Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 123 of 378
Found at i:34483057 original size:15 final size:15
Alignment explanation
Indices: 34483034--34483075 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
34483024 GAAGCCCAGA
34483034 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
34483049 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
34483064 ATAAGGAAATCC
1 ATAAGGAAATCC
34483076 CATTTACAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:34484871 original size:34 final size:34
Alignment explanation
Indices: 34484833--34484900 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
34484823 TCGAGACTAA
* *
34484833 ACCAATAACATTGAAAATCTTTGGGGAACTTAAC
1 ACCAAGAACATTGAAAATCTTTGGGCAACTTAAC
*
34484867 ACCAAGAACGTTGAAAATCTTTGGGCAACTTAAC
1 ACCAAGAACATTGAAAATCTTTGGGCAACTTAAC
34484901 TAATTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (34 bp):
ACCAAGAACATTGAAAATCTTTGGGCAACTTAAC
Found at i:34486498 original size:84 final size:85
Alignment explanation
Indices: 34486357--34486555 Score: 339
Period size: 84 Copynumber: 2.4 Consensus size: 85
34486347 TGTATAACAG
* * *
34486357 TGGCATATCCAC-TAGCACCACGTTACATTTTTAACTGTGGTATATCCACTTTGCACCACGTTAA
1 TGGCATATCCACTTAGCACCACGTTACATGTTTAACTGCGGTATATCCACTTAGCACCACGTTAA
34486421 TGAATCAATATATGTAACCA
66 TGAATCAATATATGTAACCA
*
34486441 TGGCATATCCACTTAGCACCACGTTACATGTTTAAC-GCGTTATATCCACTTAGCACCACGTTAA
1 TGGCATATCCACTTAGCACCACGTTACATGTTTAACTGCGGTATATCCACTTAGCACCACGTTAA
34486505 TGAATCAATATATGTAACCA
66 TGAATCAATATATGTAACCA
*
34486525 TGGCATATCCACTTAGCACCATGTTACATGT
1 TGGCATATCCACTTAGCACCACGTTACATGT
34486556 ATCAATATGT
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
84 87 0.80
85 22 0.20
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (85 bp):
TGGCATATCCACTTAGCACCACGTTACATGTTTAACTGCGGTATATCCACTTAGCACCACGTTAA
TGAATCAATATATGTAACCA
Found at i:34486581 original size:48 final size:47
Alignment explanation
Indices: 34486481--34486594 Score: 165
Period size: 48 Copynumber: 2.4 Consensus size: 47
34486471 TTTAACGCGT
34486481 TATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGG
1 TATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGG
* * * * * *
34486528 CATATCCACTTAGCACCATGTTACATGTATCAATATGTGTAATCGTGG
1 TATATCCACTTAGCACCACGTTA-ATGAATCAATATATGTAACCATGG
34486576 TATATCCACTTAGCACCAC
1 TATATCCACTTAGCACCAC
34486595 ATTTTTTTCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 21 0.36
48 37 0.64
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (47 bp):
TATATCCACTTAGCACCACGTTAATGAATCAATATATGTAACCATGG
Found at i:34491305 original size:71 final size:71
Alignment explanation
Indices: 34491221--34491384 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
34491211 CGATTTGTCT
34491221 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
34491286 CTTTCA
66 CTTTCA
* *
34491292 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
34491357 CTTTCA
66 CTTTCA
34491363 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34491385 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:34491422 original size:71 final size:70
Alignment explanation
Indices: 34491221--34491418 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
34491211 CGATTTGTCT
* * * * *
34491221 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34491286 CTTTCA
65 CTTTCA
* * * *
34491292 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34491357 CTTTCA
65 CTTTCA
* *
34491363 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34491419 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34498846 original size:70 final size:71
Alignment explanation
Indices: 34498759--34498921 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
34498749 CGATTTGTCT
34498759 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34498823 CTTTCA
66 CTTTCA
34498829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34498894 CTTTCA
66 CTTTCA
34498900 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34498922 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 27 0.29
71 65 0.71
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:34498959 original size:71 final size:70
Alignment explanation
Indices: 34498759--34498955 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
34498749 CGATTTGTCT
* * *
34498759 CGTAGCTCTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34498823 CTTTCA
65 CTTTCA
* * * *
34498829 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
34498894 CTTTCA
65 CTTTCA
* *
34498900 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
34498956 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 26 0.22
71 69 0.58
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34505274 original size:49 final size:47
Alignment explanation
Indices: 34505175--34505361 Score: 320
Period size: 47 Copynumber: 3.9 Consensus size: 47
34505165 GTATGAGATA
* *
34505175 TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
34505222 TATATATGTGATAAGGCCTCATGGCCGATGTGATGAATGAGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
34505271 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
34505318 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
34505362 TATATGTGTG
Statistics
Matches: 132, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
47 87 0.66
49 45 0.34
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:34505282 original size:96 final size:96
Alignment explanation
Indices: 34505175--34505361 Score: 338
Period size: 96 Copynumber: 1.9 Consensus size: 96
34505165 GTATGAGATA
34505175 TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
34505240 TCATGGCCGATGTGATGAATGAGAAAGTGTG
66 TAATGGCCGATGTGATGAATGAGAAAGTGTG
* *
34505271 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
34505336 TAATGGCCGATGTGATGAATGTGAAA
66 TAATGGCCGATGTGATGAATGAGAAA
34505362 TATATGTGTG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.29
Consensus pattern (96 bp):
TATATATGTGATAAGGCCTAATGGCCAATATGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGAGAAAGTGTG
Found at i:34505502 original size:37 final size:37
Alignment explanation
Indices: 34505461--34505538 Score: 156
Period size: 37 Copynumber: 2.1 Consensus size: 37
34505451 GTTCCGGTTG
34505461 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
34505498 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
34505535 AGAC
1 AGAC
34505539 TTCGTAATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGGTA
Found at i:34507590 original size:40 final size:40
Alignment explanation
Indices: 34507364--34507595 Score: 374
Period size: 40 Copynumber: 5.8 Consensus size: 40
34507354 GAGAATTGAG
* *
34507364 AGTGATGTATCCGGACTAAGTTCTGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
34507404 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
34507444 AGTGATGTATCCGGACTAAGTTCTGAAAAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
34507484 AGTGATGTATCCGGACTAAGTTTCGAGGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
34507524 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * *
34507564 AGTGATGTATCTGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
34507596 ATCATGCTGG
Statistics
Matches: 178, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:34508437 original size:40 final size:41
Alignment explanation
Indices: 34508339--34508444 Score: 110
Period size: 41 Copynumber: 2.6 Consensus size: 41
34508329 TTCAAATGGT
* ** * *
34508339 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAA
1 ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
*
34508380 ATCCGGGTCAAT-TCCCGAAGGCAATTGTGCGAA-TCACTATA
1 ATCCGGG-CTATGTCCCGAAGGCAATTGTGCGAAGTCACTA-A
*
34508421 A-CCGGGCTATGTCCCGAAGACAAT
1 ATCCGGGCTATGTCCCGAAGGCAAT
34508445 CGAGCGAGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
39 3 0.06
40 22 0.41
41 27 0.50
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (41 bp):
ATCCGGGCTATGTCCCGAAGGCAATTGTGCGAAGTCACTAA
Found at i:34511387 original size:49 final size:49
Alignment explanation
Indices: 34511286--34511525 Score: 430
Period size: 49 Copynumber: 4.9 Consensus size: 49
34511276 ATGTATGAGA
*
34511286 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
34511335 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGAGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
34511382 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
34511431 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
34511480 TATATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
34511526 TATATGTGTG
Statistics
Matches: 184, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 45 0.24
49 139 0.76
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (49 bp):
TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:34511666 original size:37 final size:37
Alignment explanation
Indices: 34511612--34511739 Score: 211
Period size: 37 Copynumber: 3.4 Consensus size: 37
34511602 AACTTGGAAA
* * *
34511612 TATGTTCCGGGTGAGACCCGGTGACTACATGTGGAGAT
1 TATG-TCCGGGTAAGACCCGATGACTACGTGTGGAGAT
34511650 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
*
34511687 TATGTCTGGGTAAGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
34511724 TATGTCCGGGTAAGAC
1 TATGTCCGGGTAAGAC
34511740 TTCGTAATAA
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
37 81 0.95
38 4 0.05
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TATGTCCGGGTAAGACCCGATGACTACGTGTGGAGAT
Found at i:34520654 original size:15 final size:15
Alignment explanation
Indices: 34520599--34520656 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
34520589 GAGATGACAT
*
34520599 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
34520614 GAAGTCCAGGACAAA
1 GAAATCCAAGATAAA
* *
34520629 TAAATCTAAGATAAA
1 GAAATCCAAGATAAA
34520644 GAAATCCAAGATA
1 GAAATCCAAGATA
34520657 CAATATCATA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:34522113 original size:41 final size:40
Alignment explanation
Indices: 34522056--34522139 Score: 132
Period size: 41 Copynumber: 2.1 Consensus size: 40
34522046 GACATATCGA
34522056 CTAAATGTGGCACTTAGTATGCGGTTCAAAAATAGCTTCGG
