Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 275 of 322
Found at i:91352622 original size:502 final size:505
Alignment explanation
Indices: 91351669--91352677 Score: 1853
Period size: 502 Copynumber: 2.0 Consensus size: 505
91351659 CCATTTTTGG
*
91351669 GGTCGATTTCAACACTTAATACACACATGTACACACTAGTAAAGCATCCTCCCCCTTTTCATCAA
1 GGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAA
*
91351734 TTTAACACATGCATTGCTCATTAACATGCAAAGTTACATTCGGCCTTAGCACACATCTTGCTAGC
66 TTTAACACATGCATTGCTCATCAACATGCAAAGTTACATTCGGCCTTAGCACACATCTTGCTAGC
91351799 CGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTCACACAACAAAAAAATGCTAAAAAGG
131 CGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCT-ACACAAC-AAAAAATGCTAAAAAGG
*
91351864 AGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAAGCTTCATATTTTGCATGCAAT
194 AGGTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAACCTTCATATTTTGCATGCAAT
* *
91351929 GGCATTAACACAACCTCCACCTAGGCCGAATCTTAACTCATCCTCATGCCTCATCACCACAACAT
259 GGCATTAACACAACCCCCACCTAGGCCGAATCTTAACTCATCCTCATACCTCATCACCACAACAT
*
91351994 CAAACATCAACCAAGAATGATTCATCCATGGTCAAGTGCCATTTCCATCACATAGCAAGATTTAG
324 CAAACATCAACCAAGAATGATGCATCCATGGTCAAGTGCCATTTCCATCACATAGCAAGATTTAG
* * *
91352059 ACCATGGGTTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCCTCTCATGGAACATCATCA
389 ACCATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGAAACATCATCA
91352124 AACATACCTTAGCCTAGCTACATGCATGGCCGAATCTCTTCACCTTTCTTCT
454 AACATACCTTAGCCTAGCTACATGCATGGCCGAATCTCTTCACCTTTCTTCT
*
91352176 GGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCGA
1 GGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAA
91352241 TTTAACACATGCATTGCTCATCAACATGCAAAGTTACATTCGGCCTTAGCACACATCTTGCTAGC
66 TTTAACACATGCATTGCTCATCAACATGCAAAGTTACATTCGGCCTTAGCACACATCTTGCTAGC
*
91352306 CGATTCTTCTCCCTTTAGCAACCAATGCACATATGTGCT-CAC-AC-AAAAATGCTAAAAAGGAG
131 CGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGGAG
91352368 GTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAACCTTCATATTTTGCATGCAATGG
196 GTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAACCTTCATATTTTGCATGCAATGG
91352433 CATTAACACAACCCCCACCTAGGCCGAATCTTAACTCATCCTCATACCTCATCACCACAACATCA
261 CATTAACACAACCCCCACCTAGGCCGAATCTTAACTCATCCTCATACCTCATCACCACAACATCA
*
91352498 AACATCAACCAAGAATGATGCATCCATGGTCGAGTGCCATTTCCATCACATAGCAAGATTTAGAC
326 AACATCAACCAAGAATGATGCATCCATGGTCAAGTGCCATTTCCATCACATAGCAAGATTTAGAC
* *
91352563 CATGGGCTAGGTAGAACTCAAGCTAACCACTAAATCATGCATGCATCTCATGAAACATCATCAAA
391 CATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGAAACATCATCAAA
91352628 CATACCTTAGCCTAGCTACATGCATGGCCGAATCTCTTCACCTTTCTTCT
456 CATACCTTAGCCTAGCTACATGCATGGCCGAATCTCTTCACCTTTCTTCT
91352678 CTAACAACTA
Statistics
Matches: 488, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
502 318 0.65
504 2 0.00
505 3 0.01
507 165 0.34
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (505 bp):
GGTCGATTTCAACACTTAATACACACATATACACACTAGTAAAGCATCCTCCCCCTTTTCATCAA
TTTAACACATGCATTGCTCATCAACATGCAAAGTTACATTCGGCCTTAGCACACATCTTGCTAGC
CGATTCTTCTCCATTTAGCAACCAATGCACATATGTGCTACACAACAAAAAATGCTAAAAAGGAG
GTTCAAGAATCATCAAGCCATCATCACATGCATCATTAACAACCTTCATATTTTGCATGCAATGG
CATTAACACAACCCCCACCTAGGCCGAATCTTAACTCATCCTCATACCTCATCACCACAACATCA
AACATCAACCAAGAATGATGCATCCATGGTCAAGTGCCATTTCCATCACATAGCAAGATTTAGAC
CATGGGCTAGGTAGAACTCAAGCTAACAACTAAAACATGCATGCATCTCATGAAACATCATCAAA
CATACCTTAGCCTAGCTACATGCATGGCCGAATCTCTTCACCTTTCTTCT
Found at i:91352696 original size:93 final size:94
Alignment explanation
Indices: 91352585--91352771 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 94
91352575 AGAACTCAAG
* *
91352585 CTAACCACTAAATCATGCATGCATCTCATGAAACATCATCAAACATACCTTAGCCTAGCTACATG
1 CTAACAACTAAAACATGCATGCATCTCATGAAACATCATCAAACATACCTTAGCCTAGCTACATG
*
91352650 CATGGCCGAATCTCTTC-ACCTTTCTTCT
66 CATGGCCGAACCTCTTCAACCTTTCTTCT
*
91352678 CTAACAACTAAAACATGCATGCATCTCATGGAACATCATCAAACATACCTTAGCCTAGCTACATG
1 CTAACAACTAAAACATGCATGCATCTCATGAAACATCATCAAACATACCTTAGCCTAGCTACATG
91352743 CATGGCCGAACCTCTTCAACCTTTCTTCT
66 CATGGCCGAACCTCTTCAACCTTTCTTCT
91352772 TCCTTCCTCC
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 78 0.88
94 11 0.12
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (94 bp):
CTAACAACTAAAACATGCATGCATCTCATGAAACATCATCAAACATACCTTAGCCTAGCTACATG
CATGGCCGAACCTCTTCAACCTTTCTTCT
Found at i:91352839 original size:13 final size:13
Alignment explanation
Indices: 91352821--91352845 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91352811 GGATGAGCAT
91352821 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
91352834 TTTTTTTTCTTT
1 TTTTTTTTCTTT
91352846 CTAGTTTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:91368936 original size:43 final size:43
Alignment explanation
Indices: 91368888--91368995 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 43
91368878 GATTGACGAG
*
91368888 ATGTGATTATGTGTAAGACCATGTCTTAGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
** * * *
91368931 ATGTGATTACATGTAAGACCATTTCTGGGACATTGGCATTATT
1 ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
*
91368974 ATTTGATT-TCGTGTAAGACCAT
1 ATGTGATTAT-GTGTAAGACCAT
91368996 AGCTAGGCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTCTGAGACATTGGCATCATT
Found at i:91374373 original size:43 final size:43
Alignment explanation
Indices: 91374237--91374408 Score: 188
Period size: 43 Copynumber: 4.0 Consensus size: 43
91374227 CATAGGATTC
* * *
91374237 CGATATGTGATTTCGTATAACACCATGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * * **
91374280 CGAT-TTGAGATTTACGTGCAAGACCATGTCTAGGACATCAGCAT
1 CGATATT-TGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCAT
*
91374324 C-ATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* *
91374366 CGATATTTGATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
91374409 TCTATGAGCT
Statistics
Matches: 104, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 26 0.25
43 52 0.50
44 26 0.25
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:91378375 original size:13 final size:14
Alignment explanation
Indices: 91378357--91378385 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
91378347 TTTAATATAA
91378357 AATTAGTAT-TTTG
1 AATTAGTATGTTTG
91378370 AATTAGTATGTTTG
1 AATTAGTATGTTTG
91378384 AA
1 AA
91378386 GTGGATTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
AATTAGTATGTTTG
Found at i:91388712 original size:44 final size:44
Alignment explanation
Indices: 91388649--91388737 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
91388639 ATTTATTCAG
91388649 CTTCTAATTCAATTTCCTCAATTTATGGTGATTTTCCAAAATCA
1 CTTCTAATTCAATTTCCTCAATTTATGGTGATTTTCCAAAATCA
91388693 CTTCTAATTCAATTTCCTCAATTTATGGTGATTTTCCAAAATCA
1 CTTCTAATTCAATTTCCTCAATTTATGGTGATTTTCCAAAATCA
91388737 C
1 C
91388738 GCTACTGTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (44 bp):
CTTCTAATTCAATTTCCTCAATTTATGGTGATTTTCCAAAATCA
Found at i:91389289 original size:39 final size:39
Alignment explanation
Indices: 91389246--91389386 Score: 210
Period size: 39 Copynumber: 3.6 Consensus size: 39
91389236 AGCCTGCGGG
*
91389246 ACTTTAGCCCGGATACATTTCCTGCACGAAGCCTACGAA
1 ACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAA
* **
91389285 ACTTTAGCCCGGATACATTTCCGGCACGAAGCCTACGGG
1 ACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAA
**
91389324 ACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGAA
1 ACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAA
* *
91389363 ACTTTAACCCAGATACATTTCCAG
1 ACTTTAGCCCGGATACATTTCCAG
91389387 TATCTTGCAT
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (39 bp):
ACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAA
Found at i:91389364 original size:78 final size:78
Alignment explanation
Indices: 91389230--91389384 Score: 247
Period size: 78 Copynumber: 2.0 Consensus size: 78
91389220 TATATTACTA
* * *
91389230 GCACAAAGCCTGCGGGACTTTAGCCCGGATACATTTCCTGCACGAAGCCTACGAAACTTTAGCCC
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAAACTTTAACCC
*
91389295 GGATACATTTCCG
66 AGATACATTTCCG
* **
91389308 GCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGTGAAACTTTAACCC
1 GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAAACTTTAACCC
91389373 AGATACATTTCC
66 AGATACATTTCC
91389385 AGTATCTTGC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (78 bp):
GCACAAAGCCTACGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTACGAAACTTTAACCC
AGATACATTTCCG
Found at i:91392249 original size:28 final size:28
Alignment explanation
Indices: 91392209--91392420 Score: 172
Period size: 28 Copynumber: 7.5 Consensus size: 28
91392199 AACCGATCTT
91392209 GCACACACAGTGCTCGGTTACAGAACTC
1 GCACACACAGTGCTCGGTTACAGAACTC
* * **** * *
91392237 GTACACACCGTGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGGTTACAGAACTC
91392266 GCACACACAGTGCTCGGTTACAGAACTC
1 GCACACACAGTGCTCGGTTACAGAACTC
* **** * *
91392294 GCACACACACTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACAGAACTC
**
91392323 GCACACACAGTGCTCGGTTATGGAACTC
1 GCACACACAGTGCTCGGTTACAGAACTC
* **** * *
91392351 ACACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTACAGAACTC
*
91392380 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTACAGAACTC
91392408 GCACACACAGTGC
1 GCACACACAGTGC
91392421 CTATGTTCAC
Statistics
Matches: 135, Mismatches: 46, Indels: 6
0.72 0.25 0.03
Matches are distributed among these distances:
28 74 0.55
29 61 0.45
ACGTcount: A:0.29, C:0.36, G:0.18, T:0.17
Consensus pattern (28 bp):
GCACACACAGTGCTCGGTTACAGAACTC
Found at i:91392270 original size:57 final size:57
Alignment explanation
Indices: 91392179--91392422 Score: 380
Period size: 57 Copynumber: 4.2 Consensus size: 57
91392169 GATCTCATTT
* *
91392179 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTCGGTTACAGAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
* * *
91392238 TACACACCGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
* ** *
91392295 CACACACACTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTATGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
*
91392352 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
91392409 CACACACAGTGCCT
1 CACACACAGTGCCT
91392423 ATGTTCACTT
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
57 164 0.96
59 6 0.04
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACAGAACTCG
Found at i:91392272 original size:29 final size:29
Alignment explanation
Indices: 91392179--91392392 Score: 155
Period size: 29 Copynumber: 7.4 Consensus size: 29
91392169 GATCTCATTT
* *
91392179 CACACACTTAGTGCCCCAACAACCGATCTTG
1 CACACAC--AGTGCCTCAACAACCGATCTCG
**** * *
91392210 CACACACAGTG-CTCGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
* * *
91392238 TACACACCGTGCCTCAACAACTGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** * *
