Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 101 of 276
Found at i:31928696 original size:79 final size:81
Alignment explanation
Indices: 31928560--31928744 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
31928550 TTGAATGATG
* *
31928560 TCCGGGCTAAGACCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
*
31928624 TGTGCGAGATACTA-A
66 TCTGCGAGATACTATA
* * * **
31928639 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31928701 ATTCTGCGAGTTACTATA
64 ATTCTGCGAGATACTATA
* * *
31928719 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGACCCGAAGGCATTTG
31928745 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TCTGCGAGATACTATA
Found at i:31928751 original size:40 final size:39
Alignment explanation
Indices: 31928561--31928744 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
31928551 TGAATGATGT
* * * * *
31928561 CCGGGCTAAGACCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
31928601 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
31928641 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31928679 TCCGGGTTAAGTCCCGAAGGCAATTCTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31928720 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
31928745 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
39 35 0.29
40 77 0.64
41 9 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31928766 original size:79 final size:79
Alignment explanation
Indices: 31928613--31928777 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
31928603 GGACTAAGAT
* * * **
31928613 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTCTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
31928678 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
31928692 CCGAAGGCAATTCTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTCTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
31928755 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31928771 CCGAAGG
1 CCGAAGG
31928778 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTCTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31936241 original size:43 final size:43
Alignment explanation
Indices: 31936132--31936243 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 43
31936122 ATATCGTACA
* ** *
31936132 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATAACG
* *
31936175 ATG-CTACTGTCTCAGACAG-GGTCTTACACATAATCACATAACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCACATAACG
*
31936218 ATGCCAACGTCCCAAACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
31936244 TGCGAATACA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
42 4 0.07
43 48 0.86
44 4 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATAACG
Found at i:31937486 original size:25 final size:25
Alignment explanation
Indices: 31937448--31937566 Score: 94
Period size: 25 Copynumber: 4.8 Consensus size: 25
31937438 TGATAATACA
* *
31937448 ATCGACACAAAGCCATCGATAACAG
1 ATCGGCACAAAGCCATCAATAACAG
** * *
31937473 ATCGGCACGTAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAG
* *
31937498 ATCGGTACAAAGCCATCAATAACAT
1 ATCGGCACAAAGCCATCAATAACAG
** * * * *
31937523 ATCAACACGAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAG
* *
31937548 ATCAGCACAAAGCCTTCAA
1 ATCGGCACAAAGCCATCAA
31937567 CTAGAGTAAC
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATAACAG
Found at i:31937542 original size:50 final size:50
Alignment explanation
Indices: 31937453--31937566 Score: 138
Period size: 50 Copynumber: 2.3 Consensus size: 50
31937443 ATACAATCGA
* ** * * *
31937453 CACAAAGCCATCGATAACAGATCGGCACGTAGCCATCAATATCATATCGG
1 CACAAAGCCATCAATAACAGATCAACACGAAGCCATCAATAGCATATCAG
* * *
31937503 TACAAAGCCATCAATAACATATCAACACGAAGCCTTCAATAGCATATCAG
1 CACAAAGCCATCAATAACAGATCAACACGAAGCCATCAATAGCATATCAG
*
31937553 CACAAAGCCTTCAA
1 CACAAAGCCATCAA
31937567 CTAGAGTAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.18
Consensus pattern (50 bp):
CACAAAGCCATCAATAACAGATCAACACGAAGCCATCAATAGCATATCAG
Found at i:31937697 original size:22 final size:22
Alignment explanation
Indices: 31937666--31937727 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
31937656 AATACGTTTA
*
31937666 GCACACAGCCATAATTAGGTTG
1 GCACAAAGCCATAATTAGGTTG
* *
31937688 GCACAGAGCCAT-ATGTATGTTG
1 GCACAAAGCCATAAT-TAGGTTG
*
31937710 GCGCAAAGCCATAATTAG
1 GCACAAAGCCATAATTAG
31937728 AATAATTGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 29 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (22 bp):
GCACAAAGCCATAATTAGGTTG
Found at i:31938304 original size:54 final size:54
Alignment explanation
Indices: 31938219--31938421 Score: 198
Period size: 54 Copynumber: 3.8 Consensus size: 54
31938209 ACAAACCCAA
* * * ** * **
31938219 GGTATTCTAGTAATTTTGCAAAGTAATGGTATTTCTA-TAATTTTGTAAATCAGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTC-AGTAATTTTCCAAATCAGG
* * * *
31938273 GGTATTTAT-GTAATTTTCCAAATCAGGGGTATTTCAGTAATTTTCCAAATTAGG
1 GGTATTT-TGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAGG
** *
31938327 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATC-AGG
**
31938381 GGTATTTTGGTAATTTTTTAAACCAAGGGTA-TTCAGTAATT
1 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATT
31938422 CTACCCTGCA
Statistics
Matches: 125, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 10 0.08
54 114 0.91
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTCCAAATCAGG
Found at i:31938403 original size:27 final size:27
Alignment explanation
Indices: 31938270--31938397 Score: 161
Period size: 27 Copynumber: 4.7 Consensus size: 27
31938260 TTTGTAAATC
*
31938270 AGGGGTATTTAT-GTAATTTTCCAAA-T
1 AGGGGTATTT-TGGTAATTTTACAAACT
** * *
31938296 CAGGGGTATTTCAGTAATTTTCCAAATT
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
31938324 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
*
31938351 AAGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
31938378 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
31938398 TTAAACCAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
27 89 0.99
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:31938410 original size:27 final size:27
Alignment explanation
Indices: 31938196--31938413 Score: 154
Period size: 27 Copynumber: 8.1 Consensus size: 27
31938186 TACAAGGCTG
* *
31938196 TTTTGGTAAATCTACAAACCCAA-GGTA
1 TTTTGGTAATTTTACAAA-CCAAGGGTA
* * * ** *
31938223 TTCTAGTAATTTTGCAAAGTAATGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* ** * *
31938250 TTTCT-ATAATTTTGTAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAACCAAGGGTA
* * *
31938277 TTTAT-GTAATTTTCCAAATCAGGGGTA
1 TTT-TGGTAATTTTACAAACCAAGGGTA
** * ** *
31938304 TTTCAGTAATTTTCCAAATTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
31938331 TTTTGGTAATTTTACAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
* *
31938358 TTTTGGTAATTTTACAAACTAGGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
**
31938385 TTTTGGTAATTTTTTAAACCAAGGGTA
1 TTTTGGTAATTTTACAAACCAAGGGTA
31938412 TT
1 TT
31938414 CAGTAATTCT
Statistics
Matches: 156, Mismatches: 32, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 153 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAACCAAGGGTA
Found at i:31941274 original size:25 final size:25
Alignment explanation
Indices: 31941246--31941313 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
31941236 ATACGATCAG
*
31941246 CACAAAGCCATCGATAACAGATCGA
1 CACAAAGCCATCAATAACAGATCGA
* * * *
31941271 CACATAGCCATCAATATCATATCGG
1 CACAAAGCCATCAATAACAGATCGA
*
31941296 CATAAAGCCATCAATAAC
1 CACAAAGCCATCAATAAC
31941314 TTACTAGCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.18
Consensus pattern (25 bp):
CACAAAGCCATCAATAACAGATCGA
Found at i:31941485 original size:22 final size:21
Alignment explanation
Indices: 31941457--31941521 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
31941447 GCAAATATGT
31941457 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
31941479 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
31941501 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
31941522 AATAATTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 3 0.09
22 30 0.86
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:31941724 original size:41 final size:41
Alignment explanation
Indices: 31941666--31941785 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
31941656 AAGCCACAGG
* * * * *
31941666 TGGATCCACTGTTGTCAAGCAACCAT-CTGATTCTTAATCGA
1 TGGATCCACAGTCGTCAAGCAACCATGC-AATCCTCAATCGA
* *
31941707 TGGATCCACAGTCGTCAAGTAACCATGCAATCCTCCATCGA
1 TGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAATCGA
* * *
31941748 TGGATCCACGGTCGTCAAGCAACCAGGCGATCCTCAAT
1 TGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAAT
31941786 TTCTTCCTTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 65 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (41 bp):
TGGATCCACAGTCGTCAAGCAACCATGCAATCCTCAATCGA
Found at i:31942063 original size:27 final size:25
Alignment explanation
Indices: 31942031--31942307 Score: 178
Period size: 27 Copynumber: 10.4 Consensus size: 25
31942021 CCACAAACCC
*
31942031 AGGGTATTTCGATAATTTTACAAACAA
1 AGGGTATTTTG-TAATTTTACAAAC-A
* **
31942058 ATGGTATTTCTGTAATTTTTGAAAGTCA
1 AGGGTATTT-TGTAATTTTACAAA--CA
** **
31942086 AGGGTATTTTTGTAATTTTGTAAATT
1 AGGGTA-TTTTGTAATTTTACAAACA
*
31942112 AGGGTATTTTTGTAATTTTACAAATTA
1 AGGGTA-TTTTGTAATTTTACAAA-CA
* * *
31942139 AGGGTATTTCGATAATTTTCCAAATTA
1 AGGGTATTTTG-TAATTTTACAAA-CA
*
31942166 GGGGTATTTTGGTAATTTTACAAATCA
1 AGGGTATTTT-GTAATTTTACAAA-CA
*
31942193 AGGGTATTTTGGTAATTTCACAAATCA
1 AGGGTATTTT-GTAATTTTACAAA-CA
*
31942220 GGGGTATTTTGATAATTTTACAAACAA
1 AGGGTATTTTG-TAATTTTACAAAC-A
* * * *
31942247 AAGGTATTTGGCAAATTTGTA-AACCA
1 AGGGTATTTTG-TAATTT-TACAAACA
* **
31942273 AGGGTATTTAGTAATTTTGTAAACCA
1 AGGGTATTTTGTAATTTTACAAA-CA
