Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 271 of 427
Found at i:78126231 original size:39 final size:39
Alignment explanation
Indices: 78126177--78126255 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
78126167 GTTTTCATGA
*
78126177 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATGTTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
78126216 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
1 TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
78126255 T
1 T
78126256 TTCAGTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (39 bp):
TAAAATGCTCAACTTGGAATGTTTGAAACTTTGATATTC
Found at i:78138440 original size:2 final size:2
Alignment explanation
Indices: 78138433--78138463 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78138423 TATGTTTCTC
78138433 AT AT 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 AT AT A
78138464 ACCAATCAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78141003 original size:16 final size:15
Alignment explanation
Indices: 78140966--78141004 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
78140956 CTAAAAGTAG
78140966 ACTCATTATGAATTTT
1 ACTCA-TATGAATTTT
*
78140982 ATTCATATGAATTTT
1 ACTCATATGAATTTT
78140997 AACTCATA
1 -ACTCATA
78141005 ATTATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.36, C:0.13, G:0.05, T:0.46
Consensus pattern (15 bp):
ACTCATATGAATTTT
Found at i:78149158 original size:26 final size:25
Alignment explanation
Indices: 78149116--78149172 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
78149106 ACACACTGCA
* *
78149116 GCTCTTATGAGCATCCTG-TTATATG
1 GCTCTTACGAGCATCCTGATTA-AAG
*
78149141 GCTCTTCACGAGCTTCCTGATTAAAG
1 GCTCTT-ACGAGCATCCTGATTAAAG
78149167 GCTCTT
1 GCTCTT
78149173 TGTGAGCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 18 0.67
27 3 0.11
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
GCTCTTACGAGCATCCTGATTAAAG
Found at i:78149352 original size:25 final size:25
Alignment explanation
Indices: 78149323--78149387 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
78149313 GGCTCTTATG
* **
78149323 AGCTTCCCGTTATATAGC-CTGGATA
1 AGCTTCCAGTTATATAGCTC-ACATA
*
78149348 AGCTTCTAGTTATATAGCTCACATA
1 AGCTTCCAGTTATATAGCTCACATA
*
78149373 AGCTTCCTGTTATAT
1 AGCTTCCAGTTATAT
78149388 GGCTTGAGAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (25 bp):
AGCTTCCAGTTATATAGCTCACATA
Found at i:78152449 original size:10 final size:10
Alignment explanation
Indices: 78152376--78152451 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
78152366 CCAAATTTAA
78152376 AAAAAT-TA-
1 AAAAATATAT
78152384 AAAAATATAT
1 AAAAATATAT
* *
78152394 GAAAATACAT
1 AAAAATATAT
*
78152404 AAATAT-TAT
1 AAAAATATAT
*
78152413 ACAACATATAAT
1 A-AAAATAT-AT
*
78152425 AATAAAT-TTT
1 AA-AAATATAT
78152435 AAAAATATAT
1 AAAAATATAT
78152445 AAAAATA
1 AAAAATA
78152452 AAAAGTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
8 6 0.12
9 9 0.17
10 28 0.54
11 3 0.06
12 6 0.12
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (10 bp):
AAAAATATAT
Found at i:78152700 original size:26 final size:25
Alignment explanation
Indices: 78152664--78152713 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
78152654 GGAGAGTTTT
78152664 TATTATTATTTAATATTTAATATAAC
1 TATTATTATTTAATA-TTAATATAAC
* *
78152690 TATTTTTATTTATTATTAATATAA
1 TATTATTATTTAATATTAATATAA
78152714 AAATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTATTATTTAATATTAATATAAC
Found at i:78158091 original size:26 final size:26
Alignment explanation
Indices: 78158069--78158122 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
78158059 CCACCAAGTC
78158069 TTGTTCTTTTAAAGTGATTCCAACTA
1 TTGTTCTTTTAAAGTGATTCCAACTA
78158095 TTGTTCTTTTAAAGTGATTCCAACTA
1 TTGTTCTTTTAAAGTGATTCCAACTA
78158121 TT
1 TT
78158123 CTTCCATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (26 bp):
TTGTTCTTTTAAAGTGATTCCAACTA
Found at i:78179937 original size:22 final size:22
Alignment explanation
Indices: 78179912--78179956 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
78179902 ACATTGCTTA
* *
78179912 TGTTTCAGATTTTTTTATTTAT
1 TGTTGCAGATTTTTTTAATTAT
**
78179934 TGTTGCATTTTTTTTTAATTAT
1 TGTTGCAGATTTTTTTAATTAT
78179956 T
1 T
78179957 TGGGTTGTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.18, C:0.04, G:0.09, T:0.69
Consensus pattern (22 bp):
