Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 225 of 250
Found at i:69342873 original size:6 final size:6
Alignment explanation
Indices: 69342864--69342888 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69342854 TTTATTTTAT
69342864 TTAATA TTAATA TTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA T
69342889 AAACTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:69358258 original size:15 final size:16
Alignment explanation
Indices: 69358240--69358278 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
69358230 TTTGTTTGGA
69358240 TTTTTTAAT-TTTCAG
1 TTTTTTAATATTTCAG
* *
69358255 TTTTTTCATATTTGAG
1 TTTTTTAATATTTCAG
69358271 TTTTTTAA
1 TTTTTTAA
69358279 GTTTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (16 bp):
TTTTTTAATATTTCAG
Found at i:69358344 original size:13 final size:13
Alignment explanation
Indices: 69358326--69358350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69358316 TGTAATAAGA
69358326 ATAAAAATTTTAT
1 ATAAAAATTTTAT
69358339 ATAAAAATTTTA
1 ATAAAAATTTTA
69358351 ATTTTAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAAATTTTAT
Found at i:69358507 original size:30 final size:30
Alignment explanation
Indices: 69358473--69358544 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
69358463 AAGGTTGGGG
*
69358473 CAAAAATATAAGCCTAAAAATAGGCTTGAA
1 CAAAAAAATAAGCCTAAAAATAGGCTTGAA
69358503 CAAAAAAATAAGCCTAAAAATAGGCTTGAA
1 CAAAAAAATAAGCCTAAAAATAGGCTTGAA
69358533 CAAAAAAATAAG
1 CAAAAAAATAAG
69358545 ACTCATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.17
Consensus pattern (30 bp):
CAAAAAAATAAGCCTAAAAATAGGCTTGAA
Found at i:69360945 original size:12 final size:12
Alignment explanation
Indices: 69360915--69360946 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
69360905 AATAATTAAA
*
69360915 TAAATTAGAAAT
1 TAAATTCGAAAT
69360927 TAAATTCGAAAT
1 TAAATTCGAAAT
69360939 TAAATTCG
1 TAAATTCG
69360947 GATTTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (12 bp):
TAAATTCGAAAT
Found at i:69362177 original size:50 final size:49
Alignment explanation
Indices: 69362123--69362236 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 49
69362113 CCTATGCATA
69362123 TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCCTCCCATGTGTC
1 TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCC-CCCATGTGTC
* * * * *
69362173 TGGGAGCAAGG---TTT-TTATTACTTTTCGTGAGCCTCCCCCATGTGTC
1 TGGGAG-TAGGTCATTTATTATCACTTTCCGTAAGCCCCCCCCATGTGTC
*
69362219 TAGGAGTAGGGTCATTTA
1 TGGGAGTA-GGTCATTTA
69362237 AATACCTTCT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
45 1 0.02
46 17 0.33
47 18 0.35
48 3 0.06
49 3 0.06
50 6 0.12
51 3 0.06
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.35
Consensus pattern (49 bp):
TGGGAGTAGGTCATTTATTATCACTTTCCGTAAGCCCCCCCCATGTGTC
Found at i:69362320 original size:50 final size:50
Alignment explanation
Indices: 69362260--69362424 Score: 147
Period size: 50 Copynumber: 3.3 Consensus size: 50
69362250 AGTCTCCCCA
* * * *
69362260 CATGCTTCTAGGAGTAGGGCCTTAATTACCACCTTCCGTAAGCCTCTTCC
1 CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
* * *
69362310 CATGCGTCTAGGAGCAATGCCTTTATTACCACCTTCTGTAAGCCTCCTCC
1 CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
* * * * * ** *
69362360 TATACGTCTAGAAGCAGAGTCATT--TTAATACCTTTCGTAAGCCTCC-CC
1 CATGCGTCTAGGAGCA-AGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
*
69362408 CTATGCATCTAGGAGCA
1 C-ATGCGTCTAGGAGCA
69362425 GGACATTTTT
Statistics
Matches: 92, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 2 0.02
49 30 0.33
50 56 0.61
51 4 0.04
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (50 bp):
CATGCGTCTAGGAGCAAGGCCTTAATTACCACCTTCCGTAAGCCTCCTCC
Found at i:69365536 original size:50 final size:50
Alignment explanation
Indices: 69365461--69365637 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
69365451 CCATGGCAAC
* *
69365461 AAGTGATAAATGATAGCTTTGGCTACACTTATCTAATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* *
69365511 AAGTGATAAGT-AGTAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGA-TAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* * *
69365561 AAGTGATAAGTGATATCTTCGGCTACACCTATCTAATCAGGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
* *
69365611 CAAGTGAAAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
69365638 CTGATCAGTG
Statistics
Matches: 112, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.01
50 87 0.78
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGACAAATGA
Found at i:69365662 original size:42 final size:42
Alignment explanation
Indices: 69365615--69365698 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
69365605 AAATGACAAG
69365615 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGT
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGT
*
69365657 TGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGT
1 TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGT
69365699 AGCTCCGGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (42 bp):
TGAAAAGTGGTAGCTTCGGCTACCTGATCAGTGAAAAGTGGT
Found at i:69365695 original size:31 final size:31
Alignment explanation
Indices: 69365657--69365764 Score: 189
Period size: 31 Copynumber: 3.5 Consensus size: 31
69365647 GAAAAGTGGT
* *
69365657 TGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
69365688 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
69365719 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
*
69365750 TGAAAAATGGTAGCT
1 TGAAAAGTGGTAGCT
69365765 TCGACTACAA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 74 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
Found at i:69366484 original size:46 final size:46
Alignment explanation
Indices: 69366419--69366650 Score: 297
Period size: 46 Copynumber: 5.0 Consensus size: 46
69366409 TTATCTTTGA
* * * * * *
69366419 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ***
69366465 CATGTTGCCATGGTATCTTTCAACCACGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
69366511 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
69366557 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
69366603 CA-GACTGTCATGGTATCTTTCAACCATGGTCTTACACAATTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
69366649 CA
1 CA
69366651 GAGAGCACAC
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 5 0.03
46 162 0.97
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:69369327 original size:47 final size:46
Alignment explanation
Indices: 69369261--69369363 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
69369251 GGGGTATTAC
* * * *
69369261 ATATGGCATCTGTGTGATATATGCTACTGTATAAGACCATATCTGGG
1 ATATGGCATCTGTGAGATATATGATAC-GCATAAGACCATAGCTGGG
* * *
69369308 ATATGGCAT-TAGTGAGATATGTGATTCGCGTAAGACCATAGCTGGG
1 ATATGGCATCT-GTGAGATATATGATACGCATAAGACCATAGCTGGG
*
69369354 TTATGGCATC
1 ATATGGCATC
69369364 GATATATGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
46 25 0.54
47 21 0.46
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (46 bp):
ATATGGCATCTGTGAGATATATGATACGCATAAGACCATAGCTGGG
Found at i:69369401 original size:42 final size:43
Alignment explanation
Indices: 69369337--69369449 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 43
69369327 TGTGATTCGC
* * *
69369337 GTAAGACCATAGCTGGGTTATGGCATCGA-TATATGAATATGT
1 GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
* *
69369379 GTAAGACCATAGTTGGGCTATGGCATC-ATTATGTGAAGATGT
1 GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
**
69369421 GTAAGACCATAGTTGAAATATGGCATCGA
1 GTAAGACCATAGTTGGGATATGGCATCGA
69369450 GAAAATGAAG
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 1 0.02
42 60 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (43 bp):
GTAAGACCATAGTTGGGATATGGCATCGATTATATGAAGATGT
Found at i:69371510 original size:21 final size:21
Alignment explanation
Indices: 69371484--69371527 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
69371474 GTCGAGAGGA
*
69371484 AAAGAAAATGCGAGAGCCGAC
1 AAAGAAAATGCGAGAGCCAAC
69371505 AAAGAAAATGCGAGAGCCAAC
1 AAAGAAAATGCGAGAGCCAAC
69371526 AA
1 AA
69371528 CGAGTAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.25, T:0.05
Consensus pattern (21 bp):
AAAGAAAATGCGAGAGCCAAC
Found at i:69389723 original size:9 final size:9
Alignment explanation
Indices: 69389711--69389778 Score: 57
Period size: 10 Copynumber: 7.2 Consensus size: 9
69389701 CATTTAATTA
69389711 ATTTTTAAT
1 ATTTTTAAT
*
69389720 ATTTTAAAAT
1 ATTTT-TAAT
69389730 ATTTTTTATAT
1 A-TTTTTA-AT
*
69389741 TTTTTTAAT
1 ATTTTTAAT
*
69389750 AATTTTAAT
1 ATTTTTAAT
69389759 GATTTTTAA-
1 -ATTTTTAAT
*
69389768 ATTTTAAAT
1 ATTTTTAAT
69389777 AT
1 AT
69389779 AATTTTTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.15
9 16 0.34
10 18 0.38
11 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:69389796 original size:40 final size:37
