATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAT
23026800 GATAGAAGAG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (40 bp):
ATATGAGTAAGACCATAGCTGAAAGATGTTATGGCATCAT
Found at i:23028473 original size:26 final size:25
Alignment explanation
Indices: 23028424--23028478 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
23028414 AAACAAAACT
* * *
23028424 AAAATCTAACCTAAAAAGAAAAGAG
1 AAAACCTAAACTAAAAAGAAAAGAA
*
23028449 AAAACCTAAACTAAAAATGACAAGAA
1 AAAACCTAAACTAAAAA-GAAAAGAA
23028475 AAAA
1 AAAA
23028479 AGGAAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.67, C:0.13, G:0.09, T:0.11
Consensus pattern (25 bp):
AAAACCTAAACTAAAAAGAAAAGAA
Found at i:23031488 original size:11 final size:11
Alignment explanation
Indices: 23031472--23031496 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23031462 AAAAGCGTTG
23031472 GAATATGCTAA
1 GAATATGCTAA
23031483 GAATATGCTAA
1 GAATATGCTAA
23031494 GAA
1 GAA
23031497 GTGTTGGAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (11 bp):
GAATATGCTAA
Found at i:23032493 original size:32 final size:32
Alignment explanation
Indices: 23032457--23032517 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
23032447 GACCATAGCT
23032457 GAAAGATGCTATGGCATCATAAATGAGTAGGA
1 GAAAGATGCTATGGCATCATAAATGAGTAGGA
** *
23032489 GAAAGATTTTGTGGCATCATAAATGAGTA
1 GAAAGATGCTATGGCATCATAAATGAGTA
23032518 AAACCATAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (32 bp):
GAAAGATGCTATGGCATCATAAATGAGTAGGA
Found at i:23032573 original size:39 final size:40
Alignment explanation
Indices: 23032489--23032587 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
23032479 ATGAGTAGGA
* * *
23032489 GAAAGATTTTGTGGCATCATAAATGAGTAAAACCATAGCT
1 GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
* * * *
23032529 AAAAGATCTTATGGCATCAT-AACGAGTAAGAGCATAGTT
1 GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
* *
23032568 GAAAGATGTTATGACATCAT
1 GAAAGATCTTATGGCATCAT
23032588 GATAGAAGTG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
39 32 0.65
40 17 0.35
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.27
Consensus pattern (40 bp):
GAAAGATCTTATGGCATCATAAACGAGTAAAACCATAGCT
Found at i:23032776 original size:26 final size:26
Alignment explanation
Indices: 23032715--23032809 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 26
23032705 ATAGATTGTC
* * *
23032715 TATTGGGACAATAAACACGAGATAGTT
1 TATTAGGATAATAAAAACG-GATAGTT
*
23032742 TATTGGGATAATAAAATA-GGATAGTT
1 TATTAGGATAATAAAA-ACGGATAGTT
*
23032768 TATCAGGATAATAAAAACGGGATAGTT
1 TATTAGGATAATAAAAAC-GGATAGTT
* *
23032795 TTTTAGGATAGTAAA
1 TATTAGGATAATAAA
23032810 CAGGGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
25 1 0.02
26 21 0.36
27 35 0.60
28 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (26 bp):
TATTAGGATAATAAAAACGGATAGTT
Found at i:23036501 original size:43 final size:43
Alignment explanation
Indices: 23036454--23036576 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 43
23036444 TTGGCTTTGC
* * * * *
23036454 GCCATATTTTTTAACAAATACTATGTATTGGTGTTGGATTTAT
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGAATTAT
* * *
23036497 GCCATAGTATTTAGCAGGTACTATGTACTGGTGTTGGAATTGT
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGAATTAT
* *
23036540 GCCATATTATTCAGCAGATACTATGTACTAGTGTTGG
1 GCCATATTATTTAGCAGATACTATGTACTGGTGTTGG
23036577 TTATTTTACT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (43 bp):
GCCATATTATTTAGCAGATACTATGTACTGGTGTTGGAATTAT
Found at i:23039083 original size:5 final size:5
Alignment explanation
Indices: 23039068--23039109 Score: 75
Period size: 5 Copynumber: 8.2 Consensus size: 5
23039058 TTGTAATATT
23039068 TTAATA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAA-A TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
23039110 ATTTATCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 32 0.89
6 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:23039139 original size:5 final size:6
Alignment explanation
Indices: 23039068--23039145 Score: 53
Period size: 5 Copynumber: 13.7 Consensus size: 6
23039058 TTGTAATATT
23039068 TTAATA TTAA-A TTAA-A TTAA-A TTAA-A TTAA-A TTAA-A TTAAATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TT-AATA
* * *
23039111 TTTATC TTAATA TTATTTTA TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTA--ATA TTAATA TTAATA TTAA
23039146 AGTTATTATC
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
5 33 0.54
6 20 0.33
7 3 0.05
8 5 0.08
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:23039151 original size:20 final size:19
Alignment explanation
Indices: 23039067--23039177 Score: 84
Period size: 20 Copynumber: 6.3 Consensus size: 19
23039057 ATTGTAATAT
23039067 TTTAATATTAAATTA--AA
1 TTTAATATTAAATTATTAA
23039084 -TTAA-ATTAAATTA--AA
1 TTTAATATTAAATTATTAA
