Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 48 of 182
Found at i:15095263 original size:12 final size:12
Alignment explanation
Indices: 15095248--15095274 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15095238 ATTTGTTATA
15095248 ATACTATTATTC
1 ATACTATTATTC
15095260 ATACTATTATTC
1 ATACTATTATTC
15095272 ATA
1 ATA
15095275 ATAATATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (12 bp):
ATACTATTATTC
Found at i:15099143 original size:25 final size:25
Alignment explanation
Indices: 15099115--15099168 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
15099105 ATTGTGATCA
15099115 TTTTTGAACCAA-TATTCTTTCAGTC
1 TTTTTGAA-CAATTATTCTTTCAGTC
* *
15099140 TTTTTGAATAATTATTCTTTCATTC
1 TTTTTGAACAATTATTCTTTCAGTC
15099165 TTTT
1 TTTT
15099169 GGATTTCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (25 bp):
TTTTTGAACAATTATTCTTTCAGTC
Found at i:15099900 original size:7 final size:8
Alignment explanation
Indices: 15099884--15099909 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
15099874 ATAAAAAGGC
15099884 AATAAAAA
1 AATAAAAA
15099892 AATAAAAA
1 AATAAAAA
15099900 AATAAAAA
1 AATAAAAA
15099908 AA
1 AA
15099910 ACAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:15100888 original size:6 final size:7
Alignment explanation
Indices: 15100863--15100921 Score: 59
Period size: 7 Copynumber: 8.0 Consensus size: 7
15100853 TAAGTCGGAA
15100863 AAAATATG
1 AAAA-ATG
15100871 AAAAATG
1 AAAAATG
15100878 AAAAAAT-
1 -AAAAATG
15100885 AAAAATG
1 AAAAATG
15100892 AAAAATG
1 AAAAATG
15100899 AAAAAAATG
1 --AAAAATG
15100908 AAAAA-G
1 AAAAATG
15100914 TAAAAATG
1 -AAAAATG
15100922 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
6 7 0.16
7 20 0.44
8 11 0.24
9 7 0.16
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:15100890 original size:14 final size:14
Alignment explanation
Indices: 15100871--15100921 Score: 66
Period size: 14 Copynumber: 3.5 Consensus size: 14
15100861 AAAAAATATG
15100871 AAAAATGAAAAAAT
1 AAAAATGAAAAAAT
*
15100885 AAAAATGAAAAATGAA
1 AAAAATGAAAAA--AT
*
15100901 AAAAATGAAAAAGT
1 AAAAATGAAAAAAT
15100915 AAAAATG
1 AAAAATG
15100922 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 19 0.59
16 13 0.41
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAAAT
Found at i:15101154 original size:14 final size:14
Alignment explanation
Indices: 15101131--15101168 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
15101121 GAAAGGTCTT
15101131 CAGA-AAGTTTCTA
1 CAGAGAAGTTTCTA
15101144 CAGAGAAGTTTCTA
1 CAGAGAAGTTTCTA
15101158 CAGAGAAGTTT
1 CAGAGAAGTTT
15101169 AATTTGCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (14 bp):
CAGAGAAGTTTCTA
Found at i:15102641 original size:43 final size:43
Alignment explanation
Indices: 15102593--15102777 Score: 133
Period size: 44 Copynumber: 4.2 Consensus size: 43
15102583 CCTAAGGTTA
*
15102593 CAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
* * * **
15102636 CAGTGGAATAGATTGAAG--ACTAAGGATCTTATCTCCCTAAGCAG
1 CAGTGGAATACATTGAAGCCAGTAA--TTC-TATCTCCCTGGGCAG
* * * *** * * * *
15102680 TAGTGGAATAGATCGAAGATGGTAGATTTTACCTCCTTGAGGTTA-
1 CAGTGGAATACATTGAAGCCAGTA-ATTCTATCTCCCTG-GG-CAG
* *
15102725 CAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCTGGGCAG
1 CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
15102768 CAGTGGAATA
1 CAGTGGAATA
15102778 GATTAAAGAT
Statistics
Matches: 103, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 29 0.28
44 47 0.46
45 18 0.17
46 3 0.03
47 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
CAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTGGGCAG
Found at i:15102670 original size:44 final size:44
Alignment explanation
Indices: 15102489--15102698 Score: 126
Period size: 44 Copynumber: 4.8 Consensus size: 44
15102479 CCCGTAATTC
* * *
15102489 TATCTCCCTGGACAGCAGTGGAATAGATTAAAGATTAAGGATCT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
** * * * * * *
15102533 TATCTCCCTAAGCAGTAGTAGAGTAAATCGAAGA-TGACA-GATTT
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACT-A-AGGATCT
* ** * * * *
15102577 TACCTCCCTAAGGTTA-CAGTGGAGTACATTGAAG-C-CAGTAAT-T
1 TATCTCCCT--GGGCAGCAGTGGAATAGATTGAAGACTAAG-GATCT
15102620 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
1 -TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
** * *
15102665 TATCTCCCTAAGCAGTAGTGGAATAGATCGAAGA
1 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA
15102699 TGGTAGATTT
Statistics
Matches: 122, Mismatches: 32, Indels: 24
0.69 0.18 0.13
Matches are distributed among these distances:
42 4 0.03
43 18 0.15
44 81 0.66
45 18 0.15
46 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCT
Found at i:15103538 original size:132 final size:132
Alignment explanation
Indices: 15102302--15103480 Score: 1651
Period size: 132 Copynumber: 9.0 Consensus size: 132
15102292 AGAGCAGGTT
* * *
15102302 GATGGTAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * ** *
15102367 GGGCAGCAGTGGAATAGATTGAA-A-TTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATC
66 GGGCAGCAGTGGAATAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
15102430 GAA
130 GAA
** * * *
15102433 GATGGCAGATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCCGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
15102498 GGACAGCAGTGGAATAGATTAAAGA-TTAAGGATCTTATCTCCCTAAGCAGTAGT-AGAGTAAAT
66 GGGCAGCAGTGGAATAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGTGA-AGCAGAT
15102561 CGAA
129 CGAA
* **
15102565 GATGACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
15102630 GGGCAGCAGTGGAATAGATTGAAGA-CTAAGGATCTTATCTCCCTAAGCAGTAGTGGAA-TAGAT
66 GGGCAGCAGTGGAATAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGT-GAAGCAGAT
15102693 CGAA
129 CGAA
* * * *
15102697 GATGGTAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
15102762 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
15102827 AA
131 AA
** * *
15102829 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*
15102894 ----AGCCGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
15102955 AA
131 AA
** * *
15102957 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
15103022 ----AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
15103083 AA
131 AA
* ** *
15103085 AATGGTGGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
***
15103150 GGTTGGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
15103215 AA
131 AA
* * * *
15103217 GATGGTC-GATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAACCCAGTAGTTTTATCTCCC
1 GATGG-CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
*
15103281 T----AGCAGTGGCATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
65 TGGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
15103342 GAA
130 GAA
* *
15103345 GATGGTC-GATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCTC
1 GATGG-CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
* ** *
15103409 TGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
65 TGGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
15103474 GAA
130 GAA
15103477 GATG
1 GATG
15103481 ACAAAACTTA
Statistics
Matches: 974, Mismatches: 59, Indels: 29
0.92 0.06 0.03
Matches are distributed among these distances:
128 372 0.38
131 85 0.09
132 513 0.53
133 3 0.00
134 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
AA
Found at i:15103541 original size:260 final size:260
Alignment explanation
Indices: 15102302--15103480 Score: 1689
Period size: 260 Copynumber: 4.5 Consensus size: 260
15102292 AGAGCAGGTT
* * *
15102302 GATGGTAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
15102367 GGGCAGCAGTGGAATAGATTGAA-ATTAAGGATCTTATCTCCCTAAACAGTAGTGGGGAAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* * *
15102431 AAGATGGCAGATTTTACCTCTTTGAGGTTACAGTAGAGTACATTGAAGCCCGTAATTCTATCTCC
130 AAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCC
* * *
15102496 CTGGACAGCAGTGGAATAGATTAAAGA-TTAAGGATCTTATCTCCCTAAGCAGTAGT-AGAGTAA
195 CT-G--AGCAGTGGAATAGATTAAAGATTTTA-GATCTTATCTCCCTAAGCAGTAGTGA-AGCAG
15102559 ATCGAA
255 ATCGAA
* **
15102565 GAT-GACAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
1 GATGGTC-GATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
* **
15102629 TGGGCAGCAGTGGAATAGATTGAAGACTAAGGATCTTATCTCCCTAAGCAGTAGTGGAATAGATC
65 TGGGCAGCAGTGGAATAGATTGAAGATTAA-GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
15102694 GAAGATGGTAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTAAAGCCAGTAATTCTATCTC
129 GAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTC
15102759 CCTGGGCAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGA
194 CCT--G-AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGA
15102824 TCGAA
256 TCGAA
* * *
15102829 GATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCCCT
1 GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
15102894 ----AGCCGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
** * * * *
15102955 AAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAGTTTTATCTCC
130 AAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCC
15103020 CT-AGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGA
195 CTGAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGA
15103084 A
260 A
* * *
15103085 AATGGTGGATTTTACCTCCCTGTAGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
*** * * *
15103150 GGTTGGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGA-TTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* * * *
15103215 AAGATGGTC-GATTTTACCTCCCTGTA-GTTACAGTGGAGTACATTGAACCCAGTAGTTTTATCT
130 AAGATGG-CAGATTTTACCTCCTTG-AGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCT
*
15103278 CCCT-AGCAGTGGCATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
193 CCCTGAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
15103342 GAA
258 GAA
* *
15103345 GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCTCT
1 GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
15103410 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
15103475 AAGATG
130 AAGATG
15103481 ACAAAACTTA
Statistics
Matches: 845, Mismatches: 57, Indels: 31
0.91 0.06 0.03
Matches are distributed among these distances:
256 124 0.15
259 2 0.00
260 417 0.49
261 2 0.00
262 1 0.00
263 82 0.10
264 210 0.25
265 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (260 bp):
GATGGTCGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
AGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCC
TGAGCAGTGGAATAGATTAAAGATTTTAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAA
Found at i:15104428 original size:16 final size:15
Alignment explanation
Indices: 15104407--15104441 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
15104397 TTCATTATTT
*
15104407 TTTTGTTTTCTTTTTC
1 TTTTGTTTTC-CTTTC
15104423 TTTTGTTTTCCTTTC
1 TTTTGTTTTCCTTTC
15104438 TTTT
1 TTTT
15104442 TTTCATGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (15 bp):