1 CTAAATGTGGCACTTAGTATGCGGTTC-AAAATAGCTTCGG
* * *
34522097 CTAAATGTGGCACTTAGTTTGCGGTTCTAGATAGCTTCGG
1 CTAAATGTGGCACTTAGTATGCGGTTCAAAATAGCTTCGG
34522137 CTA
1 CTA
34522140 TATACAGCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 14 0.35
41 26 0.65
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
CTAAATGTGGCACTTAGTATGCGGTTCAAAATAGCTTCGG
Found at i:34522150 original size:40 final size:40
Alignment explanation
Indices: 34522064--34522194 Score: 127
Period size: 40 Copynumber: 3.2 Consensus size: 40
34522054 GACTAAATGT
* * **
34522064 GGCACTTAGTATGCGGTTCAAAAATAGCTTCGGCTAAATGT
1 GGCACTTAGTATGCGGTTC-AAGATAGCTTCGGCTATATAC
* *
34522105 GGCACTTAGTTTGCGGTTCTAGATAGCTTCGGCTATATAC
1 GGCACTTAGTATGCGGTTCAAGATAGCTTCGGCTATATAC
* * * * * * * *
34522145 AGCACTTAGTGTGTGATTCGAGATAGTTTCGTCTATGTAC
1 GGCACTTAGTATGCGGTTCAAGATAGCTTCGGCTATATAC
34522185 GGCACTTAGT
1 GGCACTTAGT
34522195 GTACGAGATA
Statistics
Matches: 75, Mismatches: 15, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 57 0.76
41 18 0.24
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.34
Consensus pattern (40 bp):
GGCACTTAGTATGCGGTTCAAGATAGCTTCGGCTATATAC
Found at i:34522247 original size:28 final size:28
Alignment explanation
Indices: 34522216--34522280 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
34522206 TAAGCATGGC
34522216 ACTTAGTGTGCGAAACATTGAGAATGAA
1 ACTTAGTGTGCGAAACATTGAGAATGAA
* * ** * *
34522244 ACTTAATGTGCGAGATGTTGAGTATGGA
1 ACTTAGTGTGCGAAACATTGAGAATGAA
34522272 ACTTAGTGT
1 ACTTAGTGT
34522281 ATGAGACGTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (28 bp):
ACTTAGTGTGCGAAACATTGAGAATGAA
Found at i:34527621 original size:43 final size:43
Alignment explanation
Indices: 34527560--34527645 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
34527550 ATCACATGTA
*
34527560 TCGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
*
34527603 TCGCATCCATAATGAACTCAAACCACTCAACGGGCTCGGATGC
1 TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
34527646 CACATAGATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAAACCACTCAACGAGCTCGGATGC
Found at i:34534060 original size:80 final size:80
Alignment explanation
Indices: 34533976--34534124 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
34533966 TATGGTAACC
* * * *
34533976 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
34534040 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
34534056 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
34534121 CCGG
66 CCGG
34534125 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:34534066 original size:40 final size:38
Alignment explanation
Indices: 34534017--34534124 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
34534007 ATCACGATTT
*
34534017 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
34534057 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
34534097 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
34534125 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:34542176 original size:80 final size:80
Alignment explanation
Indices: 34542092--34542240 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
34542082 TATGGTAACC
* * * *
34542092 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
34542156 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
34542172 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
34542237 CCGG
66 CCGG
34542241 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:34542182 original size:40 final size:38
Alignment explanation
Indices: 34542133--34542240 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
34542123 ATCACGATTT
*
34542133 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
34542173 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
34542213 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
34542241 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:34544311 original size:36 final size:36
Alignment explanation
Indices: 34544270--34544342 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34544260 GTTCATCCAC
34544270 GTACTGGAGGCTTTGCCTCAACTGACTGATAATTGA
1 GTACTGGAGGCTTTGCCTCAACTGACTGATAATTGA
34544306 GTACTGGAGGCTTTGCCTCAACTGACTGATAATTGA
1 GTACTGGAGGCTTTGCCTCAACTGACTGATAATTGA
34544342 G
1 G
34544343 CAGCGTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (36 bp):
GTACTGGAGGCTTTGCCTCAACTGACTGATAATTGA
Found at i:34548153 original size:12 final size:12
Alignment explanation
Indices: 34548136--34548161 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34548126 AATGTTAAGA
34548136 GAGCTAGATGAG
1 GAGCTAGATGAG
34548148 GAGCTAGATGAG
1 GAGCTAGATGAG
34548160 GA
1 GA
34548162 ACCGGTTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.42, T:0.15
Consensus pattern (12 bp):
GAGCTAGATGAG
Found at i:34552471 original size:25 final size:25
Alignment explanation
Indices: 34552442--34552566 Score: 78
Period size: 25 Copynumber: 5.2 Consensus size: 25
34552432 GAATGGCCAA
34552442 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
34552467 TGTGAT-AA-G-G-ACGAATGGCCA-A--
1 TGTGATGAATGTGAAC--AT-G-CATATG
34552489 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
34552514 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
34552536 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
34552561 TGTGAT
1 TGTGAT
34552567 AAGGCCGAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 40
0.63 0.03 0.33
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 15 0.20
24 15 0.20
25 24 0.32
26 2 0.03
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:34552657 original size:25 final size:25
Alignment explanation
Indices: 34552629--34552707 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
34552619 CGAATGGCCA
*
34552629 ATGTGATGAATGTGAATATGCATAT
1 ATGTGATGAATGTGAATATGCACAT
* * *
34552654 ATGTGAT-AAGGCCGAAT-GGC-CA-
1 ATGTGATGAATG-TGAATATGCACAT
*
34552676 ATGTGATGAATGTGAACATGCACAT
1 ATGTGATGAATGTGAATATGCACAT
34552701 ATGTGAT
1 ATGTGAT
34552708 AAGGCAGAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 7 0.17
25 18 0.44
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAATATGCACAT
Found at i:34552767 original size:47 final size:47
Alignment explanation
Indices: 34552347--34552732 Score: 594
Period size: 47 Copynumber: 8.2 Consensus size: 47
34552337 TTAGGATTTT
* ** * * * **
34552347 ATGTGATAAATGTGAATGTGTATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
34552394 ATGTGATGAATGTGAACATGCATATATGAGATATGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
34552441 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
34552488 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
34552535 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
*
34552582 ATAG-GATGAATGTGAACATGCATATGTGTGATATGGCCGAATGGCCA
1 AT-GTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
34552629 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
34552676 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
34552723 ATGTGATGAA
1 ATGTGATGAA
34552733 CGTGGAAGTG
Statistics
Matches: 318, Mismatches: 19, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 316 0.99
48 1 0.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:34552803 original size:46 final size:46
Alignment explanation
Indices: 34552753--34552928 Score: 237
Period size: 46 Copynumber: 3.8 Consensus size: 46
34552743 TATATATGTT
34552753 GTAAAG-CGGAATGGCTAATGCAAAATGTGTATGAGATGGATATGAG
1 GTAAAGTC-GAATGGCTAATGCAAAATGTGTATGAGATGGATATGAG
*
34552799 GTAAAGTCGAATGGTTAATGCAAAATGTGTATGAGATGGATATGAG
1 GTAAAGTCGAATGGCTAATGCAAAATGTGTATGAGATGGATATGAG
** * *
34552845 GTAAAGTCGAATGGCTAATGTGAAACGTGTATGAGATGGATATGTG
1 GTAAAGTCGAATGGCTAATGCAAAATGTGTATGAGATGGATATGAG
* * ** * *
34552891 GTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 GTAAAGTCGAATGGCTAATGCAAAATGTGTATGAGATG
34552929 TGTATATATA
Statistics
Matches: 118, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 117 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.31, T:0.27
Consensus pattern (46 bp):
GTAAAGTCGAATGGCTAATGCAAAATGTGTATGAGATGGATATGAG
Found at i:34554463 original size:40 final size:40
Alignment explanation
Indices: 34554408--34554484 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
34554398 TGAGAGTTAT
* *
34554408 ATATATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
34554448 ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
34554485 AGTTCTGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATAACCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:34554494 original size:23 final size:23
Alignment explanation
Indices: 34554458--34554507 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
34554448 ATATAACCGG
34554458 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* *
34554481 GCTAAGTTCTGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
34554504 GCTA
1 GCTA
34554508 GTGATATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:34554534 original size:63 final size:62
Alignment explanation
Indices: 34554418--34554545 Score: 168
Period size: 63 Copynumber: 2.0 Consensus size: 62
34554408 ATATATCCGG
* * * *
34554418 GCTAAGTCCCGAAGAGCATTTGTGCTAGTGATATAACCGGGCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAACCAGGCTAAGACCCGAAG-GCATTCAT
* * *
34554481 GCTAAGTTCTGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAA-ACCTCGAAGGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAACCAGGCTAAGACC-CGAAGGCATTCAT
34554543 GCT
1 GCT
34554546 GGAATTATGC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
62 12 0.21
63 45 0.79
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (62 bp):
GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAACCAGGCTAAGACCCGAAGGCATTCAT
Found at i:34554649 original size:57 final size:57
Alignment explanation
Indices: 34554556--34554663 Score: 144
Period size: 57 Copynumber: 1.9 Consensus size: 57
34554546 GGAATTATGC
* *
34554556 GGCACTGTGTGTGCAAGTTCTCCAACCAAGCACTATGTGTGCCAGATCAGTAGTTGA
1 GGCACTATGTGTGCAAGTTCTCCAACCAAGCACTATGTGTGCCAAATCAGTAGTTGA
* * * * * *
34554613 GGCACTATGTGTGCGAGTTCTTCAATCGAGCGCTATGTGTGCGAAATCAGT
1 GGCACTATGTGTGCAAGTTCTCCAACCAAGCACTATGTGTGCCAAATCAGT