*
23039099 -TTAA-ATTAAA-TATTTA
1 TTTAATATTAAATTATTAA
**
23039115 TCTTAATATTATTTTATTAA
1 T-TTAATATTAAATTATTAA
23039135 TTTAATATTAAAGTTATT-A
1 TTTAATATTAAA-TTATTAA
23039154 TCTTAATATTAAATTA--AA
1 T-TTAATATTAAATTATTAA
23039172 TTTAAT
1 TTTAAT
23039178 GTTTATCTTG
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
14 2 0.03
15 21 0.27
16 5 0.06
17 5 0.06
18 6 0.08
19 18 0.23
20 22 0.28
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (19 bp):
TTTAATATTAAATTATTAA
Found at i:23039151 original size:25 final size:25
Alignment explanation
Indices: 23039072--23039171 Score: 64
Period size: 25 Copynumber: 3.9 Consensus size: 25
23039062 AATATTTTAA
*
23039072 TATTAAATTAA-ATTAAATTAAA-T
1 TATTATATTAATATTAAATTAAAGT
* **
23039095 TAAATTAAATTAAATATTTATCTTAATA-T
1 T--ATTATATT-AATA-TTAAATTAA-AGT
*
23039124 TATTTTATTAAT-TTAATATTAAAGT
1 TATTATATTAATATTAA-ATTAAAGT
*
23039149 TATTATCTTAATATTAAATTAAA
1 TATTATATTAATATTAAATTAAA
23039172 TTTAATGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.02
24 4 0.07
25 29 0.48
26 9 0.15
27 7 0.12
28 7 0.12
29 3 0.05
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAAGT
Found at i:23045809 original size:25 final size:22
Alignment explanation
Indices: 23045776--23045826 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 22
23045766 TTTGTAATTG
23045776 AAAAAAAATATT-CGAAGTATATAA
1 AAAAAAAAT-TTACGAAGT-TA-AA
23045800 AAAAATAAATTTACGAAGTTAAA
1 AAAAA-AAATTTACGAAGTTAAA
23045823 AAAA
1 AAAA
23045827 GTATTGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.24
24 9 0.36
25 10 0.40
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.24
Consensus pattern (22 bp):
AAAAAAAATTTACGAAGTTAAA
Found at i:23046840 original size:19 final size:21
Alignment explanation
Indices: 23046797--23046840 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
23046787 AAGAAAGTTG
*
23046797 AAAACGAGAGTGAGAGAAAGC
1 AAAACGAGAGTGAGAGAAAGA
*
23046818 AAAACGAGATTGA-A-AAAGA
1 AAAACGAGAGTGAGAGAAAGA
23046837 AAAA
1 AAAA
23046841 GAATGTGAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 1 0.05
21 12 0.57
ACGTcount: A:0.61, C:0.07, G:0.25, T:0.07
Consensus pattern (21 bp):
AAAACGAGAGTGAGAGAAAGA
Found at i:23046875 original size:69 final size:69
Alignment explanation
Indices: 23046727--23046880 Score: 188
Period size: 69 Copynumber: 2.2 Consensus size: 69
23046717 AATTGAAAAA
* * * **
23046727 GAAAAAGAGAATG-GAAGAGAGCGAAAAGAGATTGAGAGCGAAAAAGAATGTGAGCAAGAAAAGA
1 GAAAAAGAGAGTGAG-AGAAAGCGAAAAGAGATTGAAAAAGAAAAAGAATGTGAGCAAGAAAAGA
*
23046791 AAGTT
65 AAGCT
*
23046796 GAAAACGAGAGTGAGAGAAAGC-AAAACGAGATTGAAAAAGAAAAAGAATGTGAGCAAGAAAAGC
1 GAAAAAGAGAGTGAGAGAAAGCGAAAA-GAGATTGAAAAAGAAAAAGAATGTGAGCAAGAAAAG-
23046860 AAA-CT
64 AAAGCT
*
23046865 GAAAAAGAGAGCGAGA
1 GAAAAAGAGAGTGAGA
23046881 ATGTAAAAGA
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
68 4 0.05
69 65 0.89
70 4 0.05
ACGTcount: A:0.55, C:0.06, G:0.30, T:0.08
Consensus pattern (69 bp):
GAAAAAGAGAGTGAGAGAAAGCGAAAAGAGATTGAAAAAGAAAAAGAATGTGAGCAAGAAAAGAA
AGCT
Found at i:23055508 original size:39 final size:39
Alignment explanation
Indices: 23055459--23055714 Score: 350
Period size: 39 Copynumber: 6.5 Consensus size: 39
23055449 TGTAATTATA
* * *
23055459 CCTGACTGCACATACGTGCCCTTTTTGTACTTCGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
* *
23055498 CTTGAATGCACATACGTGCCCCTGTTGTACTTCGATACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
* * * *
23055537 CCTAAATGCACATACATGCCCCTGTTGTACTTCAGCACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
* *
23055576 CTTGAATGCACATACGTGCCTCTGTTGTACTTCGGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
*
23055615 CCTGAATGCACATACGTGCCCCTGTTGTACTTCAGTACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
* **
23055654 CCTGAATGCACATACGTGCTCCTGTTGTACTTCTATACC
1 CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
* *
23055693 CCTGATTTGCACTTACGTGCCC
1 CCTGA-ATGCACATACGTGCCC
23055715 TTGATTATAT
Statistics
Matches: 190, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
39 177 0.93
40 13 0.07
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.31
Consensus pattern (39 bp):
CCTGAATGCACATACGTGCCCCTGTTGTACTTCGGTACC
Found at i:23055657 original size:19 final size:19
Alignment explanation
Indices: 23055597--23055657 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
23055587 ATACGTGCCT
*
23055597 CTGTTGTACTTCGGTACCC
1 CTGTTGTACTTCAGTACCC
* * * *
23055616 CTGAATGCACAT-ACGTGCCC
1 CTG-TTGTACTTCA-GTACCC
23055636 CTGTTGTACTTCAGTACCC
1 CTGTTGTACTTCAGTACCC
23055655 CTG
1 CTG
23055658 AATGCACATA
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.16, C:0.33, G:0.20, T:0.31
Consensus pattern (19 bp):
CTGTTGTACTTCAGTACCC
Found at i:23058433 original size:20 final size:20
Alignment explanation
