Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 189 of 444
Found at i:52826537 original size:79 final size:81
Alignment explanation
Indices: 52826426--52826609 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
52826416 GCTACTCGTT
* * * * *
52826426 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCATAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAAT-ACTTC-GGATCTTAACCC
* *
52826489 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
**
52826506 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAAATCGCACAAATACTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATACTTCGGATCTTAACCCGG
*
52826569 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
52826585 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52826610 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.03
78 29 0.32
79 43 0.48
80 15 0.17
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAATCGCACAAATACTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:52834097 original size:20 final size:20
Alignment explanation
Indices: 52834074--52834119 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52834064 GTGGTCATAC
*
52834074 ACACGCCCATGTGGCTTGGG
1 ACACGCCCACGTGGCTTGGG
* *
52834094 ACACACCCGCGTGGCTTGGG
1 ACACGCCCACGTGGCTTGGG
52834114 ACACGC
1 ACACGC
52834120 TCGTGTACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGCCCACGTGGCTTGGG
Found at i:52837310 original size:58 final size:58
Alignment explanation
Indices: 52837236--52837458 Score: 179
Period size: 58 Copynumber: 3.9 Consensus size: 58
52837226 TACGGTGACG
* *
52837236 AGAT-TGGCACTAAGTGTGCATGCTGAAAATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGA-GCTCGAA
* * **
52837293 ATATATGGCACTAAGTGTGCATGCTGGAAATATACGGCACTGGGTGTGCGAGCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
* * ** * * * * * *
52837351 GGGTATGGCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-A
1 AGATATGGCACTAAGTGTGCATGCTGAAAA-TATACGGCACTAAGTGTGCGAGCTCGAA
** * *
52837409 TTATATAGCACTAAGTGTGCGA-GTTGAATACATATA--GCACTAAGTGTGCG
1 AGATATGGCACTAAGTGTGC-ATGCTGAA-A-ATATACGGCACTAAGTGTGCG
52837459 GATTCACTAT
Statistics
Matches: 133, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
57 17 0.13
58 90 0.68
59 25 0.19
60 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGAAAATATACGGCACTAAGTGTGCGAGCTCGAA
Found at i:52837371 original size:29 final size:29
Alignment explanation
Indices: 52837240--52837370 Score: 174
Period size: 29 Copynumber: 4.5 Consensus size: 29
52837230 GTGACGAGAT
*
52837240 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52837269 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
52837298 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
52837327 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
52837356 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
52837371 GGGTTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
29 89 0.99
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:52837427 original size:28 final size:28
Alignment explanation
Indices: 52837358--52837458 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52837348 GAAGGGTATG
* * * *
52837358 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
52837388 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52837416 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
52837445 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52837459 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52838952 original size:46 final size:45
Alignment explanation
Indices: 52838859--52838944 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
52838849 TACATCTCAC
* *
52838859 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
52838905 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
52838945 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:52841362 original size:48 final size:48
Alignment explanation
Indices: 52841299--52841434 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
52841289 CATTTGGGTG
* *
52841299 ATGTGTGCTACTGTAAGACCATATCTGGGACATGGCATCGGCGTTGAT
1 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
* *
52841347 ATGTGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGTCGTTGAT
1 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
52841395 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
52841435 ACCACATTCT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (48 bp):
ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGAT
Found at i:52841457 original size:48 final size:48
Alignment explanation
Indices: 52841305--52841482 Score: 171
Period size: 48 Copynumber: 3.7 Consensus size: 48
52841295 GGTGATGTGT
* * * *** * *
52841305 GCTACTGTAAGACCATATCTGGGACATGGCATCGGCGTTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
* * *** * *
52841353 GTTAGTGTAAGACCATGTCTGGGACATGGCATCGTCGTTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
*
52841401 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGAC-CACATTCTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACA-TATGAGA
*
52841449 GCCT-GTGTAAGACCATGTCTGGGACAAGGCATCG
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCG
52841483 GCAATTTACC
Statistics
Matches: 115, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 1 0.01
48 112 0.97
49 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACGCACATATGAGA
Found at i:52841862 original size:29 final size:29
Alignment explanation
Indices: 52841819--52841896 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
52841809 ACAAGGGATT
*
52841819 TCACACGGCCGAGCACACGCCCATGTCCC
1 TCACACGGCCCAGCACACGCCCATGTCCC
* *
52841848 TCACACGGCCCAGCACATGCCCGTGTCCC
1 TCACACGGCCCAGCACACGCCCATGTCCC
* *
52841877 TCACAGGGCCTAG-ACACGCC
1 TCACACGGCCCAGCACACGCC
52841897 TGTGTCATCG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 6 0.14
29 37 0.86
ACGTcount: A:0.21, C:0.46, G:0.22, T:0.12
Consensus pattern (29 bp):
TCACACGGCCCAGCACACGCCCATGTCCC
Found at i:52845515 original size:45 final size:45
Alignment explanation
Indices: 52845450--52845579 Score: 190
Period size: 45 Copynumber: 2.9 Consensus size: 45
52845440 TGTAAGGTAT
* *
52845450 TATTCGGGCCTTTGAGCCTAGCAGGCTGTGATGCTAG-TGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGC-AGATGAGATAC
* * *
52845495 TATTCAGGCCTTTGAACCTAGCAGGCTATAATGCCGATGAGATAC
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGATGAGATAC
*
52845540 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGA
1 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGATGA
52845580 AATGATATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 1 0.01
45 76 0.99
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (45 bp):
TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCAGATGAGATAC
Found at i:52851330 original size:105 final size:104
Alignment explanation
Indices: 52851149--52851359 Score: 386
Period size: 105 Copynumber: 2.0 Consensus size: 104
52851139 ACTTTTACAA
*
52851149 TTAGGTCCAACTATCTAATTCATTAGTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAATA
1 TTAGGTCAAACTATCTAATTCATTAGTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAATA
*
52851214 CATGCTGTATTATTATGGTGAATTATTATGGAATTGAAG
66 CATGCTATATTATTATGGTGAATTATTATGGAATTGAAG
52851253 TTAGGTCAAACTATCTAATTCATTAGTTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
1 TTAGGTCAAACTATCTAATTCATTAG-TTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAAT
*
52851318 ACGTGCTATATTATTATGGTGAATTATTATGGAATTGAAG
65 ACATGCTATATTATTATGGTGAATTATTATGGAATTGAAG
52851358 TT
1 TT
52851360 CTTATTTTAT
Statistics
Matches: 103, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
104 25 0.24
105 78 0.76
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (104 bp):
TTAGGTCAAACTATCTAATTCATTAGTTTTGATTTTATGGGTGACTTTAAAAGTTACCATGAATA
CATGCTATATTATTATGGTGAATTATTATGGAATTGAAG
Found at i:52852140 original size:54 final size:54
Alignment explanation
Indices: 52851967--52852120 Score: 247
Period size: 54 Copynumber: 2.9 Consensus size: 54
52851957 CCATGGCAAC
*
52851967 ATGTGAT-ATGTGATTTTCGTATAAGACCATAGCTGGGCTAGGGCATCGGTGTG
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* *
52852020 ATGTGATCATGTGATTTCCGTATAAGACCGTAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * *
52852074 ACGTGATCATGTGATTTTCGTATAATACCATAGCTTGGCTATGGCAT
1 ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCAT
52852121 TGGAGAGATG
Statistics
Matches: 92, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
53 7 0.08
54 85 0.92
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (54 bp):
ATGTGATCATGTGATTTTCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:52852206 original size:47 final size:47
Alignment explanation
Indices: 52852135--52852234 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
52852125 GAGATGTAAT
*
52852135 TATGTGCTTCTATATAAGAACATATCTAGGATATGGCATCAATGTCA
1 TATGTGCTACTATATAAGAACATATCTAGGATATGGCATCAATGTCA
* * * *
52852182 TATGTGCTACTATATAAGACCATATCTGGGATATGGCATCAGTGTGA
1 TATGTGCTACTATATAAGAACATATCTAGGATATGGCATCAATGTCA
52852229 TATGTG
1 TATGTG
52852235 ATCCGTGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (47 bp):
TATGTGCTACTATATAAGAACATATCTAGGATATGGCATCAATGTCA
Found at i:52857557 original size:46 final size:46
Alignment explanation
Indices: 52857502--52857682 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
52857492 CTAGGATGGT
52857502 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
52857548 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
52857594 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
52857641 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52857683 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:52857663 original size:93 final size:93
Alignment explanation
Indices: 52857504--52857674 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52857494 AGGATGGTGA
* *
52857504 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52857569 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
52857597 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