Alignment explanation
Indices: 69389708--69389807 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 37
69389698 TAGCATTTAA
* **
69389708 TTAATTTTTAATATTTTAAAATATTTTTTATATTTTT
1 TTAATTTTTAATATTTTTAAATATTTAATATATTTTT
69389745 TTAATAATTTTAATGATTTTTAAAT-TTTAAATATAATTTTT
1 TTAAT--TTTTAAT-ATTTTTAAATATTT-AATAT-ATTTTT
*
69389786 TTGAATTTTTAAAATTTTTAAA
1 TT-AATTTTTAATATTTTTAAA
69389808 AAATATTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
37 5 0.09
39 19 0.36
40 18 0.34
41 8 0.15
42 3 0.06
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (37 bp):
TTAATTTTTAATATTTTTAAATATTTAATATATTTTT
Found at i:69389806 original size:49 final size:49
Alignment explanation
Indices: 69389711--69389803 Score: 122
Period size: 49 Copynumber: 1.9 Consensus size: 49
69389701 CATTTAATTA
*
69389711 ATTTTTAATATTTTAAAATATTTTTTATATTTTTTTAATAATTTTAATG
1 ATTTTTAATATTTTAAAATATTTTTTATATATTTTTAATAATTTTAATG
69389760 ATTTTTAA-ATTTTAAATATAATTTTTT-TGA-ATTTTTAA-AATTTT
1 ATTTTTAATATTTTAAA-AT-ATTTTTTAT-ATATTTTTAATAATTTT
69389804 TAAAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
48 14 0.35
49 18 0.45
50 8 0.20
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (49 bp):
ATTTTTAATATTTTAAAATATTTTTTATATATTTTTAATAATTTTAATG
Found at i:69394993 original size:25 final size:24
Alignment explanation
Indices: 69394965--69395011 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
69394955 TTATATATAT
69394965 TTTTATAATTTAAATTTTATTTACC
1 TTTTATAATTTAAATTTT-TTTACC
* * *
69394990 TTTTTTAGTTTAGATTTTTTTA
1 TTTTATAATTTAAATTTTTTTA
69395012 ATTTTTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (24 bp):
TTTTATAATTTAAATTTTTTTACC
Found at i:69413373 original size:3 final size:3
Alignment explanation
Indices: 69413353--69413403 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
69413343 CTCATTTTGG
*
69413353 GAA GAAA GAA GGA GAA GAA GAA -AA GAAA GAA G-A GAA GAA GAA -AA
1 GAA G-AA GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA GAA GAA
69413397 GAA GAA G
1 GAA GAA G
69413404 CAGGCAGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 6 0.15
3 29 0.71
4 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:69413389 original size:20 final size:20
Alignment explanation
Indices: 69413354--69413403 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
69413344 TCATTTTGGG
69413354 AAGAAAGAAGGAGAAGAAGAA
1 AAGAAAGAA-GAGAAGAAGAA
69413375 AAGAAAGAAGAGAAGAAGAA
1 AAGAAAGAAGAGAAGAAGAA
69413395 AAG-AAGAAG
1 AAGAAAGAAG
69413404 CAGGCAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
21 9 0.31
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (20 bp):
AAGAAAGAAGAGAAGAAGAA
Found at i:69413930 original size:17 final size:16
Alignment explanation
Indices: 69413907--69413949 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 16
69413897 TATCTTAATG
69413907 AAAAAATAAAATACGA
1 AAAAAATAAAATACGA
*
69413923 AAAGAAATAAAATATGA
1 AAA-AAATAAAATACGA
69413940 AAAAAATAAA
1 AAAAAATAAA
69413950 TTTTTTGGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.77, C:0.02, G:0.07, T:0.14
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:69414349 original size:137 final size:136
Alignment explanation
Indices: 69413986--69414395 Score: 602
Period size: 137 Copynumber: 3.1 Consensus size: 136
69413976 GTTTTTTTAT
* * *
69413986 TAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAATATCCAAAAATTTTAA
1 TAAAATAATATAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAAT-TAAAAATTTTAA
* * ** * *
69414051 AAATACAAATAAAGTGAAAAAATTAGGGTTATTT-------ACTAAAATTATACATTTGAAACAT
65 AAATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
69414109 TATGTAC
130 TATGTAC
* * **
69414116 TAAAATAATATAAAAATAAAATAGGAAAATAATATATTTTAAAAAA-AAGTTTAAAAATTTTAAA
1 TAAAATAATATAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTAAAAATTTTAAA
69414180 AATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATT
66 AATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATT
69414245 ATGTAC
131 ATGTAC
*
69414251 TAAAATAAGATAAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTAAAAATTTTAA
1 TAAAATAATAT-AAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTAAAAATTTTAA
* *
69414316 AAATACAAACAAAGGGCCAAAATCAGAGTTATTTAAAAAACACTAAAATAATATATTTGAAACAT
65 AAATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACAT
69414381 TATGTAC
130 TATGTAC
69414388 TAAAATAA
1 TAAAATAA
69414396 AATACGAAAA
Statistics
Matches: 253, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
128 40 0.16
129 3 0.01
130 44 0.17
135 40 0.16
136 33 0.13
137 93 0.37
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (136 bp):
TAAAATAATATAAAAATAAAATAAGAAAATAGTATATTTTAAAAAATAAAATTAAAAATTTTAAA
AATACAAACAAAGGGCCAAAATCAGGGTTATTTAAAAAACACTAAAATAATACATTTGAAACATT
ATGTAC
Found at i:69414817 original size:15 final size:16
Alignment explanation
Indices: 69414786--69414843 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
69414776 ACCGAGTGTA
**
69414786 TTAAATATATTATATT
1 TTAAATATAAAATATT
69414802 TTAAATA-AAAATATT
1 TTAAATATAAAATATT
** *
69414817 TTACTTATTAAATATT
1 TTAAATATAAAATATT
69414833 TTAAATTATAA
1 TTAAA-TATAA
69414844 TAAAAATATT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
15 11 0.34
16 17 0.53
17 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATATAAAATATT
Found at i:69414828 original size:38 final size:38
Alignment explanation
Indices: 69414784--69414880 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 38
69414774 ATACCGAGTG
69414784 TATTAAATATATTATATTTTAAATAAAAATATTT-TACT
1 TATTAAATATATTATATTTT-AATAAAAATATTTGTACT
* * * *
69414822 TATTAAATATTTTAAATTATAATAAAAATATTTGTATT
1 TATTAAATATATTATATTTTAATAAAAATATTTGTACT
*
69414860 TGAGTTGAATATATT-TATTTT
1 T-A-TTAAATATATTATATTTT
69414881 TTTAATGTAG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 13 0.27
38 21 0.44
39 5 0.10
40 9 0.19
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (38 bp):
TATTAAATATATTATATTTTAATAAAAATATTTGTACT
Found at i:69421814 original size:17 final size:17
Alignment explanation
Indices: 69421792--69421824 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
69421782 AAAAATTATT
69421792 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
69421809 TTTTCATATTTTATTT
1 TTTTCATATTTTATTT
69421825 TTTCGTTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:69422348 original size:38 final size:36
Alignment explanation
Indices: 69422266--69422349 Score: 87
Period size: 38 Copynumber: 2.2 Consensus size: 36
69422256 TCCATTTTTT
** * *
69422266 TCTTTCTTTTTCCTTCCCTCCCTCTTCTTCTGCTTC
1 TCTTTCTTTTTCCTTCCCTCCCAATGCTGCTGCTTC
*
69422302 TCTTTTTCTTTTTTCTTCCCTCACCAATGCTGCGTGCTTC
1 TC--TTTCTTTTTCCTTCCCTC-CCAATGCTGC-TGCTTC
69422342 TCTTTCTT
1 TCTTTCTT
69422350 CTCCTTCTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
36 2 0.05
38 23 0.59
39 6 0.15
40 8 0.21
ACGTcount: A:0.04, C:0.36, G:0.06, T:0.55
Consensus pattern (36 bp):
TCTTTCTTTTTCCTTCCCTCCCAATGCTGCTGCTTC
Found at i:69422365 original size:3 final size:3
Alignment explanation
Indices: 69422345--69422411 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
69422335 GTGCTTCTCT
* * *
69422345 TTC TTC TCC TTC TCC TTC TTC TT- TTC CT- TTC TTC -TC TTC TTTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC
69422388 TT- TTC TTC TTC TTC TTC TTTC TTC
1 TTC TTC TTC TTC TTC TTC -TTC TTC
69422412 CCAAAATGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
2 7 0.13
3 39 0.75
4 6 0.12
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:69422544 original size:27 final size:28
Alignment explanation
Indices: 69422493--69422587 Score: 81
Period size: 27 Copynumber: 3.5 Consensus size: 28
69422483 GTCTTCTCCA
* *
69422493 CGGTGCCGCCTCTGGCACTGG--CACCAT
1 CGGTGCCGCCTGTGGCA-TGGCCCACCAC
69422520 CGGTGCCGCCTGTGGCA-GGCCCACCAC
1 CGGTGCCGCCTGTGGCATGGCCCACCAC
* * * *
69422547 CAGTGTCGCCTGTAGCATGG-CCTCCAC
1 CGGTGCCGCCTGTGGCATGGCCCACCAC
*
69422574 CTGTGCCGCTCTGT
1 CGGTGCCGC-CTGT
69422588 CTGCTTCAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.04
27 48 0.86
28 6 0.11
ACGTcount: A:0.11, C:0.40, G:0.29, T:0.20
Consensus pattern (28 bp):
CGGTGCCGCCTGTGGCATGGCCCACCAC
Found at i:69422613 original size:19 final size:20
Alignment explanation
Indices: 69422589--69422626 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
69422579 CCGCTCTGTC
69422589 TGCTTCAG-TTTTTTTTTTT
1 TGCTTCAGCTTTTTTTTTTT
69422608 TGCTTCAGCTTTTTTTTTT
1 TGCTTCAGCTTTTTTTTTT
69422627 CAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (20 bp):
TGCTTCAGCTTTTTTTTTTT
Found at i:69423312 original size:237 final size:238
Alignment explanation
Indices: 69422755--69423325 Score: 734
Period size: 238 Copynumber: 2.4 Consensus size: 238
69422745 TTATTCAAAT
* * * *
69422755 TCTTCATCTAGGAGAAGAAAGAGTCTCGATAGGTTCAGTTCTA-TAGTAAACACTGCTGCAGCTG