91392267 CACACACAGTG-CTCGGTTACAGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
*
91392295 CACACACACTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
**** ** * *
91392324 CACACACAGTG-CTCGGTTATGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCG
91392352 CACACACAGTGCCTCAACAACCGATCTCG
1 CACACACAGTGCCTCAACAACCGATCTCG
91392381 CACACACAGTGC
1 CACACACAGTGC
91392393 TCGGTTACGG
Statistics
Matches: 132, Mismatches: 48, Indels: 8
0.70 0.26 0.04
Matches are distributed among these distances:
28 59 0.45
29 66 0.50
31 7 0.05
ACGTcount: A:0.29, C:0.37, G:0.16, T:0.17
Consensus pattern (29 bp):
CACACACAGTGCCTCAACAACCGATCTCG
Found at i:91394730 original size:39 final size:39
Alignment explanation
Indices: 91394681--91394757 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
91394671 TATATTACTA
*
91394681 GCACAAAGCCTGCAGGACTTTAGCCCGGATACATTTCCT
1 GCACAAAGCCTACAGGACTTTAGCCCGGATACATTTCCT
* *
91394720 GCACGAAGCCTACGGGACTTTAGCCCGGATACATTTCC
1 GCACAAAGCCTACAGGACTTTAGCCCGGATACATTTCC
91394758 AGTATCTTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.22
Consensus pattern (39 bp):
GCACAAAGCCTACAGGACTTTAGCCCGGATACATTTCCT
Found at i:91396865 original size:31 final size:31
Alignment explanation
Indices: 91396827--91396890 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
91396817 CCTTTTCATA
91396827 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
** *
91396858 TTTCATATTTCATATTACTGGGCCGGAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
91396889 TT
1 TT
91396891 ACTATAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:91397154 original size:47 final size:47
Alignment explanation
Indices: 91397096--91397222 Score: 211
Period size: 47 Copynumber: 2.7 Consensus size: 47
91397086 CTGGAGGCCT
*
91397096 AGCCTCTTTAATAACTGGGGCAAAAGCCCTTTTAACAACTGGGGCATA
1 AGCC-CTTTAATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATA
*
91397144 AGCCCTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTAATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATA
91397190 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
1 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
91397223 GCACTTCCTC
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
46 22 0.29
47 46 0.61
48 7 0.09
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (47 bp):
AGCCCTTTAATAACTGGGGCATAAGCCCTTTTAACAACTGGGGCATA
Found at i:91397158 original size:23 final size:23
Alignment explanation
Indices: 91397082--91397221 Score: 210
Period size: 24 Copynumber: 6.0 Consensus size: 23
91397072 GCTTTATCGT
*
91397082 ATAACTGGAGGCCT-AGCCTCTTTA
1 ATAACTGG-GGCATAAGCC-CTTTA
*
91397106 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
*
91397130 ACAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
91397153 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
91397176 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCC-TTTA
91397200 ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT
91397222 TGCACTTCCT
Statistics
Matches: 108, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 52 0.48
24 56 0.52
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:91397297 original size:20 final size:20
Alignment explanation
Indices: 91397272--91397338 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
91397262 TTATGAATAC
91397272 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
91397292 ATCATGTGCATAGCATACAT
1 ATCATGTGCATATCATACAT
*
91397312 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
91397332 ACCATGT
1 ATCATGT
91397339 TTACTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:91401740 original size:70 final size:70
Alignment explanation
Indices: 91401627--91401760 Score: 241
Period size: 70 Copynumber: 1.9 Consensus size: 70
91401617 AGTATAGTTC
*
91401627 ATATCATATATACATATGCATATTCGGCCATCGAATTAAGAGCATAGGTGATGTTGAGTCTAAGC
1 ATATCATATATACATATGCATATTCGGCCATCAAATTAAGAGCATAGGTGATGTTGAGTCTAAGC
91401692 TTTTG
66 TTTTG
* *
91401697 ATATCATATATATATATGTATATTCGGCCATCAAATTAAGAGCATAGGTGATGTTGAGTCTAAG
1 ATATCATATATACATATGCATATTCGGCCATCAAATTAAGAGCATAGGTGATGTTGAGTCTAAG
91401761 TGTTGCACAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
70 61 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (70 bp):
ATATCATATATACATATGCATATTCGGCCATCAAATTAAGAGCATAGGTGATGTTGAGTCTAAGC
TTTTG
Found at i:91402384 original size:28 final size:28
Alignment explanation
Indices: 91402352--91402421 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
91402342 AATGAGATTG
*
91402352 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
91402380 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
91402408 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
91402422 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:91411645 original size:13 final size:13
Alignment explanation
Indices: 91411626--91411665 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
91411616 AATTTGTGTG
91411626 TTCTTTATTTT-T
1 TTCTTTATTTTAT
91411638 TATCTTTATTTTAT
1 T-TCTTTATTTTAT
91411652 TT-TTTATTTTAT
1 TTCTTTATTTTAT
91411664 TT
1 TT
91411666 TTTTTACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 13 0.50
13 11 0.42
14 2 0.08
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (13 bp):
TTCTTTATTTTAT
Found at i:91411652 original size:18 final size:17
Alignment explanation
Indices: 91411629--91411670 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 17
91411619 TTGTGTGTTC
91411629 TTTATTTTTTATCTTTAT
1 TTTATTTTTTAT-TTTAT
91411647 TTTATTTTTTATTTTAT
1 TTTATTTTTTATTTTAT
91411664 TTT-TTTT
1 TTTATTTT
91411671 ACAAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 8 0.33
18 12 0.50
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTATTTTTTATTTTAT
Found at i:91412880 original size:48 final size:48
Alignment explanation
Indices: 91412809--91412906 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
91412799 TTCGGCGCGA
91412809 ACATAGCTTGCTACCCGTGAACCCATGATAGTATGAAGGTCACTAATT
1 ACATAGCTTGCTACCCGTGAACCCATGATAGTATGAAGGTCACTAATT
*
91412857 ACATAGCTTGCTACTCGTGAACCCATGATAGTATGAAGGTCACTAATT
1 ACATAGCTTGCTACCCGTGAACCCATGATAGTATGAAGGTCACTAATT
91412905 AC
1 AC
91412907 TCTTCCAAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (48 bp):
ACATAGCTTGCTACCCGTGAACCCATGATAGTATGAAGGTCACTAATT
Found at i:91414849 original size:16 final size:16
Alignment explanation
Indices: 91414828--91414861 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
91414818 TTATTTACAG
*
91414828 TTTTTTATCATTTACT
1 TTTTTTAACATTTACT
*
91414844 TTTTTTAACTTTTACT
1 TTTTTTAACATTTACT
91414860 TT
1 TT
91414862 AATTTATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTAACATTTACT
Found at i:91415128 original size:38 final size:38
Alignment explanation
Indices: 91415085--91415162 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
91415075 AATAAGGGTG
*
91415085 TTGGTGAATAAAATAAAAAATTTTCTTTACTTATAAGT
1 TTGGTGAATAAAATAAAAAACTTTCTTTACTTATAAGT
91415123 TTGGTGAATAAAATAAAAAACTTTCTTTACTTATAAGT
1 TTGGTGAATAAAATAAAAAACTTTCTTTACTTATAAGT
91415161 TT
1 TT
91415163 TGAAAATAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.42
Consensus pattern (38 bp):
TTGGTGAATAAAATAAAAAACTTTCTTTACTTATAAGT
Found at i:91415171 original size:38 final size:38
Alignment explanation
Indices: 91415091--91415171 Score: 126
Period size: 38 Copynumber: 2.1 Consensus size: 38
91415081 GGTGTTGGTG
* **
91415091 AATAAAATAAAAAATTTTCTTTACTTATAAGTTTGGTG
1 AATAAAATAAAAAACTTTCTTTACTTATAAGTTTGGAA
*
91415129 AATAAAATAAAAAACTTTCTTTACTTATAAGTTTTGAA
1 AATAAAATAAAAAACTTTCTTTACTTATAAGTTTGGAA
91415167 AATAA
1 AATAA
91415172 TCATAAATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (38 bp):
AATAAAATAAAAAACTTTCTTTACTTATAAGTTTGGAA
Found at i:91424609 original size:59 final size:59
Alignment explanation
Indices: 91424517--91424658 Score: 239
Period size: 59 Copynumber: 2.4 Consensus size: 59
91424507 TTAATTGACT
* *
91424517 GGATTTAGCCTGGACTTGTAATCCAAAATGAACTCTATAGGGAATTCTTTGTCATACAA
1 GGATTTAGCCTAGACTGGTAATCCAAAATGAACTCTATAGGGAATTCTTTGTCATACAA
* *
91424576 GGATTTAGCCTAGACTGGTAATCCAGAATGAACTTTATAGGGAATTCTTTGTCATACAA
1 GGATTTAGCCTAGACTGGTAATCCAAAATGAACTCTATAGGGAATTCTTTGTCATACAA
*
91424635 GGATTTAGCCTAGACTGTTAATCC
1 GGATTTAGCCTAGACTGGTAATCC
91424659 GACAAAGCCC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 78 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (59 bp):
GGATTTAGCCTAGACTGGTAATCCAAAATGAACTCTATAGGGAATTCTTTGTCATACAA
Found at i:91432335 original size:13 final size:14
Alignment explanation
Indices: 91432319--91432347 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91432309 TTATAAATAT
91432319 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
91432332 TTATAATGGTTTAA
1 TTATAATGGTTTAA
91432346 TT
1 TT
91432348 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:91432792 original size:21 final size:21
Alignment explanation
Indices: 91432768--91432808 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
91432758 ATGCAGTAGT
*
91432768 GAGGGAGGCAGTGGCAGCAGA
1 GAGGGAGGCAGAGGCAGCAGA
91432789 GAGGGAGGCAGAGGCAGCAG
1 GAGGGAGGCAGAGGCAGCAG
91432809 CAATGGTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.54, T:0.02
Consensus pattern (21 bp):
GAGGGAGGCAGAGGCAGCAGA
Found at i:91433116 original size:31 final size:31
Alignment explanation
Indices: 91433064--91433129 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
91433054 TGTATTTTTT
*
91433064 ATGCTACATTTGCTGTATTTGGTTGGATTCA
1 ATGCTACATTTACTGTATTTGGTTGGATTCA
* * *
91433095 ATGCTATATTTACTGTTTTTGGTTGGATTTA
1 ATGCTACATTTACTGTATTTGGTTGGATTCA
91433126 ATGC
1 ATGC
91433130 AGGAAGGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.20, C:0.11, G:0.21, T:0.48
Consensus pattern (31 bp):
ATGCTACATTTACTGTATTTGGTTGGATTCA
Found at i:91433406 original size:43 final size:43
Alignment explanation
Indices: 91433206--91433407 Score: 210
Period size: 43 Copynumber: 4.7 Consensus size: 43
91433196 AAAAGCGCCA
* * * *
91433206 CTAAAAGTCATGACTTTTAGCGGTGCTTTTACCACAAAAGCTG
1 CTAAAAGCCATGACTTTTAGTGGTGCTTTTCCCACAAACGCTG
* * * *
91433249 CTAAAGGCCATGACTTTTAGTGGTGCCTTTCCCTCAAACGCCG
1 CTAAAAGCCATGACTTTTAGTGGTGCTTTTCCCACAAACGCTG
* * *
91433292 CTAAAGGCCATGACTTTTAATGGCGCTTTTCCCACAAACGCTG
1 CTAAAAGCCATGACTTTTAGTGGTGCTTTTCCCACAAACGCTG
* ** * *
91433335 CTAAAACCCATGACTTTTAACGGCGTTTTTCCCACAAACG-TCG
1 CTAAAAGCCATGACTTTTAGTGGTGCTTTTCCCACAAACGCT-G
* *
91433378 CTAAAAGTCATGATCTTTT-GTGGTGTTTTT
1 CTAAAAGCCATGA-CTTTTAGTGGTGCTTTT
91433408 TTCAAATAAA
Statistics
Matches: 135, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 129 0.96
44 5 0.04
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
CTAAAAGCCATGACTTTTAGTGGTGCTTTTCCCACAAACGCTG
Found at i:91433718 original size:16 final size:16