TTTTGTTTTCCTTTC
Found at i:15105464 original size:51 final size:51
Alignment explanation
Indices: 15105388--15105551 Score: 283
Period size: 51 Copynumber: 3.2 Consensus size: 51
15105378 CTGATCAATA
15105388 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
**
15105439 ACAAGTGATAAGTGGTATATTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
* * *
15105490 ACAAGTGATAAATGGTAGCTTTAGCTACAGTTATTTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
15105541 ACAAGTGATAA
1 ACAAGTGATAA
15105552 ATGTGATCTG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 106 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:15108353 original size:24 final size:24
Alignment explanation
Indices: 15108329--15108386 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
15108319 ATTTTTTTTA
15108329 TATATTAATATGTATGTATCATTAT
1 TATATTAATATGTAT-TATCATTAT
* *
15108354 TATTTTTATATGTATTATCATGT-T
1 TATATTAATATGTATTATCAT-TAT
15108378 TA-ATTAATA
1 TATATTAATA
15108387 AATATTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.18
24 9 0.32
25 14 0.50
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (24 bp):
TATATTAATATGTATTATCATTAT
Found at i:15113653 original size:21 final size:21
Alignment explanation
Indices: 15113629--15113682 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
15113619 CATTGTTTCT
15113629 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
15113650 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
15113671 AATCTCACCGCT
1 AATCTCACCGCT
15113683 GTTTTTAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.30, C:0.35, G:0.09, T:0.26
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:15117555 original size:43 final size:42
Alignment explanation
Indices: 15117498--15117636 Score: 120
Period size: 42 Copynumber: 3.2 Consensus size: 42
15117488 TCCCAAACGT
* *
15117498 GGTCTTACATGTAATCAAATAACGATGCCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAAT-ACGATGCCAATATCCCAGACAG
* * * * *
15117541 GGTCTTACCCGTAATCATATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
* ** *
15117583 GGTTTTACACGTAAATCTCAAAT-CGATGCCAACGTCCTAGAC-G
1 GGTCTTACACGT-AA--TCAAATACGATGCCAATATCCCAGACAG
15117626 TGGTCTTACAC
1 -GGTCTTACAC
15117637 AAAATCACAT
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 28 0.36
43 19 0.25
44 25 0.32
45 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGCCAATATCCCAGACAG
Found at i:15124201 original size:33 final size:33
Alignment explanation
Indices: 15124110--15124227 Score: 134
Period size: 33 Copynumber: 3.6 Consensus size: 33
15124100 GTGAAGTTAT
* *
15124110 TTTTTGGTCAATTATACATACACCAACAATGT-T
1 TTTTAGGTCAATTATACATACACCAACAA-GTAA
* * *
15124143 TTTTATGGT-AAATA-AAATTAAACCAACAAGTAA
1 TTTTA-GGTCAATTATACA-TACACCAACAAGTAA
*
15124176 TTTTAGGTCAATTATACATACACCAACAATTAA
1 TTTTAGGTCAATTATACATACACCAACAAGTAA
15124209 TTTTAGGTCAATTATACAT
1 TTTTAGGTCAATTATACAT
15124228 GCTTTATAAT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
32 7 0.10
33 59 0.83
34 5 0.07
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (33 bp):
TTTTAGGTCAATTATACATACACCAACAAGTAA
Found at i:15128477 original size:10 final size:10
Alignment explanation
Indices: 15128458--15128487 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
15128448 CTCTACTCTT
*
15128458 GAAAAGAAAA
1 GAAAAAAAAA
15128468 GAAAAAAAAA
1 GAAAAAAAAA
15128478 GAAAAAAAAA
1 GAAAAAAAAA
15128488 AGAGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:15128479 original size:15 final size:14
Alignment explanation
Indices: 15128459--15128488 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15128449 TCTACTCTTG
15128459 AAAAGAAAAGAAAAA
1 AAAAGAAAA-AAAAA
15128474 AAAAGAAAAAAAAA
1 AAAAGAAAAAAAAA
15128488 A
1 A
15128489 GAGAAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:15135246 original size:26 final size:26
Alignment explanation
Indices: 15135217--15135268 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15135207 AAGGCAGTGA
15135217 TCTGCACCAAGTCAGGTATTAAAACT
1 TCTGCACCAAGTCAGGTATTAAAACT
15135243 TCTGCACCAAGTCAGGTATTAAAACT
1 TCTGCACCAAGTCAGGTATTAAAACT
15135269 ATCTCTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
TCTGCACCAAGTCAGGTATTAAAACT
Found at i:15147492 original size:18 final size:18
Alignment explanation
Indices: 15147471--15147507 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15147461 ACTCATTCCA
* *
15147471 CATCACTTATAATCATTT
1 CATCACTTACAACCATTT
15147489 CATCACTTACAACCATTT
1 CATCACTTACAACCATTT
15147507 C
1 C
15147508 GAAACATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.00, T:0.38
Consensus pattern (18 bp):
CATCACTTACAACCATTT
Found at i:15149268 original size:3 final size:3
Alignment explanation
Indices: 15149260--15150086 Score: 1654
Period size: 3 Copynumber: 275.7 Consensus size: 3
15149250 ACCTACTTCT
15149260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149308 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149356 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149404 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149452 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149500 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149548 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149596 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149644 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149692 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149740 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149788 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149836 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149884 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149932 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15149980 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15150028 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15150076 TTA TTA TTA TT
1 TTA TTA TTA TT
15150087 CTCTTTTATC
Statistics
Matches: 824, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 824 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15151621 original size:16 final size:16
Alignment explanation
Indices: 15151592--15151624 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15151582 CCAAACCATA
15151592 TGAAAAATTCCAAATT
1 TGAAAAATTCCAAATT
15151608 TGAAAGAATT-CAAATT
1 TGAAA-AATTCCAAATT
15151624 T
1 T
15151625 AGTATCAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (16 bp):
TGAAAAATTCCAAATT
Found at i:15162853 original size:171 final size:171
Alignment explanation
Indices: 15162568--15162913 Score: 674
Period size: 171 Copynumber: 2.0 Consensus size: 171
15162558 CACCACGATC
15162568 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
1 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
*
15162633 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTTTAATTTAAACAAGTTTTACGAG
66 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
15162698 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
131 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
*
15162739 ATTTAATCTTTTAATTAAGTTGGTTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
1 ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
15162804 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
66 AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
15162869 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
131 CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
15162910 ATTT
1 ATTT
15162914 TGCCTCAAAA
Statistics
Matches: 173, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 173 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (171 bp):
ATTTAATCTTTTAATTAAGTTGGCTTTTAACTTCTTACTTATAGAGAATAAATTCTCTTCGAATT
AGCTCGTAGCAATGAAGGTAATAAACATTTTTATTCCTTCCTCTAATTTAAACAAGTTTTACGAG
CATTGCTATGCATTAGATCAAGTGGTTTTTGACCTTTGTTA
Found at i:15164741 original size:86 final size:86
Alignment explanation
Indices: 15164545--15164868 Score: 288
Period size: 86 Copynumber: 3.8 Consensus size: 86
15164535 TTATATCATT
* * * * *
15164545 AAATCAAAATAAAATTTATTAAACGGCAGGAATAAATCCCGAAACCGA-ATTATTT-TA-TT-AC
1 AAATC-AAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAAT
*
15164606 GTCT-TTGTTTGGAAACAAAA-C
65 TTCTCTT-TTTGGAAACAAAATC
** * * *
15164627 AATATTGAATAAATCTTGTTAAATGGCAGGAATAAATCCCGAAACAGATTTTATTTA-ATTTAAT
1 AA-ATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAAT
* *
15164691 TTCTCATTTTTAGCAACAAAATC
65 TTCTC-TTTTTGGAAACAAAATC
* * * *
15164714 AAATCAAATAAAACTTATTAAACGGCAGGAATCAATCCCAAAACGGATTTTATTTACCTTTAATT
1 AAATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAATT
* *
15164779 TC-CTGTTTGGAAATAAAATC
66 TCTCTTTTTGGAAACAAAATC
* * * * *
15164799 AAAATAATGGAATAAAA-TCAGTTGAACGGCGGGAATAAATCCCGAAACAGATTTTATTTACTTT
1 -AAATCA---AATAAAACTTA-TTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATT
15164863 TAATTT
61 TAATTT
15164869 TGAAAACAAA
Statistics
Matches: 195, Mismatches: 33, Indels: 21
0.78 0.13 0.08
Matches are distributed among these distances:
82 38 0.19
83 9 0.05
84 2 0.01
85 17 0.09
86 63 0.32
87 14 0.07
88 2 0.01
89 50 0.26
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (86 bp):
AAATCAAATAAAACTTATTAAACGGCAGGAATAAATCCCGAAACAGATTTTATTTACATTTAATT
TCTCTTTTTGGAAACAAAATC
Found at i:15168503 original size:44 final size:47
Alignment explanation
Indices: 15168441--15168531 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
15168431 AACTAATGAA
*
15168441 CAGAGAGCACTAAAGTGCT-AT-A-CAGAGAGCA-TAGATGTGCTAAT
1 CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACT-GATGTCCTAAT
*
15168485 CAGAGAGCACTAACGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
1 CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
15168532 AAGCAGAGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
44 18 0.44
45 2 0.05
46 1 0.02
47 19 0.46
48 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (47 bp):
CAGAGAGCACTAAAGTGCTAATAATCAGAGAGCACTGATGTCCTAAT
Found at i:15168515 original size:25 final size:24
Alignment explanation
Indices: 15168433--15168541 Score: 111
Period size: 22 Copynumber: 4.6 Consensus size: 24
15168423 TTATTATGAA
*
15168433 CTAATGAACAGAGAGCACTAAAGTG
1 CTAAT-AACAGAGAGCACTAATGTG
15168458 CT-AT-ACAGAGAGCA-TAGATGTG
1 CTAATAACAGAGAGCACTA-ATGTG
*
15168480 CTAAT--CAGAGAGCACTAACGTG
1 CTAATAACAGAGAGCACTAATGTG
* *
15168502 CTAATAATCAGAGAGCACTGATGTC
1 CTAATAA-CAGAGAGCACTAATGTG
15168527 CTAATAAGCAGAGAG
1 CTAATAA-CAGAGAG
15168542 TGCGCTAAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.03
22 34 0.47
23 4 0.06
24 2 0.03
25 30 0.42
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.19
Consensus pattern (24 bp):
CTAATAACAGAGAGCACTAATGTG
Found at i:15173504 original size:16 final size:17
Alignment explanation
Indices: 15173473--15173507 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15173463 TTGTGTTTTG
15173473 TGCAAAAAGGACTAAAA