Indices: 23058408--23058448 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23058398 TGACAAAGTC
23058408 TAGGGGCATTTTGGTAATTT
1 TAGGGGCATTTTGGTAATTT
23058428 TAGGGGCATTTTGGTAATTT
1 TAGGGGCATTTTGGTAATTT
23058448 T
1 T
23058449 CCATTCTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.29, T:0.46
Consensus pattern (20 bp):
TAGGGGCATTTTGGTAATTT
Found at i:23065454 original size:25 final size:25
Alignment explanation
Indices: 23065409--23065458 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
23065399 AGTTGTCGAG
*
23065409 AGAAAATTCTCTGAAGATATTATTTC
1 AGAAAATTCTCTAAAGATATT-TTTC
23065435 AGAAAATT-TCTAAAGATATTTTTC
1 AGAAAATTCTCTAAAGATATTTTTC
23065459 TGATTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 11 0.48
26 8 0.35
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (25 bp):
AGAAAATTCTCTAAAGATATTTTTC
Found at i:23071391 original size:18 final size:17
Alignment explanation
Indices: 23071358--23071392 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23071348 AATGAATGGG
*
23071358 AAATAAGAAATAAAATA
1 AAATAAAAAATAAAATA
23071375 AAATAAAAAAGTAAAATA
1 AAATAAAAAA-TAAAATA
23071393 CCTGCCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (17 bp):
AAATAAAAAATAAAATA
Found at i:23072547 original size:19 final size:18
Alignment explanation
Indices: 23072525--23072575 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
23072515 AAAAATTTAA
* *
23072525 AAATATTATAAAAATTATT
1 AAATATT-TAAAAAGTATG
23072544 AAATTATTTAAAAAGTATG
1 AAA-TATTTAAAAAGTATG
23072563 AAA-ATTCTAAAAA
1 AAATATT-TAAAAA
23072576 AATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 3 0.11
18 6 0.21
19 15 0.54
20 4 0.14
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATTTAAAAAGTATG
Found at i:23073520 original size:24 final size:25
Alignment explanation
Indices: 23073475--23073537 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 25
23073465 TCGTTTAATT
23073475 TTTTAATTAATTTTTAAATAATATCTTA
1 TTTTAATTAA-TTTT--ATAATATCTTA
* *
23073503 TTTTAATTAATTTT-TAATTTGTTA
1 TTTTAATTAATTTTATAATATCTTA
*
23073527 TTCTAA-TAATT
1 TTTTAATTAATT
23073538 AAATATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.16
24 13 0.41
27 4 0.12
28 10 0.31
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTAATTAATTTTATAATATCTTA
Found at i:23085627 original size:44 final size:44
Alignment explanation
Indices: 23085571--23085860 Score: 429
Period size: 44 Copynumber: 6.6 Consensus size: 44
23085561 TTGAAGTCAA
23085571 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
* * * * * *
23085615 AATTGTTCATTAAATTCTGTCCAAATGTTAATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
* * *
23085659 AATTGTTGATTAAATGATGTCCAAATATTGATTGAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
* *
23085703 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
* * *
23085747 AATTGTTGACTAAATGCTGTCCAAATATTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
*
23085791 AATTGTTGATTAAATGCTGTCCAAAT-GTGAATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATATTG-ATTGAATGCTGTCC
23085835 AATTGTTGATTAAATGCTGTCCAAAT
1 AATTGTTGATTAAATGCTGTCCAAAT
23085861 GATAATTATA
Statistics
Matches: 220, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
43 2 0.01
44 218 0.99
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (44 bp):
AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCC
Found at i:23085723 original size:88 final size:88
Alignment explanation
Indices: 23085571--23085860 Score: 481
Period size: 88 Copynumber: 3.3 Consensus size: 88
23085561 TTGAAGTCAA
* * *
23085571 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCCAATTGTTCATTAAATTCTGTC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
*
23085636 CAAATGTTAATTTAATGTTGTCC
66 CAAATGTTAATTTAATGCTGTCC
* *
23085659 AATTGTTGATTAAATGATGTCCAAATATTGATTGAATGTTGTCTAATTGTTGATTAAATGCTGTC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
*
23085724 CAAATGTTGATTTAATGCTGTCC
66 CAAATGTTAATTTAATGCTGTCC
* *
23085747 AATTGTTGACTAAATGCTGTCCAAATATTGATTTAATGTTGTCCAATTGTTGATTAAATGCTGTC
1 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
* *
23085812 CAAATGTGAATTGAATGCTGTCC
66 CAAATGTTAATTTAATGCTGTCC
23085835 AATTGTTGATTAAATGCTGTCCAAAT
1 AATTGTTGATTAAATGCTGTCCAAAT
23085861 GATAATTATA
Statistics
Matches: 187, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 187 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (88 bp):
AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTC
CAAATGTTAATTTAATGCTGTCC
Found at i:23085874 original size:22 final size:22
Alignment explanation
Indices: 23085574--23085861 Score: 344
Period size: 22 Copynumber: 13.1 Consensus size: 22
23085564 AAGTCAAAAT
23085574 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
23085596 TATTGATTGAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
* *
