Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 170 of 292
Found at i:50533128 original size:43 final size:42
Alignment explanation
Indices: 50533026--50533136 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 42
50533016 TAAGATTCTG
* *
50533026 TGTAAGACCATATCT-GGATTATGGAATCGATACGAGACTTCG
1 TGTAAGACCATATCTGGGA-TATGGCATCGATACGAGACTTCA
* * * * *
50533068 TGAAAGACCACAGCTGGGCTATTGGCATTGATACGAGA-TTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGACTT-CA
50533111 TGTAAGACCATATCTGGGATATGGCA
1 TGTAAGACCATATCTGGGATATGGCA
50533137 GTGGTACAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
42 21 0.38
43 34 0.62
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTTCA
Found at i:50535223 original size:17 final size:18
Alignment explanation
Indices: 50535201--50535235 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50535191 GGAATAGAAA
*
50535201 AAAATTAT-TAGGTTGGT
1 AAAATTATATAAGTTGGT
50535218 AAAATTATATAAGTTGGT
1 AAAATTATATAAGTTGGT
50535236 TTAAGGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (18 bp):
AAAATTATATAAGTTGGT
Found at i:50541284 original size:50 final size:50
Alignment explanation
Indices: 50541201--50541479 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
50541191 CTGGTATGCA
* * *
50541201 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAGCAATCTC-ATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATC-CGATACACG
* * ** *
50541251 TAGTAGCCTACGCTTAGTACTATGCACGTGACCTAACCATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGATACACG
* * * * * * *
50541301 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGCTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCCGATACACG
* * * * * *
50541352 TAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTGGTTCACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGATACACG
* * * ** * *
50541402 TAGTAGCCTGCACTTTGTACTACACACATGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCCGATACACG
* *
50541454 TAGTAGCCTACACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
50541480 TGTGTTCTCA
Statistics
Matches: 182, Mismatches: 43, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
49 1 0.01
50 108 0.59
51 40 0.22
52 33 0.18
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCCGATACACG
Found at i:50541434 original size:151 final size:152
Alignment explanation
Indices: 50541183--50541479 Score: 398
Period size: 151 Copynumber: 2.0 Consensus size: 152
50541173 CCTTGTAACT
* * * * *
50541183 GAAGCTCTCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAGCAATCTCATAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTCATAC
* ** * * * *
50541248 ACGTAGTAGCCTACGCTTAGTACTATGCACGTGACCT-AACCATCCGATACACGTAGTAGCCTGC
66 ACGTAGTAGCCTACACTTAGTACTACACACATGACCTAAACCATCCGAAACACATAGTAGCCTAC
*
50541312 ACTTAGTACTACACACGTGATC
131 ACATAGTACTACACACGTGATC
** *
50541334 GAAGCTATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTGGTTC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTCATAC
* * **
50541399 ACGTAGTAGCCTGCACTTTGTACTACACACATGACCTAAAACCATCTTAAACACATAGTAGCCTA
66 ACGTAGTAGCCTACACTTAGTACTACACACATGACCT-AAACCATCCGAAACACATAGTAGCCTA
50541464 CACATAGTACTACACA
130 CACATAGTACTACACA
50541480 TGTGTTCTCA
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
151 88 0.71
153 36 0.29
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (152 bp):
GAAGCTATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTCATAC
ACGTAGTAGCCTACACTTAGTACTACACACATGACCTAAACCATCCGAAACACATAGTAGCCTAC
ACATAGTACTACACACGTGATC
Found at i:50547605 original size:50 final size:50
Alignment explanation
Indices: 50547522--50547800 Score: 245
Period size: 50 Copynumber: 5.5 Consensus size: 50
50547512 CTGGTATGCA
* * * * *
50547522 TAGTAGCCTACACTTAGCACTACACATGCGACCTAACTATCTCATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* *
50547572 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
* * * * * * * * ** *
50547622 TAGTATCATGCACTTAGTACTATAGACGTGATCGAAGCTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CTATCTGATACACG
* * * *
50547673 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCT-AGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGA-TACACG
* ** * * *
50547723 TAGTATCCTGCACTTAGTACTACACACGTGACCTAAAACCGTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACTATCTGATACACG
* *
50547775 TAGAAGCCTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
50547801 TGTGTTCTCA
Statistics
Matches: 181, Mismatches: 43, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
50 111 0.61
51 36 0.20
52 33 0.18
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
Found at i:50547696 original size:101 final size:101
Alignment explanation
Indices: 50547572--50547753 Score: 276
Period size: 101 Copynumber: 1.8 Consensus size: 101
50547562 CTCATACACG
* * *
50547572 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCT-GATACACGTAGTATCATGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAG-TACACGTAGTATCATGCACT
* *
50547636 TAGTACTATAGACGTGATCGAAGCTATCGGGTATGCA
65 TAGTACTACACACGTGATCGAAGCTATCGGGTATGCA
* * *
50547673 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTAGTACACTTAGTATCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAGTACACGTAGTATCATGCACTT
50547738 AGTACTACACACGTGA
66 AGTACTACACACGTGA
50547754 CCTAAAACCG
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
101 71 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTAGTACACGTAGTATCATGCACTT
AGTACTACACACGTGATCGAAGCTATCGGGTATGCA
Found at i:50577252 original size:19 final size:19
Alignment explanation
Indices: 50577199--50577245 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
50577189 ACACTAAAAA
* *
50577199 AATTAAATTTTTAAAAATT
1 AATTAAAATATTAAAAATT
*
50577218 ATTTAAAATATTAAAAATT
1 AATTAAAATATTAAAAATT
50577237 AATTAAAAT
1 AATTAAAAT
50577246 CATAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAAATATTAAAAATT
Found at i:50577637 original size:26 final size:26
Alignment explanation
Indices: 50577608--50577661 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
50577598 TTTTATATTT
* * *
50577608 TTTAATTTTTTTATCATTTTTAAAGA
1 TTTAAATTTTTTATAATTTCTAAAGA
*
50577634 TTTAAATTTTTTATAATTTCTAATGA
1 TTTAAATTTTTTATAATTTCTAAAGA
50577660 TT
1 TT
50577662 CTTATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTAAATTTTTTATAATTTCTAAAGA
Found at i:50579367 original size:21 final size:21
Alignment explanation
Indices: 50579343--50579384 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
50579333 GTAAAAAACT
50579343 TTTTGAAATT-TTTTAATTTAA
1 TTTT-AAATTATTTTAATTTAA
**
50579364 TTTTATTTTATTTTAATTTAA
1 TTTTAAATTATTTTAATTTAA
50579385 AAGTGTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAAATTATTTTAATTTAA
Found at i:50581462 original size:2 final size:2
Alignment explanation
Indices: 50581400--50581444 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
50581390 ACAAATGCTT
50581400 TA TA -A 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
50581441 TA TA
1 TA TA
50581445 AAACAATGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:50583721 original size:25 final size:26
Alignment explanation
Indices: 50583672--50583718 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
50583662 TAATATTTTG
50583672 TTTTAAA-TATTTATAATAAATTTAA
1 TTTTAAATTATTTATAATAAATTTAA
50583697 TTTTAAATTA-TTA-AATAAATTT
1 TTTTAAATTATTTATAATAAATTT
50583719 TAAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.43
25 10 0.48
26 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTTAAATTATTTATAATAAATTTAA
Found at i:50584143 original size:3 final size:3
Alignment explanation
Indices: 50584135--50584159 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50584125 TTCTTTATTC
50584135 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
50584160 ACAAATGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:50585945 original size:2 final size:2
Alignment explanation
Indices: 50585938--50585976 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
50585928 ATTCTTCATT
50585938 TA 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 TA T
50585977 CCTTACCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:50586406 original size:20 final size:20
Alignment explanation
Indices: 50586381--50586418 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50586371 GTCACATATA
50586381 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
50586401 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
50586419 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:50591206 original size:7 final size:7
Alignment explanation
Indices: 50591194--50591221 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
50591184 TGAAATTTTG
50591194 AAAATTT
1 AAAATTT
50591201 AAAATTT
1 AAAATTT
50591208 AAAATTT
1 AAAATTT
50591215 AAAATTT
1 AAAATTT
50591222 GGTCCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:50617246 original size:216 final size:216
Alignment explanation
Indices: 50616872--50617261 Score: 681
Period size: 216 Copynumber: 1.8 Consensus size: 216
50616862 ATTAGTAATA
*
50616872 AAAATTTAAATTACAATAGAAGTAAATGGATAAAGTAATAAAAATCGAGTGTTCCTAATATCTTA
1 AAAATTTAAATTACAATAGAAGTAAATGGATAAAGCAATAAAAATCGAGTGTTCCTAATATCTTA
* ** * *
50616937 GTTCCCTGGCAACGGCGCCAAAAACTTCATACGCGAGATATTTGTGGCAGGTTTTAAATATTTAT
66 GTTCCCCGGCAACGGCGCCAAAAACTTCATACGCGAGATATTCATGACAGGTTTTAAAAATTTAT
50617002 AATGAATCATTCTTGAAACTAACTATTATCACGATGAAGGCAAGCAGAAAAAGGGAACAAGAAGA
131 AATGAATCATTCTTGAAACTAACTATTATCACGATGAAGGCAAGCAGAAAAAGGGAACAAGAAGA
50617067 ATTAGTAATAAAAATTAAAAT
196 ATTAGTAATAAAAATTAAAAT
* * *
50617088 AAAATTTAAATTACAATAGAAGTAAATGGCTAAAGCAATAAAAATTGATTGTTCCTAATATCTTA
1 AAAATTTAAATTACAATAGAAGTAAATGGATAAAGCAATAAAAATCGAGTGTTCCTAATATCTTA
* *
50617153 GTTCCCCGGCAACGGCGCCAAAAACTTGATACGCGTGATATTCATGACAGGTTTTAAAAATTTAT
66 GTTCCCCGGCAACGGCGCCAAAAACTTCATACGCGAGATATTCATGACAGGTTTTAAAAATTTAT
50617218 AATGAATCATTCTTGAAACTAACTATTATCACGATGAAGGCAAG
131 AATGAATCATTCTTGAAACTAACTATTATCACGATGAAGGCAAG
50617262 TGTACCTATC
Statistics
Matches: 163, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
216 163 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (216 bp):
AAAATTTAAATTACAATAGAAGTAAATGGATAAAGCAATAAAAATCGAGTGTTCCTAATATCTTA
GTTCCCCGGCAACGGCGCCAAAAACTTCATACGCGAGATATTCATGACAGGTTTTAAAAATTTAT
AATGAATCATTCTTGAAACTAACTATTATCACGATGAAGGCAAGCAGAAAAAGGGAACAAGAAGA
ATTAGTAATAAAAATTAAAAT