34554664 CAGTGGGCAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (57 bp):
GGCACTATGTGTGCAAGTTCTCCAACCAAGCACTATGTGTGCCAAATCAGTAGTTGA
Found at i:34558515 original size:47 final size:47
Alignment explanation
Indices: 34558461--34558837 Score: 580
Period size: 47 Copynumber: 8.1 Consensus size: 47
34558451 TTAGGATTTT
** * * *
34558461 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558508 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558555 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558602 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558649 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558696 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
34558743 ATGTGATGAATGTGAACATGCATATA--TGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
34558788 ATGTGATGAATGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
34558835 ATG
1 ATG
34558838 CGAAATGTGT
Statistics
Matches: 311, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
45 38 0.12
46 3 0.01
47 270 0.87
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:34558585 original size:25 final size:25
Alignment explanation
Indices: 34558556--34558680 Score: 76
Period size: 25 Copynumber: 5.2 Consensus size: 25
34558546 GAATGGCCAA
34558556 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
34558581 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
34558603 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
34558628 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
34558650 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
34558675 TGTGAT
1 TGTGAT
34558681 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 16 0.22
24 16 0.22
25 24 0.32
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:34558867 original size:46 final size:46
Alignment explanation
Indices: 34558811--34558992 Score: 285
Period size: 46 Copynumber: 4.0 Consensus size: 46
34558801 GGAAGTGTAT
* *
34558811 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
34558857 ATATGAGGTAAAGCCGAATGGCTAATGC-AAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
34558902 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
34558948 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
34558993 TGTATATATA
Statistics
Matches: 127, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 44 0.35
46 83 0.65
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:34569011 original size:127 final size:127
Alignment explanation
Indices: 34568785--34569036 Score: 362
Period size: 127 Copynumber: 2.0 Consensus size: 127
34568775 ACTCAACATT
* * **
34568785 GTAGACAGGACGGCTAAAAGCCGTAAATATCGCAGCAACGCTGCAAGTTAACAGAACGGTTATAA
1 GTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTGCAAGTTAACAGAACGACTATAA
* * *
34568850 GCCATAAGTATCGTAGAAAGGCTGAAAGCCTTATACAGGATGACTACAAGCCGTACACTTTC
66 GCCATAAGTATCGCAAAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTTTC
* * * *
34568912 GTAGACAGGATGGCTAAAGGCCGTAAATATCACAGCAATACTGTC-AGTTAATAGAACGACTATA
1 GTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTG-CAAGTTAACAGAACGACTATA
* * *
34568976 AGCTATAAGTATCGCAAAAAGGCTGAAAGCCTTATACAGGACGGCTACAGGCCGTACACTT
65 AGCCATAAGTATCGCAAAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTT
34569037 CCTCCGTCCA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
127 109 0.99
128 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (127 bp):
GTAGACAGGACGGCTAAAAGCCGTAAATATCACAGCAACACTGCAAGTTAACAGAACGACTATAA
GCCATAAGTATCGCAAAAAGGCTGAAAGCCTTATACAGGACGACTACAAGCCGTACACTTTC
Found at i:34573251 original size:21 final size:22
Alignment explanation
Indices: 34573217--34573257 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34573207 TCATGACCTT
* *
34573217 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
34573239 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
34573258 GTAAAATGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:34574007 original size:17 final size:19
Alignment explanation
Indices: 34573971--34574008 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
34573961 GTTTATAAGC
34573971 AAATAGATATTGTTAATTTT
1 AAATAGATATTG-TAATTTT
34573991 AAATAGATA-TG-AATTTT
1 AAATAGATATTGTAATTTT
34574008 A
1 A
34574009 TATGCTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
AAATAGATATTGTAATTTT
Found at i:34579811 original size:16 final size:17
Alignment explanation
Indices: 34579790--34579825 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
34579780 CATAGCAGTC
34579790 GGTTATCTATTCAC-CG
1 GGTTATCTATTCACTCG
34579806 GGTTATCTATTCACTCG
1 GGTTATCTATTCACTCG
34579823 GGT
1 GGT
34579826 AGTACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (17 bp):
GGTTATCTATTCACTCG
Found at i:34581391 original size:21 final size:22
Alignment explanation
Indices: 34581357--34581397 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34581347 TCATGACCTT
* *
34581357 ATTATATAATGGTTTTATATTA
1 ATTATATAAAGGTTATATATTA
34581379 ATTA-ATAAAGGTTATATAT
1 ATTATATAAAGGTTATATAT
34581398 GTAAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATATAAAGGTTATATATTA
Found at i:34584498 original size:43 final size:43
Alignment explanation
Indices: 34584413--34584515 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 43
34584403 TTGAATTTGA
* *
34584413 GGCACTAAGTGTGCGATAAGTGAAATAGCTACGGCTAATTAATT
1 GGCACTAAGTGTGCGATAAAT-AAATAGCTACAGCTAATTAATT
* * *
34584457 GTCACTAAGTGTGCGATACAAT-TATAGCTTCAGCTAATTAATT
1 GGCACTAAGTGTGCGATA-AATAAATAGCTACAGCTAATTAATT
34584500 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
34584516 GTTCATTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.63
44 17 0.33
45 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATAAATAAATAGCTACAGCTAATTAATT
Found at i:34587471 original size:51 final size:51
Alignment explanation
Indices: 34587412--34587512 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
34587402 CTTGAACGTG
* * *
34587412 GCCTTCAGTAATCGCACACGGGCTTGTCTCTGCCGAACCCAAGTTTAGTCA
1 GCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGTCA
*
34587463 GCCTTCAGTAATCGCACATGGGCGTGTCCCTGCCAAACCCAAGTTTAGTC
1 GCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGTC
34587513 CAATTCAGAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.25
Consensus pattern (51 bp):
GCCTTCAGTAATCGCACACGGGCGTGTCCCTGCCAAACCCAAGTTTAGTCA
Found at i:34590881 original size:124 final size:122
Alignment explanation
Indices: 34590661--34590882 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
34590651 GAATTATGTG
* * * * *
34590661 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
34590726 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
34590783 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
34590847 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
34590883 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:34590899 original size:40 final size:40
Alignment explanation
Indices: 34590840--34590991 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
34590830 AAATTGAATG
* * * *
34590840 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAATT
* ****
34590880 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAATT
* *
34590920 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGAAATT
* *
34590960 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
34590992 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
39 3 0.03
40 87 0.95
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGAAATT
Found at i:34591006 original size:80 final size:80
Alignment explanation
Indices: 34590840--34591007 Score: 214
Period size: 80 Copynumber: 2.1 Consensus size: 80
34590830 AAATTGAATG
* * *
34590840 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
34590905 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
34590920 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGCTAGACATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGC
* *
34590984 ATTTGTGC-ACGTGGTT
65 AATTGTGCTA-GTGGCT
34591000 ATATCCGG
1 ATATCCGG
34591008 TTATATTCCG
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
79 4 0.05
80 71 0.95
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:34601594 original size:27 final size:27
Alignment explanation
Indices: 34601564--34601958 Score: 475
Period size: 27 Copynumber: 14.6 Consensus size: 27
34601554 TTAGTTTACC
*
34601564 AAATTACCAAAATACCACTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
34601591 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
34601618 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** **
34601645 AAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
34601672 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
34601699 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
34601726 AAATCACCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
34601753 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
34601780 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
34601807 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
34601834 AAATTACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
34601861 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
34601888 AATTTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
34601915 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
34601942 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
34601959 TCGACCTGTA
Statistics
Matches: 316, Mismatches: 52, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 316 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:34601629 original size:54 final size:54
Alignment explanation
Indices: 34601564--34601958 Score: 556
Period size: 54 Copynumber: 7.3 Consensus size: 54
34601554 TTAGTTTACC
* * * *
34601564 AAATTACCAAAATACCACTGGTTTGTAAAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
34601618 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
34601672 AAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
34601726 AAATCACCAAAATACCCTTAATTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
34601780 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
