Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 156 of 335
Found at i:45752595 original size:39 final size:38
Alignment explanation
Indices: 45752536--45752652 Score: 182
Period size: 39 Copynumber: 3.1 Consensus size: 38
45752526 TGTGAATATA
*
45752536 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATAAGCGAGAATTATATCCGGACTT-AGGTCCGCAGGC
*
45752575 TATAAGCGAGAATTATATCCGGACTTATGTCCGCA-GC
1 TATAAGCGAGAATTATATCCGGACTTAGGTCCGCAGGC
*
45752612 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATAAGCGAGAATTATATCCGGAC-TTAGGTCCGCAGGC
45752651 TA
1 TA
45752653 CGTGCTGGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
37 25 0.35
38 18 0.25
39 29 0.40
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (38 bp):
TATAAGCGAGAATTATATCCGGACTTAGGTCCGCAGGC
Found at i:45752623 original size:37 final size:37
Alignment explanation
Indices: 45752536--45752648 Score: 172
Period size: 37 Copynumber: 3.0 Consensus size: 37
45752526 TGTGAATATA
*
45752536 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATAAGCGAGAATTATATCCGGACTT-AGGTCCGCA-GC
*
45752575 TATAAGCGAGAATTATATCCGGACTTATGTCCGCAGC
1 TATAAGCGAGAATTATATCCGGACTTAGGTCCGCAGC
*
45752612 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAG
1 TATAAGCGAGAATTATATCCGGAC-TTAGGTCCGCAG
45752649 GCTACGTGCT
Statistics
Matches: 69, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
37 25 0.36
38 19 0.28
39 25 0.36
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (37 bp):
TATAAGCGAGAATTATATCCGGACTTAGGTCCGCAGC
Found at i:45760781 original size:39 final size:39
Alignment explanation
Indices: 45760646--45760769 Score: 203
Period size: 39 Copynumber: 3.2 Consensus size: 39
45760636 TGTGAATATA
*
45760646 TATACGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
45760685 TATAAGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
45760724 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
45760763 TACATGC
1 TATATGC
45760770 TGGACATATA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:45761143 original size:2 final size:2
Alignment explanation
Indices: 45761138--45761185 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
45761128 TGTTAGTGTG
45761138 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45761180 TA TA TA
1 TA TA TA
45761186 CGTAATTTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45763005 original size:52 final size:52
Alignment explanation
Indices: 45762908--45763025 Score: 131
Period size: 52 Copynumber: 2.3 Consensus size: 52
45762898 TCATTTTTTT
* *
45762908 TAATTTTAAAATATTAAAAAAATATTTTTTTATAACTTTTATACTTTTTAAA
1 TAATTTTAAAATATTAAAAAAATATATTTTTATAACTTTTATACTTTTAAAA
* *
45762960 TAATTTTAATGAT-TTAAAAAAATA-ATTTTTAT-ACTTTTTTTTACTTTTAAAA
1 TAATTTTAA-AATATTAAAAAAATATATTTTTATAAC--TTTTATACTTTTAAAA
45763012 T--TTTTAAAA-ATTAA
1 TAATTTTAAAATATTAA
45763026 TTAAACGTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
49 5 0.09
50 8 0.14
51 7 0.12
52 35 0.61
53 2 0.04
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (52 bp):
TAATTTTAAAATATTAAAAAAATATATTTTTATAACTTTTATACTTTTAAAA
Found at i:45763142 original size:8 final size:8
Alignment explanation
Indices: 45763115--45763157 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
45763105 TAACTTGACA
45763115 AAAAAATT
1 AAAAAATT
* **
45763123 TAAATTTT
1 AAAAAATT
45763131 AAAAAATT
1 AAAAAATT
45763139 AAAAAATT
1 AAAAAATT
45763147 -AAAAATT
1 AAAAAATT
45763154 AAAA
1 AAAA
45763158 TAAATTTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAAATT
Found at i:45764839 original size:19 final size:19
Alignment explanation
Indices: 45764815--45764853 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45764805 GATTAACGTT
45764815 AGTTAATTATA-ATTAATTA
1 AGTTAATTA-AGATTAATTA
45764834 AGTTAATTAAGATTAATTA
1 AGTTAATTAAGATTAATTA
45764853 A
1 A
45764854 TTATTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
AGTTAATTAAGATTAATTA
Found at i:45767141 original size:13 final size:13
Alignment explanation
Indices: 45767102--45767165 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
45767092 AGTTCTTCAT
45767102 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
45767115 TGC-TGTGTAAAAG
1 TGCTTTTG-AAAAG
*
45767128 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
45767141 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
45767154 TGCTTTGGAAAA
1 TGCTTTTGAAAA
45767166 ATTTAAGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:45779429 original size:17 final size:17
Alignment explanation
Indices: 45779390--45779440 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
45779380 ACAAAAAATA
45779390 TGAGCTCAACAAA-TCTG
1 TGAGCTCAACAAAGT-TG
* *
45779407 TAAGCTCATCAAAGTTG
1 TGAGCTCAACAAAGTTG
*
45779424 TGAGCTCACCAAAGTTG
1 TGAGCTCAACAAAGTTG
45779441 CAAAGTCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 28 0.97
18 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (17 bp):
TGAGCTCAACAAAGTTG
Found at i:45783871 original size:49 final size:49
Alignment explanation
Indices: 45783818--45783911 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 49
45783808 GTTCTGAATA
** * *
45783818 GTTGGAAATGGTTGGGTTTGATATCTGAGAAATGGTGTTTGAAATAATG
1 GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAATAATG
*** *
45783867 GTTGGGTTTGAATGTGCTTGATACCTGAGAAATGGTGTTTGAAAT
1 GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAAT
45783912 TGTCTAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 37 1.00
ACGTcount: A:0.27, C:0.04, G:0.32, T:0.37
Consensus pattern (49 bp):
GTTGGAAATGAATGGGCTTGATACCTGAGAAATGGTGTTTGAAATAATG
Found at i:45786884 original size:25 final size:25
Alignment explanation
Indices: 45786855--45786921 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
45786845 TATGTTTCTT
45786855 ATGAGCTTCCTGTTATACAGCTCGA-
1 ATGAGCTTCCTGTTATACAGCTC-AC
* * **
45786880 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCTGTTATACAGCTCAC
*
45786905 ATGAGATTCCTGTTATA
1 ATGAGCTTCCTGTTATA
45786922 TCGCTTGACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTATACAGCTCAC
Found at i:45788663 original size:2 final size:2
Alignment explanation
Indices: 45788656--45788692 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
45788646 TCATATCCAT
45788656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45788693 CAAGCAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45792732 original size:573 final size:573
Alignment explanation
Indices: 45791644--45793094 Score: 2893
Period size: 573 Copynumber: 2.5 Consensus size: 573
45791634 TTTTGGATAA
45791644 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
1 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
45791709 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
66 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
45791774 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
131 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
45791839 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
196 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
45791904 TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTTATTGGTATCAGAGCCAC
261 TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTTATTGGTATCAGAGCCAC
45791969 GGTTTAGTCGATTCTAGGACTACCGTGATGTGTTTAGGGTCTAGCTATACATGCCATTAAATGAT
326 GGTTTAGTCGATTCTAGGACTACCGTGATGTGTTTAGGGTCTAGCTATACATGCCATTAAATGAT
45792034 GAATCGATAGTGTGGTGATTTCTGACAATTTGACTTTGTATTTGTTTATAGCAATGGATCCCGAT
391 GAATCGATAGTGTGGTGATTTCTGACAATTTGACTTTGTATTTGTTTATAGCAATGGATCCCGAT
45792099 CCCAACCGAGCGATAGCTGATGATGTGGAGAGTGTGGCGCCTGCTCCCGCGCAAGGGACAACGCC
456 CCCAACCGAGCGATAGCTGATGATGTGGAGAGTGTGGCGCCTGCTCCCGCGCAAGGGACAACGCC
45792164 GGCGGACTCTCAACCTATGGCCAGCAATCCTAATGACGAGGCTAAGCAAGCCT
521 GGCGGACTCTCAACCTATGGCCAGCAATCCTAATGACGAGGCTAAGCAAGCCT
45792217 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
1 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
45792282 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
66 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
45792347 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
131 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
45792412 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
196 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
45792477 TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTTATTGGTATCAGAGCCAC
261 TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTTATTGGTATCAGAGCCAC
45792542 GGTTTAGTCGATTCTAGGACTACCGTGATGTGTTTAGGGTCTAGCTATACATGCCATTAAATGAT
326 GGTTTAGTCGATTCTAGGACTACCGTGATGTGTTTAGGGTCTAGCTATACATGCCATTAAATGAT
45792607 GAATCGATAGTGTGGTGATTTCTGACAATTTGACTTTGTATTTGTTTATAGCAATGGATCCCGAT
391 GAATCGATAGTGTGGTGATTTCTGACAATTTGACTTTGTATTTGTTTATAGCAATGGATCCCGAT
45792672 CCCAACCGAGCGATAGCTGATGATGTGGAGAGTGTGGCGCCTGCTCCCGCGCAAGGGACAACGCC
456 CCCAACCGAGCGATAGCTGATGATGTGGAGAGTGTGGCGCCTGCTCCCGCGCAAGGGACAACGCC
45792737 GGCGGACTCTCAACCTATGGCCAGCAATCCTAATGACGAGGCTAAGCAAGCCT
521 GGCGGACTCTCAACCTATGGCCAGCAATCCTAATGACGAGGCTAAGCAAGCCT
45792790 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
1 TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
45792855 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
66 CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
45792920 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
131 TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
45792985 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
196 TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
*
45793050 TCGGGCCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAAT
261 TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAAT
45793095 ATAGAACTTA
Statistics
Matches: 877, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
573 877 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (573 bp):
TTTATAGTGTGATGAACGAATGGTTTAATCAATACATTCGAACCAACACGGCTGTTCCACAACCT
CCATTCCCGACAAATGCAACCCCCGCACCTACAATACCTCCGGTGACTGACCAAATAAGGTCAAG
TAAGCCCCCAGTCGATAGGATTCGAAAACATGGGGCCACTGAATTTAAGGCGACAGTGACGCAGT
TTTCCAGCCTGACTGGAAATGTCAAATTGGTGGGCAAAAACATGTGAACTTGGCTTGTTAACCCC
TCGGGTCCGACACCGGCGATGGTCTCGGGTTTGGGGTGTTACAATTTTATTGGTATCAGAGCCAC
GGTTTAGTCGATTCTAGGACTACCGTGATGTGTTTAGGGTCTAGCTATACATGCCATTAAATGAT
GAATCGATAGTGTGGTGATTTCTGACAATTTGACTTTGTATTTGTTTATAGCAATGGATCCCGAT
CCCAACCGAGCGATAGCTGATGATGTGGAGAGTGTGGCGCCTGCTCCCGCGCAAGGGACAACGCC
GGCGGACTCTCAACCTATGGCCAGCAATCCTAATGACGAGGCTAAGCAAGCCT
Found at i:45801830 original size:40 final size:40
Alignment explanation
Indices: 45801785--45801951 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
45801775 CGGAATATAA
45801785 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
45801825 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