23085618 TGTTCATTAAATTCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
23085640 TGTTAATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23085662 TGTTGATTAAATGATGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * * *
23085684 TATTGATTGAATGTTGTCTAAT
1 TGTTGATTAAATGCTGTCCAAA
23085706 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
23085728 TGTTGATTTAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23085750 TGTTGACTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
23085772 TATTGATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
23085794 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
23085816 TG-TGAATTGAATGCTGTCCAAT
1 TGTTG-ATTAAATGCTGTCCAAA
23085838 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
23085860 TG
1 TG
23085862 ATAATTATAT
Statistics
Matches: 219, Mismatches: 45, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
21 2 0.01
22 215 0.98
23 2 0.01
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (22 bp):
TGTTGATTAAATGCTGTCCAAA
Found at i:23092897 original size:22 final size:22
Alignment explanation
Indices: 23092863--23093219 Score: 401
Period size: 22 Copynumber: 16.2 Consensus size: 22
23092853 AAGTAAAAAT
*
23092863 TGTTGATTAAATGCAGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * * *
23092885 TATTGATTGAATGTTGTCTAAT
1 TGTTGATTAAATGCTGTCCAAA
23092907 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
23092929 TGTTGATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23092951 TGTTGATTAAATGATGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
23092973 TATTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
23092995 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
23093017 TGTTGATTTAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23093039 TGTTAATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
23093061 TATTGATTGAATTG-TGTCCAAT
1 TGTTGATT-AAATGCTGTCCAAA
23093083 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
23093105 TGTTGATTTAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23093127 TGTTGATTAAATGATGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * * *
23093149 TGTTGACTGAAGGCTGTTCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
23093171 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * *
23093193 TGTTAATTAAATGTTGTCTAAA
1 TGTTGATTAAATGCTGTCCAAA
23093215 TGTTG
1 TGTTG
23093220 GATAATTGCT
Statistics
Matches: 275, Mismatches: 58, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
21 4 0.01
22 267 0.97
23 4 0.01
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.41
Consensus pattern (22 bp):
TGTTGATTAAATGCTGTCCAAA
Found at i:23092911 original size:44 final size:44
Alignment explanation
Indices: 23092860--23093219 Score: 515
Period size: 44 Copynumber: 8.2 Consensus size: 44
23092850 TTGAAGTAAA
* * *
23092860 AATTGTTGATTAAATGCAGTCCAAATATTGATTGAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
*
23092904 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* *
23092948 AATTGTTGATTAAATGATGTCCAAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* *
23092992 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* *
23093036 AATTGTTAATTAAATGCTGTCCAAATATTGATTGAAT-TGTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGT-TGTCC
*
23093080 AATTGTTGATTAAATGCTGTCCAAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * * *
23093124 AATTGTTGATTAAATGATGTCCAAATGTTGACTGAAGGCTGTTC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * *
23093168 AATTGTTGATTAAATGTTGTCCAAATGTTAATTAAATGTTGTCT
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
*
23093212 AAATGTTG
1 AATTGTTG
23093220 GATAATTGCT
Statistics
Matches: 281, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
44 280 1.00
45 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.41
Consensus pattern (44 bp):
AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
Found at i:23093193 original size:11 final size:11
Alignment explanation
Indices: 23093178--23093219 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
23093168 AATTGTTGAT
23093178 TAAATGTTGTC
1 TAAATGTTGTC
* *
23093189 CAAATGTTAAT-
1 TAAATGTT-GTC
23093200 TAAATGTTGTC
1 TAAATGTTGTC
23093211 TAAATGTTG
1 TAAATGTTG
23093220 GATAATTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 1 0.04
11 23 0.92
12 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (11 bp):
TAAATGTTGTC
Found at i:23104604 original size:20 final size:20
Alignment explanation
Indices: 23104581--23104623 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
23104571 CCCCTATATA
* *
23104581 CACTTCAGTGTCCCTGTTTG
1 CACTACAGTGCCCCTGTTTG
23104601 CACTACAGTGCCCCTGTTTG
1 CACTACAGTGCCCCTGTTTG
23104621 CAC
1 CAC
23104624 ATTTCTGTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.35, G:0.19, T:0.33
Consensus pattern (20 bp):
CACTACAGTGCCCCTGTTTG