1 TGCAAAAAGGACTAAAA
*
15173490 TGCAAAAAGTA-TAAAA
1 TGCAAAAAGGACTAAAA
15173506 TG
1 TG
15173508 TTAGGGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (17 bp):
TGCAAAAAGGACTAAAA
Found at i:15174610 original size:41 final size:41
Alignment explanation
Indices: 15174553--15174710 Score: 167
Period size: 41 Copynumber: 3.9 Consensus size: 41
15174543 AATAAGATGG
* *
15174553 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
* * **
15174594 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAC
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
*
15174635 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCC-AGTGAAATGT
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGA-TGAAATGT
* * * * * *
15174676 ATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGATG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATG
15174711 TTTTATACAA
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
40 2 0.02
41 89 0.94
42 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGATGAAATGT
Found at i:15174694 original size:82 final size:82
Alignment explanation
Indices: 15174553--15174707 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 82
15174543 AATAAGATGG
* * *
15174553 TTCAGACTTTACGTCTAGGAGGCTTGATGCCGATGAAATGTTTCAGACTTTATGTCTAGCAGGCT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
15174618 TGATGCCGGTGAATTAC
66 TGATGCCGGTGAATTAC
* * * * *
15174635 TTCAGACTTTATGTTTAGCAGGCTTTG-TGCC-AGTGAAATGTATCGGGCTTTGTGCCTAGCAGG
1 TTCAGACTTTACGTCTAGCAGGC-TTGATGCCGA-TGAAATGTATCAGACTTTATGCCTAGCAGG
*
15174698 CTTTATGCCG
64 CTTGATGCCG
15174708 ATGTTTTATA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 1 0.02
82 58 0.94
83 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (82 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGATGAAATGTATCAGACTTTATGCCTAGCAGGCT
TGATGCCGGTGAATTAC
Found at i:15176273 original size:16 final size:17
Alignment explanation
Indices: 15176252--15176289 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15176242 TTCTATAGGG
*
15176252 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
15176268 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
15176286 ATTT
1 ATTT
15176290 AAATAAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:15177627 original size:99 final size:95
Alignment explanation
Indices: 15177518--15177711 Score: 300
Period size: 99 Copynumber: 2.0 Consensus size: 95
15177508 CAGGTTCGAA
*
15177518 TCGATTTTTTTT-AACTTTTTTTTGAATTTAGGTTTTTTTTCGCTCCGGCCCTTTTAAATTTGAA
1 TCGATTTTTTTTCAACTTTTTTTT-AATTTAGGTTTTTTTT-GCTCCGACCCTTTTAAATTTG--
* *
15177582 ATTTTTTTTAAATTTAGACTTGGACTAAGTCAGAC
62 ATTTTTTTT-AATTTAGACTTAGACCAAGTCAGAC
15177617 TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
1 TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
*
15177682 TTTTTAATTTAGACTTAGACCAAGTGAGAC
66 TTTTTAATTTAGACTTAGACCAAGTCAGAC
15177712 GAGTTCTCAT
Statistics
Matches: 90, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
95 22 0.24
96 9 0.10
98 20 0.22
99 28 0.31
100 11 0.12
ACGTcount: A:0.22, C:0.13, G:0.12, T:0.52
Consensus pattern (95 bp):
TCGATTTTTTTTCAACTTTTTTTTAATTTAGGTTTTTTTTGCTCCGACCCTTTTAAATTTGATTT
TTTTTAATTTAGACTTAGACCAAGTCAGAC
Found at i:15177743 original size:98 final size:97
Alignment explanation
Indices: 15177537--15177711 Score: 230
Period size: 95 Copynumber: 1.8 Consensus size: 97
15177527 TTTAACTTTT
*
15177537 TTTTGAATTTAGGTTTTTTTTCGCTCCGGCCCTTTTAAATTTGAAATTTTTTTTAAATTTAGACT
1 TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTG-AATTTTTTTTAAATTTAGACT
* * * * **
15177602 TGGACTAAGTCAGACTCGATTTTTTTTCAACTTT
65 TAGACCAAGTCAGAC-CGATTTTATTTCAAATAA
*
15177636 TTTTTAATTTAGGTTTTTTTT-GCTCCGACCCTTTTAAATTTG-ATTTTTTTT-AATTTAGACTT
1 TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTGAATTTTTTTTAAATTTAGACTT
*
15177698 AGACCAAGTGAGAC
66 AGACCAAGTCAGAC
15177712 GAGTTCTCAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 22 0.31
96 9 0.13
98 20 0.28
99 20 0.28
ACGTcount: A:0.23, C:0.14, G:0.13, T:0.50
Consensus pattern (97 bp):
TTTTGAATTTAGGTTTTTTTTCGCTCCGACCCTTTTAAATTTGAATTTTTTTTAAATTTAGACTT
AGACCAAGTCAGACCGATTTTATTTCAAATAA
Found at i:15178670 original size:20 final size:19
Alignment explanation
Indices: 15178639--15178687 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
15178629 TAAATAAATC
15178639 ATAAAAATATTACAAA-TTT
1 ATAAAAATATTA-AAAGTTT
15178658 ATAAAAGATATTAAAAGTTT
1 ATAAAA-ATATTAAAAGTTT
15178678 ATAAAAATAT
1 ATAAAAATAT
15178688 ATTAAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (19 bp):
ATAAAAATATTAAAAGTTT
Found at i:15179303 original size:40 final size:38
Alignment explanation
Indices: 15179254--15179346 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 38
15179244 CATATTTATA
* *
15179254 ATTTATTAAATTTTTATAAGCTTATATAAAAAATTTAAAT
1 ATTTTTTAAATTTTTATAA-ATT-TATAAAAAATTTAAAT
* *
15179294 ATTTTTTAAATTTTTATAAATTTATATAAAATTTTAAT
1 ATTTTTTAAATTTTTATAAATTTATAAAAAATTTAAAT
15179332 ATTTTGTTAATATTT
1 ATTTT-TTAA-ATTT
15179347 CACGTGTCCT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 19 0.40
39 6 0.13
40 22 0.47
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (38 bp):
ATTTTTTAAATTTTTATAAATTTATAAAAAATTTAAAT
Found at i:15183330 original size:24 final size:26
Alignment explanation
Indices: 15183298--15183346 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
15183288 AAACCCTAGT
* *
15183298 TTTTTTTCTCCTTT-TTCTT-TTTTG
1 TTTTGTTCTACTTTGTTCTTCTTTTG
15183322 TTTTGTTCTACTTTGTTCTTCTTTT
1 TTTTGTTCTACTTTGTTCTTCTTTT
15183347 TCTTTCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 5 0.24
26 4 0.19
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (26 bp):
TTTTGTTCTACTTTGTTCTTCTTTTG
Found at i:15197123 original size:9 final size:9
Alignment explanation
Indices: 15197109--15197141 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
15197099 ATTTAGTCCC
15197109 GTTTTTATT
1 GTTTTTATT
15197118 GTTTTTATT
1 GTTTTTATT
15197127 GTTTTTATT
1 GTTTTTATT
15197136 -TTTTTA
1 GTTTTTA
15197142 AAAGTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (9 bp):
GTTTTTATT
Found at i:15197197 original size:18 final size:19
Alignment explanation
Indices: 15197176--15197217 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
15197166 ATTATTATTA
*
15197176 TTATTATCATTA-TTGCTT
1 TTATTATCATTATTTGCCT
* *
15197194 TTATTTTTATTATTTGCCT
1 TTATTATCATTATTTGCCT
15197213 TTATT
1 TTATT
15197218 GTTTACTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.19, C:0.10, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTATCATTATTTGCCT
Found at i:15197215 original size:19 final size:19
Alignment explanation
Indices: 15197184--15197222 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15197174 TATTATTATC
*
15197184 ATTATTGCTTTTATT-TTT
1 ATTATTGCCTTTATTGTTT
15197202 ATTATTTGCCTTTATTGTTT
1 ATTA-TTGCCTTTATTGTTT
15197222 A
1 A
15197223 CTCATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.67
Consensus pattern (19 bp):
ATTATTGCCTTTATTGTTT
Found at i:15197556 original size:26 final size:24
Alignment explanation
Indices: 15197525--15197588 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 24
15197515 AAATATATAA
*
15197525 ATATATACTTTATATCTTATTTA-TTT
1 ATATATACTTTATA-C--ATATACTTT
*
15197551 ATATATCCTTGTATACATATACTTT
1 ATATATACTT-TATACATATACTTT
15197576 -TATATACTTTATA
1 ATATATACTTTATA
15197589 ATGCATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
23 4 0.12
24 12 0.36
25 3 0.09
26 10 0.30
27 4 0.12
ACGTcount: A:0.33, C:0.11, G:0.02, T:0.55
Consensus pattern (24 bp):
ATATATACTTTATACATATACTTT
Found at i:15212298 original size:10 final size:10
Alignment explanation
Indices: 15212283--15212316 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15212273 TGGCATATCA
15212283 TATTGTCCCC
1 TATTGTCCCC
15212293 TATTGTCCCC
1 TATTGTCCCC
*
15212303 TATTCTCCCC
1 TATTGTCCCC
15212313 -ATTG
1 TATTG
15212317 GTAACCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.12, C:0.38, G:0.09, T:0.41
Consensus pattern (10 bp):
TATTGTCCCC
Found at i:15221318 original size:7 final size:7
Alignment explanation
Indices: 15221306--15221332 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15221296 AGTAGGCAGA
15221306 GACATGT
1 GACATGT
15221313 GACATGT
1 GACATGT
15221320 GACATGT
1 GACATGT
15221327 GACATG
1 GACATG
15221333 CCACATGTAC
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:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (7 bp):
GACATGT
Found at i:15221338 original size:14 final size:14
Alignment explanation
Indices: 15221307--15221344 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
15221297 GTAGGCAGAG
**
15221307 ACATGTGACATGTG
1 ACATGTGACATGCC
15221321 ACATGTGACATGCC
1 ACATGTGACATGCC
15221335 ACATGT-ACAT
1 ACATGTGACAT
15221345 CATGCTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.18
14 18 0.82
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (14 bp):
ACATGTGACATGCC
Found at i:15222135 original size:21 final size:21
Alignment explanation
Indices: 15222111--15222170 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
15222101 TTTAAATTAA
15222111 TATTAATTTTAAATATATTT-T
1 TATTAATTTTAAATA-ATTTCT
*
15222132 TATTAATTTTTAATAATTTCT
1 TATTAATTTTAAATAATTTCT
15222153 TA-TAATTCTT-AATAATTT
1 TATTAATT-TTAAATAATTT
15222171 ATAAATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTAATTTTAAATAATTTCT
Found at i:15222142 original size:10 final size:10
Alignment explanation
Indices: 15222114--15222184 Score: 63
Period size: 10 Copynumber: 6.8 Consensus size: 10
15222104 AAATTAATAT
*
15222114 TAATTTTAAA
1 TAATTTTTAA
*
15222124 TATATTTTTAT
1 TA-ATTTTTAA
15222135 TAATTTTTAA
1 TAATTTTTAA
15222145 TAATTTCTT-A
1 TAATTT-TTAA
*
15222155 TAATTCTTAA
1 TAATTTTTAA
*
15222165 TAATTTATAAA
1 TAATTT-TTAA
15222176 TAAATTTTT
1 T-AATTTTT
15222185 GTATTTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 2 0.04
10 27 0.55
11 15 0.31
12 5 0.10
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:15222158 original size:20 final size:20
Alignment explanation
Indices: 15222111--15222170 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
15222101 TTTAAATTAA
*
15222111 TATTAATTTTAAATATATTTT
1 TATTAATTTTTAATA-ATTTT
15222132 TATTAATTTTTAATAATTTCT
1 TATTAATTTTTAATAATTT-T
*
15222153 TA-TAATTCTTAATAATTT
1 TATTAATTTTTAATAATTT
15222171 ATAAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.53
21 17 0.47
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAATTTTTAATAATTTT
Found at i:15223863 original size:12 final size:13
Alignment explanation
Indices: 15223833--15223863 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15223823 AGAATTTTGC
15223833 TTTCTTCTCCCTA
1 TTTCTTCTCCCTA
15223846 TTTCTTCTCCCT-
1 TTTCTTCTCCCTA
15223858 TTTCTT
1 TTTCTT
15223864 TTCCATCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.03, C:0.35, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTCTTCTCCCTA
Found at i:15226165 original size:35 final size:33
Alignment explanation
Indices: 15226053--15226210 Score: 136
Period size: 34 Copynumber: 4.6 Consensus size: 33
15226043 ATTTACTGCT
* * *
15226053 GTATTGATCTATTATAAGGATATTAATTGCTAC
1 GTATTGATCTGTTATAAGCATATTAATTACTAC
* * * * * * *
15226086 GGTGTTTATTTGTTATAATCACATTAATTGCGTCC
1 -GTATTGATCTGTTATAAGCATATTAATTAC-TAC
*
15226121 GTATTGATCTGTTATAAGCATTTTGAATTACTATC
1 GTATTGATCTGTTATAAGCATATT-AATTACTA-C
* * **
15226156 GTATCGATCTGTTATATGCATATTAATTGGTAC
1 GTATTGATCTGTTATAAGCATATTAATTACTAC
15226189 TGTATTGATCTGTTATAAGCAT
1 -GTATTGATCTGTTATAAGCAT
15226211 GTCAAATTGC
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
33 1 0.01
34 67 0.69
35 29 0.30
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.44
Consensus pattern (33 bp):
GTATTGATCTGTTATAAGCATATTAATTACTAC
Found at i:15229741 original size:105 final size:105
Alignment explanation
Indices: 15229554--15229749 Score: 259
Period size: 105 Copynumber: 1.9 Consensus size: 105
15229544 CAAGGCCTGG
* ** ** * *
15229554 CACATAGCCTGCGACATGGTTGAGTGACCCAACTTTGAAGATACACATGGGCTAATACACGACCG
1 CACACAGCCTGCGACATGGCCGAGTGACCCAACTTCAAAGATACACATGGGCTAAGACACGACCA
15229619 TGTATCCCTACTTCGAATGTTCACACAATCTGGGCTATGT
66 TGTATCCCTACTTCGAATGTTCACACAATCTGGGCTATGT
* * * **
15229659 CACACAGCCTGCGACATGGCCGTGTGACCCAACTTCAAATATATACATGGGCTGGGACAC-AGCC
1 CACACAGCCTGCGACATGGCCGAGTGACCCAACTTCAAAGATACACATGGGCTAAGACACGA-CC
*
15229723 ATGTGTCCCTACTTCGAATGTTCACAC
65 ATGTATCCCTACTTCGAATGTTCACAC
15229750 GGCCTGGAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.01
105 76 0.99
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (105 bp):
CACACAGCCTGCGACATGGCCGAGTGACCCAACTTCAAAGATACACATGGGCTAAGACACGACCA
TGTATCCCTACTTCGAATGTTCACACAATCTGGGCTATGT
Found at i:15251471 original size:13 final size:13
Alignment explanation
Indices: 15251455--15251479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15251445 AAAATTAATA
15251455 AACCCAATTACCC
1 AACCCAATTACCC
15251468 AACCCAATTACC
1 AACCCAATTACC
15251480 ATTTACCAAC
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:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:15251490 original size:19 final size:19
Alignment explanation
Indices: 15251466--15251538 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
15251456 ACCCAATTAC
15251466 CCAACCCAATTACCATTTA
1 CCAACCCAATTACCATTTA
* * *
15251485 CCAACCCAATAAACTAAAGTCTA
1 CCAACCCAAT-TAC--CA-TTTA
15251508 CCCAAACCCAATTACCATTTA
1 -CC-AACCCAATTACCATTTA
15251529 CCAACCCAAT
1 CCAACCCAAT
15251539 AAAACAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 18 0.43
20 4 0.10
21 3 0.07
22 2 0.05
23 3 0.07
24 4 0.10
25 8 0.19
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (19 bp):
CCAACCCAATTACCATTTA
Found at i:15252086 original size:8 final size:8
Alignment explanation
Indices: 15252075--15252132 Score: 98
Period size: 8 Copynumber: 7.0 Consensus size: 8
15252065 TATTTGCTGG
15252075 GGTTAATC
1 GGTTAATC
15252083 GGTTAATC
1 GGTTAATC
15252091 GGTTAAATC
1 GGTT-AATC
15252100 GGTTAAATC
1 GGTT-AATC
15252109 GGTTAATC
1 GGTTAATC
15252117 GGTTAATC
1 GGTTAATC
15252125 GGTTAATC
1 GGTTAATC
15252133 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
8 32 0.65
9 17 0.35
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (8 bp):
GGTTAATC
Found at i:15253181 original size:115 final size:115
Alignment explanation
Indices: 15252961--15253182 Score: 254
Period size: 115 Copynumber: 1.9 Consensus size: 115
15252951 AACTACTCAT
* * *
15252961 AACCCCTTCTAACCTATAAATAGGAGGATAATACGTTTCAGCGTACTCAAACCTACTTCCTCTTG
1 AACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAGCGTACTCAAACCTACTTCCTCCTG
* * *
15253026 TATTGACAACAATATCAGTCCCAATTGAGATAAAATTCAATCAACTCACA
66 CATTGACAACAATATCAGTACCAATTGAGATAAAACTCAATCAACTCACA
* * * * *
15253076 AACCTCTTCCAACTTATAAATAGTAGGATAATGCGCTTCAGC-TCACTCAAA-ATCACTTCCTCC
1 AACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAGCGT-ACTCAAACCT-ACTTCCTCC
* * *
15253139 TGCATTGAGAGCAATGTCCA-TACCAATTGA-ATTAAAACTCAATC
64 TGCATTGACAACAATAT-CAGTACCAATTGAGA-TAAAACTCAATC
15253183 GACTATTGTT
Statistics
Matches: 89, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
114 3 0.03
115 84 0.94
116 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.28
Consensus pattern (115 bp):
AACCCCTTCCAACCTATAAATAGGAGGATAATACGCTTCAGCGTACTCAAACCTACTTCCTCCTG
CATTGACAACAATATCAGTACCAATTGAGATAAAACTCAATCAACTCACA
Found at i:15253288 original size:9 final size:9
Alignment explanation
Indices: 15253274--15253304 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15253264 GTTAAACGAA
15253274 TCGAGTTAT
1 TCGAGTTAT
*
15253283 TCGAGTTAA
1 TCGAGTTAT
15253292 TCGAGTTAT
1 TCGAGTTAT
15253301 TCGA
1 TCGA
15253305 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:15253387 original size:9 final size:9
Alignment explanation
Indices: 15253357--15253394 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
15253347 TTGAGTTTTC
15253357 TAATTCGAA
1 TAATTCGAA
*
15253366 TAACTCGAA
1 TAATTCGAA
15253375 TAATTCGAA
1 TAATTCGAA
*
15253384 TAATTTGAA
1 TAATTCGAA
15253393 TA
1 TA
15253395 TCAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (9 bp):
TAATTCGAA
Found at i:15254405 original size:5 final size:5
Alignment explanation
Indices: 15254395--15254421 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15254385 AAATTTTTTT
15254395 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
15254422 CGAACGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:15256706 original size:2 final size:2
Alignment explanation
Indices: 15256699--15256736 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15256689 TGCTCAAGTT
15256699 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
15256737 ACATATCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:15260282 original size:9 final size:9
Alignment explanation
Indices: 15260268--15260295 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15260258 TGAGTTTTCG
15260268 AATTCGAAT
1 AATTCGAAT
15260277 AATTCGAAT
1 AATTCGAAT
15260286 AATTCGAAT
1 AATTCGAAT
15260295 A
1 A
15260296 TCAAACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:15261191 original size:5 final size:5
Alignment explanation
Indices: 15261181--15261206 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15261171 GAACAAATAT
15261181 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
15261207 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:15266641 original size:16 final size:16
Alignment explanation
Indices: 15266622--15266659 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
15266612 AATGAACGGT
*
15266622 AAAAAAAATA-AAAAC
1 AAAAAAAAAACAAAAC
15266637 AAAAAAAAAACAAAAC
1 AAAAAAAAAACAAAAC
15266653 AAAAAAA
1 AAAAAAA
15266660 CCTCTACCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.89, C:0.08, G:0.00, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAACAAAAC
Found at i:15266645 original size:11 final size:11
Alignment explanation
Indices: 15266625--15266658 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
15266615 GAACGGTAAA
15266625 AAAAATAAAAAC
1 AAAAA-AAAAAC
15266637 AAAAAAAAAAC
1 AAAAAAAAAAC
15266648 AAAACAAAAAA
1 AAAA-AAAAAA
15266659 ACCTCTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:15267107 original size:11 final size:12
Alignment explanation
Indices: 15267091--15267124 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15267081 ATACTTCACT
15267091 TGAAAA-AAAAA
1 TGAAAAGAAAAA
15267102 TGAAAAGAAAAA
1 TGAAAAGAAAAA
*
15267114 AGAAAAGAAAA
1 TGAAAAGAAAA
15267125 GAAGAACGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (12 bp):
TGAAAAGAAAAA
Found at i:15267123 original size:17 final size:17
Alignment explanation
Indices: 15267092--15267142 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
15267082 TACTTCACTT
*
15267092 GAAAAAA-AAATGAAAA
1 GAAAAAAGAAAAGAAAA
15267108 GAAAAAAGAAAAGAAAA
1 GAAAAAAGAAAAGAAAA
* *
15267125 GAAGAACGAAAAAGAAAA
1 GAAAAAAG-AAAAGAAAA
15267143 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 7 0.23
17 14 0.47
18 9 0.30
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (17 bp):
GAAAAAAGAAAAGAAAA
Found at i:15267137 original size:13 final size:11
Alignment explanation
Indices: 15267092--15267142 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 11
15267082 TACTTCACTT
15267092 GAAAA-AAAAA
1 GAAAAGAAAAA
15267102 TGAAAAGAAAAAA
1 -GAAAAG-AAAAA
15267115 GAAAAG-AAAA
1 GAAAAGAAAAA
15267125 GAAGAACGAAAAA
1 GAA-AA-GAAAAA
15267138 GAAAA
1 GAAAA
15267143 AGGAGAGGCC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 7 0.20
11 7 0.20
12 9 0.26
13 12 0.34
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (11 bp):
GAAAAGAAAAA
Found at i:15268297 original size:89 final size:89
Alignment explanation
Indices: 15268101--15268466 Score: 378
Period size: 89 Copynumber: 4.1 Consensus size: 89
15268091 CTAAAATTGT
* * * * * * * * *
15268101 AGCGGAGTAGACTAAAAATAGCAGATCTTGTCTTCCTGTACTGGCAGCAAAGTATATCGAATACA
1 AGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAAATCGAAGACA
*
15268166 CCAGTC-TGCCTTCCTGTACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * * * *
15268189 AGCAGAGCAGACTGAAGATAACAGATTTTGCCTTCCTGTAGTGACAACGAAGTAAATCGAAGACA
1 AGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAAATCGAAGACA
15268254 CCAGCCTTGCCTTCCTGTACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * *
15268278 AGCGGAGTAGACTGAAGATAGCAGATCTTGCCTTCTTGTACTGACAACGAAGCAGATCGAAGACA
1 AGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAAATCGAAGACA
* *
15268343 CCAGCCTTACCTTCCTATACTGAC
66 CCAGCCTTGCCTTCCTGTACTGAC
* * * * * ** * * *
15268367 AGTGAAGCAGA-TCAAAGACACCAGCT-TTGCCTTCCTGTACTGACAGTGGAGCAAATTGAAGAT
1 AGCGGAGCAGACT-AAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAAATCGAAGAC
* *
15268430 AGCAGATCTTGCCTTCCTGTACTGAC
65 ACCAG-CCTTGCCTTCCTGTACTGAC
*
15268456 AGCGAAGCAGA
1 AGCGGAGCAGA
15268467 TCGAAGACAC
Statistics
Matches: 232, Mismatches: 43, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
88 92 0.40
89 140 0.60
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (89 bp):
AGCGGAGCAGACTAAAGATAGCAGATCTTGCCTTCCTGTACTGACAACGAAGCAAATCGAAGACA
CCAGCCTTGCCTTCCTGTACTGAC
Found at i:15268397 original size:133 final size:134
Alignment explanation
Indices: 15268172--15268747 Score: 587
Period size: 133 Copynumber: 4.3 Consensus size: 134
15268162 TACACCAGTC
* * * ** * *
15268172 TGCCTTCCTGTACTGACAGC-AGAGCAGA-CTGAAGATAACAGATTTTGCCTTCCTGTAGTGACA
1 TGCCTTCCTGTACTGACAGCGA-AGCAGATCGGAAGACACCAG-CCTTACCTTCCTGTACTGACA
** * * * *
15268235 ACGAAGTAAATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGTAGACTGAAGATAGC
64 GTGAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGC
15268300 AGATCT
129 AGATCT
* * *
15268306 TGCCTTCTTGTACTGACAACGAAGCAGATC-GAAGACACCAGCCTTACCTTCCTATACTGACAGT