Found at i:50620780 original size:98 final size:98
Alignment explanation
Indices: 50620665--50620895 Score: 329
Period size: 98 Copynumber: 2.4 Consensus size: 98
50620655 GCACATTAAA
* * *
50620665 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGGCTGATGTCGTGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCAAGGCCGATGCCGTGTCCC
* *
50620730 AAATAGGTCTTACACTAGCTCTCATTTATTGGT
66 AAACAGGTCTTACACTAGCTCTCATTTATCGGT
* * * *
50620763 GTCGATGCCATGCCCCAGACAAGTCTTGCACA-GACTTTCATATATTAAGGCCGATGCCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACA-ATGACTTTCATATATCAAGGCCGATGCCGTGTCC
* * *
50620827 CAGACAGGTCTTGCACTGGCTCTCATTTATCGGT
65 CAAACAGGTCTTACACTAGCTCTCATTTATCGGT
*
50620861 GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAATGAC
50620896 ACACAACAAG
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
98 114 0.99
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.29
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCAAGGCCGATGCCGTGTCCC
AAACAGGTCTTACACTAGCTCTCATTTATCGGT
Found at i:50620893 original size:49 final size:48
Alignment explanation
Indices: 50620621--50620893 Score: 221
Period size: 49 Copynumber: 5.6 Consensus size: 48
50620611 TAAGATGCCA
* **
50620621 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACA-TTA--AAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCT--CTCATTTATCGGGTCG
* * * *
50620669 ATGCCATGTCCCAGACAGGTCTTACAATGACTTTCATATATCGAGG-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCG-GGTC-G
* * * * * *
50620718 ATGTCGTGTCCCAAATAGGTCTTACACTAGCTCTCATTTATTGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCGG-GTCG
* * * * * * * ** *
50620767 ATGCCATGCCCCAGACAAGTCTTGCACAGACTTTCATATATTAAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTA-TCGGGTCG
* *
50620816 ATGCCGTGTCCCAGACAGGTCTTGCACTGGCTCTCATTTATCGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCGG-GTCG
50620865 ATGCCATGTCCCAGACAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
50620894 ACACACAACA
Statistics
Matches: 172, Mismatches: 44, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
45 2 0.01
46 2 0.01
47 13 0.08
48 21 0.12
49 131 0.76
50 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCGGGTCG
Found at i:50625564 original size:17 final size:18
Alignment explanation
Indices: 50625522--50625570 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
50625512 AGTTGAAAAG
50625522 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
50625541 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
50625558 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
50625571 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:50626454 original size:40 final size:40
Alignment explanation
Indices: 50626388--50626554 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
50626378 AAATTGAATG
* * *
50626388 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50626427 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50626467 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50626507 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50626547 ATATCCGG
1 ATATCCGG
50626555 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50633565 original size:17 final size:18
Alignment explanation
Indices: 50633523--50633571 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
50633513 AGTTGAAAAG
50633523 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
50633542 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
50633559 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
50633572 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:50634456 original size:40 final size:40
Alignment explanation
Indices: 50634390--50634556 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
50634380 AAATTGAATG
* * *
50634390 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50634429 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
50634469 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
50634509 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
50634549 ATATCCGG
1 ATATCCGG
50634557 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50638640 original size:40 final size:40
Alignment explanation
Indices: 50638545--50638729 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
50638535 GTGTCCGGAC
* * * * *
50638545 TAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAACCGGGT
* * *
50638586 CAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
50638626 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* * * * *
50638666 TAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
* *
50638706 TAATTCCCGAAGGCAATTGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGA
50638730 ATCACTATAA
Statistics
Matches: 125, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 106 0.85
41 19 0.15
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGT
Found at i:50638688 original size:80 final size:80
Alignment explanation
Indices: 50638544--50638771 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 80
50638534 GGTGTCCGGA
* * * * * *
50638544 CTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCG
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCG
50638609 AGTTACCAAAACCGAG
65 AGTTACCAAAACCGAG
* * *
50638625 TTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTCGTGCGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
* * * *
50638690 GTTACTAAATCTGGG
66 GTTACCAAAACCGAG
* * * * * * * * *
50638705 CTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGG-CAATGTCCCGAAGACAATCGAGCG
1 CTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAA-GTCCCGAAGGCATTCGTGCG
50638769 AGT
65 AGT
50638772 CGCTATATCC
Statistics
Matches: 122, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
79 2 0.02
80 99 0.81
81 21 0.17
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (80 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAAACCGGGTCAAGTCCCGAAGGCATTCGTGCGA
GTTACCAAAACCGAG
Found at i:50638754 original size:40 final size:39
Alignment explanation
Indices: 50638548--50638771 Score: 161
Period size: 40 Copynumber: 5.6 Consensus size: 39
50638538 TCCGGACTAA
** * *
50638548 GTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAAT
1 GTCCCGAAGGCAATTGTGC-GAGTTACTAAA-CCGGG-CAAT
* * **
50638590 -TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGAGTTAA-
1 GTCCCGAAGGCAATTGTGCGAGTTA-CTAAACCG-GGCAAT
* * *
50638629 GTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAA-
1 GTCCCGAAGGCAATTGTGCGAGTTA-CTAAACCGGG-CAAT
*
50638669 GTCCCGAAGGC-ATTCGTGCGAGTTACTAAATCTGGGCTAAT
1 GTCCCGAAGGCAATT-GTGCGAGTTACTAAA-CCGGGC-AAT
* *
50638710 -TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCAAT
1 GTCCCGAAGGCAATTGTGCGAGTTACTA-AACCGGGCAAT
* * *
50638749 GTCCCGAAGACAATCGAGCGAGT
1 GTCCCGAAGGCAATTGTGCGAGT
50638772 CGCTATATCC
Statistics
Matches: 153, Mismatches: 18, Indels: 24
0.78 0.09 0.12
Matches are distributed among these distances:
39 10 0.07
40 116 0.76
41 27 0.18
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
GTCCCGAAGGCAATTGTGCGAGTTACTAAACCGGGCAAT
Found at i:50641048 original size:23 final size:23
Alignment explanation
Indices: 50641022--50641069 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
50641012 ATCAAAGACC
50641022 CTAATGGTATTCTCCAACCAAAA
1 CTAATGGTATTCTCCAACCAAAA
50641045 CTAATGGTATTCTCCAACCAAAA
1 CTAATGGTATTCTCCAACCAAAA
50641068 CT
1 CT
50641070 CTACTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.08, T:0.27
Consensus pattern (23 bp):
CTAATGGTATTCTCCAACCAAAA
Found at i:50643279 original size:98 final size:98
Alignment explanation
Indices: 50643164--50643390 Score: 330
Period size: 98 Copynumber: 2.3 Consensus size: 98
50643154 GCACATTAAA
* * *
50643164 GTCGATGCCATGTCCCAGATAGGTCTTACA-ATAACTTTCATATATCGAGGCTGATGTCGTGTCC
1 GTCGATGCCATGTCCCAGACAGGTCTTACACA-AACTTTCATATATCGAGGCCGATGCCGTGTCC
*
50643228 CAAACAGGTCTTACACTGGCTCTCATTTATTGGT
65 CAAACAGGTCTTACACTGGCTCTCATTTATCGGT
* * * * * *
50643262 GTCGATGCCATGCCCCAGACAAGTCTTGCACAGACTTTCATATATTGAGGCCGATGCCGTGTCCT
1 GTCGATGCCATGTCCCAGACAGGTCTTACACAAACTTTCATATATCGAGGCCGATGCCGTGTCCC
* *
50643327 AGACAGGTCTTGCACTGGCTCTCATTTATCGGT
66 AAACAGGTCTTACACTGGCTCTCATTTATCGGT
50643360 GTCGATGCCATGTCCCAGACAGGTCTTACAC
1 GTCGATGCCATGTCCCAGACAGGTCTTACAC
50643391 TGACACACAA
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
98 112 0.99
99 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.30
Consensus pattern (98 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACAAACTTTCATATATCGAGGCCGATGCCGTGTCCC
AAACAGGTCTTACACTGGCTCTCATTTATCGGT
Found at i:50643288 original size:49 final size:49
Alignment explanation
Indices: 50643120--50643392 Score: 223
Period size: 49 Copynumber: 5.6 Consensus size: 49
50643110 TAAGATGCCA
** * ***
50643120 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA--CATTAAAGTCG
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATTTATTGGTGTCG
* * ** * * *
50643168 ATGCCATGTCCCAGATAGGTCTTACAATAACTTTCATATATCGAG-G-CTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATTG-GTGTC-G
* * *
50643217 ATGTCGTGTCCCAAACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
* * * * * * * *
50643266 ATGCCATGCCCCAGACAAGTCTTGCACAGACTTTCATATATTGAG-GCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATTG-GTGTCG
* * * *
50643315 ATGCCGTGTCCTAGACAGGTCTTGCACTGGCTCTCATTTATCGGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
50643364 ATGCCATGTCCCAGACAGGTCTTACACTG
1 ATGCCATGTCCCAGACAGGTCTTACACTG
50643393 ACACACAACA
Statistics
Matches: 173, Mismatches: 44, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
47 14 0.08
48 19 0.11
49 138 0.80
50 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATTGGTGTCG
Found at i:50643581 original size:46 final size:45
Alignment explanation
Indices: 50643453--50643581 Score: 161
Period size: 45 Copynumber: 2.8 Consensus size: 45
50643443 ATATCTTGAG
* *
50643453 GCTGATGCATGTCCTGGACATGTCTTACACTAGCTCTCGTCTCAAA
1 GCTGATGCATGTCC-AGACATGTCTTACACTAGCTCTCGCCTCAAA
* * *
50643499 GCCGATGC-GGTCCCAGAAATGTCTTACACTAGCTCTCGCCTCAAA
1 GCTGATGCATGT-CCAGACATGTCTTACACTAGCTCTCGCCTCAAA
* *
50643544 GTTGATGCATGTCTCAGACATGTCTTACACTGGCTCTC
1 GCTGATGCATGTC-CAGACATGTCTTACACTAGCTCTC
50643582 ATAATGTCGC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
45 37 0.53
46 33 0.47
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GCTGATGCATGTCCAGACATGTCTTACACTAGCTCTCGCCTCAAA