31942299 AGGGTATTT
1 AGGGTATTT
31942308 CAGTAATTCT
Statistics
Matches: 205, Mismatches: 33, Indels: 25
0.78 0.13 0.10
Matches are distributed among these distances:
24 1 0.00
25 7 0.03
26 49 0.24
27 122 0.60
28 22 0.11
29 4 0.02
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (25 bp):
AGGGTATTTTGTAATTTTACAAACA
Found at i:31942130 original size:54 final size:54
Alignment explanation
Indices: 31942060--31942243 Score: 214
Period size: 54 Copynumber: 3.4 Consensus size: 54
31942050 ACAAACAAAT
* ** * **
31942060 GGTATTTCTGTAATTTTTGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATTA-G
1 GGTATTTTTGTAATTTTACAAA-TCAAGGGTATTTTCGTAATTTTCCAAATTAGG
*
31942114 GGTATTTTTGTAATTTTACAAATTAAGGGTA-TTTCGATAATTTTCCAAATTAGG
1 GGTATTTTTGTAATTTTACAAATCAAGGGTATTTTCG-TAATTTTCCAAATTAGG
* * *
31942168 GGTATTTTGGTAATTTTACAAATCAAGGGTATTTTGGTAA-TTTCACAAATCAGG
1 GGTATTTTTGTAATTTTACAAATCAAGGGTATTTTCGTAATTTTC-CAAATTAGG
31942222 GGTA-TTTTGATAATTTTACAAA
1 GGTATTTTTG-TAATTTTACAAA
31942244 CAAAAGGTAT
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
52 4 0.04
53 29 0.26
54 76 0.67
55 4 0.04
ACGTcount: A:0.31, C:0.07, G:0.18, T:0.44
Consensus pattern (54 bp):
GGTATTTTTGTAATTTTACAAATCAAGGGTATTTTCGTAATTTTCCAAATTAGG
Found at i:31942197 original size:81 final size:81
Alignment explanation
Indices: 31942031--31942243 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 81
31942021 CCACAAACCC
* * * * **
31942031 AGGGTATTTCGATAATTTTACAAACAAATGGTATTTCTG-TAATTTTTGAAAGTCAAGGGTATTT
1 AGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTC-GATAATTTTACAAAGTCAAGGGTATTT
* ** *
31942095 TTGTAATTTTGTAAATT
65 TGGTAATTTTACAAATA
* * * * *
31942112 AGGGTATTTTTGTAATTTTACAAATTAAGGGTATTTCGATAATTTTCCAAA-TTAGGGGTATTTT
1 AGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGATAATTTTACAAAGTCAAGGGTATTTT
31942176 GGTAATTTTACAAATCA
66 GGTAATTTTACAAAT-A
* * * *
31942193 AGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGATAATTTTACAAA
1 AGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGATAATTTTACAAA
31942244 CAAAAGGTAT
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
80 24 0.22
81 86 0.78
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (81 bp):
AGGGTATTTTGGTAATTTTACAAATAAAGGGTATTTCGATAATTTTACAAAGTCAAGGGTATTTT
GGTAATTTTACAAATA
Found at i:31942270 original size:26 final size:26
Alignment explanation
Indices: 31942249--31942307 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
31942239 ACAAACAAAA
*
31942249 GGTATTTGGCAAATTTGTAAACCAAG
1 GGTATTTAGCAAATTTGTAAACCAAG
* *
31942275 GGTATTTAGTAATTTTGTAAACCAAG
1 GGTATTTAGCAAATTTGTAAACCAAG
31942301 GGTATTT
1 GGTATTT
31942308 CAGTAATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
GGTATTTAGCAAATTTGTAAACCAAG
Found at i:31945244 original size:43 final size:43
Alignment explanation
Indices: 31945183--31945268 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
31945173 GAATATATAT
**
31945183 ATGAGATTTCTGTATGTTTTGCATGTCTAATTCTATAGGGTTA
1 ATGAGATTTCTACATGTTTTGCATGTCTAATTCTATAGGGTTA
* *
31945226 ATGAGATTTCTACATGTTTTGCATGTCTAATTCTGTTGGGTTA
1 ATGAGATTTCTACATGTTTTGCATGTCTAATTCTATAGGGTTA
31945269 CACACTGAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.22, C:0.10, G:0.21, T:0.47
Consensus pattern (43 bp):
ATGAGATTTCTACATGTTTTGCATGTCTAATTCTATAGGGTTA
Found at i:31947691 original size:38 final size:38
Alignment explanation
Indices: 31947649--31947725 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
31947639 GCATCTATAC
31947649 ATAGATTTAAGTTATTTCTTGTACACTGTATTTGGGCA
1 ATAGATTTAAGTTATTTCTTGTACACTGTATTTGGGCA
*
31947687 ATAGATTTAGGTTATTTCTTGTACACTGTATTTGGGCA
1 ATAGATTTAAGTTATTTCTTGTACACTGTATTTGGGCA
31947725 A
1 A
31947726 AGCTTTGGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (38 bp):
ATAGATTTAAGTTATTTCTTGTACACTGTATTTGGGCA
Found at i:31953522 original size:21 final size:20
Alignment explanation
Indices: 31953484--31953526 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
31953474 TTACTCAAAG
*
31953484 GAAGCCGATTGATCCATCTAA
1 GAAGCCGATTCATCCATC-AA
31953505 GAAGCCGGATTCAT-CATCAA
1 GAAGCC-GATTCATCCATCAA
31953525 GA
1 GA
31953527 CTGAAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCAA
Found at i:31954816 original size:19 final size:19
Alignment explanation
Indices: 31954792--31954830 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31954782 ACCATTTTGC
31954792 ATAAAT-TGTAAAATACATG
1 ATAAATGTGTAAAATA-ATG
*
31954811 ATAAATGTGTGAAATAATG
1 ATAAATGTGTAAAATAATG
31954830 A
1 A
31954831 GAATTATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.31
Consensus pattern (19 bp):
ATAAATGTGTAAAATAATG
Found at i:31955450 original size:94 final size:94
Alignment explanation
Indices: 31955289--31955509 Score: 424
Period size: 94 Copynumber: 2.3 Consensus size: 94
31955279 TCATTTGTGC
*
31955289 GCTAGTGTAAGACATGTCTGGGACATGCATCGATCACATTATGAGAGTGATTGTAAGAACATTTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGATCACATTATGAGAGTCATTGTAAGAACATTTC
31955354 TGGGACATGGCATTGGCATTGAGATGAGA
66 TGGGACATGGCATTGGCATTGAGATGAGA
31955383 GCTAGTGTAAGACATGTCTGGGACATGCATCGATCACATTATGAGAGTCATTGTAAGAACATTTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGATCACATTATGAGAGTCATTGTAAGAACATTTC
31955448 TGGGACATGGCATTGGCATTGAGATGAGA
66 TGGGACATGGCATTGGCATTGAGATGAGA
31955477 GCTAGTGTAAGACATGTCTGGGACATAGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
31955510 GCACGTATAG
Statistics
Matches: 125, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
94 119 0.95
95 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.27
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGATCACATTATGAGAGTCATTGTAAGAACATTTC
TGGGACATGGCATTGGCATTGAGATGAGA
Found at i:31955531 original size:47 final size:45
Alignment explanation
Indices: 31955292--31955559 Score: 201
Period size: 47 Copynumber: 5.7 Consensus size: 45
31955282 TTTGTGCGCT
* *
31955292 AGTGTAAGACATGTCTGGGACAT-GCATCGATCACATTATGA-GAGTG
1 AGTGTAAGACATGTCTGGGACATGGCATCG-GCAC-TTA-GAGGAGTC
* * *
31955338 ATTGTAAGAACATTTCTGGGACATGGCATTGGCA-TTGAGATGAGAG-C
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGCACTT-AGA-G-GAGTC
*
31955385 TAGTGTAAGACATGTCTGGGACAT-GCATCGATCACATTATGA-GAGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATCG-GCAC-TTA-GAGGAGTC
* * *
31955432 ATTGTAAGAACATTTCTGGGACATGGCATTGGCA-TTGAGATGAGAG-C
1 AGTGTAAG-ACATGTCTGGGACATGGCATCGGCACTT-AGA-G-GAGTC
* *
31955479 TAGTGTAAGACATGTCTGGGACATAGCATCGGCACGTATAGAGGTGTC
1 -AGTGTAAGACATGTCTGGGACATGGCATCGGCAC-T-TAGAGGAGTC
*
31955527 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
31955560 CTCGATTTCG
Statistics
Matches: 178, Mismatches: 20, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
45 8 0.04
46 24 0.13
47 83 0.47
48 54 0.30
49 8 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCACTTAGAGGAGTC
Found at i:31955600 original size:12 final size:12
Alignment explanation
Indices: 31955583--31955609 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31955573 GTCAGTGTAA
31955583 GACCATGTCTGG
1 GACCATGTCTGG
31955595 GACCATGTCTGG
1 GACCATGTCTGG
31955607 GAC
1 GAC
31955610 ATGGAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (12 bp):
GACCATGTCTGG
Found at i:31960463 original size:46 final size:45
Alignment explanation
Indices: 31960391--31960565 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 45
31960381 TGTAACCCGC
*
31960391 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* * *
31960437 CCATGAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * ** *
31960483 ACATCTTTCGAACTCGAACTCAACTCAATGAGTTCGAACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
31960530 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
31960566 ATGCTCAATC
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:31960558 original size:93 final size:93
Alignment explanation
Indices: 31960399--31960569 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
31960389 GCCCATAAGT
* ** * *
31960399 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31960464 CGAGCTCGGATGCCTAGTTACATCTTTC
66 CGAGCTCGGATGCCTAGTTACATCTTTC
* * *
31960492 GAACTCGAACTCAACTCAATGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
31960557 CGAGTTCGGATGC
66 CGAGCTCGGATGC
31960570 TCAATCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTTTC
Found at i:31962773 original size:130 final size:130
Alignment explanation
Indices: 31962540--31962799 Score: 421
Period size: 130 Copynumber: 2.0 Consensus size: 130
31962530 CATGCTATCA
* * *
31962540 ACTTTCAGAAGCATTCGAGACATAATTCTTTTAATCTCATAATTTCTCATGTCAAGAGTTTTATC
1 ACTTTCAGAAGCATTCGAGACATAATTCATTTAATCTCATAATTTCTAATATCAAGAGTTTTATC
* *
31962605 CATTGAATTATTGAAATATTGATGGATACTCAGGTAGTACACTTAAGGTGTACAAAACTGTAAAC
66 CATTGAATTATTGAAATATCGATGGATACTCAGGTAGTACACTCAAGGTGTACAAAACTGTAAAC
* * *
31962670 ACTTTTAGAAGCATTTGAGACATAATTCATTTAATCTCATAATTTCTAATATCAGGAGTTTTATC
1 ACTTTCAGAAGCATTCGAGACATAATTCATTTAATCTCATAATTTCTAATATCAAGAGTTTTATC
* * *
31962735 CGTTGAATTATTGAAATATCGATGGATACTCAGGTAGTACACTCAATGTGTATAAAACTGTAAAC
66 CATTGAATTATTGAAATATCGATGGATACTCAGGTAGTACACTCAAGGTGTACAAAACTGTAAAC
31962800 CGTCAACACA
Statistics
Matches: 119, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 119 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (130 bp):
ACTTTCAGAAGCATTCGAGACATAATTCATTTAATCTCATAATTTCTAATATCAAGAGTTTTATC
CATTGAATTATTGAAATATCGATGGATACTCAGGTAGTACACTCAAGGTGTACAAAACTGTAAAC
Found at i:31968282 original size:20 final size:22
Alignment explanation
Indices: 31968235--31968282 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
31968225 TGTTGATTTC
*
31968235 CTATGTTGGCCCGTTTTCTCTG
1 CTATTTTGGCCCGTTTTCTCTG
*
31968257 -TTTTTTGGCCCG-TTTCT-TG
1 CTATTTTGGCCCGTTTTCTCTG
31968276 CTATTTT
1 CTATTTT
31968283 TACTCTCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.09
20 10 0.45
21 10 0.45