Found at i:23105704 original size:24 final size:24
Alignment explanation
Indices: 23105677--23105723 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23105667 TAGGCTGTTG
23105677 AAATGACATATTTATGCATGTTTT
1 AAATGACATATTTATGCATGTTTT
*
23105701 AAATGGCATATTTATGCATGTTT
1 AAATGACATATTTATGCATGTTT
23105724 GAATGATGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.45
Consensus pattern (24 bp):
AAATGACATATTTATGCATGTTTT
Found at i:23107714 original size:20 final size:21
Alignment explanation
Indices: 23107662--23107717 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
23107652 TAAAACTAAA
*
23107662 AGTGTGGATAAAAACATTGGTG
1 AGTGT-GATAAAAGCATTGGTG
*
23107684 AG-G-GTTAAAAGCATT-GTG
1 AGTGTGATAAAAGCATTGGTG
23107702 AGTGTGATAAAAGCAT
1 AGTGTGATAAAAGCAT
23107718 AGAACGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 11 0.38
20 10 0.34
21 1 0.03
22 2 0.07
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (21 bp):
AGTGTGATAAAAGCATTGGTG
Found at i:23108137 original size:19 final size:19
Alignment explanation
Indices: 23108113--23108149 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23108103 TCAAGTAATT
23108113 TATTTTTCTTTTGTGTTTA
1 TATTTTTCTTTTGTGTTTA
* *
23108132 TATTTTTGTTTTTTGTTT
1 TATTTTTCTTTTGTGTTT
23108150 TTAGTTTGCT
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:0.08, C:0.03, G:0.11, T:0.78
Consensus pattern (19 bp):
TATTTTTCTTTTGTGTTTA
Found at i:23109786 original size:22 final size:22
Alignment explanation
Indices: 23109745--23109786 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23109735 CCACTACACA
* *
23109745 CCATAATGAGTTTTGTAGAACT
1 CCATAATGAGTTTCGCAGAACT
23109767 CCATAATGAGTTTCGCAGAA
1 CCATAATGAGTTTCGCAGAA
23109787 TTCGTTCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (22 bp):
CCATAATGAGTTTCGCAGAACT
Found at i:23114188 original size:11 final size:11
Alignment explanation
Indices: 23114168--23114211 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
23114158 AGATAAATGT
*
23114168 TATTTAATTAA
1 TATTTTATTAA
23114179 TATTTTATTAA
1 TATTTTATTAA
* *
23114190 TACTTTTAGTAT
1 TA-TTTTATTAA
23114202 TATTTTATTA
1 TATTTTATTA
23114212 TTAAATGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:23126925 original size:14 final size:14
Alignment explanation
Indices: 23126906--23126933 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23126896 TAAAGTTATA
23126906 TTTAATAATTCATT
1 TTTAATAATTCATT
23126920 TTTAATAATTCATT
1 TTTAATAATTCATT
23126934 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:23135006 original size:42 final size:43
Alignment explanation
Indices: 23134868--23135018 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
23134858 AAAAAACTAG
* * *
23134868 TAAAGGTCATGTTTTATAGC-GACAATTTTAGTAAAAGCGTTGC
1 TAAAGGTCATGTTCTATAGCAG-CATTTTTAGTAAAAGCGCTGC
* * * * * * *
23134911 TAAAGGTCATGTTCTTTAGCGGCATTTTTGGGAAAAGTGCGGT
1 TAAAGGTCATGTTCTATAGCAGCATTTTTAGTAAAAGCGCTGC
* *
23134954 TAAAAGTCATGTTCTATAGCAGCTTTTTTAGTAAAAG-GCTGC
1 TAAAGGTCATGTTCTATAGCAGCATTTTTAGTAAAAGCGCTGC
*
23134996 TAAAGGTCATGTTCTTTAGCAGC
1 TAAAGGTCATGTTCTATAGCAGC
23135019 GTTTGTGGGA
Statistics
Matches: 88, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
42 24 0.27
43 63 0.72
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCAGCATTTTTAGTAAAAGCGCTGC
Found at i:23135425 original size:66 final size:65
Alignment explanation
Indices: 23135308--23135441 Score: 153
Period size: 66 Copynumber: 2.0 Consensus size: 65
23135298 ATTCTGAAGC
* ** * * * *
23135308 TGTAGCTGGAGTTTGTCATATTTTCTACTTGCCTCTGCTTCCCTCGCTGCTGCTTGCACTTTAAG
1 TGTAGCTGGAATTCATCATATTTTCTA-TTGCCTCTACTTCCCTCGATGCTGCCTACACTTTAAG
23135373 T
65 T
* *
23135374 TGTAGCTGGAATTCATCATATTTTCT-TTGAGCCTCTACTTCTCTCGATGCTGCCTACCCTTTAA
1 TGTAGCTGGAATTCATCATATTTTCTATT--GCCTCTACTTCCCTCGATGCTGCCTACACTTTAA
23135438 GT
64 GT
23135440 TG
1 TG
23135442 AGAAATTTTC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
64 2 0.04
66 55 0.96
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.42
Consensus pattern (65 bp):
TGTAGCTGGAATTCATCATATTTTCTATTGCCTCTACTTCCCTCGATGCTGCCTACACTTTAAGT
Found at i:23144629 original size:41 final size:41
Alignment explanation
Indices: 23144584--23144689 Score: 149
Period size: 42 Copynumber: 2.6 Consensus size: 41
23144574 CCTTTTTCCA
* *
23144584 CGTTTGTGAGAAAACGCCGCTATAGTTCTAACCTTTTGCAG
1 CGTTTATGAGAAAATGCCGCTATAGTTCTAACCTTTTGCAG
** *
23144625 CGTTTATGAGAAAAATGATGCTATAGTTCTAACCTTTTGCGG
1 CGTTTATGAG-AAAATGCCGCTATAGTTCTAACCTTTTGCAG
*
23144667 TGTTTATGAGAAAATGCCGCTAT
1 CGTTTATGAGAAAATGCCGCTAT
23144690 TGCTTTACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 20 0.36
42 36 0.64
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (41 bp):
CGTTTATGAGAAAATGCCGCTATAGTTCTAACCTTTTGCAG
Found at i:23157264 original size:25 final size:25
Alignment explanation