Found at i:50648858 original size:45 final size:45
Alignment explanation
Indices: 50648807--50649053 Score: 226
Period size: 45 Copynumber: 5.4 Consensus size: 45
50648797 GGATGTTACA
*
50648807 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTGAAG
1 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
* * * * * *
50648852 TTGCAGTAGAGAAGATTAAAGCTA-TAAACCTTATTTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
* * ** * * *
50648896 TTGCATTGGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAG
1 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
* * * * *
50648941 TTGTAGTGAAGCAGATTGAAAATAGCAAATCTTATTTCCCTGAAG
1 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
* * * *
50648986 TTGCAGTGGAACAGATTAAAGCTACAAATTGTAAATTTTATCTCCCTGAAG
1 TTGCAGTGGAGCAGATT---G--A-AGATAGTAAATCTTATCTCCCTGAAG
50649037 TTGCAGTGGAGCAGATT
1 TTGCAGTGGAGCAGATT
50649054 AAAATGATAA
Statistics
Matches: 160, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
44 36 0.22
45 84 0.52
48 1 0.01
50 1 0.01
51 38 0.24
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (45 bp):
TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
Found at i:50649014 original size:89 final size:89
Alignment explanation
Indices: 50648807--50649014 Score: 251
Period size: 89 Copynumber: 2.3 Consensus size: 89
50648797 GGATGTTACA
* * *
50648807 TTGCAGTGGAGCAGATTGAAGATAGTAAATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATTAAA
1 TTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGAAGATTAAA
* *
50648872 GCTATAAACCTTATTTCCCTGAAG
66 GATACAAACCTTATTTCCCTGAAG
* * * * *
50648896 TTGCATTGGAGTAGATCAAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGT-GAAGCAGATTGA
1 TTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAG-AGAAGATT-A
*
50648960 AA-ATAGCAAATCTTATTTCCCTGAAG
64 AAGATA-CAAACCTTATTTCCCTGAAG
* *
50648986 TTGCAGTGGAACAGATTAAAGCTA-CAAAT
1 TTGCAGTGGAGCAGATTAAAGATAGCAAAT
50649015 TGTAAATTTT
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
88 1 0.01
89 59 0.59
90 40 0.40
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (89 bp):
TTGCAGTGGAGCAGATTAAAGATAGCAAATCTTATCTCTCTAAAGTTGCAGTAGAGAAGATTAAA
GATACAAACCTTATTTCCCTGAAG
Found at i:50650846 original size:112 final size:113
Alignment explanation
Indices: 50650730--50650961 Score: 421
Period size: 112 Copynumber: 2.1 Consensus size: 113
50650720 CTGTCATTTG
50650730 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
*
50650795 TAATATTTCCTTTATTTTAGTTTTACAATTGGA-TTTTTATTTATTAC
66 TAATATTTACTTTATTTTAGTTTTACAATTGGATTTTTTATTTATTAC
50650842 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
1 TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
* *
50650907 TAATATTTATTTTATTTTATTTTTACAATTGGATTTTTTTATTTATTAC
66 TAATATTTACTTTATTTTAGTTTTACAATTGGA-TTTTTTATTTATTAC
50650956 TTATTT
1 TTATTT
50650962 ACTTAATATT
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
112 95 0.83
114 20 0.17
ACGTcount: A:0.26, C:0.08, G:0.04, T:0.62
Consensus pattern (113 bp):
TTATTTTATTATTTATTTATTTAGTTTCAATTTTAATCAAATGTTTCCTTTATTACTTATTTACT
TAATATTTACTTTATTTTAGTTTTACAATTGGATTTTTTATTTATTAC
Found at i:50650963 original size:58 final size:58
Alignment explanation
Indices: 50650778--50651006 Score: 265
Period size: 58 Copynumber: 4.0 Consensus size: 58
50650768 AAATGTTTCC
* *
50650778 TTTATTACTTATTTACTTAATATTTCCTTTATTTTAGTTTTACAATTGGA--TTTTTA
1 TTTATTACTTATTTACTTAATATTTACTTTATTTTATTTTTACAATTGGATTTTTTTA
* * * ** * * **
50650834 TTTATTACTTATTTTA-TTATTTATTTA-TTTAGTTTCAATTTT--AA-TCAAATGTTTCC
1 TTTATTACTTA-TTTACTTA-ATATTTACTTTA-TTTTATTTTTACAATTGGATTTTTTTA
*
50650890 TTTATTACTTATTTACTTAATATTTATTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTACTTTATTTTATTTTTACAATTGGATTTTTTTA
*
50650948 TTTATTACTTATTTACTTAATATTTCCTTTATTTTATTTTTACAATTGGATTTTTTTA
1 TTTATTACTTATTTACTTAATATTTACTTTATTTTATTTTTACAATTGGATTTTTTTA
50651006 T
1 T
50651007 ATTTTCTTTT
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
54 2 0.01
55 20 0.14
56 39 0.27
57 19 0.13
58 63 0.44
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (58 bp):
TTTATTACTTATTTACTTAATATTTACTTTATTTTATTTTTACAATTGGATTTTTTTA
Found at i:50650989 original size:27 final size:29
Alignment explanation
Indices: 50650885--50650990 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 29
50650875 TAATCAAATG
50650885 TTTCCTTTA--TTACTTATTTACTTAATA
1 TTTCCTTTATTTTACTTATTTACTTAATA
**
50650912 TTTATTTTATTTTA-TT-TTTAC--AATTGGA
1 TTTCCTTTATTTTACTTATTTACTTAA-T--A
*
50650940 TTT-TTTTATTTATTACTTATTTACTTAATA
1 TTTCCTTTA-TT-TTACTTATTTACTTAATA
50650970 TTTCCTTTATTTTA-TT-TTTAC
1 TTTCCTTTATTTTACTTATTTAC
50650991 AATTGGATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 24
0.70 0.03 0.26
Matches are distributed among these distances:
25 2 0.03
26 1 0.02
27 22 0.34
28 10 0.16
29 9 0.14
30 8 0.12
31 9 0.14
32 1 0.02
33 2 0.03
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTCCTTTATTTTACTTATTTACTTAATA
Found at i:50651005 original size:27 final size:28
Alignment explanation
Indices: 50650911--50651016 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 28
50650901 TTTACTTAAT
50650911 ATTTATTTTATTTTATTTTTACAATTGG
1 ATTTATTTTATTTTATTTTTACAATTGG
50650939 ATTT-TTTTATTTATTACTTATTTACTTAA-T--
1 ATTTATTTTA-TT-TTA-TT-TTTAC--AATTGG
**
50650969 ATTTCCTTTATTTTATTTTTACAATTGG
1 ATTTATTTTATTTTATTTTTACAATTGG
* *
50650997 ATTTTTTTATATTTTCTTTT
1 ATTTATTT-TATTTTATTTT
50651017 ATTGTGCCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 21
0.72 0.05 0.24
Matches are distributed among these distances:
25 2 0.03
26 1 0.02
27 10 0.16
28 14 0.22
29 16 0.25
30 8 0.13
31 9 0.14
32 1 0.02
33 2 0.03
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.67
Consensus pattern (28 bp):
ATTTATTTTATTTTATTTTTACAATTGG
Found at i:50651103 original size:20 final size:20
Alignment explanation
Indices: 50651078--50651128 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
50651068 AATTTAGATT
50651078 TTATTATTTTTTTGTTATCA
1 TTATTATTTTTTTGTTATCA
*
50651098 TTATTATTTTTTTGTTATTA
1 TTATTATTTTTTTGTTATCA
*
50651118 TCATT-TTTTTT
1 TTATTATTTTTT
50651129 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TTATTATTTTTTTGTTATCA
Found at i:50651110 original size:23 final size:22
Alignment explanation
Indices: 50651075--50651139 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
50651065 CAAAATTTAG
* *
50651075 ATTTTATTATTTTTTTGTTATC
1 ATTTTATTTTTTTTTTATTATC
*
50651097 ATTATTATTTTTTTGTTATTATC
1 ATT-TTATTTTTTTTTTATTATC
*
50651120 ATTTTTTTTATTTTTTTATT
1 ATTTTATTT-TTTTTTTATT
50651140 TACGCATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.22
23 28 0.78
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (22 bp):
ATTTTATTTTTTTTTTATTATC
Found at i:50652336 original size:20 final size:22
Alignment explanation
Indices: 50652291--50652338 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
50652281 AATAATAAAA
*
50652291 TATTTATAATATTGATATTAAT
1 TATTTTTAATATTGATATTAAT
50652313 TATTTTTAA-ATT-ATATT-AT
1 TATTTTTAATATTGATATTAAT
50652332 CTATTTT
1 -TATTTT
50652339 ACATTTTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 11 0.46
21 3 0.12
22 8 0.33
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TATTTTTAATATTGATATTAAT
Found at i:50653133 original size:27 final size:28
Alignment explanation
Indices: 50653067--50653134 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
50653057 TAAAAATTCC
* *
50653067 ATATCTATTTTTTATTTATATAATATAAA
1 ATATATATTATTTATTTATAT-ATATAAA
* *
50653096 A-ATAATTTTATTTATTTATAT-TTTAAA
1 ATAT-ATATTATTTATTTATATATATAAA
50653123 ATATATATTATT
1 ATATATATTATT
50653135 AAATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 13 0.41
28 4 0.12
29 15 0.47
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (28 bp):
ATATATATTATTTATTTATATATATAAA
Found at i:50657065 original size:167 final size:169
Alignment explanation
Indices: 50656872--50657186 Score: 451
Period size: 169 Copynumber: 1.9 Consensus size: 169
50656862 CATTCTTTTT
*
50656872 TTCTTTTCTTTTGACATGAAAAAATAATGACTAAATTTCAATTTTAAT-C-TCTACCTTT-TTGA
1 TTCTTTTCTTTTGACATGAAAAAATAATGACTAAATTTCAATTATAATCCATCTA-CTTTCTT-A
* * * ** *
50656934 A-ATTATATGAGAATGGTTAAATTTGATTTTTGATCCCAATATTACTTTTAAATTTGAGA-TTAT
64 AGATTATATAAGAATGGTGAAATTTCATTTTTGATCCCAATATTACACTCAAATTTGAGATTTA-
50656997 ATCTCTATACTTTAATTTTGACATAATTTAGACACCTATCCA
128 ATCTCTATACTTTAATTTTGACATAATTTAGACACCTATCCA
* *
50657039 TTCTTTTCTTTTGACATGAGAAAATAATGGCTAAATTTCAATTATAATCCATCTACTTTCTTAAG
1 TTCTTTTCTTTTGACATGAAAAAATAATGACTAAATTTCAATTATAATCCATCTACTTTCTTAAG
* * * *
50657104 ATTATATAATAATGGTGAAATTTCATTTTTGATTCCTATATTTCACTCAAATTTGAGATTTAATC
66 ATTATATAAGAATGGTGAAATTTCATTTTTGATCCCAATATTACACTCAAATTTGAGATTTAATC
50657169 TCTATACTTTAATTTTGA
131 TCTATACTTTAATTTTGA
50657187 TATCATTTGG
Statistics
Matches: 130, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
167 45 0.35
168 7 0.05
169 75 0.58
170 3 0.02
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (169 bp):
TTCTTTTCTTTTGACATGAAAAAATAATGACTAAATTTCAATTATAATCCATCTACTTTCTTAAG
ATTATATAAGAATGGTGAAATTTCATTTTTGATCCCAATATTACACTCAAATTTGAGATTTAATC
TCTATACTTTAATTTTGACATAATTTAGACACCTATCCA
Found at i:50659746 original size:27 final size:27
Alignment explanation
Indices: 50659687--50659769 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
50659677 CATTATACTT
* *
50659687 TGTATATTTTTATAAATATTATATA-TA
1 TGTACATTTTTA-ATATATTATATATTA
* *
50659714 TATACATTTTTAATATATTATATATTG
1 TGTACATTTTTAATATATTATATATTA
*
50659741 TGTACATACTTTTAATATTATTATGTATT
1 TGTACAT--TTTTAATA-TATTATATATT
50659770 CATTTTAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
26 11 0.24
27 17 0.37
29 8 0.17
30 10 0.22
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.55
Consensus pattern (27 bp):
TGTACATTTTTAATATATTATATATTA
Found at i:50660276 original size:15 final size:15
Alignment explanation
Indices: 50660238--50660276 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
50660228 TAATACCATA
50660238 TATATTATTATCATT
1 TATATTATTATCATT
** *
50660253 TATGCTATTATTATT
1 TATATTATTATCATT
50660268 TATATTATT
1 TATATTATT
50660277 GTATGGCCCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (15 bp):
TATATTATTATCATT
Found at i:50660727 original size:18 final size:17
Alignment explanation
Indices: 50660688--50660726 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