TGTTGCAGATTTTTTTAATTAT
Found at i:78196502 original size:43 final size:44
Alignment explanation
Indices: 78196441--78196533 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
78196431 TCCTAATTGG
78196441 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
78196484 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
78196528 -AAAATA
1 GAAAATA
78196534 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:78196580 original size:19 final size:18
Alignment explanation
Indices: 78196556--78196595 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
78196546 GAATTAAAAC
78196556 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
78196575 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
78196593 TTA
1 TTA
78196596 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:78200704 original size:40 final size:40
Alignment explanation
Indices: 78200649--78200809 Score: 146
Period size: 40 Copynumber: 4.0 Consensus size: 40
78200639 TGAATGATAC
* * * *
78200649 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTATAT
* * *
78200689 CCGGGATAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCAAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
78200729 CCGAGCTAAGACCCAAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTATAT
* * *
78200769 CCGGGTTAAGACCCAAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTATAT
78200809 C
1 C
78200810 TGGTTAAATC
Statistics
Matches: 95, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 87 0.92
41 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCAAAGGCAATTGTGCTAGTGATTATAT
Found at i:78204494 original size:43 final size:44
Alignment explanation
Indices: 78204433--78204525 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 44
78204423 TCCTAACTGG
78204433 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* *
78204476 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
78204520 -AAAATA
1 GAAAATA
78204526 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
43 46 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:78204580 original size:19 final size:18
Alignment explanation
Indices: 78204552--78204587 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
78204542 TAAAACTTAC
78204552 CTACCCAAATAAGATTTAT
1 CTACCCAAATAA-ATTTAT
*
78204571 CTACCTAAATAAATTTA
1 CTACCCAAATAAATTTA
78204588 AAATATATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.33
Consensus pattern (18 bp):
CTACCCAAATAAATTTAT
Found at i:78213766 original size:31 final size:30
Alignment explanation
Indices: 78213715--78213797 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 30
78213705 CGTTTACAGT
78213715 AAAGGCTTCGGCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCAGTGATATGATTTATGA
*
78213745 AAAGGCTTCAGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCC-AGTGATATGATTTATGA
78213776 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGG-CCAGTGATATG
78213798 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.35
31 30 0.61
32 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (30 bp):
AAAGGCTTCGGCCAGTGATATGATTTATGA
Found at i:78220513 original size:42 final size:42
Alignment explanation
Indices: 78220407--78220571 Score: 158
Period size: 43 Copynumber: 3.9 Consensus size: 42
78220397 CGGAAAGCTC
* * * *
78220407 ATATAATGCCAACGTCCTAGACGTGGTCTTACATGTAACCAA
1 ATATGATGCCAACGTCCCAGACGTGGTCTTACACGAAACCAA
*
78220449 ATATCGATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAA
1 ATAT-GATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAAACCAA
* *
78220492 ATATGATGCCAACGTCCCAGACGTGGTCTTATACGTAAAACATA
1 ATATGATGCCAACGTCCCAGACGTGGTCTTACACG-AAACCA-A
* *
78220536 AGTCA--ATGCCAATGTCCCAGATGTGGTCTTACACGA
1 A-T-ATGATGCCAACGTCCCAGACGTGGTCTTACACGA
78220572 TAACACACAT
Statistics
Matches: 104, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
41 1 0.01
42 31 0.30
43 40 0.38
44 30 0.29
45 1 0.01
46 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATATGATGCCAACGTCCCAGACGTGGTCTTACACGAAACCAA
Found at i:78224342 original size:39 final size:40
Alignment explanation
Indices: 78224254--78224430 Score: 204
Period size: 40 Copynumber: 4.5 Consensus size: 40
78224244 GATTTATTGA
* * *
78224254 TAAGTCCCGAAGGC--TTGTGCTAAGTGACT-ATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT-TCCGGGC
78224293 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