ACGTcount: A:0.04, C:0.23, G:0.19, T:0.54
Consensus pattern (22 bp):
CTATTTTGGCCCGTTTTCTCTG
Found at i:31970168 original size:26 final size:25
Alignment explanation
Indices: 31970139--31970196 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
31970129 ATAAAACCTA
31970139 AAAATAAAATGGTA-TTAAATGAAAAT
1 AAAATAAAAT-GTACTTAAA-GAAAAT
*
31970165 AAAATAAAATGTACTTAAAGAAGAT
1 AAAATAAAATGTACTTAAAGAAAAT
31970190 -AAATAAA
1 AAAATAAA
31970197 GATAAAAGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 7 0.23
25 8 0.27
26 15 0.50
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (25 bp):
AAAATAAAATGTACTTAAAGAAAAT
Found at i:31974068 original size:13 final size:13
Alignment explanation
Indices: 31974050--31974100 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
31974040 AGTTTGGCAA
*
31974050 TGCTTTTGAAAAC
1 TGCTTTTGAAAAG
31974063 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
31974076 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
31974089 TACTTTTGAAAA
1 TGCTTTTGAAAA
31974101 TTTTAGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:31974323 original size:31 final size:29
Alignment explanation
Indices: 31974271--31974332 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
31974261 TTATTACTTC
* *
31974271 TTTTTAATATTTTAATAAATAAAATATAAA
1 TTTTAAATATTTTAAGAAAT-AAATATAAA
* *
31974301 TTTTAAATATTTTTAAGCAATAAATATTAA
1 TTTTAAATA-TTTTAAGAAATAAATATAAA
31974331 TT
1 TT
31974333 ATTTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (29 bp):
TTTTAAATATTTTAAGAAATAAATATAAA
Found at i:31974395 original size:33 final size:30
Alignment explanation
Indices: 31974319--31974399 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
31974309 ATTTTTAAGC
31974319 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
31974347 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
31974380 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
31974400 GTAATTAGCA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:31974860 original size:49 final size:49
Alignment explanation
Indices: 31974701--31974863 Score: 202
Period size: 49 Copynumber: 3.3 Consensus size: 49
31974691 AGAATTGGCC
*
31974701 CTTAGTACTACACATGCGACCAATTATCCGGTACACATAGTAGCCTGCA
1 CTTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCCTGCA
* * * * *
31974750 CTTAGTACTACACATGTGATCAAAGTTAT-TAGGTACGCATAGTAGCCTACA
1 CTTAGTACTACACATGCGA-CCAA-TTATCCA-GTACACATAGTAGCCTGCA
* * * *
31974801 CTTAGTACTACACATGCGACCGATAATCCAGTACACGTAGGAGCCTGCA
1 CTTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCCTGCA
31974850 CTTAGTACTACACA
1 CTTAGTACTACACA
31974864 CGTGACCTCA
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
49 50 0.53
50 6 0.06
51 39 0.41
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
CTTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCCTGCA
Found at i:31980755 original size:43 final size:44
Alignment explanation
Indices: 31980646--31980760 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
31980636 TACTGAGATG
* * * *
31980646 TGATTACATGTAAGACCATGTCTGGGACATTGACAATTGTATTG
1 TGATTACGTATAAGACCATGTCTGGGACATTGACAATCGTATTA
* *
31980690 TGATTACGTGTAAGACCATGTCTGGGACATTGGC-ATCGT-TATA
1 TGATTACGTATAAGACCATGTCTGGGACATTGACAATCGTAT-TA
* *
31980733 TGATTTCGTATAAGACCCTGTCTGGGAC
1 TGATTACGTATAAGACCATGTCTGGGAC
31980761 GGTGACATCA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 30 0.48
44 32 0.51
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (44 bp):
TGATTACGTATAAGACCATGTCTGGGACATTGACAATCGTATTA
Found at i:31985666 original size:67 final size:67
Alignment explanation
Indices: 31985582--31985812 Score: 453
Period size: 67 Copynumber: 3.4 Consensus size: 67
31985572 TACTATGTGT
31985582 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
31985647 GG
66 GG
31985649 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
31985714 GG
66 GG
31985716 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
31985781 GG
66 GG
*
31985783 ACACCATGTAGACAAGAGAGCTACGAGATA
1 ACACCATGTAGACAAGAGAGCTACGGGATA
31985813 AACTGGCTAG
Statistics
Matches: 163, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 163 1.00
ACGTcount: A:0.32, C:0.18, G:0.30, T:0.20
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
GG
Found at i:31999269 original size:44 final size:44
Alignment explanation
Indices: 31999219--31999303 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
31999209 CGAGTTAAAG
*
31999219 GAGTTGAAAGCTCAGTTGCAAGAACTGACGGATAGAGGTTTCAA
1 GAGTTGAAAGCTCAGTTGCAAGAACTGACGAATAGAGGTTTCAA
*
31999263 GAGTTGAAAGCTCAGTTGCAAGAATTGACGAATAGAGGTTT
1 GAGTTGAAAGCTCAGTTGCAAGAACTGACGAATAGAGGTTT
31999304 TGCTCGACCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (44 bp):
GAGTTGAAAGCTCAGTTGCAAGAACTGACGAATAGAGGTTTCAA
Found at i:31999285 original size:21 final size:21
Alignment explanation
Indices: 31999222--31999290 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
31999212 GTTAAAGGAG
31999222 TTGAAAGCTCAGTTGCAAGAA
1 TTGAAAGCTCAGTTGCAAGAA
* ** * * * *
31999243 CTGACGGATAGAGGTTTCAAGAG
1 TTGAAAGCT-CA-GTTGCAAGAA
31999266 TTGAAAGCTCAGTTGCAAGAA
1 TTGAAAGCTCAGTTGCAAGAA
31999287 TTGA
1 TTGA
31999291 CGAATAGAGG
Statistics
Matches: 32, Mismatches: 14, Indels: 4
0.64 0.28 0.08
Matches are distributed among these distances:
21 17 0.53
22 2 0.06
23 13 0.41
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (21 bp):
TTGAAAGCTCAGTTGCAAGAA
Found at i:32000303 original size:39 final size:39
Alignment explanation
Indices: 32000249--32000327 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
32000239 CTGCCATCGT
*
32000249 GTTTGCTTTAAAAATATGGCGACATTATCTGTTTGGTGA
1 GTTTGCATTAAAAATATGGCGACATTATCTGTTTGGTGA
* *
32000288 GTTTGCATTGAAAATATGGCGACATTATTTGTTTGGTGA
1 GTTTGCATTAAAAATATGGCGACATTATCTGTTTGGTGA
32000327 G
1 G
32000328 AAGTGCCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (39 bp):
GTTTGCATTAAAAATATGGCGACATTATCTGTTTGGTGA
Found at i:32000944 original size:38 final size:38
Alignment explanation
Indices: 32000902--32000977 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
32000892 AAAGCGGAAC
32000902 ATCAAGTGCCTTCAGGATTACTCCAGCCGATCATGATA
1 ATCAAGTGCCTTCAGGATTACTCCAGCCGATCATGATA
32000940 ATCAAGTGCCTTCAGGATTACTCCAGCCGATCATGATA
1 ATCAAGTGCCTTCAGGATTACTCCAGCCGATCATGATA
32000978 CCCGAGTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (38 bp):
ATCAAGTGCCTTCAGGATTACTCCAGCCGATCATGATA
Found at i:32003820 original size:40 final size:40
Alignment explanation
Indices: 32003736--32003919 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
32003726 TTGAATGCTG
* * * *
32003736 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
32003775 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
32003816 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
32003856 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
32003896 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32003920 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:32003873 original size:80 final size:81
Alignment explanation
Indices: 32003736--32003916 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
32003726 TTGAATGCTG
* *
32003736 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
32003800 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
32003816 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
32003877 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
32003896 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
32003917 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:32003991 original size:39 final size:38
Alignment explanation
Indices: 32003948--32004065 Score: 95
Period size: 39 Copynumber: 3.2 Consensus size: 38
32003938 GGGCTATGTC
32003948 CCGAAGGCACTTGAATGAGGAGCTATATCCGGTTAAATT
1 CCGAAGGCACTTGAA-GAGGAGCTATATCCGGTTAAATT
* ** * * ** *
32003987 CCGAAGGTAC----AG-TTA-CTATAACCGGGCTATGTC
1 CCGAAGGCACTTGAAGAGGAGCTATATCC-GGTTAAATT
32004020 CCGAAGGCACTTGAACGAGGAGCTATATCCGGTTAAATT
1 CCGAAGGCACTTGAA-GAGGAGCTATATCCGGTTAAATT
32004059 CCGAAGG
1 CCGAAGG
32004066 TAAGTGATTT
Statistics
Matches: 55, Mismatches: 16, Indels: 16
0.63 0.18 0.18
Matches are distributed among these distances:
32 7 0.13
33 15 0.27
34 1 0.02
35 1 0.02
37 1 0.02
38 1 0.02
39 22 0.40
40 7 0.13
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (38 bp):
CCGAAGGCACTTGAAGAGGAGCTATATCCGGTTAAATT
Found at i:32004023 original size:72 final size:72
Alignment explanation
Indices: 32003925--32004067 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
32003915 GCATTGTATG
*
32003925 AGTTACTATAACCGGGCTATGTCCCGAAGGCACTTGAATGAGGAGCTATATCCGGTTAAATTCCG
1 AGTTACTATAACCGGGCTATGTCCCGAAGGCACTTGAACGAGGAGCTATATCCGGTTAAATTCCG
32003990 AAGGTAC
66 AAGGTAC
32003997 AGTTACTATAACCGGGCTATGTCCCGAAGGCACTTGAACGAGGAGCTATATCCGGTTAAATTCCG
1 AGTTACTATAACCGGGCTATGTCCCGAAGGCACTTGAACGAGGAGCTATATCCGGTTAAATTCCG
32004062 AAGGTA
66 AAGGTA
32004068 AGTGATTTTG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (72 bp):
AGTTACTATAACCGGGCTATGTCCCGAAGGCACTTGAACGAGGAGCTATATCCGGTTAAATTCCG
AAGGTAC
Found at i:32009622 original size:253 final size:253
Alignment explanation
Indices: 32009174--32009679 Score: 1012
Period size: 253 Copynumber: 2.0 Consensus size: 253
32009164 TGCGATTTGG
32009174 GTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTTTCCCCGTGTGTATGGATTTTTCATTGGA
1 GTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTTTCCCCGTGTGTATGGATTTTTCATTGGA
32009239 TAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGT
66 TAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGT
32009304 CGGATAGAGATCCGAGATTCACCTCGTGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAG
131 CGGATAGAGATCCGAGATTCACCTCGTGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAG
32009369 CTGCATTTTAGCACTGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTT
196 CTGCATTTTAGCACTGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTT
32009427 GTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTTTCCCCGTGTGTATGGATTTTTCATTGGA
1 GTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTTTCCCCGTGTGTATGGATTTTTCATTGGA
32009492 TAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGT
66 TAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGT
32009557 CGGATAGAGATCCGAGATTCACCTCGTGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAG
131 CGGATAGAGATCCGAGATTCACCTCGTGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAG
32009622 CTGCATTTTAGCACTGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTT
196 CTGCATTTTAGCACTGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTT
32009680 AGATACTTGA
Statistics
Matches: 253, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
253 253 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (253 bp):
GTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTTTCCCCGTGTGTATGGATTTTTCATTGGA
TAGACTAGTTGAATTGTACGTTTCTCAGATTGTGAGATTACACGGGGTACCTATTTCTATCGTGT
CGGATAGAGATCCGAGATTCACCTCGTGATTTTGGAGGAAATTGCAAGAAGCTTTGGGTACCAAG
CTGCATTTTAGCACTGCTTTTCATCCCCAAACCGATGGTCAATCTGAGCGGATAATTT
Found at i:32011443 original size:40 final size:39
Alignment explanation
Indices: 32011359--32011543 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 39
32011349 TTGAATGATG
* * *
32011359 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
32011399 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAAA
* *
32011439 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
* *
32011478 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTATTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGA-TACTA-AA
*
32011519 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
32011544 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 76 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:32011495 original size:79 final size:81
Alignment explanation
Indices: 32011359--32011543 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
32011349 TTGAATGATG
*
32011359 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
32011423 TGTGCGAGA-TACTAAT-
66 TGTGCGA-ATTA-TAATA
* * * **
32011439 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
32011501 TTGTGCGAATTATTATA
65 TTGTGCGAATTATAATA
* *
32011518 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32011544 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 54 0.59
80 32 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTATAATA
Found at i:32011565 original size:79 final size:79
Alignment explanation
Indices: 32011412--32011576 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
32011402 GGACTAAGAT
* ** *
32011412 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
32011477 ATCCGGGTTAAGTC
66 ATCCAGGTTAAATC
* *
32011491 CCGAAGGCATTTGTGCGA-ATTA-TTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
32011553 CTATAT-CAGGTTAAATT
62 CTAAATCCAGGTTAAATC
32011570 CCGAAGG
1 CCGAAGG
32011577 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 4 0.06
79 45 0.62
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCAGGTTAAATC
Found at i:32013137 original size:28 final size:27
Alignment explanation
Indices: 32013106--32013197 Score: 87
Period size: 28 Copynumber: 3.3 Consensus size: 27
32013096 AAAAATAAAA
32013106 ATAAGCACTGAAGTGCAAAATAATATCG
1 ATAAGCACTGAAGTGCAAAATAATA-CG
* * *
32013134 ATAAGCATTGAAGTGCAAATTTTACA-AAG
1 ATAAGCACTGAAGTGCAAA--ATA-ATACG
* **
32013163 ATAAGCACCGAAGTGCCGAATAATACG
1 ATAAGCACTGAAGTGCAAAATAATACG
32013190 ATAAGCAC
1 ATAAGCAC
32013198 GCTAATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.02
27 12 0.24
28 18 0.35
29 16 0.31
30 3 0.06
31 1 0.02
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (27 bp):
ATAAGCACTGAAGTGCAAAATAATACG
Found at i:32015221 original size:281 final size:281
Alignment explanation
Indices: 32014718--32015283 Score: 1008
Period size: 281 Copynumber: 2.0 Consensus size: 281
32014708 CCCTAAATTG
* *
32014718 CATTGCAATTTACTTTCCATAAGTCAACTTACCCGAGACATAAATTGTGTTGCTAAATTTCATTC
1 CATTGCAATTTACTTTCCATAAGCCAACTTACCCAAGACATAAATTGTGTTGCTAAATTTCATTC
* *
32014783 TAATTGTTTTTATTTTTAGGCAGTGGATTCGGGGAAGGTGATTGGCAGTGATAATATGCATGGTG
66 TAATTGCTTTTATTTTTAGGCAGTGGATTCGGGAAAGGTGATTGGCAGTGATAATATGCATGGTG
*
32014848 GTCTATATCTGCAAAGAATCTTCTAAGTAGACAAGTTCACCCATCAAGTTGTAGTTCAGATTCTA
131 GTCTATATCTGCAAAGAATCTTCCAAGTAGACAAGTTCACCCATCAAGTTGTAGTTCAGATTCTA
*
32014913 GTAAAAAGTGTGGCAAACTTACTTCCAAATCAATG-CTTGTATCCAATTCTAATTTTGTTTCCCT
196 GTAAAAAGTGTGGCAAACTTACTTCCAAATCAATGTC-TGTATCCAATTCTAATTTTATTTCCCT
32014977 TGAAAATCAAGTTATGTTATAA
260 TGAAAATCAAGTTATGTTATAA
*
32014999 CATTGCAATTTACTTTCCATTAGCCAACTTACCCAAGACATAAATTGTGTTGCTAAATTTCATTC
1 CATTGCAATTTACTTTCCATAAGCCAACTTACCCAAGACATAAATTGTGTTGCTAAATTTCATTC
32015064 TAATTGCTTTTATTTTTAGGCAGTGGATTCGGGAAAGGTGATTGGCAGTGATAATATGCATGGTG
66 TAATTGCTTTTATTTTTAGGCAGTGGATTCGGGAAAGGTGATTGGCAGTGATAATATGCATGGTG
* * *
32015129 GTCTATATCTGCAAAGAATCTTCCAAGTAGACCAGTTTACCCATCAAGTTGTGGTTCAGATTCTA
131 GTCTATATCTGCAAAGAATCTTCCAAGTAGACAAGTTCACCCATCAAGTTGTAGTTCAGATTCTA
*
32015194 GTAAAAAGTGTGTCAAACTTACTTCCAAATCAATGTCTGTATCCAATTCTAATTTTATTTCCCTT
196 GTAAAAAGTGTGGCAAACTTACTTCCAAATCAATGTCTGTATCCAATTCTAATTTTATTTCCCTT
*
32015259 GAAAATCAAGTTATGTTATAG
261 GAAAATCAAGTTATGTTATAA
32015280 CATT
1 CATT
32015284 ATCGTCTTGT
Statistics
Matches: 272, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
281 271 1.00
282 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (281 bp):
CATTGCAATTTACTTTCCATAAGCCAACTTACCCAAGACATAAATTGTGTTGCTAAATTTCATTC
TAATTGCTTTTATTTTTAGGCAGTGGATTCGGGAAAGGTGATTGGCAGTGATAATATGCATGGTG
GTCTATATCTGCAAAGAATCTTCCAAGTAGACAAGTTCACCCATCAAGTTGTAGTTCAGATTCTA
GTAAAAAGTGTGGCAAACTTACTTCCAAATCAATGTCTGTATCCAATTCTAATTTTATTTCCCTT
GAAAATCAAGTTATGTTATAA
Found at i:32021636 original size:27 final size:27
Alignment explanation
Indices: 32021606--32021785 Score: 159
Period size: 27 Copynumber: 6.7 Consensus size: 27
32021596 CTCAAAAGTC
* *
32021606 ACCACAAGGGCTTCATTTTCATAGATT
1 ACCACAAAGGCTTCTTTTTCATAGATT
* * * *
32021633 ACCACAAAGGTTTCCTATTCTTAGA-T
1 ACCACAAAGGCTTCTTTTTCATAGATT
* * * *
32021659 GCCACAGAGGCTTCATTTTT-ATAGGTC
1 ACCACAAAGGCTTC-TTTTTCATAGATT
* *
32021686 GCCACAAAGGCTTCTTTTTCATAAATT
1 ACCACAAAGGCTTCTTTTTCATAGATT
*
32021713 ACCACAAAGGCTTTTTTTTTCATAGA-T
1 ACCACAAAGGC-TTCTTTTTCATAGATT
* * * *
32021740 ACCATAAAGGCTTTTTTTTCGTAGATC
1 ACCACAAAGGCTTCTTTTTCATAGATT
*
32021767 GCCACAAAGGCTTCTTTTT
1 ACCACAAAGGCTTCTTTTT
32021786 TTCTGGCGTG
Statistics
Matches: 122, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
26 33 0.27
27 77 0.63
28 12 0.10
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
ACCACAAAGGCTTCTTTTTCATAGATT
Found at i:32021779 original size:81 final size:80
Alignment explanation
Indices: 32021607--32021785 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 80
32021597 TCAAAAGTCA
* * * * * *
32021607 CCACAAGGGCTTCATTTTCATAGATTACCACAAAGGTTTCCTATTCTTAGATGCCACAGAGGCTT
1 CCACAAAGGCTTCTTTTTCATAAATTACCACAAAGGTTTCCTATTCATAGATACCACAAAGGCTT
*
32021672 CATTTTTATAGGTCG
66 CATTTTTATAGATCG
** * *
32021687 CCACAAAGGCTTCTTTTTCATAAATTACCACAAAGGCTTTTTTTTTCATAGATACCATAAAGGCT
1 CCACAAAGGCTTCTTTTTCATAAATTACCACAAAGG-TTTCCTATTCATAGATACCACAAAGGCT
* *
32021752 T-TTTTTTCGTAGATCG
65 TCATTTTT-ATAGATCG
32021768 CCACAAAGGCTTCTTTTT
1 CCACAAAGGCTTCTTTTT
32021786 TTCTGGCGTG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 38 0.45
81 46 0.55
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (80 bp):
CCACAAAGGCTTCTTTTTCATAAATTACCACAAAGGTTTCCTATTCATAGATACCACAAAGGCTT
CATTTTTATAGATCG
Found at i:32027104 original size:56 final size:56
Alignment explanation
Indices: 32027015--32027134 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
32027005 ACAAGGGATG
*
32027015 ATGGGCAAAACATGTCATGAAACATGTTTTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
32027071 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
32027127 ATGGGCAA
1 ATGGGCAA
32027135 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:32028356 original size:40 final size:39
Alignment explanation
Indices: 32028312--32028416 Score: 115
Period size: 39 Copynumber: 2.6 Consensus size: 39
32028302 AGTGACCATA
32028312 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACT-A-ATCCCGAAGGCATTTGTGCGAGATACTAAT
* *
32028352 TCCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAATCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
32028390 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTA-ATCCCGAAGGCATTTG
32028417 AACGAGTAGC
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
38 4 0.07
39 32 0.55
40 22 0.38
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGACTAATCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32028372 original size:39 final size:40
Alignment explanation
Indices: 32028325--32028416 Score: 134
Period size: 39 Copynumber: 2.3 Consensus size: 40
32028315 GGACTAAGAT
*
32028325 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTA-ATC
1 CCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTATATC
* *
32028364 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTATAACCGGGCTATATC
32028404 CCGAAGGCATTTG
1 CCGAAGGCATTTG
32028417 AACGAGTAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 32 0.67
40 16 0.33
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTATAACCGGGCTATATC
Found at i:32028423 original size:40 final size:39
Alignment explanation
Indices: 32028273--32028416 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 39
32028263 CGAATGATGT
* * *
32028273 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 CCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACTAATA
* * *