50660678 CCTAAAGGTG
*
50660688 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
50660705 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
50660722 ATTTT
1 ATTTT
50660727 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:50661012 original size:29 final size:29
Alignment explanation
Indices: 50660956--50661012 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
50660946 TCTCTTCTTT
* *
50660956 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
50660985 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
50661013 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:50661271 original size:11 final size:11
Alignment explanation
Indices: 50661253--50661282 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
50661243 GTGTATATTG
50661253 TATATATTATA
1 TATATATTATA
*
50661264 TTTATATTATA
1 TATATATTATA
50661275 TATATATT
1 TATATATT
50661283 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:50662747 original size:197 final size:197
Alignment explanation
Indices: 50662412--50662767 Score: 712
Period size: 197 Copynumber: 1.8 Consensus size: 197
50662402 ATCGGTGGCG
50662412 ACAATTAGCGACCAAGCGAAACTAAAATTTTTTTTTATGTCGCTACAATTATTATTTTTGTTATC
1 ACAATTAGCGACCAAGCGAAACTAAAATTTTTTTTTATGTCGCTACAATTATTATTTTTGTTATC
50662477 GTTTTCGTCATCATTGTCATTTTATTTTGCCATGCTTTATTTATTTTTATTCAATCATTTCATTT
66 GTTTTCGTCATCATTGTCATTTTATTTTGCCATGCTTTATTTATTTTTATTCAATCATTTCATTT
50662542 GCCTTATGCTTGTGTTTTATATTTCTATAAAATCGAAAGTTGGTTTTCAAATGTTTAATAAATCA
131 GCCTTATGCTTGTGTTTTATATTTCTATAAAATCGAAAGTTGGTTTTCAAATGTTTAATAAATCA
50662607 CC
196 CC
50662609 ACAATTAGCGACCAAGCGAAACTAAAATTTTTTTTTATGTCGCTACAATTATTATTTTTGTTATC
1 ACAATTAGCGACCAAGCGAAACTAAAATTTTTTTTTATGTCGCTACAATTATTATTTTTGTTATC
50662674 GTTTTCGTCATCATTGTCATTTTATTTTGCCATGCTTTATTTATTTTTATTCAATCATTTCATTT
66 GTTTTCGTCATCATTGTCATTTTATTTTGCCATGCTTTATTTATTTTTATTCAATCATTTCATTT
50662739 GCCTTATGCTTGTGTTTTATATTTCTATA
131 GCCTTATGCTTGTGTTTTATATTTCTATA
50662768 TTGCTAGCCT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 159 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (197 bp):
ACAATTAGCGACCAAGCGAAACTAAAATTTTTTTTTATGTCGCTACAATTATTATTTTTGTTATC
GTTTTCGTCATCATTGTCATTTTATTTTGCCATGCTTTATTTATTTTTATTCAATCATTTCATTT
GCCTTATGCTTGTGTTTTATATTTCTATAAAATCGAAAGTTGGTTTTCAAATGTTTAATAAATCA
CC
Found at i:50674666 original size:44 final size:43
Alignment explanation
Indices: 50674559--50675022 Score: 179
Period size: 44 Copynumber: 10.5 Consensus size: 43
50674549 TTCACCAGAC
* * * * * *
50674559 CTTAACCCCCTAAGCAGTAGGGTAATAGGTTGAA-TTCGA-AGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGAT-GACA-AG
50674602 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * *
50674645 CATTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGAT
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGACA-AG
* ** *
50674691 CTTATCCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGACGAG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * * * * * *
50674734 CTTTAACCCTCTAAGCAGTAGGGTAACA-AGCTAAAGTTCATAGAT
1 C-TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGACA-AG
* * * * * *
50674779 CTTATCACCCTAAGCAGTAGGGAAACAGATCAAAAGACGGCGAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGAC-AAG
* * ** * * * **
50674824 CTT-GCCTTCCTGAAGTTGCAGTGAAGCAGATTC-AA-ACCACCAAG
1 CTTAACC-CCCT-AAGCAGTAGGGAAACAGA-TCGAAGATGA-CAAG
* * * * * *
50674868 CCTTAATCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATCTACAGAT
1 -CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGAT-GACA-AG
* * * ** *
50674914 CTTAACCCTCTAAGCAGTAGGAAAATAGATCGAAGATGATGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
* * * * * ***
50674957 CTTATCACCCTAAGCAGTAGGGAAACGGATCAAAGAAGATGGG
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
50675000 CCTTAACCCCCTAAGCAGTAGGG
1 -CTTAACCCCCTAAGCAGTAGGG
50675023 TAATAGGCTG
Statistics
Matches: 311, Mismatches: 85, Indels: 49
0.70 0.19 0.11
Matches are distributed among these distances:
42 1 0.00
43 74 0.24
44 124 0.40
45 89 0.29
46 21 0.07
47 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAAG
Found at i:50674711 original size:89 final size:88
Alignment explanation
Indices: 50674560--50674809 Score: 344
Period size: 89 Copynumber: 2.8 Consensus size: 88
50674550 TCACCAGACC
* * *
50674560 TTAACCCCCTAAGCAGTAGGGTAATAGGTTG-A-ATTCGAAGATCTTAACCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTC-AAGATCTTATCCCCCTAAGCAGTAGG
*
50674623 GAAACAGATCGAAGATGACAAGCA
65 GAAACAGATCGAAGACGACAAGCA
*
50674647 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTATCCCCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCA-AGATCTTATCCCCCTAAGCAGTAGG
* * *
50674712 GAAACAGATCGAAGGCGACGAGCT
65 GAAACAGATCGAAGACGACAAGCA
* * * *
50674736 TTAACCCTCTAAGCAGTAGGGTAACAAGCTAAAG-TTCATAGATCTTATCACCCTAAGCAGTAGG
1 TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCA-AGATCTTATCCCCCTAAGCAGTAGG
50674800 GAAACAGATC
65 GAAACAGATC
50674810 AAAAGACGGC
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
87 29 0.20
88 39 0.27
89 78 0.53
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (88 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTCAAGATCTTATCCCCCTAAGCAGTAGGG
AAACAGATCGAAGACGACAAGCA
Found at i:50675318 original size:87 final size:87
Alignment explanation
Indices: 50675130--50675380 Score: 249
Period size: 87 Copynumber: 2.9 Consensus size: 87
50675120 CAAACCACCA
* * *
50675130 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTTATAGATATTATCGCCCTAAGCAGT
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAGACATTATC-CCCTAAGCAGT
* * ** *
50675195 AGGGAAATAGATCGAAGATGATG
65 AGGGAAACAGACCGAAGACAACG
* * * *
50675218 GGC-TAAACCCCCTAAGCGGTAGGGTAACAAGC-CAAATTTATAGACCTTGAAT-CCCTAAGCAG
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAGACATT--ATCCCCTAAGCAG
*
50675280 TAGGGAAACAGACCGAAGGCAACG
64 TAGGGAAACAGACCGAAGACAACG
* * ** *
50675304 AGCTTTAACTCCCTAAGCAGTAGGGTAACAAGCTGACGTTCATAAGATC-TTATCACCCTAAGCA
1 AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAATTTAT-AGA-CATTATC-CCCTAAGCA
*
50675368 GTAGGGAAGCAGA
63 GTAGGGAAACAGA
50675381 TCAAAAGACG
Statistics
Matches: 133, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
86 42 0.32
87 55 0.41
88 9 0.07
89 26 0.20
90 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (87 bp):
AGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCTCAAATTTATAGACATTATCCCCTAAGCAGTA
GGGAAACAGACCGAAGACAACG
Found at i:50677063 original size:15 final size:15
Alignment explanation
Indices: 50677025--50677066 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
50677015 TAATACCATA
*
50677025 TATATTATTATCATT
1 TATATTATTATTATT
**
50677040 TATGCTATTATTATT
1 TATATTATTATTATT
50677055 TATATTATTATT
1 TATATTATTATT
50677067 TTTGTTATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (15 bp):
TATATTATTATTATT
Found at i:50678952 original size:15 final size:14
Alignment explanation
Indices: 50678934--50678981 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
50678924 TGTGATTATG
50678934 GTTTGATTAATTAAA
1 GTTTGATTAATT-AA
*
50678949 GTTTAATTAAATTAA
1 GTTTGATT-AATTAA
*
50678964 TTTTGATTAATTAA
1 GTTTGATTAATTAA
50678978 GTTT
1 GTTT
50678982 ATACAAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 15 0.54
16 4 0.14
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
GTTTGATTAATTAA
Found at i:50684533 original size:16 final size:16
Alignment explanation
Indices: 50684509--50684539 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50684499 TATGGTATGA
*
50684509 ATGTGTTTAAATTTTT
1 ATGTATTTAAATTTTT
50684525 ATGTATTTAAATTTT
1 ATGTATTTAAATTTT
50684540 GTATATATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
ATGTATTTAAATTTTT
Found at i:50687745 original size:106 final size:106
Alignment explanation
Indices: 50687560--50687772 Score: 288
Period size: 106 Copynumber: 2.0 Consensus size: 106
50687550 AAATATTGCT
* * *
50687560 AATTAAATCAAATTTTATGAAAAATGCCTTCGTATTTTGAGTTAATCGAGAAGAAAATCATGTCT
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
*
50687625 CGTAAGTTTGGGCACAATGT-TTAGAATTC-CTAAAAATAAGA
66 CGTAAGTTAGGGCACAATGTCTT-GAATTCTC-AAAAATAAGA
* * * *
50687666 AATTAAATCAAATTTTATGAAGAATATCTTCGTATTTCGAGCTATTCGGGAAGAAAATCATGTC-
1 AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
* *
50687730 CTGTAAGTTAGGGCACGATGTCTTGAATTCTCGAAAATAAGA
66 C-GTAAGTTAGGGCACAATGTCTTGAATTCTCAAAAATAAGA
50687772 A
1 A
50687773 TGCTCATTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
105 1 0.01
106 90 0.96
107 3 0.03
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.32
Consensus pattern (106 bp):
AATTAAATCAAATTTTATGAAAAATACCTTCGTATTTCGAGCTAATCGAGAAGAAAATCATGTCT
CGTAAGTTAGGGCACAATGTCTTGAATTCTCAAAAATAAGA
Found at i:50689331 original size:24 final size:24
Alignment explanation
Indices: 50689286--50689331 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
50689276 CTTTGTGGTA
* *
50689286 TTTTTATTTCGATTCTTCTGATTT
1 TTTTTATTTCAATTATTCTGATTT
50689310 TTTTTATTTCAATGTATT-TGAT
1 TTTTTATTTCAAT-TATTCTGAT
50689332 CCCCCTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.17, C:0.09, G:0.09, T:0.65
Consensus pattern (24 bp):
TTTTTATTTCAATTATTCTGATTT
Found at i:50690250 original size:6 final size:6
Alignment explanation
Indices: 50690239--50690265 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
50690229 AGACATGTGA
50690239 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
50690266 GTATAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:50693609 original size:24 final size:24
Alignment explanation
Indices: 50693556--50693610 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
50693546 GAGGATATAT
50693556 TTGAGGAGGATGATACATGAGAGG
1 TTGAGGAGGATGATACATGAGAGG
* * * *
50693580 TGGAGGTGGGTGATACATTG-GTGG
1 TTGAGGAGGATGATACA-TGAGAGG
50693604 TTGAGGA
1 TTGAGGA
50693611 TGCATTTGAG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.25, C:0.04, G:0.45, T:0.25
Consensus pattern (24 bp):
TTGAGGAGGATGATACATGAGAGG
Found at i:50693685 original size:15 final size:16
Alignment explanation
Indices: 50693660--50693690 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
50693650 GGTGGATAAT
50693660 AAAAGTATGAAGGTTG
1 AAAAGTATGAAGGTTG
50693676 AAAA-TATGAAGGTTG
1 AAAAGTATGAAGGTTG
50693691 TTCTAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTATGAAGGTTG
Found at i:50694541 original size:14 final size:14