Indices: 23157235--23157353 Score: 125
Period size: 25 Copynumber: 4.8 Consensus size: 25
23157225 ATTCCCACTC
23157235 ACAGCTCGTGAGAGCATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
** *
23157260 ACAGCTCGTGTCAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATCT
* *
23157285 ATAGCTCGTGAAAGCATACCGATCT
1 ACAGCTCGTGAGAGCATACCGATCT
** *
23157310 ACAGCTCAAGTGAGCATACCGAT-T
1 ACAGCTCGTGAGAGCATACCGATCT
*
23157334 CACAGCTTGT-ATGAGCATAC
1 -ACAGCTCGTGA-GAGCATAC
23157354 ATGTACATGA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
24 1 0.01
25 75 0.99
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATCT
Found at i:23157351 original size:50 final size:50
Alignment explanation
Indices: 23157233--23157353 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
23157223 ACATTCCCAC
**
23157233 TCACAGCTCGTGAGAGCATACCGATCTACAGCTCGTGTCAGCATACCGAT
1 TCACAGCTCGTGAGAGCATACCGATCTACAGCTCAAGTCAGCATACCGAT
* * * *
23157283 TTATAGCTCGTGAAAGCATACCGATCTACAGCTCAAGTGAGCATACCGAT
1 TCACAGCTCGTGAGAGCATACCGATCTACAGCTCAAGTCAGCATACCGAT
*
23157333 TCACAGCTTGT-ATGAGCATAC
1 TCACAGCTCGTGA-GAGCATAC
23157354 ATGTACATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 1 0.02
50 59 0.98
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (50 bp):
TCACAGCTCGTGAGAGCATACCGATCTACAGCTCAAGTCAGCATACCGAT
Found at i:23184858 original size:23 final size:23
Alignment explanation
Indices: 23184828--23184883 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
23184818 AGATGGTGAT
23184828 GTCATGACGAGGAGTCTTCCCAC
1 GTCATGACGAGGAGTCTTCCCAC
23184851 GTCATGACGAGGAGTCTTCCCAC
1 GTCATGACGAGGAGTCTTCCCAC
*
23184874 GTCACGACGA
1 GTCATGACGA
23184884 CACAACGATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (23 bp):
GTCATGACGAGGAGTCTTCCCAC
Found at i:23187631 original size:16 final size:16
Alignment explanation
Indices: 23187594--23187635 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23187584 TTAATCATAT
*
23187594 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
23187610 TT-AAATATATTATAA
1 TTAAAATATATTATAA
23187625 TTAAAATATAT
1 TTAAAATATAT
23187636 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:23187642 original size:14 final size:15
Alignment explanation
Indices: 23187603--23187644 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23187593 TTTAAACATA
*
23187603 ATTATTATTAAATAT
1 ATTATAATTAAATAT
23187618 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
23187632 A-TATAATTTAATA
1 ATTATAATTAAATA
23187645 AAATTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:23187714 original size:107 final size:108
Alignment explanation
Indices: 23187592--23187802 Score: 388
Period size: 107 Copynumber: 2.0 Consensus size: 108
23187582 ATTTAATCAT
*
23187592 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
23187657 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
23187700 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
23187764 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATA
23187803 TAATACTATA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 96 0.96
108 4 0.04
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (108 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATAGATA
Found at i:23187740 original size:16 final size:16
Alignment explanation
Indices: 23187697--23187742 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
23187687 CATAATATAG
*
23187697 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
23187713 ATTATT-AAATATATT
1 ATAATTAAAATATATT
23187728 ATAATTAAAATATAT
1 ATAATTAAAATATAT
23187743 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:23187749 original size:14 final size:15
Alignment explanation
Indices: 23187697--23187751 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
23187687 CATAATATAG
23187697 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
23187713 ATTATTAAATATATT
1 ATAATTAAATATATT
23187728 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
23187741 ATAATTTAATA
1 ATAATTAAATA
23187752 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:23187853 original size:107 final size:107
Alignment explanation
Indices: 23187595--23187858 Score: 344
Period size: 107 Copynumber: 2.5 Consensus size: 107
23187585 TAATCATATT
* * * *
23187595 TAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTTTTAATAATT
1 TAAA-ATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATC
* * *
23187660 AATATTCTTATATGAATTTACTCAAATCATAATATAGATAATT
65 AATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
* * *
23187703 TAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
*
23187768 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATATTCTTATATGAATTTACTAAAATCATAATATA-AATAATA
23187811 TAAAAT-ATAATT-TGAAATA-ATTA-ATATT-AAATATAT--TTTAATTAAAAT
1 TAAAATAATAATTATGAAATATATTATA-ATTAAAATATATAATTTAA-TAAAAT