45801865 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
45801905 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
45801944 CCGGATAT
1 CCGGATAT
45801952 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:45801935 original size:80 final size:79
Alignment explanation
Indices: 45801801--45801951 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
45801791 ATAATCACGT
*
45801801 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
45801866 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
45801881 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
45801944 CCGGATAT
64 CCGGATAT
45801952 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:45807755 original size:25 final size:25
Alignment explanation
Indices: 45807677--45807758 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
45807667 TGGCTCTTAT
**
45807677 GAGCTTCCCATTACACAGCTCGA-A
1 GAGCTTCCCATTACATGGCTCGACA
*
45807701 TGAGCTTCCCATTACATGACTC-AC-
1 -GAGCTTCCCATTACATGGCTCGACA
* *
45807725 GAGCTTCCTATTATATGGCTCGACA
1 GAGCTTCCCATTACATGGCTCGACA
45807750 GAGCTTCCC
1 GAGCTTCCC
45807759 GTTAGTGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 18 0.38
24 3 0.06
25 26 0.55
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (25 bp):
GAGCTTCCCATTACATGGCTCGACA
Found at i:45813163 original size:79 final size:80
Alignment explanation
Indices: 45813027--45813232 Score: 254
Period size: 79 Copynumber: 2.6 Consensus size: 80
45813017 CAATTAATGA
* * ** * *
45813027 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
45813092 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
45813105 TAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCA
1 T-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCA
* * *
45813170 TTTGTGCAAGTCGTTC
65 ATTATGCAAGTCGTAC
* * *
45813186 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
45813233 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 1 0.01
79 63 0.57
80 44 0.40
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:45813217 original size:40 final size:39
Alignment explanation
Indices: 45813026--45813232 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
45813016 GCAATTAATG
* * ** *
45813026 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
45813066 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
45813106 A-ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
45813145 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
45813185 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
45813225 ATATCCGG
1 ATATCCGG
45813233 TTGTATTCCG
Statistics
Matches: 143, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.21
40 107 0.75
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:45821116 original size:40 final size:39
Alignment explanation
Indices: 45821059--45821243 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 39
45821049 ATTAAATGAT
* * *
45821059 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
* * * *
45821099 ATCCGGGTTAAGACCCGAAGGCAATTATGCTAGTGACTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTG-TTAA
**
45821139 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAG-TGTTAA
* * **
45821179 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGT-GTTAA
45821219 ATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATT
45821244 CGTGCATGTG
Statistics
Matches: 126, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 122 0.97
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (39 bp):
ATCCGGGCTAAGACCCGAAGGCATTTATGCAAGTGTTAA
Found at i:45821195 original size:80 final size:80
Alignment explanation
Indices: 45821058--45821264 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
45821048 AATTAAATGA
* * ** * *
45821058 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTTAAATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
*
45821123 TTATGCTAGT-G-AC
66 TTATGCAAGTCGTAC
* *
45821136 TAAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGC
* * *
45821201 ATTTGTGCAAGTCGTTC
64 AATTATGCAAGTCGTAC
* * *
45821218 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGG
45821265 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
80 106 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTAAATCCGGGCTAAGACCCGAAGGCAA
TTATGCAAGTCGTAC
Found at i:45821249 original size:40 final size:39
Alignment explanation
Indices: 45821057--45821264 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
45821047 CAATTAAATG
* * ** *
45821057 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* * * * *
45821097 AAATCCGGGTTAAGACCCGAAGGCAATT-ATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTG-TT
*
45821137 AAATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAG-TGTT
* * *
45821177 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
* *
45821217 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGT-GTT
45821257 ATATCCGG
1 ATATCCGG
45821265 TTGTATTCCG
Statistics
Matches: 145, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 5 0.03
40 135 0.93
41 5 0.03
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGTT
Found at i:45823204 original size:15 final size:15
Alignment explanation
Indices: 45823169--45823198 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45823159 AAATAAAAAT
45823169 AAATAAAACATGACA
1 AAATAAAACATGACA
45823184 AAATAAAA-ATGACA
1 AAATAAAACATGACA
45823198 A
1 A
45823199 TGATAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.70, C:0.10, G:0.07, T:0.13
Consensus pattern (15 bp):
AAATAAAACATGACA
Found at i:45823431 original size:24 final size:24
Alignment explanation
Indices: 45823404--45823481 Score: 63
Period size: 27 Copynumber: 3.2 Consensus size: 24
45823394 AATAACTAAT
45823404 AATAATGATATATAAATATATACA
1 AATAATGATATATAAATATATACA
*
45823428 AAT-ATG-TAT-TAAAATATATACGT
1 AATAATGATATAT-AAATATATAC-A
* *
45823451 AATAATAGAAATAAAAAATATATACA
1 AATAAT-GATAT-ATAAATATATACA
45823477 TAATA
1 -AATA
45823482 TATACATACT
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
21 1 0.02
22 13 0.31
23 6 0.14
24 5 0.12
25 1 0.02
26 2 0.05
27 14 0.33
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (24 bp):
AATAATGATATATAAATATATACA
Found at i:45823772 original size:50 final size:46
Alignment explanation
Indices: 45823705--45823817 Score: 113
Period size: 50 Copynumber: 2.3 Consensus size: 46
45823695 AATAGTATTG
*
45823705 AGTATTAAAAGTATACAT-ATAATATAGACAAAAATATATGCATAATGT
1 AGTATTAAAAGTATACATGATAATAT--A-AAAAATATATGAATAATGT
*
45823753 AGTATTGAAAGTATTTACATGGGATAATATAAAAAATATATGAATAATGT
1 AGTATTAAAAGTA--TACAT--GATAATATAAAAAATATATGAATAATGT
*
45823803 -GATATTAAAAATATA
1 AG-TATTAAAAGTATA
45823818 TACATAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
48 14 0.25
49 1 0.02
50 32 0.58
51 1 0.02
53 7 0.13
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.33
Consensus pattern (46 bp):
AGTATTAAAAGTATACATGATAATATAAAAAATATATGAATAATGT
Found at i:45823840 original size:13 final size:13
Alignment explanation
Indices: 45823810--45823886 Score: 95
Period size: 13 Copynumber: 5.9 Consensus size: 13
45823800 TGTGATATTA
*
45823810 AAAATATATACAT
1 AAAATATATATAT
45823823 AAAAATATATATAT
1 -AAAATATATATAT
45823837 AAAATATATATAT
1 AAAATATATATAT
*
45823850 AAAATATATACAT
1 AAAATATATATAT
*
45823863 AATATAGTAT-TA-
1 AAAATA-TATATAT
45823875 AAAATATATATA
1 AAAATATATATA
45823887 ATACATACAC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
11 3 0.05
12 7 0.12
13 31 0.55
14 15 0.27
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (13 bp):
AAAATATATATAT
Found at i:45823845 original size:11 final size:11
Alignment explanation
Indices: 45823829--45823887 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 11
45823819 ACATAAAAAT
45823829 ATATATATAAA
1 ATATATATAAA
45823840 ATATATATATAA
1 ATATATATA-AA
45823852 A-ATATATACATA
1 ATATATATA-A-A
45823864 ATATAGTATTAAAA
1 ATATA-TA-T-AAA
45823878 ATATATATAA
1 ATATATATAA
45823888 TACATACACA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
11 19 0.46
12 6 0.15
13 5 0.12
14 8 0.20
15 2 0.05
16 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (11 bp):
ATATATATAAA
Found at i:45823989 original size:23 final size:23
Alignment explanation
Indices: 45823944--45823989 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
45823934 AATACTTCAT
* *
45823944 AAATATATACATATATATGTTAA
1 AAATAAATACATATATATATTAA
45823967 AAATAAATACATAT-TAATATTAA
1 AAATAAATACATATAT-ATATTAA
45823990 GATGATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (23 bp):
AAATAAATACATATATATATTAA
Found at i:45828515 original size:87 final size:87
Alignment explanation
Indices: 45828383--45828837 Score: 524
Period size: 87 Copynumber: 5.2 Consensus size: 87
45828373 AGCCCTAACT
* * * * ** * *
45828383 CCCTAAGCAGTAGGGTAATAGGCTGAA-TTACAAATTTTGTCTCCCTAAGCAGTAGTGG-AGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAG
*
45828446 ATCGAAAATGAAGGGCCTT-AAC
65 ATCGAAAACGAAGGGCCTTAAAC
* * ** * * *
45828468 CCCACAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTGTCTCCCTAAGCAGTA-GTAGAGCA
1 CCC-TAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGA-AACA
* *
45828532 AATC-AAAGACGAAGAGCCTTAAAC
64 GATCGAAA-ACGAAGGGCCTTAAAC
* *
45828556 CCCTAAGGAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
** *
45828621 TCGAAGGCGATGGGCCTTAAAC
66 TCGAAAACGAAGGGCCTTAAAC
*
45828643 CCCTAAGCAGCAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
** *
45828708 TCGAAGGCGATGGGCCTTAAAC
66 TCGAAAACGAAGGGCCTTAAAC
45828730 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
*** * ** *
45828795 TCGAAGGTGATGGATCTTAACC
66 TCGAAAACGAAGGGCCTTAAAC
*
45828817 CCCTAAGCAGTAGGGAAACAG
1 CCCTAAGCAGTAGGGTAACAG
45828838 ATCGAAGGTA
Statistics
Matches: 330, Mismatches: 32, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
85 4 0.01
86 23 0.07
87 293 0.89
88 10 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (87 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAAACGAAGGGCCTTAAAC
Found at i:45828672 original size:174 final size:174
Alignment explanation
Indices: 45828383--45828837 Score: 585
Period size: 174 Copynumber: 2.6 Consensus size: 174
45828373 AGCCCTAACT
* * * ** * *
45828383 CCCTAAGCAGTAGGGTAATAGGCTGAA-TTACAAATTTTGTCTCCCTAAGCAGTAGTGG-AGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAG
** * * * **
45828446 ATCGAAAATGAAGGGCCTT-AACCCCACAAGTAGTAGGGTAACAGGCTAAATTTACAGATCTTGT
65 ATCGAAGGTGATGGGCCTTAAACCCC-TAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAA
* *
45828510 CTCCCTAAGCAGTAGTAG-AGCAAATCAAAGACGAAGAGCCTTAAAC
129 CCCCCTAAGCAGTAG-AGAAACAAATCAAAGACGAAGAGCCTTAAAC
*
45828556 CCCTAAGGAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* *
45828621 TCGAAGGCGATGGGCCTTAAACCCCTAAGCAGCAGGGTAACAGGCTAAATTTACAGATCTTAACC