Alignment explanation
Indices: 50694503--50694545 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
50694493 CAAAATGTAC
50694503 AATATAATTAAA-T
1 AATATAATTAAATT
50694516 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
50694531 AA-ATAATTTAATT
1 AATATAATTAAATT
50694544 AA
1 AA
50694546 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:50695446 original size:17 final size:17
Alignment explanation
Indices: 50695424--50695469 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
50695414 GAAAAATGAG
50695424 AATTTTTAAAACACGAA
1 AATTTTTAAAACACGAA
* *
50695441 AATTTTGAAAACATGAA
1 AATTTTTAAAACACGAA
*
50695458 AATTTTTGAAAC
1 AATTTTTAAAAC
50695470 CTGAATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.33
Consensus pattern (17 bp):
AATTTTTAAAACACGAA
Found at i:50696094 original size:15 final size:17
Alignment explanation
Indices: 50696074--50696105 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
50696064 TTAGGAAACG
50696074 TACATAA-A-AAATATA
1 TACATAATATAAATATA
50696089 TACATAATATAAATATA
1 TACATAATATAAATATA
50696106 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:50697896 original size:91 final size:91
Alignment explanation
Indices: 50697792--50697958 Score: 237
Period size: 91 Copynumber: 1.8 Consensus size: 91
50697782 AATAGACAAT
* *
50697792 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCC-AAAGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGA-CCTAAAGCTCAACTCACCTCTCGCAATACGA
50697856 GTCGATTTTTTTGAAAGGCAAAAATTG
65 GTCGATTTTTTTGAAAGGCAAAAATTG
* * * * **
50697883 AAAAACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAG
1 AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAAGCTCAACTCACCTCTCGCAATACGAG
*
50697948 TTGATTTTTTT
66 TCGATTTTTTT
50697959 TTTTGACAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
90 2 0.03
91 64 0.97
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (91 bp):
AAAAACAGAAATTGAAAATACCTCAGCGCGTGACCTAAAGCTCAACTCACCTCTCGCAATACGAG
TCGATTTTTTTGAAAGGCAAAAATTG
Found at i:50698143 original size:74 final size:73
Alignment explanation
Indices: 50698062--50698275 Score: 254
Period size: 74 Copynumber: 2.9 Consensus size: 73
50698052 TTAAAAGCAG
* * *
50698062 AAATTGAAATTAACTCAACTTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
50698127 GA-AGGACAA
66 GACA--ACAA
* * * * **
50698136 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAACTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
50698201 TGACAATAA
65 TGACAACAA
*
50698210 AAATTGAAATTACCTC-AGTGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTT
1 AAATTGAAATTACCTCAACT-TG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTT
50698273 TTT
63 TTT
50698276 TGAAAAATAT
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
74 107 0.91
75 10 0.08
76 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.34
Consensus pattern (73 bp):
AAATTGAAATTACCTCAACTTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GACAACAA
Found at i:50698329 original size:164 final size:163
Alignment explanation
Indices: 50698136--50698441 Score: 452
Period size: 164 Copynumber: 1.9 Consensus size: 163
50698126 TGAAGGACAA
* * ** *
50698136 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTT
* * * **
50698201 TGACA-ATAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
65 TGAAAGAAAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
50698265 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAG
130 TTG-ATTTTTTTGAAAAATATAAATTGAAAAGCAG
* *
50698300 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* **
50698365 GAAAGAAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
66 GAAAGAAAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
50698430 TGATTTTTTTGA
131 TGATTTTTTTGA
50698442 CAACAGAAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
163 19 0.15
164 107 0.85
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (163 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
GAAAGAAAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAATATAAATTGAAAAGCAG
Found at i:50698378 original size:74 final size:74
Alignment explanation
Indices: 50698300--50698532 Score: 299
Period size: 74 Copynumber: 3.1 Consensus size: 74
50698290 TGAAAAGCAG
* *
50698300 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTT
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
50698364 TGAAAGAAAA
66 TGAAA-AAAA
* * * **
50698374 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
50698439 TGACAACAG
66 TGAAAAAAA
* *
50698448 AAATTGAAATTACCTCAGCGTGTCC-TGAAGCTCAACTCACCTCTCGTAATATGAGTTGAATTTT
1 AAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTT
*
50698512 TTTGAAAAATAT
64 TTTGAAAAA-AA
50698524 AAATTGAAA
1 AAATTGAAA
50698533 AGCAGAAATT
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
74 103 0.76
75 22 0.16
76 10 0.07
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (74 bp):
AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAAAA
Found at i:50698378 original size:238 final size:238
Alignment explanation
Indices: 50697891--50699316 Score: 1338
Period size: 238 Copynumber: 6.0 Consensus size: 238
50697881 TGAAAAACAG
* * * * *
50697891 AAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGTCTCTCGCAATACGAGTTGATTTT
1 AAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA---T
* *
50697956 TTTTTTTGACAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAAT
61 TTTTTTTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
* * * *
50698021 ATAAGTTGAATTTTTTTGAAAAAATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACTTGCC
126 ATGAGTTGAATTTTTTTG-AAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCC
* * * *
50698086 TTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAGGACAA
190 TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGAAAA
*
50698136 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
* *
50698200 TTGACAATAAAAATTGAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
50698265 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGG
131 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGG
*
50698330 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGAAAA
196 CTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAGAAAA
*
50698374 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
* * *
50698438 TTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGTAATATGAG
66 TTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
50698503 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGG
131 TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGG
* *
50698568 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA-ACAG
196 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAGAAAA
* * *
50698611 AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT-
* * *
50698676 AAAAATAGATTGAAACACAAAAATTGACAA-TACCTCCTCAGCGTGCCCCGAGGCTCAACTCACC
65 -----T---TTGACA-ACAAAAATTGA-AATTA---CCTCAGCGTGTCCTGAGGCTCAACTCACC
* *
50698740 TCTCGCAATATGAGTTG-A--TTTTTG----------A---AAAA-CAGGAATTGAAAATACCTC
117 TCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTC
*
50698788 AGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGA
182 AACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--------AAA--GA
50698852 ACAA
236 A-AA
* * *
50698856 AAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTT
* * * * ** *
50698921 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATAT
64 TTTTGACA-ACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
* * * *
50698986 GAGTTG-ATTTTTTTG--------AAA--G--AA--A-AAATTGAAAATACCTCAGCATGTCTTG
128 GAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTG
** ****
50699035 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTTTGACAACA
193 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAGA-AA-A
* * **
50699086 GAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 -AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-A----
* * * * *
50699151 TTTGAAAAATATAAATTTAAAAACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTT
60 TTT------T-T---TTTGACAACAAAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTC
* *
50699215 ACCTCTCGCAGTATGAGTTG-A---TTTT------T-T---TTGAAAAGCAGAAATTGAAAATAC
114 ACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTAC
* *
50699266 CTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
179 CTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
50699317 TTGAAACAGA
Statistics
Matches: 1028, Mismatches: 86, Indels: 137
0.82 0.07 0.11
Matches are distributed among these distances:
229 3 0.00
230 2 0.00
231 52 0.05
232 1 0.00
234 67 0.07
235 47 0.05
236 52 0.05
237 73 0.07
238 333 0.32
239 84 0.08
240 6 0.01
241 4 0.00
242 9 0.01
243 83 0.08
244 9 0.01
245 130 0.13
247 10 0.01
248 18 0.02
249 2 0.00
250 1 0.00
251 42 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (238 bp):
AAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
TTGACAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAGAAAA
Found at i:50698812 original size:73 final size:74
Alignment explanation
Indices: 50698527--50699159 Score: 442
Period size: 73 Copynumber: 8.1 Consensus size: 74
50698517 AAAATATAAA
* * *
50698527 TTGAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATG
50698591 AGTTGA-TTT
65 AGTTGATTTT
* * ** *
50698600 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
50698665 GTTGA-TTT
66 GTTGATTTT
* * ** * * * * * * *
50698673 TTGAAAAATAG--ATTGAAACACAAAAAT-TGACAATACCTCCTCAGCGTGCCCCGAGGCTCAAC
1 TTGAAAAACAGAAATTG-AA-A-ATACCTCAG-C-GT--GTCCT--GAG-G-CTC-A-ACTCAC-
50698735 TCACCTCTCGCAATATGAGTTGA-TTT
52 ----CTCTCGCAATATGAGTTGATTTT
*
50698761 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
50698826 GTTGA-TTT
66 GTTGATTTT
* * * **
50698834 TTGAAAAACATAAATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
1 TTGAAAAAC----A--G-----AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
50698899 TTGCAATATGAGTTGATTTTTTTT
55 TCGCAATATGAGTTGA----TTTT
* * * * ** *
50698923 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
50698988 GTTGATTTTT
66 GTTGA-TTTT
* * **
50698998 TTGAAAGAA-A-AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTGAAA-AACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
50699061 AGTTGATTTTTTTTTT
65 AGTTGA------TTTT
* *
50699077 TTG-ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
50699141 GTTGAATTTTT
66 GTTG-A-TTTT