Alignment explanation
Indices: 91433697--91433729 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
91433687 GTTAGAAGTT
*
91433697 TTCTAGGGTTAGTTGG
1 TTCTAGGGTTAGCTGG
91433713 TTCTAGGGTTAGCTGG
1 TTCTAGGGTTAGCTGG
91433729 T
1 T
91433730 CATTGTCGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.36, T:0.42
Consensus pattern (16 bp):
TTCTAGGGTTAGCTGG
Found at i:91435856 original size:16 final size:16
Alignment explanation
Indices: 91435816--91435857 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
91435806 TAATGTTATT
*
91435816 CAGGCTTTATGCCTAG
1 CAGGCTTTGTGCCTAG
* *
91435832 TAGGCTTTGTTCCTAG
1 CAGGCTTTGTGCCTAG
91435848 CAGGCTTTGT
1 CAGGCTTTGT
91435858 ACCGATGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.38
Consensus pattern (16 bp):
CAGGCTTTGTGCCTAG
Found at i:91435905 original size:38 final size:38
Alignment explanation
Indices: 91435843--91436036 Score: 208
Period size: 38 Copynumber: 5.1 Consensus size: 38
91435833 AGGCTTTGTT
* * *
91435843 CCTAGCAGGCTTTGTACCGATGATATTCGGGCTCTATA
1 CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
** * * * *
91435881 CCTAATAGGCTTTGTGCTGGTGATAGTCAGGCTCTGTG
1 CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
* * *
91435919 CCTTGCAAGCTTTGTGCCGATGATATTCGGGCTCTATG
1 CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
* * * *
91435957 CCTAGTAGGCTTTGTGCCAGTGATTTTCGAGCTCTATG
1 CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
* * * *
91435995 CTTAGCAGGCTTTGTACCGGTGTTATTCAGGCTCTATG
1 CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
91436033 CCTA
1 CCTA
91436037 TTCCGGTGTA
Statistics
Matches: 122, Mismatches: 34, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 122 1.00
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (38 bp):
CCTAGCAGGCTTTGTGCCGGTGATATTCGGGCTCTATG
Found at i:91437064 original size:185 final size:186
Alignment explanation
Indices: 91436737--91437109 Score: 534
Period size: 185 Copynumber: 2.0 Consensus size: 186
91436727 CTCAACTGTA
** *
91436737 TGTCCCCTATAGGTTTTAAAGGCATTCAAGTTTGGCAGTTACATGGCCTAGCACACAGCCTGGCT
1 TGTCCCCTATAGGTTTTAAAGGCATTCAAGTTCAGCAGTTACATGGCCTAGCACACAGCCTAGCT
* * **
91436802 CACGGGCGTGTGGCTTAGCCGTGTGACCCAAGTCAGAGAGTTACACGAGCATGGACATGGCAGTG
66 CACGGGCGTGTGGCTTAGCCGTGTGACCCAAGTCAAAGAGTTACACAAGCACAGACATGGCAGTG
* *
91436867 TGCCCCTACTTCGAATGTCCACACAACCT-ATGACACAGGCATGCGTCTCAGTCGTG
131 TGCCCATACTTCGAATGTCCACACAACCTGA-GACACAGGCATGCGTCTCAGCCGTG
* * *
91436923 TGTCCCCTGTAGGTTTTTAAGGCATTCAAG-TCAGCAGTTACATGGCCTAGCACATAGCCTAGCT
1 TGTCCCCTATAGGTTTTAAAGGCATTCAAGTTCAGCAGTTACATGGCCTAGCACACAGCCTAGCT
* * * *
91436987 CACGGGTGTGTGGCTTGGCCGTGTGACCCAAGTCAAAGAGTTACACAAGTACAGACATGGCCGTG
66 CACGGGCGTGTGGCTTAGCCGTGTGACCCAAGTCAAAGAGTTACACAAGCACAGACATGGCAGTG
* * ** *
91437052 TGTCCATACTTCGAATGTCCACACAGCCTGAGACATGGGCATGTGTCTCAGCCGTG
131 TGCCCATACTTCGAATGTCCACACAACCTGAGACACAGGCATGCGTCTCAGCCGTG
91437108 TG
1 TG
91437110 AGCCACACGG
Statistics
Matches: 165, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
185 136 0.82
186 29 0.18
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (186 bp):
TGTCCCCTATAGGTTTTAAAGGCATTCAAGTTCAGCAGTTACATGGCCTAGCACACAGCCTAGCT
CACGGGCGTGTGGCTTAGCCGTGTGACCCAAGTCAAAGAGTTACACAAGCACAGACATGGCAGTG
TGCCCATACTTCGAATGTCCACACAACCTGAGACACAGGCATGCGTCTCAGCCGTG
Found at i:91439748 original size:44 final size:43
Alignment explanation
Indices: 91439695--91439797 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 43
91439685 CTTTTAGGTA
* **
91439695 TATCTGATGATGCACTGTGTGTGCCAGTATAGTAGCTTCAGTT
1 TATCCGATGATGCACTGTGTGCACCAGTATAGTAGCTTCAGTT
* * **
91439738 TCATCCGATGATGCACTGTGTGCACTAGTATATTTTCTTCAGTT
1 T-ATCCGATGATGCACTGTGTGCACCAGTATAGTAGCTTCAGTT
91439782 TATCCGATGATGCACT
1 TATCCGATGATGCACT
91439798 TACGTGCCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 16 0.31
44 36 0.69
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (43 bp):
TATCCGATGATGCACTGTGTGCACCAGTATAGTAGCTTCAGTT
Found at i:91444070 original size:40 final size:40
Alignment explanation
Indices: 91444015--91444166 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
91444005 ATAACCACAA
* * * * *
91444015 GCACAATTGTCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
91444055 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
91444095 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
91444135 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
91444167 CATTCAAATT
Statistics
Matches: 101, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 96 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:91452488 original size:48 final size:48
Alignment explanation
Indices: 91452408--91452695 Score: 317
Period size: 48 Copynumber: 6.0 Consensus size: 48
91452398 ATACTAAGGT
* *
91452408 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTA
* * * * * *
91452456 TATAAGAGCTAGTGTAAGACCATGACTAGGACATGGCATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTA
* * * * * *
91452504 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTA
* * *
91452552 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTA
* * * * *
91452600 TATGTG-GCTAGTGTAATACCATGTTTGGAACATGGCATCGGCACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATC--TA
* * * *
91452649 TATGAGAGCCAATGTAAGACCATGTTTGGGACATGGCATCAGCATCT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCT
91452696 TACCCTTTTG
Statistics
Matches: 193, Mismatches: 44, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
47 33 0.17
48 121 0.63
49 6 0.03
50 33 0.17
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTA
Found at i:91452572 original size:96 final size:96
Alignment explanation
Indices: 91452408--91452691 Score: 408
Period size: 96 Copynumber: 2.9 Consensus size: 96
91452398 ATACTAAGGT
* * * *
91452408 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTTATATAAGAGCTAGTGTAA
1 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
91452473 GACCATGACTAGGACATGGCATCAGCCTCGA
66 GACCATGTCTGGGACATGGCATCAGCCTCGA
*
91452504 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
91452569 GACCATGTCTGGGACATGGCGTCGGCCTCGA
66 GACCATGTCTGGGACATGGCATCAGCCTCGA
* ** * *
91452600 TATGT-GGCTAGTGTAATACCATGTTTGGAACATGGCATCGGCACCGATATATGAGAGCCAATGT
1 TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
*
91452664 AAGACCATGTTTGGGACATGGCATCAGC
64 AAGACCATGTCTGGGACATGGCATCAGC
91452692 ATCTTACCCT
Statistics
Matches: 168, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
95 36 0.21
96 92 0.55
97 40 0.24
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (96 bp):
TATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCAGCCTCGA
Found at i:91455623 original size:47 final size:47
Alignment explanation
Indices: 91455558--91455785 Score: 332
Period size: 47 Copynumber: 4.8 Consensus size: 47
91455548 TATCACATTT
* *
91455558 ATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCAC
* *
91455605 ATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCAC
* * *
91455652 ATTCATCACATCGGCCATTCGGCCTTATCACACATACACATGTTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCAC
*
91455699 ATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACT-TTCAC
1 ATTCATCACATTGGCCATTCGGCCTTATCA--CATATATACA-TGTTCAC
* *
91455748 ATTCATCACATTGGCCACTCGGCCCTATCACATATATA
1 ATTCATCACATTGGCCATTCGGCCTTATCACATATATA
91455786 TACTTGTACA
Statistics
Matches: 167, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 126 0.75
49 40 0.24
50 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.11, T:0.32
Consensus pattern (47 bp):
ATTCATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCAC
Found at i:91472450 original size:91 final size:91
Alignment explanation
Indices: 91472295--91472476 Score: 346
Period size: 91 Copynumber: 2.0 Consensus size: 91
91472285 GGGCGACTTC
*
91472295 GACTTCAAGATCCCAAGTCCGATAGCTGGAGAACTAAAAATCTATAAAACAGAGGAGCAGTGTAA
1 GACTTCAAGATCCCAAGTCCGATAGCTGGAGAACCAAAAATCTATAAAACAGAGGAGCAGTGTAA
91472360 CGAGTAAGCAATTTATGCTTAGTAAG
66 CGAGTAAGCAATTTATGCTTAGTAAG
*
91472386 GACTTCAAGATCCCGAGTCCGATAGCTGGAGAACCAAAAATCTATAAAACAGAGGAGCAGTGTAA
1 GACTTCAAGATCCCAAGTCCGATAGCTGGAGAACCAAAAATCTATAAAACAGAGGAGCAGTGTAA
91472451 CGAGTAAGCAATTTATGCTTAGTAAG
66 CGAGTAAGCAATTTATGCTTAGTAAG
91472477 TTTTGAGCAA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (91 bp):
GACTTCAAGATCCCAAGTCCGATAGCTGGAGAACCAAAAATCTATAAAACAGAGGAGCAGTGTAA
CGAGTAAGCAATTTATGCTTAGTAAG
Found at i:91473002 original size:120 final size:120
Alignment explanation
Indices: 91472841--91473149 Score: 410
Period size: 120 Copynumber: 2.6 Consensus size: 120
91472831 TTTAGTAACT
*
91472841 CACACAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACC
1 CACA-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
91472906 CGG-ATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTT-GTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* * * * *
91472962 CACAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACAAATGCCTTCGGGGCTTAACC
1 CACAAATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCACAAATGCCTTCGGGACTTAACC
*
91473026 CGGAATTTGTATCTCGCACAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
65 CGGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
* ** * * * * *
91473082 CACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CACAAATGCCTTCGGGA-CATAACCCGGATTTAATAAC-TCGCACAAATGCCTTCGGGACTTAAC
91473145 CCGGA
64 CCGGA
91473150 CAGCATTCAA
Statistics
Matches: 166, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
119 5 0.03
120 141 0.85
121 20 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (120 bp):
CACAAATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACAAATGCCTTCGGGACTTAACCC
GGAATTTGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCG
Found at i:91473109 original size:40 final size:40
Alignment explanation
Indices: 91472805--91473096 Score: 412
Period size: 40 Copynumber: 7.3 Consensus size: 40
91472795 GCTCCTCGTT
* * * * * *
91472805 CAAATGCCTTCGGGACATAGCCCGG-TTTTAGTAACTCACA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* * * *
91472845 C-AATGCCTTCGGGACATAACCCGG-ATTTAATAACTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
* *
91472884 CGAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
*
91472924 CAAAGGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
91472964 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
91473004 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
91473044 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
91473084 CAAATGCCTTCGG
1 CAAATGCCTTCGG
91473097 ATCTTAGTCC
Statistics
Matches: 239, Mismatches: 11, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 35 0.15
40 200 0.84
41 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