66 TCGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC
* * * * * *
45828686 CCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAAC
131 CCCTAAGCAGTAGAGAAACAAATCAAAGACGAAGAGCCTTAAAC
*
45828730 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
** * *
45828795 TCGAAGGTGATGGATCTTAACCCCCTAAGCAGTAGGGAAACAG
66 TCGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAG
45828838 ATCGAAGGTA
Statistics
Matches: 245, Mismatches: 33, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
173 28 0.11
174 211 0.86
175 6 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (174 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC
CCCTAAGCAGTAGAGAAACAAATCAAAGACGAAGAGCCTTAAAC
Found at i:45828743 original size:131 final size:131
Alignment explanation
Indices: 45828592--45829140 Score: 439
Period size: 131 Copynumber: 4.2 Consensus size: 131
45828582 ATTTACAGAT
* * * ** * *
45828592 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGCAGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAG-GCGAAGTCGACAGACCTTAAACCCCTAAGCAGTAGG
* * * * * *
45828657 GTAACAG-GCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGG
65 GAAACAGAGCGAAAGTGATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAG
45828721 GC
130 GC
* * * ** * *
45828723 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGGCGAAGTCGACAGACCTTAAACCCCTAAGCAGTAGGG
* * * ** *
45828788 AAACAGATCGAAGGTGATGGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGG
66 AAACAGAGCGAAAGTGATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGG
45828853 C
131 C
* * * * * *
45828854 CTTAAACCCCTAAACAGTAGGGTAACAGGCTAAATTC-ACAGATCTTAACCCCCTAAGCAGTAGG
1 CTTAAACCCCTAAGCAGTAGGGAAACAGGC-GAAGTCGACAGACCTTAAACCCCTAAGCAGTAGG
* * * * * ** * * * * *** *
45828918 GAAAAAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAATAGGGTAACA-AGCTGAA-TTTACA
65 GAAACAGAGCGAAAGTGATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGGCGATA
**
45828981 GAT
129 GGC
* * ** *
45828984 CTT-AACCCCCAAGCAGTAGGGAAACAGATCGAAGAT-GATGGGCCTTAAACCCCTAAGCAGTAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAG-GCGAAG-TCGACAGACCTTAAACCCCTAAGCAGTAG
* * * * * *
45829047 GGTAACAG-GCTG-AATTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGAACGAAGGCGAT
64 GGAAACAGAGC-GAAAGTGATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT
*
45829110 AAGC
128 AGGC
45829114 CTTAAACCCCTAAGCAGTAGGGAAACA
1 CTTAAACCCCTAAGCAGTAGGGAAACA
45829141 AGTTGAATTA
Statistics
Matches: 331, Mismatches: 77, Indels: 20
0.77 0.18 0.05
Matches are distributed among these distances:
129 53 0.16
130 75 0.23
131 200 0.60
132 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (131 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGGCGAAGTCGACAGACCTTAAACCCCTAAGCAGTAGGG
AAACAGAGCGAAAGTGATAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATAGG
C
Found at i:45828814 original size:218 final size:217
Alignment explanation
Indices: 45828589--45829054 Score: 797
Period size: 218 Copynumber: 2.1 Consensus size: 217
45828579 TGAATTTACA
* *
45828589 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAGC
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGGCCTTAAACCCCTAAACAGC
* *
45828654 AGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT
66 AGGGTAACAGGCTAAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGAT
* *
45828719 GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGT
131 GGGCCTTAAACCCCTAAGCAATAGGGTAACAAGCTAAATTTACAGATCTTAACCCCC-AAGCAGT
*
45828784 AGGGAAACAGATCGAAGGTGATG
195 AGGGAAACAGATCGAAGATGATG
* *
45828807 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGGCCTTAAACCCCTAAACAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGGCCTTAAACCCCTAAACAGC
45828872 AGGGTAACAGGCTAAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGAT
66 AGGGTAACAGGCTAAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGAT
*
45828937 GGGCCTTAAACCCCTAAGCAATAGGGTAACAAGCTGAATTTACAGATCTTAACCCCCAAGCAGTA
131 GGGCCTTAAACCCCTAAGCAATAGGGTAACAAGCTAAATTTACAGATCTTAACCCCCAAGCAGTA
45829002 GGGAAACAGATCGAAGATGATG
196 GGGAAACAGATCGAAGATGATG
** * *
45829024 GGCCTTAAACCCCTAAGCAGTAGGGTAACAG
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAG
45829055 GCTGAATTTA
Statistics
Matches: 234, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
217 56 0.24
218 178 0.76
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (217 bp):
GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGGGCCTTAAACCCCTAAACAGC
AGGGTAACAGGCTAAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGAT
GGGCCTTAAACCCCTAAGCAATAGGGTAACAAGCTAAATTTACAGATCTTAACCCCCAAGCAGTA
GGGAAACAGATCGAAGATGATG
Found at i:45828898 original size:87 final size:87
Alignment explanation
Indices: 45828807--45829231 Score: 550
Period size: 87 Copynumber: 4.9 Consensus size: 87
45828797 GAAGGTGATG
* *
45828807 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGGCCTTAAACCCCTAAACAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGT
* *
45828872 AGGGTAACAGGCTAAATTCACA
66 AGGGTAACAGGCTGAATTTACA
* * *
45828894 GATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGATGGGCCTTAAACCCCTAAGCAAT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGT
*
45828959 AGGGTAACAAGCTGAATTTACA
66 AGGGTAACAGGCTGAATTTACA
*
45828981 GATCTTAACCCCC-AAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGT
*
45829045 AGGGTAACAGGCTGAATTTATA
66 AGGGTAACAGGCTGAATTTACA
* * * * **
45829067 GATCTTATCACCCTAAGCAGTAGGGAAACAGAACGAAGGCGATAAGCCTTAAACCCCTAAGCAGT
1 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGT
* * *
45829132 AGGGAAACAAGTTGAA-TTACA
66 AGGGTAACAGGCTGAATTTACA
** * * ** * ** * *
45829153 GATCTTGTCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAACAG
1 GATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAG
45829217 TAGGGTAACAGGCTG
65 TAGGGTAACAGGCTG
45829232 GAATCTATAA
Statistics
Matches: 300, Mismatches: 36, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
86 147 0.49
87 153 0.51
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (87 bp):
GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAGCAGT
AGGGTAACAGGCTGAATTTACA
Found at i:45829027 original size:173 final size:172
Alignment explanation
Indices: 45828807--45829230 Score: 589
Period size: 173 Copynumber: 2.4 Consensus size: 172
45828797 GAAGGTGATG
* *
45828807 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTAATGGGCCTTAAACCCCTAAACAGT
1 GATCTTAACCCCC-AAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAACAGT
* *
45828872 AGGGTAACAGGCTAAATTCACAGATCTTAACCCCCTAAGCAGTAGGGAAAAAGATCGAAGGCGAT
65 AGGGTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAAAAGAACGAAGGCGAT
** *
45828937 GGGCCTTAAACCCCTAAGCAATAGGGTAACAAGCTGAATTTACA
130 AAGCCTTAAACCCCTAAGCAATAGGGAAACAAGCTGAA-TTACA
*
45828981 GATCTTAACCCCCAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAGCAGTA
1 GATCTTAACCCCCAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAACAGTA
* * * * *
45829046 GGGTAACAGGCTGAATTTATAGATCTTATCACCCTAAGCAGTAGGGAAACAGAACGAAGGCGATA
66 GGGTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAAAAGAACGAAGGCGATA
* *
45829111 AGCCTTAAACCCCTAAGCAGTAGGGAAACAAGTTGAATTACA
131 AGCCTTAAACCCCTAAGCAATAGGGAAACAAGCTGAATTACA
** * * * * ** *
45829153 GATCTTGTCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGGTAAGCCTTAACCCCCTAAACAG
1 GATCTTAAC-CCCCAAGCAGTAG-GGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAACAG
45829217 TAGGGTAACAGGCT
64 TAGGGTAACAGGCT
45829231 GGAATCTATA
Statistics
Matches: 223, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
172 12 0.05
173 196 0.88
174 15 0.07
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (172 bp):
GATCTTAACCCCCAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACCCCTAAACAGTA
GGGTAACAGGCTAAATTCACAGATCTTAACACCCTAAGCAGTAGGGAAAAAGAACGAAGGCGATA
AGCCTTAAACCCCTAAGCAATAGGGAAACAAGCTGAATTACA
Found at i:45829585 original size:11 final size:11
Alignment explanation
Indices: 45829567--45829601 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
45829557 ACCAATTACA
45829567 AAAC-AAGCCC
1 AAACTAAGCCC
45829577 AAACTAAGCCC
1 AAACTAAGCCC
45829588 AAACTAAGCCC
1 AAACTAAGCCC
45829599 AAA
1 AAA
45829602 TAATAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.51, C:0.34, G:0.09, T:0.06
Consensus pattern (11 bp):
AAACTAAGCCC
Found at i:45831033 original size:34 final size:36
Alignment explanation
Indices: 45830992--45831067 Score: 100
Period size: 38 Copynumber: 2.1 Consensus size: 36
45830982 TGTGTATGTA
45830992 TTATATATTTTTTTAATACTATA-TTATGTATATATT
1 TTATAT-TTTTTTTAATACTATATTTATGTATATATT
* *
45831028 TTATATTTTTTTTATTATTATATTTTTATGTATATATT
1 TTATATTTTTTTTAATACTATA--TTTATGTATATATT
45831066 TT
1 TT
45831068 TAATATCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 14 0.40
36 6 0.17
38 15 0.43
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (36 bp):
TTATATTTTTTTTAATACTATATTTATGTATATATT
Found at i:45831040 original size:11 final size:13
Alignment explanation
Indices: 45831020--45831102 Score: 55
Period size: 14 Copynumber: 6.2 Consensus size: 13
45831010 CTATATTATG
45831020 TATATATTTTATAT
1 TATAT-TTTTATAT
45831034 T-T-TTTTTATTAT
1 TATATTTTTA-TAT
*
45831046 TATATTTTTATGT
1 TATATTTTTATAT
45831059 ATATATTTTTAATAT
1 -TATATTTTT-ATAT
* * *
45831074 CACATTATTCATA-
1 TATATT-TTTATAT
*
45831087 TATTTTTTTATAT
1 TATATTTTTATAT
45831100 TAT
1 TAT
45831103 CCCAAGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
11 5 0.09
12 10 0.19
13 10 0.19
14 23 0.43
15 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (13 bp):
TATATTTTTATAT
Found at i:45831053 original size:14 final size:14
Alignment explanation
Indices: 45831013--45831069 Score: 59
Period size: 14 Copynumber: 4.1 Consensus size: 14
45831003 TTTAATACTA
45831013 TATTATGTATATATTT
1 TATTAT-TATAT-TTT
45831029 TA-TATT-T-TTTT
1 TATTATTATATTTT
45831040 TATTATTATATTTT
1 TATTATTATATTTT
45831054 TATGTA-TATATTTT
1 TAT-TATTATATTTT
45831068 TA
1 TA
45831070 ATATCACATT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.14
12 5 0.14
13 2 0.05
14 18 0.49
15 5 0.14
16 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (14 bp):
TATTATTATATTTT
Found at i:45831066 original size:38 final size:39
Alignment explanation
Indices: 45830963--45831067 Score: 110
Period size: 36 Copynumber: 2.7 Consensus size: 39
45830953 TGTAACATTA
* * * *
45830963 TTATTATTATTATTTCTAATGTGTATGTATTATATATTTTT
1 TTATTATTA-TATTT-TTATGTATATATTTTATATATTTTT
* *
45831004 TTAATACTATA---TTATGTATATATTTTATAT-TTTTT
1 TTATTATTATATTTTTATGTATATATTTTATATATTTTT
45831039 TTATTATTATATTTTTATGTATATATTTT
1 TTATTATTATATTTTTATGTATATATTTT
45831068 TAATATCACA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
35 14 0.26
36 15 0.28
38 15 0.28
40 2 0.04
41 7 0.13