52857662 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52857675 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52860679 original size:15 final size:15
Alignment explanation
Indices: 52860640--52860718 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
52860630 GTATCTTGGG
*
52860640 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
52860655 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
52860670 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
52860684 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
52860699 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
52860713 TTTCTT
1 TTTCTT
52860719 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:52860703 original size:29 final size:29
Alignment explanation
Indices: 52860631--52860717 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
52860621 CATAGTATCG
* * * *
52860631 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
52860661 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
52860690 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
52860718 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:52863123 original size:46 final size:46
Alignment explanation
Indices: 52863073--52863248 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
52863063 GATGTTGGCA
52863073 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
52863119 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
52863166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
52863212 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52863249 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:52863228 original size:93 final size:93
Alignment explanation
Indices: 52863069--52863240 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
52863059 CTAGGATGTT
* *
52863069 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52863134 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
52863162 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
52863227 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
52863241 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:52864617 original size:40 final size:40
Alignment explanation
Indices: 52864572--52864701 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
52864562 CGGAATACAA
52864572 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
52864612 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
52864652 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
52864692 CCAGATATAA
1 CCGGATATAA
52864702 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52872734 original size:40 final size:40
Alignment explanation
Indices: 52872689--52872818 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52872679 CGGAATACAA
52872689 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
52872729 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
52872769 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
52872809 CCGGATATAA
1 CCGGATATAA
52872819 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:52876929 original size:20 final size:20
Alignment explanation
Indices: 52876892--52876930 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
52876882 GAAGTTTATA
*
52876892 AAATAGATTGTAAATGTGTG
1 AAATAGATTGAAAATGTGTG
52876912 AAATA-ATTGAAAAT-TGTG
1 AAATAGATTGAAAATGTGTG
52876930 A
1 A
52876931 GTTGCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (20 bp):
AAATAGATTGAAAATGTGTG
Found at i:52879477 original size:30 final size:30
Alignment explanation
Indices: 52879441--52879571 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
52879431 GACAAGATTG
* * * * *
52879441 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
52879471 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
52879499 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52879529 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52879558 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52879572 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:52879532 original size:58 final size:58
Alignment explanation
Indices: 52879441--52879571 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
52879431 GACAAGATTG
* * * * * *
52879441 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
52879499 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
52879558 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52879572 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:52887426 original size:30 final size:30
Alignment explanation
Indices: 52887390--52887520 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
52887380 GACAAGATTG
* * * * *
52887390 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
52887420 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
52887448 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52887478 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
52887507 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52887521 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:52887481 original size:58 final size:58
Alignment explanation
Indices: 52887390--52887520 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
52887380 GACAAGATTG
* * * * * *
52887390 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
52887448 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
52887507 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
52887521 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:52896365 original size:47 final size:48
Alignment explanation
Indices: 52896288--52896412 Score: 180
Period size: 47 Copynumber: 2.6 Consensus size: 48
52896278 TATGTGTGCT
* **
52896288 AGTGTAAGACCATGTGTGGGACATGGCATCAGCCACATTACGAGGGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAAAGCC
* *
52896336 AGTGTAAG-CCATGTCTGGGACATGGCATCAGCCACATTATGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAAAGCC
* *
52896383 AGTGTAAGACCATGTCTAGGATATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
52896413 GACAATTCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
47 42 0.61
48 27 0.39
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTACGAAAGCC
Found at i:52902603 original size:48 final size:48
Alignment explanation
Indices: 52902512--52902676 Score: 181
Period size: 48 Copynumber: 3.4 Consensus size: 48
52902502 GATTGGATAT
* * * * *
52902512 CCATGTCTGGGACATAGCATCGGCTACATTATGAAAGCCAGTGTAAGA
1 CCATGTCTAGGACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGA
* * ** * * *
52902560 CCATGTCTTGGACATGGCATCGTCGTTGA-TATGTA-TGCTAGTGTAAAA
1 CCATGTCTAGGACATGGCATCGGCCAT-ATTATG-AGAGCCAGTGTAAGA
*
52902608 CCATGTCTGGGACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGA
1 CCATGTCTAGGACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGA
52902656 CCATGTCTAGGACATGGCATC
1 CCATGTCTAGGACATGGCATC
52902677 AGCAATTTAC
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.02
48 92 0.96
49 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (48 bp):
CCATGTCTAGGACATGGCATCGGCCATATTATGAGAGCCAGTGTAAGA
Found at i:52904400 original size:42 final size:43
Alignment explanation
Indices: 52904342--52904463 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
52904332 TTCTGTTTTG
*
52904342 CATGTAAGACCATGTCTGGGACATTGGCATTG-TATCTGATTT
1 CATGTAAGACCATGTCTGGGACATTGGCATTGATATCTGATTA
** * * * * * *
52904384 TGTGTAAGACCCTGTCTGAGACAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGGGACATTGGCATTGATATCTGATTA
* *
52904427 CATGTAAGACCATGTCTGGGACGTTCGCATTGCATAT
1 CATGTAAGACCATGTCTGGGACATTGGCATTG-ATAT
52904464 GCTTTACAAG
Statistics
Matches: 60, Mismatches: 18, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
42 26 0.43
43 31 0.52
44 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACATTGGCATTGATATCTGATTA
Found at i:52904436 original size:43 final size:42
Alignment explanation
Indices: 52904342--52904444 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
52904332 TTCTGTTTTG
* * * *
52904342 CATGTAAGACCATGTCTGGGACATTGGCATTGTATCTGATTT
1 CATGTAAGACCATGTCTGAGACAGTGGCATCGTATCTGATTA
** * * *
52904384 TGTGTAAGACCCTGTCTGAGACAGTGGCATCGATGTTTGATTA
1 CATGTAAGACCATGTCTGAGACAGTGGCATCG-TATCTGATTA
52904427 CATGTAAGACCATGTCTG
1 CATGTAAGACCATGTCTG
52904445 GGACGTTCGC
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
42 26 0.54
43 22 0.46
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGAGACAGTGGCATCGTATCTGATTA
Found at i:52910777 original size:6 final size:6
Alignment explanation
Indices: 52910768--52910871 Score: 61
Period size: 6 Copynumber: 16.8 Consensus size: 6
52910758 AACCAAAATG
* * *
52910768 AGAATC AGAATC AGAATC AG-GTGAC AAAATC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * * *
52910817 GGAATT AG-GTGAC AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATT
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
52910867 AGAAT
1 AGAAT
52910872 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
5 4 0.05
6 62 0.82
7 7 0.09
8 3 0.04
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:52910809 original size:37 final size:37
Alignment explanation
Indices: 52910768--52910862 Score: 120
Period size: 37 Copynumber: 2.5 Consensus size: 37
52910758 AACCAAAATG
52910768 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATC
** * *
52910805 AGAATCAGAATTGGAATTAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATC
*
52910842 AGTATCAGGTAA-CAGAATCAG
1 AGAATCA-G-AATCAGAATCAG
52910863 AATTAGAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
37 39 0.81
38 7 0.15
39 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAAAATCAGAATC
Found at i:52910832 original size:25 final size:25
Alignment explanation
Indices: 52910804--52910871 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
52910794 AAATCAGAAT
* * *
52910804 CAGAATCAGAATTGGAATTAGGTGA
1 CAGAATCAGAATTAGAATCAGGTAA
* *
52910829 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATTAGAATCAGGTAA
52910854 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATTAGAAT
52910872 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
CAGAATCAGAATTAGAATCAGGTAA
Found at i:52910864 original size:31 final size:31
Alignment explanation
Indices: 52910768--52910871 Score: 97
Period size: 31 Copynumber: 3.4 Consensus size: 31
52910758 AACCAAAATG
* *
52910768 AGAATCAGAATCAGAATCAGGTGACAAAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* * *
52910799 AGAATCAGAATCAGAAT-TGG-AATTAG-GTGAC
1 AGAATCAGAATCAGAATCAGGTAA-CAGAAT--C
*
52910830 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
52910861 AGAATTAGAAT
1 AGAATCAGAAT
52910872 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
29 2 0.04
30 3 0.05
31 45 0.79
32 4 0.07
33 3 0.05
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:52911026 original size:27 final size:26
Alignment explanation
Indices: 52910989--52911096 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 26
52910979 AGCATGGCTG
* *
52910989 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAAATATTGTGGCAGAGCCA
52911015 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAAATATTGTGGCAGAGCCA
* *
52911042 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAAATA-TTGTGGCAGAGCCA
* * *
52911069 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAAATATTGTGGCAGAGCCA
52911096 C
1 C
52911097 TTAACAGAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 11 0.15
27 56 0.77
28 6 0.08
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (26 bp):
CCAGAACAAATATTGTGGCAGAGCCA
Found at i:52911708 original size:27 final size:27
Alignment explanation
Indices: 52911661--52911963 Score: 358
Period size: 27 Copynumber: 11.2 Consensus size: 27
52911651 GGGCAAAATT
* * * *
52911661 GTAATTTTACCCCAC-GAGGGTATCTCG
1 GTAATTCTACCCTACAG-GGGTATTTCA
** *
52911688 GTAATTCTAGACTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52911715 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52911742 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52911769 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
52911796 GTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
52911823 ATAATTCTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
52911849 GATAATTCTACCTTATAGGGGTATTTTA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
52911877 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * * *
52911904 GTAATTCTACCTTATAAGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
52911931 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
52911958 ATAATT
1 GTAATT
52911964 TTTTAAATCG
Statistics
Matches: 232, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
27 230 0.99
28 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:52911963 original size:54 final size:54
Alignment explanation
Indices: 52911661--52911956 Score: 434
Period size: 54 Copynumber: 5.5 Consensus size: 54
52911651 GGGCAAAATT
* * * *
52911661 GTAATTTTACCCCAC-GAGGGTATCTCGGTAATTCTAGAC-TACAGGGGTATTTTA
1 GTAATTCTACCCTACAG-GGGTATTTCGGTAATTCTA-CCTTACAGGGGTATTTTA
*
52911715 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* *
52911769 GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * * *
52911823 ATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
* * *
52911877 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAAGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
52911931 GTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCTACAGGGGTATTTC
52911957 AATAATTTTT
Statistics
Matches: 221, Mismatches: 19, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
53 1 0.00
54 219 0.99
55 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGGGGTATTTTA
Found at i:52912016 original size:27 final size:27
Alignment explanation
Indices: 52911959--52912078 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
52911949 GGTATTTCAA
* * *** *
52911959 TAATTTTTTAAATCGAGGGTAAAATGA
1 TAATTTTGTAAATCGGGGGTATTTTGG
* *
52911986 TAATTCTGTAAATCGGGGGTACTTTGG
1 TAATTTTGTAAATCGGGGGTATTTTGG
** *
52912013 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTGTAAATC-GGGGGTATTTTGG
* *
52912040 TAATTTTGTTAATCGAGGGTATTTTGG
1 TAATTTTGTAAATCGGGGGTATTTTGG
52912067 TAATTTTGTAAA
1 TAATTTTGTAAA
52912079 CCAAGGGTAT
Statistics
Matches: 73, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
26 1 0.01
27 71 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.42
Consensus pattern (27 bp):
TAATTTTGTAAATCGGGGGTATTTTGG
Found at i:52912085 original size:27 final size:27
Alignment explanation
Indices: 52912002--52912090 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
52911992 TGTAAATCGG
* ** * *
52912002 GGGTACTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
* * *
52912029 GGGTATTTTGGTAATTTTGTTAATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
52912056 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
52912083 GGGTATTT
1 GGGTATTT
52912091 CAGTATTTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:52912087 original size:54 final size:54
Alignment explanation
Indices: 52911986--52912090 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
52911976 GGTAAAATGA
* * *
52911986 TAATTCTGTAAATCGGGGGTACTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* * * **
52912040 TAATTTTGTTAATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 TAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTT
52912091 CAGTATTTTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.42
Consensus pattern (54 bp):
TAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAACCAAGGGTATTTTGG
Found at i:52912104 original size:27 final size:27
Alignment explanation
Indices: 52912029--52912106 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
52912019 TACAAACTAG
** * * *
52912029 GGGTATTTTGGTAATTTTGTTAATCGA
1 GGGTATTTCAGTAATTTTGTAAACCAA
**
52912056 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTGTAAACCAA
52912083 GGGTATTTCAGT-ATTTTGGTAAAC
1 GGGTATTTCAGTAATTTT-GTAAAC
52912107 TAAAGTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
26 5 0.11
27 40 0.89
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.44
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAACCAA
Found at i:52916795 original size:30 final size:30
Alignment explanation
Indices: 52916748--52916807 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52916738 TTCCTGAGCC
52916748 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
52916778 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
52916808 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:52917980 original size:16 final size:15
Alignment explanation
Indices: 52917942--52917980 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
52917932 TGGATTCTCA
*
52917942 TATCATGGATTTCTT
1 TATCTTGGATTTCTT
52917957 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
52917972 TATTCTTGG
1 TA-TCTTGG
52917981 CTTCTCTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.56
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:52918680 original size:30 final size:30
Alignment explanation
Indices: 52918633--52918692 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52918623 TTCCTGAGCC
52918633 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
52918663 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
52918693 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:52919581 original size:99 final size:100
Alignment explanation
Indices: 52919346--52919583 Score: 318
Period size: 99 Copynumber: 2.4 Consensus size: 100
52919336 TGAGGTCACG
* * *
52919346 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCTTGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACGTGTGTAGTACTAAGTG
* * *
52919411 CAAGCTACTATGCGTACCTGATAACTTCGATCGCG
66 CAAGCTACTACGCGTACCAGATAACTTCGATCGCA
* **
52919446 TGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATT-GGTCACGTGTGTAGTACTAAGT
* * * *
52919511 GCAGGGTACTACGTGTACCAGATAA-TT-GGTCGCA
65 GCAAGCTACTACGCGTACCAGATAACTTCGATCGCA
* *
52919545 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATA
52919584 GCTTCGTCTA
Statistics
Matches: 120, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 40 0.33
100 40 0.33
101 40 0.33
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAATTGGTCACGTGTGTAGTACTAAGTG
CAAGCTACTACGCGTACCAGATAACTTCGATCGCA
Found at i:52919583 original size:49 final size:50
Alignment explanation
Indices: 52919338--52919570 Score: 308
Period size: 49 Copynumber: 4.7 Consensus size: 50
52919328 AGCTATTGTG
*
52919338 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
52919388 -GGTCGCTTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTT
1 AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
52919438 CGATCGCGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
52919488 AGGTCACGTGTGTAGTACTAAGTGCAGGGTACTACGTGTACCAGATAATT
1 AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
52919538 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTA
52919571 TGCGTATCAG
Statistics
Matches: 154, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 46 0.30
51 37 0.24
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
AGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:52925024 original size:9 final size:9
Alignment explanation
Indices: 52925010--52925037 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
52925000 TAGCAAGATG
52925010 GTTAAAGAA
1 GTTAAAGAA
52925019 GTTAAAGAA
1 GTTAAAGAA
52925028 GTTAAAGAA
1 GTTAAAGAA
52925037 G
1 G
52925038 GAGAATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (9 bp):
GTTAAAGAA
Found at i:52931542 original size:27 final size:27
Alignment explanation
Indices: 52931512--52931590 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
52931502 CTCAACGAGT
52931512 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
* **
52931539 TCGGA---CTCA---AC-TC-AACGAGT
1 TCGGATGCCT-AGTTACATCTCACGAAC
52931559 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
52931586 TCGGA
1 TCGGA
52931591 CTCAACTCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 18
0.61 0.10 0.30
Matches are distributed among these distances:
20 9 0.24
21 2 0.05
22 3 0.08
23 2 0.05
24 2 0.05
25 3 0.08
26 2 0.05
27 14 0.38
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:52931556 original size:47 final size:47
Alignment explanation
Indices: 52931488--52931613 Score: 252
Period size: 47 Copynumber: 2.7 Consensus size: 47
52931478 ATCCATAAGT
52931488 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
52931535 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
52931582 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
52931614 TCAACCATCC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52935061 original size:39 final size:40
Alignment explanation
Indices: 52935017--52935182 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
52935007 CGGAATATAA
52935017 CCGGAT-TAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
52935056 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
52935096 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
52935136 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
52935175 CCGGATAT
1 CCGGATAT
52935183 CATTCAATTT
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
39 20 0.19
40 85 0.81
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:52937252 original size:30 final size:30
Alignment explanation
Indices: 52937208--52937296 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
52937198 CAAAGATAAC
*
52937208 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
52937237 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
52937267 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
52937297 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:52937256 original size:15 final size:14
Alignment explanation
Indices: 52937208--52937290 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
52937198 CAAAGATAAC
*
52937208 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
52937222 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
52937237 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
52937252 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
52937267 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
52937282 AAGAAACCC
1 AAGAAACCC
52937291 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:52937296 original size:15 final size:15
Alignment explanation
Indices: 52937219--52937296 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
52937209 AGAAAACCGA
52937219 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
52937234 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
52937248 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52937263 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52937279 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52937294 ATA
1 ATA
52937297 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52946308 original size:190 final size:190
Alignment explanation
Indices: 52945979--52946359 Score: 663
Period size: 190 Copynumber: 2.0 Consensus size: 190
52945969 AAGTGGGGAA
* *
52945979 TAGCTTAACCCACCCAGCCCTACACTCCACAGTTACAACATAGCTTCTCAAATATCAGTAAGTTA
1 TAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATAGCTGCTCAAATATCAGTAAGTTA
* * *
52946044 AGGCAAAGCCTCCAGTACGTGGTCAAGCCACTATCAGTACTTCCTCCATCAATAAGCCAGTTCCA
66 AGGCAAAGCCTCCAGTACGTGGTCAAGCAACTATCAGTACTTCCTCCATCAATAACCCAGTCCCA
* *
52946109 TGCATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAGACATGCATTCAGG
131 TGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAACATGCATTCAGG
* * * *
52946169 TAGCTCAACCCACCCATCCCTACACTCCACAGTTGCAGCATAGCTGCTCAGATATCAGTAAGTTA
1 TAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATAGCTGCTCAAATATCAGTAAGTTA
52946234 AGGCAAAGCCTCCAGTACGTGGTCAAGCAACTATCAGTACTTCCTCCATCAATAACCCAGTCCCA
66 AGGCAAAGCCTCCAGTACGTGGTCAAGCAACTATCAGTACTTCCTCCATCAATAACCCAGTCCCA
52946299 TGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAACATGCATTCAGG
131 TGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAACATGCATTCAGG
52946359 T
1 T
52946360 CAACCTTAGC
Statistics
Matches: 180, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 180 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (190 bp):
TAGCTCAACCCACCCAGCCCTACACTCCACAGTTACAACATAGCTGCTCAAATATCAGTAAGTTA
AGGCAAAGCCTCCAGTACGTGGTCAAGCAACTATCAGTACTTCCTCCATCAATAACCCAGTCCCA
TGCATCAGATAATAATAACATGGCATGTAATAAATAGTAACAGTCAAACATGCATTCAGG
Found at i:52951839 original size:93 final size:93
Alignment explanation
Indices: 52951727--52951897 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52951717 GCCCATAAGT
* *
52951727 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52951792 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52951820 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52951885 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52951898 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52951913 original size:46 final size:46
Alignment explanation
Indices: 52951719--52951899 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
52951709 TGTAACCCGC
* * *
52951719 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52951765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52951815 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
52951858 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
52951900 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52954318 original size:30 final size:30
Alignment explanation
Indices: 52954274--52954362 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
52954264 CAAAGATAAC
52954274 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
52954303 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
52954333 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
52954363 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:52954322 original size:15 final size:15
Alignment explanation
Indices: 52954274--52954353 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
52954264 CAAAGATAAC
*
52954274 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
52954288 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
52954303 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
52954318 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
52954333 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
52954348 AAGAAA
1 AAGAAA
52954354 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:52954362 original size:15 final size:15
Alignment explanation
Indices: 52954285--52954362 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
52954275 AGAAAACCGA
52954285 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
52954300 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
52954314 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
52954329 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
52954345 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
52954360 ATA
1 ATA
52954363 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:52957424 original size:93 final size:93
Alignment explanation
Indices: 52957312--52957482 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
52957302 GCCCATAAGT
* *
52957312 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52957377 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
52957405 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52957470 CGAGTTCGGATGC
66 CGAGTTCGGATGC
52957483 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:52957498 original size:46 final size:46
Alignment explanation
Indices: 52957304--52957484 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
52957294 TGTAACCCGC
* * *
52957304 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
52957350 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
52957400 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
52957443 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
52957485 AACCATCCTA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 72 0.62
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:52960530 original size:29 final size:29
Alignment explanation
Indices: 52960465--52960567 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 29
52960455 GCATGAGTAT
* *
52960465 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAATGGGCCATAAG
** * * *
52960494 AAGGTGAATTGGGCCTAGTTGGTCATAAG
1 AATATGAATTGGGCCTAATGGGCCATAAG
* **
52960523 AATATGAAATGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTA-ATGGGCCATAAG
*
52960552 AATAAG-ATTGGGCCTA
1 AATATGAATTGGGCCTA
52960568 GTAGGCTATA
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
28 8 0.15
29 47 0.85
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATAAG
Found at i:52965034 original size:29 final size:30
Alignment explanation
Indices: 52964956--52965063 Score: 102
Period size: 28 Copynumber: 3.8 Consensus size: 30
52964946 GTATGAGTAT
* * *
52964956 AATATGATTTGGGCCTA-ATAGGCCATATG
1 AATATGAATTGGGCCTAGATGGGCCATAAG
*
52964985 AA-GTGAATTGGGCCTAG-TGGGCCATAAG
1 AATATGAATTGGGCCTAGATGGGCCATAAG
**
52965013 AATATGAATTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAGATGGGCCATAAG
* *
52965042 AATAAG-ATTGAGCCTAG-TGGGC
1 AATATGAATTGGGCCTAGATGGGC
52965064 TATATGCATG
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
28 37 0.56
29 29 0.44
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (30 bp):
AATATGAATTGGGCCTAGATGGGCCATAAG
Found at i:52965057 original size:57 final size:57
Alignment explanation
Indices: 52964956--52965063 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
52964946 GTATGAGTAT
* * *
52964956 AATATGATTTGGGCCTAATAGGCCATATGAAGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAATAGGCCATATGAAGTAAATTGAGCCTAGTGGGCCATAAG
* *
52965013 AATATGAATTGGGCC-AGATGGGCCATTTGAA-TAAGATTGAGCCTAGTGGGC
1 AATATGAATTGGGCCTA-ATAGGCCATATGAAGTAA-ATTGAGCCTAGTGGGC
52965064 TATATGCATG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
56 3 0.07
57 41 0.93
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAATTGGGCCTAATAGGCCATATGAAGTAAATTGAGCCTAGTGGGCCATAAG