32028312 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCT-A-ATCCCGAAGGCATTTGTGCGAGTTACTAATA
32028353 CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
32028392 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTA-ATCCCGAAGGCATTTG
32028417 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
38 4 0.05
39 32 0.37
40 39 0.45
41 11 0.13
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAATCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:32028435 original size:79 final size:80
Alignment explanation
Indices: 32028272--32028422 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
32028262 TCGAATGATG
*
32028272 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
32028337 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
32028352 TCCGGGCTAA-TCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
32028414 TTGAACGAG
64 TTGAACGAG
32028423 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.70
80 17 0.28
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:32033928 original size:14 final size:16
Alignment explanation
Indices: 32033911--32033942 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32033901 ATGCTACAAC
32033911 AAAA-AGAAATGAAAA
1 AAAAGAGAAATGAAAA
32033926 AAAAGAGAAATGAAAA
1 AAAAGAGAAATGAAAA
32033942 A
1 A
32033943 TGAAAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAAGAGAAATGAAAA
Found at i:32037576 original size:40 final size:40
Alignment explanation
Indices: 32037506--32037583 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
32037496 TGCAGTACCT
* *
32037506 TATGGTGTGTAGGGTTGGATGGGTCAATTTTATCCCCATA
1 TATGGTGTGTAGGGATGGATAGGTCAATTTTATCCCCATA
* * *
32037546 TATGGTGTGTAGGGATGGGTAGGTCGATTTTATTCCCA
1 TATGGTGTGTAGGGATGGATAGGTCAATTTTATCCCCA
32037584 AAAGGTGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.32, T:0.37
Consensus pattern (40 bp):
TATGGTGTGTAGGGATGGATAGGTCAATTTTATCCCCATA
Found at i:32069063 original size:23 final size:23
Alignment explanation
Indices: 32069019--32069063 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32069009 TTATATTAAA
**
32069019 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAATAAAAATATG
32069042 ATTAAAAATAAAA-AAAATATAT
1 ATTAAAAATAAAATAAAA-ATAT
32069064 ATTTAGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (23 bp):
ATTAAAAATAAAATAAAAATATG
Found at i:32069494 original size:15 final size:16
Alignment explanation
Indices: 32069459--32069495 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
32069449 TACAAATATA
*
32069459 TTTTTATATTATTTAT
1 TTTTTACATTATTTAT
32069475 TTTTTACATTA-TTAT
1 TTTTTACATTATTTAT
32069490 TTTTTA
1 TTTTTA
32069496 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTACATTATTTAT
Found at i:32073526 original size:16 final size:16
Alignment explanation
Indices: 32073493--32073526 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32073483 GATAAGTGTT
* *
32073493 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
32073509 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
32073525 AA
1 AA
32073527 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:32076352 original size:21 final size:21
Alignment explanation
Indices: 32076326--32076366 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32076316 AGACGAGCAA
* *
32076326 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
32076347 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
32076367 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:32078305 original size:16 final size:16
Alignment explanation
Indices: 32078272--32078305 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32078262 GGAGATTGTT
* *
32078272 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
32078288 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
32078304 AA
1 AA
32078306 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:32081276 original size:10 final size:10
Alignment explanation
Indices: 32081249--32081282 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
32081239 AGGTAAAAAC
*
32081249 TTTTAATATA
1 TTTTAAAATA
32081259 TATTTAAAATA
1 T-TTTAAAATA
32081270 TTTTAAAATA
1 TTTTAAAATA
32081280 TTT
1 TTT
32081283 ATGTATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:32086384 original size:19 final size:19
Alignment explanation
Indices: 32086360--32086396 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
32086350 CACAGGATTG
32086360 AACTATTTGTATGTCTTTT
1 AACTATTTGTATGTCTTTT
32086379 AACTATTTGTATGTCTTT
1 AACTATTTGTATGTCTTT
32086397 GATGTTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (19 bp):
AACTATTTGTATGTCTTTT
Found at i:32088629 original size:19 final size:19
Alignment explanation
Indices: 32088602--32088643 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
32088592 TAACAGAGTA
*
32088602 AGTTCAAATGTACTTAGTG
1 AGTTAAAATGTACTTAGTG
32088621 AGTTAAAATGTACTTAGTG
1 AGTTAAAATGTACTTAGTG
32088640 AGTT
1 AGTT
32088644 CCAAAGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (19 bp):
AGTTAAAATGTACTTAGTG
Found at i:32089406 original size:11 final size:11
Alignment explanation
Indices: 32089392--32089436 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
32089382 AGATAAATAT
32089392 TATTTTATTAA
1 TATTTTATTAA
*
32089403 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
32089416 TATTTTATTAT
1 TATTTTATTAA
32089427 TATTTTATTA
1 TATTTTATTA
32089437 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:32091152 original size:58 final size:54
Alignment explanation
Indices: 32091081--32091214 Score: 155
Period size: 54 Copynumber: 2.4 Consensus size: 54
32091071 TAGGGTCTAA
* * * *
32091081 ATTTAGCCTGGACTGGTAATTCAGATCCAA-GCTC-ATAGAGTAATTGTCATTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTCTAT-GAGT--TTAT-ATTACAGGGG
*
32091139 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
32091193 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
32091215 CGCTGTAAGG
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
54 31 0.45
55 3 0.04
56 3 0.04
57 7 0.10
58 25 0.36
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATGAGTTTATATTACAGGGG
Found at i:32091368 original size:46 final size:46
Alignment explanation
Indices: 32091254--32091511 Score: 349
Period size: 46 Copynumber: 5.6 Consensus size: 46
32091244 GCTTTCTAAA
** *
32091254 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAT-AT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
32091299 ATGAAATGTGTACGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
32091345 GGGAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAGCATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
32091391 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
32091437 ATGAAATGAATAGGACCATGGTTGAAAGGTACCACGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
32091483 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
32091512 CACTATGACA
Statistics
Matches: 189, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
45 43 0.23
46 146 0.77
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:32091501 original size:138 final size:137
Alignment explanation
Indices: 32091254--32091511 Score: 390
Period size: 138 Copynumber: 1.9 Consensus size: 137
32091244 GCTTTCTAAA
** * **
32091254 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATATATGAAATGTGTACGACCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATACATGAAATGAATACGACCATG
* * * *
32091319 GTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGATGCCATGGCA
66 GTTGAAAGATACCACGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGATGCCATGGCA
32091384 GCATGAC
131 GCATGAC
* *
32091391 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAGGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACAT-ACATGAAATGAATACGACCAT
* *
32091456 GGTTGAAAGGTACCACGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGA
65 GGTTGAAAGATACCACGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGA
32091512 CACTATGACA
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
137 40 0.37
138 67 0.63
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (137 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATACATGAAATGAATACGACCATG
GTTGAAAGATACCACGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGATGCCATGGCA
GCATGAC
Found at i:32091829 original size:16 final size:17
Alignment explanation
Indices: 32091808--32091840 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
32091798 ATGATGGAGC
32091808 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
32091824 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
32091841 TACCTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:32100327 original size:5 final size:5
Alignment explanation
Indices: 32100304--32100389 Score: 108
Period size: 5 Copynumber: 17.6 Consensus size: 5
32100294 AGGCAACCCA
*
32100304 ATTTT -TTTT A-TTA ATTTT ATTTT ATTTT ATTTT ATTTT A-TTT ACTATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-T-TTT
*
32100353 ATTAT -TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT
32100390 GGATGTTGAT
Statistics
Matches: 71, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
4 14 0.20
5 52 0.73
6 1 0.01
7 4 0.06
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:32100354 original size:40 final size:40
Alignment explanation
Indices: 32100310--32100385 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
32100300 CCCAATTTTT
32100310 TTTATTAATTTTATTTTATTTTATTTTATTTTATTTACTA
1 TTTATTAATTTTATTTTATTTTATTTTATTTTATTTACTA
*
32100350 TTTATTATTTTTATTTTATTTTATTTTATTTTATTT
1 TTTATTAATTTTATTTTATTTTATTTTATTTTATTT
32100386 TATTGGATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (40 bp):
TTTATTAATTTTATTTTATTTTATTTTATTTTATTTACTA
Found at i:32101997 original size:10 final size:10
Alignment explanation
Indices: 32101982--32102023 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
32101972 TAGGATTTTT