50699152 TTGAAAAA
1 TTGAAAAA
50699160 TATAAATTTA
Statistics
Matches: 459, Mismatches: 53, Indels: 93
0.76 0.09 0.15
Matches are distributed among these distances:
71 4 0.01
72 2 0.00
73 106 0.23
74 63 0.14
75 21 0.05
76 4 0.01
77 7 0.02
78 62 0.14
79 65 0.14
80 4 0.01
81 3 0.01
82 3 0.01
83 4 0.01
84 56 0.12
85 1 0.00
86 1 0.00
87 4 0.01
88 32 0.07
89 13 0.03
90 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:50698966 original size:78 final size:78
Alignment explanation
Indices: 50698685--50699153 Score: 483
Period size: 79 Copynumber: 6.0 Consensus size: 78
50698675 GAAAAATAGA
* * * **
50698685 TTGAAACACAAAAATTGACAATACCTCCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAGACAAAAATTGAAAATA---CCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
50698750 TGAGTTGA-----TTT
63 TGAGTTGATTTTTTTT
* ** *
50698761 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
***
50698826 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * ** *
50698843 AT-AAATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATA
1 TTGAAA--G-ACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATA
50698907 TGAGTTGATTTTTTTT
63 TGAGTTGATTTTTTTT
* ** *
50698923 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
50698988 GTTGA---TTTTT
66 GTTGATTTTTTTT
* **
50698998 TTGAAAGA-AAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
50699062 GTTGATTTTTTTTTT
66 GTTGA--TTTTTTTT
* * * *
50699077 TTGACA-ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
50699141 GTTGAATTTTTTT
66 GTTGATTTTTTTT
50699154 GAAAAATATA
Statistics
Matches: 339, Mismatches: 35, Indels: 37
0.82 0.09 0.09
Matches are distributed among these distances:
73 45 0.13
74 60 0.18
75 13 0.04
76 19 0.06
77 7 0.02
78 61 0.18
79 66 0.19
80 1 0.00
81 6 0.02
82 1 0.00
84 60 0.18
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (78 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:50699235 original size:90 final size:90
Alignment explanation
Indices: 50699082--50699248 Score: 282
Period size: 90 Copynumber: 1.9 Consensus size: 90
50699072 TTTTTTTGAC
*
50699082 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
50699147 TTTTTTTGAAAAATATAAATTTAAA
66 TTTTTTTGAAAAATATAAATTTAAA
* *
50699172 AACAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGA
1 AACAGAAATTGAAATTACCTCAACGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
50699236 TTTTTTTTGAAAA
65 ATTTTTTTGAAAA
50699249 GCAGAAATTG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
89 2 0.03
90 70 0.97
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (90 bp):
AACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
TTTTTTTGAAAAATATAAATTTAAA
Found at i:50699267 original size:76 final size:74
Alignment explanation
Indices: 50699170--50699329 Score: 250
Period size: 76 Copynumber: 2.1 Consensus size: 74
50699160 TATAAATTTA
* * *
50699170 AAAACAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
50699235 ATTTTTTTTG
66 A-TTTTTTTG
* *
50699245 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTT
50699310 GATTTTTTTG
65 GATTTTTTTG
50699320 -AAACAGAAAT
1 AAAACAGAAAT
50699330 AAAAACATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 12 0.15
76 57 0.72
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:50699311 original size:245 final size:239
Alignment explanation
Indices: 50698527--50699318 Score: 899
Period size: 245 Copynumber: 3.3 Consensus size: 239
50698517 AAAATATAAA
* *
50698527 TTGAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
50698592 GTTGA-------TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
66 GTTGATTTTTTTTTTTTGAC-AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCA
* *
50698650 TTTCTCGTAATATGAGTTGA-TTTTTGAAAA-ATAGATTGAAACACAAAAATTGACAATACCTCC
130 TTTCTCGCAATATGAGTTGATTTTTTGAAAATATA-ATTGAAAAACAAAAATTGA-AATA---CC
**
50698713 TCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
190 TCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * *
50698761 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *** * * * *
50698826 GTTGATTTTTGAAAAACATAAATTG--AACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTC
66 GTTGATTTTT-------TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTC
* *
50698889 AACTCATTTCTTGCAATATGAGTTGATTTTTT-----T-T--TTGAAAGACAAAAATTGAAAATA
124 AACTCATTTCTCGCAATATGAGTTGATTTTTTGAAAATATAATTGAAAAACAAAAATTG-AAATA
* * ** *
50698946 CCTCAGCATGTCTTGAGGCTCAACTCATTTCTTGCAATATGAGTTGATTTTT
188 CCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * * * **
50698998 TTG-AAAGAAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
50699062 GTTGATTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
66 GTTGATTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAT
* * *
50699127 CTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTTAAAAACAGAAATTGAAATTACCT
131 TTCTCGCAATATGAGTTG-A-TTTTTTG-AAAATAT-AATTGAAAAACAAAAATTGAAA-TACCT
* * *
50699192 CAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTT
191 CAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
*
50699242 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
50699307 GTTGATTTTTTT
66 GTTGATTTTTTT
50699319 GAAACAGAAA
Statistics
Matches: 462, Mismatches: 60, Indels: 61
0.79 0.10 0.10
Matches are distributed among these distances:
229 4 0.01
231 56 0.12
232 1 0.00
233 6 0.01
234 64 0.14
235 40 0.09
236 63 0.14
237 6 0.01
238 20 0.04
239 2 0.00
240 1 0.00
241 1 0.00
242 3 0.01
243 55 0.12
244 8 0.02
245 124 0.27
246 5 0.01
248 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (239 bp):
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGATTTTTTGAAAATATAATTGAAAAACAAAAATTGAAATACCTCAGCG
TGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
Found at i:50700208 original size:12 final size:11
Alignment explanation
Indices: 50700181--50700214 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
50700171 TTGATCCCTC
50700181 TCTCTTTTTTT
1 TCTCTTTTTTT
50700192 T-TCTTTTCTTT
1 TCTCTTTT-TTT
50700203 TCTCTTTTTTT
1 TCTCTTTTTTT
50700214 T
1 T
50700215 AAGATGCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.29
11 9 0.43
12 6 0.29
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTCTTTTTTT
Found at i:50707649 original size:4 final size:4
Alignment explanation
Indices: 50707640--50707674 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
50707630 GGGATATGCC
*
50707640 ATGA ATGA ATGA ATGA ATGA ATGA ATGC ATGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
50707675 CTTGAATGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.26
Consensus pattern (4 bp):
ATGA
Found at i:50707675 original size:8 final size:8
Alignment explanation
Indices: 50707644--50707683 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
50707634 TATGCCATGA
*
50707644 ATGAATGA
1 ATGAATGC
*
50707652 ATGAATGA
1 ATGAATGC
50707660 ATGAATGC
1 ATGAATGC
50707668 ATGAATGC
1 ATGAATGC
*
50707676 TTGAATGC
1 ATGAATGC
50707684 CAAATGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (8 bp):
ATGAATGC
Found at i:50709589 original size:18 final size:18
Alignment explanation
Indices: 50709547--50709591 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
50709537 GAAAAATGAG
50709547 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
50709564 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
50709581 AATTTTTGAAA
1 AATTTTTGAAA
50709592 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:50710220 original size:15 final size:17
Alignment explanation
Indices: 50710200--50710231 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
50710190 TTAGGAAACG
50710200 TACATAA-A-AAATATA
1 TACATAATATAAATATA
50710215 TACATAATATAAATATA
1 TACATAATATAAATATA
50710232 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:50710777 original size:11 final size:11
Alignment explanation
Indices: 50710744--50710784 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
50710734 AAATCATTTT
50710744 GAAGAGAGAAA
1 GAAGAGAGAAA
*
50710755 GAA-A-AAAAA
1 GAAGAGAGAAA
*
50710764 GAAGGGAGAAA
1 GAAGAGAGAAA
50710775 GAAGAGAGAA
1 GAAGAGAGAA
50710785 GGGAGGGCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
9 7 0.29
10 1 0.04
11 16 0.67
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:50711259 original size:20 final size:20
Alignment explanation
Indices: 50711234--50711272 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50711224 AGGGTTTCTT
50711234 GGTTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTTGGGGGGTTA
50711254 GGTTTTTTTTTGGGGGGTT
1 GGTTTTTTTTTGGGGGGTT
50711273 TAATGGGCTT
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:0.03, C:0.00, G:0.41, T:0.56
Consensus pattern (20 bp):
GGTTTTTTTTTGGGGGGTTA
Found at i:50716290 original size:19 final size:19
Alignment explanation
Indices: 50716257--50716299 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
50716247 AAATTTGTAT
50716257 TTTTTAAACTAATTTTTAA
1 TTTTTAAACTAATTTTTAA
*
50716276 TATTTTAAAC-CATTTTTAA
1 T-TTTTAAACTAATTTTTAA
50716295 TTTTT
1 TTTTT
50716300 GTAATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAACTAATTTTTAA
Found at i:50717385 original size:24 final size:24
Alignment explanation
Indices: 50717357--50717432 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
50717347 ATAATGGTAA
*
50717357 TTAACTAATTTAATTAAAAATGAT
1 TTAACTAATTTAATTAAAAATAAT
* *
50717381 TTAACAAATTTATTTAAAAATAAT
1 TTAACTAATTTAATTAAAAATAAT
* *
50717405 ATATA-TAATTGAATT-AAAATAAGT
1 TTA-ACTAATTTAATTAAAAATAA-T
50717429 TTAA
1 TTAA
50717433 AATCTTTACA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.19
24 33 0.79
25 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAACTAATTTAATTAAAAATAAT
Found at i:50717700 original size:15 final size:15
Alignment explanation
Indices: 50717682--50717712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50717672 AAATTAAAAC
50717682 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
50717697 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
50717712 A
1 A
50717713 CACATCTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:50718577 original size:15 final size:15
Alignment explanation
Indices: 50718557--50718586 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50718547 TTAGATGGAC
50718557 GTTAGTGACCATGTA
1 GTTAGTGACCATGTA
50718572 GTTAGTGACCATGTA
1 GTTAGTGACCATGTA
50718587 ATATGATGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