1 TCTTCTTCTAGGAGAAG-AA-AGTCTTGATAGGTCCAGTTCTATTAGT-AAGACTGCTGCAGCTG
** *
69422819 TAGTGGTTGAGATGGATGAAATGAAATCAGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTTAT
63 TAGTGGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTGAT
** * * *
69422884 TATGTCAAAGGACCTAAGCTTGATGTACTAGATATTGATTCTAACTCCAATTCTTTGAGGGGTGA
128 TACATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGATGA
* * *
69422949 ATCACTTCCCGGAGATCAAACTCAAACAAGGGATTATTATTTTGAT
193 ATCACTGCCCGGAGAGCAAACTCAAACAAGGGATTATTATTTTGAA
* * ** * *
69422995 TCTTCTTCTAGGATAAGAAAGTCTTGATAGGTCCAGTTCTATTGGTAAGTTTACTGCAGCTATAG
1 TCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGTAG
* * * * * *
69423060 TAGG-TCAGCTGGATGAAAGGAAATTGGTTTCTAATGCAAAGGTCTTTCCTGCGACTGTTGATTA
66 T-GGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTGATTA
* * * * *
69423124 CATCAATGGATCTAAGCTCGGTGTTCTAGATGGTGATTCTAACTCCAATTCTTTGAGGGATGAAT
130 CATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGATGAAT
* * * * *
69423189 CACTGCCTGGAGGGCTAACTCAGATAA-GGATTATTATTTTGAA
195 CACTGCCCGGAGAGCAAACTCAAACAAGGGATTATTATTTTGAA
* *
69423232 TCTTCTTCTAGGAGAAGAAAGTCTTGATATGTCCAGTTCTATTAGTAAGACTGTTGCAGCTGTAG
1 TCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGTAG
69423297 TGGTTGAGATGGATGAAATGAAATTGGTT
66 TGGTTGAGATGGATGAAATGAAATTGGTT
69423326 AAAGTTGATT
Statistics
Matches: 280, Mismatches: 48, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
236 2 0.01
237 95 0.34
238 161 0.57
239 7 0.03
240 15 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (238 bp):
TCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGTAAGACTGCTGCAGCTGTAG
TGGTTGAGATGGATGAAATGAAATTGGTTTCTAATGCAAAGGTCTCTCCCGCAACTGTTGATTAC
ATCAAAGGACCTAAGCTCGATGTACTAGATAGTGATTCTAACTCCAATTCTTTGAGGGATGAATC
ACTGCCCGGAGAGCAAACTCAAACAAGGGATTATTATTTTGAA
Found at i:69423523 original size:209 final size:208
Alignment explanation
Indices: 69423158--69423534 Score: 537
Period size: 209 Copynumber: 1.8 Consensus size: 208
69423148 TCTAGATGGT
* *
69423158 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGGAGGGCTAACTCAGATAAGGATTAT
1 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGGCTAACTCAGACAAGGATTAT
* * * **
69423223 TATTTTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATATGTCCAGTTCTATTAGTAAGACTGTTG
66 TATTCTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGGAAGACTGCGG
* **
69423288 CAGCTGTAGTGGTTGAGATGGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
131 CAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
69423353 TGTGCCGGATAGG
196 TGTGCCGGATAGG
* * * *
69423366 GATTCTAACTCCCATTCTTTGAGGGATGAATCACTTCCTGAAGGGTCTGA-TCAGACGA-GATTA
1 GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGG-CTAACTCAGACAAGGATTA
*
69423429 TTATTCT-AATTCTTCTTCTAGGAGAAGAAAGAGTCTCT-ATAGGTCCGGTTCTATTAGGAAGAC
65 TTATTCTGAA-TCTTCTTCTAGGAGAAG-AA-AGTCT-TGATAGGTCCAGTTCTATTAGGAAGAC
*
69423492 TGCGGCATCTATAGTGGTTGAGACCGATGAAATGAAATTGGTT
126 TGCGGCAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTT
69423535 TCTAGTGTTT
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
206 2 0.01
207 28 0.19
208 50 0.34
209 67 0.45
210 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (208 bp):
GATTCTAACTCCAATTCTTTGAGGGATGAATCACTGCCTGAAGGGCTAACTCAGACAAGGATTAT
TATTCTGAATCTTCTTCTAGGAGAAGAAAGTCTTGATAGGTCCAGTTCTATTAGGAAGACTGCGG
CAGCTATAGTGGTTGAGACCGATGAAATGAAATTGGTTAAAGTTGATTACGTTCATGGACCTTGG
TGTGCCGGATAGG
Found at i:69431772 original size:25 final size:24
Alignment explanation
Indices: 69431718--69431772 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
69431708 CCTTAAAAGA
* **
69431718 AAAAAAAAATGGTCCCTAAGATGG
1 AAAAAAAAATGATCCAAAAGATGG
*
69431742 AGAAAAAAAATGATCCAAAAGGTGTG
1 A-AAAAAAAATGATCCAAAAGATG-G
69431768 AAAAA
1 AAAAA
69431773 CTTCATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.88
26 2 0.08
ACGTcount: A:0.56, C:0.09, G:0.20, T:0.15
Consensus pattern (24 bp):
AAAAAAAAATGATCCAAAAGATGG
Found at i:69432240 original size:23 final size:23
Alignment explanation
Indices: 69432195--69432250 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
69432185 AATGCAACAA
* * * *
69432195 GAGACCAGAAGCAGTTCAGCATG
1 GAGACCAGCACCAGCTCAACATG
69432218 GAGACCAGCACCAGCTCAACATG
1 GAGACCAGCACCAGCTCAACATG
* *
69432241 AAGATCAGCA
1 GAGACCAGCA
69432251 TTGGAGTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.27, G:0.25, T:0.11
Consensus pattern (23 bp):
GAGACCAGCACCAGCTCAACATG
Found at i:69434959 original size:19 final size:20
Alignment explanation
Indices: 69434931--69434969 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
69434921 TCTCATTTTT
69434931 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
69434950 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
69434970 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:69434987 original size:25 final size:23
Alignment explanation
Indices: 69434950--69434995 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
69434940 TTTGTTTTAA
*
69434950 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
69434973 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
69434996 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:69438165 original size:3 final size:3
Alignment explanation
Indices: 69438157--69438216 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
69438147 TTAATTTTAA
* * * * *
69438157 TAT TAT TAT TGT TAT TAT TAG TAT TAT TGT TAA TAT TAT TTT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
69438204 CAT TAT TAC TAT T
1 TAT TAT TAT TAT T
69438217 TTTCATTTTT
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:69438337 original size:26 final size:26
Alignment explanation
Indices: 69438278--69438429 Score: 71
Period size: 26 Copynumber: 5.7 Consensus size: 26
69438268 ATTTTCTTTT
*
69438278 TTATTATTATTGTTGTTAACTTATCA
1 TTATTATTATTGTTATTAACTTATCA
* * *
69438304 TCATTATTATTGTTATTTATTTATC-
1 TTATTATTATTGTTATTAACTTATCA
* **
69438329 TTATATATT-TCTATTATTAGTGTTATTTCA
1 TTAT-TATTAT-TGTTATTA-ACTTA--TCA
* *
69438359 TTATTATTATATGTTACTGTCACGT-TCA
1 TTATTATTAT-TGTTA-T-TAACTTATCA
* * *
69438387 TT-TTATTATTATTATT-ATTTATTA
1 TTATTATTATTGTTATTAACTTATCA
* *
69438411 TTATTATTCTTTTTATTAA
1 TTATTATTATTGTTATTAA
69438430 TATTATTATT
Statistics
Matches: 93, Mismatches: 21, Indels: 24
0.67 0.15 0.17
Matches are distributed among these distances:
23 2 0.02
24 5 0.05
25 17 0.18
26 36 0.39
27 10 0.11
28 5 0.05
29 6 0.06
30 9 0.10
31 2 0.02
32 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.61
Consensus pattern (26 bp):
TTATTATTATTGTTATTAACTTATCA
Found at i:69438397 original size:3 final size:3
Alignment explanation
Indices: 69438389--69438451 Score: 72
Period size: 3 Copynumber: 20.3 Consensus size: 3
69438379 CACGTTCATT
* * *
69438389 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTC TTT TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
69438435 TTA TTTA CTA TTA TTA T
1 TTA -TTA TTA TTA TTA T
69438452 GTTTACTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:69438434 original size:34 final size:34
Alignment explanation
Indices: 69438387--69438451 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
69438377 GTCACGTTCA
* *
69438387 TTTTATTATTATTATTATTTATTATTATTATTCT
1 TTTTATTAATATTATTATTTACTATTATTATTCT
69438421 TTTTATTAATATTATTATTTACTATTATTAT
1 TTTTATTAATATTATTATTTACTATTATTAT
69438452 GTTTACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (34 bp):
TTTTATTAATATTATTATTTACTATTATTATTCT
Found at i:69441194 original size:20 final size:21
Alignment explanation
Indices: 69441158--69441196 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
69441148 CACTCAACTT
69441158 TTAAAACTTATGTAATAGTCA
1 TTAAAACTTATGTAATAGTCA
69441179 TTAAAA-TTATCG-AATAGT
1 TTAAAACTTAT-GTAATAGT
69441197 TACATTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
TTAAAACTTATGTAATAGTCA
Found at i:69443115 original size:49 final size:49
Alignment explanation
Indices: 69443049--69443146 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
69443039 GCCACATTCT
69443049 CCTTTTCCCAACCTCCGCCCCCAATAACTTTGCTTTGGCTGCCTGCCAC
1 CCTTTTCCCAACCTCCGCCCCCAATAACTTTGCTTTGGCTGCCTGCCAC
69443098 CCTTTTCCCAACCTCCGCCCCCAATAACTTTGCTTTGGCTGCCTGCCAC
1 CCTTTTCCCAACCTCCGCCCCCAATAACTTTGCTTTGGCTGCCTGCCAC
69443147 ACTCACCAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.14, C:0.45, G:0.12, T:0.29
Consensus pattern (49 bp):
CCTTTTCCCAACCTCCGCCCCCAATAACTTTGCTTTGGCTGCCTGCCAC
Found at i:69453590 original size:6 final size:6
Alignment explanation
Indices: 69453579--69453603 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69453569 AAACCCAGCC
69453579 GTCGAG GTCGAG GTCGAG GTCGAG G
1 GTCGAG GTCGAG GTCGAG GTCGAG G
69453604 GTTTTACAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.52, T:0.16
Consensus pattern (6 bp):