32101982 TTCATTTATC
1 TTCATTTATC
32101992 TTCATTTATC
1 TTCATTTATC
*
32102002 TTTATTTAT-
1 TTCATTTATC
*
32102011 TTGTATTTATC
1 TT-CATTTATC
32102022 TT
1 TT
32102024 TTAGAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (10 bp):
TTCATTTATC
Found at i:32102775 original size:17 final size:18
Alignment explanation
Indices: 32102747--32102780 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
32102737 TATTCTCCAT
32102747 TTTAATTTTCGCAATTTA
1 TTTAATTTTCGCAATTTA
32102765 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
32102781 CAATTCGACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:32103862 original size:40 final size:38
Alignment explanation
Indices: 32103815--32103922 Score: 144
Period size: 40 Copynumber: 2.7 Consensus size: 38
32103805 TTGATATATT
*
32103815 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
32103853 ATATTTATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATA--TATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
* * *
32103893 CTATATCCGAGCTTAAAGTTCCGCAGGCTT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTT
32103923 TGAGCTAGTG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 9 0.15
39 6 0.10
40 47 0.76
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:32110599 original size:35 final size:29
Alignment explanation
Indices: 32110561--32110621 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
32110551 ATAAATGACC
*
32110561 AACTTCACCTGCACCAAAACAGTGCAAAT
1 AACTTCAACTGCACCAAAACAGTGCAAAT
32110590 AACTTCAACTGCACCAAAACAGTGCAAAT
1 AACTTCAACTGCACCAAAACAGTGCAAAT
32110619 AAC
1 AAC
32110622 CACAGTCGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.10, T:0.16
Consensus pattern (29 bp):
AACTTCAACTGCACCAAAACAGTGCAAAT
Found at i:32114262 original size:21 final size:21
Alignment explanation
Indices: 32114221--32114268 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
32114211 TAATTTAATC
*
32114221 TTTTTCTTTTATGTTCTTTTAA
1 TTTTCCTTTTATGTTCTTTT-A
*
32114243 TTTTCCTTTTTTGTTC-TTTA
1 TTTTCCTTTTATGTTCTTTTA
32114263 TTTTCC
1 TTTTCC
32114269 ATTCTCTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.29
21 3 0.12
22 14 0.58
ACGTcount: A:0.08, C:0.15, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTCCTTTTATGTTCTTTTA
Found at i:32128539 original size:75 final size:74
Alignment explanation
Indices: 32128409--32128554 Score: 220
Period size: 75 Copynumber: 2.0 Consensus size: 74
32128399 CAGTTTATAT
* * * ** *
32128409 TTTTCAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGTATACTGAGGTATTTTC
1 TTTTCAAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTC
32128474 AATTTCTAC
66 AATTTCTAC
*
32128483 TTTTCAAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTT
1 TTTTC-AAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTATTTT
32128548 CAATTTC
65 CAATTTC
32128555 CGTTTTTCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 5 0.08
75 59 0.92
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAAATCAACTCATATTACAAGAAGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTC
AATTTCTAC
Found at i:32128649 original size:89 final size:88
Alignment explanation
Indices: 32128490--32129175 Score: 866
Period size: 89 Copynumber: 7.8 Consensus size: 88
32128480 TACTTTTCAA
* * *
32128490 AAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * * *
32128555 CG-TTTTTCAGTTTATATTTTTC
66 TGTTTTTTTAATCTATATTTTTC
* * * * * *
32128577 AAAAATCAACTCATATTGCGAAATGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
*
32128642 TCTGTTTTAATT--TCTA-A-TTTTC
64 TCTGTTTT-TTTAATCTATATTTTTC
* * * * * *
32128664 AAAAAAAAGTCAACTCATATTGCGAGATGTGAGTTGAGCCT-TGGCTCACGTGTTGAGCTACTTT
1 ---AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC--GCTGAGGTATTTT
* * * *
32128728 CAATTT-T-CTTTTTTAA--TGTCTGTTT-
59 CAATTTCTGTTTTTTTAATCTATATTTTTC
32128753 -----TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
32128813 TGTTTTTTTTAATCTATATTTTTC
66 TG-TTTTTTTAATCTATATTTTTC
32128837 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
32128902 TGTTTTTTTTAATCTATATTTTTC
66 TG-TTTTTTTAATCTATATTTTTC
32128926 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
32128991 TGTTTTTTTTAATCTATATTTTTC
66 TG-TTTTTTTAATCTATATTTTTC
32129015 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
32129080 TGTTTTTTTTAATCTATATTTTTC
66 TG-TTTTTTTAATCTATATTTTTC
* **
32129104 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGG-CACGCTGAGGTAATCCCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATTTTCAATTT
*
32129168 CTGCTTTT
65 CTGTTTTT
32129176 CAAAAATCAA
Statistics
Matches: 531, Mismatches: 41, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
78 16 0.03
79 1 0.00
80 34 0.06
81 10 0.02
83 6 0.01
87 41 0.08
88 8 0.02
89 353 0.66
90 16 0.03
91 46 0.09
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTTTAATCTATATTTTTC
Found at i:32129218 original size:73 final size:73
Alignment explanation
Indices: 32129099--32129506 Score: 807
Period size: 73 Copynumber: 5.6 Consensus size: 73
32129089 TAATCTATAT
32129099 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
32129164 ATTTCTGC
66 ATTTCTGC
32129172 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
32129237 ATTTCTGC
66 ATTTCTGC
32129245 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
32129310 ATTTCTGC
66 ATTTCTGC
32129318 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
32129383 ATTTCTGC
66 ATTTCTGC
32129391 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
32129456 ATTTCTGC
66 ATTTCTGC
*
32129464 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
32129507 GGGTCACATG
Statistics
Matches: 334, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 334 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (73 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCATGGCACGCTGAGGTAATCCCA
ATTTCTGC
Found at i:32129555 original size:13 final size:14
Alignment explanation
Indices: 32129525--32129556 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
32129515 TGCTGAGTTA
*
32129525 TTTTCAAATTCTGT
1 TTTTCAAACTCTGT
32129539 TTTTCAAACTCTGT
1 TTTTCAAACTCTGT
32129553 TTTT
1 TTTT
32129557 AATTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.16, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTTCAAACTCTGT
Found at i:32129600 original size:103 final size:101
Alignment explanation
Indices: 32129463--32129658 Score: 266
Period size: 103 Copynumber: 1.9 Consensus size: 101
32129453 CCAATTTCTG
* * * ** *
32129463 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGTCACATGCTGAGTTATTT
1 CTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACATGCCAAGGTATTT
32129528 TCAAATTCTGTTTTTCAAACTCTGTTTTTAATTTTTA
66 TCAAATTCTGTTTTT-AAACTCTGTTTTTAATTTTTA
* * *
32129565 CTTTTCAAAAACTCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCGCATGCCAAGGTATT
1 CTTTTCAAAAA-TCAACTCATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACATGCCAAGGTATT
* **
32129630 TTCAATTTCTGTTTTTAATTTCTGTTTTT
65 TTCAAATTCTGTTTTTAAACTCTGTTTTT
32129659 CAAAAATCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
102 22 0.27
103 59 0.73
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (101 bp):
CTTTTCAAAAATCAACTCATATTGCAAGAAGTGAGTTAAGCCTCGGCTCACATGCCAAGGTATTT
TCAAATTCTGTTTTTAAACTCTGTTTTTAATTTTTA
Found at i:32129649 original size:13 final size:13
Alignment explanation
Indices: 32129628--32129658 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
32129618 TGCCAAGGTA
*
32129628 TTTTCAATTTCTG
1 TTTTTAATTTCTG
32129641 TTTTTAATTTCTG
1 TTTTTAATTTCTG
32129654 TTTTT
1 TTTTT
32129659 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:32129784 original size:86 final size:86
Alignment explanation
Indices: 32129566--32130126 Score: 1007
Period size: 86 Copynumber: 6.5 Consensus size: 86
32129556 TAATTTTTAC
* * * **
32129566 TTTTCAAAAACTCAACTCATATTGCAAGAAGTGAGTTGAGCCTTGGCTCGCATGCCAAGGTATTT
1 TTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTT
* *
32129631 TCAATTTCTGTTTTTAATTTC-TG
65 CCGATTTCTG-TTTTAA-TTCATG
32129654 TTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTT
1 -TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTT
32129719 CCGATTTCTGTTTTAATTCATG
65 CCGATTTCTGTTTTAATTCATG
32129741 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
32129806 CGATTTCTGTTTTAATTCATG
66 CGATTTCTGTTTTAATTCATG
32129827 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
32129892 CGATTTCTGTTTTAATTCATG
66 CGATTTCTGTTTTAATTCATG
32129913 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
32129978 CGATTTCTGTTTTAATTCATG
66 CGATTTCTGTTTTAATTCATG
32129999 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
32130064 CGATTTCTGTTTTAATTCATG
66 CGATTTCTGTTTTAATTCATG
*
32130085 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
32130127 TTTAATTTCT
Statistics
Matches: 463, Mismatches: 8, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
86 388 0.84
87 8 0.02
88 57 0.12
89 10 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (86 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTC
CGATTTCTGTTTTAATTCATG
Found at i:32132369 original size:66 final size:66
Alignment explanation
Indices: 32132263--32132393 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
32132253 TTTGACGTAA
32132263 ACCTAAACTCGACCTACTTTTTGTTTTAAAAATAAATTTATTAGGTGTCCAATCACACCTATGAA
1 ACCTAAACTCGACCTACTTTTTGTTTTAAAAATAAATTTATTAGGTGTCCAATCACACCTATGAA
32132328 G
66 G
*
32132329 ACCTAAACTCGATCTACTTTTTGTTTTAAAAATAAATTTATTAGGTGTCCAATCACACCTATGAA
1 ACCTAAACTCGACCTACTTTTTGTTTTAAAAATAAATTTATTAGGTGTCCAATCACACCTATGAA
32132394 AAGGATCGGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (66 bp):
ACCTAAACTCGACCTACTTTTTGTTTTAAAAATAAATTTATTAGGTGTCCAATCACACCTATGAA
G
Found at i:32134598 original size:17 final size:17
Alignment explanation
Indices: 32134568--32134600 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32134558 AATATTAACA