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGGAAGACACCAGCCTTACCTTCCTGTACTGACAGT
* * * *
15268370 GAAGCAGATCAAAGACACCAGCTTTGCCTTCCTGTACTGACAGTGGAGCAAATTGAAGATAGCAG
66 GAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAG
15268435 ATCT
131 ATCT
*
15268439 TGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAGCCTTACCTTCCTGTACTAACAGT
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGGAAGACACCAGCCTTACCTTCCTGTACTGACAGT
* * * ** * * * * * *
15268503 GGAGCAGA-CTGAAGATAGTAGATCTTGTCTTCCTGCACTGACAGCGAAGCAGA-TCGAAGACAC
66 GAAGCAGATC-AAAGACACCAG-CCTTGCCTTCCTGTACTGACAGCGGAGCAGACT-GAAGATAG
*
15268566 CAG-CCT
128 CAGATCT
* * * * * * * * *
15268572 TGCCTTCCTGTATTGATAGCGGAGCAGA-CTGAAGATAGCAGATCTTGCCTTTCTGTACTGACAG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGGAAGACACCAG-CCTTACCTTCCTGTACTGACAG
* * *
15268636 TGAAGCAGAT-AGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCGGAGTAGACTAAAGATAGC
65 TGAAGCAGATCA-AAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGC
15268700 AGATCT
129 AGATCT
* * *
15268706 TGTCTTCCTGTACTGGCAGTGAAGCAGATCGGAAG-CACCAGC
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGGAAGACACCAGC
15268748 TTTATCTCCC
Statistics
Matches: 360, Mismatches: 70, Indels: 25
0.79 0.15 0.05
Matches are distributed among these distances:
132 2 0.01
133 222 0.62
134 129 0.36
135 7 0.02
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (134 bp):
TGCCTTCCTGTACTGACAGCGAAGCAGATCGGAAGACACCAGCCTTACCTTCCTGTACTGACAGT
GAAGCAGATCAAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGCAGACTGAAGATAGCAG
ATCT
Found at i:15268467 original size:89 final size:89
Alignment explanation
Indices: 15268172--15268750 Score: 589
Period size: 89 Copynumber: 6.5 Consensus size: 89
15268162 TACACCAGTC
* * * *
15268172 TGCCTTCCTGTACTGACAGC-AGAGCAGA-CTGAAGATAACAGATTTTGCCTTCCTGTAGTGACA
1 TGCCTTCCTGTACTGACAGCGA-AGCAGATC-GAAGACACCAG-CTTTGCCTTCCTGTACTGACA
* * * * * * *
15268235 ACGAAGTA-AATCGAAGACACCAG-CCT
63 GCGGAGCAGACT-GAAGATAGCAGATCT
* * * * * * *
15268261 TGCCTTCCTGTACTGACAGCGGAGTAGA-CTGAAGATAGCAGATCTTGCCTTCTTGTACTGACAA
1 TGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAGCT-TTGCCTTCCTGTACTGACAG
* * * *
15268325 CGAAGCAGA-TCGAAGACACCAG-CCT
64 CGGAGCAGACT-GAAGATAGCAGATCT
* * * * *
15268350 TACCTTCCTATACTGACAGTGAAGCAGATCAAAGACACCAGCTTTGCCTTCCTGTACTGACAGTG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCG
* *
15268415 GAGCAAATTGAAGATAGCAGATCT
66 GAGCAGACTGAAGATAGCAGATCT
* * * *
15268439 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGTG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCG
*
15268504 GAGCAGACTGAAGATAGTAGATCT
66 GAGCAGACTGAAGATAGCAGATCT
* * * * *
15268528 TGTCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTCCTGTATTGATAGCG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCG
15268593 GAGCAGACTGAAGATAGCAGATCT
66 GAGCAGACTGAAGATAGCAGATCT
* * * * *
15268617 TGCCTTTCTGTACTGACAGTGAAGCAGATAGAAGACACTAGCCTTGCCTTCCTGTACTGACAGCG
1 TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCG
* *
15268682 GAGTAGACTAAAGATAGCAGATCT
66 GAGCAGACTGAAGATAGCAGATCT
* * *
15268706 TGTCTTCCTGTACTGGCAGTGAAGCAGATCGGAAG-CACCAGCTTT
1 TGCCTTCCTGTACTGACAGCGAAGCAGATC-GAAGACACCAGCTTT
15268751 ATCTCCCTAA
Statistics
Matches: 425, Mismatches: 58, Indels: 14
0.86 0.12 0.03
Matches are distributed among these distances:
88 34 0.08
89 385 0.91
90 6 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (89 bp):
TGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACACCAGCTTTGCCTTCCTGTACTGACAGCG
GAGCAGACTGAAGATAGCAGATCT
Found at i:15268558 original size:222 final size:220
Alignment explanation
Indices: 15268163--15268681 Score: 664
Period size: 222 Copynumber: 2.3 Consensus size: 220
15268153 TATATCGAAT
* ** * *
15268163 ACACCAGTCTGCCTTCCTGTACTGACAGCAGAGCAGACTGAAGATAACAGATTTTGCCTTCCTGT
1 ACACCAGTTTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGAT-ACAGATCTTGCCTTCCTGT
* * * * * *
15268228 AGTGACAACGAAGTAAATCGAAGACACCAGCCTTGCCTTCCTGTACTGACAGCGGAGTAGACTGA
65 ACTGACAGCGAAGCAAATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGCGGAGCAGACTGA
* *
15268293 AGATAGCAGATCTTGCCTTCTTGTACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCTTCC
130 AGATAGCAGATCTTGCCTTCCTGCACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCTTCC
*
15268358 TATACTGACAGTGAAGCAGA-TCAAAG
195 TATACTGACAGCGAAGCAGACT-AAAG
*
15268384 ACACCAGCTTTGCCTTCCTGTACTGACAGTGGAGCAAATTGAAGATAGCAGATCTTGCCTTCCTG
1 ACACCAG-TTTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGATA-CAGATCTTGCCTTCCTG
* *
15268449 TACTGACAGCGAAGCAGATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGTGGAGCAGACTG
64 TACTGACAGCGAAGCAAATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGCGGAGCAGACTG
* * * *
15268514 AAGATAGTAGATCTTGTCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTTC
129 AAGATAGCAGATCTTGCCTTCCTGCACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCTTC
* * * * *
15268579 CTGTATTGATAGCGGAGCAGACTGAAG
194 CTATACTGACAGCGAAGCAGACTAAAG
* * * * * * *
15268606 ATAGCAGATCTTGCCTTTCTGTACTGACAGTGAAGCAGATAGAAGACACTAG-CCTTGCCTTCCT
1 ACACCAG-T-TTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGATAC-AGATCTTGCCTTCCT
15268670 GTACTGACAGCG
63 GTACTGACAGCG
15268682 GAGTAGACTA
Statistics
Matches: 258, Mismatches: 35, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
221 8 0.03
222 214 0.83
223 36 0.14
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (220 bp):
ACACCAGTTTGCCTTCCTGTACTGACAGTGGAGCAGATTGAAGATACAGATCTTGCCTTCCTGTA
CTGACAGCGAAGCAAATCGAAGACACCAGCCTTACCTTCCTGTACTAACAGCGGAGCAGACTGAA
GATAGCAGATCTTGCCTTCCTGCACTGACAACGAAGCAGATCGAAGACACCAGCCTTACCTTCCT
ATACTGACAGCGAAGCAGACTAAAG
Found at i:15268972 original size:88 final size:87
Alignment explanation
Indices: 15268880--15269080 Score: 208
Period size: 88 Copynumber: 2.3 Consensus size: 87
15268870 TGCCACTAGC
* * * * *
15268880 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTGTCTTCCTATGCT-GGCA
1 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGCAAATCCTGTCTCCCTAAG-TAGG-A
15268944 GTAAAGCAGATCGAA-AGCACCAGT
64 GTAAAGCAGATCGAAGA-CACCAGT
* * * * *
15268968 CTTATCTCCCTAAGCAGCAGTGGAATAGGTTGAGGATTGCAAATCCTGTCTCCCTAAGTAGGAGT
1 CTTATCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGCAAATCCTGTCTCCCTAAGTAGGAGT
** * * *
15269033 GGAGCAGGTTGAAGATACCAGT
66 AAAGCAGATCGAAGACACCAGT
*
15269055 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTG-AGTAGCAGTGGAG
15269081 CAGACTGAAG
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
87 30 0.33
88 61 0.67
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (87 bp):
CTTATCTCCCTGAGTAGCAGTGGAGTAGGTCGAAGATTGCAAATCCTGTCTCCCTAAGTAGGAGT
AAAGCAGATCGAAGACACCAGT
Found at i:15269078 original size:44 final size:44
Alignment explanation
Indices: 15269016--15269174 Score: 167
Period size: 45 Copynumber: 3.5 Consensus size: 44
15269006 GCAAATCCTG
* * *
15269016 TCTCCCT-AAGTAGGAGTGGAGCAGGTTGAAGATACCAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAGTCTTA
* * *
15269059 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCAGTCTTA
* * * *
15269104 TTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTAAATAACAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATACCAG-TCTTA
15269153 TCTCCCTGAAGTTGCAGTGGAG
1 TCTCCCTGAAGTTGCAGTGGAG
15269175 TGGATTAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
43 7 0.08
44 23 0.25
45 35 0.38
48 1 0.01
49 27 0.29
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCAGTCTTA
Found at i:15269112 original size:220 final size:221
Alignment explanation
Indices: 15268700--15269121 Score: 469
Period size: 220 Copynumber: 1.9 Consensus size: 221
15268690 TAAAGATAGC
* * *
15268700 AGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGGAAGCACCAGCTTTATCTCCCTAAGCAG
1 AGATCTTGTCTTCCTATACTGGCAGTAAAGCAGATCGAAAGCACCAGCTTTATCTCCCTAAGCAG
* * * * *
15268765 CAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAACAGATCGAAGACG
66 CAGTGGAATAGGTTGAAGATTGCAAATCCTATCTCCCTAAGTAGGAGTGGAACAGATCGAAGACG
*** * * * * * * * *
15268830 GTGAATTTTATCTTCCCAATGTAGTAGGGAAGCAGATTTATGCCACTAGCCTTATCTCCCTG-AG
131 ACCAATCTTATCTTCCCAATGTAGCAGGGAAGCAGACTGAAGACACAAACCTTATCTCCCTGAAG
15268894 TAGCAGTGGAGTAGGTCGAAGATTGT
196 TAGCAGTGGAGTAGGTCGAAGATTGT
*
15268920 AGATCTTGTCTTCCTATGCTGGCAGTAAAGCAGATCGAAAGCACCAG-TCTTATCTCCCTAAGCA
1 AGATCTTGTCTTCCTATACTGGCAGTAAAGCAGATCGAAAGCACCAGCT-TTATCTCCCTAAGCA
* * * * *
15268984 GCAGTGGAATAGGTTGAGGATTGCAAATCCTGTCTCCCTAAGTAGGAGTGGAGCAGGTTGAAGA-
65 GCAGTGGAATAGGTTGAAGATTGCAAATCCTATCTCCCTAAGTAGGAGTGGAACAGATCGAAGAC
* * * * * *
15269048 TACCAGTCTTATC-TCCCTGAA-GTTGCAGTGG-AGCAGACTGAAGATAGCAAATCTTATTTCCC
130 GACCAATCTTATCTTCCC--AATGTAGCAG-GGAAGCAGACTGAAGACA-CAAACCTTATCTCCC
*
15269110 TGAAGTTGCAGT
191 TGAAGTAGCAGT
15269122 AGAACAGATT
Statistics
Matches: 164, Mismatches: 32, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
218 4 0.02
219 23 0.14
220 129 0.79
221 8 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (221 bp):
AGATCTTGTCTTCCTATACTGGCAGTAAAGCAGATCGAAAGCACCAGCTTTATCTCCCTAAGCAG
CAGTGGAATAGGTTGAAGATTGCAAATCCTATCTCCCTAAGTAGGAGTGGAACAGATCGAAGACG
ACCAATCTTATCTTCCCAATGTAGCAGGGAAGCAGACTGAAGACACAAACCTTATCTCCCTGAAG
TAGCAGTGGAGTAGGTCGAAGATTGT
Found at i:15269117 original size:45 final size:44
Alignment explanation
Indices: 15268967--15269174 Score: 168
Period size: 44 Copynumber: 4.6 Consensus size: 44
15268957 AAAGCACCAG
** ** * * *
15268967 TCTTATCTCCCT-AAGCAGCAGTGGAATAGGTTGAGGATTGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAA
* * * * * * *
15269011 TCCTGTCTCCCT-AAGTAGGAGTGGAGCAGGTTGAAGATACCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
*
15269054 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAA
* * * *
15269099 TCTTATTTCCCTGAAGTTGCAGTAGAACAGATTGAAGCTAAATAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----AT-ACAAA
15269148 TCTTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
15269175 TGGATTAAAA
Statistics
Matches: 131, Mismatches: 26, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
43 13 0.10
44 53 0.40
45 35 0.27
49 29 0.22
50 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAA
Found at i:15269353 original size:44 final size:44
Alignment explanation
Indices: 15269303--15269412 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
15269293 CATATCAAAC
* * *
15269303 CTTATCTACCTGAAGTTGTAGTGGAACAGGTTAAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGATACCAAT
* * * *
15269347 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGATACCAAT
*
15269391 CCTATCTCCCTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
15269413 AGAGCGGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGATACCAAT
Found at i:15269436 original size:44 final size:44
Alignment explanation
Indices: 15269344--15269469 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
15269334 TAAAGATACC