34601834 AAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * * *
34601888 AATTTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
34601942 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
34601959 TCGACCTGTA
Statistics
Matches: 305, Mismatches: 36, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 305 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:34601972 original size:27 final size:27
Alignment explanation
Indices: 34601564--34602013 Score: 270
Period size: 27 Copynumber: 16.7 Consensus size: 27
34601554 TTAGTTTACC
**
34601564 AAATTACCAAAATACCACT-GGTTTGTA
1 AAATTACCAAAATACC-CTCGACTTGTA
* * * ** *
34601591 AAATTACTAAAATACCATTGGTTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* * *
34601618 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* * ** **
34601645 AAATTACCAAAATACCTTTGGTTTACA
1 AAATTACCAAAATACCCTCGACTTGTA
* **
34601672 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* * ** *
34601699 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* ** *
34601726 AAATCACCAAAATACCCTTAATTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
* *
34601753 AAATTACCAAAATACCCT-TAGTT-TACA
1 AAATTACCAAAATACCCTCGACTTGT--A
* *
34601780 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* * ** *
34601807 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGACTTGTA
* *
34601834 AAATTACCAAAATACCC-CTAATTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
**
34601861 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GACTTGTA
* * * *
34601888 AATTTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-CTTGTA
* *
34601915 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GACTTGTA
* *
34601942 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
***
34601969 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGACTTGTA
*
34601996 AAATTACCAAAGTACCCT
1 AAATTACCAAAATACCCT
34602014 TGATCTACAG
Statistics
Matches: 348, Mismatches: 62, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 4 0.01
27 338 0.97
28 4 0.01
29 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGACTTGTA
Found at i:34602065 original size:27 final size:27
Alignment explanation
Indices: 34601644--34602066 Score: 131
Period size: 27 Copynumber: 15.7 Consensus size: 27
34601634 CCTAGTTTGT
* * * *
34601644 AAAATTACCAAAATACCTTTGGTTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
* * * **
34601671 AAAATTACCAAAATACCCTTGGTTTGT
1 AAAATTACCGAAATACCCTCGATTTAC
** * * *
34601698 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCGAAATACCCTCGATTTAC
* * ** **
34601725 AAAATCACCAAAATACCCTTAATTTGT
1 AAAATTACCGAAATACCCTCGATTTAC
* *
34601752 AAAATTACCAAAATACCCT-TAGTTTAC
1 AAAATTACCGAAATACCCTCGA-TTTAC
* * **
34601779 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTAC
** * * *
34601806 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCGAAATACCCTCGATTTAC
* * **
34601833 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCGAAATACCCTC-GATTTAC
* * **
34601860 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCGAAATACCCTC-GATTTAC
* * * * **
34601887 AAATTTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTAC
* **
34601914 AAAATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCGAAATACCCTC-GATTTAC
* ** ** **
34601941 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATTACCGAAATACCCTCGATTTAC
** * **
34601968 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCGAAATACCCTCGATTTAC
* *
34601995 AAAATTACC-AAAGTACCCTTGATCTAC
1 AAAATTACCGAAA-TACCCTCGATTTAC
* ***
34602022 AGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACCGAAATACCCTCGATTTAC
*
34602049 AAAATTACCGGAATACCC
1 AAAATTACCGAAATACCC
34602067 CTGTAGGGTA
Statistics
Matches: 327, Mismatches: 60, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.01
27 321 0.98
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTAC
Found at i:34602081 original size:27 final size:27
Alignment explanation
Indices: 34602051--34602216 Score: 178
Period size: 27 Copynumber: 6.3 Consensus size: 27
34602041 CGATTTACAA
*
34602051 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
34602078 AATTACTGAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
34602105 AATTACCGAAATACCCCTATA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
34602131 AATTATC-ACAATA-CCCTGTAGGGTAA
1 AATTACCGA-AATACCCCTGTAGGGTAG
** *
34602157 AATTATTGAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
34602184 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
34602210 AATTACC
1 AATTACC
34602217 ATTTTGCCCC
Statistics
Matches: 116, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
25 7 0.06
26 45 0.39
27 64 0.55
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:34602187 original size:53 final size:53
Alignment explanation
Indices: 34602049--34602216 Score: 191
Period size: 53 Copynumber: 3.2 Consensus size: 53
34602039 CTCGATTTAC
* *
34602049 AAAATTACCGGAATACCCCTGTAGGGTAGAATTACTGA-AATACCTCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTA-TCACAATACC-CTGTAGGGT
* *
34602103 AGAATTACCGAAATACCCCTATA-GGTAGAATTATCACAATACCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTATCACAATACCCTGTAGGGT
** * * *
34602155 AAAATTATTGAAATACCCCTGTAGGGTGGAATTA-C-CGAGATACCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTATCAC-A-ATACCCTGTAGGGT
34602208 AAAATTACC
1 AAAATTACC
34602217 ATTTTGCCCC
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
51 1 0.01
52 32 0.33
53 44 0.45
54 20 0.21
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (53 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAATTATCACAATACCCTGTAGGGT
Found at i:34602695 original size:22 final size:22
Alignment explanation
Indices: 34602643--34602707 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
34602633 TTAAAGCCTT
* *
34602643 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
34602665 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
34602687 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
34602708 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:34602967 original size:27 final size:26
Alignment explanation
Indices: 34602866--34602967 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
34602856 ATTCTGTTAA
* * *
34602866 GTGGCTTTGCCACATTATTTGGTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
* *
34602893 GTGGCTATGCCACAAATATCTATTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
34602920 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
34602947 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
34602968 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.80
28 5 0.08
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:34603142 original size:6 final size:6
Alignment explanation
Indices: 34603127--34603216 Score: 53
Period size: 6 Copynumber: 14.8 Consensus size: 6
34603117 ATTCTGTTAC
* * * *
34603127 CTGATA CTGATT CTGATT TTGATT TTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
34603176 -TG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
34603217 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
4 1 0.02
5 5 0.08
6 54 0.82
7 4 0.06
8 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:34603149 original size:31 final size:31
Alignment explanation
Indices: 34603112--34603176 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
34603102 ACATTTTGAT
34603112 TTTTGATTCTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
*
34603143 TTTTGATTTTGTTACCTGATACTGATTCTGA
1 TTTTGATTCTGTTACCTGATACTGATTCTGA
34603174 TTT
1 TTT
34603177 GTCACCTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.18, C:0.14, G:0.15, T:0.52
Consensus pattern (31 bp):
TTTTGATTCTGTTACCTGATACTGATTCTGA
Found at i:34603183 original size:24 final size:24
Alignment explanation
Indices: 34603133--34603199 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
34603123 TTACCTGATA
* *
34603133 CTGATTCTGATTTTGATTTTGTTAC
1 CTGATTCTGATTCTGA-TTTGTCAC
*
34603158 CTGATACTGATTCTGATTTGTCAC
1 CTGATTCTGATTCTGATTTGTCAC
*
34603182 CTAATTCTGATTCTGATT
1 CTGATTCTGATTCTGATT
34603200 CTGATTCTAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 23 0.62
25 14 0.38
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (24 bp):
CTGATTCTGATTCTGATTTGTCAC
Found at i:34604917 original size:43 final size:43
Alignment explanation
Indices: 34604832--34605020 Score: 254
Period size: 43 Copynumber: 4.4 Consensus size: 43
34604822 TTGAATTTAG
* * * *
34604832 GGCACTAAGTGTCCGATA-AATGAAATAGCTACGGCTAATTAATT
1 GGCACTAAGTGTGCGATACAAT--TATAGCTTCAGCTAATTAATT
* * **
34604876 AGCACTAAGTGTGCGATACAGTTATAGCCCCAGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
34604919 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCAAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
34604962 GGCACTAAGTGTGCGATACAATTATATCTTCAGCTAATTAATT
1 GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
*
34605005 GGAACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
34605021 GTTCGTTGAA
Statistics
Matches: 129, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 111 0.86
44 16 0.12
45 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATT
Found at i:34612559 original size:34 final size:34
Alignment explanation
Indices: 34612472--34612573 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
34612462 ATGCATTTTG
* * *
34612472 GATACTG-TACTGAAATGGGCTAAGGCCCACATT
1 GATACTGCGACTGATATGGGCTAAGGCCCACACT
** *
34612505 GATACTGTTACTG-TGTTGGGCTAAGGCCCACACT
1 GATACTGCGACTGAT-ATGGGCTAAGGCCCACACT
* * *
34612539 GATATTGCGACTGATATGGGCTTAGGCCCAGACT
1 GATACTGCGACTGATATGGGCTAAGGCCCACACT
34612573 G
1 G
34612574 TTCAACACTG
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
33 7 0.12
34 49 0.86
35 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (34 bp):
GATACTGCGACTGATATGGGCTAAGGCCCACACT
Found at i:34617445 original size:28 final size:27
Alignment explanation
Indices: 34617370--34617490 Score: 94
Period size: 24 Copynumber: 4.6 Consensus size: 27
34617360 TATCTAGGAT
34617370 ATGACATTGTGCTAAGTGAAATAAGACC
1 ATGACA-TGTGCTAAGTGAAATAAGACC
**
34617398 ATGACA--T-CTAAGTGAAATAAGTTC
1 ATGACATGTGCTAAGTGAAATAAGACC
*
34617422 ATGGCAATGTGCTAAGTGAAATAA-ATCC