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (39 bp):
TTATTATTATATTTTTATGTATATATTTTATATATTTTT
Found at i:45831453 original size:26 final size:26
Alignment explanation
Indices: 45831401--45831505 Score: 69
Period size: 26 Copynumber: 4.2 Consensus size: 26
45831391 AGTATGTATA
* * *
45831401 TATTATGTATATATTTTTATTTCTAT
1 TATTACGTATATATTTTTAATACTAT
45831427 TATTACGTATATA-TTTTAATAC-A-
1 TATTACGTATATATTTTTAATACTAT
* * *
45831450 TATT-TGTATATATTTATATATCGCTAT
1 TATTACGTATATATTTTTA-AT-ACTAT
* *
45831477 TATTA-GT-TATTTTTTTATATATTAT
1 TATTACGTATATATTTTTA-ATACTAT
45831502 TATT
1 TATT
45831506 GTTTTCAATA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
22 7 0.11
23 8 0.13
24 3 0.05
25 15 0.24
26 24 0.38
27 6 0.10
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (26 bp):
TATTACGTATATATTTTTAATACTAT
Found at i:45831499 original size:46 final size:49
Alignment explanation
Indices: 45831397--45831504 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 49
45831387 TTCTAGTATG
**
45831397 TATATATTATGTATATATTTTTATTTCTATTATTACGTATATATTTTAA
1 TATATATTATGTATATATTTTTATCGCTATTATTACGTATATATTTTAA
* * *
45831446 TACATATT-TGTATATATTTATATATCGCTATTATTA-GT-TATTTTTTTA
1 TATATATTATGTATATATTT-T-TATCGCTATTATTACGTATATATTTTAA
45831494 TATATTATTAT
1 TATA-TATTAT
45831505 TGTTTTCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
48 22 0.45
49 14 0.29
50 13 0.27
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (49 bp):
TATATATTATGTATATATTTTTATCGCTATTATTACGTATATATTTTAA
Found at i:45831653 original size:26 final size:25
Alignment explanation
Indices: 45831575--45831653 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 25
45831565 TTCCCTACTA
*
45831575 TATCATATT-TACATTATTACTATTAT
1 TATCATTTTATACATTATTA-T-TTAT
45831601 TATCATGTTTAATACCA-TATGTA-TTAT
1 TATCAT-TTT-ATA-CATTAT-TATTTAT
45831628 TATCATTTTATACTATTATTATTTAT
1 TATCATTTTATAC-ATTATTATTTAT
45831654 ATTACTATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 16 0.36
27 12 0.27
29 5 0.11
30 4 0.09
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (25 bp):
TATCATTTTATACATTATTATTTAT
Found at i:45833869 original size:110 final size:110
Alignment explanation
Indices: 45833698--45833981 Score: 307
Period size: 110 Copynumber: 2.6 Consensus size: 110
45833688 ATACAGATTG
* * * * * *
45833698 TAACGATGGCTTGATATCTTGTATATGTTGCGGATTCTCTGCAGCTTCTGTGAGCAACATCGTGA
1 TAACGATGGCTTAAGATCCTGCATATGTTGCGGATTCTCTACAGCTTCTGTAAGCAACATCGTGA
* **
45833763 GTCGGGGATTAATTAGTAGGTACTATGTATTGGTGATATAGACTA
66 GCCAAGGATTAATTAGTAGGTACTATGTATTGGTGATATAGACTA
* * * *
45833808 TAACGATGGCTTAAGATCCTGCATATGTTGTGGATTCTTTATAGCTTGTGTAAGCAACATCGTGA
1 TAACGATGGCTTAAGATCCTGCATATGTTGCGGATTCTCTACAGCTTCTGTAAGCAACATCGTGA
** * * **
45833873 GCCAAGGATTAATTAGTAGGTACTATGTACCGATGATACAGACCG
66 GCCAAGGATTAATTAGTAGGTACTATGTATTGGTGATATAGACTA
* * ** * ** * * *
45833918 TAACGATGACTTGAGATTTTGCATGTGTTGCAAATTCTCTACAGCTTGTGTGAGCAGCATCGTG
1 TAACGATGGCTTAAGATCCTGCATATGTTGCGGATTCTCTACAGCTTCTGTAAGCAACATCGTG
45833982 GGCCGGTCAA
Statistics
Matches: 143, Mismatches: 31, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
110 143 1.00
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (110 bp):
TAACGATGGCTTAAGATCCTGCATATGTTGCGGATTCTCTACAGCTTCTGTAAGCAACATCGTGA
GCCAAGGATTAATTAGTAGGTACTATGTATTGGTGATATAGACTA
Found at i:45835323 original size:39 final size:39
Alignment explanation
Indices: 45835280--45835486 Score: 306
Period size: 39 Copynumber: 5.3 Consensus size: 39
45835270 GGTCTTTAAC
** * *
45835280 CCGGATATTTTTCCAGCACGTAGCCTACGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
45835319 CCGGATATATTTCTAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * * *
45835358 CCGGATATATTTCTAGCCTATAGCCTACGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
45835397 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
45835436 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
45835475 CCGGATATTTTT
1 CCGGATATTTTT
45835487 AATCTCATAC
Statistics
Matches: 154, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 154 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:45838861 original size:3 final size:3
Alignment explanation
Indices: 45838853--45838878 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
45838843 CTTTTTTAAA
45838853 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
45838879 TACATAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45840783 original size:2 final size:2
Alignment explanation
Indices: 45840776--45840801 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
45840766 TAATATTGTT
45840776 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
45840802 ACACAGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45844210 original size:90 final size:89
Alignment explanation
Indices: 45844088--45844292 Score: 227
Period size: 90 Copynumber: 2.3 Consensus size: 89
45844078 TTAAGTCTTT
* *** * * * * * *
45844088 TTTTTTTTTGCACTCATTTAAATACTTCAACTTTTACAATGTATCAAAAAGATCCTTAAAC-TTT
1 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTTAAAAAGCATCAAAAAG-GCCCTAAACATTT
* *
45844152 TT-AAAAAAAGAAATTAAGCCCTTGCC
65 TTCAAAAAAA-AAATTAAGCCCAT-AC
*
45844178 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTTAAAAAGCATCAAAAAGGCCCTCAACATTTT
1 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTTAAAAAGCATCAAAAAGGCCCTAAACATTTT
* *
45844243 TCACAAAAACAATTAAGCCCATAC
66 TCAAAAAAAAAATTAAGCCCATAC
45844267 TTTTTTTTT-CACTCAATTGGGTACTT
1 TTTTTTTTTGCACTCAATTGGGTACTT
45844293 GAACCCCCCA
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
88 17 0.17
89 16 0.16
90 59 0.60
91 6 0.06
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (89 bp):
TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTTAAAAAGCATCAAAAAGGCCCTAAACATTTT
TCAAAAAAAAAATTAAGCCCATAC
Found at i:45844841 original size:9 final size:9
Alignment explanation
Indices: 45844790--45844925 Score: 55
Period size: 9 Copynumber: 14.7 Consensus size: 9
45844780 TTTTGATGTA
45844790 TTTTATAATT
1 TTTTATAA-T
*
45844800 TTTTATGAT
1 TTTTATAAT
*
45844809 TTTTATAAAA
1 TTTTAT-AAT
* *
45844819 TTTAAAAAT
1 TTTTATAAT
45844828 ATTTTATAAT
1 -TTTTATAAT
*
45844838 TTTT-TAAGA
1 TTTTATAA-T
*
45844847 TTTCAT-AT
1 TTTTATAAT
*
45844855 TTTTCT-AT
1 TTTTATAAT
*
45844863 TTTTAATAAA
1 TTTT-ATAAT
*
45844873 TTTTAAATAT
1 TTTTATA-AT
*
45844883 TTTTGT-AT
1 TTTTATAAT
*
45844891 TTTTATTAAAA
1 TTTTA-T-AAT
*
45844902 TTTAATAAT
1 TTTTATAAT
*
45844911 TTTTATAAC
1 TTTTATAAT
45844920 TTTTAT
1 TTTTAT
45844926 TGATTTTTTT
Statistics
Matches: 91, Mismatches: 25, Indels: 21
0.66 0.18 0.15
Matches are distributed among these distances:
8 19 0.21
9 36 0.40
10 31 0.34
11 5 0.05
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTATAAT
Found at i:45844872 original size:55 final size:55
Alignment explanation
Indices: 45844789--45844914 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 55
45844779 TTTTTGATGT
* * *
45844789 ATTTTATAATTTTTTATGATTTTTATAAAATTTAAAAATATTTTATAATTTT-TTAAG
1 ATTTAATAA-TTTTTCT-ATTTTTATAAAATTTAAAAAT-TTTTATAATTTTATTAAA
* * * * *
45844846 ATTTCAT-ATTTTTCTATTTTTAATAAATTTTAAATATTTTTGTATTTTTATTAAA
1 ATTTAATAATTTTTCTATTTTT-ATAAAATTTAAAAATTTTTATAATTTTATTAAA
45844901 ATTTAATAATTTTT
1 ATTTAATAATTTTT
45844915 ATAACTTTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
54 16 0.28
55 29 0.50
56 7 0.12
57 6 0.10
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (55 bp):
ATTTAATAATTTTTCTATTTTTATAAAATTTAAAAATTTTTATAATTTTATTAAA
Found at i:45844886 original size:28 final size:27
Alignment explanation
Indices: 45844807--45844914 Score: 87
Period size: 28 Copynumber: 3.9 Consensus size: 27
45844797 ATTTTTTATG
* *
45844807 ATTTTT-ATAAAATTTAAAAATATTTTAT
1 ATTTTTAATAAAATTT-AATAT-TTTTCT
* *
45844835 AATTTTT--TAAGATTTCATATTTTTCT
1 -ATTTTTAATAAAATTTAATATTTTTCT
* *
45844861 ATTTTTAATAAATTTTAAATATTTTTGT
1 ATTTTTAATAAAATTT-AATATTTTTCT
*
45844889 ATTTTTATTAAAATTTAATAATTTTT
1 ATTTTTAATAAAATTTAAT-ATTTTT
45844915 ATAACTTTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
25 6 0.09
26 5 0.08
27 12 0.18
28 36 0.55
29 6 0.09
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (27 bp):
ATTTTTAATAAAATTTAATATTTTTCT
Found at i:45845297 original size:93 final size:91
Alignment explanation
Indices: 45845106--45845284 Score: 209
Period size: 93 Copynumber: 1.9 Consensus size: 91
45845096 GGCTTAATTG
** * * *
45845106 TTTTTTATAAGTTTGAAGGCCTTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAA
1 TTTTTTATAAGTTTGAAGGCCTTTTTAATGCATTTAAAAAATTCAAGTACCCAATTAACTGCAAA
* * * *
45845171 AAACAAAAAGGCTTAATTGTCTTCTTTTT
66 AAAAAAAAAGG--T-ATGGACTTATTTTT
* *
45845200 TTTTTTA-AAGTTTGAGGGCCTTTTTGATGCATTTAAAAAATTCAAGTACCCAATTAACTGCAAA
1 TTTTTTATAAGTTTGAAGGCCTTTTTAATGCATTTAAAAAATTCAAGTACCCAATTAACTGCAAA
45845264 AAAAAAAAAGG-ATGGGACTTA
66 AAAAAAAAAGGTAT-GGACTTA
45845285 ATTACTTTTT
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 2 0.03
90 4 0.05
93 60 0.82
94 7 0.10
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (91 bp):
TTTTTTATAAGTTTGAAGGCCTTTTTAATGCATTTAAAAAATTCAAGTACCCAATTAACTGCAAA
AAAAAAAAAGGTATGGACTTATTTTT
Found at i:45847294 original size:27 final size:26
Alignment explanation
Indices: 45847235--45847295 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
45847225 TCTCATCCTT
* *
45847235 ATTTTACCTCTAGTAAAATTTTGACG
1 ATTTTACCCCTAATAAAATTTTGACG
* * *
45847261 ATCTTACCCCTAATAAATTTTTTGATG
1 ATTTTACCCCTAATAAA-ATTTTGACG
45847288 ATTTTACC
1 ATTTTACC
45847296 ATGGTAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:45849196 original size:25 final size:25
Alignment explanation
Indices: 45849168--45849216 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
45849158 AATTTGACAG
* *
45849168 TTTTTTCTT-AATTTGGTATCTAAA
1 TTTTTTATTCAATTTGGTACCTAAA
45849192 TTTTTTATTCAATTTGGTACCTAAA
1 TTTTTTATTCAATTTGGTACCTAAA
45849217 CTTGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.55
Consensus pattern (25 bp):
TTTTTTATTCAATTTGGTACCTAAA
Found at i:45854752 original size:17 final size:17
Alignment explanation
Indices: 45854713--45854752 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
45854703 GTAAATGTAA
* * *
45854713 ATTTTCTATTTTTTCTG
1 ATTTTTTATTTGTTATG
45854730 ATTTTTTATTTGTTATG
1 ATTTTTTATTTGTTATG
45854747 ATTTTT
1 ATTTTT
45854753 GTTAATTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.72
Consensus pattern (17 bp):
ATTTTTTATTTGTTATG
Found at i:45855083 original size:20 final size:19
Alignment explanation
Indices: 45855051--45855099 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
45855041 TTGTAATGGT
*
45855051 TATATTTTAATATTTAAAA
1 TATAATTTAATATTTAAAA
*
45855070 TATAATTTATATATTTAAAT
1 TATAATTTA-ATATTTAAAA
*
45855090 TAAAATTTAA
1 TATAATTTAA