* * * * * *
15269344 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACGACT
15269388 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACGA-T
1 AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACGACT
* *
15269431 GAATCCTATAC-CTCTGAAGTTGCAGTAGATCGGA-TAAAA
1 -AATCCTAT-CTCCCTGAAGTTGCAGTAGAGCGGATTAAAA
15269470 TTTACCATAA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
43 6 0.08
44 65 0.90
45 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACGACT
Found at i:15281506 original size:7 final size:7
Alignment explanation
Indices: 15281496--15281522 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
15281486 CAAAACATAA
15281496 AAAAAAG
1 AAAAAAG
15281503 AAAAAAG
1 AAAAAAG
15281510 AAAAAAG
1 AAAAAAG
15281517 AAAAAA
1 AAAAAA
15281523 AAAGAGGGCT
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:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:15281514 original size:17 final size:16
Alignment explanation
Indices: 15281494--15281527 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15281484 CACAAAACAT
*
15281494 AAAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAAG
15281510 AAAAAAGAAAAAAAAAG
1 AAAAAA-AAAAAAAAAG
15281527 A
1 A
15281528 GGGCTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:15282051 original size:40 final size:40
Alignment explanation
Indices: 15281963--15282081 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 40
15281953 ATTTTCCGTG
* ** ** *
15281963 AAATCGCGTTCACGTCAGCGCGATGTTAGGGTACGTGTCAAG
1 AAATCGCGTCCACGTCAGCGCGAT-TT-GCTTACGTGGAAAC
*
15282005 ACATCGCGTCCACGTCAGCGCGATTTGCTTACGTGGAAAC
1 AAATCGCGTCCACGTCAGCGCGATTTGCTTACGTGGAAAC
*
15282045 AAATCGCG-CCTACG--AGGACGCGATTTGCTGACGTGGA
1 AAATCGCGTCC-ACGTCA-G-CGCGATTTGCTTACGTGGA
15282082 TGAACAGTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 37 0.57
41 2 0.03
42 22 0.34
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
AAATCGCGTCCACGTCAGCGCGATTTGCTTACGTGGAAAC
Found at i:15285311 original size:47 final size:47
Alignment explanation
Indices: 15285258--15285429 Score: 170
Period size: 47 Copynumber: 3.7 Consensus size: 47
15285248 GCTTGACCAA
* * *
15285258 TGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTG
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
* ** *
15285305 TGGTTTAAT-CACAATGTATTCTAGTCGGTAGTCATCTAATCGACCAG
1 TGGTTT-ATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
* * * *
15285352 TGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATCTGCACGACCAT-
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACC-TG
* * * *
15285398 TGGTTTATGCACAACGCATTTTAGTCAGTAGT
1 TGGTTTATCCACAACGTATTCTAGTCGGTAGT
15285430 TGTGACACCC
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 38 0.37
47 63 0.61
48 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (47 bp):
TGGTTTATCCACAACGTATTCTAGTCGGTAGTCATCTGCTCGACCTG
Found at i:15285423 original size:93 final size:94
Alignment explanation
Indices: 15285252--15285429 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 94
15285242 TTATTTGCTT
* *
15285252 GACCAATGGTTTATCCACAACGTATTCTAGTCGGCAATCATCTGCTCCACCTGTGGTTTAATCAC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACCTGTGGTTTAATCAC
* * *
15285317 AATGTATTCTAGTCGGTAGTCATCTAATC
66 AACGCATTCTAGTCAGTAGTCATCTAATC
* * * * * *
15285346 GACCAGTGGTTTATCTAC-ACGTATTTTAGTCAGTAGTCATCTGCACGACCAT-TGGTTT-ATGC
1 GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACC-TGTGGTTTAAT-C
*
15285408 ACAACGCATTTTAGTCAGTAGT
64 ACAACGCATTCTAGTCAGTAGT
15285430 TGTGACACCC
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
92 2 0.03
93 51 0.73
94 17 0.24
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (94 bp):
GACCAATGGTTTATCCACAACGTATTCTAGTCAGCAATCATCTGCACCACCTGTGGTTTAATCAC
AACGCATTCTAGTCAGTAGTCATCTAATC
Found at i:15288232 original size:101 final size:101
Alignment explanation
Indices: 15288115--15288317 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
15288105 TGTATACATG
15288115 AAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATT
1 AAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATT
15288180 TTGATTTAGGATTTTATGAGATGAATGTGAATGTGT
66 TTGATTTAGGATTTTATGAGATGAATGTGAATGTGT
15288216 AAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATT
1 AAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATT
15288281 TTGATTTAGGATTTTATGAGATGAATGTGAATGTGT
66 TTGATTTAGGATTTTATGAGATGAATGTGAATGTGT
15288317 A
1 A
15288318 TATGTGTGAT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.34, C:0.01, G:0.24, T:0.41
Consensus pattern (101 bp):
AAAGTATATGTGGTATGTGAAGTATATTTGGATAATTGTGATGTGAATACATGAAAATTTATATT
TTGATTTAGGATTTTATGAGATGAATGTGAATGTGT
Found at i:15288312 original size:49 final size:49
Alignment explanation
Indices: 15288155--15288312 Score: 137
Period size: 49 Copynumber: 3.2 Consensus size: 49
15288145 GATAATTGTG
15288155 ATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGAGATGA
1 ATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGAGATGA
* * * * * * * *
15288204 ATGTGAAT--GTGTAAA-GTATATGTGGTATGTGAAGTATATTTGGAT-A-ATTGTG
1 ATGTGAATACATGAAAATTTATATTTTG-AT-T-TAGGAT-TTT--ATGAGA-TG-A
15288256 ATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGAGATGA
1 ATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGAGATGA
15288305 ATGTGAAT
1 ATGTGAAT
15288313 GTGTATATGT
Statistics
Matches: 80, Mismatches: 16, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
46 7 0.09
47 7 0.09
48 1 0.01
49 22 0.28
50 7 0.09
51 7 0.09
52 14 0.17
53 1 0.01
54 7 0.09
55 7 0.09
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.42
Consensus pattern (49 bp):
ATGTGAATACATGAAAATTTATATTTTGATTTAGGATTTTATGAGATGA
Found at i:15288348 original size:22 final size:22
Alignment explanation
Indices: 15288322--15288443 Score: 65
Period size: 23 Copynumber: 5.3 Consensus size: 22
15288312 TGTGTATATG
15288322 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
15288344 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
15288367 TGTGTAATAAGGCCGAATGGCCAA
1 TGTG--ATAAGGCCGAATGGCCAA
* * *
15288391 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
15288416 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
15288438 TGTGAT
1 TGTGAT
15288444 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 19 0.26
23 21 0.28
24 21 0.28
25 13 0.18
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:15288354 original size:47 final size:47
Alignment explanation
Indices: 15288300--15288490 Score: 310
Period size: 47 Copynumber: 4.1 Consensus size: 47
15288290 GATTTTATGA
** *
15288300 GATGAATGTGAATGTGTATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
15288347 GATGAATGTGAACATGCATATGTGTAATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
*
15288394 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
** *
15288441 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
15288488 GAT
1 GAT
15288491 AAACGTGGAA
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
Found at i:15288509 original size:94 final size:94
Alignment explanation
Indices: 15288307--15288536 Score: 311
Period size: 94 Copynumber: 2.4 Consensus size: 94
15288297 TGAGATGAAT
* *
15288307 GTGAATGTGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* * *
15288372 AATAAGGCCGAATGGCCAATGTGATGAAT
66 AATAAGGCAGAATGGCCAATGTGATAAAC
* *
15288401 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* * *
15288466 GATAAGGTAGAATGGCTAATGTGATAAAC
66 AATAAGGCAGAATGGCCAATGTGATAAAC
** *
15288495 GTGGAA-GTGTATATATGTGGCGAA-GCCGAATGGCTAATGTGA
1 GT-GAACGTGTATATATGT-GATAAGGCCGAATGGCCAATGTGA
15288537 GATATGTATG
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
94 113 0.95
95 6 0.05
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (94 bp):
GTGAACGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
AATAAGGCAGAATGGCCAATGTGATAAAC
Found at i:15290831 original size:31 final size:31
Alignment explanation
Indices: 15290793--15290856 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
15290783 TTTATACAGA
15290793 AAATTAAATCCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
*
15290824 AAATTAAATTCGACACTTCGATGCCGGTCCT
1 AAATTAAATCCGACACTTCGATGCCGGTCCT
15290855 AA
1 AA
15290857 TTTAGTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (31 bp):
AAATTAAATCCGACACTTCGATGCCGGTCCT
Found at i:15292698 original size:79 final size:79
Alignment explanation
Indices: 15292567--15292884 Score: 618
Period size: 79 Copynumber: 4.0 Consensus size: 79
15292557 CATCATTTTC
15292567 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
15292632 TTTTAAATGATTAT
66 TTTTAAATGATTAT
15292646 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
15292711 TTTTAAATGATTAT
66 TTTTAAATGATTAT
15292725 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
15292790 TTTTAAATGATTAT
66 TTTTAAATGATTAT
*
15292804 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTAAG
1 ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
*
15292869 TTTTAAACGATTAT
66 TTTTAAATGATTAT
15292883 AT
1 AT
15292885 TTAGATTTGA
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 237 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (79 bp):
ATCAAATTAGGGTAATATTCTGACTTTTTAGTATTAAATGAAGAGTGTTGTTAATTCAAATTGAG
TTTTAAATGATTAT
Found at i:15299658 original size:15 final size:16
Alignment explanation
Indices: 15299638--15299671 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
15299628 GATTCCAATA
*
15299638 AAATGTGATTG-CTGG
1 AAATGTAATTGTCTGG
15299653 AAATGTAATTGTCTGG
1 AAATGTAATTGTCTGG
15299669 AAA
1 AAA
15299672 GTTATTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (16 bp):
AAATGTAATTGTCTGG
Found at i:15299888 original size:5 final size:5
Alignment explanation
Indices: 15299880--15299941 Score: 72
Period size: 5 Copynumber: 12.2 Consensus size: 5
15299870 TGAAATTTTC
* * *
15299880 TCGAA TCGAG TCGAG T-GAGA TGGAA TTCGAA TCGAA TCGAA TCGAA TCGAA
1 TCGAA TCGAA TCGAA TCGA-A TCGAA T-CGAA TCGAA TCGAA TCGAA TCGAA
15299931 TCGAA TCGAA T
1 TCGAA TCGAA T
15299942 TAAATATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
4 2 0.04
5 43 0.84
6 6 0.12
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:15301743 original size:21 final size:21
Alignment explanation
Indices: 15301717--15301767 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
15301707 TTTTAGATTT
15301717 GTTTTGTTTTGCTAAATAGAA
1 GTTTTGTTTTGCTAAATAGAA
15301738 GTTTTGTTTTGCTAAATAGAA
1 GTTTTGTTTTGCTAAATAGAA
15301759 GTTTTGTTT
1 GTTTTGTTT
15301768 AAGTTAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.04, G:0.20, T:0.53
Consensus pattern (21 bp):
GTTTTGTTTTGCTAAATAGAA
Found at i:15302539 original size:21 final size:22
Alignment explanation
Indices: 15302509--15302558 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
15302499 ATCCCTGGTC
* *
15302509 CACACAGCCGTATGCCTCTA-T
1 CACACGGCCGTATGCCCCTATT
*
15302530 CACACGGCCGTGTGCCCCTATT