GTCGAG
Found at i:69461377 original size:43 final size:43
Alignment explanation
Indices: 69461328--69461416 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
69461318 AATGTGAAGA
*
69461328 GTTAAATTTATTAAATTATTTAGAATTAAGATTTGGCTATTTG
1 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
69461371 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
1 GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
69461414 GTT
1 GTT
69461417 TCTAAGCAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (43 bp):
GTTAAATTTATTAAATTATTTAGAATCAAGATTTGGCTATTTG
Found at i:69462667 original size:22 final size:22
Alignment explanation
Indices: 69462639--69462682 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
69462629 TAATACATTA
69462639 AAAATAAAAATTAATTAATAAG
1 AAAATAAAAATTAATTAATAAG
* *
69462661 AAAATAATAATTTATTAATAAG
1 AAAATAAAAATTAATTAATAAG
69462683 GTAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAATAAAAATTAATTAATAAG
Found at i:69462760 original size:29 final size:31
Alignment explanation
Indices: 69462728--69462792 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
69462718 TTTTCTTCAA
*
69462728 CCAACCATGAA-A-AGTCCTTTTTTGATCAC
1 CCAACCATGAATACACTCCTTTTTTGATCAC
* *
69462757 CCAACCATTAATACACTCCTTTTTTTATCAC
1 CCAACCATGAATACACTCCTTTTTTGATCAC
*
69462788 TCAAC
1 CCAAC
69462793 TATTCAATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.33
30 1 0.03
31 19 0.63
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.34
Consensus pattern (31 bp):
CCAACCATGAATACACTCCTTTTTTGATCAC
Found at i:69473538 original size:16 final size:13
Alignment explanation
Indices: 69473504--69473528 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69473494 TCTAATCATA
69473504 TAATAATTTATAT
1 TAATAATTTATAT
69473517 TAATAATTTATA
1 TAATAATTTATA
69473529 ATTTTAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAATAATTTATAT
Found at i:69473578 original size:13 final size:14
Alignment explanation
Indices: 69473560--69473601 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
69473550 TTTCAATTTT
69473560 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
69473573 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
69473588 ATTTTAAATAATAT
1 ATTTT-AATAATAT
69473602 TCTTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:69473586 original size:16 final size:16
Alignment explanation
Indices: 69473564--69473600 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
69473554 AATTTTATTT
69473564 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
69473581 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
69473596 TAATA
1 TAATA
69473601 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:69473654 original size:15 final size:15
Alignment explanation
Indices: 69473634--69473690 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
69473624 CTTCAATATT
69473634 AATATTTTAATAATA
1 AATATTTTAATAATA
*
69473649 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
69473668 AATATATTAATAATA
1 AATATTTTAATAATA
*
69473683 AATGTTTT
1 AATATTTT
69473691 GTAGTGTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:69477097 original size:20 final size:22
Alignment explanation
Indices: 69477054--69477126 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 22
69477044 GAATTTCTAT
*
69477054 AATTTTTTAAAAATATAAATTTTGA
1 AATTTTTGAAAAAT-T--ATTTTGA
*
69477079 AATTTTT-ATAAA-TATTTTG-
1 AATTTTTGAAAAATTATTTTGA
69477098 AATTTTTGAAAAATTATTTTG-
1 AATTTTTGAAAAATTATTTTGA
69477119 -ATTTTTGA
1 AATTTTTGA
69477127 TTTTGTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.16
20 18 0.41
21 7 0.16
22 1 0.02
24 4 0.09
25 7 0.16
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
AATTTTTGAAAAATTATTTTGA
Found at i:69478930 original size:24 final size:24
Alignment explanation
Indices: 69478898--69478946 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
69478888 AAAAAACCGA
69478898 CAGAACAGTAGCTTCCATTACTCC
1 CAGAACAGTAGCTTCCATTACTCC
69478922 CAGAACAGTAGCTTCCATTACTCC
1 CAGAACAGTAGCTTCCATTACTCC
69478946 C
1 C
69478947 TAATAGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.12, T:0.24
Consensus pattern (24 bp):
CAGAACAGTAGCTTCCATTACTCC
Found at i:69480112 original size:20 final size:20
Alignment explanation
Indices: 69480087--69480126 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69480077 ACCCAGTAAG
*
69480087 TTAGGGTACAATCCTCCCGT
1 TTAGGGCACAATCCTCCCGT
69480107 TTAGGGCACAATCCTCCCGT
1 TTAGGGCACAATCCTCCCGT
69480127 GGATCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (20 bp):
TTAGGGCACAATCCTCCCGT
Found at i:69480382 original size:3 final size:3
Alignment explanation
Indices: 69480374--69480514 Score: 87
Period size: 3 Copynumber: 47.0 Consensus size: 3
69480364 TAGTGCCATT
* * * * * * *
69480374 ATA ATA ATA AAA ATA AAA ATA ATA AAA ATA AAA AT- ATG TTA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
69480421 ATA ATAA ATAA ATA TTG GTA ATA A-A TATA TATA A-A ATA ATA GTA A-A
1 ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA
69480467 AGTA ATA A-A ATAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 A-TA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
69480512 ATA
1 ATA
69480515 CTCTCCCCCT
Statistics
Matches: 109, Mismatches: 19, Indels: 20
0.74 0.13 0.14
Matches are distributed among these distances:
2 11 0.10
3 81 0.74
4 17 0.16
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:69480906 original size:30 final size:30
Alignment explanation
Indices: 69480870--69480950 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 30
69480860 CATGGTGGCA
*
69480870 AGTAGGGTAATGGAGTTAGTGGGGT-AGCTT
1 AGTAGGGTGATGGAGTTAGTGGGGTGA-CTT
*
69480900 AGTAGGGTGATAGAGTTAGTGGGGTGACTT
1 AGTAGGGTGATGGAGTTAGTGGGGTGACTT
*
69480930 AGT-GGGTGATGAAGTTAGTGG
1 AGTAGGGTGATGGAGTTAGTGG
69480951 TCAGTTTAGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
29 16 0.35
30 29 0.63
31 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.44, T:0.30
Consensus pattern (30 bp):
AGTAGGGTGATGGAGTTAGTGGGGTGACTT
Found at i:69483467 original size:34 final size:35
Alignment explanation
Indices: 69483422--69483491 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
69483412 TATGTTTGAA
* * *
69483422 TTTTATCATTAAAATTTATCA-TCAATTTTAATTT
1 TTTTATCATTAAAATTTACCATTCAAATTCAATTT
*
69483456 TTTTATTATTAAAATTTACCATTCAAATTCAATTT
1 TTTTATCATTAAAATTTACCATTCAAATTCAATTT
69483491 T
1 T
69483492 GATAATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 19 0.61
35 12 0.39
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (35 bp):
TTTTATCATTAAAATTTACCATTCAAATTCAATTT
Found at i:69490556 original size:3 final size:3
Alignment explanation
Indices: 69490548--69490673 Score: 84
Period size: 3 Copynumber: 42.3 Consensus size: 3
69490538 AGGGGGAGAG
*
69490548 TAT TAT TAT TAT TAT TAT TAT T-T TAT T-T TAT TACT T-T TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
* * * *
69490591 TAT T-T TA- TAT ATATT TAT TAC CAT TATT TATT TAT TAT TAT TAG TAA
1 TAT TAT TAT TAT -TA-T TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT
* * * *
69490638 CA- TAT TGT TAT TTT TAT TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
69490674 TTGTACTGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
2 11 0.11
3 72 0.74
4 13 0.13
5 1 0.01
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:69490807 original size:15 final size:16
Alignment explanation
Indices: 69490769--69490808 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 16
69490759 TGTTATTAGG
*
69490769 GTTATTATATTGCTAT
1 GTTATCATATTGCTAT
69490785 -TT-TCATATTGC-AT
1 GTTATCATATTGCTAT
69490798 GTTATCATATT
1 GTTATCATATT
69490809 TTTTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
13 2 0.10
14 10 0.48
15 9 0.43
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.55
Consensus pattern (16 bp):
GTTATCATATTGCTAT
Found at i:69490929 original size:20 final size:20
Alignment explanation
Indices: 69490901--69490940 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69490891 TTTAGGATCC
69490901 ACGGAAGGATTGTGCCCTAA
1 ACGGAAGGATTGTGCCCTAA
*
69490921 ACGGGAGGATTGTGCCCTAA
1 ACGGAAGGATTGTGCCCTAA
69490941 CTTACTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.33, T:0.20
Consensus pattern (20 bp):
ACGGAAGGATTGTGCCCTAA
Found at i:69492942 original size:79 final size:78
Alignment explanation
Indices: 69492812--69493017 Score: 277
Period size: 79 Copynumber: 2.6 Consensus size: 78
69492802 TAACTGTAGT
* * *
69492812 GAATCAGGATTAGCTGTTCAGGTCAAATCCTATCCACCTTAAGTTATCATAAGGAATCATATATC
1 GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
* *
69492877 GTGTAACCATAGC
66 ATGTAACCATAAC
* * * *
69492890 GAATCAGGATTACCATTTTCAGATCAAATCCTATCCATCTTAGGTTACCATAATGAATCATATAT
1 GAATCAGGATTACC-TTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATAT
*
69492955 CATGTAACCGTAAC