Found at i:52968470 original size:29 final size:29
Alignment explanation
Indices: 52968375--52968632 Score: 189
Period size: 29 Copynumber: 8.9 Consensus size: 29
52968365 AACAATAGTC
* * *
52968375 GTAACCGTCCCTTTTCATATTCGATCGTT
1 GTAACCATCCCTTTTCATAATCGATGGTT
* * * *
52968404 GAAACCATCACTTTTCATTAATCAATGGTC
1 GTAACCATCCCTTTTCA-TAATCGATGGTT
* * *
52968434 GTCACCATCCCTTTTCATAGTTGATGGTT
1 GTAACCATCCCTTTTCATAATCGATGGTT
* * * *
52968463 GTCACCATCCCTTTTTATAATCGATAGCT
1 GTAACCATCCCTTTTCATAATCGATGGTT
* * * *
52968492 G-AAGCTATCCATTTTCATAATCGATAGCT
1 GTAA-CCATCCCTTTTCATAATCGATGGTT
* * **
52968521 G-AAGCTATCCATTTTCATAATCGATGGCC
1 GTAA-CCATCCCTTTTCATAATCGATGGTT
* *
52968550 G-AAGCTATCCCTTTTCATATTCGATGGTT
1 GTAA-CCATCCCTTTTCATAATCGATGGTT
* * * *
52968579 GTCACCATCCCTTTTCATAGTTGATGGTC
1 GTAACCATCCCTTTTCATAATCGATGGTT
* *
52968608 ATCACCATCCCTTTTCATAATCGAT
1 GTAACCATCCCTTTTCATAATCGAT
52968633 AGCCGAAGCT
Statistics
Matches: 189, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
28 1 0.01
29 165 0.87
30 23 0.12
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
GTAACCATCCCTTTTCATAATCGATGGTT
Found at i:52968541 original size:58 final size:58
Alignment explanation
Indices: 52968469--52968738 Score: 231
Period size: 58 Copynumber: 4.7 Consensus size: 58
52968459 GGTTGTCACC
* * *
52968469 ATCCCTTTTTATAATCGATAGCTGAAGCTATCCATTTTCATAATCGATAGCTGAAGCT
1 ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * * ** * *
52968527 ATCCATTTTCATAATCGATGGCCGAAGCTATCCCTTTTCATATTCGATGGTTGTCA-CC
1 ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCATAATCGATAGCCG-AAGCT
* * * * *
52968585 ATCCCTTTTCATAGTTGATGGTCAT-CA-CCATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAG-C-TGAAGCTATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * ** * * * * *
52968643 GTCCCTGTTCATATTCAATAGCCAAAGCTATCTCTTTTCATATTCAATAGCCAAAACT
1 ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCATAATCGATAGCCGAAGCT
*
52968701 ATCCCTTTTCATAATCGATAGTTGAAGCTATCCCTTTT
1 ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTT
52968739 TATTGGTCGA
Statistics
Matches: 162, Mismatches: 44, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
57 3 0.02
58 156 0.96
59 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (58 bp):
ATCCCTTTTCATAATCGATAGCTGAAGCTATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:52968560 original size:87 final size:84
Alignment explanation
Indices: 52968469--52968738 Score: 236
Period size: 87 Copynumber: 3.1 Consensus size: 84
52968459 GGTTGTCACC
* * *
52968469 ATCCCTTTTTATAATCGATAGCTGAAGCTATCCATTTTCATAATCGATAGCTGAAGCTATCCATT
1 ATCCCTTTTCATATTCGATAGCTGAAGCTATCC-TTTTCATAATCGATAGCT-AA-CTATCCCTT
*
52968534 TTCATAATCGATGGCCGAAGCT
63 TTCATAATCGATAGCCGAAGCT
* * * * * * * * *
52968556 ATCCCTTTTCATATTCGATGGTTGTCA-CCATCCCTTTTCATAGTTGATGGTCATCACCATCCCT
1 ATCCCTTTTCATATTCGATAGCTG-AAGCTAT-CCTTTTCATAATCGATAG-C-TAACTATCCCT
52968620 TTTCATAATCGATAGCCGAAGCT
62 TTTCATAATCGATAGCCGAAGCT
* * * ** * * *
52968643 GTCCCTGTTCATATTCAATAGCCAAAGCTATCTCTTTTCATATTCAATAGCCAAAACTATCCCTT
1 ATCCCTTTTCATATTCGATAGCTGAAGCTATC-CTTTTCATAATCGATAG-C-TAACTATCCCTT
**
52968708 TTCATAATCGATAGTTGAAGCT
63 TTCATAATCGATAGCCGAAGCT
52968730 ATCCCTTTT
1 ATCCCTTTT
52968739 TATTGGTCGA
Statistics
Matches: 143, Mismatches: 34, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
86 2 0.01
87 135 0.94
88 5 0.03
89 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (84 bp):
ATCCCTTTTCATATTCGATAGCTGAAGCTATCCTTTTCATAATCGATAGCTAACTATCCCTTTTC
ATAATCGATAGCCGAAGCT
Found at i:52968647 original size:29 final size:29
Alignment explanation
Indices: 52968614--52968738 Score: 142
Period size: 29 Copynumber: 4.3 Consensus size: 29
52968604 GGTCATCACC
* *
52968614 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
* * *
52968643 GTCCCTGTTCATATTCAATAGCCAAAGCT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
* * *
52968672 ATCTCTTTTCATATTCAATAGCCAAAACT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
* ***
52968701 ATCCCTTTTCATAATCGATAGTTGAAGCT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
52968730 ATCCCTTTT
1 ATCCCTTTT
52968739 TATTGGTCGA
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAATAGCCAAAGCT
Found at i:52968654 original size:145 final size:145
Alignment explanation
Indices: 52968405--52968724 Score: 417
Period size: 145 Copynumber: 2.2 Consensus size: 145
52968395 TCGATCGTTG
* * * * **
52968405 AAACCATCACTTTTCATTAATCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTTGTCACCA
1 AAACTATCCCTTTTCA-TAATCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCA
* * * * **
52968470 TCCCTTTTTATAATCGATAGCTGAAGCTATCCATTTTCATAATCGATAGCTGAAGCTATC-CATT
65 TCCCTTTTCATAATCGATAGCCGAAGCTATCCATGTTCATAATCAATAGCCAAAGCTATCTC-TT
* * *
52968534 TTCATAATCGATGGCCG
129 TTCATAATCAATAGCCA
* *
52968551 AAGCTATCCCTTTTCATATTCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCAT
1 AAACTATCCCTTTTCATAATCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCAT
* * *
52968616 CCCTTTTCATAATCGATAGCCGAAGCTGTCCCTGTTCATATTCAATAGCCAAAGCTATCTCTTTT
66 CCCTTTTCATAATCGATAGCCGAAGCTATCCATGTTCATAATCAATAGCCAAAGCTATCTCTTTT
*
52968681 CATATTCAATAGCCA
131 CATAATCAATAGCCA
*
52968696 AAACTATCCCTTTTCATAATCGATAGTTG
1 AAACTATCCCTTTTCATAATCGATGGTTG
52968725 AAGCTATCCC
Statistics
Matches: 149, Mismatches: 24, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
145 135 0.91
146 14 0.09
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (145 bp):
AAACTATCCCTTTTCATAATCGATGGTTGTCACCATCCCTTTTCATAGTTGATGGTCATCACCAT
CCCTTTTCATAATCGATAGCCGAAGCTATCCATGTTCATAATCAATAGCCAAAGCTATCTCTTTT
CATAATCAATAGCCA
Found at i:52971789 original size:43 final size:43
Alignment explanation
Indices: 52971742--52971842 Score: 132
Period size: 43 Copynumber: 2.3 Consensus size: 43
52971732 CCACTCTCTC
* *
52971742 AGACA-GGATCTTACACAAAAGCACGATACGATGCCAATGTCCT
1 AGACATGG-TCTTACACAAAAGCACAATACAATGCCAATGTCCT
* * * *
52971785 AGACATGGTCTTACACGAAATCTCAATACAATGCCAGTGTCCT
1 AGACATGGTCTTACACAAAAGCACAATACAATGCCAATGTCCT
52971828 AGACATGGTCTTACA
1 AGACATGGTCTTACA
52971843 TGTAATCACA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
43 49 0.96
44 2 0.04
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
AGACATGGTCTTACACAAAAGCACAATACAATGCCAATGTCCT
Found at i:52972405 original size:18 final size:18
Alignment explanation
Indices: 52972354--52972406 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
52972344 GACCCCTCAA
*
52972354 TTTA-CAAAATTCACAAT
1 TTTATCAAAATTCACATT
* * *
52972371 TTAATCATTAATACACATT
1 TTTATCA-AAATTCACATT
52972390 TTTATCAAAATTCACAT
1 TTTATCAAAATTCACAT
52972407 AATTAAACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
17 3 0.11
18 10 0.37
19 14 0.52
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTATCAAAATTCACATT
Found at i:52979164 original size:56 final size:56
Alignment explanation
Indices: 52979097--52979261 Score: 190
Period size: 56 Copynumber: 2.9 Consensus size: 56
52979087 TCTTACATGT
*
52979097 AATCACATATCGATGCCAACGTACTAGACT-TGGTCATACTCACACACATATATCAG-
1 AATCACATATCGATGCCAACGTACTA-AATGTGGTCATACTCACACACATATAT-AGA
* * * *
52979153 AATCACATATCGATGCCAACGTATTAAATGTGGTCTTACTCGCACACATATATTGA
1 AATCACATATCGATGCCAACGTACTAAATGTGGTCATACTCACACACATATATAGA
* * * * * * *
52979209 AATCACATATCGATGCTAATGTATTATATGTGGTCTTACTCGCACCCATATAT
1 AATCACATATCGATGCCAACGTACTAAATGTGGTCATACTCACACACATATAT
52979262 CGATGCCATG
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 3 0.03
56 95 0.97
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.30
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAATGTGGTCATACTCACACACATATATAGA
Found at i:52995356 original size:26 final size:26
Alignment explanation
Indices: 52995298--52995359 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
52995288 CCTAACCTGT
* *
52995298 TAAATGACTGTTATACCCCTATGAGG
1 TAAATGACTGATATACCCCTATGAGA
52995324 TAAATGACTGATATACCCCTAT-ATGA
1 TAAATGACTGATATACCCCTATGA-GA
*
52995350 TACATGACTG
1 TAAATGACTG
52995360 TTTTAAGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 1 0.03
26 31 0.97
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (26 bp):
TAAATGACTGATATACCCCTATGAGA
Found at i:53004026 original size:40 final size:40
Alignment explanation
Indices: 53003981--53004147 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53003971 CGGAATATAA
53003981 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53004021 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53004061 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53004101 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53004140 CCGGATAT
1 CCGGATAT
53004148 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53012009 original size:40 final size:40
Alignment explanation
Indices: 53011964--53012130 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53011954 CGGAATATAA
53011964 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
53012004 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
53012044 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53012084 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53012123 CCGGATAT
1 CCGGATAT
53012131 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53015154 original size:39 final size:39
Alignment explanation
Indices: 53015102--53015215 Score: 128
Period size: 39 Copynumber: 2.9 Consensus size: 39
53015092 CAACCGGATA
53015102 TAACCACGT-GCACGAATGCCTTCGGGTCTTAGCCCGATAG
1 TAACCAC-TAGCACGAATGCCTTCGGGTCTTAGCCCGAT-G
* *
53015142 -AACGACTCGCACGAATGCCTTC-GGTCTTAGCCCGGATG
1 TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCC-GATG
* *
53015180 TAGCCACTAGCAC-AATTGCCTTCGGGTCTTAACCCG
1 TAACCACTAGCACGAA-TGCCTTCGGGTCTTAGCCCG
53015216 GATATAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
38 15 0.23
39 39 0.61
40 10 0.16
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.23
Consensus pattern (39 bp):
TAACCACTAGCACGAATGCCTTCGGGTCTTAGCCCGATG
Found at i:53023306 original size:40 final size:42
Alignment explanation