45855100 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATAATTTAATATTTAAAA
Found at i:45859086 original size:26 final size:26
Alignment explanation
Indices: 45859057--45859166 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
45859047 TGATACAAAT
45859057 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* ** *
45859083 TGATAATGGATTAATTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45859109 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45859135 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
45859161 TGATAA
1 TGATAA
45859167 GAATTTCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:45860681 original size:25 final size:26
Alignment explanation
Indices: 45860653--45860704 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
45860643 TTTACAATTT
45860653 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
45860678 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
45860704 T
1 T
45860705 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:45863882 original size:51 final size:51
Alignment explanation
Indices: 45863806--45863920 Score: 185
Period size: 51 Copynumber: 2.3 Consensus size: 51
45863796 TGGATCACAT
45863806 TTATCACTTGTCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACAAC
1 TTATCACTTGTCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACAAC
* * * * *
45863857 TTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTGAGGCTACCAC
1 TTATCACTTGTCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACAAC
45863908 TTATCACTTGTCA
1 TTATCACTTGTCA
45863921 TTGATCAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACAAC
Found at i:45870508 original size:16 final size:15
Alignment explanation
Indices: 45870481--45870512 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
45870471 TCGTGCATTC
45870481 TCTTTTTTTCTTCTT
1 TCTTTTTTTCTTCTT
45870496 TCTTTTCTTTCTTCTT
1 TCTTTT-TTTCTTCTT
45870512 T
1 T
45870513 TTACTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TCTTTTTTTCTTCTT
Found at i:45870645 original size:21 final size:21
Alignment explanation
Indices: 45870615--45870658 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
45870605 CTGTCCACTA
*
45870615 TATATGTATAGGTATAATTAC
1 TATATATATAGGTATAATTAC
45870636 TATATATATAGGTATAATTAC
1 TATATATATAGGTATAATTAC
45870657 TA
1 TA
45870659 CATTGGCCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (21 bp):
TATATATATAGGTATAATTAC
Found at i:45873039 original size:1 final size:1
Alignment explanation
Indices: 45873035--45873062 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
45873025 CAAAAAACGG
45873035 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
45873063 GGTTTAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:45877108 original size:21 final size:21
Alignment explanation
Indices: 45877070--45877109 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45877060 AATCTCACTG
* *
45877070 CTACAGTATCCAATCTCACCA
1 CTACAGTAACCAAACTCACCA
*
45877091 CTACAGTAACTAAACTCAC
1 CTACAGTAACCAAACTCAC
45877110 TACCACCGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.35, G:0.05, T:0.23
Consensus pattern (21 bp):
CTACAGTAACCAAACTCACCA
Found at i:45880761 original size:40 final size:40
Alignment explanation
Indices: 45880724--45880869 Score: 224
Period size: 40 Copynumber: 3.6 Consensus size: 40
45880714 TGAGGAATGT
45880724 TATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGGAATTG
*
45880764 TATCCGGGCTTAAAGACCTGCAGGCTATA-TGCTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TAGTGCTGGAATTG
* * *
45880803 TTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGAAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGGAATTG
45880844 TATCCGGGCTTAAAGACCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
45880870 ACGAGCTGGT
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 3 0.03
40 89 0.93
41 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGGAATTG
Found at i:45880850 original size:80 final size:80
Alignment explanation
Indices: 45880717--45880870 Score: 272
Period size: 80 Copynumber: 1.9 Consensus size: 80
45880707 TGATACTTGA
*
45880717 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGGAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGAAATTGTATCCGGGCTTAAAGACC
*
45880782 TGCAGGCTATATGCT
66 CGCAGGCTATATGCT
* *
45880797 GGAATGTTATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGAAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGAAATTGTATCCGGGCTTAAAGACC
45880862 CGCAGGCTA
66 CGCAGGCTA
45880871 CGAGCTGGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 70 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTAGTGCTGAAATTGTATCCGGGCTTAAAGACC
CGCAGGCTATATGCT
Found at i:45888381 original size:40 final size:40
Alignment explanation
Indices: 45888344--45888489 Score: 224
Period size: 40 Copynumber: 3.6 Consensus size: 40
45888334 TGAGGAATGT
*
45888344 TATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
*
45888384 TATCCAGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAA-TG
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCATGCTGGAATTG
* *
45888423 TTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGAAATTG
1 -TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
45888464 TATCCGGGCTTAAAGACCCGCAGGCT
1 TATCCGGGCTTAAAGACCCGCAGGCT
45888490 ACGAGCTGGC
Statistics
Matches: 97, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 3 0.03
40 91 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTG
Found at i:45888474 original size:80 final size:80
Alignment explanation
Indices: 45888337--45888490 Score: 281
Period size: 80 Copynumber: 1.9 Consensus size: 80
45888327 TGATACTTGA
*
45888337 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTGGAATTGTATCCAGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTGAAATTGTATCCAGGCTTAAAGACC
45888402 CGCAGGCTATATGCT
66 CGCAGGCTATATGCT
* *
45888417 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGAAATTGTATCCGGGCTTAAAGACC
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTGAAATTGTATCCAGGCTTAAAGACC
45888482 CGCAGGCTA
66 CGCAGGCTA
45888491 CGAGCTGGCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 71 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (80 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCCTGCTGAAATTGTATCCAGGCTTAAAGACC
CGCAGGCTATATGCT
Found at i:45902266 original size:20 final size:18
Alignment explanation
Indices: 45902230--45902280 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
45902220 AAAGGCTATT
*
45902230 TTGTAAAGTTGTAAAATAA
1 TTGTAAA-TTGTGAAATAA
45902249 GTTGTAAATATGTGAAATAA
1 -TTGTAAAT-TGTGAAATAA
45902269 TTG-AAATTGTGA
1 TTGTAAATTGTGA
45902281 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (18 bp):
TTGTAAATTGTGAAATAA
Found at i:45903043 original size:48 final size:46
Alignment explanation
Indices: 45902934--45903050 Score: 146
Period size: 48 Copynumber: 2.5 Consensus size: 46
45902924 TGTGCTAGTG
* *
45902934 TAAGACATGTCTGGGACATGCATTGGCCACATATTGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATTGGCCACATATTGACAGCCAGTA
* * *
45902980 TAAGACATATCTGGGACATGCATTGGCCTCGAGATATT-CCAGCCAGTA
1 TAAGACATGTCTGGGACATGCATTGG-C-C-ACATATTGACAGCCAGTA
*
45903028 TAAGACATGTTTGGGACATGCAT
1 TAAGACATGTCTGGGACATGCAT
45903051 CGACATTGAG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
46 25 0.41
47 1 0.02
48 29 0.48
49 6 0.10
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATTGGCCACATATTGACAGCCAGTA
Found at i:45903126 original size:94 final size:91
Alignment explanation
Indices: 45902927--45903146 Score: 233
Period size: 94 Copynumber: 2.3 Consensus size: 91
45902917 TGATATGTGT
* *
45902927 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATATTGAGAGCCAGTGTAAGACATATCT
1 GCTAGTGTAAGACATGTCTGGGACATGCA-T--CCACATAATGAGAACCAGTGTAAGACATATCT
* * * *
45902992 GGGACATGCATTGGCCTCGAGATATTCCA
63 GGGACATGCATCGACCTCGAGATATACAA
* * * * * *
45903021 GCCAGTATAAGACATGTTTGGGACATGCATCGACATTGAGATGAGAACTAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCCACA-T-A-ATGAGAACCAGTGTAAGACATATCT
* *
45903086 GGGACATTCATCGACCTCGAGGTATACAA
63 GGGACATGCATCGACCTCGAGATATACAA
* *
45903115 GCTAGTGTAAGACCTGTCTGAGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
45903147 AGCTTGTTGT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
91 4 0.04
92 1 0.01
93 2 0.02
94 91 0.88
95 5 0.05
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (91 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCCACATAATGAGAACCAGTGTAAGACATATCTGGG
ACATGCATCGACCTCGAGATATACAA
Found at i:45903133 original size:48 final size:48
Alignment explanation
Indices: 45902927--45903146 Score: 182
Period size: 46 Copynumber: 4.6 Consensus size: 48
45902917 TGATATGTGT
* * * **
45902927 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-A--TATTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATACA-A
* * * * * * *
45902973 GCCAGTGTAAGACATATCTGGGACATGCATTGGCCTCGAGATATTCCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATACAA
* * * * * *
45903021 GCCAGTATAAGACATGTTTGGGACATGCATCGACATTGA-G-ATGAGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTAT-ACAA
*
45903068 -CTAGTGTAAGACATGTCTGGGACATTCATCGACCTCGAGGTATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATACAA
* *
45903115 GCTAGTGTAAGACCTGTCTGAGACATGGCATC
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATC
45903147 AGCTTGTTGT
Statistics
Matches: 140, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
46 68 0.49
47 6 0.04
48 58 0.41
49 8 0.06
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGGTATACAA
Found at i:45903249 original size:49 final size:49
Alignment explanation
Indices: 45903162--45903281 Score: 118
Period size: 49 Copynumber: 2.4 Consensus size: 49
45903152 GTTGTGTGTT
* * * *
45903162 AGTGTAAGACCTGTCTGGGATATGACATAGACACCGATAGGTGAGAGCC
1 AGTGTAAGACCTGTCTGGGACACGACATAGACACCGATAGATGAAAGCC
* * *
45903211 AGTGTAAGACCTGTCTGGGACACGGCATCAG-C-CTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACACGACAT-AGACAC-CGATAGATGAAAGCC
* * *
45903260 AATGTATGGCCTGTCTGGGACA
1 AGTGTAAGACCTGTCTGGGACA
45903282 TGCCATCGAC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.02
49 56 0.95
50 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACACGACATAGACACCGATAGATGAAAGCC
Found at i:45908908 original size:17 final size:17
Alignment explanation
Indices: 45908879--45908930 Score: 95
Period size: 17 Copynumber: 3.0 Consensus size: 17
45908869 TTCTGGGTTA
45908879 AATGGGCCCTATGGGCCC
1 AATGGG-CCTATGGGCCC
45908897 AATGGGCCTATGGGCCC
1 AATGGGCCTATGGGCCC
45908914 AATGGGCCTATGGGCCC
1 AATGGGCCTATGGGCCC
45908931 GTGTGGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 28 0.82
18 6 0.18
ACGTcount: A:0.17, C:0.31, G:0.35, T:0.17
Consensus pattern (17 bp):