78224333 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
* *
78224372 TAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
*
78224412 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
78224431 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
39 49 0.41
40 63 0.52
41 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:78224452 original size:79 final size:77
Alignment explanation
Indices: 78224280--78224463 Score: 210
Period size: 79 Copynumber: 2.3 Consensus size: 77
78224270 GTGCTAAGTG
* * *
78224280 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
78224345 CATTTGTGCGAGTT
64 CATTTGAACGAGTT
* *
78224359 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
78224423 GGCATTTGAACGAG-T
62 GGCATTTGAACGAGTT
*
78224438 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
78224464 TACGTGATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 30 0.33
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTTGAACGAGTT
Found at i:78232390 original size:40 final size:39
Alignment explanation
Indices: 78232333--78232516 Score: 160
Period size: 40 Copynumber: 4.6 Consensus size: 39
78232323 TCGAATGATG
78232333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-AAGTGACTAAT
* * *
78232372 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCAAGTGACTAAT
* * * *
78232413 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAAT
* * * *
78232452 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTGACTAAT
* *
78232491 AACC-GGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGT-CCGAAGGCATTTG
78232517 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 56 0.45
40 59 0.47
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCAAGTGACTAAT
Found at i:78232434 original size:39 final size:40
Alignment explanation
Indices: 78232333--78232535 Score: 238
Period size: 39 Copynumber: 5.1 Consensus size: 40
78232323 TCGAATGATG
* *
78232333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
78232373 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
78232412 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
78232452 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
78232492 ACC-GGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
78232531 TCCGG
1 TCCGG
78232536 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 14, Indels: 16
0.82 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 66 0.47
40 65 0.46
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:78232469 original size:79 final size:81
Alignment explanation
Indices: 78232333--78232516 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
78232323 TCGAATGATG
*
78232333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
*
78232397 TGTGCGAGTTACTA-A
66 TATGCGAGTTACTATA
* * **
78232412 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
78232474 TTTATGCGAGTTACTATA
64 TTTATGCGAGTTACTATA
* *
78232492 ACC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
78232517 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
78 7 0.08
79 66 0.72
80 19 0.21
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TATGCGAGTTACTATA
Found at i:78232523 original size:79 final size:78
Alignment explanation
Indices: 78232386--78232549 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 78
78232376 GGACTAAGAT
* * **
78232386 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
78232450 AATCCGGGTTAAGTC
65 AATCC-GGTTAAATC
*
78232465 CCGAAGGCATTTATGCGAGTTACT-ATAACC-GGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTATGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCT
* *
78232528 ATATCCGGTTAAATT
64 AAATCCGGTTAAATC
78232543 CCGAAGG
1 CCGAAGG
78232550 TACGTGATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
78 24 0.32
79 50 0.68
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTTATGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAA
ATCCGGTTAAATC
Found at i:78239639 original size:17 final size:18
Alignment explanation
Indices: 78239607--78239640 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78239597 TGTTGGGCTG
78239607 AAATAGGCTGTGTGGGCC
1 AAATAGGCTGTGTGGGCC
*
78239625 AAATGGGCT-TGTGGGC
1 AAATAGGCTGTGTGGGC
78239641 TCCACACGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (18 bp):
AAATAGGCTGTGTGGGCC
Found at i:78240144 original size:26 final size:25