65 CATGTAACCATAAC
* * *
69492969 GAATCAAGATTACCCTTTTCAGGTCAAATTCTATCCGCCTTAAGTTACC
1 GAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACC
69493018 GTAGTGAATC
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
78 13 0.12
79 95 0.86
80 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (78 bp):
GAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAAGGAATCATATATC
ATGTAACCATAAC
Found at i:69493057 original size:40 final size:40
Alignment explanation
Indices: 69492993--69493130 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
69492983 CTTTTCAGGT
* * * * *
69492993 CAAATTCTATCCGCCTTAAGTTACCGTAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
69493033 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* ** ** *
69493073 CAAATCCTATCCACTTTGAGGTATTATAGTGAATTAGGAA
1 CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* *
69493113 CGAATCCTATCCATTTTA
1 CAAATCCTATCCACTTTA
69493131 TATTCTCGAG
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:69505187 original size:28 final size:29
Alignment explanation
Indices: 69505129--69505190 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 29
69505119 TAAAATTTTA
*
69505129 AATTTATATTTTGAATTTTAAAAAATTAT
1 AATTTATATTTTGAATTTTAAAAAATAAT
* * * *
69505158 AATTTA-ATTTTTATTTTTTAAATATAAT
1 AATTTATATTTTGAATTTTAAAAAATAAT
69505186 AATTT
1 AATTT
69505191 TATAGTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.79
29 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
AATTTATATTTTGAATTTTAAAAAATAAT
Found at i:69506550 original size:21 final size:20
Alignment explanation
Indices: 69506524--69506563 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
69506514 TAATAGGCAC
69506524 AATTAATCTCTATAT-TTTTAG
1 AATTAAT-T-TATATGTTTTAG
69506545 AATTAATTTATATGTTTTA
1 AATTAATTTATATGTTTTA
69506564 ATTTAGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (20 bp):
AATTAATTTATATGTTTTAG
Found at i:69514795 original size:20 final size:20
Alignment explanation
Indices: 69514750--69514786 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
69514740 GAGAATTGAT
*
69514750 TTAATTTATAATTAAATTAA
1 TTAATTTATAAATAAATTAA
69514770 TTAATTT-TAAATAAATT
1 TTAATTTATAAATAAATT
69514787 TATGTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTAATTTATAAATAAATTAA
Found at i:69517323 original size:24 final size:24
Alignment explanation
Indices: 69517291--69517343 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
69517281 AACAGCCCAA
69517291 TTGTTGACCTTCGATTTCATTATT
1 TTGTTGACCTTCGATTTCATTATT
69517315 TTGTTGACCTTCGATTTCATTATT
1 TTGTTGACCTTCGATTTCATTATT
69517339 TTGTT
1 TTGTT
69517344 CTGAAAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.57
Consensus pattern (24 bp):
TTGTTGACCTTCGATTTCATTATT
Found at i:69520804 original size:5 final size:5
Alignment explanation
Indices: 69520794--69520821 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
69520784 AATAATTAAG
69520794 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
69520822 TATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:69521481 original size:39 final size:40
Alignment explanation
Indices: 69521374--69521484 Score: 111
Period size: 38 Copynumber: 2.8 Consensus size: 40
69521364 GACCTCGAGT
* **
69521374 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
69521415 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
69521453 CGATGAGACACTGGGTGTCAACTATTACTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
69521485 AACTATCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
38 19 0.34
39 19 0.34
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:69521495 original size:39 final size:39
Alignment explanation
Indices: 69521374--69521508 Score: 98
Period size: 39 Copynumber: 3.4 Consensus size: 39
69521364 GACCTCGAGT
* * *
69521374 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTC-GA-ACTATC
** ** * *
69521415 CGATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
69521453 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
* *
69521492 CGATGAGGCACTAGGTG
1 CGATGAGACACTGGGTG
69521509 CCATATTGGT
Statistics
Matches: 72, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
37 1 0.01
38 20 0.28
39 30 0.42
40 4 0.06
41 15 0.21
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGAACTATC
Found at i:69527562 original size:5 final size:5
Alignment explanation
Indices: 69527552--69527584 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
69527542 AATAATTAAG
69527552 TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
69527585 TATATATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:69527659 original size:31 final size:30
Alignment explanation
Indices: 69527624--69527684 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
69527614 GAAATAGAAT
*
69527624 GAAAGCAAACGAAAC-AGAGAAGAACAGGGGA
1 GAAAG-AAACGAAACAAGA-AAGAAAAGGGGA
* *
69527655 GAAAGAAAGGAAAGAAGAAAGAAAAGGGGA
1 GAAAGAAACGAAACAAGAAAGAAAAGGGGA
69527685 AATAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.59, C:0.07, G:0.34, T:0.00
Consensus pattern (30 bp):
GAAAGAAACGAAACAAGAAAGAAAAGGGGA
Found at i:69528245 original size:39 final size:40
Alignment explanation
Indices: 69528138--69528247 Score: 109
Period size: 38 Copynumber: 2.8 Consensus size: 40
69528128 GACCTCGAGT
* **
69528138 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
69528179 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
69528217 CGATGAGACACTGGGTGTCAACTATTACTTC
1 CGATGAGACACTGGGTGTCAACTATTACTTC
69528248 AAACTATCCG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
38 19 0.35
39 18 0.33
40 1 0.02
41 15 0.27
42 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:69538092 original size:33 final size:33
Alignment explanation
Indices: 69538054--69538120 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
69538044 ATAATTAAGT
69538054 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
1 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
69538087 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
1 TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
69538120 T
1 T
69538121 TAATACCATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.33, T:0.37
Consensus pattern (33 bp):
TATTCAAGAGGTTAGGGTAGATTATATTGGTGG
Found at i:69542644 original size:21 final size:21
Alignment explanation
Indices: 69542618--69542657 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
69542608 TAAGAACTTA
69542618 ACCAACTACAGCAAAAGCTTC
1 ACCAACTACAGCAAAAGCTTC
69542639 ACCAACTACAGCAAAAGCT
1 ACCAACTACAGCAAAAGCT
69542658 ATTCAAGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.33, G:0.10, T:0.12
Consensus pattern (21 bp):
ACCAACTACAGCAAAAGCTTC
Found at i:69549091 original size:6 final size:6
Alignment explanation
Indices: 69549080--69549109 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
69549070 TGCTATGTCC
69549080 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
69549110 TTCCTTTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
ATTTTT
Found at i:69549831 original size:31 final size:31
Alignment explanation
Indices: 69549793--69549851 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
69549783 TACATCCAAG
* *
69549793 TGACTTAAATAGAAATTTTTAAATAATTCAA
1 TGACTTAAATAAAAACTTTTAAATAATTCAA
*
69549824 TGACTTAAATAAAAACTTTTGAATAATT
1 TGACTTAAATAAAAACTTTTAAATAATT
69549852 TAGTGATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAATTCAA
Found at i:69551517 original size:21 final size:21
Alignment explanation
Indices: 69551491--69551533 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
69551481 GCATGTTAGA
69551491 TAGTTCCTTTTAGTACACTGG
1 TAGTTCCTTTTAGTACACTGG
69551512 TAGTTCCTTTTAGTACACTGG
1 TAGTTCCTTTTAGTACACTGG
69551533 T
1 T
69551534 TGCAACCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (21 bp):
TAGTTCCTTTTAGTACACTGG
Found at i:69555814 original size:15 final size:14
Alignment explanation
Indices: 69555775--69555822 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
69555765 ATTAACAACA
69555775 TTTAGATTA-TTTAT
1 TTTA-ATTATTTTAT
69555789 TTTAA-TATTTTAAT
1 TTTAATTATTTT-AT
69555803 TTTAATTATTTTGAT
1 TTTAATTATTTT-AT
69555818 TTTAA
1 TTTAA
69555823 AATATTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 2 0.07
13 4 0.13
14 11 0.37
15 13 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTTAATTATTTTAT
Found at i:69556070 original size:21 final size:21
Alignment explanation
Indices: 69556046--69556105 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
69556036 CGTTATTTTT
* *
69556046 AATCTCACCGCTACAGTATTC
1 AATCTCACCGCTACAATATCC
*
69556067 AATCTCATCGCTACAATATCC
1 AATCTCACCGCTACAATATCC
* *
69556088 AATCTGACCACTACAATA
1 AATCTCACCGCTACAATA
69556106 ATTAATTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.35, C:0.32, G:0.07, T:0.27
Consensus pattern (21 bp):