32134568 AATTAAAATATTTATTG
1 AATTAAAATATTTATTG
32134585 AATTGAAAAT-TTTATT
1 AATT-AAAATATTTATT
32134601 AGAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AATTAAAATATTTATTG
Found at i:32136240 original size:29 final size:29
Alignment explanation
Indices: 32136211--32136267 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
32136201 TTTAAATTAT
**
32136211 TTTAA-AATTTTATTAAATTATAAAAATA
1 TTTAATAATTTTAAAAAATTATAAAAATA
* *
32136239 TTTAATAGTTTTAAAAAATTATGAAAATA
1 TTTAATAATTTTAAAAAATTATAAAAATA
32136268 GTGTAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
TTTAATAATTTTAAAAAATTATAAAAATA
Found at i:32136283 original size:30 final size:29
Alignment explanation
Indices: 32136225--32136284 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
32136215 AAATTTTATT
*
32136225 AAATTATAAAAATATTTAATAGTTTTAAA
1 AAATTATAAAAATATGTAATAGTTTTAAA
* **
32136254 AAATTATGAAAATAGTGTAATTTTTTTAAA
1 AAATTATAAAAATA-TGTAATAGTTTTAAA
32136284 A
1 A
32136285 TTTACTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.42
Consensus pattern (29 bp):
AAATTATAAAAATATGTAATAGTTTTAAA
Found at i:32146825 original size:134 final size:132
Alignment explanation
Indices: 32146677--32146922 Score: 379
Period size: 134 Copynumber: 1.8 Consensus size: 132
32146667 TCAAAAGTAA
*
32146677 AAAAAAATGC-TTTTTTTAACTAACTTAAAAAAATTGATTAATTATGAAAATAAATCTTTGTAA-
1 AAAAAAATGCTTTTTTTTAACTAACTT-AAAAAATTGATTAACTATGAAAATAAATCTTTG-AAC
* * *
32146740 AAGAACGATTCGTTTTTTTTACCGTGCACACTGATGTTACCGTACCCATTGGAGGCACCACCCCT
64 AAGAACAATT--TGTTTTTTACCGTGCACACTGATGTTACCATACCCATTGGAGGCACCACCCCT
32146805 AATAAT
127 AATAAT
* *
32146811 AAAAATATGCTTTTTTTTAACTAACTTAAAAAATTGATTAACTATGAAAATGAATCTTTGAACAA
1 AAAAAAATGCTTTTTTTTAACTAACTTAAAAAATTGATTAACTATGAAAATAAATCTTTGAACAA
*
32146876 GAACAATTTGTTTTTTACCGTGCACACTGGTGTTACCATACCCATTG
66 GAACAATTTGTTTTTTACCGTGCACACTGATGTTACCATACCCATTG
32146923 TAGTTCACCA
Statistics
Matches: 103, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
132 36 0.35
133 2 0.02
134 49 0.48
135 16 0.16
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (132 bp):
AAAAAAATGCTTTTTTTTAACTAACTTAAAAAATTGATTAACTATGAAAATAAATCTTTGAACAA
GAACAATTTGTTTTTTACCGTGCACACTGATGTTACCATACCCATTGGAGGCACCACCCCTAATA
AT
Found at i:32147828 original size:41 final size:41
Alignment explanation
Indices: 32147781--32147862 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
32147771 ATTGAATATC
32147781 AAACTATAATATTTTACATTTACTTCACCCCAATATATTTT
1 AAACTATAATATTTTACATTTACTTCACCCCAATATATTTT
32147822 AAACTATAATATTTTACATTTACTTCACCCCAATATATTTT
1 AAACTATAATATTTTACATTTACTTCACCCCAATATATTTT
32147863 CCCCCCATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.44
Consensus pattern (41 bp):
AAACTATAATATTTTACATTTACTTCACCCCAATATATTTT
Found at i:32147896 original size:24 final size:22
Alignment explanation
Indices: 32147861--32147905 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
32147851 CCAATATATT
32147861 TTCCCCCCA-TTTACTTCCCCTC
1 TTCCCCCCATTTTAC-TCCCCTC
32147883 TTCCCCCCAAATTTTACTCCCCT
1 TTCCCCCC--ATTTTACTCCCCT
32147906 AACCCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 8 0.40
24 7 0.35
25 5 0.25
ACGTcount: A:0.13, C:0.51, G:0.00, T:0.36
Consensus pattern (22 bp):
TTCCCCCCATTTTACTCCCCTC
Found at i:32147967 original size:20 final size:20
Alignment explanation
Indices: 32147914--32147961 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
32147904 CTAACCCTCA
32147914 AAACTTTTTATTTTCCTCCT
1 AAACTTTTTATTTTCCTCCT
32147934 AAACTTTTTATTTTCCTCCT
1 AAACTTTTTATTTTCCTCCT
32147954 AAACTTTT
1 AAACTTTT
32147962 ACTTTTAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (20 bp):
AAACTTTTTATTTTCCTCCT
Found at i:32152413 original size:2 final size:2
Alignment explanation
Indices: 32152406--32152561 Score: 123
Period size: 2 Copynumber: 78.0 Consensus size: 2
32152396 TTAAGTCCCT
* * * *
32152406 TC TC TC TC TC TC TC TC TC TC CC CC TC AC TC TC TC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * * * * * * *
32152448 TC CC TC CC TC TC TT TC TC AC AC AC AC TC TC TC TC CC CC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * * * *
32152490 TC TC TC TC TC TC TC CC TC CC TC CC TC CC TC TC TC TC TC CC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
32152532 TC CC TC TC TC TC CC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
32152562 CCCCTTTGAT
Statistics
Matches: 124, Mismatches: 30, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 124 1.00
ACGTcount: A:0.03, C:0.59, G:0.00, T:0.38
Consensus pattern (2 bp):
TC
Found at i:32152505 original size:58 final size:58
Alignment explanation
Indices: 32152415--32152563 Score: 208
Period size: 58 Copynumber: 2.6 Consensus size: 58
32152405 TTCTCTCTCT
* * *
32152415 CTCTCTCTCTCCCCCTCACTCTCTCTCTCTCCCTCCCTCCCTCTCTTTCTCACACACA
1 CTCTCTCTCTCCCCCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCTCTCACACACA
* * * * *
32152473 CTCTCTCTCCCCCCCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCTCTCTCTCCCT
1 CTCTCTCTCTCCCCCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCTCTCACACACA
* *
32152531 CTCCCTCTCTCTCCCTCTCTCTCTCTCTCTCCC
1 CTCTCTCTCTCCCCCTCTCTCTCTCTCTCTCCC
32152564 CCTTTGATTG
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 80 1.00
ACGTcount: A:0.03, C:0.60, G:0.00, T:0.36
Consensus pattern (58 bp):
CTCTCTCTCTCCCCCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCCTCTCTCACACACA
Found at i:32152747 original size:31 final size:30
Alignment explanation
Indices: 32152693--32152752 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
32152683 ATAAAAGTTA
* *
32152693 TAAAATTATTAAATATTTAAAAAATATATT
1 TAAAATTATTAAATAATTAAAAAAAATATT
32152723 TAAAACTTATTAAA-AATTAGAAAAAAATAT
1 TAAAA-TTATTAAATAATTA-AAAAAAATAT
32152753 AAACATTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (30 bp):
TAAAATTATTAAATAATTAAAAAAAATATT
Found at i:32152755 original size:19 final size:20
Alignment explanation
Indices: 32152733--32152776 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
32152723 TAAAACTTAT
32152733 TAAAAATTAG-AAAAAAA-TA
1 TAAAAATT-GTAAAAAAATTA
*
32152752 TAAACATTGTAAAAAAATTA
1 TAAAAATTGTAAAAAAATTA
32152772 TAAAA
1 TAAAA
32152777 TCACAACCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.67
20 6 0.29
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAAAATTGTAAAAAAATTA
Found at i:32155379 original size:20 final size:19
Alignment explanation
Indices: 32155350--32155387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
32155340 TCATCAAAAT
*
32155350 ATTTTTTTTCATTTTTTTCC
1 ATTTTCTTTC-TTTTTTTCC
32155370 ATTTTCTTTCTTTTTTTC
1 ATTTTCTTTCTTTTTTTC
32155388 TCCCTCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
ATTTTCTTTCTTTTTTTCC
Found at i:32157281 original size:54 final size:54
Alignment explanation
Indices: 32157213--32158023 Score: 1613
Period size: 54 Copynumber: 15.0 Consensus size: 54
32157203 TAGATGAGAC
32157213 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157267 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157321 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157375 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157429 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157483 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157537 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157591 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157645 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157699 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157753 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157807 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157861 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32157915 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
*
32157969 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGGATATGT
1 CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
32158023 C
1 C
32158024 TTATATAAAC
Statistics
Matches: 756, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 756 1.00
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (54 bp):
CATTAGCACCACTACATTTACCACACCATGCCTTTCTATACCATTCGAATATGT
Found at i:32159542 original size:20 final size:20
Alignment explanation
Indices: 32159519--32159557 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32159509 TATTGATACT
*
32159519 TTTCTTAAGGTATCGATATA
1 TTTCCTAAGGTATCGATATA
32159539 TTTCCTAAGGTATCGATAT
1 TTTCCTAAGGTATCGATAT
32159558 TTCTACTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTCCTAAGGTATCGATATA
Found at i:32162298 original size:20 final size:21
Alignment explanation
Indices: 32162265--32162311 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
32162255 GGACTAGATT
*
32162265 GAAACAAATCAAAAAATTTAA
1 GAAACAAATCAAAAAAATTAA
*
32162286 GAAA-AAATTAAAAAAATTAA
1 GAAACAAATCAAAAAAATTAA
32162306 -AAACAA
1 GAAACAA
32162312 GGGTCACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 16 0.70
21 4 0.17
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.17
Consensus pattern (21 bp):
GAAACAAATCAAAAAAATTAA
Found at i:32163156 original size:15 final size:15
Alignment explanation
Indices: 32163136--32163165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32163126 CATTTTATTT
*
32163136 ATATTAGGATAATTA
1 ATATTAAGATAATTA
32163151 ATATTAAGATAATTA
1 ATATTAAGATAATTA
32163166 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:32163193 original size:27 final size:26
Alignment explanation
Indices: 32163132--32163194 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
32163122 ACTCCATTTT
32163132 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
32163159 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
32163187 ATTTTATT
1 ATTTTATT
32163195 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:32163209 original size:10 final size:10