23187859 ATATGATTTA
Statistics
Matches: 143, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
102 5 0.03
103 6 0.04
104 9 0.06
105 7 0.05
106 6 0.04
107 98 0.69
108 12 0.08
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (107 bp):
TAAAATAATAATTATGAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTAAAATCATAATATAAATAATA
Found at i:23188620 original size:13 final size:13
Alignment explanation
Indices: 23188602--23188628 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23188592 TGAATAAAAG
23188602 TATATGGTTGGAT
1 TATATGGTTGGAT
23188615 TATATGGTTGGAT
1 TATATGGTTGGAT
23188628 T
1 T
23188629 TCTAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (13 bp):
TATATGGTTGGAT
Found at i:23193535 original size:50 final size:50
Alignment explanation
Indices: 23193429--23193621 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
23193419 GAGGAGGAGA
*
23193429 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
23193485 TCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * * * **
23193535 TCCCCTGTAAGACCACGTCTAGGACATGGCATGGGCACCTATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
23193585 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23193622 GTACAAGAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.67
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:23196542 original size:27 final size:27
Alignment explanation
Indices: 23196504--23196749 Score: 289
Period size: 27 Copynumber: 9.2 Consensus size: 27
23196494 TTACACTATT
23196504 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
23196531 ATGATCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* **
23196558 ATGACTGAAATA-CCTTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
23196584 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * *
23196611 ATAACCCAAAAACCCCCATTGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
23196638 ATGACCGAAATACCCACATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * * * *
23196665 ATAACTGAAAT-TCCCTATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
23196691 ATGATCAAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
23196718 ATCACCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
23196745 ATGAC
1 ATGAC
23196750 TGTTATACCC
Statistics
Matches: 180, Mismatches: 37, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 41 0.23
27 139 0.77
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:23196586 original size:53 final size:54
Alignment explanation
Indices: 23196507--23196749 Score: 310
Period size: 53 Copynumber: 4.5 Consensus size: 54
23196497 CACTATTATG
* *
23196507 ACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATA
* ** *
23196561 ACTGAAATA-CCTTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATA
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATA
* * * *
23196614 ACCCAAAAACCCCCATTGGGTAAAATGACCGAAATACCCACATAGGGTAGAATA
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATA
* * * * * * *
23196668 ACTGAAAT-TCCCTATAGGGTAGAATGATCAAAATACCCCCATAGGGTAGAATC
1 ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATA
*
23196721 ACCGAAATACCCTCATAGGGTAAAATGAC
1 ACCGAAATACCCCCATAGGGTAAAATGAC
23196750 TGTTATACCC
Statistics
Matches: 156, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
53 89 0.57
54 67 0.43
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (54 bp):
ACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAGAATA
Found at i:23196641 original size:80 final size:80
Alignment explanation
Indices: 23196504--23196749 Score: 307
Period size: 80 Copynumber: 3.1 Consensus size: 80
23196494 TTACACTATT
* * *
23196504 ATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACCCCCATAGGGTAGAATGACTGAAAT
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CCAAAAACCCCCATAGGGTAGAATGACCGAAAT
*
23196569 A-CCTTATAGGGTAAA
65 ACCCTCATAGGGTAAA
* * *
23196584 ATGACCGAAATACCCCCATAGGGTAAAATAACCCAAAAACCCCCATTGGGTAAAATGACCGAAAT
1 ATGACCGAAATACCCCCATAGGGTAAAATGA-CCAAAAACCCCCATAGGGTAGAATGACCGAAAT
* *
23196649 ACCCACATAGGGTAGA
65 ACCCTCATAGGGTAAA
* * * * * * *
23196665 ATAACTGAAAT-TCCCTATAGGGTAGAATGATCAAAATACCCCCATAGGGTAGAATCACCGAAAT
1 ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAA-ACCCCCATAGGGTAGAATGACCGAAAT
23196729 ACCCTCATAGGGTAAA
65 ACCCTCATAGGGTAAA
23196745 ATGAC
1 ATGAC
23196750 TGTTATACCC
Statistics
Matches: 141, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
79 5 0.04
80 116 0.82
81 20 0.14
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (80 bp):
ATGACCGAAATACCCCCATAGGGTAAAATGACCAAAAACCCCCATAGGGTAGAATGACCGAAATA
CCCTCATAGGGTAAA
Found at i:23196759 original size:107 final size:107
Alignment explanation
Indices: 23196507--23196751 Score: 348
Period size: 107 Copynumber: 2.3 Consensus size: 107
23196497 CACTATTATG
* *