Found at i:91473158 original size:41 final size:41
Alignment explanation
Indices: 91473081--91473158 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
91473071 TTTGTATCTC
* * *
91473081 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
91473122 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
91473159 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:91486142 original size:47 final size:47
Alignment explanation
Indices: 91486088--91486281 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
91486078 TTAGGATTTT
** * *
91486088 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
91486135 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
91486182 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
91486229 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
91486276 ATGTGA
1 ATGTGA
91486282 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:91486188 original size:22 final size:22
Alignment explanation
Indices: 91486117--91486188 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
91486107 GTATATATGA
91486117 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
91486139 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
91486164 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
91486186 GAT
1 GAT
91486189 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:91486237 original size:25 final size:25
Alignment explanation
Indices: 91486162--91486237 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
91486152 ATGCATATAT
91486162 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
91486187 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
91486209 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
91486234 GTGA
1 GTGA
91486238 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:91486409 original size:50 final size:48
Alignment explanation
Indices: 91486251--91486435 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
91486241 TGAACATGCA
*
91486251 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
91486299 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
91486347 CATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
91486397 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
91486436 GGCGGTGACA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:91486410 original size:98 final size:96
Alignment explanation
Indices: 91486252--91486435 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
91486242 GAACATGCAT
*
91486252 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAAATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
91486317 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
* *
91486348 ATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGAAATGTATATGTGGTAAAGC
*
91486412 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
91486436 GGCGGTGACA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 26 0.32
97 2 0.02
98 52 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGAAATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:91486751 original size:37 final size:37
Alignment explanation
Indices: 91486613--91486750 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
91486603 CCGAGCTCTA
91486613 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
91486650 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
91486687 AAGAACCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
91486724 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
91486751 TCGTCTGAGC
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:91497754 original size:40 final size:40
Alignment explanation
Indices: 91497706--91498133 Score: 676
Period size: 40 Copynumber: 10.7 Consensus size: 40
91497696 GCAAACACAT
* * * *
91497706 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCCTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* **
91497746 TTGCCTTCGGGTCTTAGCCCAGATATATCGTCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * * *
91497786 TTGCCTTCGGGTCATAGCCCGGACATATTACCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
91497826 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
91497866 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
91497906 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
91497946 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
91497986 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
91498026 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
91498066 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
91498106 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
91498134 TCCAATGCTC
Statistics
Matches: 356, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 356 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:91508019 original size:20 final size:19
Alignment explanation
Indices: 91507987--91508024 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
91507977 AGATGTGTGA
91507987 TGAATGACACATGTGCTAAG
1 TGAATGACACATG-GCTAAG
91508007 TGAATGA-ATCATGGCTAA
1 TGAATGACA-CATGGCTAA
91508025 TAAGGATGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGACACATGGCTAAG
Found at i:91512752 original size:21 final size:21
Alignment explanation
Indices: 91512723--91512763 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
91512713 AACTTCTCTC
*
91512723 CTAAGTATATTATTTACATAA
1 CTAAATATATTATTTACATAA
91512744 CTAAATATATTATTTACATA
1 CTAAATATATTATTTACATA
91512764 GTTAACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (21 bp):
CTAAATATATTATTTACATAA
Found at i:91513401 original size:20 final size:21
Alignment explanation
Indices: 91513378--91513417 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
91513368 TATGTATGGG
91513378 TTTTGAA-GTTTGATGATAGA
1 TTTTGAATGTTTGATGATAGA
*
91513398 TTTTGAATGTTTGTTGATAG
1 TTTTGAATGTTTGATGATAG
91513418 TCAAATAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (21 bp):
TTTTGAATGTTTGATGATAGA
Found at i:91539461 original size:24 final size:24
Alignment explanation
Indices: 91539424--91539602 Score: 313
Period size: 24 Copynumber: 7.4 Consensus size: 24
91539414 CTGGAGCCCT
*
91539424 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
91539449 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
91539473 AGCCCTTTTGATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
91539497 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
91539521 AGCCCTTTTTAATAACTGGGGCATA
1 AGCCC-TTTTAATAACTGGGGCATA
91539546 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
91539570 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
91539594 AGCCCTTTT
1 AGCCCTTTT
91539603 GCACTTCCTC
Statistics
Matches: 148, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
24 120 0.81
25 28 0.19
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:91539554 original size:73 final size:73
Alignment explanation
Indices: 91539424--91539602 Score: 315
Period size: 73 Copynumber: 2.5 Consensus size: 73
91539414 CTGGAGCCCT
* * *
91539424 AGCCTCTTTTAATAACTGGGGCAAAAGCCC-TTTTAATAACTGGGGCATAAGCCCTTTTGATAAT
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAAC
91539488 TGGGGCATA
65 TGGGGCATA
91539497 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACT
91539562 GGGGCATA
66 GGGGCATA
91539570 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
91539603 GCACTTCCTC
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
72 24 0.24
73 78 0.76
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (73 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGCATAAGCCCTTTTAATAACT
GGGGCATA
Found at i:91539677 original size:20 final size:20
Alignment explanation
Indices: 91539652--91539718 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
91539642 TTATGAATAC
91539652 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
91539672 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
91539692 GTCGTGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
91539712 ATCATGT
1 ATCATGT
91539719 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:91542590 original size:30 final size:30
Alignment explanation
Indices: 91542536--91542592 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
91542526 GAGAAAACCA
**
91542536 AATAAAGAAATCCAAGATTGAGAAACCTAG
1 AATAAAGAAATCCAAGATAAAGAAACCTAG
91542566 AATAAAGAAATCC-AGAATAAAGAAACC
1 AATAAAGAAATCCAAG-ATAAAGAAACC
91542593 CAAGATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.58, C:0.14, G:0.14, T:0.14
Consensus pattern (30 bp):
AATAAAGAAATCCAAGATAAAGAAACCTAG
Found at i:91542600 original size:15 final size:15
Alignment explanation
Indices: 91542527--91542600 Score: 64
Period size: 15 Copynumber: 5.0 Consensus size: 15
91542517 AAAGATAATG
*
91542527 AGAAAACCAA-ATAA
1 AGAAATCCAAGATAA
**
91542541 AGAAATCCAAGATTG
1 AGAAATCCAAGATAA
*
91542556 AGAAA-CCTAGAATAA
1 AGAAATCCAAG-ATAA
91542571 AGAAATCC-AGAATAA
1 AGAAATCCAAG-ATAA
*
91542586 AGAAACCCAAGATAA
1 AGAAATCCAAGATAA
91542601 GATACTATGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.27
15 32 0.65
16 4 0.08
ACGTcount: A:0.59, C:0.15, G:0.14, T:0.12
Consensus pattern (15 bp):
AGAAATCCAAGATAA
Found at i:91546138 original size:50 final size:50
Alignment explanation
Indices: 91546063--91546163 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
91546053 GACCATAAAC
* * * *
91546063 TCTTTTCCCGGTTCAGGTAGCACTAAAACAGGAGCTTCAGTCAGCAATGT
1 TCTTTCCCCGGCTCAGGTAACACTAAAACAGGAGCTTCAGTCAGAAATGT
91546113 TCTTTCCCCGGCTCAGGTAACACTAAAACAGGAGCTTCAGTCAGAAATGT
1 TCTTTCCCCGGCTCAGGTAACACTAAAACAGGAGCTTCAGTCAGAAATGT
91546163 T
1 T
91546164 GTTAACCTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.27
Consensus pattern (50 bp):
TCTTTCCCCGGCTCAGGTAACACTAAAACAGGAGCTTCAGTCAGAAATGT
Found at i:91547792 original size:35 final size:35
Alignment explanation
Indices: 91547746--91547815 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
91547736 CACTTGACTT
91547746 CGGAGTCACTTCCACTTCTTTTTCATTCCGCTCCG
1 CGGAGTCACTTCCACTTCTTTTTCATTCCGCTCCG
91547781 CGGAGTCACTTCCACTTCTTTTTCATTCCGCTCCG
1 CGGAGTCACTTCCACTTCTTTTTCATTCCGCTCCG
91547816 GGTAGTCCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.11, C:0.37, G:0.14, T:0.37
Consensus pattern (35 bp):
CGGAGTCACTTCCACTTCTTTTTCATTCCGCTCCG
Found at i:91550150 original size:53 final size:53
Alignment explanation
Indices: 91550069--91550170 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
91550059 CTGTAAGACA
91550069 GGGAAAGAAGAGAGGGGTAAGCATTTACATACTTAGTAAGCCCAAATAACTAG
1 GGGAAAGAAGAGAGGGGTAAGCATTTACATACTTAGTAAGCCCAAATAACTAG
* *
91550122 NGGGAAAG-AGATAGGGGTAAGCATTTACATACTTAGTAAGCCCGAATAA
1 -GGGAAAGAAGAGAGGGGTAAGCATTTACATACTTAGTAAGCCCAAATAA
91550171 TTGGAAAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.85
54 7 0.15
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (53 bp):