1 ATGAC-ATGTGCTAAGTGAAATAAGA-CC
* *
34617450 GTGACA--T-CTAAGTGAAATAAGTCC
1 ATGACATGTGCTAAGTGAAATAAGACC
* *
34617474 CTGGCATTGTGCTAAGT
1 ATGACA-TGTGCTAAGT
34617491 AAGAAATTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
24 38 0.52
25 3 0.04
27 3 0.04
28 29 0.40
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.27
Consensus pattern (27 bp):
ATGACATGTGCTAAGTGAAATAAGACC
Found at i:34617455 original size:52 final size:52
Alignment explanation
Indices: 34617377--34617490 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 52
34617367 GATATGACAT
*
34617377 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTTCATGGCAA
1 TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAA
* * *
34617429 TGTGCTAAGTGAAATAA-ATCCGTGACATCTAAGTGAAATAAGTCCCTGGCAT
1 TGTGCTAAGTGAAATAAGA-CCATGACATCTAAGTGAAATAAGTCCATGGCAA
34617481 TGTGCTAAGT
1 TGTGCTAAGT
34617491 AAGAAATTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 1 0.02
52 56 0.98
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (52 bp):
TGTGCTAAGTGAAATAAGACCATGACATCTAAGTGAAATAAGTCCATGGCAA
Found at i:34617645 original size:52 final size:52
Alignment explanation
Indices: 34617520--34617670 Score: 200
Period size: 52 Copynumber: 3.0 Consensus size: 52
34617510 CCTTAGGAAT
* * *
34617520 AAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCAC--TATGAGAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
* * * ** *
34617570 GAGATAAC-TTGGTCATGAGTGTGGTACCATGTGAAGGCCACTTTGTGAAAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
34617621 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA
1 AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAA
34617671 GAAGGTAGCT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 29 0.35
50 5 0.06
51 11 0.13
52 38 0.46
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (52 bp):
AAAATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAAA
Found at i:34617700 original size:51 final size:50
Alignment explanation
Indices: 34617523--34617702 Score: 200
Period size: 51 Copynumber: 3.5 Consensus size: 50
34617513 TAGGAATAAA
* *
34617523 ATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTATGAGAAG-AG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* * * ** * * *
34617573 ATAACTTGGTCATGAGTGTGGTACCATGTGAAGGCCACTTTGTGAAAAAAA
1 ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAG
*
34617624 ATAGCTTTGGTCACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
1 ATAGCTTT-GACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
* *
34617675 GTAGCTTTGACTACAAGGGTGGTACTAT
1 ATAGCTTTGAC-ACAAGTGTGGTACTAT
34617703 TTGCATGCCG
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 30 0.28
50 10 0.09
51 33 0.31
52 33 0.31
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (50 bp):
ATAGCTTTGACACAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAG
Found at i:34622652 original size:27 final size:27
Alignment explanation
Indices: 34622610--34622976 Score: 332
Period size: 27 Copynumber: 13.7 Consensus size: 27
34622600 AAATAAAGAG
* * *
34622610 AAATTACTGAAATACCCCCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
34622637 AAATTACCGAAGTACCCT-TAGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
*
34622664 AAATTACTGAAATA-CCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
34622690 AAATTACCGGAATACTCC-CAATTTGTA
1 AAATTACCGAAATAC-CCTCGATTTGTA
* * *
34622717 AAATTACCAAAACACCCTCAATTATG--
1 AAATTACCGAAATACCCTCGATT-TGTA
**
34622743 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
34622770 AAATTATCAAAATACCCTCGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
34622797 AAATTACCGAAACATCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
34622824 AAATTATCGAAACACCCTAGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
34622851 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
34622878 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
34622905 AAAGTACCGAAACACTCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * * *
34622932 AAATTATTGAAATACCAT-TATAATGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
*
34622959 AAATTACTGAAATACCCT
1 AAATTACCGAAATACCCT
34622977 TATAGTGTAA
Statistics
Matches: 278, Mismatches: 53, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.01
26 46 0.17
27 226 0.81
28 4 0.01
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:34624358 original size:13 final size:13
Alignment explanation
Indices: 34624340--34624365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34624330 ACCAAATTCG
34624340 TAAGTTTTCTGTT
1 TAAGTTTTCTGTT
34624353 TAAGTTTTCTGTT
1 TAAGTTTTCTGTT
34624366 AGACTGTACT
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:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TAAGTTTTCTGTT
Found at i:34626000 original size:28 final size:28
Alignment explanation
Indices: 34625968--34626069 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
34625958 TGGGAAGTAG
* *
34625968 TTGGGCCTAATGGGCCATATAAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
**
34625996 TTGGGCCTGATGGGTGATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* *
34626024 TTGGGCTTGATGGGACATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
*
34626052 TTGGGCCTGATTGGCCAT
1 TTGGGCCTGATGGGCCAT
34626070 GTGTCCGAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.23, C:0.12, G:0.34, T:0.31
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:34626438 original size:27 final size:26
Alignment explanation
Indices: 34626405--34626732 Score: 259
Period size: 27 Copynumber: 12.3 Consensus size: 26
34626395 ATAAATACTG
*
34626405 AAATACCCTCGGTTTGTAAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
34626431 AAAGTACCCTAG-TTTCTAAAATTACC
1 AAA-TACCCTCGATTTGTAAAATTACC
* *
34626457 AAAATACCC-CTAGTTTGTAAAATCACC
1 -AAATACCCTCGA-TTTGTAAAATTACC
*
34626484 GAAATACCCCCGATTTGTAAAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
* * *
34626511 AAAATACCATCGATTATG--AAATTTCTG
1 -AAATACCCTCGATT-TGTAAAATTAC-C
* * *
34626538 TAATACCCTTGATTTGTAAAATTATC
1 AAATACCCTCGATTTGTAAAATTACC
* * * *
34626564 GAATACCCCCAATTTGTGAAATTACC
1 AAATACCCTCGATTTGTAAAATTACC
* *
34626590 GAAACACCCTCGATTTTTAAAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
* *
34626617 TAAACACACTCGATTTGTAAAATTACC
1 -AAATACCCTCGATTTGTAAAATTACC
* * *
34626644 GAAATACCATCGATTTGTAAATTTACTA
1 -AAATACCCTCGATTTGTAAAATTAC-C
* *
34626672 AAATATCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-CC
* * *
34626699 AAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTA-CC
34626726 AAATACC
1 AAATACC
34626733 ATTGTAGTGT
Statistics
Matches: 241, Mismatches: 49, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.01
26 58 0.24
27 176 0.73
28 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATACCCTCGATTTGTAAAATTACC
Found at i:34626518 original size:54 final size:53
Alignment explanation
Indices: 34626405--34626761 Score: 306
Period size: 54 Copynumber: 6.7 Consensus size: 53
34626395 ATAAATACTG
* *
34626405 AAATACCCTCGGTTTGTAAAATTACC-AAAGTACCCTAG-TTTCTAAAATTACCA
1 AAATACCCTC-GTTTGTAAAATTACCGAAA-TACCCTCGATTTGTAAAATTACCA
* * *
34626458 AAATACCCCTAGTTTGTAAAATCACCGAAATACCCCCGATTTGTAAAATTACCA
1 AAATA-CCCTCGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
* * * * * * * * *
34626512 AAATACCATCGATTATGAAATTTCTGTAATACCCTTGATTTGTAAAATTATC-
1 AAATACCCTCGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
* * * * * * *
34626564 GAATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTTTAAAATTACCT
1 AAATACCCTC-GTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
* * * * *
34626618 AAACACACTCGATTTGTAAAATTACCGAAATACCATCGATTTGTAAATTTACTA
1 AAATACCCTCG-TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
* * * * * *
34626672 AAATATCCTCGATTTGTAAAATTATCGAAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCG-TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
* * * *
34626726 AAATACCATTGTAGTGTAAAATTATCGAAATACCCT
1 AAATACCCTCGT-TTGTAAAATTACCGAAATACCCT
34626762 TGTAGTGTAA
Statistics
Matches: 238, Mismatches: 59, Indels: 13
0.77 0.19 0.04
Matches are distributed among these distances:
52 7 0.03
53 93 0.39
54 138 0.58
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATACCCTCGTTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTACCA
Found at i:34626543 original size:80 final size:80
Alignment explanation
Indices: 34626404--34626732 Score: 274
Period size: 80 Copynumber: 4.1 Consensus size: 80
34626394 AATAAATACT
* * * * * * *
34626404 GAAATACCCTCGGTTTGTAAAATTACCAAAGTACCCTAGTTTCTAAAATTACCAAAATACCCCTA
1 GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTCGATTATAAAATTA-CATAATACCCCTA
*
34626469 G-TTTGTAAAATCACC
65 GATTTGTAAAATTACC
* * * * *
34626484 GAAATACCCCCGATTTGTAAAATTACCAAAATACCATCGATTATGAAATTTCTGTAATA-CCCTT
1 GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTCGATTATAAAATTAC-ATAATACCCCTA
*
34626548 GATTTGTAAAATTATC
65 GATTTGTAAAATTACC
* * * * * * *
34626564 G-AATACCCCCAATTTGTGAAATTACCGAAACACCCTCGATTTTTAAAATTACCTAA-ACACACT
1 GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTCGA-TTATAAAATTACATAATAC-CCCT
*
34626627 CGATTTGTAAAATTACC
64 AGATTTGTAAAATTACC
** * * * * *
34626644 GAAATACCATCGATTTGTAAATTTACTAAAATATCCTCGATTTGTAAAATTATCGA-AACACCCC
1 GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTCGA-TTATAAAATTA-C-ATAATACCCC
* *
34626708 -CGATTTGTAAAATTATC
63 TAGATTTGTAAAATTACC
34626725 GAAATACC
1 GAAATACC
34626733 ATTGTAGTGT
Statistics
Matches: 201, Mismatches: 39, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
78 1 0.00
79 42 0.21
80 87 0.43
81 64 0.32
82 5 0.02
83 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.31
Consensus pattern (80 bp):
GAAATACCCCCGATTTGTAAAATTACCAAAATACCCTCGATTATAAAATTACATAATACCCCTAG
ATTTGTAAAATTACC
Found at i:34626786 original size:27 final size:27
Alignment explanation
Indices: 34626713--34626774 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
34626703 ACCCCCGATT
34626713 TGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
*
34626740 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCATTGTAG
34626767 TGTAAAAT
1 TGTAAAAT