Indices: 53023201--53023311 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 42
53023191 AACCACGTGA
*
53023201 ACGAATGCCTTCGGGTCTTAGCCC-GA-ATAGAACGACTCGC
1 ACGAATGCCTTCGGGTCTTAGCCCGGATATAGAACGACTAGC
*
53023241 ACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-AC-ACTAGC
1 ACGAATGCCTTCGGGTCTTAGCCCGGATATAGAACGACTAGC
*
53023281 AC-AATTGCCTTCGGGTCTTAACCCGGATATA
1 ACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
53023312 ATTTCCAGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
39 2 0.03
40 55 0.86
41 4 0.06
42 3 0.05
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (42 bp):
ACGAATGCCTTCGGGTCTTAGCCCGGATATAGAACGACTAGC
Found at i:53031564 original size:13 final size:12
Alignment explanation
Indices: 53031538--53031573 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
53031528 ATAACTTATA
53031538 TTAACTTAATGT
1 TTAACTTAATGT
53031550 TTAACTTACATGT
1 TTAACTTA-ATGT
53031563 TTAACCTTAAT
1 TTAA-CTTAAT
53031574 AAATTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.36
13 10 0.45
14 4 0.18
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (12 bp):
TTAACTTAATGT
Found at i:53036423 original size:29 final size:29
Alignment explanation
Indices: 53036390--53036491 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
53036380 ATGACGAGAT
*
53036390 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
53036419 TGGCACTGAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53036448 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53036477 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53036492 GAGCTCGAAG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53036507 original size:29 final size:30
Alignment explanation
Indices: 53036386--53036521 Score: 138
Period size: 29 Copynumber: 4.7 Consensus size: 30
53036376 TACGATGACG
*
53036386 AGAT-TGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* * *
53036414 AAATATGGCACTGAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* *
53036443 ATATATGGCACTAAGTGTGC-ATGCTGGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
*
53036472 ATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCGATGCTCGAA
* * **
53036501 GGGTATGGCACTGTGTGTGCG
1 AGATATGGCACTAAGTGTGCG
53036522 GGCTTAGATC
Statistics
Matches: 96, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 3 0.03
29 92 0.96
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (30 bp):
AGATATGGCACTAAGTGTGCGATGCTCGAA
Found at i:53036520 original size:58 final size:58
Alignment explanation
Indices: 53036386--53036512 Score: 177
Period size: 58 Copynumber: 2.2 Consensus size: 58
53036376 TACGATGACG
* *
53036386 AGAT-TGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTGAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAA
* *
53036443 ATATATGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGC-ATGCTCGAA
* *
53036501 GGGTATGGCACT
1 AGATATGGCACT
53036513 GTGTGTGCGG
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 3 0.05
58 57 0.93
59 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.25
Consensus pattern (58 bp):
AGATATGGCACTAAGTGTGCATGCTGGAAAAATATGGCACTAAGTGTGCATGCTCGAA
Found at i:53038161 original size:54 final size:55
Alignment explanation
Indices: 53038008--53038161 Score: 184
Period size: 55 Copynumber: 2.8 Consensus size: 55
53037998 TTCCTTTTTA
* * *
53038008 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGT
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGT
** * * * * * *
53038063 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG-
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGT
* *
53038117 AACTTACCAACGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
53038162 AAACCCTAAC
Statistics
Matches: 79, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
54 36 0.46
55 43 0.54
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (55 bp):
AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGT
Found at i:53043496 original size:14 final size:15
Alignment explanation
Indices: 53043479--53043507 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53043469 GCATGAAAAT
53043479 TTCACACA-AATAAA
1 TTCACACATAATAAA
53043493 TTCACACATAATAAA
1 TTCACACATAATAAA
53043508 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:53045295 original size:46 final size:44
Alignment explanation
Indices: 53045243--53045415 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 44
53045233 TGGTTGAGCA
53045243 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* * * *
53045289 TTCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAC--ATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATG-GA-T-GGAAG
53045336 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
* *
53045382 -CCTGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
53045416 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
45 3 0.03
46 59 0.56
47 30 0.29
48 1 0.01
49 5 0.05
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:53045399 original size:93 final size:93
Alignment explanation
Indices: 53045240--53045410 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
53045230 GGATGGTTGA
* *
53045240 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
*
53045305 TGAGTCTGAGTTCGTGACATGTAACTAG
66 TGAGTCCGAGTTCGTGACATGTAACTAG
* * *
53045333 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC-CTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTGAG
53045397 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
53045411 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGACATGTAACTAG
Found at i:53053399 original size:97 final size:97
Alignment explanation
Indices: 53053249--53053424 Score: 239
Period size: 97 Copynumber: 1.8 Consensus size: 97
53053239 TACGATGCCA
* *
53053249 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGATA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGACA
53053314 GGACTTACACTGACTTCCATACATCGAGGCCG
66 GGACTTACACTGACTTCCATACATCGAGGCCG
* * * ** *
53053346 ATGCCATGTCCCAGACA-GGTTTTACACTGGCTCTCGCTTATCTGTGTTG-TGCCATGTCCCAGA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCCAGA
*
53053409 CAGGTCTTACACTGAC
64 CAGGACTTACACTGAC
53053425 ACAACTCAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
96 18 0.26
97 43 0.63
98 7 0.10
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (97 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCCAGACA
GGACTTACACTGACTTCCATACATCGAGGCCG
Found at i:53053546 original size:49 final size:48
Alignment explanation
Indices: 53053249--53053566 Score: 165
Period size: 49 Copynumber: 6.6 Consensus size: 48
53053239 TACGATGCCA
* * * ** *
53053249 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCA-C-ATCTAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATCTATC-GGGCCG
* *
53053297 ATGCCATGTCCCAGATAGGACTTACACT-GACT-TCCATAC-ATCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAG-CTCT-CAT-CTATCG-GGCCG
* * * * **
53053346 ATGCCATGTCCCAGACAGGTTTTACACTGGCTCTC-GCTTATCTGTGTTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATC-TATC-GGGCCG
* * * ** *
53053395 -TGCCATGTCCCAGACAGGTCTTACACT-G-ACACAAC--TCAAGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGCCG
* * * * *
53053438 ATGCCATGTCCTATACAGGTCTTACACTAGCT-TGCATATCTTGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATCTATCG-GGCCG
*** *
53053487 ATGTTGTGTCCCAGACAAGTCTTACACTAGCTCTCATCTATCGGTGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGG-GCCG
** *
53053536 ATGCCATGTCCTGGACAGGTCATACACTAGC
1 ATGCCATGTCCCAGACAGGTCTTACACTAGC
53053567 ACACACATTA
Statistics
Matches: 203, Mismatches: 47, Indels: 39
0.70 0.16 0.13
Matches are distributed among these distances:
43 3 0.01
44 27 0.13
45 1 0.00
46 6 0.03
47 17 0.08
48 42 0.21
49 103 0.51
50 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATCTATCGGGCCG
Found at i:53055267 original size:20 final size:19
Alignment explanation
Indices: 53055242--53055281 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
53055232 CTGAACCAAT
* *
53055242 AACTTAGGAAATTTTTACAA
1 AACTTAGAAAAATTTT-CAA
53055262 AACTTAGAAAAATTTTCAA
1 AACTTAGAAAAATTTTCAA
53055281 A
1 A
53055282 CTATAGGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (19 bp):
AACTTAGAAAAATTTTCAA
Found at i:53059795 original size:15 final size:15
Alignment explanation
Indices: 53059763--53059791 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
53059753 ATTTTTAGTG
53059763 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
53059778 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
53059792 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:53061363 original size:14 final size:14
Alignment explanation
Indices: 53061344--53061373 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
53061334 GAAATGATTC
53061344 ATGAATATATGTAT
1 ATGAATATATGTAT
*
53061358 ATGAATTTATGTAT
1 ATGAATATATGTAT
53061372 AT
1 AT
53061374 TCGGCCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
ATGAATATATGTAT
Found at i:53073558 original size:42 final size:41
Alignment explanation
Indices: 53073415--53073559 Score: 134
Period size: 41 Copynumber: 3.5 Consensus size: 41
53073405 TGAATATATA
* * * * * *
53073415 TATGGCACTTAGTGAGCGA-TTCGAGATAGCTTCGGCTATA
1 TATGGCACTTTGTGTGCGAGATCAAGATAGCTTTGGCTATG
* *
53073455 TATGGCACTTTGTGTGCGAGACCAAGATAACTTTGGCTATG
1 TATGGCACTTTGTGTGCGAGATCAAGATAGCTTTGGCTATG
* * *
53073496 TGA-GGCACTTTGTGTACGAGATTATA-ATAGCTTTAGCTATG
1 T-ATGGCACTTTGTGTGCGAGATCA-AGATAGCTTTGGCTATG
*
53073537 TATTGGCACTTAGTGTGCGAGAT
1 TA-TGGCACTTTGTGTGCGAGAT
53073560 ATCGAGTATT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
40 18 0.21
41 48 0.56
42 19 0.22
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (41 bp):
TATGGCACTTTGTGTGCGAGATCAAGATAGCTTTGGCTATG
Found at i:53079509 original size:22 final size:19
Alignment explanation
Indices: 53079468--53079510 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
53079458 TCTAGCAGCC
53079468 CACATTTACCAACTTTTCA
1 CACATTTACCAACTTTTCA
53079487 CACATTTAACCACACATTTTCA
1 CACATTT-ACCA-AC-TTTTCA
53079509 CA
1 CA