AATCTCACCGCTACAATATCC
Found at i:69558249 original size:50 final size:50
Alignment explanation
Indices: 69558125--69558373 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
69558115 GATAATAACA
* * ** * *
69558125 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
69558176 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
69558226 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
69558276 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
69558331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
69558374 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:69558303 original size:100 final size:104
Alignment explanation
Indices: 69558124--69558373 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
69558114 TGATAATAAC
**
69558124 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
69558189 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
69558226 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
69558289 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
69558331 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
69558374 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:69558489 original size:13 final size:13
Alignment explanation
Indices: 69558468--69558499 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
69558458 GCTTGGATCA
*
69558468 TCATCAAATAAAT
1 TCATAAAATAAAT
69558481 TCATAAAATAAAT
1 TCATAAAATAAAT
69558494 TCATAA
1 TCATAA
69558500 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:69558746 original size:30 final size:30
Alignment explanation
Indices: 69558711--69558768 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
69558701 CCTCGACTCT
*
69558711 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
69558741 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
69558769 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:69626824 original size:44 final size:45
Alignment explanation
Indices: 69626760--69627335 Score: 571
Period size: 44 Copynumber: 13.2 Consensus size: 45
69626750 TCATTAAAGT
* * * *
69626760 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
69626804 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * *
69626847 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
**** * * *
69626892 AGATCTTGTCTTCAGGCATTAG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
69626936 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* *
69626979 AGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
69627024 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
69627068 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* *
69627111 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAA-GATAGC
* * * *
69627156 AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * *
69627201 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGAT-----AT--C
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * * *
69627238 AGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
* * *
69627281 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
69627326 AGATCTTGTC
1 AGATCTTGTC
69627336 CCTGTATTTG
Statistics
Matches: 436, Mismatches: 77, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
37 27 0.06
38 1 0.00
39 1 0.00
42 2 0.00
43 87 0.20
44 199 0.46
45 119 0.27
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
AGATCTTGTCTTCCTATATTGGTGGTGAAGTAGATCGAAGATAGC
Found at i:69626997 original size:132 final size:132
Alignment explanation
Indices: 69626755--69627168 Score: 765
Period size: 132 Copynumber: 3.1 Consensus size: 132
69626745 TGAAGTCATT
*
69626755 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
69626820 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69626885 AG
131 AG
* * *
69626887 AAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
69626952 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69627017 AG
131 AG
69627019 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
69627084 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69627149 AG
131 AG
* *
69627151 GATGCAGATCTTGTCTTC
1 AAAGCAGATCTTGTCTTC
69627169 CCATATTGGT
Statistics
Matches: 271, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 271 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:69627176 original size:132 final size:132
Alignment explanation
Indices: 69626755--69627330 Score: 756
Period size: 132 Copynumber: 4.4 Consensus size: 132
69626745 TGAAGTCATT
* *
69626755 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
69626820 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69626885 AG
131 AG
* * *
69626887 AAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
69626952 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69627017 AG
131 AG
*
69627019 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
69627084 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
69627149 AG
131 AG
* * * * * * * * * * * *
69627151 GATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCAT
1 AAAGCAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCT
* * * * * * * *
69627216 GTATTGG-CGTGAAGT--A--G-ATAT-CAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
65 ATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
69627273 GAAG
129 GAAG
* * * * * * *
69627277 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATC
1 AAAGCAGATCTTGTCTTCACGTATTGG-CGTGAAGTAGATCGAAGATATCAGATC
69627331 TTGTCCCTGT
Statistics
Matches: 409, Mismatches: 33, Indels: 11
0.90 0.07 0.02
Matches are distributed among these distances:
125 51 0.12
126 13 0.03
127 22 0.05
128 3 0.01
129 1 0.00
131 1 0.00
132 278 0.68
133 40 0.10
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
AAAGCAGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
AG
Found at i:69627314 original size:81 final size:82
Alignment explanation
Indices: 69627061--69627315 Score: 230
Period size: 81 Copynumber: 3.0 Consensus size: 82
69627051 AGTAGATCGA
* * *
69627061 AGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTC
1 AGATATCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
* * * *
69627124 CCATATTGGTGGCGAAGT
66 ACATACTGG-CGTGAAGT
* * * *
69627142 AGATCGAAGGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCT
1 AGAT------AT-CAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCT
** *
69627207 TGTCTTCATGTATTGGCGTGAAGT
59 TGTCTTCACATACTGGCGTGAAGT
* * *
69627231 AGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTC
1 AGATATCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
* *
69627294 CCATACTGGTGGTGAAGT
66 ACATACTGG-CGTGAAGT
69627312 AGAT
1 AGAT
69627316 CGAAGAAAGC
Statistics
Matches: 140, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
80 21 0.15
81 27 0.19
82 22 0.16
83 2 0.01
87 2 0.01
88 22 0.16
89 22 0.16
90 22 0.16
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (82 bp):
AGATATCAGATCCTATCTTCCCATATTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
ACATACTGGCGTGAAGT
Found at i:69627320 original size:170 final size:173
Alignment explanation
Indices: 69626917--69627335 Score: 641
Period size: 170 Copynumber: 2.4 Consensus size: 173
69626907 GCATTAGCGT
* * * * * * *
69626917 GAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAA-GATGCAG
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGGATGCAG
*
69626981 ATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
69627046 CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG
130 CGTGAAG-AGAT--AAGATATCAGATCCTATCTTCCTATATTGGTAG
69627093 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGGATGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGGATGCAG
*
69627158 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG
65 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
69627223 CGTG-A-AG-T-AGATATCAGATCCTATCTTCCTATATTGGTAG
130 CGTGAAGAGATAAGATATCAGATCCTATCTTCCTATATTGGTAG
* * *
69627263 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG-GAAGTAGATCGAAGGATGCAG
69627328 ATCTTGTC
65 ATCTTGTC
69627336 CCTGTATTTG
Statistics
Matches: 228, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
170 101 0.44
173 1 0.00
174 2 0.01
175 22 0.10
176 28 0.12
177 74 0.32
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (173 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGGAAGTAGATCGAAGGATGCAGA
TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
GTGAAGAGATAAGATATCAGATCCTATCTTCCTATATTGGTAG
Found at i:69628925 original size:3 final size:3
Alignment explanation
Indices: 69628907--69628957 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
69628897 TCAAATATCC
* * * * *
69628907 TTA TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
69628954 TTA T
1 TTA T
69628958 GTACTAGTGT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:69629087 original size:3 final size:3
Alignment explanation