34626775 AACCGACATA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCATTGTAG
Found at i:34627278 original size:11 final size:11
Alignment explanation
Indices: 34627262--34627287 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34627252 ATTGCATGTA
34627262 TGATATTATTG
1 TGATATTATTG
34627273 TGATATTATTG
1 TGATATTATTG
34627284 TGAT
1 TGAT
34627288 GTGGGCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:34631534 original size:23 final size:24
Alignment explanation
Indices: 34631508--34631553 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
34631498 TTTCTTTAAA
34631508 TCAT-TTTGTTATTTAT-TTTCATT
1 TCATCTTT-TTATTTATATTTCATT
*
34631531 TCATCTTTTTATTTTTATTTCAT
1 TCATCTTTTTATTTATATTTCAT
34631554 CTTTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TCATCTTTTTATTTATATTTCATT
Found at i:34631564 original size:19 final size:19
Alignment explanation
Indices: 34631519--34631558 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34631509 CATTTTGTTA
34631519 TTTATTTTCATTTCATCTT
1 TTTATTTTCATTTCATCTT
*
34631538 TTTATTTTTATTTCATCTT
1 TTTATTTTCATTTCATCTT
34631557 TT
1 TT
34631559 ACTTTTAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCATTTCATCTT
Found at i:34635807 original size:15 final size:14
Alignment explanation
Indices: 34635764--34635807 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
34635754 TAGGAAATTC
*
34635764 TATTTTAAGTTTAT
1 TATTTTAATTTTAT
*
34635778 TTTTTTAATTATTAT
1 TATTTTAATT-TTAT
34635793 TATTTTAGATTTTAT
1 TATTTTA-ATTTTAT
34635808 ATTAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 8 0.32
15 14 0.56
16 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (14 bp):
TATTTTAATTTTAT
Found at i:34637601 original size:24 final size:24
Alignment explanation
Indices: 34637549--34637690 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
34637539 GCTTTATCAT
*
34637549 ATAACTGGAGGC-CAAGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
34637574 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
34637598 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
34637621 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
34637645 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34637668 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34637691 GCACTTCCTC
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
23 43 0.41
24 50 0.47
25 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34637628 original size:23 final size:23
Alignment explanation
Indices: 34637570--34637689 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
34637560 CCAAGCCTCT
*
34637570 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
34637593 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
34637617 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
34637640 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
34637664 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34637687 TTT
1 TTT
34637690 TGCACTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34637630 original size:47 final size:47
Alignment explanation
Indices: 34637548--34637690 Score: 216
Period size: 47 Copynumber: 3.0 Consensus size: 47
34637538 TGCTTTATCA
* *
34637548 TATAACTGGAGGC-CAAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-C-TTTAATAACTGGGGCATAAGCCCTTTT
*
34637597 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
*
34637644 GATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
34637691 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 70 0.80
48 4 0.05
49 14 0.16
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:34637691 original size:47 final size:47
Alignment explanation
Indices: 34637570--34637691 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
34637560 CCAAGCCTCT
* *
34637570 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
*
34637617 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
34637664 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
34637692 CACTTCCTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
Found at i:34637762 original size:9 final size:9
Alignment explanation
Indices: 34637748--34637804 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34637738 ATCTCATGTG
34637748 CATATCATA
1 CATATCATA
*
34637757 CATATCATGTG
1 CATATCA--TA
34637768 CATATCATA
1 CATATCATA
* *
34637777 CATGTCATGTG
1 CATATCA--TA
34637788 CATATCATA
1 CATATCATA
34637797 CATATCAT
1 CATATCAT
34637805 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:34637764 original size:20 final size:20
Alignment explanation
Indices: 34637736--34637806 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
34637726 GCATTTATGA
*
34637736 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
34637756 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
34637776 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
34637796 ACATATCATGT
1 ACATATCATGT
34637807 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:34637771 original size:11 final size:11
Alignment explanation
Indices: 34637741--34637795 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34637731 TATGAACATC
34637741 TCATGTGCATA
1 TCATGTGCATA
*
34637752 TCA--TACATA
1 TCATGTGCATA
34637761 TCATGTGCATA
1 TCATGTGCATA
* *
34637772 TCA--TACATG
1 TCATGTGCATA
34637781 TCATGTGCATA
1 TCATGTGCATA
34637792 TCAT
1 TCAT
34637796 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:34637885 original size:25 final size:24
Alignment explanation
Indices: 34637843--34637890 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
34637833 ATATATAAAC
* * *
34637843 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
34637868 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34637891 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:34638942 original size:27 final size:27
Alignment explanation
Indices: 34638922--34639173 Score: 263
Period size: 27 Copynumber: 9.6 Consensus size: 27
34638912 AGGGTAGTTT
*
34638922 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34638949 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
34638976 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
34639003 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34639030 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34639057 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
34639084 GGTAATTATGT-AA---A----AAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34639103 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34639130 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
34639157 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
34639174 GGAGTACTTT
Statistics
Matches: 194, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
19 13 0.07
20 2 0.01
23 1 0.01
26 4 0.02
27 172 0.89
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:34639008 original size:81 final size:81
Alignment explanation
Indices: 34638923--34639173 Score: 324
Period size: 81 Copynumber: 3.2 Consensus size: 81
34638913 GGGTAGTTTA
* * * *
34638923 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
34638988 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAATG
* *
34639004 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGT
*
34639068 AAATCGGGGGTAAAATG
65 AAATCGAGGGTAAAATG
* * *
34639085 GTAATTATGT-AA---A----AAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
34639142 AA-CTGAGGGTAAAATG
66 AATC-GAGGGTAAAATG
34639158 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
34639174 GGAGTACTTT
Statistics
Matches: 149, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
72 1 0.01
73 61 0.41
74 3 0.02
77 1 0.01
80 3 0.02
81 80 0.54
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCGAGGGTAAAATG
Found at i:34639103 original size:46 final size:46
Alignment explanation
Indices: 34639052--34639143 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
34639042 AATCGAGGGT
* * *
34639052 AAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATGTAAA
1 AAAACGATAATTATATAAATCGAGGGTAAAATAGTAATTATGTAAA
* * *
34639098 AAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA
1 AAAACGATAATTATATAAATCGAGGGTAAAATAGTAATTATGTAAA
34639144 CTGAGGGTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (46 bp):
AAAACGATAATTATATAAATCGAGGGTAAAATAGTAATTATGTAAA
Found at i:34639108 original size:73 final size:73
Alignment explanation
Indices: 34639025--34639170 Score: 215
Period size: 73 Copynumber: 2.0 Consensus size: 73
34639015 AATCGAGGGT
* *
34639025 AAAACGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTATGTAAA-TCGGGGGTAAAATGGTA
1 AAAACGGTAATTCTATAAATCGAGGGTAAAA-GAGTAATTATGTAAACT-GAGGGTAAAATGGTA
34639088 ATTATGTAAA
64 ATTATGTAAA
* *
34639098 AAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAATGGTAAT
1 AAAACGGTAATTCTATAAATCGAGGGTAAAAGAGTAATTATGTAAACTGAGGGTAAAATGGTAAT
*
34639163 TCTGTAAA
66 TATGTAAA
34639171 TCGGGAGTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
72 1 0.02
73 64 0.97
74 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (73 bp):
AAAACGGTAATTCTATAAATCGAGGGTAAAAGAGTAATTATGTAAACTGAGGGTAAAATGGTAAT
TATGTAAA
Found at i:34639190 original size:100 final size:100
Alignment explanation
Indices: 34638998--34639179 Score: 285
Period size: 100 Copynumber: 1.8 Consensus size: 100
34638988 AATCGAGGGT
* *
34638998 AAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAAT
1 AAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAAT
*
34639063 TATGTAAATCGGGGGTAAAATGGTAATTATGTAAA
66 TATGTAAATCGGGAGTAAAATGGTAATTATGTAAA
* * *
34639098 AAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAATGGTAA
1 AAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAACGATAA
*
34639162 TTCTGTAAATCGGGAGTA
65 TTATGTAAATCGGGAGTA
34639180 CTTTGGTAAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
99 1 0.01
100 73 0.99
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (100 bp):
AAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGATAAT
TATGTAAATCGGGAGTAAAATGGTAATTATGTAAA
Found at i:34642336 original size:24 final size:24
Alignment explanation
Indices: 34642284--34642449 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