Alignment explanation
Indices: 32163190--32163221 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
32163180 TTTTAGGATT
32163190 TTAT-TTTAA
1 TTATCTTTAA
32163199 TTATCTTTAA
1 TTATCTTTAA
32163209 TTATCTTTAA
1 TTATCTTTAA
32163219 TTA
1 TTA
32163222 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:32163978 original size:17 final size:18
Alignment explanation
Indices: 32163946--32163979 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
32163936 TACTCCTCAT
32163946 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
32163964 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
32163980 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:32164154 original size:12 final size:12
Alignment explanation
Indices: 32164137--32164182 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
32164127 CCTACTTCCC
32164137 CTTTACTATTAT
1 CTTTACTATTAT
32164149 CTTTACTATTAT
1 CTTTACTATTAT
*
32164161 TTTTACTATTAT
1 CTTTACTATTAT
*
32164173 TTTTACTATT
1 CTTTACTATT
32164183 TTACAGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (12 bp):
CTTTACTATTAT
Found at i:32167652 original size:41 final size:41
Alignment explanation
Indices: 32167584--32167661 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
32167574 AAGTGTTGTA
* *
32167584 GCTACTTTGAATCGATTGTTTGATGTTTAAATCGATTCATT
1 GCTACTTTGAATCAATTGTTTCATGTTTAAATCGATTCATT
* * * *
32167625 GCTATTTTGAATCAATTTTTTCTTGTTTAAATTGATT
1 GCTACTTTGAATCAATTGTTTCATGTTTAAATCGATT
32167662 TTAAATTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.51
Consensus pattern (41 bp):
GCTACTTTGAATCAATTGTTTCATGTTTAAATCGATTCATT
Found at i:32180570 original size:22 final size:22
Alignment explanation
Indices: 32180539--32180589 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
32180529 AAATTTATAG
*
32180539 ATATTGTAGGAATATTCTGTAA
1 ATATTTTAGGAATATTCTGTAA
* *
32180561 ATATTTTAGGAATATTTTGTAG
1 ATATTTTAGGAATATTCTGTAA
32180583 ATATTTT
1 ATATTTT
32180590 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
ATATTTTAGGAATATTCTGTAA
Found at i:32190746 original size:2 final size:2
Alignment explanation
Indices: 32190739--32190767 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32190729 TCGCATAAGT
32190739 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32190768 TTTAAACAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32211808 original size:40 final size:40
Alignment explanation
Indices: 32211753--32212650 Score: 1737
Period size: 40 Copynumber: 22.5 Consensus size: 40
32211743 CGGATGATAA
32211753 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211833 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211873 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211913 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211953 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32211993 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212033 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212073 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212113 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212153 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212193 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212233 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212273 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212313 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212353 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212393 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212433 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212473 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212513 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
32212553 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
32212593 CCGGGCTAAGTCCCGAAGGCAGTTGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
32212633 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
32212651 TACTTGGTTT
Statistics
Matches: 853, Mismatches: 4, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
39 17 0.02
40 836 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:32219126 original size:18 final size:18
Alignment explanation
Indices: 32219105--32219142 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32219095 TCATTATCAC
**
32219105 AAAGTTATTCTCTTTCAA
1 AAAGTTATTAACTTTCAA
32219123 AAAGTTATTAACTTTCAA
1 AAAGTTATTAACTTTCAA
32219141 AA
1 AA
32219143 CGTCACTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (18 bp):
AAAGTTATTAACTTTCAA
Found at i:32221422 original size:13 final size:13
Alignment explanation
Indices: 32221400--32221430 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
32221390 GGGTTTATTC
32221400 ATTTAAAAACAAA
1 ATTTAAAAACAAA
*
32221413 ATTTAGAAACAAA
1 ATTTAAAAACAAA
32221426 ATTTA
1 ATTTA
32221431 CCCAAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (13 bp):
ATTTAAAAACAAA
Found at i:32227164 original size:23 final size:23
Alignment explanation
Indices: 32227111--32227164 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
32227101 CTACAGAATC
*
32227111 TTACTGTTGTTGCCAGGGAATAT
1 TTACTGTTGTTGCCAGAGAATAT
*
32227134 TTATTGTT-TTCGCCAGAGAATAT
1 TTACTGTTGTT-GCCAGAGAATAT
*
32227157 TTCCTGTT
1 TTACTGTT
32227165 CACTCGCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.44
Consensus pattern (23 bp):
TTACTGTTGTTGCCAGAGAATAT
Found at i:32230111 original size:35 final size:33
Alignment explanation
Indices: 32230072--32230166 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 33
32230062 TGGAATAATT
32230072 AAATGTGGTTTGTTTGTATGTTATAA-AGATGTCCC
1 AAATGTGG-TTGTTTGTATGTTATAATA-ATGT-CC
* *
32230107 AAATGTGGTTGTTTTTACATGTTATAATATTGTCC
1 AAATGTGGTTGTTTGT--ATGTTATAATAATGTCC
*
32230142 AAATGTGATTGTTTGTATGTT-TAAT
1 AAATGTGGTTGTTTGTATGTTATAAT
32230167 TTCATGTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
32 4 0.08
33 5 0.09
34 7 0.13
35 24 0.45
36 12 0.23
37 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.47
Consensus pattern (33 bp):
AAATGTGGTTGTTTGTATGTTATAATAATGTCC
Found at i:32230289 original size:79 final size:79
Alignment explanation
Indices: 32230158--32230474 Score: 618
Period size: 79 Copynumber: 4.0 Consensus size: 79
32230148 GATTGTTTGT
32230158 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
1 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
32230223 TAATTGAGTTTTAA
66 TAATTGAGTTTTAA
32230237 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
1 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
32230302 TAATTGAGTTTTAA
66 TAATTGAGTTTTAA
32230316 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
1 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
32230381 TAATTGAGTTTTAA
66 TAATTGAGTTTTAA
*
32230395 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTCGACTAGTATTCATGCCT
1 ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
32230460 TAATTGAG-TTTAA
66 TAATTGAGTTTTAA
32230473 AT
1 AT
32230475 TTATGTCCCA
Statistics
Matches: 237, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
78 7 0.03
79 230 0.97
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.45
Consensus pattern (79 bp):
ATGTTTAATTTCATGTCCAAATTTGGATAATTCTATGTAATTTGGTTGGACTAGTATTCATGCCT
TAATTGAGTTTTAA
Found at i:32237377 original size:19 final size:19
Alignment explanation
Indices: 32237346--32237389 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
32237336 TAAAAATAGG
32237346 TAAATAATATTTT-GAAAAA
1 TAAA-AATATTTTAGAAAAA
32237365 TAAAAATATTTTTAGAAAAA
1 TAAAAATA-TTTTAGAAAAA
32237385 TAAAA
1 TAAAA
32237390 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 11 0.48
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (19 bp):
TAAAAATATTTTAGAAAAA
Found at i:32237504 original size:17 final size:18
Alignment explanation
Indices: 32237462--32237506 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
32237452 AAAATAGGGG
32237462 TTTAGAGTTAGGCACATGA
1 TTTAGAGTTAGGCACA-GA
*
32237481 ATT--AGTTAGGCAC-GA
1 TTTAGAGTTAGGCACAGA
32237496 TTTAGAGTTAG
1 TTTAGAGTTAG
32237507 CTGCAGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
15 4 0.18
17 16 0.73
19 2 0.09
ACGTcount: A:0.31, C:0.09, G:0.27, T:0.33
Consensus pattern (18 bp):
TTTAGAGTTAGGCACAGA
Found at i:32238671 original size:42 final size:43
Alignment explanation
Indices: 32238594--32238686 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
32238584 TCTTGGACGT
* * * * * *
32238594 GGTCTTACATGTAATTCAGTTTCGATGCCTCTGTCCTAGACAG
1 GGTCTTACATGAAATTCAGATACGATGCCTATGTCCCAAACAG
*
32238637 GGTCTTACATGAAATT-AGATACGATGCCTATGTCCCAAACAT
1 GGTCTTACATGAAATTCAGATACGATGCCTATGTCCCAAACAG
32238679 GGTCTTAC
1 GGTCTTAC
32238687 TCGTAAATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (43 bp):
GGTCTTACATGAAATTCAGATACGATGCCTATGTCCCAAACAG
Found at i:32240696 original size:20 final size:21
Alignment explanation
Indices: 32240663--32240702 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
32240653 AATGGAATAG
32240663 ATTTTAGCAAAATTA-AACAC
1 ATTTTAGCAAAATTATAACAC
32240683 ATTTT-GCAACAATTATAACA
1 ATTTTAGCAA-AATTATAACA
32240703 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTTTAGCAAAATTATAACAC
Found at i:32242432 original size:23 final size:23
Alignment explanation
Indices: 32242406--32242505 Score: 101
Period size: 24 Copynumber: 4.3 Consensus size: 23
32242396 AAGCTCTATT
*
32242406 GAGCTGAAATAGTAAGCTCCTAC
1 GAGCTGAAACAGTAAGCTCCTAC
* *
32242429 GAGCTGAAACAGTAAACTCATAC
1 GAGCTGAAACAGTAAGCTCCTAC
* * *
32242452 GAGCTGAGAACAATAAGCTCCAAT
1 GAGCTGA-AACAGTAAGCTCCTAC
* * *
32242476 GAGCTAAAAACAGTAAGCTCTTAA
1 GAGCT-GAAACAGTAAGCTCCTAC
32242500 GAGCTG
1 GAGCTG
32242506 TGGTGAGTCC
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
23 27 0.44
24 33 0.54
25 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCCTAC
Done.