Alignment explanation
Indices: 78240079--78240154 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
78240069 CATATACTAA
*
78240079 TACTGGCAGCTTTGCTGCGTTACTG
1 TACTGGCAGCTTTGCTGCGATACTG
* * *
78240104 TACTGGCAGCCTTGCTGCGATATTAT
1 TACTGGCAGCTTTGCTGCGATACT-G
*
78240130 TACTGGCAACTTTGCTGCGATACTG
1 TACTGGCAGCTTTGCTGCGATACTG
78240155 GTGTGTTGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
25 21 0.50
26 21 0.50
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.34
Consensus pattern (25 bp):
TACTGGCAGCTTTGCTGCGATACTG
Found at i:78241277 original size:24 final size:24
Alignment explanation
Indices: 78241245--78241304 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
78241235 GAATCAATAT
78241245 GAGTACAAGAGGTACTCATGGAAG
1 GAGTACAAGAGGTACTCATGGAAG
78241269 GAGTACAAGAGGTACTCATGGAAG
1 GAGTACAAGAGGTACTCATGGAAG
78241293 GAGTACAAGAGG
1 GAGTACAAGAGG
78241305 CCGTGGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (24 bp):
GAGTACAAGAGGTACTCATGGAAG
Found at i:78243518 original size:55 final size:54
Alignment explanation
Indices: 78243281--78243535 Score: 217
Period size: 55 Copynumber: 4.8 Consensus size: 54
78243271 ACATAGGTAC
* * * * *
78243281 CTTACC-ATTTCCATGACTTGTCATGGTCTTACGTGGTATAC-TT--TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAAA
* ** * *
78243330 CTTACC-ATTGCCATGTCTCAACATGGTCTTACATGGTTTCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTA-GAAA
* * *
78243383 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACAT-GGTATCCTTT-CC-T-TAGAAA
* * * *
78243438 CTTATCAATT-TCATGTCTTGACATGGTCTTACATGATATCCTTTCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAAA
*
78243491 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
78243536 AAACCCTAAA
Statistics
Matches: 162, Mismatches: 28, Indels: 26
0.75 0.13 0.12
Matches are distributed among these distances:
49 33 0.20
50 1 0.01
52 6 0.04
53 36 0.22
54 17 0.10
55 63 0.39
56 6 0.04
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAAA
Found at i:78256413 original size:46 final size:46
Alignment explanation
Indices: 78256363--78256535 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
78256353 TTGAGCATCT
78256363 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * **
78256409 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAATAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT--G--TCC
* *
78256456 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
78256502 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78256536 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 7 0.06
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:78256516 original size:93 final size:93
Alignment explanation
Indices: 78256357--78256528 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
78256347 GGATGGTTGA
* * *
78256357 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
78256422 TGAGTCCGAGTTCGTGAGATGTAAATAG
66 TGAGTCCGAGTTCGTGAGATGTAAATAG
*
78256450 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
78256515 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
78256529 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAAATAG
Found at i:78260362 original size:29 final size:29
Alignment explanation
Indices: 78260328--78260487 Score: 191
Period size: 29 Copynumber: 5.5 Consensus size: 29
78260318 TCGGCTAATG
*
78260328 ATTATGAAAAAGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
* * * *
78260358 A-TATGAAAAGGGATAGCT-TCAACTATCA
1 ATTATGAAAAGGGAT-GGTGACGACCATCA
* *
78260386 ATTATGAAAAAGGATAGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
*
78260415 ATTATGAAAAGGGATAGTGACGACCATCA
1 ATTATGAAAAGGGATGGTGACGACCATCA
78260444 ATTATGAAAAGGGATGGTGACGACCATCGA
1 ATTATGAAAAGGGATGGTGACGACCATC-A
*
78260474 A-TACGAAAAGGGAT
1 ATTATGAAAAGGGAT
78260488 AGCCTTGGCT
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.03
29 104 0.93
30 5 0.04
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGACGACCATCA
Found at i:78260390 original size:58 final size:59
Alignment explanation
Indices: 78260328--78260490 Score: 242
Period size: 58 Copynumber: 2.8 Consensus size: 59
78260318 TCGGCTAATG
* *
78260328 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCT-TCAACTATCA
1 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTGACAACCATCA
* *