34642274 GCTTTATCAT
*
34642284 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
34642309 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
34642333 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
34642356 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
* *
34642380 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
34642404 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34642427 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34642450 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34642360 original size:47 final size:48
Alignment explanation
Indices: 34642283--34642449 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
34642273 TGCTTTATCA
* *
34642283 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
34642332 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* * *
34642379 GATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
34642426 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
34642450 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 68 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:34642401 original size:71 final size:71
Alignment explanation
Indices: 34642284--34642450 Score: 255
Period size: 71 Copynumber: 2.3 Consensus size: 71
34642274 GCTTTATCAT
* * *
34642284 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
34642348 GCCCTTTA
64 GCCCTTTA
* **
34642356 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
34642421 CCTTTA
66 CCTTTA
34642427 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
34642451 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:34642521 original size:9 final size:9
Alignment explanation
Indices: 34642507--34642563 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
34642497 ATCTCATGTG
34642507 CATATCATA
1 CATATCATA
*
34642516 CATATCATGTG
1 CATATCA--TA
34642527 CATATCATA
1 CATATCATA
* *
34642536 CATGTCATGTG
1 CATATCA--TA
34642547 CATATCATA
1 CATATCATA
34642556 CATATCAT
1 CATATCAT
34642564 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:34642523 original size:20 final size:20
Alignment explanation
Indices: 34642495--34642565 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
34642485 GCATTTATGA
*
34642495 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
34642515 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
34642535 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
34642555 ACATATCATGT
1 ACATATCATGT
34642566 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:34642530 original size:11 final size:11
Alignment explanation
Indices: 34642500--34642554 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34642490 TATGAACATC
34642500 TCATGTGCATA
1 TCATGTGCATA
*
34642511 TCA--TACATA
1 TCATGTGCATA
34642520 TCATGTGCATA
1 TCATGTGCATA
* *
34642531 TCA--TACATG
1 TCATGTGCATA
34642540 TCATGTGCATA
1 TCATGTGCATA
34642551 TCAT
1 TCAT
34642555 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:34642644 original size:25 final size:24
Alignment explanation
Indices: 34642602--34642649 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
34642592 ATATATAAAC
* * *
34642602 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
34642627 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34642650 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:34643704 original size:27 final size:27
Alignment explanation
Indices: 34643684--34643916 Score: 290
Period size: 27 Copynumber: 8.6 Consensus size: 27
34643674 AGGGTAGTTT
*
34643684 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34643711 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34643738 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34643765 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34643792 -GATAATTATGTAAATCGGGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
34643819 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34643846 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
34643873 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
34643900 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
34643917 GGAGTACTTT
Statistics
Matches: 183, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 179 0.98
28 2 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:34643716 original size:54 final size:55
Alignment explanation
Indices: 34643658--34643916 Score: 154
Period size: 54 Copynumber: 4.8 Consensus size: 55
34643648 GGGTATTGCG
**** * *
34643658 GTAATTTC-ACAAACCAAGGGTAGTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** * *
34643712 GTAA-TTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** * * * * * **
34643766 GTAA-TTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTTCTACAAACCAAGGGTAAAACAG-TAATTCTATAAATCGAGGGTAAAACA
* **** * *
34643820 GTAATTATGT--AAATTGGGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATA
1 GTAATT-TCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
** ** ** *
34643874 GTAA-TTCTGTAAACTGAGGGTAAAATGGTAATTCTGTAAATCG
1 GTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCG
34643917 GGAGTACTTT
Statistics
Matches: 171, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
52 2 0.01
53 5 0.03
54 160 0.94
55 2 0.01
56 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (55 bp):
GTAATTTCTACAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:34643770 original size:81 final size:81
Alignment explanation
Indices: 34643685--34643916 Score: 324
Period size: 81 Copynumber: 2.9 Consensus size: 81
34643675 GGGTAGTTTA
* * ** *
34643685 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTA
34643750 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* * *
34643766 GTAATTCTGTAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGGTAAAATGGTAATTATGT
1 GTAATTCTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGT
* *
34643830 AAATTGGGGGTAAAACG
65 AAATCGAGGGTAAAACG
* *
34643847 GTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAATGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-GAGGGTAAAATGGTAATTCTGT
34643911 AAATCG
65 AAATCG
34643917 GGAGTACTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
80 2 0.02
81 129 0.98
82 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:34645099 original size:23 final size:24
Alignment explanation
Indices: 34645073--34645118 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
34645063 TTCCTTTAAA
34645073 TCAT-TTTGTTATTTAT-TTTCATT
1 TCATCTTT-TTATTTATATTTCATT
*
34645096 TCATCTTTTTATTTTTATTTCAT
1 TCATCTTTTTATTTATATTTCAT
34645119 CTTTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TCATCTTTTTATTTATATTTCATT
Found at i:34645131 original size:19 final size:19
Alignment explanation
Indices: 34645084--34645123 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
34645074 CATTTTGTTA
*
34645084 TTTATTTTCATTTCATCTT
1 TTTATTTTTATTTCATCTT
34645103 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
34645122 TT
1 TT
34645124 ACTTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:34646829 original size:28 final size:28
Alignment explanation
Indices: 34646764--34646864 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34646754 ATAGTGAATC
*
34646764 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
34646793 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34646821 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
34646851 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34646865 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34654764 original size:28 final size:28
Alignment explanation
Indices: 34654699--34654799 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
34654689 ATAGTGAATC
*
34654699 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
34654728 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34654756 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
34654786 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34654800 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34656889 original size:43 final size:43
Alignment explanation
Indices: 34656839--34656936 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
34656829 AGAAAGCTCG
* * * *
34656839 TACAATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTATTCAAA
1 TACAATGCCAACTGTCCCAAACAG-GGTCTTACACGGAATCAAA
34656881 TATCAATGCC-ACTGTCCCAAACAGGGTCTTACACGGAATCAAA
1 TA-CAATGCCAACTGTCCCAAACAGGGTCTTACACGGAATCAAA
34656924 TACAATGCCAACT
1 TACAATGCCAACT
34656937 ATAACATCCC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
42 11 0.23
43 36 0.75
44 1 0.02
ACGTcount: A:0.34, C:0.28, G:0.15, T:0.23
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAAACAGGGTCTTACACGGAATCAAA
Found at i:34662632 original size:39 final size:39
Alignment explanation
Indices: 34662587--34662707 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
34662577 ATGCAAGACA
*
34662587 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34662626 CTGGAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34662665 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34662704 CTGG
1 CTGG
34662708 TGCTGGTAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.21, C:0.25, G:0.31, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34666054 original size:49 final size:50
Alignment explanation
Indices: 34665976--34666116 Score: 171
Period size: 49 Copynumber: 2.8 Consensus size: 50
34665966 TAGGAATGAA
* * *
34665976 ATAGCTTCGGACACAAGTGTGGTATTATGTGAAGGCCACTTTGA-GAAG-AG
1 ATAGCTT-GGTCACGAGTGTGGTACTATGTGAAGGCCACTTT-ATGAAGAAG
34666026 ATAGCTTGGTCACGAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAAG
1 ATAGCTTGGTCACGAGTGTGGTACTATGTGAAGGCCACTTTATGAAG-AAG
* *
34666077 ATAGCTTTGGTCA-GAACTGTGATACTATGTGAAGGCCACT
1 ATAGC-TTGGTCACG-AGTGTGGTACTATGTGAAGGCCACT
34666117 GGGTATTCGT
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
48 1 0.01
49 35 0.43
50 7 0.09
51 8 0.10
52 30 0.37
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (50 bp):
ATAGCTTGGTCACGAGTGTGGTACTATGTGAAGGCCACTTTATGAAGAAG
Found at i:34666109 original size:52 final size:50
Alignment explanation
Indices: 34666001--34666116 Score: 157