AATGGGCCTATGGGCCC
Found at i:45908911 original size:8 final size:9
Alignment explanation
Indices: 45908880--45908930 Score: 70
Period size: 9 Copynumber: 5.9 Consensus size: 9
45908870 TCTGGGTTAA
45908880 ATGGGCCCT
1 ATGGGCCCT
*
45908889 ATGGGCCCA
1 ATGGGCCCT
45908898 ATGGG-CCT
1 ATGGGCCCT
*
45908906 ATGGGCCCA
1 ATGGGCCCT
45908915 ATGGG-CCT
1 ATGGGCCCT
45908923 ATGGGCCC
1 ATGGGCCC
45908931 GTGTGGGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
8 14 0.39
9 22 0.61
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.18
Consensus pattern (9 bp):
ATGGGCCCT
Found at i:45909335 original size:54 final size:54
Alignment explanation
Indices: 45909263--45909441 Score: 218
Period size: 54 Copynumber: 3.3 Consensus size: 54
45909253 GGTTGTTAAG
* * *
45909263 ACCCC-GATTTGTAAAATTACCGAAATAACCCTAATTTTTGAAATTACTGAAAT
1 ACCCCTGATTTGTAAAATTACCGAAATAACCCTGATTTGTAAAATTACTGAAAT
* ** * *
45909316 ACCCTTGGGTTGTAAAATTA-CGAAAATACCCCTGATTTGTAAAATTATTGAAAT
1 ACCCCTGATTTGTAAAATTACCG-AAATAACCCTGATTTGTAAAATTACTGAAAT
* * * *
45909370 ACCCCTAATTTGTAAAATTACCAAAATAATCCTGATTTGTAAAATTACCGAAAT
1 ACCCCTGATTTGTAAAATTACCGAAATAACCCTGATTTGTAAAATTACTGAAAT
*
45909424 TCCCCTGATTTGTAAAAT
1 ACCCCTGATTTGTAAAAT
45909442 GACAGTAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
53 6 0.06
54 97 0.93
55 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.33
Consensus pattern (54 bp):
ACCCCTGATTTGTAAAATTACCGAAATAACCCTGATTTGTAAAATTACTGAAAT
Found at i:45909452 original size:81 final size:81
Alignment explanation
Indices: 45909263--45909456 Score: 223
Period size: 81 Copynumber: 2.4 Consensus size: 81
45909253 GGTTGTTAAG
* * * * ** *
45909263 ACCCC-GATTTGTAAAATTACCGAAATAACCCTAATTTTTGAAATTACTGAAATACCCTTGGGTT
1 ACCCCTGATTTGTAAAATTACAGAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGAGTT
45909327 GTAAAATTACGAAAAT
66 GTAAAATTACGAAAAT
** * *
45909343 ACCCCTGATTTGTAAAATTATTGAAATACCCCTAATTTGTAAAATTACCAAAATAATCC-TGATT
1 ACCCCTGATTTGTAAAATTACAGAAATACCCCTAATTTGTAAAATTACCAAAAT-ACCCTTGAGT
45909407 TGTAAAATTACCG-AAAT
65 TGTAAAATTA-CGAAAAT
* * *
45909424 TCCCCTGATTTGTAAAATGACAGTAATACCCCT
1 ACCCCTGATTTGTAAAATTACAGAAATACCCCT
45909457 GTAGGGTAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 5 0.05
81 86 0.90
82 5 0.05
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (81 bp):
ACCCCTGATTTGTAAAATTACAGAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTGAGTT
GTAAAATTACGAAAAT
Found at i:45909456 original size:27 final size:27
Alignment explanation
Indices: 45909263--45909457 Score: 189
Period size: 27 Copynumber: 7.3 Consensus size: 27
45909253 GGTTGTTAAG
*
45909263 ACCCC-GATTTGTAAAATTACCGAAAT
1 ACCCCTGATTTGTAAAATTACAGAAAT
* * * * *
45909289 AACCCTAATTTTTGAAATTACTGAAAT
1 ACCCCTGATTTGTAAAATTACAGAAAT
* **
45909316 ACCCTTGGGTTGTAAAATTAC-GAAAAT
1 ACCCCTGATTTGTAAAATTACAG-AAAT
**
45909343 ACCCCTGATTTGTAAAATTATTGAAAT
1 ACCCCTGATTTGTAAAATTACAGAAAT
*
45909370 ACCCCTAATTTGTAAAATTACCA-AAAT
1 ACCCCTGATTTGTAAAATTA-CAGAAAT
** *
45909397 AATCCTGATTTGTAAAATTACCGAAAT
1 ACCCCTGATTTGTAAAATTACAGAAAT
* * *
45909424 TCCCCTGATTTGTAAAATGACAGTAAT
1 ACCCCTGATTTGTAAAATTACAGAAAT
45909451 ACCCCTG
1 ACCCCTG
45909458 TAGGGTAAAA
Statistics
Matches: 134, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
26 6 0.04
27 127 0.95
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
ACCCCTGATTTGTAAAATTACAGAAAT
Found at i:45909496 original size:53 final size:54
Alignment explanation
Indices: 45909435--45909551 Score: 173
Period size: 53 Copynumber: 2.2 Consensus size: 54
45909425 CCCCTGATTT
45909435 GTAAAATGACAGTAATACCCCTGTAGGGTAAAATAACTGTAATACCCC-GTAGG
1 GTAAAATGACAGTAATACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAGG
* * * * * *
45909488 GTAAAATGACTGTAATGCCCCTTTAGGGTAAAATGACTGTAATGCCCCTGTATG
1 GTAAAATGACAGTAATACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAGG
45909542 GTAAAATGAC
1 GTAAAATGAC
45909552 GATTATGCCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 43 0.75
54 14 0.25
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAAAATGACAGTAATACCCCTGTAGGGTAAAATAACTGTAATACCCCTGTAGG
Found at i:45909560 original size:27 final size:27
Alignment explanation
Indices: 45909435--45909551 Score: 173
Period size: 27 Copynumber: 4.4 Consensus size: 27
45909425 CCCCTGATTT
* *
45909435 GTAAAATGACAGTAATACCCCTGTAGG
1 GTAAAATGACTGTAATGCCCCTGTAGG
* *
45909462 GTAAAATAACTGTAATACCCC-GTAGG
1 GTAAAATGACTGTAATGCCCCTGTAGG
*
45909488 GTAAAATGACTGTAATGCCCCTTTAGG
1 GTAAAATGACTGTAATGCCCCTGTAGG
*
45909515 GTAAAATGACTGTAATGCCCCTGTATG
1 GTAAAATGACTGTAATGCCCCTGTAGG
45909542 GTAAAATGAC
1 GTAAAATGAC
45909552 GATTATGCCT
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 24 0.29
27 58 0.71
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAAAATGACTGTAATGCCCCTGTAGG
Found at i:45910528 original size:24 final size:25
Alignment explanation
Indices: 45910471--45910536 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
45910461 GAAAAAACTT
*
45910471 TATTTA-TATATTATTATTTACCTA
1 TATTTATTATATTATTATTTACATA
45910495 TATCTATATTATATT-TTA-TTACATAA
1 TAT-T-TATTATATTATTATTTACAT-A
*
45910521 TATTTATTATACTATT
1 TATTTATTATATTATT
45910537 TTATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 9 0.26
26 9 0.26
27 6 0.17
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTTATTATATTATTATTTACATA
Found at i:45910554 original size:23 final size:23
Alignment explanation
Indices: 45910524--45910588 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 23
45910514 TACATAATAT
*
45910524 TTATTATACTATTTTATATTTTA
1 TTATTATATTATTTTATATTTTA
* *
45910547 TTATTATATTATTTTACACTTTA
1 TTATTATATTATTTTATATTTTA
* *
45910570 ATA-TATGTTATTTTATATT
1 TTATTATATTATTTTATATT
45910589 ATTCTTACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
22 13 0.37
23 22 0.63
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (23 bp):
TTATTATATTATTTTATATTTTA
Found at i:45913085 original size:64 final size:63
Alignment explanation
Indices: 45912907--45913158 Score: 206
Period size: 68 Copynumber: 3.9 Consensus size: 63
45912897 ATATAGTTCG
* * * *
45912907 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATATCGTA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTACATATATACCGTA
* * * * * *
45912970 GCTCT-TTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGTGACCTAGCTACATATATACCG
45913034 TA
62 TA
* *
45913036 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGTGACCTAGCTACATCATAATATCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCTACAT-AT-ATA-C-C
45913101 GTA
61 GTA
* * * **
45913104 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTACATA
45913159 CTATCTGTAT
Statistics
Matches: 151, Mismatches: 24, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
61 1 0.01
62 12 0.08
63 6 0.04
64 26 0.17
65 23 0.15
66 18 0.12
67 17 0.11
68 47 0.31
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGTGACCTAGCTACATATATACCGTA
Found at i:45913857 original size:30 final size:30
Alignment explanation
Indices: 45913823--45913879 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
45913813 TCATTAACTC
45913823 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
45913853 AAACTTTTGCATATTTACACTTTTGCC
1 AAACTTTTGAAAAATTACAATTTTGCC
45913880 TCTAGGCTCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:45915630 original size:27 final size:27
Alignment explanation
Indices: 45915573--45915650 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
45915563 GGAAGTACTG
* * **
45915573 TACTGGTGACTATGTCAC-ATTCACTGT
1 TACTGGTGGCTATGCCACAATT-ACTAA
45915600 TACTGGTGGCTATGCCACAATTACTAA
1 TACTGGTGGCTATGCCACAATTACTAA
* * *
45915627 TACTAGTGGCT-TACCACATTTACT
1 TACTGGTGGCTATGCCACAATTACT
45915651 GTTTCTGGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.26
27 29 0.67
28 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (27 bp):
TACTGGTGGCTATGCCACAATTACTAA
Found at i:45915650 original size:26 final size:27
Alignment explanation
Indices: 45915600--45915650 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
45915590 CATTCACTGT
* *
45915600 TACTGGTGGCTATGCCACAATTACTAA
1 TACTAGTGGCTATACCACAATTACTAA
*
45915627 TACTAGTGGCT-TACCACATTTACT
1 TACTAGTGGCTATACCACAATTACT
45915651 GTTTCTGGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (27 bp):
TACTAGTGGCTATACCACAATTACTAA
Found at i:45915911 original size:32 final size:33
Alignment explanation
Indices: 45915842--45915932 Score: 103
Period size: 32 Copynumber: 2.8 Consensus size: 33
45915832 CCCACACTAT
* * * * *
45915842 TACTGTATAGGGATAAAGCCCAGAATGTTCTGT
1 TACTGTATAGGGCTAAAGCCCAGACTATACTGA
45915875 TACTGTATAGGGCT-AAGCCCAGACTATACTGA
1 TACTGTATAGGGCTAAAGCCCAGACTATACTGA
* * *
45915907 TACTGGATAGGGCTCAGGCCCAGACT
1 TACTGTATAGGGCTAAAGCCCAGACT
45915933 GTTACTGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (33 bp):
TACTGTATAGGGCTAAAGCCCAGACTATACTGA
Found at i:45926650 original size:57 final size:58
Alignment explanation
Indices: 45926593--45926706 Score: 133
Period size: 57 Copynumber: 2.0 Consensus size: 58
45926583 TTTAGGTCAT
* * * *
45926593 TTTCA-TAGTGGAGGAAACCACATTCATTTCCCAATG-GTTCAATTTCTTCATTTTCA
1 TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
** * * *
45926649 TTTCATTTTTGGAGAAAACCATAATCATTTCCAAATGTTTTCTATTTCTCCATTTTCA
1 TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
45926707 CCATTTCTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 5 0.11
57 25 0.53
58 17 0.36
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (58 bp):
TTTCATTAGTGGAGAAAACCACAATCATTTCCAAATGTGTTCAATTTCTCCATTTTCA
Found at i:45931138 original size:30 final size:30
Alignment explanation
Indices: 45931103--45931167 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
45931093 ACACCAGGGG
*
45931103 ACACACGACCGTGTCACCTGACCCTGTGTC
1 ACACACGACCGTGTCACCTAACCCTGTGTC
* *
45931133 ACACACGGCCGTGTCACCTAACCGTGTGTC
1 ACACACGACCGTGTCACCTAACCCTGTGTC
45931163 ACACA
1 ACACA
45931168 TGGCTGAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.23, C:0.38, G:0.20, T:0.18
Consensus pattern (30 bp):
ACACACGACCGTGTCACCTAACCCTGTGTC
Found at i:45936565 original size:47 final size:47
Alignment explanation
Indices: 45936439--45936729 Score: 451
Period size: 47 Copynumber: 6.2 Consensus size: 47
45936429 ACAAGATATG
* * *
45936439 TATATGTGATAAGGCCGA-TGGCCAATGTGATGAATGTGAAAGTATA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
45936485 TATATGTGATA-GGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
*
45936531 TATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
* *
45936578 TATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
* *
45936625 TATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
* * * *
45936672 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