78260386 ATTATGAAAAAGGATAGTGACGACCATC-AATTATGAAAAGGGATAG-TGACGACCATCA
1 ATTATGAAAAAGGATGGTGACGACCATCGAA-TATGAAAAGGGATAGCTGACAACCATCA
* *
78260444 ATTATGAAAAGGGATGGTGACGACCATCGAATACGAAAAGGGATAGC
1 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGC
78260491 CTTGGCTATT
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
57 3 0.03
58 89 0.95
59 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (59 bp):
ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTGACAACCATCA
Found at i:78260510 original size:29 final size:29
Alignment explanation
Indices: 78260478--78260546 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
78260468 CATCGAATAC
**
78260478 GAAAAGGGATAGCCTT-GGCTATTGATTAT
1 GAAAAGGGAT-GCCTTCGGCTATCAATTAT
** *
78260507 GAAAAGCTATGGCTTCGGCTATCAATTAT
1 GAAAAGGGATGCCTTCGGCTATCAATTAT
78260536 GAAAAGGGATG
1 GAAAAGGGATG
78260547 GGAATGATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (29 bp):
GAAAAGGGATGCCTTCGGCTATCAATTAT
Found at i:78260512 original size:58 final size:57
Alignment explanation
Indices: 78260328--78260511 Score: 228
Period size: 58 Copynumber: 3.2 Consensus size: 57
78260318 TCGGCTAATG
*
78260328 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCA
1 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTT-GACTATCA
* * *
78260386 ATTATGAAAAAGGATAGTGACGACCATC-AATTATGAAAAGGGATAG-TGACGACCATCA
1 ATTATGAAAAAGGATGGTGACGACCATCGAA-TATGAAAAGGGATAGCT--TGACTATCA
* * * **
78260444 ATTATGAAAAGGGATGGTGACGACCATCGAATACGAAAAGGGATAGCCTTGGCTATTG
1 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAG-CTTGACTATCA
78260502 ATTATGAAAA
1 ATTATGAAAA
78260512 GCTATGGCTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
57 3 0.03
58 102 0.94
59 2 0.02
60 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (57 bp):
ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTGACTATCA
Found at i:78260531 original size:116 final size:116
Alignment explanation
Indices: 78260328--78260604 Score: 301
Period size: 116 Copynumber: 2.4 Consensus size: 116
78260318 TCGGCTAATG
*
78260328 ATTATGAAAAAGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCAATTATGA
1 ATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCAATTATGA
*
78260393 AAAAGGATAGTGACGACCATCAATTATGAAAAGGGATAGTG-ACGACCATCA
66 AAAAGGATAGTGACGACCATCAATTATGAAAAGGGAT-GGGAACGACCATCA
* ** **
78260444 ATTATGAAAAGGGATGGTGACGACCATCGAATACGAAAAGGGATAGCCTT-GGCTATTGATTATG
1 ATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAG-CTTCAACTATCAATTATG
* * * * * * * *
78260508 -AAAAGCTATGGCT-TCGGCTATCAATTATGAAAAGGGATGGGAATGATCATTA
65 AAAAAG-GATAG-TGACGACCATCAATTATGAAAAGGGATGGGAACGACCATCA
* * * * *
78260560 ACTATGAAAAGCGATAGTGACAACCATCGATTAATGAAAAGGGAT
1 ATTATGAAAAGGGATGGTGACGACCATCGAAT-ATGAAAAGGGAT
78260605 GATTTCCACC
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
115 7 0.05
116 113 0.84
117 15 0.11
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (116 bp):
ATTATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATAGCTTCAACTATCAATTATGA
AAAAGGATAGTGACGACCATCAATTATGAAAAGGGATGGGAACGACCATCA
Found at i:78260547 original size:29 final size:29
Alignment explanation
Indices: 78260527--78260605 Score: 61
Period size: 29 Copynumber: 2.7 Consensus size: 29
78260517 GGCTTCGGCT
* *
78260527 ATCAATTATGAAAAGGGATGG-GAATGATC
1 ATCAATTATGAAAAGGGATGGTG-ACGACC
* * * * *
78260556 ATTAACTATGAAAAGCGATAGTGACAACC
1 ATCAATTATGAAAAGGGATGGTGACGACC
*
78260585 ATCGATTAATGAAAAGGGATG
1 ATCAATT-ATGAAAAGGGATG
78260606 ATTTCCACCA
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
29 24 0.67
30 12 0.33
ACGTcount: A:0.43, C:0.10, G:0.24, T:0.23
Consensus pattern (29 bp):
ATCAATTATGAAAAGGGATGGTGACGACC
Found at i:78265046 original size:26 final size:25
Alignment explanation
Indices: 78265005--78265102 Score: 72
Period size: 26 Copynumber: 3.7 Consensus size: 25
78264995 TTAGTTTACC
*
78265005 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
* *
78265031 AAATTACCAAAGTACCCTCGGTT-TA
1 AAATTACCAAA-TACCCCCAGTTGTA
* * *
78265056 TAAATTTACCCAAATATCCTCGATTTGTA
1 -AAA-TTA-CCAAATA-CCCCCAGTTGTA
78265085 AAATTACCAAAATACCCC
1 AAATTACC-AAATACCCC
78265103 TGTAAGGTAG
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
25 5 0.09
26 24 0.43
27 13 0.23
28 12 0.21
29 2 0.04
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:78265076 original size:27 final size:27