GGGAAAGAAGAGAGGGGTAAGCATTTACATACTTAGTAAGCCCAAATAACTAG
Found at i:91552677 original size:26 final size:26
Alignment explanation
Indices: 91552647--91552725 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
91552637 ATTATAAAAT
91552647 AAAAAGAGATTGAGAGAATAAAGAAC
1 AAAAAGAGATTGAGAGAATAAAGAAC
* *
91552673 AAAAA-A-ATT-ATGATG-TTATAA-AAT
1 AAAAAGAGATTGA-GA-GAATA-AAGAAC
*
91552697 AAAGAGAGATTGAGAGAATAAAGAAC
1 AAAAAGAGATTGAGAGAATAAAGAAC
91552723 AAA
1 AAA
91552726 GGAAATATGA
Statistics
Matches: 40, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
23 1 0.03
24 13 0.32
25 8 0.20
26 17 0.43
27 1 0.03
ACGTcount: A:0.61, C:0.03, G:0.19, T:0.18
Consensus pattern (26 bp):
AAAAAGAGATTGAGAGAATAAAGAAC
Found at i:91566793 original size:40 final size:40
Alignment explanation
Indices: 91566749--91566850 Score: 179
Period size: 40 Copynumber: 2.6 Consensus size: 40
91566739 GCTACTTGCT
91566749 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
*
91566789 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
*
91566829 CAAATGCCTTCGGG-TTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
91566851 ATTACAGCAA
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
39 7 0.12
40 53 0.88
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:91569070 original size:200 final size:200
Alignment explanation
Indices: 91568727--91569128 Score: 795
Period size: 200 Copynumber: 2.0 Consensus size: 200
91568717 GAGTAAGCAT
*
91568727 AAATGCTTAGTAAGTTCATATGCAAATAATAAGTAACATATCAAACAGTCATACCAATCAACATT
1 AAATGCTTAGTAAGTTCATATGCAAATAATAAGTAACATAACAAACAGTCATACCAATCAACATT
91568792 AGCATGTATCACTAAAACACATATCACATTTTTAATCATTTTTCATCATCTTATTACCTTATCGT
66 AGCATGTATCACTAAAACACATATCACATTTTTAATCATTTTTCATCATCTTATTACCTTATCGT
91568857 GGTTGTATCAATACTCAACCCGAGGGTTAAATACATACCTGTCCAAAATAACCATTTCACATCAC
131 GGTTGTATCAATACTCAACCCGAGGGTTAAATACATACCTGTCCAAAATAACCATTTCACATCAC
91568922 TCACC
196 TCACC
91568927 AAATGCTTAGTAAGTTCATATGCAAATAATAAGTAACATAACAAACAGTCATACCAATCAACATT
1 AAATGCTTAGTAAGTTCATATGCAAATAATAAGTAACATAACAAACAGTCATACCAATCAACATT
91568992 AGCATGTATCACTAAAACACATATCACATTTTTAATCATTTTTCATCATCTTATTACCTTATCGT
66 AGCATGTATCACTAAAACACATATCACATTTTTAATCATTTTTCATCATCTTATTACCTTATCGT
91569057 GGTTGTATCAATACTCAACCCGAGGGTTAAATACATACCTGTCCAAAATAACCATTTCACATCAC
131 GGTTGTATCAATACTCAACCCGAGGGTTAAATACATACCTGTCCAAAATAACCATTTCACATCAC
91569122 TCACC
196 TCACC
91569127 AA
1 AA
91569129 TACTTCTCTT
Statistics
Matches: 201, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 201 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.31
Consensus pattern (200 bp):
AAATGCTTAGTAAGTTCATATGCAAATAATAAGTAACATAACAAACAGTCATACCAATCAACATT
AGCATGTATCACTAAAACACATATCACATTTTTAATCATTTTTCATCATCTTATTACCTTATCGT
GGTTGTATCAATACTCAACCCGAGGGTTAAATACATACCTGTCCAAAATAACCATTTCACATCAC
TCACC
Found at i:91569384 original size:93 final size:93
Alignment explanation
Indices: 91569272--91569441 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
91569262 CCCATAAGCA
*
91569272 AACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 AACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
91569336 CGAGTTCGGATGCCTAGTTACATCTCACG
65 CGAGTTCGGATGCCTAGTTACATCTCACG
*
91569365 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
91569430 GAGTTCGGATGC
66 GAGTTCGGATGC
91569442 TCAATCATCC
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACG
Found at i:91569436 original size:46 final size:46
Alignment explanation
Indices: 91569263--91569438 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
91569253 TGTAGCCCGC
* * *
91569263 CCATAAGCAAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
91569309 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
91569359 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
91569402 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
91569439 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 60 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:91580438 original size:20 final size:20
Alignment explanation
Indices: 91580415--91580454 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
91580405 TGAAATTCTA
91580415 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
91580435 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
91580455 CTTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:91581088 original size:23 final size:23
Alignment explanation
Indices: 91581055--91581161 Score: 90
Period size: 23 Copynumber: 4.7 Consensus size: 23
91581045 TATAGGCTCG
*
91581055 CATACAACATGTGAT-AGAGTTCA
1 CATACATCATGTGATAAG-GTTCA
* * *
91581078 CATACATCATGTAATAGGGTTTA
1 CATACATCATGTGATAAGGTTCA
* * *
91581101 CTTACATCATGTAATAAGGTTCG
1 CATACATCATGTGATAAGGTTCA
* * *
91581124 CATACTTCCTATGATAAGGTTCA
1 CATACATCATGTGATAAGGTTCA
* *
91581147 CATACTTTATGTGAT
1 CATACATCATGTGAT
91581162 CAGTTTCGCA
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
23 65 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (23 bp):
CATACATCATGTGATAAGGTTCA
Found at i:91583360 original size:21 final size:22
Alignment explanation
Indices: 91583335--91583436 Score: 77
Period size: 21 Copynumber: 4.5 Consensus size: 22
91583325 TTTATCAAAT
91583335 TAAAACCTTAAAACCT-AACCC
1 TAAAACCTTAAAACCTAAACCC
*
91583356 TAAAACCTTAAGAAATCTAAACAACC
1 TAAAACCTT-A-AAACCTAAAC--CC
* *
91583382 TAAAACCATAATAA-CAAAACCC
1 TAAAACCTTAA-AACCTAAACCC
* *
91583404 TAAAACCCTATTAA--TAAACCC
1 TAAAACCTTA-AAACCTAAACCC
91583425 TAAAACCTTAAA
1 TAAAACCTTAAA
91583437 TTTTATAAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 24 0.36
22 14 0.21
23 5 0.08
24 9 0.14
25 3 0.05
26 10 0.15
ACGTcount: A:0.53, C:0.26, G:0.01, T:0.20
Consensus pattern (22 bp):
TAAAACCTTAAAACCTAAACCC
Found at i:91583406 original size:22 final size:21
Alignment explanation
Indices: 91583380--91583431 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
91583370 ATCTAAACAA
91583380 CCTAAAACCATAATAACAAAAC
1 CCTAAAACCATAATAA-AAAAC
* * *
91583402 CCTAAAACCCTATTAATAAAC
1 CCTAAAACCATAATAAAAAAC
91583423 CCTAAAACC
1 CCTAAAACC
91583432 TTAAATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (21 bp):
CCTAAAACCATAATAAAAAAC
Found at i:91583571 original size:29 final size:29
Alignment explanation
Indices: 91583535--91583591 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
91583525 GACCCATTCC
* *
91583535 TGTATTTTTTCAAAAAACGGC-TTATTTT
1 TGTATTTTTTAAAAAAAAGGCTTTATTTT
91583563 TGTATTTTTTTAAAAAAAAGGCTTTATTT
1 TGTA-TTTTTTAAAAAAAAGGCTTTATTT
91583592 GGTAATTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.16
29 15 0.60
30 6 0.24
ACGTcount: A:0.32, C:0.07, G:0.11, T:0.51
Consensus pattern (29 bp):
TGTATTTTTTAAAAAAAAGGCTTTATTTT
Found at i:91583962 original size:17 final size:18
Alignment explanation
Indices: 91583940--91583980 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
91583930 TTTAAGTTTA
91583940 TAATTTTT-TATATTATG
1 TAATTTTTATATATTATG
*
91583957 TTATTTTTATATATTATG
1 TAATTTTTATATATTATG
91583975 TAATTT
1 TAATTT
91583981 ATAACATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (18 bp):
TAATTTTTATATATTATG
Found at i:91584290 original size:80 final size:78
Alignment explanation
Indices: 91584141--91584297 Score: 210
Period size: 80 Copynumber: 2.0 Consensus size: 78
91584131 ATTTTTAAAA
* * * * *
91584141 ATTTTAAAATAATATAGATGAACCTAAAAATGGACTTAATTAGTCTTTTGCAAATATAGATGAAT
1 ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAATTAGTCTTTTGCAAATATAGACGAAT
91584206 TTTGACAAAAATT
66 TTTGACAAAAATT
*
91584219 ATTTTAAAATAATATAAATAAACCT-AAAATAGACTAAATCGTCTA-TCTTTTGTAAATATAGAC
1 ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAA---T-TAGTCTTTTGCAAATATAGAC
91584282 GAATTTTGACAAAAAT
62 GAATTTTGACAAAAAT
91584298 CTTTGCAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
77 11 0.16
78 23 0.33
80 33 0.48
81 2 0.03
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (78 bp):
ATTTTAAAATAATATAAATAAACCTAAAAATAGACTAAATTAGTCTTTTGCAAATATAGACGAAT
TTTGACAAAAATT
Found at i:91595400 original size:16 final size:16
Alignment explanation
Indices: 91595379--91595418 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
91595369 AATATATATC
**
91595379 ATATTTAATGTAAATA
1 ATATTTAAAATAAATA
91595395 ATATTTAAAATAAATA
1 ATATTTAAAATAAATA
91595411 ATAATTTA
1 AT-ATTTA
91595419 TGAATAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATATTTAAAATAAATA
Found at i:91598813 original size:21 final size:21
Alignment explanation
Indices: 91598789--91598828 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
91598779 GCCTAGGATG
*
91598789 TGAATTGAATTAAATTGATAA
1 TGAAATGAATTAAATTGATAA
*
91598810 TGAAATGGATTAAATTGAT
1 TGAAATGAATTAAATTGAT
91598829 GTTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
TGAAATGAATTAAATTGATAA
Found at i:91599333 original size:25 final size:24
Alignment explanation
Indices: 91599305--91599355 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
91599295 ACAAATGCAA
91599305 CTCTTTATAAGCATCTTGATATAGG
1 CTCTTTATAAGCATCTTGATAT-GG
* * *
91599330 CTCTTTTTGAGCTTCTTGATATGG
1 CTCTTTATAAGCATCTTGATATGG
91599354 CT
1 CT
91599356 TGCTTGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.45
Consensus pattern (24 bp):
CTCTTTATAAGCATCTTGATATGG
Found at i:91599367 original size:23 final size:25
Alignment explanation
Indices: 91599318--91599367 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
91599308 TTTATAAGCA
** *
91599318 TCTTGATATAGGCTCTTTTTGAGCT
1 TCTTGATATAGGCTCTGCTTGAACT
91599343 TCTTGATAT-GGCT-TGCTTGAACT
1 TCTTGATATAGGCTCTGCTTGAACT
91599366 TC
1 TC
91599368 CTGTTATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 9 0.41
24 4 0.18
25 9 0.41
ACGTcount: A:0.16, C:0.18, G:0.20, T:0.46
Consensus pattern (25 bp):
TCTTGATATAGGCTCTGCTTGAACT
Found at i:91600211 original size:18 final size:18
Alignment explanation
Indices: 91600188--91600276 Score: 90
Period size: 18 Copynumber: 4.9 Consensus size: 18
91600178 TCATCAATAT
91600188 TAATCAGTTATTCAGTAA
1 TAATCAGTTATTCAGTAA
* *
91600206 TAATCATTTGTTCAGTAA
1 TAATCAGTTATTCAGTAA
* * *
91600224 CAGTC-GTTTATTCAGTAT
1 TAATCAG-TTATTCAGTAA
* *
91600242 TAGTCAATTATTCAGTAA
1 TAATCAGTTATTCAGTAA
*
91600260 TAATTAGTTATTCAGTA
1 TAATCAGTTATTCAGTA
91600277 CCTTTATTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (18 bp):
TAATCAGTTATTCAGTAA
Found at i:91600258 original size:54 final size:53
Alignment explanation
Indices: 91600160--91600263 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
91600150 TGCATCTTTA
* *
91600160 TTGTTCAGTATCAGTCAGTCATCAATATTAATCAGTTATTCAGTAATAATCAT
1 TTGTTCAGTAACAGTCAGTCATCAATATTAATCAATTATTCAGTAATAATCAT
* * *
91600213 TTGTTCAGTAACAGTC-GTTTATTCAGTATTAGTCAATTATTCAGTAATAAT
1 TTGTTCAGTAACAGTCAG-TCA-TCAATATTAATCAATTATTCAGTAATAAT