*
45936719 TAAATGTGATA
1 TATATGTGATA
45936730 AGTCCCGAAG
Statistics
Matches: 230, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
45 6 0.03
46 48 0.21
47 176 0.77
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTA
Found at i:45939974 original size:46 final size:45
Alignment explanation
Indices: 45939907--45940071 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
45939897 CGCCCCTAAG
*
45939907 TGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGGCGTT-GCATCCATAAA
* * *
45939953 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTGCATCCATAAA
* * *
45940000 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGG-C-GTTGCATCCATAAA
45940046 TGAACTCGGACTCAACTCAACGAGTT
1 TGAACTCGGACTCAACTCAACGAGTT
45940072 TGGATGCTCA
Statistics
Matches: 99, Mismatches: 11, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
43 7 0.07
44 2 0.02
45 1 0.01
46 51 0.52
47 27 0.27
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGGCGTTGCATCCATAAA
Found at i:45940023 original size:93 final size:93
Alignment explanation
Indices: 45939908--45940078 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
45939898 GCCCCTAAGT
*
45939908 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
45939972 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
45940001 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
45940066 CGAGTTTGGATGC
66 CGAGTTCGGATGC
45940079 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:45940094 original size:46 final size:45
Alignment explanation
Indices: 45939905--45940094 Score: 131
Period size: 46 Copynumber: 4.1 Consensus size: 45
45939895 CCCGCCCCTA
* * * * * *
45939905 AGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCTCAACCATCT
*
45939951 AATGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * * *
45939998 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCT
*
45940044 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
45940090 AGTGA
1 AGTGA
45940095 CATGTCACTT
Statistics
Matches: 114, Mismatches: 15, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
43 1 0.01
44 11 0.10
45 4 0.04
46 62 0.54
47 31 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:45940530 original size:30 final size:30
Alignment explanation
Indices: 45940496--45940555 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
45940486 ATTTAATACG
45940496 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
45940526 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
45940556 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:45942067 original size:22 final size:22
Alignment explanation
Indices: 45942042--45942085 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
45942032 ATGCATTTTT
45942042 CATAAAAGTTATTTTAAAATGA
1 CATAAAAGTTATTTTAAAATGA
45942064 CATAAAAGTTATTTTAAAATGA
1 CATAAAAGTTATTTTAAAATGA
45942086 AACAAACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (22 bp):
CATAAAAGTTATTTTAAAATGA
Found at i:45943708 original size:18 final size:18
Alignment explanation
Indices: 45943685--45943719 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
45943675 GATAATGGTT
*
45943685 GCAAGAAAGAAGGACAAA
1 GCAAGAAAGAAAGACAAA
45943703 GCAAGAAAGAAAGACAA
1 GCAAGAAAGAAAGACAA
45943720 GGTTTTTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.11, G:0.26, T:0.00
Consensus pattern (18 bp):
GCAAGAAAGAAAGACAAA
Found at i:45952957 original size:50 final size:50
Alignment explanation
Indices: 45952843--45953108 Score: 223
Period size: 50 Copynumber: 5.5 Consensus size: 50
45952833 AGATGCCGAC
* * * * * *
45952843 GCCATGTCTCGGACATGGTCTTACACTG--GCTCACACATCAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAGGTCGAT
** *
45952891 GATATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAGGTCGAT
* * * * * *
45952941 GCCATGTCCCAAACATGGTCTTACATTGGCTCTCATATGTCG-GTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAG-GTCGAT
* * *
45952991 GCCATGTCCCAGACATGGTCTTACACT-A---ACACATATC-AAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAGGTCGAT
* * * * *
45953036 TCCATGTCCCAGACATGGTTTTATACTGACTCT-A-ATATTGTGGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAGGTCGAT
*
45953084 G-CATGTCCCAAACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
45953109 AGCACACATA
Statistics
Matches: 174, Mismatches: 35, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
45 30 0.17
46 15 0.09
47 17 0.10
48 30 0.17
49 1 0.01
50 81 0.47
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAGGTCGAT
Found at i:45953816 original size:20 final size:20
Alignment explanation
Indices: 45953791--45953829 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
45953781 CAATTTCAAA
45953791 CATTTCACACAATTACCATC
1 CATTTCACACAATTACCATC
45953811 CATTTCACACAATTACCAT
1 CATTTCACACAATTACCAT
45953830 TTTCTTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (20 bp):
CATTTCACACAATTACCATC
Found at i:45961038 original size:21 final size:22
Alignment explanation
Indices: 45961010--45961070 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
45961000 TACACAGCCT
*
45961010 GTCC-CACGGTCATGT-CCTTA
1 GTCCACACGGCCATGTGCCTTA
*
45961030 GTCCACACGGCCGTGTGCCTTA
1 GTCCACACGGCCATGTGCCTTA
* *
45961052 GT-CACACGACCATATGCCT
1 GTCCACACGGCCATGTGCCT
45961071 CTCTTCATAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 4 0.12
21 23 0.68
22 7 0.21
ACGTcount: A:0.18, C:0.36, G:0.21, T:0.25
Consensus pattern (22 bp):
GTCCACACGGCCATGTGCCTTA
Found at i:45970674 original size:25 final size:25
Alignment explanation
Indices: 45970637--45970693 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
45970627 GGTTACAGAT
*
45970637 TTCAGCTCTTATGAGCTTAACGATA
1 TTCAGCTCATATGAGCTTAACGATA
* *
45970662 TTCAGCTCATATGAGCTTACCGTTA
1 TTCAGCTCATATGAGCTTAACGATA
45970687 TTCAGCT
1 TTCAGCT
45970694 TGGATAAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (25 bp):
TTCAGCTCATATGAGCTTAACGATA
Found at i:45977168 original size:9 final size:9
Alignment explanation
Indices: 45977154--45977181 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
45977144 TAGGCTCGTA
45977154 TAATGAAAT
1 TAATGAAAT
45977163 TAATGAAAT
1 TAATGAAAT
45977172 TAATGAAAT
1 TAATGAAAT
45977181 T
1 T
45977182 TCCTGGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.36
Consensus pattern (9 bp):
TAATGAAAT
Found at i:45978533 original size:28 final size:29
Alignment explanation
Indices: 45978469--45978533 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
45978459 TTTTCATTTA
* *
45978469 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* *
45978498 TTTCTCAATTTAATCCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
45978526 TTTGTCAA
1 TTTCTCAA
45978534 AAATCACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.29, C:0.25, G:0.03, T:0.43
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:45982748 original size:14 final size:14
Alignment explanation
Indices: 45982731--45982757 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45982721 GTAAAACAAT
45982731 GAAAATATTTTACG
1 GAAAATATTTTACG
45982745 GAAAATATTTTAC
1 GAAAATATTTTAC
45982758 TGGCAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
GAAAATATTTTACG
Found at i:45991841 original size:28 final size:27
Alignment explanation
Indices: 45991810--45991871 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
45991800 ATTGTGATTA
*
45991810 TACTGTTTTGGGCATAGGCCCACACTG
1 TACTGTTTAGGGCATAGGCCCACACTG
** * *
45991837 TTACTGCATAGGGCCTAGGCCCAGACTG
1 -TACTGTTTAGGGCATAGGCCCACACTG
45991865 TACTGTT
1 TACTGTT
45991872 AATGAATAGG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (27 bp):
TACTGTTTAGGGCATAGGCCCACACTG
Found at i:45991881 original size:33 final size:34
Alignment explanation
Indices: 45991833--45991904 Score: 94
Period size: 33 Copynumber: 2.1 Consensus size: 34
45991823 ATAGGCCCAC
* * *
45991833 ACTGTTACTGCATAGGGC-CTAGGCCCAGACTG-T
1 ACTGTTAATGAATAGGGCTC-AGGCCCAGACCGTT
45991866 ACTGTTAATGAATAGGGCTCAGGCCCAGACCGTT
1 ACTGTTAATGAATAGGGCTCAGGCCCAGACCGTT
45991900 ACTGT
1 ACTGT
45991905 ATGCACTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (34 bp):
ACTGTTAATGAATAGGGCTCAGGCCCAGACCGTT
Found at i:45992737 original size:19 final size:20
Alignment explanation
Indices: 45992703--45992740 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
45992693 TACTATAGCC
45992703 ATTTAAGTTGTCCTTAGCTT
1 ATTTAAGTTGTCCTTAGCTT
*
45992723 ATTTAATTTGT-CTTAGCT
1 ATTTAAGTTGTCCTTAGCT
45992741 CCTACAGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (20 bp):
ATTTAAGTTGTCCTTAGCTT
Found at i:45995065 original size:24 final size:24
Alignment explanation
Indices: 45995035--45995298 Score: 435
Period size: 24 Copynumber: 11.1 Consensus size: 24
45995025 GAATGTGACT
* *
45995035 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
45995059 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
45995083 ATAGTAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
45995106 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
45995130 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
45995153 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
45995177 ATAGTAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
45995200 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
* *
45995224 ATAATGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
45995248 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
45995272 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
45995296 ATA
1 ATA
45995299 TGGTCTTTGC
Statistics
Matches: 229, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
23 68 0.30
24 161 0.70
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:45995128 original size:47 final size:47
Alignment explanation
Indices: 45995035--45995294 Score: 423
Period size: 47 Copynumber: 5.5 Consensus size: 47
45995025 GAATGTGACT
* *
45995035 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGC-ATAGTAAATCGCACACATAGTGCC
45995083 ATAGTAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTGCC
* *
45995130 ATA-TGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTG-CATAGTAAATCGCACACATAGTGCC
45995177 ATAGTAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTGCC
* * *
45995224 ATAATGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTG-CATAGTAAATCGCACACATAGTGCC
45995272 ATAGTAAATCGCACACATAGTGC
1 ATAGTAAATCGCACACATAGTGC
45995295 CATATGGTCT
Statistics
Matches: 198, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
46 17 0.09
47 98 0.49
48 83 0.42
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.21
Consensus pattern (47 bp):
ATAGTAAATCGCACACATAGTGCATAGTAAATCGCACACATAGTGCC
Found at i:45995181 original size:71 final size:72
Alignment explanation
Indices: 45995035--45995298 Score: 444
