Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 342 of 433
Found at i:107325895 original size:47 final size:47
Alignment explanation
Indices: 107325786--107325896 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
107325776 CCGGGATAAG
*
107325786 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
107325833 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
107325880 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
107325897 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:107330621 original size:2 final size:2
Alignment explanation
Indices: 107330614--107330638 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
107330604 CTTTTAAATT
107330614 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
107330639 GTTAATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107331076 original size:33 final size:33
Alignment explanation
Indices: 107331039--107331105 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
107331029 GCCAATGTTT
107331039 AAATGTATTTGTGTTTAAAATATTTTACATGCA
1 AAATGTATTTGTGTTTAAAATATTTTACATGCA
107331072 AAATGTATTTGTGTTTAAAATATTTTACATGCA
1 AAATGTATTTGTGTTTAAAATATTTTACATGCA
107331105 A
1 A
107331106 TTCGATTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (33 bp):
AAATGTATTTGTGTTTAAAATATTTTACATGCA
Found at i:107333350 original size:9 final size:9
Alignment explanation
Indices: 107333338--107333387 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
107333328 TTTTAATTTT
107333338 ATTTTTATA
1 ATTTTTATA
107333347 ATTTTTATA
1 ATTTTTATA
*
107333356 ATTTATATA
1 ATTTTTATA
*
107333365 CATTTTT-GA
1 -ATTTTTATA
107333374 ATTTTTATA
1 ATTTTTATA
107333383 TATTT
1 -ATTT
107333388 ATTTTCATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 6 0.18
9 19 0.56
10 9 0.26
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:107333360 original size:28 final size:28
Alignment explanation
Indices: 107333333--107333400 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
107333323 CATTTTTTTA
*
107333333 ATTTTATTTTTATAATTTTTATA-ATTT
1 ATTTTATTTTTAGAATTTTTATATATTT
**
107333360 ATATACATTTTT-GAATTTTTATATATTT
1 AT-TTTATTTTTAGAATTTTTATATATTT
107333388 ATTTTCATTTTTA
1 ATTTT-ATTTTTA
107333401 ATATTATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 13 0.41
28 19 0.59
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (28 bp):
ATTTTATTTTTAGAATTTTTATATATTT
Found at i:107333378 original size:27 final size:28
Alignment explanation
Indices: 107333346--107333399 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
107333336 TTATTTTTAT
107333346 AATTTTTATA-ATTTATATACATTTTTG
1 AATTTTTATATATTTATATACATTTTTG
* *
107333373 AATTTTTATATATTTATTTTCATTTTT
1 AATTTTTATATATTTATATACATTTTT
107333400 AATATTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (28 bp):
AATTTTTATATATTTATATACATTTTTG
Found at i:107336825 original size:24 final size:24
Alignment explanation
Indices: 107336794--107336843 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
107336784 TTTATTTTTC
107336794 TTTTCTTCTAATGAAAAACAATTT
1 TTTTCTTCTAATGAAAAACAATTT
107336818 TTTTCTTCTAATGAAAAACAATTT
1 TTTTCTTCTAATGAAAAACAATTT
107336842 TT
1 TT
107336844 ACTCATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTCTTCTAATGAAAAACAATTT
Found at i:107345023 original size:18 final size:19
Alignment explanation
Indices: 107345000--107345035 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
107344990 GTAGTGTGAT
*
107345000 GTCAATCTCATCA-ATAAC
1 GTCAATCACATCACATAAC
107345018 GTCAATCACATCACATAA
1 GTCAATCACATCACATAA
107345036 GTTCCTAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.28, G:0.06, T:0.25
Consensus pattern (19 bp):
GTCAATCACATCACATAAC
Found at i:107348570 original size:208 final size:208
Alignment explanation
Indices: 107348211--107348624 Score: 765
Period size: 208 Copynumber: 2.0 Consensus size: 208
107348201 GAAGTGAATC
107348211 GTAGGTAAGTTCATAGTATAAAGGAATTAAATTACATTATATTTAAATTGATGTTGTTTTGTACT
1 GTAGGTAAGTTCATAGTATAAAGGAATTAAATTACATTATATTTAAATTGATGTTGTTTTGTACT
*
107348276 ATCTAAATAGTTTATTTTGAAGATGAAATGTGAATTGATTACTAATAAGTATGAATAGATTTCGT
66 AGCTAAATAGTTTATTTTGAAGATGAAATGTGAATTGATTACTAATAAGTATGAATAGATTTCGT
*
107348341 ATTTGTTGAGAAATGGATGAAATTATGAAGGATGAAATCTTAGAATGAACATCTTGGATTCGTTG
131 ATTTGTTGAGAAATGGATGAAATTATGAAGGATGAAATCTTAGAATGAACATCTTGAATTCGTTG
107348406 AATATGTATAATT
196 AATATGTATAATT
*
107348419 GTAGGTAAGTTCATAGTATAAAGGAATTAAATTACATTATATTTGAATTGATGTTGTTTTGTACT
1 GTAGGTAAGTTCATAGTATAAAGGAATTAAATTACATTATATTTAAATTGATGTTGTTTTGTACT
* *
107348484 AGCTATATAGTTTATTTTGAAGATGAAATGTGAATTGATTACTAATAAGTATGAATATATTTCGT
66 AGCTAAATAGTTTATTTTGAAGATGAAATGTGAATTGATTACTAATAAGTATGAATAGATTTCGT
* *
107348549 ATTTGTTGAGAAATTGATGAAATTATGAATGATGAAATCTTAGAATGAACATCTTGAATTCGTTG
131 ATTTGTTGAGAAATGGATGAAATTATGAAGGATGAAATCTTAGAATGAACATCTTGAATTCGTTG
107348614 AATATGTATAA
196 AATATGTATAA
107348625 ATAATACGGA
Statistics
Matches: 199, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
208 199 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (208 bp):
GTAGGTAAGTTCATAGTATAAAGGAATTAAATTACATTATATTTAAATTGATGTTGTTTTGTACT
AGCTAAATAGTTTATTTTGAAGATGAAATGTGAATTGATTACTAATAAGTATGAATAGATTTCGT
ATTTGTTGAGAAATGGATGAAATTATGAAGGATGAAATCTTAGAATGAACATCTTGAATTCGTTG
AATATGTATAATT
Found at i:107348819 original size:20 final size:19
Alignment explanation
Indices: 107348749--107348829 Score: 83
Period size: 20 Copynumber: 4.2 Consensus size: 19
107348739 TACGGGATTG
*
107348749 CACTTTGATGCCTCTGTTA
1 CACTTCGATGCCTCTGTTA
* *
107348768 CACTTCGATACCTCTGATTG
1 CACTTCGATGCCTCTG-TTA
*
107348788 CACAATCG-TGCCTCTGTCTA
1 CAC-TTCGATGCCTCTGT-TA
*
107348808 CACTTTGATGCCTCTGTTA
1 CACTTCGATGCCTCTGTTA
107348827 CAC
1 CAC
107348830 ATCTATGATG
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 22 0.44
20 25 0.50
21 3 0.06
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.36
Consensus pattern (19 bp):
CACTTCGATGCCTCTGTTA
Found at i:107359015 original size:20 final size:20
Alignment explanation
Indices: 107358964--107359015 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
107358954 CGGGCTGAGG
*
107358964 ACACGGGCGTGTCTAGAGCC
1 ACACAGGCGTGTCTAGAGCC
* *
107358984 ACATAGGGGTGTCTAGAGCC
1 ACACAGGCGTGTCTAGAGCC
107359004 ACACAGGCGTGT
1 ACACAGGCGTGT
107359016 GAGACCTCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.17
Consensus pattern (20 bp):
ACACAGGCGTGTCTAGAGCC
Found at i:107367150 original size:17 final size:17
Alignment explanation
Indices: 107367128--107367178 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
107367118 CCTACAGGGG
107367128 ACACACGGCCGTGTGTC
1 ACACACGGCCGTGTGTC
*
107367145 ACACACGG-C-TGAGTC
1 ACACACGGCCGTGTGTC
*
107367160 ACACAC--CCGTGTCTC
1 ACACACGGCCGTGTGTC
107367175 ACAC
1 ACAC
107367179 CTTGTGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.03
15 19 0.66
16 1 0.03
17 8 0.28
ACGTcount: A:0.24, C:0.39, G:0.22, T:0.16
Consensus pattern (17 bp):
ACACACGGCCGTGTGTC
Found at i:107368010 original size:40 final size:40
Alignment explanation
Indices: 107367949--107368107 Score: 124
Period size: 41 Copynumber: 3.9 Consensus size: 40
107367939 GATTCATAGT
** *
107367949 TACCGAAGTGTAAGCAGGGGCACAAGTATG-C-ATTCAGGGG
1 TACCGAAGTACAAACAGGGGCAC--GTATGCCAATTCAGGGG
*
107367989 TACCGAAGTACAAACATGGGCACGTATGTCCAATTCAGGGG
1 TACCGAAGTACAAACAGGGGCACGTATG-CCAATTCAGGGG
* * ** *
107368030 TACGGAAGTACAAATAGGGGCACGTATGTGTAATTCAAGGG
1 TACCGAAGTACAAACAGGGGCACGTATG-CCAATTCAGGGG
* * * * * *
107368071 CACAGAAGTACGAACAAGTGCACGTATGTGCAATTCA
1 TACCGAAGTACAAACAGGGGCACGTATG-CCAATTCA
107368108 TACAACAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
38 5 0.05
40 20 0.20
41 74 0.75
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.19
Consensus pattern (40 bp):
TACCGAAGTACAAACAGGGGCACGTATGCCAATTCAGGGG
Found at i:107368038 original size:41 final size:41
Alignment explanation
Indices: 107367980--107368107 Score: 157
Period size: 41 Copynumber: 3.1 Consensus size: 41
107367970 ACAAGTATGC
* * *
107367980 ATTCAGGGGTACCGAAGTACAAACATGGGCACGTATGTCCA
1 ATTCAGGGGTACAGAAGTACAAACAAGGGCACGTATGTGCA
* * * *
107368021 ATTCAGGGGTACGGAAGTACAAATAGGGGCACGTATGTGTA
1 ATTCAGGGGTACAGAAGTACAAACAAGGGCACGTATGTGCA
* * * *
107368062 ATTCAAGGGCACAGAAGTACGAACAAGTGCACGTATGTGCA
1 ATTCAGGGGTACAGAAGTACAAACAAGGGCACGTATGTGCA
107368103 ATTCA
1 ATTCA
107368108 TACAACAATT
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (41 bp):
ATTCAGGGGTACAGAAGTACAAACAAGGGCACGTATGTGCA
Found at i:107380292 original size:44 final size:44
Alignment explanation
Indices: 107380242--107380329 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
107380232 ACTAGTAATG
107380242 ACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTTTGTT
1 ACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTTTGTT
* *
107380286 ACTGTCTTTTTATTATCTAGTCTAAGAATAACGAGGTTTTTGTT
1 ACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTTTGTT
107380330 TTAACTAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (44 bp):