23196507 ACCGAAATACCCCCATAGGGTAAAATGA-TCGAAATACCCCCATAGGGTAGAATGACTGAAATAC
1 ACCGAAATACCCCCATAGGGTAAAATGACT-GAAATACCCACATAGGGTAGAATAACTGAAATAC
* *
23196571 CTTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATA
65 CCTATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATA
* * * * *
23196614 ACCCAAAAACCCCCATTGGGTAAAATGACCGAAATACCCACATAGGGTAGAATAACTGAAATTCC
1 ACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCACATAGGGTAGAATAACTGAAATACC
* * * *
23196679 CTATAGGGTAGAATGATCAAAATACCCCCATAGGGTAGAATC
66 CTATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATA
*
23196721 ACCGAAATACCCTCATAGGGTAAAATGACTG
1 ACCGAAATACCCCCATAGGGTAAAATGACTG
23196752 TTATACCCCT
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
107 119 1.00
ACGTcount: A:0.40, C:0.22, G:0.18, T:0.19
Consensus pattern (107 bp):
ACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCCACATAGGGTAGAATAACTGAAATACC
CTATAGGGTAAAATGACCAAAATACCCCCATAGGGTAAAATA
Found at i:23209118 original size:26 final size:26
Alignment explanation
Indices: 23209089--23209139 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
23209079 CCAATATCGT
* * *
23209089 AGCATAGCTGGCAGTAGTAATAATGC
1 AGCAGAGCTGCCAGTAGTAAGAATGC
23209115 AGCAGAGCTGCCAGTAGTAAGAATG
1 AGCAGAGCTGCCAGTAGTAAGAATG
23209140 GCTAAGAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (26 bp):
AGCAGAGCTGCCAGTAGTAAGAATGC
Found at i:23209296 original size:32 final size:32
Alignment explanation
Indices: 23209255--23209423 Score: 189
Period size: 32 Copynumber: 5.3 Consensus size: 32
23209245 TGGCACACAA
*
23209255 CCATCAGTAACGGTAACATGAACGACATAAAG
1 CCATCAGTAACGGTAACATGATCGACATAAAG
* *
23209287 CCATCAGTAACGATAACATGATCGGCATAAAG
1 CCATCAGTAACGGTAACATGATCGACATAAAG
** * * *
23209319 CCATCAGTAATAGTGAA-ATGATCGGCACATAG
1 CCATCAGTAACGGT-AACATGATCGACATAAAG
* * * *
23209351 CCATCGGTAACGGTAATATGATTGACACAAAG
1 CCATCAGTAACGGTAACATGATCGACATAAAG
*
23209383 CCATCAGTAACAGT-ACTATGATCGACATAAAG
1 CCATCAGTAACGGTAAC-ATGATCGACATAAAG
23209415 CCATCAGTA
1 CCATCAGTA
23209424 CTATAAACAG
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
31 3 0.03
32 110 0.96
33 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (32 bp):
CCATCAGTAACGGTAACATGATCGACATAAAG
Found at i:23209326 original size:64 final size:64
Alignment explanation
Indices: 23209255--23209708 Score: 220
Period size: 64 Copynumber: 7.1 Consensus size: 64
23209245 TGGCACACAA
* * * *
23209255 CCATCAGTAACGGTAACATGAACGACATAAAGCCATCAGTAACGATAACATGATCGGCATAAAG
1 CCATCAGTAACAGTAACATGATCGACATAAAGCCATCAGTAACGATAACATGATCGACACAAAG
* * * * * * * *
23209319 CCATCAGTAATAGTGAA-ATGATCGGCACATAGCCATCGGTAACGGTAATATGATTGACACAAAG
1 CCATCAGTAACAGT-AACATGATCGACATAAAGCCATCAGTAACGATAACATGATCGACACAAAG
* *
23209383 CCATCAGTAACAGT-ACTATGATCGACATAAAGCCATCAGT-ACTATAAACA-GAAT-GGCTAC-
1 CCATCAGTAACAGTAAC-ATGATCGACATAAAGCCATCAGTAACGAT-AACATG-ATCGAC-ACA
23209443 AA-
62 AAG
* * ** * * * * * * *
23209445 CCATAAGT-ACAATAATGTGATTGGCACAAAGCCATCAGT-A-GTAGTGATATGACCGGCACACA
1 CCATCAGTAACAGTAACATGATCGACATAAAGCCATCAGTAACG-A-TAACATGATCGACACA-A
23209507 A-
63 AG
* ** * * * * ** *
23209508 CCATCAGTAACGGTAACATGATCGGTAAAAAGCCATCAGTAGC-AGTGATATGATCGGTACACAG
1 CCATCAGTAACAGTAACATGATCGACATAAAGCCATCAGTAACGA-TAACATGATCGACACAAAG
* * * * * * * * **
23209572 TCATCATTAACAGTGAA-ATGATCGGCACACAA-CCATCGGTAATGGTAATATGATCGGTACAAA
1 CCATCAGTAACAGT-AACATGATCGACATA-AAGCCATCAGTAACGATAACATGATCGACACAAA
*
23209635 A
64 G
* * * * *
23209636 CCATCAGTAACAGT-ACTATGATTGGCATAAAGCCATCAGTAACGGT-ACTATGACCGGCACAAA
1 CCATCAGTAACAGTAAC-ATGATCGACATAAAGCCATCAGTAACGATAAC-ATGATCGACACAAA
23209699 G
64 G
23209700 CCATCAGTA
1 CCATCAGTA
23209709 GCATCGCAGT
Statistics
Matches: 300, Mismatches: 66, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
61 30 0.10
62 15 0.05
63 21 0.07
64 228 0.76
65 6 0.02
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (64 bp):
CCATCAGTAACAGTAACATGATCGACATAAAGCCATCAGTAACGATAACATGATCGACACAAAG
Found at i:23209383 original size:96 final size:96
Alignment explanation
Indices: 23209246--23209423 Score: 252
Period size: 96 Copynumber: 1.9 Consensus size: 96
23209236 CGATATGACT
*
23209246 GGCACACAACCATCAGTAACGGTAACATGAACGACATAAAGCCATCAGTAAC-GATAAC-ATGAT
1 GGCACACAACCATCAGTAACGGTAACATGAACGACACAAAGCCATCAGTAACAG-T-ACTATGAT
*
23209309 CGGCATAAAGCCATCAGTAATAGTGAAATGATC
64 CGACATAAAGCCATCAGTAATAGTGAAATGATC
* * * * **
23209342 GGCACATAGCCATCGGTAACGGTAATATGATTGACACAAAGCCATCAGTAACAGTACTATGATCG
1 GGCACACAACCATCAGTAACGGTAACATGAACGACACAAAGCCATCAGTAACAGTACTATGATCG
23209407 ACATAAAGCCATCAGTA
66 ACATAAAGCCATCAGTA
23209424 CTATAAACAG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
95 2 0.03
96 69 0.96
97 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (96 bp):
GGCACACAACCATCAGTAACGGTAACATGAACGACACAAAGCCATCAGTAACAGTACTATGATCG
ACATAAAGCCATCAGTAATAGTGAAATGATC
Done.