Indices: 69629079--69629114 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
69629069 TATTCCAATG
69629079 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
69629115 GTTTATGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:69630932 original size:21 final size:20
Alignment explanation
Indices: 69630907--69630948 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
69630897 ACTCCCTCAA
69630907 CCCCCCAAATCATTTTA-TTTT
1 CCCCCCAAA-C-TTTTACTTTT
*
69630928 CCCCCTAAACTTTTACTTTT
1 CCCCCCAAACTTTTACTTTT
69630948 C
1 C
69630949 ACCTTTGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 6 0.32
21 8 0.42
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (20 bp):
CCCCCCAAACTTTTACTTTT
Found at i:69632858 original size:17 final size:17
Alignment explanation
Indices: 69632818--69632860 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
69632808 ATTATTTAGT
*
69632818 AATACTTATATTTTAAA
1 AATACTTTTATTTTAAA
*
69632835 AGA-ACTTTTGTTTTAAA
1 A-ATACTTTTATTTTAAA
69632852 AATACTTTT
1 AATACTTTT
69632861 TGGCCCAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.49
Consensus pattern (17 bp):
AATACTTTTATTTTAAA
Found at i:69642839 original size:37 final size:37
Alignment explanation
Indices: 69642789--69642867 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
69642779 AGCACTCACC
69642789 TCAATGTTTATTCCCACAATGTTGACATTCTAGAATT
1 TCAATGTTTATTCCCACAATGTTGACATTCTAGAATT
69642826 TCAATGTTTATTCCCACAATGTTGACATTCTAGAATT
1 TCAATGTTTATTCCCACAATGTTGACATTCTAGAATT
69642863 TCAAT
1 TCAAT
69642868 ATTTCTAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (37 bp):
TCAATGTTTATTCCCACAATGTTGACATTCTAGAATT
Found at i:69650130 original size:21 final size:21
Alignment explanation
Indices: 69650104--69650144 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
69650094 CACCATCATC
69650104 ATCAATATCAGCAGCAGCAGT
1 ATCAATATCAGCAGCAGCAGT
*
69650125 ATCAATATCATCAGCAGCAG
1 ATCAATATCAGCAGCAGCAG
69650145 CAGCAACAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCAATATCAGCAGCAGCAGT
Found at i:69655215 original size:30 final size:31
Alignment explanation
Indices: 69655160--69655231 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
69655150 ACTTAGTGAC
* **
69655160 TAAAATGTTACAATGTAATAACATAAATGGT
1 TAAAATGTAACAATGTAATAACATAAATAAT
* * *
69655191 TAAAATGTAACATTTTAA-AACATAATTAAT
1 TAAAATGTAACAATGTAATAACATAAATAAT
69655221 TAAAATGTAAC
1 TAAAATGTAAC
69655232 TTAAGATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 20 0.57
31 15 0.43
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.33
Consensus pattern (31 bp):
TAAAATGTAACAATGTAATAACATAAATAAT
Found at i:69657264 original size:19 final size:20
Alignment explanation
Indices: 69657227--69657264 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
69657217 TACGTAATTT
* *
69657227 AAAATTAAAATTTTTTAAAC
1 AAAATTAAAATATTATAAAC
69657247 AAAATT-AAATATTATAAA
1 AAAATTAAAATATTATAAA
69657265 AATAAATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATTAAAATATTATAAAC
Found at i:69665214 original size:16 final size:15
Alignment explanation
Indices: 69665186--69665215 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
69665176 ATGACTATAT
69665186 ATAAAATTATAATAA
1 ATAAAATTATAATAA
69665201 ATAAAATATATAATA
1 ATAAAAT-TATAATA
69665216 CTATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAATTATAATAA
Found at i:69665421 original size:6 final size:6
Alignment explanation
Indices: 69665412--69665439 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
69665402 TGCATATAAA
69665412 AAATTT AAATTT AAATTT AAATTT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAAT
69665440 ATTTTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:69671700 original size:22 final size:22
Alignment explanation
Indices: 69671654--69671704 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
69671644 ATCATCAATT
69671654 AATTAATTATTAAAATTTTTAAA
1 AATTAATTA-TAAAATTTTTAAA
*
69671677 AATTAATTA-AAAATATTTTTAA
1 AATTAATTATAAAAT-TTTTAAA
69671699 AATTAA
1 AATTAA
69671705 AAATAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 5 0.19
22 12 0.46
23 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTAATTATAAAATTTTTAAA
Found at i:69671718 original size:18 final size:18
Alignment explanation
Indices: 69671681--69671720 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
69671671 TTTAAAAATT
* **
69671681 AATTAAAAATATTTTTAA
1 AATTAAAAATAATTAAAA
69671699 AATTAAAAATAATTAAAA
1 AATTAAAAATAATTAAAA
69671717 AATT
1 AATT
69671721 TTGTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTAAAAATAATTAAAA
Found at i:69672072 original size:11 final size:11
Alignment explanation
Indices: 69672056--69672081 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
69672046 CTACTACGTT
69672056 TTCCATTTTCG
1 TTCCATTTTCG
69672067 TTCCATTTTCG
1 TTCCATTTTCG
69672078 TTCC
1 TTCC
69672082 GATCCGTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.31, G:0.08, T:0.54
Consensus pattern (11 bp):
TTCCATTTTCG
Found at i:69679676 original size:31 final size:31
Alignment explanation
Indices: 69679619--69679684 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 31
69679609 ATATAAATAA
*
69679619 TTAAAAACTATATATTTATTGATTTAT-TAAT
1 TTAAAAAATATATATTTATTGATTTATAT-AT
69679650 TTAAAAAATA-ATATTATATT-ATTTTATATAT
1 TTAAAAAATATATATT-TATTGA-TTTATATAT
69679681 TTAA
1 TTAA
69679685 TATAAAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
30 6 0.19
31 24 0.77
32 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
TTAAAAAATATATATTTATTGATTTATATAT
Found at i:69679871 original size:30 final size:30
Alignment explanation
Indices: 69679804--69679876 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
69679794 GAAAATTATA
69679804 TATTTTATTATTTTTAAAAAGTAATAATAT
1 TATTTTATTATTTTTAAAAAGTAATAATAT
* * * * *
69679834 TAATTTATTGTTTTTAAACAGTAATACTTT
1 TATTTTATTATTTTTAAAAAGTAATAATAT
69679864 TATTTTATTATTT
1 TATTTTATTATTT
69679877 AAATATTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTTTTAAAAAGTAATAATAT
Found at i:69691698 original size:53 final size:53
Alignment explanation
Indices: 69691617--69691767 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
69691607 CTTACACGGT
* *
69691617 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
69691672 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
69691725 TCACATTGCACCGATGCCATAGCCCAGCTACGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
69691768 GCACACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:69694461 original size:20 final size:21
Alignment explanation
Indices: 69694438--69694476 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
69694428 TTACCAATGA
69694438 ATCTAAAGATTTA-CTAAAAT
1 ATCTAAAGATTTACCTAAAAT
*
69694458 ATCTAATGATTTACCTAAA
1 ATCTAAAGATTTACCTAAA
69694477 GATTGACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (21 bp):
ATCTAAAGATTTACCTAAAAT
Found at i:69694476 original size:32 final size:32
Alignment explanation
Indices: 69694440--69694500 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
69694430 ACCAATGAAT
* * *
69694440 CTAAAGATTTACTAAAATATCTAATGATTTAC
1 CTAAAGATTGACCAAAATATCAAATGATTTAC
*
69694472 CTAAAGATTGACCAAATTATCAAATGATT
1 CTAAAGATTGACCAAAATATCAAATGATT
69694501 AACCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.34
Consensus pattern (32 bp):
CTAAAGATTGACCAAAATATCAAATGATTTAC
Found at i:69694668 original size:20 final size:20
Alignment explanation
Indices: 69694645--69694693 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
69694635 TATTGTTTTG
*
69694645 CCAATATTTATGAGAATTTA
1 CCAATATTTATAAGAATTTA
* * *
69694665 CCAAAATTTCTAAGATTTTA
1 CCAATATTTATAAGAATTTA
*
69694685 CTAATATTT
1 CCAATATTT
69694694 TCAAAATTTC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (20 bp):
CCAATATTTATAAGAATTTA
Found at i:69694783 original size:20 final size:20
Alignment explanation
Indices: 69694760--69694955 Score: 114
Period size: 20 Copynumber: 9.9 Consensus size: 20
69694750 TATTAAAACA
69694760 TCTAACGATTTACCAATATT
1 TCTAACGATTTACCAATATT
* * * *
69694780 TCTAAGGGTTTACAAATAGT
1 TCTAACGATTTACCAATATT
*
69694800 GCTAACGATTTACCAATATT
1 TCTAACGATTTACCAATATT
* **
69694820 TCT-A-G-TTTCACAAATAAA
1 TCTAACGATTT-ACCAATATT
** * *
69694838 TCTAAAAATTTACTAAAATT
1 TCTAACGATTTACCAATATT
** *
69694858 TCTAAAAATTTACCAATACT
1 TCTAACGATTTACCAATATT
* * *
69694878 TATAAGGGTTTACCAATATAT
1 TCTAACGATTTACCAATAT-T
* **
69694899 TC-AAAGATTTACCAATAAA
1 TCTAACGATTTACCAATATT
* *
69694918 TCTAACGATTTATCAAAATT
1 TCTAACGATTTACCAATATT
*
69694938 TCT-ACTGTTTTACCAATA
1 TCTAAC-GATTTACCAATA
69694956 CTTATTAGAC
Statistics
Matches: 130, Mismatches: 39, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
17 3 0.02
18 10 0.08
19 6 0.05
20 106 0.82
21 5 0.04
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (20 bp):