ACTGTCTTTTTATTATCTAGCCTAAGAATAAAGAGGTTTTTGTT
Found at i:107380345 original size:44 final size:44
Alignment explanation
Indices: 107380253--107380357 Score: 104
Period size: 44 Copynumber: 2.4 Consensus size: 44
107380243 CTGTCTTTTT
* ** ** *
107380253 ATTATCTAGCCTAAGAATAAAGAGGTTTTTGTTACTGTCTTTTT
1 ATTATCTAGACTAAGAATAAAGAGGTTTTTGTTACTAACTACTA
* * *
107380297 ATTATCTAGTCTAAGAATAACGAGGTTTTTGTT-TTAACTAACTA
1 ATTATCTAGACTAAGAATAAAGAGGTTTTTGTTACTAACT-ACTA
*
107380341 ATTATCTAAACTAAGAA
1 ATTATCTAGACTAAGAA
107380358 CTCACAGAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.06
44 47 0.94
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (44 bp):
ATTATCTAGACTAAGAATAAAGAGGTTTTTGTTACTAACTACTA
Found at i:107384824 original size:620 final size:620
Alignment explanation
Indices: 107383642--107384882 Score: 2286
Period size: 620 Copynumber: 2.0 Consensus size: 620
107383632 CTTAGTGTTG
* * * *
107383642 TAAGGGTTAGCCGACGCTAAAATGATTCCGCACACTTAGTGCCATTTCAGTTAGCCGAAGCTAAG
1 TAAGGGTTAGCAGAAGCTAAAATGATTCCACACACTGAGTGCCATTTCAGTTAGCCGAAGCTAAG
107383707 TTGGTATCGCACACTTAGTGCCTTATATAGCCGAAGCTATATTAAACCGCACACTTAGTGCCAAG
66 TTGGTATCGCACACTTAGTGCCTTATATAGCCGAAGCTATATTAAACCGCACACTTAGTGCCAAG
*
107383772 CATAGTCGAATATCATTATGCTCAAATCGAAATCAAATATCTATACAATTTATGGATTACCATCG
131 CATAGTCGAATATCATTATGCTCAAATCGAAATCAAATATCTATACAATTTATGCATTACCATCG
*
107383837 CATTAAAACATAGCTTTAACATCATTTATCACGTACGAACTTACCTTGCACTCGGAATTGTCGAT
196 CATTAAAACATAGCTTTAACATCATTTATCACGTACGAACTTACCTTGCACTCAGAATTGTCGAT
107383902 TGGAATTGTCTACTCGATAACCTTCGACTTTCCTCGATATAAATCCGAATTCCTCCTTTCTTGAT
261 TGGAATTGTCTACTCGATAACCTTCGACTTTCCTCGATATAAATCCGAATTCCTCCTTTCTTGAT
107383967 CTATATGTTTTCAAAATTAACCTTTTTATTCACCAAATAATTCAATTCAATCCATAAACACATAT
326 CTATATGTTTTCAAAATTAACCTTTTTATTCACCAAATAATTCAATTCAATCCATAAACACATAT
107384032 TTAGGGCATTTTACAAACTAGCCCTCACATTTTTACATTTCGACACTTTAGTCCCTATTTCACAA
391 TTAGGGCATTTTACAAACTAGCCCTCACATTTTTACATTTCGACACTTTAGTCCCTATTTCACAA
*
107384097 ATTCAAAAAATACACATAATTTGCATATACACAAGCTTAGCTGAATTCTCCTAATACTCATACTA
456 ATTCAAAAAATACACATAATTTGCATATACACAAGCTTAGCCGAATTCTCCTAATACTCATACTA
* *
107384162 GTCCACACATTTCATTTATTTCACATTTTAGTCCCACAAAATAACATTTTTACAATTTAGCCCAA
521 GTCCACAAATTTAATTTATTTCACATTTTAGTCCCACAAAATAACA-TTTTACAATTTAGCCCAA
107384227 ATTGCTCAAATTCATCGAAAACCCTAAAACAAAACA
585 ATTGCTCAAATTCATCGAAAACCCTAAAACAAAACA
107384263 TAAGGGTTAGCAGAAGCTAAAATGATTCCACACACTGAGTGCCATTTCAGTTAGCCGAAGCTAAG
1 TAAGGGTTAGCAGAAGCTAAAATGATTCCACACACTGAGTGCCATTTCAGTTAGCCGAAGCTAAG
* *
107384328 TTGGTATCGCACATTTAGTGCCTTATATAGCCGAAGCTATATTAAACCGGACACTTAGTGCCAAG
66 TTGGTATCGCACACTTAGTGCCTTATATAGCCGAAGCTATATTAAACCGCACACTTAGTGCCAAG
107384393 CATAGTCGAATATCATTATGCTCAAATCGAAATCAAATATCTATACAATTTATGCATTACCATCG
131 CATAGTCGAATATCATTATGCTCAAATCGAAATCAAATATCTATACAATTTATGCATTACCATCG
*
107384458 TATT-AAACATAGCTTTAACATCATTTATCACGTACGAACTTACCTTGCACTCAGAATTGTCGAT
196 CATTAAAACATAGCTTTAACATCATTTATCACGTACGAACTTACCTTGCACTCAGAATTGTCGAT
* *
107384522 TGGAATTGTCTACTCGATAACCTTCGACTTTCCTCGATCTAAATCTGAATTCCTCCTTTCTTGAT
261 TGGAATTGTCTACTCGATAACCTTCGACTTTCCTCGATATAAATCCGAATTCCTCCTTTCTTGAT
107384587 CTATATGTTTTCAAAATTAACCTTTTTATTCACCAAATAATTCAATTCAATCCATAAACACATAT
326 CTATATGTTTTCAAAATTAACCTTTTTATTCACCAAATAATTCAATTCAATCCATAAACACATAT
*
107384652 TTAGGGCATTTTACAAACTAGCCCTCACATTTTTACATTTCGACACTTTAGTCCCTATTTTACAA
391 TTAGGGCATTTTACAAACTAGCCCTCACATTTTTACATTTCGACACTTTAGTCCCTATTTCACAA
* * *
107384717 ATTCACAAAATACACATAATTTGCATATACACAAGCTTAGCCGAATTTTCCTAGTACTCATACTA
456 ATTCAAAAAATACACATAATTTGCATATACACAAGCTTAGCCGAATTCTCCTAATACTCATACTA
*
107384782 GTCCACAAATTTAATTTATTTCACATTTTAGTCCCTCAAAATAACATTTTACAATTTAGCCCAAA
521 GTCCACAAATTTAATTTATTTCACATTTTAGTCCCACAAAATAACATTTTACAATTTAGCCCAAA
*
107384847 TTGCTCAAATTCATCGAAAACCCTCAAACAAAACA
586 TTGCTCAAATTCATCGAAAACCCTAAAACAAAACA
107384882 T
1 T
107384883 TCAAACCCAA
Statistics
Matches: 600, Mismatches: 20, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
619 54 0.09
620 355 0.59
621 191 0.32
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.33
Consensus pattern (620 bp):
TAAGGGTTAGCAGAAGCTAAAATGATTCCACACACTGAGTGCCATTTCAGTTAGCCGAAGCTAAG
TTGGTATCGCACACTTAGTGCCTTATATAGCCGAAGCTATATTAAACCGCACACTTAGTGCCAAG
CATAGTCGAATATCATTATGCTCAAATCGAAATCAAATATCTATACAATTTATGCATTACCATCG
CATTAAAACATAGCTTTAACATCATTTATCACGTACGAACTTACCTTGCACTCAGAATTGTCGAT
TGGAATTGTCTACTCGATAACCTTCGACTTTCCTCGATATAAATCCGAATTCCTCCTTTCTTGAT
CTATATGTTTTCAAAATTAACCTTTTTATTCACCAAATAATTCAATTCAATCCATAAACACATAT
TTAGGGCATTTTACAAACTAGCCCTCACATTTTTACATTTCGACACTTTAGTCCCTATTTCACAA
ATTCAAAAAATACACATAATTTGCATATACACAAGCTTAGCCGAATTCTCCTAATACTCATACTA
GTCCACAAATTTAATTTATTTCACATTTTAGTCCCACAAAATAACATTTTACAATTTAGCCCAAA
TTGCTCAAATTCATCGAAAACCCTAAAACAAAACA
Found at i:107387745 original size:39 final size:39
Alignment explanation
Indices: 107387701--107387778 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
107387691 TTCTCGCAAC
107387701 CAGAATTCACATTTACTGAATTTTGCATACAACTGTTTA
1 CAGAATTCACATTTACTGAATTTTGCATACAACTGTTTA
*
107387740 CAGAATTCACATTTACTGAATTTTGCATACAATTGTTTA
1 CAGAATTCACATTTACTGAATTTTGCATACAACTGTTTA
107387779 TCTCATAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (39 bp):
CAGAATTCACATTTACTGAATTTTGCATACAACTGTTTA
Found at i:107391102 original size:42 final size:42
Alignment explanation
Indices: 107391055--107391161 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
107391045 TATTGGTCTC
107391055 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
107391097 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
107391139 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
107391162 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:107391226 original size:27 final size:28
Alignment explanation
Indices: 107391169--107391238 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
107391159 AAAATTGTAC
**
107391169 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
107391197 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
107391224 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107391239 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:107398186 original size:40 final size:39
Alignment explanation
Indices: 107398141--107398270 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
107398131 CGGAATATAA
107398141 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
107398181 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
107398221 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
107398261 CCGGATATAA
1 CCGGATATAA
107398271 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:107398285 original size:40 final size:40
Alignment explanation
Indices: 107398157--107398308 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
107398147 ATAACCATGT
* * *
107398157 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
107398197 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
107398237 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
107398277 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
107398309 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:107398291 original size:80 final size:80
Alignment explanation
Indices: 107398157--107398306 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
107398147 ATAACCATGT
*
107398157 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
107398221 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
107398237 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
107398300 CCCGGAT
64 CCCGGAT
107398307 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:107408595 original size:40 final size:39
Alignment explanation
Indices: 107408427--107408597 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
107408417 AGAAATTGAA
* *
107408427 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
107408467 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
107408507 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
107408547 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
107408587 TGATATCCGGG
1 TGATATCCGGG
107408598 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:107412232 original size:40 final size:40
Alignment explanation
Indices: 107412188--107412378 Score: 339
Period size: 40 Copynumber: 4.8 Consensus size: 40
107412178 GAGAATTGAG
107412188 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
107412228 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
107412268 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
107412308 AGTGATGTA-CCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
107412347 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
107412379 ATCATGCTGG
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 38 0.26
40 109 0.74
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:107412373 original size:79 final size:80
Alignment explanation
Indices: 107412188--107412378 Score: 339
Period size: 79 Copynumber: 2.4 Consensus size: 80