Alignment explanation
Indices: 78265029--78265101 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
78265019 CCCCCAGTTG
*
78265029 TAAAATTA-CCAAAGTACCCTCGGTTTA
1 TAAAATTACCCAAA-TACCCTCGATTTA
* * *
78265056 TAAATTTACCCAAATATCCTCGATTTG
1 TAAAATTACCCAAATACCCTCGATTTA
*
78265083 TAAAATTACCAAAATACCC
1 TAAAATTACCCAAATACCC
78265102 CTGTAAGGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 33 0.87
28 5 0.13
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
TAAAATTACCCAAATACCCTCGATTTA
Found at i:78265506 original size:27 final size:27
Alignment explanation
Indices: 78265086--78265524 Score: 497
Period size: 27 Copynumber: 16.3 Consensus size: 27
78265076 CGATTTGTAA
* *
78265086 AATTACCAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78265113 AATTACTGAAATACCTCTGTAAGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78265140 AATTACCGAAATACCCCTATAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78265167 AATTACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78265194 AATTATCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78265221 AATTACCGAAAAACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78265248 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78265275 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78265302 AATTACTGAAATACCCCTATATGGCAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78265329 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
78265356 AATTATCGAAATATCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78265383 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78265410 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78265437 AATTACAGAAATACCCTTATAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
* *
78265465 AA-TACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78265491 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
78265518 AATTACC
1 AATTACC
78265525 ATTTTACCCC
Statistics
Matches: 358, Mismatches: 50, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
26 6 0.02
27 347 0.97
28 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78265807 original size:27 final size:26
Alignment explanation
Indices: 78265769--78265820 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
78265759 CTCGCTGCAA
*
78265769 TCTGGTGGCTTCGCCACATATATCTGT
1 TCTGGTGACTTCGCCACA-ATATCTGT
*
78265796 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACTTCGCCACAATATCTG
78265821 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTGT
Found at i:78265977 original size:6 final size:6
Alignment explanation
Indices: 78265941--78266068 Score: 75
Period size: 6 Copynumber: 21.0 Consensus size: 6
78265931 GCATTCACAG
* * * * *
78265941 TCTGAT TTTGAT TCTG-T TACCGAT ACTGAT TCTGAT TTTGGT TCTG-T
1 TCTGAT TCTGAT TCTGAT T-CTGAT TCTGAT TCTGAT TCTGAT TCTGAT
* * * *
78265988 TACCTGAT ACTGAT TCTGAT TCTGAT TCTG-T CACCTAAT TCTGAT TCTAAT
1 T--CTGAT TCTGAT TCTGAT TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT
* *
78266039 TTTGAT TCTGAT TCTAAT TCT-AGT TCTGAT
1 TCTGAT TCTGAT TCTGAT TCTGA-T TCTGAT
78266069 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 20, Indels: 20
0.70 0.15 0.15
Matches are distributed among these distances:
5 6 0.07
6 77 0.84
7 7 0.08
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
TCTGAT
Found at i:78266000 original size:31 final size:31
Alignment explanation
Indices: 78265941--78266048 Score: 155
Period size: 31 Copynumber: 3.5 Consensus size: 31
78265931 GCATTCACAG
78265941 TCTGATTTTGATTCTGTTACC-GATACTGAT
1 TCTGATTTTGATTCTGTTACCTGATACTGAT
*
78265971 TCTGATTTTGGTTCTGTTACCTGATACTGAT
1 TCTGATTTTGATTCTGTTACCTGATACTGAT
* * * *
78266002 TCTGATTCTGATTCTGTCACCTAATTCTGAT
1 TCTGATTTTGATTCTGTTACCTGATACTGAT
*
78266033 TCTAATTTTGATTCTG
1 TCTGATTTTGATTCTG
78266049 ATTCTAATTC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 20 0.29
31 49 0.71
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.48
Consensus pattern (31 bp):
TCTGATTTTGATTCTGTTACCTGATACTGAT
Found at i:78269862 original size:27 final size:27
Alignment explanation
Indices: 78269822--78269933 Score: 138
Period size: 27 Copynumber: 4.1 Consensus size: 27
78269812 AGGAAGCGTC
*
78269822 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
78269849 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