91600264 TAGTTATTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
52 1 0.02
53 17 0.39
54 26 0.59
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (53 bp):
TTGTTCAGTAACAGTCAGTCATCAATATTAATCAATTATTCAGTAATAATCAT
Found at i:91604541 original size:16 final size:16
Alignment explanation
Indices: 91604520--91604555 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
91604510 CAGTGAAGTC
*
91604520 CTTTGTCACACTTCAA
1 CTTTGTCACACCTCAA
91604536 CTTTGTCACACCTCAA
1 CTTTGTCACACCTCAA
91604552 CTTT
1 CTTT
91604556 CACTCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (16 bp):
CTTTGTCACACCTCAA
Found at i:91606333 original size:18 final size:18
Alignment explanation
Indices: 91606310--91606405 Score: 93
Period size: 18 Copynumber: 5.3 Consensus size: 18
91606300 CAGTTAGTCA
* *
91606310 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAATTAT
* *
91606328 TCAGTAATAATCATTTGT
1 TCAGTAATAATCAATTAT
* * **
91606346 TCAGTAACAGTCGTTTAT
1 TCAGTAATAATCAATTAT
** *
91606364 TCAGTAGCAGTCAATTAT
1 TCAGTAATAATCAATTAT
91606382 TCAGTAATAATCAATTAT
1 TCAGTAATAATCAATTAT
91606400 TCAGTA
1 TCAGTA
91606406 CCTTTATTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (18 bp):
TCAGTAATAATCAATTAT
Found at i:91606623 original size:44 final size:44
Alignment explanation
Indices: 91606569--91606660 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
91606559 TCGAAGTAAC
91606569 AGTAATAGTACAACACACA-AGGTGCCTCATCGACTTAAAG-TCGA
1 AGTAATAGTACAACACACATA-GTGCCTCATCGAC-TAAAGTTCGA
* ** *
91606613 AGTAATAGTACGACACTTATAGTGCCTCATCGACTCAAGTTCGA
1 AGTAATAGTACAACACACATAGTGCCTCATCGACTAAAGTTCGA
91606657 AGTA
1 AGTA
91606661 TCCCTGAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 4 0.10
44 37 0.88
45 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (44 bp):
AGTAATAGTACAACACACATAGTGCCTCATCGACTAAAGTTCGA
Found at i:91607713 original size:38 final size:38
Alignment explanation
Indices: 91607641--91607714 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
91607631 TCTCCTTTTC
91607641 TTTTCTTTCTCCTTTCTTTCTCCCCATTTCGTTCCATA
1 TTTTCTTTCTCCTTTCTTTCTCCCCATTTCGTTCCATA
*
91607679 TTTTCTTTCTCCTTTCTTTCTCCCCATTTTGTTCCA
1 TTTTCTTTCTCCTTTCTTTCTCCCCATTTCGTTCCA
91607715 CATTGTCTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.07, C:0.34, G:0.03, T:0.57
Consensus pattern (38 bp):
TTTTCTTTCTCCTTTCTTTCTCCCCATTTCGTTCCATA
Found at i:91607734 original size:38 final size:38
Alignment explanation
Indices: 91607644--91607735 Score: 123
Period size: 38 Copynumber: 2.4 Consensus size: 38
91607634 CCTTTTCTTT
* * *
91607644 TCTTTCTCCTTTCTTTCTCCCCATTTCGTTCCATATTT
1 TCTTTCTCCATTCTTTCTCCCCATTTCGTTCCACATTG
* *
91607682 TCTTTCTCCTTTCTTTCTCCCCATTTTGTTCCACATTG
1 TCTTTCTCCATTCTTTCTCCCCATTTCGTTCCACATTG
91607720 TCTCTT-TCCATTCTTT
1 TCT-TTCTCCATTCTTT
91607736 TTTCTTTCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
38 47 0.96
39 2 0.04
ACGTcount: A:0.08, C:0.34, G:0.03, T:0.55
Consensus pattern (38 bp):
TCTTTCTCCATTCTTTCTCCCCATTTCGTTCCACATTG
Found at i:91615885 original size:31 final size:31
Alignment explanation
Indices: 91615847--91615909 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
91615837 AATAACAAGA
91615847 TCCATCTTAGGTTTCATTCCCCCTAGGTATT
1 TCCATCTTAGGTTTCATTCCCCCTAGGTATT
91615878 TCCATCTTAGGTTTCATTCCCCCTAGGTATT
1 TCCATCTTAGGTTTCATTCCCCCTAGGTATT
91615909 T
1 T
91615910 AGGGGGTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.43
Consensus pattern (31 bp):
TCCATCTTAGGTTTCATTCCCCCTAGGTATT
Found at i:91616211 original size:13 final size:13
Alignment explanation
Indices: 91616193--91616219 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
91616183 GCTCGACAGG
91616193 GACACGCCCATGT
1 GACACGCCCATGT
91616206 GACACGCCCATGT
1 GACACGCCCATGT
91616219 G
1 G
91616220 TGATTGCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:91618209 original size:16 final size:16
Alignment explanation
Indices: 91618179--91618217 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
91618169 ATTTAAGTGA
*
91618179 AATGCTCATATCAAAAT
1 AATG-TCATAACAAAAT
91618196 AATGTCATAACAAAAT
1 AATGTCATAACAAAAT
*
91618212 ATTGTC
1 AATGTC
91618218 TAATCAACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (16 bp):
AATGTCATAACAAAAT
Found at i:91625032 original size:23 final size:23
Alignment explanation
Indices: 91625005--91625051 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
91624995 TTATAACATT
*
91625005 TCACAAATATCTAATTCTATTCC
1 TCACAAATATCCAATTCTATTCC
91625028 TCACAAATATCCAATTCTATTCC
1 TCACAAATATCCAATTCTATTCC
91625051 T
1 T
91625052 ATGGTTCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (23 bp):
TCACAAATATCCAATTCTATTCC
Found at i:91630325 original size:43 final size:41
Alignment explanation
Indices: 91630206--91630327 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 41
91630196 GACTTATGAT
* *
91630206 TTACGTGTAAGACCACGTATGGGACATTGGCATCGTATTTGA
1 TTACGTGTAAGACCACATATGGGAC-TTGGCATTGTATTTGA
* * * * *
91630248 TTTCGTGTAAAACGC-TATCTGGGACTGTGACATTGATATTTGA
1 TTACGTGTAAGAC-CACATATGGGACT-TGGCATTG-TATTTGA
*
91630291 TTACATGTAAGACCACATATGGGACGTTGGCATTGTA
1 TTACGTGTAAGACCACATATGGGAC-TTGGCATTGTA
91630328 CGAGCTTTCC
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 33 0.53
44 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TTACGTGTAAGACCACATATGGGACTTGGCATTGTATTTGA
Found at i:91642362 original size:704 final size:704
Alignment explanation
Indices: 91641014--91642420 Score: 2429
Period size: 704 Copynumber: 2.0 Consensus size: 704
91641004 GATGGTCAAT
*
91641014 CCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCGAGTTCAGTAGTTCA
1 CCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCCAGTTCAGTAGTTCA
91641079 TGGGAACGGTATTTACCATTCATTGAATTCGCTTACAACAATAGTTTTCAATCAAGTATTAAGAT
66 TGGGAACGGTATTTACCATTCATTGAATTCGCTTACAACAATAGTTTTCAATCAAGTATTAAGAT
* *
91641144 GGCACCTTACGAGGCTTTGTACGGTCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTG
131 GGCACCTTACGAGCCTTTGTACGATCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTG
* *
91641209 AAAGTAAAATTTTCGGAGTTGATTTGATTAAAGATGCTGAACAGAAAGTAAAGGTAATCCGTGAA
196 AAAGTAAAATTTTCGGAGTTGAATTGATTAAAGATGCCGAACAGAAAGTAAAGGTAATCCGTGAA
* * * * * *
91641274 AGTCTGAAGGTAGCCACGGATCGTCAGAAGTCGTACGCAGATTTGAAACGAAAAGACATCGAGTA
261 AGTCTGAAAGCAGCCACAGATCGTCAAAAATCGTACGCAGATTTGAAACGAAAAGACATCGAATA
*
91641339 TCAGGTGGGAGACAAAGTGTTCCTTAAGGTTTCACCTTGGAAAAAGATACTCAGGTTTGGCCGTA
326 TCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAAGATACTCAGGTTTGGCCGTA
*
91641404 AGGGCAAGTTGAGCCCAAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCG
391 AGGGCAAGTTGAACCCAAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCG
*
91641469 TATAGATTGATTTTACCCCCTAAGCTTGAAAAGATTCATGACGTCTTTCATGTTTCGATGCTTCG
456 TATAGATTGATTTTACCCCCTAAGCTTGAAAAGATTCACGACGTCTTTCATGTTTCGATGCTTCG
*
91641534 ACGCTATCGATCTGATCCATCGCACATAATTAGCCCATCAGAGGTTGAAATTCAAGTCGACATGA
521 ACGCTATCGATCTGATCCATCGCACATAATTAGCCCATCAGAGGTTGAAATTCAAGCCGACATGA
* * *
91641599 GCTATGAAGAATAACCGATGTGTATCCTAGCTCGTGAAGTGAAGGAGTTGGGAAACAAAAGAGTT
586 GCTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTGGGAAACAAAAGAGTT
91641664 CCACTAGTAAAGGTGTTATGGCTCAAACACGGGATCGAGGAAGCTACTTGGGAG
651 CCACTAGTAAAGGTGTTATGGCTCAAACACGGGATCGAGGAAGCTACTTGGGAG
91641718 CCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCCAGTTCAGTAGTTCA
1 CCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCCAGTTCAGTAGTTCA
* *
91641783 TGGGAACGGTATTTACCTTTGATTGAATTCGCTTACAACAATAGTTTTCAATCAAGTATTAAGAT
66 TGGGAACGGTATTTACCATTCATTGAATTCGCTTACAACAATAGTTTTCAATCAAGTATTAAGAT
91641848 GGCACCTTACGAGCCTTTGTACGATCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTG
131 GGCACCTTACGAGCCTTTGTACGATCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTG
* *
91641913 AAAGTAAAATTTTTGGAGTTGAATTGATTAAGGATGCCGAACAGAAAGTAAAGGTAATCCGTGAA
196 AAAGTAAAATTTTCGGAGTTGAATTGATTAAAGATGCCGAACAGAAAGTAAAGGTAATCCGTGAA
* * * *
91641978 AGTCTGAAAGCAGCCACAGATCGTCAAAAATCGTATGCGGATTTGAAACGAAAGGACATTGAATA
261 AGTCTGAAAGCAGCCACAGATCGTCAAAAATCGTACGCAGATTTGAAACGAAAAGACATCGAATA
* * *
91642043 TCAGGTGGGAGATAAAGTGTTCCTTAAAGTTTCGCCTTGGAAAAAGGTACTCAGGTTTGGCCGTA
326 TCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAAGATACTCAGGTTTGGCCGTA
*
91642108 AGGGCAAGTTGAACCCGAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCG
391 AGGGCAAGTTGAACCCAAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCG
* * *
91642173 TATAGATTGATTTTGCCCCCTGAGTTTGAAAAGATTCACGACGTCTTTCATGTTTCGATGCTTCG
456 TATAGATTGATTTTACCCCCTAAGCTTGAAAAGATTCACGACGTCTTTCATGTTTCGATGCTTCG
* * *
91642238 ACGCTATCGATCTGATCCATCGTACATGATTAGCCCATCAGAGGTTGAAATTCAAGCCGATATGA
521 ACGCTATCGATCTGATCCATCGCACATAATTAGCCCATCAGAGGTTGAAATTCAAGCCGACATGA
* *
91642303 GTTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTGCGG-AACAAAAGGGT
586 GCTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTG-GGAAACAAAAGAGT
** *
91642367 TCCGTTAGTGAAGGTGTTATGGCTCAAACACGGGATCGAGGAAGCTACTTGGGA
650 TCCACTAGTAAAGGTGTTATGGCTCAAACACGGGATCGAGGAAGCTACTTGGGA
91642421 AACCGAGAGC
Statistics
Matches: 661, Mismatches: 41, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
704 659 1.00
705 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (704 bp):
CCGAGCGGATAATTCAGATACTTGAGGATATGTTGAGATGTTGCATCCTCCAGTTCAGTAGTTCA
TGGGAACGGTATTTACCATTCATTGAATTCGCTTACAACAATAGTTTTCAATCAAGTATTAAGAT
GGCACCTTACGAGCCTTTGTACGATCGTAAATGCCGTACACCATTGTTTTGGACCGAGCTCGGTG
AAAGTAAAATTTTCGGAGTTGAATTGATTAAAGATGCCGAACAGAAAGTAAAGGTAATCCGTGAA
AGTCTGAAAGCAGCCACAGATCGTCAAAAATCGTACGCAGATTTGAAACGAAAAGACATCGAATA
TCAGGTGGGAGACAAAGTGTTCCTTAAAGTTTCACCTTGGAAAAAGATACTCAGGTTTGGCCGTA
AGGGCAAGTTGAACCCAAGATTCATTGGGCCGTACGAAATCTCCGAACGAGTTGGTCCGGTTGCG
TATAGATTGATTTTACCCCCTAAGCTTGAAAAGATTCACGACGTCTTTCATGTTTCGATGCTTCG
ACGCTATCGATCTGATCCATCGCACATAATTAGCCCATCAGAGGTTGAAATTCAAGCCGACATGA
GCTATGAAGAAGAACCGATGCGTATCCTAGCTCGTGAAGTAAAGGAGTTGGGAAACAAAAGAGTT
CCACTAGTAAAGGTGTTATGGCTCAAACACGGGATCGAGGAAGCTACTTGGGAG
Found at i:91642611 original size:91 final size:91
Alignment explanation
Indices: 91642456--91642636 Score: 353
Period size: 91 Copynumber: 2.0 Consensus size: 91
91642446 TACCCAAACC
91642456 TATTTACCGGTAAGATTTTCGGGGACGAAAATTTCTTAAGTGGGGGAGAGTTGTGACAGCCCAAA
1 TATTTACCGGTAAGATTTTCGGGGACGAAAATTTCTTAAGTGGGGGAGAGTTGTGACAGCCCAAA
*
91642521 ATTGACCCTAGTCGGGAAGTGGTTTT
66 ATTGACCCGAGTCGGGAAGTGGTTTT
91642547 TATTTACCGGTAAGATTTTCGGGGACGAAAATTTCTTAAGTGGGGGAGAGTTGTGACAGCCCAAA
1 TATTTACCGGTAAGATTTTCGGGGACGAAAATTTCTTAAGTGGGGGAGAGTTGTGACAGCCCAAA
91642612 ATTGACCCGAGTCGGGAAGTGGTTT
66 ATTGACCCGAGTCGGGAAGTGGTTT
91642637 CGGGACCGTT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (91 bp):
TATTTACCGGTAAGATTTTCGGGGACGAAAATTTCTTAAGTGGGGGAGAGTTGTGACAGCCCAAA
ATTGACCCGAGTCGGGAAGTGGTTTT