107412178 GAGAATTGAG
*
107412188 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
107412253 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
107412268 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA-CCGGACTAAGTCCCG
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
107412332 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
* * *
107412347 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
107412379 ATCATGCTGG
Statistics
Matches: 107, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
79 58 0.54
80 49 0.46
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
AAGAGCATTCGTGCT
Found at i:107416108 original size:11 final size:11
Alignment explanation
Indices: 107416092--107416116 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
107416082 GTGAAAGTGT
107416092 ATATATATGTG
1 ATATATATGTG
107416103 ATATATATGTG
1 ATATATATGTG
107416114 ATA
1 ATA
107416117 AGGCCTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (11 bp):
ATATATATGTG
Found at i:107416131 original size:60 final size:60
Alignment explanation
Indices: 107416038--107416206 Score: 227
Period size: 49 Copynumber: 3.0 Consensus size: 60
107416028 ATGAATGTGA
* *
107416038 ATGTGTATAAATATGAGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
107416098 ATGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--G-------
1 ATGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
107416149 -TGT-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
107416207 GTGATAAGGC
Statistics
Matches: 97, Mismatches: 2, Indels: 22
0.80 0.02 0.18
Matches are distributed among these distances:
49 45 0.46
50 3 0.03
51 1 0.01
58 1 0.01
59 15 0.15
60 32 0.33
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (60 bp):
ATGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
Found at i:107416157 original size:47 final size:47
Alignment explanation
Indices: 107416104--107416316 Score: 264
Period size: 47 Copynumber: 4.3 Consensus size: 47
107416094 ATATATGTGA
107416104 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107416151 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
107416200 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGAATGTGAAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A-AA-GT----G
* * * * * * *
107416254 TGTATTATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATA-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
107416302 TATAAATGTGATAAG
1 TATATATGTGATAAG
107416317 TCCCGAAGGG
Statistics
Matches: 146, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
47 50 0.34
48 5 0.03
49 49 0.34
50 2 0.01
52 2 0.01
53 2 0.01
54 5 0.03
55 31 0.21
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:107416158 original size:49 final size:49
Alignment explanation
Indices: 107416103--107416316 Score: 274
Period size: 49 Copynumber: 4.3 Consensus size: 49
107416093 TATATATGTG
107416103 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
107416152 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
107416200 -TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGAATGTGAA
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A-AA-GTG-T
* * * * * * *
107416252 AGTGTATTATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGT
1 A-TATA-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
107416303 ATA-A-ATGTGATAAG
1 ATATATATGTGATAAG
107416317 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
47 50 0.34
48 1 0.01
49 51 0.35
50 4 0.03
51 1 0.01
52 3 0.02
53 2 0.01
54 4 0.03
55 31 0.21
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:107416288 original size:55 final size:56
Alignment explanation
Indices: 107416180--107416297 Score: 166
Period size: 55 Copynumber: 2.1 Consensus size: 56
107416170 CTAATGGCCG
* * * *
107416180 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
* * *
107416236 ATGTGAAGAATGTGAAAGTGTAT-TATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
107416291 ATGTGAA
1 ATGTGAA
107416298 AGTGTATAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
55 33 0.60
56 22 0.40
ACGTcount: A:0.31, C:0.08, G:0.33, T:0.28
Consensus pattern (56 bp):
ATGTGAAGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGA
Found at i:107425899 original size:37 final size:37
Alignment explanation
Indices: 107425840--107425948 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
107425830 AGCTCAGACG
* *
107425840 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
107425877 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGTCA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
107425914 TAATCTCCACACGTAGTCATCGGTTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
107425949 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:107426149 original size:48 final size:48
Alignment explanation
Indices: 107426095--107426229 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
107426085 GCACATCACC
*
107426095 TACATATTTCACACTAGCCATTCGTCTTTACCACATATACATACCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* *
107426143 TACATATTTCGCACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
* * *
107426191 TACATATTTCACATTAGCCATTCGGCCTTATCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
107426230 TGCATGTTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATACCTCA
Found at i:107426264 original size:47 final size:47
Alignment explanation
Indices: 107426199--107426486 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
107426189 CATACATATT
* * * *
107426199 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * *
107426246 TCATATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
107426293 TCATATTGGCCATTCGGCCTTATCACACATATGCATGCTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
107426340 TCACATTGTCCATTCGTCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
107426387 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * *
107426434 TTACAGTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
107426481 TCACAT
1 TCACAT
107426487 AAAATCCTAA
Statistics
Matches: 225, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 225 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:107426343 original size:25 final size:25
Alignment explanation
Indices: 107426314--107426391 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
107426304 ATTCGGCCTT
107426314 ATCACACATATGCATGCTCATATTC
1 ATCACACATATGCATGCTCATATTC
* * * * *
107426339 ATCACA-TTGTCCAT--TCGTCCTT-
1 ATCACACATATGCATGCTCAT-ATTC
*
107426361 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCATATTC
107426386 ATCACA
1 ATCACA
107426392 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 9 0.24
23 7 0.19
24 7 0.19
25 14 0.38
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGCTCATATTC
Found at i:107432800 original size:41 final size:41
Alignment explanation
Indices: 107432754--107432833 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
107432744 AACACAACTA
107432754 TTTCAAAAGAAACAATGTTGCTATTGCATTCTATTTTACTG
1 TTTCAAAAGAAACAATGTTGCTATTGCATTCTATTTTACTG
* * *
107432795 TTTCAAAATAAAGAATGTTGCTATTGGATTCTATTTTAC
1 TTTCAAAAGAAACAATGTTGCTATTGCATTCTATTTTAC
107432834 AAGAAAGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (41 bp):
TTTCAAAAGAAACAATGTTGCTATTGCATTCTATTTTACTG
Found at i:107437751 original size:13 final size:13
Alignment explanation
Indices: 107437733--107437772 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
107437723 ACCTCCTCCA
107437733 TTTTTTCTTCTTC
1 TTTTTTCTTCTTC
107437746 TTTTTTC-TCTTAC
1 TTTTTTCTTCTT-C
*
107437759 TTCTTTCTTCTTC
1 TTTTTTCTTCTTC
107437772 T
1 T
107437773 CTTTGGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 4 0.17
13 16 0.67
14 4 0.17
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:107441418 original size:46 final size:46
Alignment explanation
Indices: 107441368--107441493 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
107441358 TGGTTGAGCA
*
107441368 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
107441414 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
107441460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
107441494 GGGCGGGTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:107441753 original size:19 final size:20
Alignment explanation
Indices: 107441716--107441753 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
107441706 ATAAGGTGGT
107441716 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
107441736 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
107441754 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:107446899 original size:18 final size:18
Alignment explanation
Indices: 107446876--107446911 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
107446866 GATAGACTGG
107446876 CAGGTAATGAATTCTATT
1 CAGGTAATGAATTCTATT
*
107446894 CAGGTAATGAATTTTATT
1 CAGGTAATGAATTCTATT
107446912 ATTTTTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (18 bp):
CAGGTAATGAATTCTATT