78269876 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
78269904 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
78269930 CTGG
1 CTGG
78269934 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.65
28 18 0.24
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:78269928 original size:54 final size:54
Alignment explanation
Indices: 78269822--78269933 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
78269812 AGGAAGCGTC
* *
78269822 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
78269876 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
78269930 CTGG
1 CTGG
78269934 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:78270982 original size:27 final size:26
Alignment explanation
Indices: 78270952--78271025 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 26
78270942 CCCCAAATTG
*
78270952 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
78270979 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
78271006 TAAAATTACCGAAATACCCC
1 TAAAATTACC-AAATACCCC
78271026 TATAAGGTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 32 0.82
28 5 0.13
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.27
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:78271455 original size:27 final size:27
Alignment explanation
Indices: 78271009--78271473 Score: 526
Period size: 27 Copynumber: 17.3 Consensus size: 27
78270999 CGATTTGTAA
* *
78271009 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
78271036 AATTACTAAAATACCCCTGTAAGGTTA-
1 AATTACCGAAATACCCCTGT-AGGGTAG
* *
78271063 AATTACCGGAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * **
78271090 AATTACTGAAATACCCTTATAAAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271117 AATTACCGAAATAACCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271144 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271171 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
78271198 AATTATTGAAATACCCTTATATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
78271225 AATTACTGAAATACCTCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78271252 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78271279 AATTACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78271306 AATTACCGAAATAGCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
78271333 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271360 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271387 AATTACTGAAATACCCTTGTAGGGTAGG
1 AATTACCGAAATACCCCTGTAGGGTA-G
*
78271415 AA-TA-CTAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
78271440 AATTACCGAGAA-A-CCCTCGTGGGGTAA
1 AATTACCGA-AATACCCCT-GTAGGGTAG
78271467 AATTACC
1 AATTACC
78271474 ATTTTACCCC
Statistics
Matches: 375, Mismatches: 56, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
25 3 0.01
26 27 0.07
27 336 0.90
28 9 0.02
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:78271762 original size:27 final size:26
Alignment explanation
Indices: 78271718--78271769 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78271708 CTCGCTGCAA
*
78271718 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
78271745 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78271770 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78271919 original size:19 final size:19
Alignment explanation
Indices: 78271891--78271955 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 19
78271881 CTTTCACATT
*
78271891 CTGATTTTGATTCTGTTAC
1 CTGATATTGATTCTGTTAC
78271910 CTGATATTGATTCTG--A-
1 CTGATATTGATTCTGTTAC
78271926 -T--T-TTGATTCTGTTAC
1 CTGATATTGATTCTGTTAC
*
78271941 CTGATACTGATTCTG
1 CTGATATTGATTCTG
78271956 ATTCTGATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
12 9 0.24
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 22 0.59
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.49
Consensus pattern (19 bp):
CTGATATTGATTCTGTTAC
Found at i:78271923 original size:31 final size:31
Alignment explanation
Indices: 78271888--78271998 Score: 170
Period size: 31 Copynumber: 3.6 Consensus size: 31
78271878 TTGCTTTCAC
78271888 ATTCTGATTTTGATTCTGTTACCTGATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATATTG
*
78271919 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATATTG
* * *
78271950 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