53079511 TTTTCACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 4 0.19
21 2 0.10
22 8 0.38
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (19 bp):
CACATTTACCAACTTTTCA
Found at i:53084030 original size:93 final size:90
Alignment explanation
Indices: 53083869--53084082 Score: 204
Period size: 93 Copynumber: 2.3 Consensus size: 90
53083859 ATTGGTGTGC
* * * * *
53083869 TAGTGTAAGACATGTCTGGGACAAGCATTGGCCACATTTTGAGAGCCAGTTAAGACCATGTCTAG
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATGTGAGAGCCAGTTAAGACCACGTCTAG
*
53083934 GACATGGT-ATTGGCATTGA-GACAAGAGT
66 GACAT--TCATCGGC--T-ACGACAAGAGT
* *
53083962 TAGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGATGT-A-AGCCAGTGTAAGA-CACGTC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-ATGTGAGAGCCAGT-TAAGACCACGTC
* * *
53084024 TGGGACATTCATCGGCTACGACATGTGT
63 TAGGACATTCATCGGCTACGACAAGAGT
53084052 TAGTGTAAGACCATGTCTGGGACATGGCATC
1 TAGTGTAAGA-CATGTCTGGGACAT-GCATC
53084083 AGCACGTATA
Statistics
Matches: 102, Mismatches: 12, Indels: 15
0.79 0.09 0.12
Matches are distributed among these distances:
89 1 0.01
90 18 0.18
91 15 0.15
92 9 0.09
93 50 0.49
94 7 0.07
95 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (90 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATGTGAGAGCCAGTTAAGACCACGTCTAG
GACATTCATCGGCTACGACAAGAGT
Found at i:53084111 original size:48 final size:48
Alignment explanation
Indices: 53084048--53084229 Score: 215
Period size: 48 Copynumber: 3.7 Consensus size: 48
53084038 GCTACGACAT
53084048 GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGAG
1 GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGAG
* * *
53084096 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGATATGTG
1 GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATA-GAG
* * * * * *
53084145 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATTTTGA-
1 -GTGTTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCACG-TATAGAG
*
53084195 -TAGTTAGTTTAAGACCATGTCTGGGACATGGCATC
1 GT-GTTAGTGTAAGACCATGTCTGGGACATGGCATC
53084230 GACTTTATAC
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
48 43 0.38
49 33 0.29
50 32 0.28
51 5 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (48 bp):
GTGTTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGTATAGAG
Found at i:53084162 original size:98 final size:99
Alignment explanation
Indices: 53083957--53084229 Score: 268
Period size: 99 Copynumber: 2.9 Consensus size: 99
53083947 CATTGAGACA
* * * * *
53083957 AGAGTTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGCCTCGAGAT-G-TAAGCCAGTGTAAGA
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATAGAT-AGTCAGTGTAAGA
* * * *
53084018 -CACGTCTGGGACAT-TCATCGGCTAC-GACATGT-
65 CCATGTCTGGGACATGGCATCAGC-ACGGATATGTG
*
53084050 ---GTTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCACG-TATAGAGGT-GTCAGTGTAAG
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATAGA--TAGTCAGTGTAAG
53084109 ACCATGTCTGGGACATGGCATCAGCACGGATATGTG
64 ACCATGTCTGGGACATGGCATCAGCACGGATATGTG
* * * * * *
53084145 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCGATTTTGATAGTTAGTTTAAGAC
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATAGATAGTCAGTGTAAGAC
53084210 CATGTCTGGGACATGGCATC
66 CATGTCTGGGACATGGCATC
53084230 GACTTTATAC
Statistics
Matches: 147, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
90 14 0.10
91 18 0.12
92 15 0.10
93 15 0.10
94 13 0.09
98 33 0.22
99 35 0.24
100 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (99 bp):
AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATAGATAGTCAGTGTAAGAC
CATGTCTGGGACATGGCATCAGCACGGATATGTG
Found at i:53084219 original size:49 final size:51
Alignment explanation
Indices: 53083957--53084232 Score: 228
Period size: 46 Copynumber: 5.8 Consensus size: 51
53083947 CATTGAGACA
* * * *
53083957 AGAGTTAGTGTAAGA-CATGTCTGGGACAT-GTATCGGCCTC-GAGATGT-
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
** * * * * *
53084004 A-AGCCAGTGTAAGA-CACGTCTGGGACAT-TCATCGGCTAC-GACATGT-
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
* * *
53084050 ---GTTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCACGTATA-GAG
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
* * *
53084096 -GTGTCAGTGTAAGACCATGTCTGGGACATGGCATC-AGCACGGATATGTG
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
* * *
53084145 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTC-GAT-TTTG
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
* *
53084194 ATAGTTAGTTTAAGACCATGTCTGGGACATGGCATCGAC
1 AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGAC
53084233 TTTATACCCT
Statistics
Matches: 190, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
44 10 0.05
45 16 0.08
46 43 0.23
47 1 0.01
48 41 0.22
49 41 0.22
50 35 0.18
51 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (51 bp):
AGAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGGATATGTG
Found at i:53086182 original size:40 final size:39
Alignment explanation
Indices: 53086014--53086184 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
53086004 AGAAATTGAA
* *
53086014 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
53086054 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
53086094 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
53086134 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
53086174 TGATATCCGGG
1 TGATATCCGGG
53086185 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:53095220 original size:39 final size:40
Alignment explanation
Indices: 53095162--53095262 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
53095152 AAATTGAATG
* *
53095162 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
53095201 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
53095241 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
53095263 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:53095255 original size:40 final size:40
Alignment explanation
Indices: 53095162--53095312 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
53095152 AAATTGAATG
* * * * *
53095162 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
53095201 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
53095241 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
53095281 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
53095313 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:53095327 original size:40 final size:38
Alignment explanation
Indices: 53095158--53095329 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
53095148 TGAGAAATTG
* *
53095158 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
53095197 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
53095234 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
53095274 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
53095314 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
53095330 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:53103358 original size:40 final size:39
Alignment explanation
Indices: 53103190--53103360 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
53103180 AGAAATTGAA
* *
53103190 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
53103230 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
53103270 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
53103310 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
53103350 TGATATCCGGG
1 TGATATCCGGG
53103361 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:53112997 original size:41 final size:41
Alignment explanation
Indices: 53112952--53113069 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
53112942 TGAAAGATAA
53112952 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
53112993 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53113023 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
53113064 ATGTAG
1 ATGTAG
53113070 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:53113008 original size:71 final size:71
Alignment explanation
Indices: 53112920--53113083 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
53112910 GAGATGTATC
53112920 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53112985 AGGACA
66 AGGACA
53112991 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
53113056 AGGACA
66 AGGACA
53113062 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
53113084 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:53114680 original size:27 final size:26
Alignment explanation
Indices: 53114649--53114699 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
53114639 GAATACTTTA
*
53114649 GTTTACCAAATTACTGAAATACCCTTG
1 GTTTACAAAATTACTG-AATACCCTTG
*
53114676 GTTTACAAAATTTCTGAATACCCT
1 GTTTACAAAATTACTGAATACCCT
53114700 CGATTAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (26 bp):
GTTTACAAAATTACTGAATACCCTTG
Found at i:53114725 original size:27 final size:28
Alignment explanation
Indices: 53114692--53114864 Score: 153
Period size: 27 Copynumber: 6.4 Consensus size: 28
53114682 AAAATTTCTG
*
53114692 AATACCCTCGA-TTAGTAAAATTACCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* *
53114719 AATACCC-CTAGTTTGTAAAATTACCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* * *
53114746 AATACCC-CTAGTTTGTGAAATTACCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
* *
53114773 AATACCACT-GA-TTTGTGAAATTACTAA
1 AATACC-CTCGACTTTGTAAAATTACCAA
* * **
53114800 AATACCTTCGAC-CTGTAAAATTACTGA
1 AATACCCTCGACTTTGTAAAATTACCAA
* *
53114827 AATACCCTCAAC-TTGTAAAATTTCCAA
1 AATACCCTCGACTTTGTAAAATTACCAA
*
53114854 AGTACCCTCGA
1 AATACCCTCGA
53114865 TTTACAGAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.02
27 119 0.96
28 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (28 bp):
AATACCCTCGACTTTGTAAAATTACCAA
Found at i:53114938 original size:27 final size:26
Alignment explanation
Indices: 53114907--53115040 Score: 142
Period size: 27 Copynumber: 5.0 Consensus size: 26
53114897 AAAATAATTA
*
53114907 AAATACTCCTGTAGGGTAGAATTACTG
1 AAATAC-CCTGTAGGGTAGAATTACCG