Found at i:91644299 original size:27 final size:27
Alignment explanation
Indices: 91644268--91644444 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
91644258 TAAATTGTAC
*
91644268 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
91644295 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
91644321 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
91644349 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
91644377 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
91644403 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
91644430 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
91644445 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 81 0.64
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:91644414 original size:81 final size:81
Alignment explanation
Indices: 91644269--91644423 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
91644259 AAATTGTACA
* *
91644269 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
91644334 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
91644350 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
91644413 GTGCGAGTTGA
64 GTGCGAATTGA
91644424 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 41 0.61
82 25 0.37
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:91644435 original size:81 final size:81
Alignment explanation
Indices: 91644265--91644444 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
91644255 GATTAAATTG
* *
91644265 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
91644330 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
91644346 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
91644409 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
91644427 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
91644445 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 58 0.69
82 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:91647125 original size:42 final size:43
Alignment explanation
Indices: 91647017--91647129 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
91647007 AACATATACA
* *
91647017 ATGCCACCGTCCCAGACATGGTCTTACATGTAATAAAACATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
* * * * *
91647060 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCAGATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
91647102 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
91647130 CGTAAAATAG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
Found at i:91652766 original size:58 final size:58
Alignment explanation
Indices: 91652676--91652798 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
91652666 AATCACCAGC
* * * * *
91652676 TATACTTGAAAAAATTTTGAAAGATAACCAACTGGGGATGTGAATCTATGAGTTTTTT
1 TATACTTGAAAAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
* *
91652734 TATACTT-AAGAAAATTCTGAGAGATAACCAACTAGGGATGTGAATCCGTGAGCTGTTT
1 TATACTTGAA-AAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
91652792 TATACTT
1 TATACTT
91652799 CCTTAAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.04
58 55 0.96
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (58 bp):
TATACTTGAAAAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
Found at i:91652983 original size:71 final size:69
Alignment explanation
Indices: 91652824--91652995 Score: 193
Period size: 71 Copynumber: 2.4 Consensus size: 69
91652814 AAATAACACG
* *
91652824 GCTGGGAGTTTTTAACTTTCGCTAACTATGTTAGAGGCAGTAGTTTTTATCCTACAAGCCTTAAT
1 GCTGGGAG-CTTT-ACTTTCGCTAACTATGTTAAAGGCAGTAGTTTTTATCCTACAAGCCTTAAT
91652889 ATGACA
64 ATGACA
* * * * * * * * *
91652895 ACTTGGAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGT-TTTTTTATTCTATAAGTCTTAG
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAAAGGC-A--GTAGTTTTTATCCTACAAGCCTTAA
91652959 TATGACA
63 TATGACA
91652966 GCTGGGAGCTTTACTTTCGCTAACTATGTT
1 GCTGGGAGCTTTACTTTCGCTAACTATGTT
91652996 GGAGGCTTCG
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
69 21 0.25
70 4 0.05
71 56 0.67
72 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (69 bp):
GCTGGGAGCTTTACTTTCGCTAACTATGTTAAAGGCAGTAGTTTTTATCCTACAAGCCTTAATAT
GACA
Found at i:91653002 original size:71 final size:71
Alignment explanation
Indices: 91652824--91653187 Score: 244
Period size: 70 Copynumber: 5.2 Consensus size: 71
91652814 AAATAACACG
* * *
91652824 GCTGGGAGTTTTTAACTTTCGCTAACTATGTTAGAGGC-A--GTAGTTTTTATCCTACAAGCCTT
1 GCTGGGAG-CTTT-ACTTTCGCTAACTATGTTAGAGGCTATGGT-TTTTTTATTCTACAAGCCTT
*
91652886 AATATGACA
63 AGTATGACA
* * * * * * *
91652895 ACTTGGAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGTTTTTTTATTCTATAAGTCTTAGT
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAGT
91652960 ATGACA
66 ATGACA
* * * * *
91652966 GCTGGGAGCTTTACTTTCGCTAACTATGTTGGAGGCT-TCGATTTTTTA-TCTTACGATCCTTAG
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTC-TACAAGCCTTAG
*
91653029 TATGATA
65 TATGACA
* * * * * * * * * * *
91653036 GATGGGAGTTTTGCTCTT-GCTAACTGTATTTGAGACTGTGG-TTTTTTATACTGCGAGCCTTAG
1 GCTGGGAGCTTTACT-TTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAG
*
91653099 AATGACA
65 TATGACA
** * * * * * *
91653106 ATTGGGAGCTTTTCTTTCGCTAACTATGTTGGAGGTTACGAG--TTTTTA-TCTTGCGAGCCTTA
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATG-GTTTTTTTATTC-TACAAGCCTTA
91653168 GTATGACA
64 GTATGACA
**
91653176 ATTGGGAGCTTT
1 GCTGGGAGCTTT
91653188 GTTCTCACCA
Statistics
Matches: 233, Mismatches: 50, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
69 26 0.11
70 138 0.59
71 67 0.29
72 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (71 bp):
GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAGT
ATGACA
Found at i:91653058 original size:70 final size:70
Alignment explanation
Indices: 91652867--91653315 Score: 335
Period size: 70 Copynumber: 6.4 Consensus size: 70
91652857 GAGGCAGTAG
* * * * * **
91652867 TTTTTATCCTACAAGCCTTAATATGACAACTT-GGAGCTTTGCT-TTCACTAACTATGTTAAAGG
1 TTTTTATCTTACGAGCCTTAGTATGACAA-TTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAGG
* *
91652930 CTATGGTT
64 CT-TCGAT
* ** * *
91652938 TTTTTATTCTATA--AGTCTTAGTATGACAGCTGGGAGCTTTACT-TTCGCTAACTATGTTGGAG
1 TTTTTA-TCT-TACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAG
91653000 GCTTCGAT
63 GCTTCGAT
* * * * * *
91653008 TTTTTATCTTACGATCCTTAGTATGATAGA-TGGGAGTTTTGCTCTTGCTAACTGTATTTGAGAC
1 TTTTTATCTTACGAGCCTTAGTATGACA-ATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGC
*
91653072 TGT-GGT
65 T-TCGAT
* * * *
91653078 TTTTTATAC-TGCGAGCCTTAGAATGACAATTGGGAGCTTTTCT-TTCGCTAACTATGTTGGAGG
1 TTTTTAT-CTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAGG
*
91653141 -TTACGAG
64 CTT-CGAT
* * ** * * *
91653148 TTTTTATCTTGCGAGCCTTAGTATGACAATTGGGAGCTTTGTTCTCACCAATTGTGTTGAAGGCT
1 TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
*
91653213 ATAG-T
66 -TCGAT
* * * * * * *
91653218 TTTTTATCCTACGAGCCTTAATATGATAATTAGGAGCTTTGCTCTCGCTAACCGTGATGGAGGCT
1 TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
*
91653283 GCGAT
66 TCGAT
91653288 TTTTTATCTTACGAGCCTTAGTATGACA
1 TTTTTATCTTACGAGCCTTAGTATGACA
91653316 TAAATGTTGT
Statistics
Matches: 298, Mismatches: 62, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
68 3 0.01
69 9 0.03
70 226 0.76
71 55 0.18
72 3 0.01
73 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (70 bp):
TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
TCGAT
Found at i:91653098 original size:140 final size:140
Alignment explanation
Indices: 91652838--91653315 Score: 455
Period size: 140 Copynumber: 3.4 Consensus size: 140
91652828 GGAGTTTTTA
* * * * * *
91652838 ACTTTCGCTAACTATGTTAGAGGC--AGTAGTTTTTATCCTACAAGCCTTAATATGACAACTT-G
1 ACTTTCGCTAACTATGTTGGAGGCTTCG-ATTTTTTATCTTACGAGCCTTAGTATGACAA-TTGG
* * * * * * * ** *
91652900 GAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGTTTTTTTATTCTATAAGTCTTAGTATGAC
64 GAGCTTTGCTCTCACCAACTGTGTTGAAGACTATAG-TTTTTTATACTACGAGCCTTAGTATGAC
**
91652965 AGCTGGGAGCTTT
128 AATTGGGAGCTTT
* *
91652978 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGATCCTTAGTATGATAGA-TGGG
1 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACA-ATTGGG
* ** * * * * * *
91653042 AGTTTTGCTCTTGCTAACTGTATTTG-AGACTGTGGTTTTTTATACTGCGAGCCTTAGAATGACA
65 AGCTTTGCTCTCACCAACTGT-GTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACA
91653106 ATTGGGAGCTTT
129 ATTGGGAGCTTT
* * *
91653118 TCTTTCGCTAACTATGTTGGAGG-TTACGAGTTTTTATCTTGCGAGCCTTAGTATGACAATTGGG
1 ACTTTCGCTAACTATGTTGGAGGCTT-CGATTTTTTATCTTACGAGCCTTAGTATGACAATTGGG
* * * * * *
91653182 AGCTTTGTTCTCACCAATTGTGTTGAAGGCTATAGTTTTTTATCCTACGAGCCTTAATATGATAA
65 AGCTTTGCTCTCACCAACTGTGTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACAA
*
91653247 TTAGGAGCTTT
130 TTGGGAGCTTT
* * ** * *
91653258 GCTCTCGCTAACCGTGATGGAGGCTGCGATTTTTTATCTTACGAGCCTTAGTATGACA
1 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACA
91653316 TAAATGTTGT
Statistics
Matches: 275, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
139 6 0.02
140 215 0.78
141 50 0.18
142 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (140 bp):
ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACAATTGGGA
GCTTTGCTCTCACCAACTGTGTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACAAT
TGGGAGCTTT
Found at i:91653372 original size:33 final size:33
Alignment explanation
Indices: 91653328--91653393 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
91653318 AATGTTGTTA
91653328 GGGAAAAATTCTTCATTCACAGGGTAAGGATTT
1 GGGAAAAATTCTTCATTCACAGGGTAAGGATTT
*
91653361 GGGAAAGATTCTTCATTCACAGGGTAAGGATTT
1 GGGAAAAATTCTTCATTCACAGGGTAAGGATTT
91653394 ACACATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (33 bp):
GGGAAAAATTCTTCATTCACAGGGTAAGGATTT
Found at i:91653739 original size:24 final size:24
Alignment explanation
Indices: 91653701--91653746 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
91653691 CAAGACTTAA
91653701 CCTGTTGACCACCTAATTAGCTAG
1 CCTGTTGACCACCTAATTAGCTAG
* *
91653725 CCTGTTGGCCTCCTAATTAGCT
1 CCTGTTGACCACCTAATTAGCT
91653747 TCCTCATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (24 bp):
CCTGTTGACCACCTAATTAGCTAG
Found at i:91656572 original size:20 final size:19
Alignment explanation
Indices: 91656539--91656589 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
91656529 AAAAAGAGCA
91656539 AAAGAAAAAAGAAAGAAAAC
1 AAAGAAAAAAGAAA-AAAAC
* *
91656559 AAAG-AAAGAGGAAAAAA-
1 AAAGAAAAAAGAAAAAAAC
*
91656576 AAATAAAAAAGAAA
1 AAAGAAAAAAGAAA
91656590 CATTCAGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 7 0.28
20 4 0.16
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAAGAAAAAAAC
Found at i:91658365 original size:7 final size:7
Alignment explanation
Indices: 91658353--91658379 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
91658343 TGAATCTGTT
91658353 AACCCTA