GTTAGTGACCATGTA
Found at i:50719893 original size:34 final size:35
Alignment explanation
Indices: 50719828--50719906 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
50719818 ATAGGTAAGC
50719828 TTATATTGAACTTGATTATTCGATTACATGTGAA-
1 TTATATTGAACTTGATTATTCGATTACATGTGAAG
**
50719862 TTATATTGAACTT-ATATATTC-AGTTTTATGTGAAG
1 TTATATTGAACTTGAT-TATTCGA-TTACATGTGAAG
*
50719897 TTATTTTGAA
1 TTATATTGAA
50719907 TGTGCATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.08
34 27 0.69
35 9 0.23
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (35 bp):
TTATATTGAACTTGATTATTCGATTACATGTGAAG
Found at i:50720492 original size:17 final size:17
Alignment explanation
Indices: 50720470--50720510 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
50720460 TATATGTGAA
50720470 GTGAATGAAAAGTAAAT
1 GTGAATGAAAAGTAAAT
**
50720487 GTGAATGGTAAGTAAAT
1 GTGAATGAAAAGTAAAT
50720504 GTGAATG
1 GTGAATG
50720511 GTATTATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.27
Consensus pattern (17 bp):
GTGAATGAAAAGTAAAT
Found at i:50720511 original size:17 final size:17
Alignment explanation
Indices: 50720479--50720513 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
50720469 AGTGAATGAA
50720479 AAGTAAATGTGAATGGT
1 AAGTAAATGTGAATGGT
50720496 AAGTAAATGTGAATGGT
1 AAGTAAATGTGAATGGT
50720513 A
1 A
50720514 TTATATGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (17 bp):
AAGTAAATGTGAATGGT
Found at i:50723310 original size:76 final size:76
Alignment explanation
Indices: 50723218--50723368 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 76
50723208 ATGGCAAACC
*
50723218 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGTGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
50723283 TTATTCTTTCT
66 TTATTCTTTCT
50723294 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
50723359 TTATTCTTTC
66 TTATTCTTTC
50723369 CTGTAAATTC
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.48
Consensus pattern (76 bp):
CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
TTATTCTTTCT
Found at i:50724872 original size:19 final size:19
Alignment explanation
Indices: 50724848--50724887 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
50724838 TCGGAATAAG
50724848 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
50724867 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
50724886 TA
1 TA
50724888 AATATATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (19 bp):
TATGTTATTTGGATTAACT
Found at i:50726178 original size:20 final size:20
Alignment explanation
Indices: 50726140--50726178 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50726130 AAGTTCTTAT
* *
50726140 TTTTCTGGTGCTTGGAATTC
1 TTTTCTAGTGCTTGCAATTC
*
50726160 TTTTCTAGTGGTTGCAATT
1 TTTTCTAGTGCTTGCAATT
50726179 AGAGATTTCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTTCTAGTGCTTGCAATTC
Found at i:50727581 original size:28 final size:28
Alignment explanation
Indices: 50727541--50727598 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
50727531 ATGTGCTAGG
50727541 CCGTGTGACACACGACTGAGACACATGC
1 CCGTGTGACACACGACTGAGACACATGC
50727569 CCGTGTGACACACGACTGAGACACATGC
1 CCGTGTGACACACGACTGAGACACATGC
50727597 CC
1 CC
50727599 ATGTCTCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (28 bp):
CCGTGTGACACACGACTGAGACACATGC
Found at i:50728404 original size:42 final size:42
Alignment explanation
Indices: 50728356--50728511 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
50728346 CCAGAAAGCA
* * *
50728356 AAACAGAAGCACATAAGTGCTAAATAGAAACCTATAAGGGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
* * **
50728398 GAACAGAAGCTCATGAGAGCTGAACGGAAACCTATAAGGGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
* * * *
50728440 AAACAGAAGCTCAAAAGAGCTGAATAGAAA-CTCACATGAGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCT-ATAAGGGTT
* * * *
50728482 AAACAGAAGCTCGTGAGAGCTAAATGGAAA
1 AAACAGAAGCTCATAAGAGCTGAATAGAAA
50728512 GTAAACACAA
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.02
42 91 0.98
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (42 bp):
AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
Found at i:50728405 original size:21 final size:21
Alignment explanation
Indices: 50728381--50728447 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
50728371 AGTGCTAAAT
50728381 AGAAACCTATAAGGGTTGAAC
1 AGAAACCTATAAGGGTTGAAC
* * * *
50728402 AG-AAGCTCATGAGAGCTGAAC
1 AGAAACCT-ATAAGGGTTGAAC
* *
50728423 GGAAACCTATAAGGGTTAAAC
1 AGAAACCTATAAGGGTTGAAC
50728444 AGAA
1 AGAA
50728448 GCTCAAAAGA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.16
Consensus pattern (21 bp):
AGAAACCTATAAGGGTTGAAC
Found at i:50728489 original size:21 final size:21
Alignment explanation
Indices: 50728437--50728489 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
50728427 ACCTATAAGG
*
50728437 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAACTCAAAAGA
* * * * *
50728458 GCTGAATAGAAACTCACATGA
1 GTTAAACAGAAACTCAAAAGA
50728479 GTTAAACAGAA
1 GTTAAACAGAA
50728490 GCTCGTGAGA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (21 bp):
GTTAAACAGAAACTCAAAAGA
Found at i:50732260 original size:26 final size:25
Alignment explanation
Indices: 50732212--50732267 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
50732202 ATTGTTTTTA
* * * *
50732212 AATTTTAATAAGATTATTGTTAAAT
1 AATTTTAATAAAAATAATATTAAAT
50732237 ATATTTTAATAAAAATAATATTAAAT
1 A-ATTTTAATAAAAATAATATTAAAT
50732263 AATTT
1 AATTT
50732268 AATCTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTTTAATAAAAATAATATTAAAT
Found at i:50732277 original size:35 final size:36
Alignment explanation
Indices: 50732238--50732307 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
50732228 TTGTTAAATA
*
50732238 TATTTTAATAAAAATAATATTAAAT-AATTTAATCT
1 TATTTTAACAAAAATAATATTAAATAAATTTAATCT
* * *
50732273 TATTTTAACATAATTATTATTAAATACAATTTAAT
1 TATTTTAACAAAAATAATATTAAATA-AATTTAAT
50732308 AGAATAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 21 0.72
37 8 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (36 bp):
TATTTTAACAAAAATAATATTAAATAAATTTAATCT
Found at i:50746361 original size:21 final size:21
Alignment explanation
Indices: 50746335--50746377 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
50746325 AAAACTCGAA
**
50746335 AGACTTAAGCTTGTCTTTCTT
1 AGACTTAAGCTTACCTTTCTT
50746356 AGACTTAAGCTTACCTTTCTT
1 AGACTTAAGCTTACCTTTCTT
50746377 A
1 A
50746378 AACCCAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (21 bp):
AGACTTAAGCTTACCTTTCTT
Found at i:50749424 original size:51 final size:50
Alignment explanation
Indices: 50749315--50749466 Score: 121
Period size: 51 Copynumber: 2.9 Consensus size: 50
50749305 ATTTAAGATA
* * *
50749315 AAATAAAAAATAAAAAAAAACTAGTTTAAATTAAAAAAAATCTATTTATCT
1 AAATAAAAAATAAAAAAAAACTAATTTAAATT-AAAAAAACCTATTTATAT
* * *
50749366 AAGATAAAAACTAAAAAAAAAACTAATTTAAATT-CAAAAGCCTATTTATGAT
1 AA-ATAAAAAAT-AAAAAAAAACTAATTTAAATTAAAAAAACCTATTTAT-AT
* * *
50749418 GAATAAAAAGATAAAGGCTAAAAAA-TAAATTAAATTCAAAAAA-CTATTT
1 AAATAAAAA-ATAAA----AAAAAACTAATTTAAATTAAAAAAACCTATTT
50749467 TTCTAAACAC
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
51 24 0.30
52 11 0.14
53 20 0.25
54 16 0.20
55 10 0.12
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (50 bp):
AAATAAAAAATAAAAAAAAACTAATTTAAATTAAAAAAACCTATTTATAT
Found at i:50751499 original size:30 final size:30
Alignment explanation
Indices: 50751463--50751522 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
50751453 ATTTAATACG
* *
50751463 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
*
50751493 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
50751523 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTACCCCTA
Found at i:50752821 original size:24 final size:24
Alignment explanation
Indices: 50752788--50752868 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
50752778 TATAACATGG
*
50752788 GGGTTCGCATATATAAGACATATA
1 GGGTTCGCATATATAAAACATATA
* * *
50752812 GGGTTTGCATAT-TAAAACTTGTA
1 GGGTTCGCATATATAAAACATATA
* *
50752835 GAGTTCGCATGTATAAAACATATA
1 GGGTTCGCATATATAAAACATATA
50752859 GGGTTCGCAT
1 GGGTTCGCAT
50752869 CTATGCACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (24 bp):
GGGTTCGCATATATAAAACATATA
Found at i:50753055 original size:2 final size:2
Alignment explanation
Indices: 50753017--50753043 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50753007 TGGAGTTCGC
50753017 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
50753044 GCAGTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50755019 original size:20 final size:20
Alignment explanation
Indices: 50754994--50755034 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
50754984 TCAACTGAGG
50754994 TACTCCCTAAATTTCGTGAA
1 TACTCCCTAAATTTCGTGAA
50755014 TACTCCCTAAATTTCGTGAA
1 TACTCCCTAAATTTCGTGAA
50755034 T
1 T
50755035 TTATTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
TACTCCCTAAATTTCGTGAA
Found at i:50757810 original size:36 final size:37
Alignment explanation
Indices: 50757733--50757810 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
50757723 TTTTCAATTG
* *
50757733 ATTTAATTTTTTCAATGGTCTATCAAATAGGGCCTTA
1 ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
*
50757770 ATTTAATTTTTTCAATGGGT-TATCAAACAATGCCTT-
1 ATTTAATTTTTTCAAT-GGTCTATCAAACAAGGCCTTA
50757806 ATTTA
1 ATTTA
50757811 GAGTTGAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 5 0.14
37 29 0.78
38 3 0.08
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (37 bp):
ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
Found at i:50759385 original size:4 final size:4
Alignment explanation
Indices: 50759376--50759401 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
50759366 ATGACCATTC
50759376 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
50759402 AAGAAAGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:50760526 original size:2 final size:2
Alignment explanation
Indices: 50760519--50760544 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50760509 ATGATCCATA
50760519 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50760545 TATCAATAAT
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):
AT
Found at i:50763562 original size:38 final size:39
Alignment explanation
Indices: 50763520--50763629 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
50763510 TCAAATAGTT