Found at i:107447804 original size:25 final size:25
Alignment explanation
Indices: 107447766--107447815 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
107447756 GAAAGATGTA
* *
107447766 AAACTGAGGATAATTCGTTGGATAC
1 AAACCGAGGATAATTCATTGGATAC
*
107447791 AAACCGAGGCTAATTCATTGGATAC
1 AAACCGAGGATAATTCATTGGATAC
107447816 TTTTACTCCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (25 bp):
AAACCGAGGATAATTCATTGGATAC
Found at i:107456366 original size:11 final size:11
Alignment explanation
Indices: 107456330--107456385 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
107456320 CATGGTATGT
107456330 ATGATATGCAC
1 ATGATATGCAC
* *
107456341 ATGACATG--T
1 ATGATATGCAC
107456350 ATGATATGCAC
1 ATGATATGCAC
*
107456361 ATGATATG--T
1 ATGATATGCAC
107456370 ATGATATGCAC
1 ATGATATGCAC
107456381 ATGAT
1 ATGAT
107456386 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:107456385 original size:20 final size:20
Alignment explanation
Indices: 107456319--107456385 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107456309 ATTTTGATAA
*
107456319 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
107456339 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
107456359 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
107456379 ACATGAT
1 ACATGAT
107456386 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:107456464 original size:25 final size:25
Alignment explanation
Indices: 107456436--107456579 Score: 213
Period size: 25 Copynumber: 5.9 Consensus size: 25
107456426 AGGAAGTGTA
107456436 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
107456461 AAAGGGCTTACGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
*
107456486 AAAGGGCTTATGCCCCAATTATGAT
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
107456511 AAAGGGCTTATGCCCCAATTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
* *
107456535 AAAGGGCTTATGCCCTAGTTATTA-
1 AAAGGGCTTATGCCCCAGTTATGAT
107456559 AAAGGGCTT-TGCCCCAGTTAT
1 AAAGGGCTTATGCCCCAGTTAT
107456580 TAAAAGAGGC
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
23 11 0.10
24 31 0.28
25 70 0.62
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTATGAT
Found at i:107458371 original size:40 final size:40
Alignment explanation
Indices: 107458310--107458487 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
107458300 TGGATGATAA
* * * *
107458310 CCGGCCTAAGTCCCGACGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
107458350 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
107458390 CTGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
107458430 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
107458470 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
107458488 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:107460123 original size:14 final size:14
Alignment explanation
Indices: 107460104--107460132 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
107460094 CTAGACAAGC
107460104 TTTTTATAGCGTGA
1 TTTTTATAGCGTGA
107460118 TTTTTATAGCGTGA
1 TTTTTATAGCGTGA
107460132 T
1 T
107460133 GAATGATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
TTTTTATAGCGTGA
Found at i:107462921 original size:59 final size:59
Alignment explanation
Indices: 107462853--107462970 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
107462843 CCACATGAGA
*
107462853 AAAATTATCCGACCCATGATCTCGAACTAGCTGCCATCGTATTCGCTTTGAAAATATGG
1 AAAATTATCCGACCCATGATCTCGAACTAGCTGCCATCGTATTAGCTTTGAAAATATGG
*
107462912 AAAATTATCCGACCCATGATCTCGAGCTAGCTGCCATCGTATTAGCTTTGAAAATATGG
1 AAAATTATCCGACCCATGATCTCGAACTAGCTGCCATCGTATTAGCTTTGAAAATATGG
107462971 CGACATTACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (59 bp):
AAAATTATCCGACCCATGATCTCGAACTAGCTGCCATCGTATTAGCTTTGAAAATATGG
Found at i:107466383 original size:40 final size:40
Alignment explanation
Indices: 107466317--107466574 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
107466307 CGGATGATAA
* * * *
107466317 CCGGCCTAAATCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
107466357 CCGGGCTAAGCCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
107466397 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
107466437 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
107466477 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
107466517 CCGGGCTAAGTCTCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
107466557 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
107466575 TACTTGGTTT
Statistics
Matches: 197, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 180 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:107469833 original size:27 final size:28
Alignment explanation
Indices: 107469777--107469846 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
107469767 AAATTTGTAC
107469777 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
107469805 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107469832 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107469847 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:107476753 original size:7 final size:7
Alignment explanation
Indices: 107476741--107476765 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
107476731 GTTGTCTTCT
107476741 TGTTTGA
1 TGTTTGA
107476748 TGTTTGA
1 TGTTTGA
107476755 TGTTTGA
1 TGTTTGA
107476762 TGTT
1 TGTT
107476766 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:107477691 original size:27 final size:28
Alignment explanation
Indices: 107477635--107477704 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
107477625 AAATTTGTAC
107477635 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
107477663 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
107477690 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
107477705 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:107481254 original size:24 final size:22
Alignment explanation
Indices: 107481227--107481333 Score: 99
Period size: 24 Copynumber: 4.6 Consensus size: 22
107481217 AACAAACGTT
*
107481227 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-G-TC
* *
107481251 GCACACATAGT-CATAGTAAATC
1 GCACACATAGTGCTTAGT-AGTC
107481273 GCACACATAGTGCTATAGTAAGTC
1 GCACACATAGTGCT-TAGT-AGTC
* *
107481297 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGT-AGTC
107481321 GCACACATAGTGC
1 GCACACATAGTGC
107481334 ATTTGAGATT
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
22 13 0.18
23 6 0.08
24 52 0.72
25 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (22 bp):
GCACACATAGTGCTTAGTAGTC
Found at i:107481274 original size:22 final size:23
Alignment explanation
Indices: 107481249--107481335 Score: 140
Period size: 24 Copynumber: 3.7 Consensus size: 23
107481239 CTTATTATGT
107481249 TCGCACACATAGT-CATAGTAAA
1 TCGCACACATAGTGCATAGTAAA
*
107481271 TCGCACACATAGTGCTATAGTAAG
1 TCGCACACATAGTGC-ATAGTAAA
107481295 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTG-CATAGTAAA
107481319 TCGCACACATAGTGCAT
1 TCGCACACATAGTGCAT
107481336 TTGAGATTCC
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
22 13 0.22
23 4 0.07
24 42 0.70
25 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (23 bp):
TCGCACACATAGTGCATAGTAAA
Found at i:107481299 original size:46 final size:47
Alignment explanation
Indices: 107481227--107481333 Score: 164
Period size: 46 Copynumber: 2.3 Consensus size: 47
107481217 AACAAACGTT
* *
107481227 GCACACATAGTGCTTATTATGTTCGCACACATAGT-CATAGTAAATC
1 GCACACATAGTGCTTAGTAAGTTCGCACACATAGTCCATAGTAAATC
107481273 GCACACATAGTGCTATAGTAAG-TCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTAAGTTCGCACACATAGT-CCATAGTAAATC
107481321 GCACACATAGTGC
1 GCACACATAGTGC
107481334 ATTTGAGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
46 27 0.48
47 5 0.09
48 24 0.43
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAGTTCGCACACATAGTCCATAGTAAATC
Found at i:107493170 original size:40 final size:40
Alignment explanation
Indices: 107493126--107493229 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
107493116 GTTCAAAACA
* * ***
107493126 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
107493166 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
*
107493206 CCTTCGGG-CTTAGCCCGGGTATCA
1 CCTTCGGGACTTAGCCCGGATATCA
107493230 TAGCCCGGAT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.26
40 40 0.74
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:107493235 original size:14 final size:14
Alignment explanation
Indices: 107493216--107493247 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
107493206 CCTTCGGGCT
*
107493216 TAGCCCGGGTATCA
1 TAGCCCGGATATCA
107493230 TAGCCCGGATATCA
1 TAGCCCGGATATCA
107493244 TAGC
1 TAGC
107493248 TCGCACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (14 bp):
TAGCCCGGATATCA
Found at i:107493260 original size:53 final size:53
Alignment explanation
Indices: 107493180--107493282 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
107493170 CGGGACTTAA
* *
107493180 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAG
1 CCCGGATATCACAACTCGCACAATTGCCTTCGAGCTTAGCCCGGATATCATAG
* *
107493233 CCCGGATATCATAGCTCGCACAATTGCCTTCGAGCTTAGCCCGGATATCA
1 CCCGGATATCACAACTCGCACAATTGCCTTCGAGCTTAGCCCGGATATCA
107493283 CTCGAACATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (53 bp):
CCCGGATATCACAACTCGCACAATTGCCTTCGAGCTTAGCCCGGATATCATAG
Found at i:107496005 original size:40 final size:39
Alignment explanation
Indices: 107495840--107496023 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
107495830 AAATTGAATG
* * *
107495840 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
107495880 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
107495920 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
107495960 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
107495999 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
107496024 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:107496048 original size:80 final size:81
Alignment explanation
Indices: 107495880--107496068 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
107495870 GCTGGAAATT
* * * *
107495880 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
107495945 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
107495961 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
107496024 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
107496040 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
107496069 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:107504417 original size:40 final size:40
Alignment explanation
Indices: 107504373--107504475 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
107504363 GTTCAAAACA
* ***
107504373 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
* * * *
107504413 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
107504453 CCTTCGGG-CTTAGCCCGG-TATCA
1 CCTTCGGGACTTAGCCCGGTTATCA
107504476 TAGCCCGGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.09
39 9 0.17
40 40 0.74
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATCACAACCCGCACAAATG
Found at i:107504481 original size:13 final size:14
Alignment explanation
Indices: 107504463--107504493 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
107504453 CCTTCGGGCT
107504463 TAGCCCGG-TATCA
1 TAGCCCGGATATCA
107504476 TAGCCCGGATATCA
1 TAGCCCGGATATCA
107504490 TAGC
1 TAGC
107504494 TCGCACAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (14 bp):
TAGCCCGGATATCA
Found at i:107504505 original size:52 final size:52
Alignment explanation
Indices: 107504427--107504527 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 52
107504417 CGGGACTTAA
107504427 CCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAG
1 CCCGGATATCACAACTCGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAG
* *
107504479 CCCGGATATCATAGCTCGCACAATTGCCTTCGGCTTAGCCCGGATATCA
1 CCCGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGATATCA
107504528 CTCGAACATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 12 0.26
52 34 0.74
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.24
Consensus pattern (52 bp):
CCCGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGATATCATAG
Found at i:107512251 original size:40 final size:40
Alignment explanation
Indices: 107512194--107512379 Score: 277
Period size: 40 Copynumber: 4.7 Consensus size: 40
107512184 GTATGATATT
* *
107512194 TGGAATTGTATCTGGGCTTAAAGATCCACAGGCTATATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
*
107512234 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGA
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
*
107512274 TGGAATTGTATCCGGGCTTAAAGACCTACAGGCTATATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
**
107512314 TGGAATTGTATCCGGGAATAAAGACCCACAGGCT-TCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTAT-ATGC
* *
107512354 TAGAATGGTATCCGGG-TTAAAGACCC
1 TGGAATTGTATCCGGGCTTAAAGACCC
107512380 GTAGGCTTGC
Statistics
Matches: 134, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 10 0.07
40 124 0.93
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCACAGGCTATATGC
Found at i:107512733 original size:2 final size:2
Alignment explanation
Indices: 107512726--107512754 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
107512716 ATTTCTTGTG
107512726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107512755 TCGGCTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107516088 original size:19 final size:20
Alignment explanation
Indices: 107516064--107516101 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
107516054 GGTACCACCA
107516064 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
107516083 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
107516102 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:107532084 original size:23 final size:24
Alignment explanation
Indices: 107532053--107532102 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
107532043 AATAAAAATC
107532053 AAAAGAAAAAATAA-AAT-AATAAA
1 AAAAG-AAAAATAAGAATAAATAAA
*
107532076 AAAATAAAAATAAGAATAAATAAA
1 AAAAGAAAAATAAGAATAAATAAA
107532100 AAA
1 AAA
107532103 TAGGAGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 7 0.29
24 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAAGAAAAATAAGAATAAATAAA
Found at i:107532102 original size:17 final size:16
Alignment explanation
Indices: 107532059--107532104 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
107532049 AATCAAAAGA
107532059 AAAAATAAAATAATAA-
1 AAAAATAAAA-AATAAG
107532075 AAAAAT-AAAAATAAG
1 AAAAATAAAAAATAAG
107532090 AATAAATAAAAAATA
1 AA-AAATAAAAAATA
107532105 GGAGGATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
16 10 0.37
17 7 0.26
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAAATAAAAAATAAG
Found at i:107533601 original size:22 final size:22
Alignment explanation
Indices: 107533575--107533622 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
107533565 GTGCATGGGA
107533575 GTGTTGGTCGACGAGCACGGGC
1 GTGTTGGTCGACGAGCACGGGC
* * *
107533597 GTGTTGGTTGGCGAGCACGGGT
1 GTGTTGGTCGACGAGCACGGGC
107533619 GTGT
1 GTGT
107533623 GACGCGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.17, G:0.48, T:0.25
Consensus pattern (22 bp):
GTGTTGGTCGACGAGCACGGGC
Found at i:107535564 original size:29 final size:29
Alignment explanation
Indices: 107535531--107535587 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
107535521 ACACGTGCTG
107535531 TAAATTTTATATTGAATTTTTTGTTAGGA
1 TAAATTTTATATTGAATTTTTTGTTAGGA
107535560 TAAATTTTATATTGAATTTTTTGTTAGG
1 TAAATTTTATATTGAATTTTTTGTTAGG
107535588 CTCACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (29 bp):
TAAATTTTATATTGAATTTTTTGTTAGGA
Found at i:107538056 original size:60 final size:60
Alignment explanation
Indices: 107537963--107538079 Score: 234
Period size: 60 Copynumber: 1.9 Consensus size: 60
107537953 CGCTATGAAG
107537963 AATCTCGATAAATGAATAAAATTTGACTTAAATTTTCTGCAAATGTTCTGAAAAACTAAT
1 AATCTCGATAAATGAATAAAATTTGACTTAAATTTTCTGCAAATGTTCTGAAAAACTAAT
107538023 AATCTCGATAAATGAATAAAATTTGACTTAAATTTTCTGCAAATGTTCTGAAAAACT
1 AATCTCGATAAATGAATAAAATTTGACTTAAATTTTCTGCAAATGTTCTGAAAAACT
107538080 CTGGTAACGC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (60 bp):
AATCTCGATAAATGAATAAAATTTGACTTAAATTTTCTGCAAATGTTCTGAAAAACTAAT
Found at i:107558197 original size:5 final size:5
Alignment explanation
Indices: 107558187--107558214 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
107558177 TGTATCTGGG
107558187 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
107558215 GAAAACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:107559712 original size:46 final size:46
Alignment explanation
Indices: 107559537--107559712 Score: 153
Period size: 46 Copynumber: 3.8 Consensus size: 46
107559527 TGTAACCCAC
** **
107559537 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
107559583 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA---C--GTTCGCAT
* * * *
107559633 -C-TCA-CGAACACAAACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
* ** *
107559676 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
107559713 TGCCCAAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 2 0.02
45 2 0.02
46 58 0.56
47 26 0.25
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:107564699 original size:117 final size:116
Alignment explanation
Indices: 107564494--107564728 Score: 389
Period size: 117 Copynumber: 2.0 Consensus size: 116
107564484 CATCAGCTTC
* * *
107564494 ACTGGAATTTTTTGGTTGTTTTCCCTTTGATTCGTTGCCTCACTTTTAATCTTGTTCTGTAACTT
1 ACTGGAATTTTCTGGTTGTTTCCCCTTTGATTCGTAGCCTCACTTTTAATCTTGTTCTGTAACTT
*
107564559 ATAGCACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGTTTT
66 ATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGTTTT
* * **
107564610 ACTGGAATTTTCTGGTTGTTTCCCCTTTTTATTCGTAGCCTCCCTTTTAATCTTGTTCTGTAGTT
1 ACTGGAATTTTCTGGTTGTTTCCCC-TTTGATTCGTAGCCTCACTTTTAATCTTGTTCTGTAACT
107564675 TATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGTTTT
65 TATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGTTTT
107564727 AC
1 AC
107564729 CTCTGTTTGA
Statistics
Matches: 110, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
116 23 0.21
117 87 0.79
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (116 bp):
ACTGGAATTTTCTGGTTGTTTCCCCTTTGATTCGTAGCCTCACTTTTAATCTTGTTCTGTAACTT
ATAACACTCAGATTTAATGTGCCCTTTCTTCTTGCAGAAGTTACAAGTTTT
Found at i:107570375 original size:29 final size:29
Alignment explanation
Indices: 107570285--107570444 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
107570275 ACTCGATTTC
* * **
107570285 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
107570314 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
107570342 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
107570372 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
107570401 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
107570430 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
107570445 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:107578336 original size:29 final size:29
Alignment explanation
Indices: 107578246--107578405 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
107578236 ACTCGATTTC
* * **
107578246 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
107578275 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
107578303 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
107578333 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
107578362 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
107578391 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
107578406 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:107586932 original size:13 final size:13
Alignment explanation
Indices: 107586914--107586941 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
107586904 GCTTGACAGG
107586914 GACACACCCGTGT
1 GACACACCCGTGT
107586927 GACACACCCGTGT
1 GACACACCCGTGT
107586940 GA
1 GA
107586942 GGTGGCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.14
Consensus pattern (13 bp):
GACACACCCGTGT
Found at i:107589014 original size:33 final size:32
Alignment explanation
Indices: 107588969--107589143 Score: 116
Period size: 33 Copynumber: 5.2 Consensus size: 32
107588959 ACATTCGTAG
*
107588969 TGCCATAACCCAGTTATGGTCTTATCATTAAAA
1 TGCCATAACCCAGCTATGGTCTTA-CATTAAAA
* *
107589002 TGTCATATCCCAGCTATGGTCTTACATATAAACA
1 TGCCATAACCCAGCTATGGTCTTACAT-TAAA-A
*** * * *
107589036 CTGCCATGGTCCAACCATGGTCTTACATTAATAG
1 -TGCCATAACCCAGCTATGGTCTTACATTAA-AA
* * * *
107589070 TGCCATAACCCAGTTATGGTCTTGTCATCAGAA
1 TGCCATAACCCAGCTATGGTCTT-ACATTAAAA
* * * *
107589103 TGTCATAGCCTAGCTATAGTCTTACATATAAACA
1 TGCCATAACCCAGCTATGGTCTTACAT-TAAA-A
107589137 CTGCCAT
1 -TGCCAT
107589144 GGTCCAACCA
Statistics
Matches: 105, Mismatches: 29, Indels: 14
0.71 0.20 0.09
Matches are distributed among these distances:
32 6 0.06
33 63 0.60
34 9 0.09
35 27 0.26
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (32 bp):
TGCCATAACCCAGCTATGGTCTTACATTAAAA
Found at i:107589118 original size:101 final size:101
Alignment explanation
Indices: 107588939--107589161 Score: 347
Period size: 101 Copynumber: 2.2 Consensus size: 101
107588929 TATGCATTGT
* * * ** *
107588939 CATGGCCCTACCATGGTTTTACATTCGTAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATG
1 CATGGTCCAACCATGGTCTTACATTAATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
* *
107589004 TCATATCCCAGCTATGGTCTTACATATAAACACTGC
66 TCATAGCCCAGCTATAGTCTTACATATAAACACTGC
* *
107589040 CATGGTCCAACCATGGTCTTACATTAATAGTGCCATAACCCAGTTATGGTCTTGTCATCAGAATG
1 CATGGTCCAACCATGGTCTTACATTAATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
*
107589105 TCATAGCCTAGCTATAGTCTTACATATAAACACTGC
66 TCATAGCCCAGCTATAGTCTTACATATAAACACTGC
107589141 CATGGTCCAACCATGGTCTTA
1 CATGGTCCAACCATGGTCTTA
107589162 TGTTTGAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 111 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (101 bp):
CATGGTCCAACCATGGTCTTACATTAATAGTGCCATAACCCAGTTATGGTCTTATCATCAAAATG
TCATAGCCCAGCTATAGTCTTACATATAAACACTGC
Found at i:107590160 original size:15 final size:13
Alignment explanation
Indices: 107590130--107590155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107590120 ATAAATTTAA
107590130 AAAAATCATACAT
1 AAAAATCATACAT
107590143 AAAAATCATACAT
1 AAAAATCATACAT
107590156 TTAAACCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAAATCATACAT
Found at i:107593662 original size:30 final size:30
Alignment explanation
Indices: 107593628--107593688 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
107593618 TCCTTAACTC
107593628 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
107593658 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
107593688 A
1 A
107593689 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:107598105 original size:30 final size:30
Alignment explanation
Indices: 107598071--107598131 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
107598061 TCCTTAACTC
107598071 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
107598101 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
107598131 A
1 A
107598132 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:107600896 original size:68 final size:64
Alignment explanation
Indices: 107600831--107601038 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
107600821 CATCATGTGT
*
107600831 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
107600896 TAG
62 TAG
* * * * * * *
107600899 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
107600964 AG
63 AG
* * * * *
107600966 ACAAGAGAGCTACGAGATAAACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATA-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
107601028 TACAAGAGAGC
1 -ACAAGAGAGC
107601039 CGAACCATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 18 0.16
67 31 0.27
68 15 0.13
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:107602905 original size:17 final size:17
Alignment explanation
Indices: 107602883--107602922 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
107602873 TCGATTATAG
107602883 CATATATTAATTCCAAA
1 CATATATTAATTCCAAA
107602900 CATATATTAATTCCAAA
1 CATATATTAATTCCAAA
107602917 CATATA
1 CATATA
107602923 AAATGAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.35
Consensus pattern (17 bp):
CATATATTAATTCCAAA
Found at i:107609966 original size:31 final size:31
Alignment explanation
Indices: 107609928--107609987 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
107609918 TTCACACTTC
107609928 ATATTTCATAACACTCGGCCGAAGCCTTTTT
1 ATATTTCATAACACTCGGCCGAAGCCTTTTT
** *
107609959 ATATTTCATATTACTGGGCCGAAGCCTTT
1 ATATTTCATAACACTCGGCCGAAGCCTTT
107609988 ACTGTAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (31 bp):
ATATTTCATAACACTCGGCCGAAGCCTTTTT
Found at i:107610274 original size:48 final size:48
Alignment explanation
Indices: 107610172--107610349 Score: 211
Period size: 48 Copynumber: 3.6 Consensus size: 48
107610162 AGCATAGCTG
* *
107610172 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCA-AAACC
1 CTTTATC--ATAACTGG-GGCATAAGCC-CTTTTAATAACT-GGGCATAAGCC
* *
107610223 CTTT-TAATAACTGGGGCATAAGCGCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCC
*
107610271 CTTTATCATAACTGGGGCATAAGCCCTTTATCATAACT-GGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTT-TAATAACTGGGCATAAGCC
*
107610319 CTTTATCATAACTGGGCCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
107610350 CACTTCCTCC
Statistics
Matches: 113, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
47 22 0.19
48 57 0.50
49 22 0.19
50 8 0.07
51 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGCATAAGCC
Found at i:107610287 original size:25 final size:25
Alignment explanation
Indices: 107610172--107610347 Score: 195
Period size: 25 Copynumber: 7.2 Consensus size: 25
107610162 AGCATAGCTG
*
107610172 CTTTATCATATAACTGGAGGCCT-AGCC
1 CTTTATC--ATAACTGG-GGCATAAGCC
* * *
107610199 TCTTT-TAATAACTAGGGCA-AAACC
1 -CTTTATCATAACTGGGGCATAAGCC
* *
107610223 CTTT-TAATAACTGGGGCATAAGCG
1 CTTTATCATAACTGGGGCATAAGCC
*
107610247 CTTT-TAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
107610271 CTTTATCATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
107610296 CTTTATCATAACT--GGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
*
107610319 CTTTATCATAACTGGGCCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCC
107610344 CTTT
1 CTTT
107610348 TACACTTCCT
Statistics
Matches: 133, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
23 40 0.30
24 36 0.27
25 52 0.39
27 1 0.01
28 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
CTTTATCATAACTGGGGCATAAGCC
Found at i:107610423 original size:20 final size:20
Alignment explanation
Indices: 107610398--107610464 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107610388 TTATGAATAC
107610398 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