Period size: 71 Copynumber: 3.7 Consensus size: 72
45995025 GAATGTGACT
* * * *
45995035 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
45995100 TAGTG-C
66 TAGTGCC
*
45995106 ATAGTAAATCGCACACATAGTGCCATA-TGAATCGCACACATAGTGCCATAGTGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
45995170 TAGTGCC
66 TAGTGCC
*
45995177 ATAGTAAATCGCACACATAGTG-CATAGTAAATCGCACACATAGTGCCATAATGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
45995241 TAGTGCC
66 TAGTGCC
*
45995248 ATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
45995299 TGGTCTTTGC
Statistics
Matches: 182, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
70 43 0.24
71 111 0.61
72 28 0.15
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (72 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
TAGTGCC
Found at i:46003085 original size:24 final size:24
Alignment explanation
Indices: 46003055--46003320 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
46003045 GAATGTGACT
* *
46003055 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46003079 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003103 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003127 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46003151 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46003175 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003199 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003223 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46003247 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46003270 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003294 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46003318 ATA
1 ATA
46003321 TGGTCTTTGC
Statistics
Matches: 235, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
23 22 0.09
24 213 0.91
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46009030 original size:39 final size:40
Alignment explanation
Indices: 46008907--46009072 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
46008897 AAATTGAATG
* * *
46008907 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
46008946 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
46008986 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
46009025 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
46009065 ATATCCGG
1 ATATCCGG
46009073 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:46009039 original size:79 final size:79
Alignment explanation
Indices: 46008907--46009056 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
46008897 AAATTGAATG
*
46008907 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
46008972 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
46008986 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
46009049 ATTTGTGC
64 AATTGTGC
46009057 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:46016977 original size:40 final size:40
Alignment explanation
Indices: 46016911--46017061 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
46016901 AAATTGAATG
* * *
46016911 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
46016950 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
46016990 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
46017030 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
46017062 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:46021865 original size:24 final size:24
Alignment explanation
Indices: 46021835--46022101 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
46021825 GAATGTGACT
* *
46021835 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46021859 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46021883 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46021907 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46021931 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46021955 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46021979 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46022003 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46022027 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46022051 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46022075 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46022099 ATA
1 ATA
46022102 TGGTCTTTGC
Statistics
Matches: 239, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 239 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46029895 original size:24 final size:24
Alignment explanation
Indices: 46029865--46030131 Score: 471
Period size: 24 Copynumber: 11.1 Consensus size: 24
46029855 GAATGTGACT
* *
46029865 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46029889 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46029913 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46029937 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46029961 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46029985 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46030009 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46030033 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46030057 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46030081 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46030105 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46030129 ATA
1 ATA
46030132 TGGTCTTTGC
Statistics
Matches: 237, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 237 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46037902 original size:24 final size:24
Alignment explanation
Indices: 46037872--46038135 Score: 435
Period size: 24 Copynumber: 11.1 Consensus size: 24
46037862 GAATGTGACT
* *
46037872 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
46037896 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46037920 ATAGTAAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
46037943 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46037967 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46037990 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46038014 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46038038 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46038062 ATA-TGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46038085 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
46038109 ATAGTAAACCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
46038133 ATA
1 ATA
46038136 TGGTCTTTGC
Statistics
Matches: 230, Mismatches: 7, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
23 67 0.29
24 163 0.71
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:46038082 original size:95 final size:95
Alignment explanation
Indices: 46037878--46038135 Score: 473
Period size: 95 Copynumber: 2.7 Consensus size: 95
46037868 GACTATAGCA
* **
46037878 AATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTG-
1 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
46037942 CATAGTAAATCGCACACATAGTGCCATATG
66 CATAGTAAATCGCACACATAGTGCCATATG
46037972 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
46038037 CATAGTAAATCGCACACATAGTGCCATATG
66 CATAGTAAATCGCACACATAGTGCCATATG
*
46038067 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAACCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
46038132 CATA
66 CATA
46038136 TGGTCTTTGC
Statistics
Matches: 159, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 61 0.38
95 98 0.62
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (95 bp):
AATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
CATAGTAAATCGCACACATAGTGCCATATG
Found at i:46038137 original size:71 final size:72
Alignment explanation
Indices: 46037872--46038135 Score: 444
Period size: 71 Copynumber: 3.7 Consensus size: 72
46037862 GAATGTGACT
* * * *
46037872 ATAGCAAATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
46037937 TAGTG-C
66 TAGTGCC
*
46037943 ATAGTAAATCGCACACATAGTGCCATA-TGAATCGCACACATAGTGCCATAGTGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
46038007 TAGTGCC
66 TAGTGCC
46038014 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA-TGAATCGCACACA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
46038078 TAGTGCC
66 TAGTGCC
* *
46038085 ATAGTGAATCGCACACATAGTGCCATAGTAAACCGCACACATAGTGCCATA
1 ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
46038136 TGGTCTTTGC
Statistics
Matches: 183, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
70 39 0.21
71 122 0.67
72 22 0.12
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.20
Consensus pattern (72 bp):
ATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACA
TAGTGCC
Found at i:46043452 original size:28 final size:27
Alignment explanation
Indices: 46043389--46043458 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
46043379 ATAGTGAGTC
*
46043389 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
46043416 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
46043444 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46043459 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:46050546 original size:17 final size:17
Alignment explanation
Indices: 46050524--46050559 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46050514 CCACATCTAT
46050524 AACATGCTCCATTTCTC
1 AACATGCTCCATTTCTC
46050541 AACATGCTCCATTTCTC
1 AACATGCTCCATTTCTC
46050558 AA
1 AA
46050560 ACGGCATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (17 bp):
AACATGCTCCATTTCTC
Found at i:46059872 original size:17 final size:17
Alignment explanation
Indices: 46059850--46059889 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
46059840 CCCCTAGGTG
*
46059850 TGGGCCATTGCATTGAT
1 TGGGCCACTGCATTGAT
46059867 TGGGCCACTGCATTGAT
1 TGGGCCACTGCATTGAT
46059884 TGGGCC
1 TGGGCC
46059890 GCACTCGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.30
Consensus pattern (17 bp):
TGGGCCACTGCATTGAT
Found at i:46064007 original size:31 final size:31
Alignment explanation
Indices: 46063972--46064035 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
46063962 TCTTAAGAAT
46063972 GATTCATTTATAAATATTTAAAACTTGTTAC
1 GATTCATTTATAAATATTTAAAACTTGTTAC
46064003 GATTCATTTATAAATATTTAAAACTTGTTAC
1 GATTCATTTATAAATATTTAAAACTTGTTAC
46064034 GA
1 GA
46064036 ATATCACGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (31 bp):
GATTCATTTATAAATATTTAAAACTTGTTAC
Found at i:46078715 original size:19 final size:19
Alignment explanation
Indices: 46078672--46078718 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
46078662 ATGGCAAAGT
*
46078672 ATGTGAATTGGAAATGAAA
1 ATGTGGATTGGAAATGAAA
*
46078691 AAGTGGATTGGAAAATG-AA
1 ATGTGGATTGG-AAATGAAA
46078710 ATGTGGATT
1 ATGTGGATT
46078719 ATGTTGTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (19 bp):
ATGTGGATTGGAAATGAAA
Done.