* *
50763520 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
50763558 CGAAGTAAAG-TGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
50763596 CGAAGTAACAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAA-AGT-TGACACCCAGTGTCTCATCGA
50763630 CTCGAGGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.29
38 21 0.38
39 2 0.04
41 17 0.30
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:50764275 original size:17 final size:18
Alignment explanation
Indices: 50764241--50764276 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
50764231 TGAATTTCTA
50764241 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
50764259 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
50764276 T
1 T
50764277 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:50764729 original size:17 final size:18
Alignment explanation
Indices: 50764702--50764745 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
50764692 CCTTCATTTC
*
50764702 TTTCTTTTATTTTTTTA-G
1 TTTC-TTTATTCTTTTATG
50764720 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
50764738 TTTATTTA
1 TTTCTTTA
50764746 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:50764758 original size:23 final size:23
Alignment explanation
Indices: 50764715--50764758 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
50764705 CTTTTATTTT
**
50764715 TTTAGTTTCTTTATTCTTTTATG
1 TTTAGTTTCTTTATTAATTTATG
50764738 TTTA-TTTACTTTATTAATTTA
1 TTTAGTTT-CTTTATTAATTTA
50764759 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAGTTTCTTTATTAATTTATG
Found at i:50764795 original size:18 final size:17
Alignment explanation
Indices: 50764749--50764803 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
50764739 TTATTTACTT
50764749 TATTAATTTAATAAT-AA
1 TATT-ATTTAATAATAAA
50764766 TAATT-TTT-ATAATAAA
1 T-ATTATTTAATAATAAA
*
50764782 TATCTATTTAATAACAAA
1 TAT-TATTTAATAATAAA
50764800 TATT
1 TATT
50764804 TATATTACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 5 0.16
18 13 0.41
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTATTTAATAATAAA
Found at i:50765252 original size:20 final size:20
Alignment explanation
Indices: 50765206--50765253 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
50765196 AGTCTTTTTT
*
50765206 CCTAATTACTCTTAATTAAA
1 CCTAATTACACTTAATTAAA
50765226 -CTAAATT-CACTTAATTAAAA
1 CCT-AATTACACTTAATT-AAA
50765246 CCTAATTA
1 CCTAATTA
50765254 AATACACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAA
Found at i:50772021 original size:17 final size:18
Alignment explanation
Indices: 50771979--50772027 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
50771969 AGTTGAAAAG
50771979 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
50771998 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
50772015 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
50772028 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:50772916 original size:40 final size:40
Alignment explanation
Indices: 50772850--50773000 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
50772840 AAATTGAATG
* * *
50772850 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
50772889 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
50772929 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
50772969 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
50773001 ACTTGATTAT
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:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:50773014 original size:40 final size:40
Alignment explanation
Indices: 50772886--50773016 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
50772876 TATGCTGGAA
* * * *
50772886 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
** * *
50772926 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
50772966 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
50773006 ATTATATCCGG
1 ATTATATCCGG
50773017 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 3 0.04
40 70 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:50785614 original size:17 final size:19
Alignment explanation
Indices: 50785592--50785630 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
50785582 TAAACGCCAC
50785592 TTCTCA-ATTTAAT-CCAA
1 TTCTCACATTTAATACCAA
*
50785609 TTCTCACATTTCATACCAA
1 TTCTCACATTTAATACCAA
50785628 TTC
1 TTC
50785631 ACAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTCACATTTAATACCAA
Found at i:50790371 original size:42 final size:42
Alignment explanation
Indices: 50790288--50790430 Score: 164
Period size: 42 Copynumber: 3.3 Consensus size: 42
50790278 GTTCCAAATG
* *
50790288 TGGTCTTACATGTAA-TCAAATATCGATGCCACTGTCTCAGACA
1 TGGTCTTACACG-AACTCAAATA-CGATGCCAATGTCTCAGACA
*
50790331 TGGTCTTACACGAACTCAAATACGATGCCAATGTCCCAGACA
1 TGGTCTTACACGAACTCAAATACGATGCCAATGTCTCAGACA
* ** *
50790373 TGGTCTTACACATAAATCTCAAAT-CGATGCCAACATCTCAGACG
1 TGGTCTTACAC--GAA-CTCAAATACGATGCCAATGTCTCAGACA
50790417 TGGTCTTACACGAA
1 TGGTCTTACACGAA
50790431 ATCACATATC
Statistics
Matches: 87, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
42 33 0.38
43 18 0.21
44 29 0.33
45 7 0.08
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGAACTCAAATACGATGCCAATGTCTCAGACA
Found at i:50790421 original size:44 final size:41
Alignment explanation
Indices: 50790309--50790427 Score: 141
Period size: 44 Copynumber: 2.8 Consensus size: 41
50790299 GTAATCAAAT
*
50790309 ATCGATGCC-ACTGTCTCAGACATGGTCTTACACGAACTCAA
1 ATCGATGCCAAC-GTCTCAGACATGGTCTTACACAAACTCAA
* *
50790350 ATACGATGCCAATGTCCCAGACATGGTCTTACACATAAATCTCAA
1 AT-CGATGCCAACGTCTCAGACATGGTCTTACAC--AAA-CTCAA
* *
50790395 ATCGATGCCAACATCTCAGACGTGGTCTTACAC
1 ATCGATGCCAACGTCTCAGACATGGTCTTACAC
50790428 GAAATCACAT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.03
42 27 0.41
43 1 0.02
44 29 0.44
45 7 0.11
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (41 bp):
ATCGATGCCAACGTCTCAGACATGGTCTTACACAAACTCAA
Found at i:50793567 original size:53 final size:52
Alignment explanation
Indices: 50793504--50793711 Score: 228
Period size: 53 Copynumber: 4.0 Consensus size: 52
50793494 AAATTTTTTT
* *
50793504 CATATGATGCCATAACCCACTAGTTGTGATCTTTAATGATATGATCTTCTTTC
1 CATATGATGCCATAACCCACCAGTTATGATC-TTAATGATATGATCTTCTTTC
* * * * *
50793557 CATATGATGCCATAGCCCACCAGTTACGGTCTT-ATGCAATATGGTCTTTTTTC
1 CATATGATGCCATAACCCACCAGTTATGATCTTAATG--ATATGATCTTCTTTC
* *
50793610 CATATGATGCCATAACTCACCAGTTATGGTCTTACATGATATGA---TCTTTC
1 CATATGATGCCATAACCCACCAGTTATGATCTTA-ATGATATGATCTTCTTTC
* *
50793660 CATATGATGCCATAACCCACCAGTTACT-ATCTTAAACGATATGGTCTTCTTT
1 CATATGATGCCATAACCCACCAGTTA-TGATCTT-AATGATATGATCTTCTTT
50793712 AGTGCCATGG
Statistics
Matches: 130, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
50 41 0.32
51 5 0.04
52 2 0.02
53 79 0.61
55 3 0.02
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (52 bp):
CATATGATGCCATAACCCACCAGTTATGATCTTAATGATATGATCTTCTTTC
Found at i:50793649 original size:106 final size:103
Alignment explanation
Indices: 50793497--50793686 Score: 283
Period size: 106 Copynumber: 1.8 Consensus size: 103
50793487 CTTCCTTAAA
* * *
50793497 TTTTTTTCATATGATGCCATAACCCACTAGTTGTGATCTTTAATGATATGATCTTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTAATGATATGA---TCTTTCCATAT
*
50793562 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
63 GATGCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
* *
50793603 TTTTTTCCATATGATGCCATAACTCACCAGTTATGGTC-TTACATGATATGATCTTTCCATATGA
1 TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTA-ATGATATGATCTTTCCATATGA
50793667 TGCCATAACCCACCAGTTAC
65 TGCCATAACCCACCAGTTAC
50793687 TATCTTAAAC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
103 32 0.42
105 3 0.04
106 42 0.55
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (103 bp):
TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTAATGATATGATCTTTCCATATGAT
GCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
Found at i:50793693 original size:103 final size:104
Alignment explanation
Indices: 50793497--50793707 Score: 282
Period size: 103 Copynumber: 2.0 Consensus size: 104
50793487 CTTCCTTAAA
* * *
50793497 TTTTTTTCATATGATGCCATAACCCACTAGTTGTGATCTTTAATGATATGATCTTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTAATGATATGA--TTCTTTCCATAT
* * **
50793562 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
64 GATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
* *
50793603 TTTTTTCCATATGATGCCATAACTCACCAGTTATGGTC-TTACATGATATGA-TCTTTCCATATG
1 TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTA-ATGATATGATTCTTTCCATATG
* *
50793666 ATGCCATAACCCACCAGTTACTATCTTAAACGATATGGTC
65 ATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
50793706 TT
1 TT
50793708 CTTTAGTGCC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
103 48 0.52
105 3 0.03
106 42 0.45
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (104 bp):
TTTTTTCCATATGATGCCATAACCCACCAGTTATGATCTTTAATGATATGATTCTTTCCATATGA
TGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
Found at i:50798416 original size:41 final size:41
Alignment explanation
Indices: 50798371--50798488 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
50798361 TGAAAGATAA
50798371 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50798412 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50798442 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50798483 ATGTAG
1 ATGTAG
50798489 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:50798427 original size:71 final size:71
Alignment explanation
Indices: 50798339--50798502 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
50798329 GAGATGTATC
50798339 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50798404 AGGACA
66 AGGACA
50798410 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50798475 AGGACA
66 AGGACA
50798481 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50798503 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50805108 original size:41 final size:41
Alignment explanation
Indices: 50805063--50805180 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
50805053 TGAAAGATAA
50805063 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50805104 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50805134 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50805175 ATGTAG
1 ATGTAG
50805181 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Done.