107610418 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
107610438 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
107610458 ACCATGT
1 ATCATGT
107610465 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:107610429 original size:11 final size:11
Alignment explanation
Indices: 107610398--107610453 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
107610388 TTATGAATAC
107610398 ATCATGTGCAT
1 ATCATGTGCAT
*
107610409 ATCA--TACAT
1 ATCATGTGCAT
107610418 ATCATGTGCAT
1 ATCATGTGCAT
*
107610429 ATCA--TACAT
1 ATCATGTGCAT
*
107610438 GTCATGTGCAT
1 ATCATGTGCAT
107610449 ATCAT
1 ATCAT
107610454 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:107624723 original size:31 final size:31
Alignment explanation
Indices: 107624685--107624748 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
107624675 CCTTTTCATA
107624685 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
107624716 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
107624747 TT
1 TT
107624749 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:107624991 original size:24 final size:24
Alignment explanation
Indices: 107624940--107625058 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
107624930 GCTTTATCAT
*
107624940 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
107624965 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
107624989 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
107625012 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
107625036 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
107625059 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:107625019 original size:47 final size:48
Alignment explanation
Indices: 107624940--107625058 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
107624930 GCTTTATCAT
*
107624940 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
107624989 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
107625036 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
107625059 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:107625137 original size:20 final size:20
Alignment explanation
Indices: 107625109--107625147 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
107625099 TATGATTACC
*
107625109 TCATGTGCATATCATACATT
1 TCATATGCATATCATACATT
107625129 TCATATGCATATCATACAT
1 TCATATGCATATCATACAT
107625148 ACCATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (20 bp):
TCATATGCATATCATACATT
Found at i:107625153 original size:20 final size:20
Alignment explanation
Indices: 107625114--107625154 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
107625104 TTACCTCATG
**
107625114 TGCATATCATACATTTCATA
1 TGCATATCATACATACCATA
107625134 TGCATATCATACATACCATA
1 TGCATATCATACATACCATA
107625154 T
1 T
107625155 TTATCAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.05, T:0.37
Consensus pattern (20 bp):
TGCATATCATACATACCATA
Found at i:107625223 original size:25 final size:25
Alignment explanation
Indices: 107625191--107625238 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
107625181 ATACATAAAC
* * *
107625191 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
107625216 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
107625239 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:107627292 original size:21 final size:21
Alignment explanation
Indices: 107627266--107627315 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
107627256 CTCTTTGGTC
107627266 CTTCTTTGACTTGCTTGTCTT
1 CTTCTTTGACTTGCTTGTCTT
107627287 CTTCTTTGACTTGCTTGTCTT
1 CTTCTTTGACTTGCTTGTCTT
107627308 CTTCTTTG
1 CTTCTTTG
107627316 TCGGAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.04, C:0.24, G:0.14, T:0.58
Consensus pattern (21 bp):
CTTCTTTGACTTGCTTGTCTT
Found at i:107631867 original size:13 final size:14
Alignment explanation
Indices: 107631842--107631870 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
107631832 GTTCTATAGT
107631842 AATCCACAAAATAA
1 AATCCACAAAATAA
107631856 AATCCA-AAAATAA
1 AATCCACAAAATAA
107631869 AA
1 AA
107631871 GTTAAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (14 bp):
AATCCACAAAATAA
Found at i:107632285 original size:22 final size:22
Alignment explanation
Indices: 107632260--107632314 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
107632250 GAAAAATTCT
107632260 CACTGATTAACAGATAAACTAC
1 CACTGATTAACAGATAAACTAC
*** *
107632282 CACTGATTTGTAGATAAATTAC
1 CACTGATTAACAGATAAACTAC
107632304 CACTG-TTAACA
1 CACTGATTAACA
107632315 CTGATGTGGA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (22 bp):
CACTGATTAACAGATAAACTAC
Found at i:107633053 original size:11 final size:12
Alignment explanation
Indices: 107633027--107633056 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
107633017 GATTGTTTCC
107633027 AAAATGGAGAGA
1 AAAATGGAGAGA
*
107633039 AAAATGGTGAGA
1 AAAATGGAGAGA
107633051 AAAATG
1 AAAATG
107633057 AAAAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.13
Consensus pattern (12 bp):
AAAATGGAGAGA
Found at i:107636019 original size:23 final size:24
Alignment explanation
Indices: 107635974--107636059 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
107635964 CTTATTATGT
107635974 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
107635998 TCGCACACATAGTG-CATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
107636021 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
107636045 TCGCACACATAGTGC
1 TCGCACACATAGTGC
107636060 ATTTGAGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.38
24 38 0.62
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:107643739 original size:24 final size:24
Alignment explanation
Indices: 107643712--107643820 Score: 191
Period size: 24 Copynumber: 4.5 Consensus size: 24
107643702 TATTATGTTT
107643712 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
107643736 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
107643760 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
107643784 GCACACATAGTGCCATAGTAAATT
1 GCACACATAGTGCCATAGTAAATC
107643808 GCACACATAGTGC
1 GCACACATAGTGC
107643821 ATTTGAGATT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 82 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:107664335 original size:50 final size:50
Alignment explanation
Indices: 107664269--107664403 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 50
107664259 CGAGATGTGT
* * * * *
107664269 TAGTGTAAGACTATGTCAGGGACATGGCATCGGCACGCTTATG-TGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGC-GAAGATGAGAGC
* * *
107664319 TAGTGTAAGACCATGTCTGGGACATGGTATTGGC-CTCGAAGATGATAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGCGAAGATGAGAGC
* *
107664368 CAATGTAAGACCATGTCTGGGACATGGCATTGGCAC
1 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC
107664404 TTTACCCATG
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
48 2 0.03
49 39 0.54
50 31 0.43
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (50 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGCGAAGATGAGAGC
Found at i:107666334 original size:41 final size:41
Alignment explanation
Indices: 107666289--107666375 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
107666279 AAGCCTATTA
*
107666289 AGATACAGTCTCAGATATAAATTAGGGCCTTGGCCCATCTC
1 AGATACAGTCTCAGATATAAATTAAGGCCTTGGCCCATCTC
* *
107666330 AGATACAGTCTCAGATATAAATTAAGGCCTTGGTCCATCTT
1 AGATACAGTCTCAGATATAAATTAAGGCCTTGGCCCATCTC
107666371 AGATA
1 AGATA
107666376 TAGTATGCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (41 bp):
AGATACAGTCTCAGATATAAATTAAGGCCTTGGCCCATCTC
Found at i:107671398 original size:29 final size:29
Alignment explanation
Indices: 107671365--107671485 Score: 170
Period size: 29 Copynumber: 4.2 Consensus size: 29
107671355 GTGACGAGAT
* *
107671365 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
107671394 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
107671423 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* * *
107671452 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
107671481 CGGCA
1 TGGCA
107671486 TTGGGTGTGC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:107674839 original size:14 final size:15
Alignment explanation
Indices: 107674820--107674849 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107674810 AAACAACACC
107674820 TTTAGGG-TTTAGGG
1 TTTAGGGTTTTAGGG
107674834 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGGG
107674849 T
1 T
107674850 AAAATCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTTAGGG
Found at i:107674847 original size:8 final size:7
Alignment explanation
Indices: 107674820--107674849 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
107674810 AAACAACACC
107674820 TTTAGGG
1 TTTAGGG
107674827 TTTAGGG
1 TTTAGGG
107674834 TTTAGGG
1 TTTAGGG
107674841 TTTTAGGG
1 -TTTAGGG
107674849 T
1 T
107674850 AAAATCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:107676177 original size:41 final size:40
Alignment explanation
Indices: 107676117--107676212 Score: 156