1 CACACGGCCGTATGCCCCTATT
15302552 CACACGG
1 CACACGG
15302559 GTGTTTGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (22 bp):
CACACGGCCGTATGCCCCTATT
Found at i:15304585 original size:28 final size:28
Alignment explanation
Indices: 15304543--15304683 Score: 122
Period size: 28 Copynumber: 5.0 Consensus size: 28
15304533 AAAATTCAAT
* *
15304543 GGTCATATTGC-AACGATCAGAGTCCAAC
1 GGTCATATT-CTAACGGTCAGATTCCAAC
* * *
15304571 GTTCATATTCTAACGGTTAGATTCCAAT
1 GGTCATATTCTAACGGTCAGATTCCAAC
* * * * *
15304599 GGCCATATTATAATGGTCAAATTCTAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
* *
15304627 AGTCATATTGTAACGGTCAGATTCCAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
* * **
15304655 GGTCATATTGTCACTATCAGATTCCAAC
1 GGTCATATTCTAACGGTCAGATTCCAAC
15304683 G
1 G
15304684 ACCATATTAT
Statistics
Matches: 89, Mismatches: 23, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
27 1 0.01
28 88 0.99
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (28 bp):
GGTCATATTCTAACGGTCAGATTCCAAC
Found at i:15304655 original size:14 final size:14
Alignment explanation
Indices: 15304543--15304663 Score: 71
Period size: 14 Copynumber: 8.6 Consensus size: 14
15304533 AAAATTCAAT
*
15304543 GGTCATATTGCAAC
1 GGTCATATTCCAAC
* * *
15304557 GATCAGAGTCCAAC
1 GGTCATATTCCAAC
* *
15304571 GTTCATATTCTAAC
1 GGTCATATTCCAAC
* * *
15304585 GGTTAGATTCCAAT
1 GGTCATATTCCAAC
* ** *
15304599 GGCCATATTATAAT
1 GGTCATATTCCAAC
* *
15304613 GGTCAAATTCTAAC
1 GGTCATATTCCAAC
* **
15304627 AGTCATATTGTAAC
1 GGTCATATTCCAAC
*
15304641 GGTCAGATTCCAAC
1 GGTCATATTCCAAC
15304655 GGTCATATT
1 GGTCATATT
15304664 GTCACTATCA
Statistics
Matches: 77, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 77 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (14 bp):
GGTCATATTCCAAC
Found at i:15310515 original size:18 final size:18
Alignment explanation
Indices: 15310494--15310528 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15310484 TTTGAAAGAG
*
15310494 TTGAGAGAATTAGGAGAT
1 TTGAAAGAATTAGGAGAT
*
15310512 TTGAAAGAATTGGGAGA
1 TTGAAAGAATTAGGAGA
15310529 ATAAGATGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (18 bp):
TTGAAAGAATTAGGAGAT
Found at i:15311741 original size:41 final size:41
Alignment explanation
Indices: 15311695--15311777 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
15311685 TGTCAAATTG
15311695 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
* * *
15311736 AAAGAGAATAGAGAATAATTCAATTCCAAATTGAAATAGGA
1 AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
15311777 A
1 A
15311778 TACAAAAGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.19
Consensus pattern (41 bp):
AAAGAGAAAAGAAAATAATTCAATTCCAAATGGAAATAGGA
Found at i:15311898 original size:15 final size:16
Alignment explanation
Indices: 15311865--15311919 Score: 87
Period size: 15 Copynumber: 3.5 Consensus size: 16
15311855 CTAATTTAAT
15311865 ATAAAATCAAAAATAAA
1 ATAAAAT-AAAAATAAA
15311882 ATAAAATAAAAAT-AA
1 ATAAAATAAAAATAAA
15311897 ATAAAAT-AAAATAAA
1 ATAAAATAAAAATAAA
15311912 ATAAAATA
1 ATAAAATA
15311920 TTTCTATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.14
15 18 0.50
16 6 0.17
17 7 0.19
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (16 bp):
ATAAAATAAAAATAAA
Found at i:15311900 original size:4 final size:5
Alignment explanation
Indices: 15311874--15311919 Score: 76
Period size: 5 Copynumber: 9.2 Consensus size: 5
15311864 TATAAAATCA
15311874 AAAAT AAAAT AAAAT AAAA- ATAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT A
15311920 TTTCTATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.03
5 37 0.95
6 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:15314780 original size:62 final size:62
Alignment explanation
Indices: 15314704--15314889 Score: 363
Period size: 62 Copynumber: 3.0 Consensus size: 62
15314694 TTTATCTTTG
15314704 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
1 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
15314766 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
1 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
*
15314828 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAATACGTGTGGA
1 CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
15314890 ATGATGATGA
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 123 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.40
Consensus pattern (62 bp):
CATTTTCAAGGTGATTCAGTGGGATTTATTCATTATCACCTATATATTGTAGTACGTGTGGA
Found at i:15317547 original size:12 final size:12
Alignment explanation
Indices: 15317530--15317554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15317520 TATGTTAGTC
15317530 TACTTTCGAGGT
1 TACTTTCGAGGT
15317542 TACTTTCGAGGT
1 TACTTTCGAGGT
15317554 T
1 T
15317555 TATGCACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (12 bp):
TACTTTCGAGGT
Found at i:15320263 original size:16 final size:16
Alignment explanation
Indices: 15320242--15320272 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15320232 TTTTTTTTTT
15320242 TGGGTGGGGGGGGTTC
1 TGGGTGGGGGGGGTTC
*
15320258 TGGGTGGGGTGGGTT
1 TGGGTGGGGGGGGTT
15320273 GCAATCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.03, G:0.68, T:0.29
Consensus pattern (16 bp):
TGGGTGGGGGGGGTTC
Found at i:15321495 original size:19 final size:19
Alignment explanation
Indices: 15321471--15321509 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
15321461 CTTCTTCACC
15321471 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
15321490 TATAAAATCAACATTGTAG
1 TATAAAATCAACATTGTAG
15321509 T
1 T
15321510 CAAACTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (19 bp):
TATAAAATCAACATTGTAG
Found at i:15324907 original size:12 final size:12
Alignment explanation
Indices: 15324890--15324915 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15324880 AACCCGAATA
15324890 TAATTTCTAATT
1 TAATTTCTAATT
15324902 TAATTTCTAATT
1 TAATTTCTAATT
15324914 TA
1 TA
15324916 TTTAGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTCTAATT
Found at i:15326541 original size:3 final size:3
Alignment explanation
Indices: 15326527--15326595 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
15326517 GAGTGCCGAA
* * *
15326527 AAT AAT AA- AAT AAT AAT AA- AAT AAT AAG AAT AAA AATT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * *
15326571 AA- AAT AAT AAT GAC AAC AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
15326596 ATGAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
2 6 0.12
3 44 0.85
4 2 0.04
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:15326543 original size:11 final size:11
Alignment explanation
Indices: 15326527--15326596 Score: 59
Period size: 11 Copynumber: 5.8 Consensus size: 11
15326517 GAGTGCCGAA
15326527 AATAATAAAAT
1 AATAATAAAAT
15326538 AATAATAAAAT
1 AATAATAAAAT
15326549 AATAAGAATAAAAATT
1 AAT---AAT-AAAA-T
*
15326565 AAAAATAAAAT
1 AATAATAAAAT
* *
15326576 AATAATGACAAC
1 AATAAT-AAAAT
15326588 AATAATAAA
1 AATAATAAA
15326597 TGAATAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
11 22 0.46
12 13 0.27
13 3 0.06
14 3 0.06
15 4 0.08
16 3 0.06
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:15326597 original size:27 final size:27
Alignment explanation
Indices: 15326533--15326597 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
15326523 CGAAAATAAT
*
15326533 AAAATAAT-AATAAAATAATAAGAATA
1 AAAATAATAAATAAAATAATAAGAACA
15326559 AAAATTAA-AAATAAAATAATAATG-ACA
1 AAAA-TAATAAATAAAATAATAA-GAACA
*
15326586 ACAATAATAAAT
1 AAAATAATAAAT
15326598 GAATAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 7 0.21
27 25 0.76
28 1 0.03
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (27 bp):
AAAATAATAAATAAAATAATAAGAACA
Found at i:15326680 original size:5 final size:5
Alignment explanation
Indices: 15326670--15326694 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15326660 AAGAAATAAT
15326670 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
15326695 GTTTGTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:15328213 original size:44 final size:44
Alignment explanation
Indices: 15328141--15328684 Score: 177
Period size: 44 Copynumber: 11.9 Consensus size: 44
15328131 ACATTTCAAC
* **
15328141 CCACTGCAACTTCAGGG-GTATAAGATTTGCCGCTTTAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTTAATCTACT
* * *
15328185 CCACTGCAACTTCAGGGAGATAAAATTTGTGGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
* * * * *
15328229 CCACTGCAACTTTAGGGAGATGATTTGTAACTTGTAGCTTTAGTCTATT
1 CCACTGCAACTTCAGGGAGAT-A----AAATTTGTAGCTTTAATCTACT
* * *
15328278 CCACTGCAACTTCAGGGAGATAAGACTTGCTATGGTAGATTTAATCCGA-T
1 CCACTGCAACTTCAGGGAGATAA-A-AT--T-T-GTAGCTTTAAT-CTACT
* * ** ** * * *
15328328 CTACTG-AACCTCA-AAAGTATAGGACTTATCG-TTTCAATCTACT
1 CCACTGCAACTTCAGGGAG-ATAAAATTTGTAGCTTT-AATCTACT
* * * * * * * *
15328371 CAACTGCAACTTTAAGGAGATAAGATCTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
* * **
15328415 CCACTGCAACTTCAGGGAGATAAGATTTGTAATTTATAGTTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGAT-A-A-----AATTTGTAGCTTTAATCTACT
* * * * *** **
15328466 TCACTACAACTTCAGGGAAATAAGATCCACTA--TTGTCAGCCTACT
1 CCACTGCAACTTCAGGGAGATAAAAT-TTGTAGCTT-T-AATCTACT
* * * * * * *
15328511 CCACTGCAACTTCAAGGAGATAAAACTTGCAACTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
** * * *
15328555 CCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
** * * * ** * *
15328599 ATACTGCAACTTTAGAGAGATAAGATTTGCTATTTTTGATCTATT
1 CCACTGCAACTTCAGGGAGATAAAATTTG-TAGCTTTAATCTACT
* * *
15328644 CCACTGTAATTTCAGAGAGATAAAATTTGT-GACTTTAATCT
1 CCACTGCAACTTCAGGGAGATAAAATTTGTAG-CTTTAATCT
15328685 TTTCCACTAT
Statistics
Matches: 358, Mismatches: 109, Indels: 66
0.67 0.20 0.12
Matches are distributed among these distances:
42 5 0.01
43 13 0.04
44 170 0.47
45 67 0.19
46 3 0.01
48 4 0.01
49 46 0.13
50 16 0.04
51 34 0.09
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAAATTTGTAGCTTTAATCTACT
Found at i:15348049 original size:239 final size:240
Alignment explanation
Indices: 15347625--15348069 Score: 849
Period size: 239 Copynumber: 1.9 Consensus size: 240
15347615 GCAATCCAAG
15347625 AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
1 AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
15347690 AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
66 AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
*
15347755 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGTACACTGCAAGTTACAA
131 GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
15347820 CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
196 CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
15347865 AACTGGGTTTGAAATT-GCAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
1 AACTGGGTTTGAAATTAG-AGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCC
*
15347929 CGAAGATTGAT-AAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