Period size: 52 Copynumber: 2.3 Consensus size: 50
34665991 AGTGTGGTAT
* *
34666001 TATGTGAAGGCCAC-TTTGAGAAGAGATAGCTTGGTCACGAGTGTGGTAC
1 TATGTGAAGGCCACTTTTGAGAAGAGATAGCTTGGTCACGACTGTGATAC
34666050 TATGTGAAGGCCACTTTATGAAGAA-AGATAGCTTTGGTCA-GAACTGTGATAC
1 TATGTGAAGGCCACTTT-TG-AGAAGAGATAGC-TTGGTCACG-ACTGTGATAC
34666102 TATGTGAAGGCCACT
1 TATGTGAAGGCCACT
34666117 GGGTATTCGT
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
49 14 0.23
50 2 0.03
51 10 0.17
52 34 0.57
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (50 bp):
TATGTGAAGGCCACTTTTGAGAAGAGATAGCTTGGTCACGACTGTGATAC
Found at i:34669069 original size:37 final size:37
Alignment explanation
Indices: 34669010--34669118 Score: 119
Period size: 37 Copynumber: 2.9 Consensus size: 37
34669000 GGTGATCCAC
* * *
34669010 CCAAACTCACCTACATGTCATGATCCAGGGAGGTCCG
1 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTCCG
* *
34669047 CCAAACTCGCCTATATGGCATGATCCAAGGAGGTTCG
1 CCAAACTCGCCTATATGGCATGATCCAGGGAGGTCCG
* ** * *
34669084 TCGGACTCGACTATATGGCATAATCCAGTGGAGGT
1 CCAAACTCGCCTATATGGCATGATCCAG-GGAGGT
34669119 TAGTGAGATA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
37 54 0.90
38 6 0.10
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.22
Consensus pattern (37 bp):
CCAAACTCGCCTATATGGCATGATCCAGGGAGGTCCG
Found at i:34675260 original size:80 final size:80
Alignment explanation
Indices: 34675176--34675324 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
34675166 TATGGTAACC
* * * *
34675176 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
34675240 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
34675256 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
34675321 CCGG
66 CCGG
34675325 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:34675266 original size:40 final size:38
Alignment explanation
Indices: 34675217--34675324 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
34675207 ATCACGATTT
*
34675217 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
34675257 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
34675297 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
34675325 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:34682575 original size:80 final size:80
Alignment explanation
Indices: 34682491--34682639 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
34682481 TATGGTAACC
* * * *
34682491 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
34682555 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
34682571 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
34682636 CCGG
66 CCGG
34682640 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:34682581 original size:40 final size:38
Alignment explanation
Indices: 34682532--34682639 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
34682522 ATCACGATTT
*
34682532 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
34682572 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
34682612 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
34682640 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:34687207 original size:13 final size:13
Alignment explanation
Indices: 34687179--34687221 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
34687169 TATTTCCCAA
*
34687179 AATAAATATTATTT
1 AATAAAT-TAATTT
*
34687193 AATCAATTAATTT
1 AATAAATTAATTT
34687206 AATAAATTAATTT
1 AATAAATTAATTT
34687219 AAT
1 AAT
34687222 TCTTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAAATTAATTT
Found at i:34692743 original size:26 final size:26
Alignment explanation
Indices: 34692641--34692815 Score: 197
Period size: 27 Copynumber: 6.6 Consensus size: 26
34692631 ATACTTTAGT
* *
34692641 TTACCAAAACACCACTAGTTTGTAAAA
1 TTACCAAAATACC-CTGGTTTGTAAAA
* * *
34692668 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCC-TGGTTTGTAAAA
* *
34692695 TCACCAAAATACCCCTGATTTGTAAAA
1 TTACCAAAATA-CCCTGGTTTGTAAAA
34692722 TTACCAAAATACCCTGGTTTGTAAAA
1 TTACCAAAATACCCTGGTTTGTAAAA
* *
34692748 TTATCAAAATACCCTAGTTTGTAAAA
1 TTACCAAAATACCCTGGTTTGTAAAA
* *
34692774 TTACCAAAATATCCCTGATTTGTGAAA
1 TTACCAAAATA-CCCTGGTTTGTAAAA
**
34692801 TTACTGAAATACCCT
1 TTACCAAAATACCCT
34692816 CAACCTGTAA
Statistics
Matches: 125, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 53 0.42
27 69 0.55
28 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (26 bp):
TTACCAAAATACCCTGGTTTGTAAAA
Found at i:34692867 original size:27 final size:27
Alignment explanation
Indices: 34692641--34692868 Score: 196
Period size: 27 Copynumber: 8.5 Consensus size: 27
34692631 ATACTTTAGT
* *
34692641 TTACCAAAACACCACTAG-TTTGTAAAA
1 TTACCAAAATACC-CTCGATTTGTAAAA
* * * * *
34692668 TTACTAGAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*
34692695 TCACCAAAATACCC-CTGATTTGTAAAA
1 TTACCAAAATACCCTC-GATTTGTAAAA
*
34692722 TTACCAAAATACCCT-GGTTTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
* *
34692748 TTATCAAAATACCCTAG-TTTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*
34692774 TTACCAAAATATCCCT-GATTTGTGAAA
1 TTACCAAAATA-CCCTCGATTTGTAAAA
** * **
34692801 TTACTGAAATACCCTCAACCTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*** *
34692828 TTATTGAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*
34692855 TTACCAAAGTACCC
1 TTACCAAAATACCC
34692869 CTAATTTACA
Statistics
Matches: 165, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
26 51 0.31
27 114 0.69
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTACCAAAATACCCTCGATTTGTAAAA
Found at i:34692897 original size:81 final size:80
Alignment explanation
Indices: 34692690--34692887 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 80
34692680 CCTTGGTTTA
* * ** * ****
34692690 TAAAATCACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCT-GGTTTGTAAAATTATCA
1 TAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAATACCCTCAACCTGTAAAATTATCA
*
34692754 AAATACCCTAGTTTG
66 AAATACCCTAGCTTG
* * *** * **
34692769 TAAAATTACCAAAATATCCCTGATTTGTGAAATTACTGAAATACCCTCAACCTGTAAAATTATTG
1 TAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAATACCCTCAACCTGTAAAATTATCA
*
34692834 AAATACCCTCGACTTG
66 AAATACCCTAG-CTTG
*
34692850 TAAAATTACCAAAGTACCCCTAATTTACAAAATTACCG
1 TAAAATTACCAAAATACCCCTAATTTACAAAATTACCG
34692888 TTTTACCCTC
Statistics
Matches: 97, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
79 42 0.43
80 21 0.22
81 34 0.35
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAATACCCTCAACCTGTAAAATTATCA
AAATACCCTAGCTTG
Found at i:34692921 original size:27 final size:27
Alignment explanation
Indices: 34692798--34692923 Score: 85
Period size: 27 Copynumber: 4.7 Consensus size: 27
34692788 CTGATTTGTG
* **
34692798 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACTGAAATACCCTCAACTTACA
* * **
34692825 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAACTTACA
* *
34692852 AAATTAC-CAAAGTACCC-CTAATTTACA
1 AAATTACTGAAA-TACCCTC-AACTTACA
* *** * *
34692879 AAATTACCGTTTTACCCTCGATTTACA
1 AAATTACTGAAATACCCTCAACTTACA
34692906 AAATTACTGAAATACCCT
1 AAATTACTGAAATACCCT
34692924 TGTAGGGTAG
Statistics
Matches: 77, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
26 4 0.05
27 72 0.94
28 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAACTTACA
Found at i:34692937 original size:27 final size:27
Alignment explanation
Indices: 34692907--34693181 Score: 333
Period size: 27 Copynumber: 10.2 Consensus size: 27
34692897 CGATTTACAA
*
34692907 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34692934 AATTACCGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
34692961 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
34692988 AATTACT-AGAATACCCCTGTAGGGTAG
1 AATTACTGA-AATACCCCTGTAGGGTAG
* *
34693015 AATTA-TCGGAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
34693042 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
34693069 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
34693096 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
34693123 AATTACTAAAATATCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
34693150 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
34693176 AATTAC
1 AATTAC
34693182 CATTTTGCCC
Statistics
Matches: 217, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
26 16 0.07
27 200 0.92
28 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:34693867 original size:26 final size:27
Alignment explanation
Indices: 34693831--34693904 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
34693821 ATTCTGTTAA
* *
34693831 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
34693857 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
34693884 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
34693905 ATAACTGAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:34694074 original size:31 final size:31
Alignment explanation
Indices: 34694036--34694146 Score: 186
Period size: 31 Copynumber: 3.6 Consensus size: 31
34694026 TTGCATTCAC
34694036 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
**
34694067 ATTCTGATTTTGATTCTGTTACCTGATGTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
34694098 ATTCTGATTTTGATTCGGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
34694129 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
34694147 ATTCTGTCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.18, C:0.15, G:0.18, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:34694075 original size:6 final size:6
Alignment explanation
Indices: 34694036--34694203 Score: 132
Period size: 6 Copynumber: 27.3 Consensus size: 6
34694026 TTGCATTCAC
* * *
34694036 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
34694085 -TTACCTG ATGT-TG ATTCTG ATTTTG ATTC-G GTTACCTG ATACTG ATTCTG
1 ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* *
34694135 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
34694184 ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
34694204 AATGTTTCTT
Statistics
Matches: 130, Mismatches: 16, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
5 10 0.08
6 104 0.80
7 10 0.08
8 5 0.04
9 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (6 bp):
ATTCTG
Done.