1 AACCCTA
91658360 AACCCTA
1 AACCCTA
91658367 AACCCTA
1 AACCCTA
91658374 AACCCT
1 AACCCT
91658380 GCTAGTGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:91659642 original size:41 final size:40
Alignment explanation
Indices: 91659508--91659651 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 40
91659498 ATAACGGCGT
* *
91659508 TTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGGCG-
1 TTTTGGTAAAACGCCGCTAAAGACAAAGCAATAGCGGTGC
* * *
91659547 TTTTAGTAAAAAACGCCGCTAAAGACAAGAGCACTAGCAGTGC
1 TTTTGGT--AAAACGCCGCTAAAGACAA-AGCAATAGCGGTGC
* *
91659590 TTTTGATAAAACGCCGCTAAAGATCAAAGCATTAGCGGTGC
1 TTTTGGTAAAACGCCGCTAAAGA-CAAAGCAATAGCGGTGC
*
91659631 TTTTGGTAAAACGCCACTAAA
1 TTTTGGTAAAACGCCGCTAAA
91659652 AGTCATATAA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 6 0.07
41 65 0.73
42 13 0.15
43 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
TTTTGGTAAAACGCCGCTAAAGACAAAGCAATAGCGGTGC
Found at i:91659832 original size:14 final size:14
Alignment explanation
Indices: 91659810--91659887 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 14
91659800 TTAATTATCA
* *
91659810 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
91659824 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
* *
91659838 ATATGGGTTTAAGCT
1 TTAT-GGTTTAAGAT
91659853 TTATGAG-TT-A-A-
1 TTATG-GTTTAAGAT
*
91659864 CTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
91659878 ATATGGTTTA
1 TTATGGTTTA
91659888 GGGTTTAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 1 0.02
11 6 0.12
12 1 0.02
13 2 0.04
14 27 0.54
15 13 0.26
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:91661536 original size:7 final size:7
Alignment explanation
Indices: 91661520--91661593 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
91661510 TGGGGATATA
*
91661520 GTTTATG
1 GTTTAGG
91661527 GTTTAGG
1 GTTTAGG
91661534 GTTT-GTG
1 GTTTAG-G
*
91661541 GTTTAAG
1 GTTTAGG
*
91661548 G-AT-GG
1 GTTTAGG
91661553 GTTTAGG
1 GTTTAGG
*
91661560 GCTTAGG
1 GTTTAGG
91661567 G-TTAGG
1 GTTTAGG
91661573 GTTTAGG
1 GTTTAGG
91661580 GTTTTAGG
1 G-TTTAGG
91661588 GTTTAG
1 GTTTAG
91661594 AGTATAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
5 2 0.04
6 9 0.16
7 37 0.67
8 7 0.13
ACGTcount: A:0.15, C:0.01, G:0.41, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:91661542 original size:14 final size:13
Alignment explanation
Indices: 91661526--91661591 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
91661516 TATAGTTTAT
91661526 GGTTTAGGGTTTG
1 GGTTTAGGGTTTG
* *
91661539 TGGTTTAAGG-ATG
1 -GGTTTAGGGTTTG
*
91661552 GGTTTAGGGCTTAG
1 GGTTTAGGG-TTTG
91661566 GG-TTAGGGTTTAG
1 GGTTTAGGGTTT-G
91661579 GGTTTTAGGGTTT
1 GG-TTTAGGGTTT
91661592 AGAGTATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 10 0.24
13 11 0.27
14 11 0.27
15 9 0.22
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTTG
Found at i:91661576 original size:20 final size:21
Alignment explanation
Indices: 91661551--91661590 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
91661541 GTTTAAGGAT
91661551 GGGTTTAGGG-CTTAGGGTTA
1 GGGTTTAGGGTCTTAGGGTTA
*
91661571 GGGTTTAGGGTTTTAGGGTT
1 GGGTTTAGGGTCTTAGGGTT
91661591 TAGAGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (21 bp):
GGGTTTAGGGTCTTAGGGTTA
Found at i:91662511 original size:43 final size:44
Alignment explanation
Indices: 91662464--91662561 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 44
91662454 AAACTCGAAA
* * *
91662464 TCCCTAACATTTT-CCCAAATCCCCTATTTTCCCCATAGTCATT
1 TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
* * **
91662507 TCCCTTACATTTTCCCCAAACCCCCCCTTTTCCCCATACTTTTT
1 TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
91662551 TCCCTAA-ATTT
1 TCCCTAACATTT
91662562 GTTCCCCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 16 0.35
44 30 0.65
ACGTcount: A:0.20, C:0.40, G:0.01, T:0.39
Consensus pattern (44 bp):
TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
Found at i:91666225 original size:23 final size:23
Alignment explanation
Indices: 91666191--91666240 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
91666181 AACATTAATC
91666191 AAATGTAAGAATTGCAGCCCTTT
1 AAATGTAAGAATTGCAGCCCTTT
*
91666214 AAATGTATGAATTGCAGCCCTTT
1 AAATGTAAGAATTGCAGCCCTTT
91666237 AAAT
1 AAAT
91666241 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (23 bp):
AAATGTAAGAATTGCAGCCCTTT
Found at i:91666786 original size:241 final size:241
Alignment explanation
Indices: 91666363--91666849 Score: 911
Period size: 241 Copynumber: 2.0 Consensus size: 241
91666353 ATGAATTAAT
*
91666363 TTTATTACCATGTAGCTTGCTTGTCCGTTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
91666428 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACAGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
* *
91666493 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
91666558 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
91666604 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
91666669 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
*
91666734 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
91666799 AAAAAGACTTGAAAGAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
91666845 TTTAT
1 TTTAT
91666850 ATAACCTTAA
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 239 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:91667314 original size:9 final size:9
Alignment explanation
Indices: 91667291--91667418 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
91667281 ATTGATCATT
*
91667291 ACTTAAATA
1 ACTTACATA
*
91667300 AATTACATA
1 ACTTACATA
91667309 ACTTACATA
1 ACTTACATA
* *
91667318 ACTCATATA
1 ACTTACATA
91667327 ACTTACATA
1 ACTTACATA
* *
91667336 ATTTACAAA
1 ACTTACATA
91667345 ACAAGTTACATA
1 AC---TTACATA
*
91667357 ACTCACATA
1 ACTTACATA
91667366 ACTTACATA
1 ACTTACATA
*
91667375 ATTTACATA
1 ACTTACATA
91667384 ACTTACATA
1 ACTTACATA
*
91667393 ACGTACATAACA
1 ACTTACAT---A
91667405 ACTTACATA
1 ACTTACATA
91667414 ACTTA
1 ACTTA
91667419 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:91667359 original size:39 final size:36
Alignment explanation
Indices: 91667291--91667414 Score: 140
Period size: 39 Copynumber: 3.3 Consensus size: 36
91667281 ATTGATCATT
* * *
91667291 ACTTAAATAAATTACATAACTTACATAACTCATATA
1 ACTTACATAATTTACAAAACTTACATAACTCATATA
*
91667327 ACTTACATAATTTACAAAACAAGTTACATAACTCACATA
1 ACTTACATAATTTACAAAAC---TTACATAACTCATATA
* *
91667366 ACTTACATAATTTACATAACTTACATAACGTACATAACA
1 ACTTACATAATTTACAAAACTTACATAAC-T-CAT-ATA
91667405 ACTTACATAA
1 ACTTACATAA
91667415 CTTAACTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
36 26 0.35
37 1 0.01
38 2 0.03
39 46 0.61
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (36 bp):
ACTTACATAATTTACAAAACTTACATAACTCATATA
Found at i:91667392 original size:57 final size:57
Alignment explanation
Indices: 91667304--91667416 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
91667294 TAAATAAATT
* ** *
91667304 ACATAACTTACATAACTCATATAACTTACATAATTTACAAAACAAGTTACATAACTC
1 ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACTC
* * *
91667361 ACATAACTTACATAATTTACATAACTTACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACT
91667417 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACTC
Found at i:91673337 original size:42 final size:42
Alignment explanation
Indices: 91673264--91673366 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
91673254 ACTGGGCAAA
* *
91673264 TTAGCGGTGTTTTTTATAAAAGCGCCACTAAAGGTTC-CGATCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCACTAAAAG-TCACGATCT
* * *
91673307 TTAGCGGCGGTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAGTCACGATCT
*
91673349 TTAGTGGCGTTTTTTAAA
1 TTAGCGGCGTTTTTTAAA
91673367 CAAACATCGC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.04
42 36 0.69
43 14 0.27
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAGTCACGATCT
Found at i:91674654 original size:234 final size:234
Alignment explanation
Indices: 91674241--91674667 Score: 728
Period size: 234 Copynumber: 1.8 Consensus size: 234
91674231 AAGTGTACCA
*
91674241 ATCCCTCTAATTCATCCTTCTTCTGATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
1 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
* * * *
91674306 TCTTGACTTGAGTGAGAATGTAGGCTCGGGTAGTGTTTAAGGGGGTGTAAGCTTCAAATCTTCCC
66 TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
* *
91674371 TGAGGAGCATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGGGAGCCCTGAGTGTGTCACCTTG
131 TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCTTG
91674436 GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
196 GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
*
91674475 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTATCGGGGGTGGCTTGGGTAAGATCCCAAGGC
1 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
* * * *
91674540 TCTTGACTTGAATGAGAATATAGGTTTGGGTAGCGTTTAAGGGTGTGTAAGCTTCAAATATTCCT
66 TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
* *
91674605 TGAGGAACATATCTTCTGGTGTGTTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTTACCT
131 TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCT
91674668 GACTCTTCTA
Statistics
Matches: 179, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
234 179 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (234 bp):
ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCTTG
GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
Found at i:91676243 original size:26 final size:26
Alignment explanation
Indices: 91676214--91676276 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
91676204 ACCTTGACTT
91676214 GCGAGCTAGGTCATTGGCTTTGCCTC
1 GCGAGCTAGGTCATTGGCTTTGCCTC
* * *
91676240 GCGAGTTGGGTCTTTGGCTTTGCCTC
1 GCGAGCTAGGTCATTGGCTTTGCCTC
91676266 GCGAGCTAGGT
1 GCGAGCTAGGT
91676277 TCATGAGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.10, C:0.24, G:0.35, T:0.32
Consensus pattern (26 bp):
GCGAGCTAGGTCATTGGCTTTGCCTC
Found at i:91682144 original size:30 final size:30
Alignment explanation
Indices: 91682087--91682144 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
91682077 TTTTCGAGTA
* **
91682087 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
91682117 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
91682145 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:91688789 original size:30 final size:30
Alignment explanation
Indices: 91688753--91688809 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
91688743 TTTGATTTTC
* *
91688753 AAGTCTAGGGGTAAAATGGTCATTTTGTGA
1 AAGTCTAAGGGCAAAATGGTCATTTTGTGA
*
91688783 AAGTCTAAGGGCAAAATTGTCATTTTG
1 AAGTCTAAGGGCAAAATGGTCATTTTG
91688810 CCCAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
AAGTCTAAGGGCAAAATGGTCATTTTGTGA
Done.