Period size: 41 Copynumber: 2.4 Consensus size: 40
107676107 TCGGCCTAAA
*
107676117 CCCATTCAGATACAGTCTCAGATATAAATTAGGGCCTTGG
1 CCCATTCAGATACAATCTCAGATATAAATTAGGGCCTTGG
*
107676157 CCCATCTCGGATACAATCTCAGATATAAATTAGGGCCTTGG
1 CCCAT-TCAGATACAATCTCAGATATAAATTAGGGCCTTGG
107676198 CCCATTTCAGATACA
1 CCCA-TTCAGATACA
107676213 GTATGAGTAA
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
40 5 0.10
41 45 0.88
42 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (40 bp):
CCCATTCAGATACAATCTCAGATATAAATTAGGGCCTTGG
Found at i:107681853 original size:120 final size:121
Alignment explanation
Indices: 107681714--107681936 Score: 367
Period size: 122 Copynumber: 1.8 Consensus size: 121
107681704 AAAATAACCT
* * * *
107681714 TGAGAATGAGAATAGTAATGTAATAGGTATGAGGTTTTCCTAAT-CTCGATTTAACATGGAATGT
1 TGAGAATAAGAATAGTAATGTAATAGGTATGAGGTTTCCCTAATACTCGATTTAACACGAAATGT
107681778 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
* * *
107681834 TGAGAATAAGCATAGTAATGTTATGGGTATGAGGTTTCCCTAATAACTCGATTTAACACGAAATG
1 TGAGAATAAGAATAGTAATGTAATAGGTATGAGGTTTCCCTAAT-ACTCGATTTAACACGAAATG
107681899 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
65 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
107681937 AGAATGAGCA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
120 39 0.41
122 55 0.59
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.30
Consensus pattern (121 bp):
TGAGAATAAGAATAGTAATGTAATAGGTATGAGGTTTCCCTAATACTCGATTTAACACGAAATGT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
Found at i:107684306 original size:23 final size:23
Alignment explanation
Indices: 107684247--107684365 Score: 150
Period size: 23 Copynumber: 5.1 Consensus size: 23
107684237 AGGAAGTGCA
*
107684247 AAAGGGCTTATGCCCCAGTTGTT
1 AAAGGGCTTATGCCCCAGTTATT
*
107684270 AAAGGG-TTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
107684292 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
* **
107684315 AAAGGGTTTATGCCATAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
107684338 AAAAGGGCTTTTTGCCCCAGTTATT
1 -AAAGGGC-TTATGCCCCAGTTATT
107684363 AAA
1 AAA
107684366 AGAGGCTAGG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
22 20 0.24
23 41 0.49
24 9 0.11
25 13 0.16
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:107684317 original size:45 final size:47
Alignment explanation
Indices: 107684246--107684365 Score: 163
Period size: 45 Copynumber: 2.6 Consensus size: 47
107684236 GAGGAAGTGC
* *
107684246 AAAAGGGCTTATGCCCCAGTTGTTAAAGGG-TTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGTTTATGCCACAATTATT
* * *
107684292 -AAAGGGCTTATGCCCCAATTATTAAAGGGTTTATGCCATAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGTTTATGCCACAATTATT
*
107684338 AAAAGGGCTTTTTGCCCCAGTTATTAAA
1 AAAAGGGC-TTATGCCCCAGTTATTAAA
107684366 AGAGGCTAGG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
45 27 0.42
46 13 0.20
47 7 0.11
48 17 0.27
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGTTTATGCCACAATTATT
Found at i:107684610 original size:31 final size:31
Alignment explanation
Indices: 107684575--107684634 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
107684565 CGTTTACAGT
107684575 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
107684606 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
107684635 TAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:107693745 original size:93 final size:92
Alignment explanation
Indices: 107693587--107693756 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
107693577 GCCCCTAAGT
*
107693587 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
107693652 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
107693679 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
107693744 CGAGTTCGGATGC
65 CGAGTTCGGATGC
107693757 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:107693772 original size:46 final size:46
Alignment explanation
Indices: 107693581--107693765 Score: 159
Period size: 45 Copynumber: 4.0 Consensus size: 46
107693571 TAACCCGCCC
* * * * *
107693581 CTAAGTGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
107693627 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * * * *
107693674 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCAT
107693720 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
107693765 C
1 C
107693766 CTAGTGACAT
Statistics
Matches: 113, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 34 0.30
46 30 0.27
47 30 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:107699153 original size:46 final size:46
Alignment explanation
Indices: 107699086--107699256 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
107699076 AACCCGCCCC
107699086 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCGTTCGCATCCA
* *
107699132 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
107699180 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
107699225 TAAGTGAACTCGGACTCAACTC-ACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
107699257 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 10, Indels: 21
0.77 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 14 0.13
46 47 0.45
47 28 0.27
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:107699203 original size:93 final size:92
Alignment explanation
Indices: 107699091--107699260 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 92
107699081 GCCCCTAAGT
* *
107699091 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC-
107699155 ACGAGTTCGGATGCCTAGTTACATTTCAC
64 ACGAGTTCGGATGCCTAGTTACATTTCAC
107699184 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
107699249 GAGTTCGGATGC
66 GAGTTCGGATGC
107699261 TCAACCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 16 0.22
93 58 0.78
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:107700592 original size:20 final size:20
Alignment explanation
Indices: 107700545--107700592 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
107700535 CAAGATATTA
* *
107700545 CACATGACATGTATGCTATG
1 CACATGATATGTATGATATG
107700565 CACATGATATGTATGATATG
1 CACATGATATGTATGATATG
107700585 CACATGAT
1 CACATGAT
107700593 GTATTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (20 bp):
CACATGATATGTATGATATG
Found at i:107700673 original size:23 final size:23
Alignment explanation
Indices: 107700643--107700784 Score: 230
Period size: 23 Copynumber: 6.1 Consensus size: 23
107700633 AGGAAGTGCA
107700643 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
107700666 AAAGGGCTTATGCCCCAGCTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
107700689 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
107700712 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
107700735 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* * *
107700758 AAATGGCTTTTTGCCGCAGTTATT
1 AAAGGGC-TTATGCCCCAGTTATT
107700782 AAA
1 AAA
107700785 AGAGGCTAGG
Statistics
Matches: 111, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
23 94 0.85
24 17 0.15
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:107701035 original size:31 final size:31
Alignment explanation
Indices: 107700995--107701054 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
107700985 CGTTTACAGT
*
107700995 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGACTTCGGCCCAGTAATATGAAATATAA
**
107701026 AAAGACTTCGGCCCAGTGTTATGAAATAT
1 AAAGACTTCGGCCCAGTAATATGAAATAT
107701055 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGACTTCGGCCCAGTAATATGAAATATAA
Found at i:107716876 original size:40 final size:39
Alignment explanation
Indices: 107716831--107716960 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
107716821 CGGAATATAA
107716831 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
107716871 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
107716911 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
107716951 CCGGATATAA
1 CCGGATATAA
107716961 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:107716975 original size:40 final size:40
Alignment explanation
Indices: 107716847--107716998 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
107716837 ATAACCATGT
* * *
107716847 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
107716887 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
107716927 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
107716967 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
107716999 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:107716981 original size:80 final size:80
Alignment explanation
Indices: 107716847--107716996 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
107716837 ATAACCATGT
*
107716847 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
107716911 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
107716927 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
107716990 CCCGGAT
64 CCCGGAT
107716997 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Done.