65 CAAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCA
15347993 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
130 TGGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACA
15348058 ACATCTATCCAT
195 ACATCTATCCAT
15348070 ACTAATACTG
Statistics
Matches: 202, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
239 130 0.64
240 72 0.36
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (240 bp):
AACTGGGTTTGAAATTAGAGCAAGTCAATTTGAACATCGCCCAAGTATATTTTAGAGCAAAGCCC
AAAGATTGATAAAAGAGCTAAGCAATGTGGGTTAAAATAATTTCTTTGCCATACTCAGTTTCCAT
GGAAGAACTATGAGCAAAACAACAAATATATTTCTATTGCTGCAAATGCACACTGCAAGTTACAA
CATCTATCCATGGAAGAACTATGATAAATCAAGTTACATTTGACT
Found at i:15363894 original size:20 final size:20
Alignment explanation
Indices: 15363862--15363901 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15363852 TAAAATTATT
*
15363862 ATTTTATGGTTTTATTTAAG
1 ATTTTATGGTTTTAATTAAG
15363882 ATTTT-TGGTTTTTAATTAAG
1 ATTTTATGG-TTTTAATTAAG
15363902 GGTGTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
ATTTTATGGTTTTAATTAAG
Found at i:15371594 original size:114 final size:113
Alignment explanation
Indices: 15371334--15371693 Score: 363
Period size: 114 Copynumber: 3.2 Consensus size: 113
15371324 CCGAACATTA
* *
15371334 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCAGCGTTTTTGAGA
1 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCGTTTTAGAGA
* * * * *
15371399 A-AG-TGCCACAAAAACCTAAGCTCAACGACGCTGTTTTCTAGGCTTTC
66 AGAGCCG-CAAAAAAACCTAAGCCCAACGACACCGTTTTCTAGGCTTTC
** * * *
15371446 GAGGG-TTTAGCGGCGTTTTTATCAATGCGCCGCTAATGTTCAGGGCTTTAGCGGCGCTTTTAAA
1 G-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCG-TTTTAGA
*
15371510 GAAGAGCCGCAAAAAAACCTAAGCCCAACGACACCG-TTTCT-GAGCTTTTT
64 GAAGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAG-GC-TTTC
* * * * ** * *
15371560 GGGGATTTAGTGGCATTTTTAAGGAAGCGTCGCTAATACTCATGGCCTTAGCGGCGTTTTTGGAG
1 GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCG-TTTTAGAG
* * * * * *
15371625 AAGCGCCACAAAAAAACCTAAGCCCAACGACGCC-ATTTCGAGAGATTTC
65 AAGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAG-GCTTTC
*
15371674 GGGGATCTAGCGGCGTTTTT
1 GGGGATTTAGCGGCGTTTTT
15371694 TGTGTAGCGC
Statistics
Matches: 203, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
112 48 0.24
113 21 0.10
114 130 0.64
115 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (113 bp):
GGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCATGGCTTTAGCGGCGTTTTAGAGA
AGAGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTAGGCTTTC
Found at i:15371777 original size:74 final size:72
Alignment explanation
Indices: 15371607--15371780 Score: 181
Period size: 73 Copynumber: 2.4 Consensus size: 72
15371597 ACTCATGGCC
* *
15371607 TTAGCGGCGTTTTTGGAGAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATT
1 TTAGCGGCGTTTTTTGA-AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATT
15371672 TCGGGGAT
65 TCGGGGAT
* ** * * * *
15371680 CTAGCGGCGTTTTTTGTGTAGCGCCGCAATAAAAA-CTAAGCCCAACGACGCCGTTTTC-TGTGC
1 TTAGCGGCGTTTTTTG-AAAGCGCCGCAA-AAAAACCTAAGCCCAACGACGCC-ATTTCGAGAGA
*
15371743 TTTTGGTGGAT
63 TTTCGG-GGAT
*
15371754 TTAGCGGTGTTTTTATGAAAGCGCCGC
1 TTAGCGGCGTTTTT-TGAAAGCGCCGC
15371781 TAATGCTCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
73 47 0.57
74 33 0.40
75 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTTGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTCGAGAGATTT
CGGGGAT
Found at i:15372081 original size:18 final size:18
Alignment explanation
Indices: 15372058--15372101 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
15372048 GTTATGCTTT
15372058 AGGGGTTAGGGGATTTAG
1 AGGGGTTAGGGGATTTAG
15372076 AGGGGTTAGGGGATTTAG
1 AGGGGTTAGGGGATTTAG
15372094 AGGGGTTA
1 AGGGGTTA
15372102 AGGGTTAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (18 bp):
AGGGGTTAGGGGATTTAG
Found at i:15372965 original size:30 final size:32
Alignment explanation
Indices: 15372929--15372989 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
15372919 TTATTATTGG
*
15372929 ATAAAAAAAT-ACATTT-TTATACCAAATTTT
1 ATAAAAAAATAAAATTTATTATACCAAATTTT
*
15372959 ATAAAAAGATAAAATTTATTATACCAAATTT
1 ATAAAAAAATAAAATTTATTATACCAAATTT
15372990 CATCCGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 9 0.33
31 5 0.19
32 13 0.48
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (32 bp):
ATAAAAAAATAAAATTTATTATACCAAATTTT
Found at i:15373248 original size:21 final size:21
Alignment explanation
Indices: 15373222--15373267 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
15373212 GTTAGGGTAA
*
15373222 TTTAGGGTTTAGGGGTTATGC
1 TTTAGGGGTTAGGGGTTATGC
15373243 TTTAGGGGTTAGGGGTTATGC
1 TTTAGGGGTTAGGGGTTATGC
15373264 TTTA
1 TTTA
15373268 AGGATTAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (21 bp):
TTTAGGGGTTAGGGGTTATGC
Found at i:15373288 original size:31 final size:29
Alignment explanation
Indices: 15373251--15373321 Score: 88
Period size: 31 Copynumber: 2.4 Consensus size: 29
15373241 GCTTTAGGGG
*
15373251 TTAGGGGTTATGCTTTAAGGATTAAGGGGAT
1 TTAGGGGTTATGCGTTAAGGATT--GGGGAT
* * *
15373282 TTAGGGGTTATGGGTTAGGGATTTGGGAT
1 TTAGGGGTTATGCGTTAAGGATTGGGGAT
15373311 TTAGGGGTTAT
1 TTAGGGGTTAT
15373322 TAATTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 16 0.44
31 20 0.56
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.38
Consensus pattern (29 bp):
TTAGGGGTTATGCGTTAAGGATTGGGGAT
Found at i:15375044 original size:16 final size:16
Alignment explanation
Indices: 15375023--15375134 Score: 83
Period size: 16 Copynumber: 7.0 Consensus size: 16
15375013 AAGGGAAAAA
15375023 GCTGGAATATATACTT
1 GCTGGAATATATACTT
*
15375039 GCTGGAATATATTCCAGTT
1 GCTGGAATATA-T--ACTT
15375058 GCT-GAA-ATATACTT
1 GCTGGAATATATACTT
*
15375072 GCTGG-A-ATATA-TG
1 GCTGGAATATATACTT
**
15375085 GC-CAAATATATACTT
1 GCTGGAATATATACTT
*
15375100 GCTGGAATATATTCCAGTT
1 GCTGGAATATA-T--ACTT
15375119 GCTGGAATATATACTT
1 GCTGGAATATATACTT
15375135 TACTAAAATC
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
13 4 0.05
14 17 0.23
15 4 0.05
16 21 0.28
17 5 0.07
18 4 0.05
19 20 0.27
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (16 bp):
GCTGGAATATATACTT
Found at i:15375072 original size:33 final size:34
Alignment explanation
Indices: 15375027--15375134 Score: 140
Period size: 28 Copynumber: 3.4 Consensus size: 34
15375017 GAAAAAGCTG
15375027 GAATATATACTTGCTGGAATATATTCCAGTTGCT
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
*
15375061 GAA-ATATACTTGCTGGAATATA-T---G--GCC
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
*
15375088 AAATATATACTTGCTGGAATATATTCCAGTTGCT
1 GAATATATACTTGCTGGAATATATTCCAGTTGCT
15375122 GGAATATATACTT
1 -GAATATATACTT
15375135 TACTAAAATC
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
27 4 0.06
28 19 0.31
29 2 0.03
32 2 0.03
33 19 0.31
34 5 0.08
35 11 0.18
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (34 bp):
GAATATATACTTGCTGGAATATATTCCAGTTGCT
Found at i:15376582 original size:47 final size:47
Alignment explanation
Indices: 15376525--15376832 Score: 598
Period size: 47 Copynumber: 6.6 Consensus size: 47
15376515 AAAAAATGCA
* *
15376525 ATATTCTTAAGCATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376572 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376619 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376666 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376713 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376760 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
1 ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
15376807 ATATTTTTAAGTATATATTACATTAC
1 ATATTTTTAAGTATATATTACATTAC
15376833 ATTCTTAAGT
Statistics
Matches: 259, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 259 1.00
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.44
Consensus pattern (47 bp):
ATATTTTTAAGTATATATTACATTACTTACATTACTTACCGAAATAT
Found at i:15376808 original size:33 final size:33
Alignment explanation
Indices: 15376771--15376882 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 33
15376761 TATTTTTAAG
15376771 TATATATTACATTACTTACATTACTTACCGAAA
1 TATATATTACATTACTTACATTACTTACCGAAA
* ** *
15376804 TATATATTTTTA-AGTATATATTACATTACATT-CTTAAG
1 TATATA---TTACA-T-TA-CTTACATTAC-TTACCGAAA
15376842 TATATATTACATTACTTACATTACTTACCGAAA
1 TATATATTACATTACTTACATTACTTACCGAAA
15376875 TATATATT
1 TATATATT
15376883 TTTAAGTATA
Statistics
Matches: 62, Mismatches: 8, Indels: 18
0.70 0.09 0.20
Matches are distributed among these distances:
32 2 0.03
33 26 0.42
34 2 0.03
35 5 0.08
36 5 0.08
37 2 0.03
38 18 0.29
39 2 0.03
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (33 bp):
TATATATTACATTACTTACATTACTTACCGAAA
Found at i:15376882 original size:71 final size:71
Alignment explanation
Indices: 15376766--15376903 Score: 276
Period size: 71 Copynumber: 1.9 Consensus size: 71
15376756 ATATATATTT
15376766 TTAAGTATATATTACATTACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACATT
1 TTAAGTATATATTACATTACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACATT
15376831 ACATTC
66 ACATTC
15376837 TTAAGTATATATTACATTACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACATT
1 TTAAGTATATATTACATTACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACATT
15376902 AC
66 AC
15376904 TTACATTACT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.45
Consensus pattern (71 bp):
TTAAGTATATATTACATTACTTACATTACTTACCGAAATATATATTTTTAAGTATATATTACATT
ACATTC
Found at i:15377013 original size:49 final size:49
Alignment explanation
Indices: 15376953--15377061 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
15376943 TAATATTATA
*
15376953 CATAACATACATAA-TACACATAACTTA-ATAATTTTAAAATATATCATTC
1 CATAACTTACATAACT-CA-ATAACTTACATAATTTTAAAATATATCATTC
* * *
15377002 CATAATTTACATAACTTAATAATTTACATAATTTTAAAATATATCATTC
1 CATAACTTACATAACTCAATAACTTACATAATTTTAAAATATATCATTC
15377051 CATAACTTACA
1 CATAACTTACA
15377062 AATTAATATT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
48 7 0.13
49 45 0.85
50 1 0.02
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.38
Consensus pattern (49 bp):
CATAACTTACATAACTCAATAACTTACATAATTTTAAAATATATCATTC
Found at i:15377025 original size:17 final size:17
Alignment explanation
Indices: 15377003--15377108 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
15376993 ATATCATTCC
15377003 ATAATTTACATAACTTA
1 ATAATTTACATAACTTA
*
15377020 ATAATTTACATAATTTTA
1 ATAATTTACATAA-CTTA
* **
15377038 A-AATATATCAT---TCC
1 ATAATTTA-CATAACTTA
*
15377052 ATAACTTACA-AA-TTA
1 ATAATTTACATAACTTA
15377067 AT-ATTATACATAACTTA
1 ATAATT-TACATAACTTA
15377084 CATAATTTACATAACTTA
1 -ATAATTTACATAACTTA
15377102 ATAATTT
1 ATAATTT
15377109 TAAAATATAT
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.09
15 11 0.16
16 2 0.03
17 28 0.40
18 20 0.29
19 3 0.04
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAATTTACATAACTTA
Done.