TCTAACGATTTACCAATATT
Found at i:69694849 original size:38 final size:38
Alignment explanation
Indices: 69694767--69694861 Score: 95
Period size: 38 Copynumber: 2.4 Consensus size: 38
69694757 ACATCTAACG
* **
69694767 ATTTACCAATATTTCTAAGGGTTTACAAATAGTGCTAACG
1 ATTTACCAATATTTCT-A-GGTTTACAAATAATGCTAAAA
69694807 ATTTACCAATATTTCTA-GTTTCACAAATAAAT-CTAAAA
1 ATTTACCAATATTTCTAGGTTT-ACAAAT-AATGCTAAAA
* *
69694845 ATTTACTAAAATTTCTA
1 ATTTACCAATATTTCTA
69694862 AAAATTTACC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
37 4 0.08
38 25 0.52
39 3 0.06
40 16 0.33
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (38 bp):
ATTTACCAATATTTCTAGGTTTACAAATAATGCTAAAA
Found at i:69694857 original size:10 final size:11
Alignment explanation
Indices: 69694839--69694870 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
69694829 ACAAATAAAT
69694839 CTAAAAATTTA
1 CTAAAAATTTA
69694850 CT-AAAATTT-
1 CTAAAAATTTA
69694859 CTAAAAATTTA
1 CTAAAAATTTA
69694870 C
1 C
69694871 CAATACTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 2 0.11
10 14 0.74
11 3 0.16
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (11 bp):
CTAAAAATTTA
Found at i:69694990 original size:80 final size:79
Alignment explanation
Indices: 69694809--69694992 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 79
69694799 TGCTAACGAT
* *
69694809 TTACCAATATTTCTAG-TTTCACAAATAAATCTAAAAATTTACTAAAATTTCTAAAAATTTACCA
1 TTACCAATATTTCTAGATTTTACCAATAAATCTAAAAATTTACTAAAATTTCTAAAAATTTACCA
***
69694873 ATACTTATAAGGGT
66 ATACTTATAAGACC
* ** ****
69694887 TTACCAATATATTCAAAGA-TTTACCAATAAATCTAACGATTTA-TCAAAATTTCTACTGTTTTA
1 TTACCAATAT-TTC-TAGATTTTACCAATAAATCTAAAAATTTACT-AAAATTTCTAAAAATTTA
*
69694950 CCAATACTTATTAGACC
63 CCAATACTTATAAGACC
*
69694967 TTACCAAAATTTCTTAGATTTTACCA
1 TTACCAATATTTC-TAGATTTTACCA
69694993 TTATTTTCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
78 10 0.12
79 10 0.12
80 65 0.76
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (79 bp):
TTACCAATATTTCTAGATTTTACCAATAAATCTAAAAATTTACTAAAATTTCTAAAAATTTACCA
ATACTTATAAGACC
Found at i:69695207 original size:20 final size:20
Alignment explanation
Indices: 69695131--69695209 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
69695121 ATATGTAACG
* *
69695131 ATTTACTAAAAGATATAAAA
1 ATTTACTAAAATATCTAAAA
* *
69695151 ATTTA-TCAAAATATTTAACA
1 ATTTACT-AAAATATCTAAAA
* * *
69695171 GTTTAC-AAATATTTCTAAGA
1 ATTTACTAAA-ATATCTAAAA
69695191 ATTTACTAAAATATCTAAA
1 ATTTACTAAAATATCTAAA
69695210 TTTCTATCAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
19 4 0.09
20 38 0.84
21 3 0.07
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (20 bp):
ATTTACTAAAATATCTAAAA
Found at i:69701481 original size:20 final size:20
Alignment explanation
Indices: 69701443--69701481 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
69701433 CACACGCCCG
* *
69701443 TGTGGCTTGGGACACGCCTA
1 TGTGGCCTGGAACACGCCTA
*
69701463 TGTGGCCTGGAACATGCCT
1 TGTGGCCTGGAACACGCCT
69701482 GTATGCTGCA
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:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (20 bp):
TGTGGCCTGGAACACGCCTA
Found at i:69702382 original size:53 final size:52
Alignment explanation
Indices: 69702309--69702443 Score: 155
Period size: 52 Copynumber: 2.6 Consensus size: 52
69702299 ATATCATACT
** * *
69702309 GATGCCATATTCCAGATATGGTCTTATAC-AAAATCACATTATCACATCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGAAAAT-ACA-AATCACATCACACC
** ***
69702362 GATGCCATAGCCCAGCTATGGTCTTATACGGGAATACAAATCACATTGTACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGAAAATACAAATCACATCACACC
*
69702414 GATGCCATAGCCCGGCTATGGTCTTATACG
1 GATGCCATAGCCCAGCTATGGTCTTATACG
69702444 GAAGTATATA
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
52 39 0.55
53 29 0.41
54 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGAAAATACAAATCACATCACACC
Found at i:69720880 original size:29 final size:29
Alignment explanation
Indices: 69720841--69720912 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 29
69720831 AATCTATATC
* *
69720841 TTTATAATTTTAAAAAATTAAATTA-AATT
1 TTTATATTTTTAAAAAATTAAAATATAA-T
69720870 TTTATATTTTTAAAAAATTAAAATATAAT
1 TTTATATTTTTAAAAAATTAAAATATAAT
69720899 TTTATATTTATTAA
1 TTTATATTT-TTAA
69720913 TTTAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 33 0.85
30 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTATATTTTTAAAAAATTAAAATATAAT
Found at i:69727766 original size:42 final size:41
Alignment explanation
Indices: 69727704--69727817 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 41
69727694 TTCGTTTTCT
** * *
69727704 TGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
69727746 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
69727787 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 T-GATGCCATAGCCCAGCTATGGTCTTACAC
69727818 GAATCACATA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 2 0.03
42 64 0.97
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (41 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:69727891 original size:47 final size:46
Alignment explanation
Indices: 69727788--69727911 Score: 160
Period size: 47 Copynumber: 2.7 Consensus size: 46
69727778 ATTCATATAT
* * * *
69727788 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCTCAC
* * *
69727834 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAT-AC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATC-TCAC
69727881 CGATGCCATATCCCAGATATGGTCTTATACG
1 CGATGCCATATCCCAGATATGGTCTTATACG
69727912 GAAATCACTT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
46 27 0.40
47 40 0.59
48 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCTCAC
Found at i:69727952 original size:31 final size:31
Alignment explanation
Indices: 69727934--69728114 Score: 281
Period size: 31 Copynumber: 5.8 Consensus size: 31
69727924 CACTTGTCTC
69727934 GTAGCCGGAGCTACCACTTTTCACTTATCAG
1 GTAGCCGGAGCTACCACTTTTCACTTATCAG
*
69727965 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTTATCAG
69727996 GTAGCCGGAGCTACCACTTTTCACTTATCAG
1 GTAGCCGGAGCTACCACTTTTCACTTATCAG
*
69728027 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTTATCAG
*** *
69728058 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACTTTTCACTTATCAG
* * *
69728089 GTTGCTGAAGCTACCACTTTTCACTT
1 GTAGCCGGAGCTACCACTTTTCACTT
69728115 GTCATTTGTC
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 140 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACTTTTCACTTATCAG
Found at i:69728193 original size:50 final size:51
Alignment explanation
Indices: 69728095--69728217 Score: 196
Period size: 50 Copynumber: 2.4 Consensus size: 51
69728085 TCAGGTTGCT
* *
69728095 GAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
*
69728146 GAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCC
69728196 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
69728218 TGCCATGTTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
50 45 0.67
51 22 0.33
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCC
Found at i:69733377 original size:30 final size:30
Alignment explanation
Indices: 69733336--69733393 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
69733326 ATCTTCAATT
*
69733336 TGCTTTCTTGCTACCTTAGCAAGATAAGAC
1 TGCTCTCTTGCTACCTTAGCAAGATAAGAC
**
69733366 TGCTCTCTTGCTACCTTAGGGAGATAAG
1 TGCTCTCTTGCTACCTTAGCAAGATAAG
69733394 GCTGATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (30 bp):
TGCTCTCTTGCTACCTTAGCAAGATAAGAC
Found at i:69733550 original size:43 final size:45
Alignment explanation
Indices: 69733472--69733566 Score: 108
Period size: 43 Copynumber: 2.2 Consensus size: 45
69733462 AACTTCAGGG
* * *
69733472 AGATAAGATCTTCAATTTTCAATCTGCTTTTTTGCTACC-CTAGAA
1 AGATAAGATCTTCAATTTTCAACCTGCTCTCTTGCTACCTC-AGAA
*
69733517 AGATAAGA-C-TC-ATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATT-TTCAACCTGCTCTCTTGCTACCTCAGAA
69733560 AGATAAG
1 AGATAAG
69733567 GCTGATGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 3 0.07
43 31 0.70
44 2 0.05
45 8 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
AGATAAGATCTTCAATTTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:69733976 original size:44 final size:45
Alignment explanation
Indices: 69733913--69734009 Score: 112
Period size: 44 Copynumber: 2.2 Consensus size: 45
69733903 ACTGCTTAGG
**
69733913 GAGATAAGATATTCAATCTTCAGTCTGCTTC-CTTACTACCTCAG-
1 GAGATAAGATATTCAATCTTCAACCTG-TTCTCTTACTACCTCAGA
*
69733957 GAAGATAAGACTA-TC-ATCTTCAACCTGTTCTCTTGCTACCTCAGA
1 G-AGATAAGA-TATTCAATCTTCAACCTGTTCTCTTACTACCTCAGA
69734002 GAGATAAG
1 GAGATAAG
69734010 GTCAATGGCT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
43 3 0.07
44 30 0.65
45 11 0.24
46 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (45 bp):
GAGATAAGATATTCAATCTTCAACCTGTTCTCTTACTACCTCAGA
Done.