*
53114934 AAATACCCCTGTAGGGTGGAATTACCG
1 AAATA-CCCTGTAGGGTAGAATTACCG
* * *
53114961 AAATACCCTTGCAGGGTGGAAATACCG
1 AAATACCC-TGTAGGGTAGAATTACCG
*
53114988 AAATACCCCTGTAGGGTACAATTACCG
1 AAATA-CCCTGTAGGGTAGAATTACCG
* * *
53115015 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCC-TGTAGGGTAGAATTACC
53115041 ATTTTGCCCC
Statistics
Matches: 92, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.07
27 82 0.89
28 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (26 bp):
AAATACCCTGTAGGGTAGAATTACCG
Found at i:53114965 original size:54 final size:54
Alignment explanation
Indices: 53114907--53115040 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
53114897 AAAATAATTA
* **
53114907 AAATACTCC-TGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTGGAATTACCG
1 AAATAC-CCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTACAATTACCG
* * *
53114961 AAATACCCTTGCAGGGTGGAAATACCGAAATACCCCTGTAGGGTACAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTACAATTACCG
* * *
53115015 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
53115041 ATTTTGCCCC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 2 0.03
54 65 0.97
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTACAATTACCG
Found at i:53115587 original size:22 final size:22
Alignment explanation
Indices: 53115554--53115618 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
53115544 GCCAATTATT
* *
53115554 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
*
53115576 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTATGTGCCAAC
53115598 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
53115619 ACGTACTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:53115814 original size:27 final size:26
Alignment explanation
Indices: 53115768--53115878 Score: 68
Period size: 27 Copynumber: 4.2 Consensus size: 26
53115758 TGCCACGCAT
53115768 TCTG-TTC-AGTGGCT-TAGCCACATTA
1 TCTGTTTCTAGTGGCTAT-GCCACA-TA
* *
53115793 TCTGTTTCTAGTGGGTATGCCACAAA
1 TCTGTTTCTAGTGGCTATGCCACATA
* *
53115819 TTCTG-TTCTGGTGGCTCTGCCACAATA
1 -TCTGTTTCTAGTGGCTATGCCAC-ATA
* * * * *
53115846 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGTTTCTAGTGGCTATGCCAC-ATA
53115873 TCTGTT
1 TCTGTT
53115879 CTGGCAACCA
Statistics
Matches: 70, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
25 4 0.06
26 23 0.33
27 42 0.60
28 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (26 bp):
TCTGTTTCTAGTGGCTATGCCACATA
Found at i:53115839 original size:26 final size:26
Alignment explanation
Indices: 53115810--53115882 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 26
53115800 CTAGTGGGTA
*
53115810 TGCCACAA-ATTCTGTTCTGGTGGCTC
1 TGCCACAATA-TCTGTTCTGGTGACTC
53115836 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
53115863 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
53115883 CAACCATGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 18 0.42
27 25 0.58
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:53116043 original size:12 final size:12
Alignment explanation
Indices: 53116028--53116058 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
53116018 TACCTGATAC
*
53116028 TGATTCTGATTT
1 TGATTCTCATTT
53116040 TGATTCTCATTT
1 TGATTCTCATTT
53116052 TGATTCT
1 TGATTCT
53116059 AGTTCTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.58
Consensus pattern (12 bp):
TGATTCTCATTT
Found at i:53119288 original size:30 final size:30
Alignment explanation
Indices: 53119254--53119324 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
53119244 TCCTTAACTC
53119254 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
53119284 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
**
53119314 AGGCTTTGGAA
1 AAACTTTGGAA
53119325 TTAAACTTCA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:53121627 original size:27 final size:26
Alignment explanation
Indices: 53121587--53121645 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
53121577 TCCCTGTTTA
*
53121587 GAATA-CTTTAGTTTACCAAATTACT
1 GAATACCTTTAGTTTACAAAATTACT
*
53121612 GAAATACCTTTGGTTTACAAAATTACT
1 G-AATACCTTTAGTTTACAAAATTACT
53121639 GAATACC
1 GAATACC
53121646 CTCGATTAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 1 0.03
26 10 0.33
27 19 0.63
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (26 bp):
GAATACCTTTAGTTTACAAAATTACT
Found at i:53121670 original size:53 final size:54
Alignment explanation
Indices: 53121604--53121798 Score: 162
Period size: 54 Copynumber: 3.6 Consensus size: 54
53121594 TTAGTTTACC
** * **
53121604 AAATTACTGAAATACCTTTGGTTTACAAAATTACTGAATACCCTCGA-TTAGCA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTGAATACCCTCGAGTTAGCA
* ** * * **
53121657 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAACTACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTGAA-TACCCTCGAGTTAGCA
* * ** *
53121711 AAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACCTA-TA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTG-AATACCCTCGAGTTAGCA
** **
53121765 AAATTATTAAAATACCCTTGACTTGTAAAATTAC
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTAC
53121799 CAAAGTACCC
Statistics
Matches: 112, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
53 32 0.29
54 75 0.67
55 5 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACTGAATACCCTCGAGTTAGCA
Found at i:53121686 original size:27 final size:27
Alignment explanation
Indices: 53121656--53121825 Score: 155
Period size: 27 Copynumber: 6.3 Consensus size: 27
53121646 CTCGATTAGC
*
53121656 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
53121683 AAAATTACCAAACTACCCCT-AGTTTGT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
53121710 GAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* ** ** *
53121737 GAAATTACTGAAATA-CCCTCGACCTAT
1 AAAATTACCAAAATACCCCT-GATTTGT
** * *
53121764 AAAATTATTAAAATACCCTTGACTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
53121791 AAAATTACCAAAGTACCCCTGATTTGC
1 AAAATTACCAAAATACCCCTGATTTGT
*
53121818 AGAATTAC
1 AAAATTAC
53121826 TGTTTTACCC
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
26 3 0.03
27 108 0.94
28 4 0.03
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:53121769 original size:54 final size:53
Alignment explanation
Indices: 53121630--53121798 Score: 171
Period size: 54 Copynumber: 3.2 Consensus size: 53
53121620 TTTGGTTTAC
* * *
53121630 AAAATTACTG-AATACCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACTGAAATACCCTCGATTA-TAAAATTACCAAAATACCCTTGATTTGT
* * * * *
53121683 AAAATTAC-CAAACTACCCCTAGTTTGTGAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACTGAAA-TA-CCCTCGATTATAAAATTACCAAAATACCCTTGATTTGT
* * ** *
53121737 GAAATTACTGAAATACCCTCGACCTATAAAATTATTAAAATACCCTTGACTTGT
1 AAAATTACTGAAATACCCTCGA-TTATAAAATTACCAAAATACCCTTGATTTGT
53121791 AAAATTAC
1 AAAATTAC
53121799 CAAAGTACCC
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
53 15 0.16
54 67 0.73
55 10 0.11
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACTGAAATACCCTCGATTATAAAATTACCAAAATACCCTTGATTTGT
Found at i:53121824 original size:81 final size:81
Alignment explanation
Indices: 53121706--53121862 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
53121696 TACCCCTAGT
* * * *
53121706 TTGTGAAATTACCAAAATACCCTTGATTTGTGAAATTACTGAAATACCCTCGACCTATAAAATTA
1 TTGTAAAATTACCAAAATACCCCTGATTTGAGAAATTACTGAAATACCCTCGACCTACAAAATTA
53121771 TTAAAATACCCTTGAC
66 TTAAAATACCCTTGAC
* *** **
53121787 TTGTAAAATTACCAAAGTACCCCTGATTTGCAG-AATTACTGTTTTACCCTCGATTTACAAAATT
1 TTGTAAAATTACCAAAATACCCCTGATTTG-AGAAATTACTGAAATACCCTCGACCTACAAAATT
*
53121851 ATTGAAATACCC
65 ATTAAAATACCC
53121863 CTATAGGGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 63 0.98
82 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.33
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTGATTTGAGAAATTACTGAAATACCCTCGACCTACAAAATTA
TTAAAATACCCTTGAC
Found at i:53121861 original size:27 final size:27
Alignment explanation
Indices: 53121604--53121862 Score: 134
Period size: 27 Copynumber: 9.6 Consensus size: 27
53121594 TTAGTTTACC
* * * **
53121604 AAATTACTGAAATACCTTTGGTTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
53121631 AAATTACTG-AATACCCTCGATTAGCA
1 AAATTACTGAAATACCCTCGATTTGTA
** *
53121657 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACTGAAATACCCTC-GATTTGTA
* * *
53121684 AAATTAC-CAAACTACCC-CTAGTTTGTG
1 AAATTACTGAAA-TACCCTCGA-TTTGTA
** * *
53121711 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACTGAAATACCCTCGATTTGTA
** *
53121738 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
53121765 AAATTATTAAAATACCCTTGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
53121792 AAATTAC-CAAAGTACCC-CTGATTTGCA
1 AAATTACTGAAA-TACCCTC-GATTTGTA
* *** **
53121819 GAATTACTGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCGATTTGTA
*
53121846 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
53121863 CTATAGGGTA
Statistics
Matches: 177, Mismatches: 45, Indels: 20
0.73 0.19 0.08
Matches are distributed among these distances:
26 26 0.15
27 146 0.82
28 5 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:53121925 original size:27 final size:27
Alignment explanation
Indices: 53121854--53121933 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
53121844 CAAAATTATT
*
53121854 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
53121881 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
53121908 GAGATACCCTTGTGGGGTAAAATTAC
1 GAAATACCCCTGTAGGGTAGAATTAC
53121934 AATTTTGCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:53122499 original size:22 final size:22
Alignment explanation
Indices: 53122447--53122511 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
53122437 GCAAATTATT
*
53122447 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTTTGTGCCAAC
* **
53122469 CT-ACATATGGCTTTGTGGTAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
53122491 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
53122512 ACGTACTTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Done.