1 ATTCTGATTTTGATTCTGTTACCTGATAT-TG
78271981 ATTCTGATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
78271999 ATTCTGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATATTG
Found at i:78271926 original size:6 final size:6
Alignment explanation
Indices: 78271888--78272018 Score: 101
Period size: 6 Copynumber: 21.3 Consensus size: 6
78271878 TTGCTTTCAC
* *
78271888 ATTCTG ATTTTG ATTCTG -TTACCTG ATAT-TG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG AT-TCTG ATTCTG ATTCTG ATTCTG
* * *
78271937 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
78271987 ATTTTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
78272019 AATGTTTCTT
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.07
6 80 0.80
7 9 0.09
8 3 0.03
9 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:78271926 original size:25 final size:25
Alignment explanation
Indices: 78271917--78272035 Score: 72
Period size: 25 Copynumber: 4.8 Consensus size: 25
78271907 TACCTGATAT
* *
78271917 TGATTCTGATTTTGATTCTGTTACC
1 TGATACTGATTCTGATTCTGTTACC
78271942 TGATACTGATTCTGATTCTGATT--C
1 TGATACTGATTCTGATTCTG-TTACC
* *
78271966 TG-TCACCTAATTCTGATTCTGATT--T
1 TGAT-A-CTGATTCTGATTCTG-TTACC
*
78271991 TGATTCTGATTCTGATTCTAGTT--C
1 TGATACTGATTCTGATTCT-GTTACC
* * *
78272015 TGATAATGTTTCTTATTCTGT
1 TGATACTGATTCTGATTCTGT
78272036 AATGGGTTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
23 3 0.04
24 34 0.44
25 38 0.49
26 3 0.04
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.50
Consensus pattern (25 bp):
TGATACTGATTCTGATTCTGTTACC
Found at i:78275490 original size:53 final size:53
Alignment explanation
Indices: 78275429--78275531 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
78275419 TATATCAGGA
*
78275429 TTACCCATTCGAGCTAAATCCTTTCTATAATGAGGTCAATAGGAATACTCATC
1 TTACCCATTCGAGCTAAATCCTTTCTATAATAAGGTCAATAGGAATACTCATC
*
78275482 TTACCCATTCGGGCTAAATCCTTTCTATAATAAGGTCAATAGGAATACTC
1 TTACCCATTCGAGCTAAATCCTTTCTATAATAAGGTCAATAGGAATACTC
78275532 GTCTGAGCTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (53 bp):
TTACCCATTCGAGCTAAATCCTTTCTATAATAAGGTCAATAGGAATACTCATC
Found at i:78288104 original size:17 final size:19
Alignment explanation
Indices: 78288075--78288112 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
78288065 TGTGGCCTGC
78288075 CCGTGTGGGCCTACAC-GT
1 CCGTGTGGGCCTACACAGT
78288093 CCGTGT-GGCCTACACAGT
1 CCGTGTGGGCCTACACAGT
78288111 CC
1 CC
78288113 AATAGGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.13, C:0.37, G:0.29, T:0.21
Consensus pattern (19 bp):
CCGTGTGGGCCTACACAGT
Found at i:78294313 original size:6 final size:6
Alignment explanation
Indices: 78294302--78294361 Score: 102
Period size: 6 Copynumber: 10.0 Consensus size: 6
78294292 TCCATTTCTC
* *
78294302 CATTTT CATTTT CATTTT CATTTC CACTTT CATTTT CATTTT CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
78294350 CATTTT CATTTT
1 CATTTT CATTTT
78294362 GGAGAAAACG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.17, C:0.20, G:0.00, T:0.63
Consensus pattern (6 bp):
CATTTT
Found at i:78298141 original size:118 final size:118
Alignment explanation
Indices: 78297933--78298172 Score: 462
Period size: 118 Copynumber: 2.0 Consensus size: 118
78297923 TACAATAAAA
78297933 ATAGACACGACCGTGTGGAGCAATCGTGTATGTTACACAGTCGTGTGACGCCCTGTGTCTTAGGT
1 ATAGACACGACCGTGTGGAGCAATCGTGTATGTTACACAGTCGTGTGACGCCCTGTGTCTTAGGT
*
78297998 CGTGTGATCCAAATTAAGCCCCAAAAACAAGCCATTTCAAGACCTATGCATGC
66 CATGTGATCCAAATTAAGCCCCAAAAACAAGCCATTTCAAGACCTATGCATGC
*
78298051 ATAGACACGATCGTGTGGAGCAATCGTGTATGTTACACAGTCGTGTGACGCCCTGTGTCTTAGGT
1 ATAGACACGACCGTGTGGAGCAATCGTGTATGTTACACAGTCGTGTGACGCCCTGTGTCTTAGGT
78298116 CATGTGATCCAAATTAAGCCCCAAAAACAAGCCATTTCAAGACCTATGCATGC
66 CATGTGATCCAAATTAAGCCCCAAAAACAAGCCATTTCAAGACCTATGCATGC
78298169 ATAG
1 ATAG
78298173 CAAGATACAT
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (118 bp):
ATAGACACGACCGTGTGGAGCAATCGTGTATGTTACACAGTCGTGTGACGCCCTGTGTCTTAGGT
CATGTGATCCAAATTAAGCCCCAAAAACAAGCCATTTCAAGACCTATGCATGC
Found at i:78299447 original size:25 final size:25
Alignment explanation
Indices: 78299419--78299486 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
78299409 GGCTTGATAG
* *
78299419 TATACACCGGCACCAATCCTGATTA
1 TATACACCGGCACAAAGCCTGATTA
78299444 TATACACCGGCACAAAGCCTGATTA
1 TATACACCGGCACAAAGCCTGATTA
**
78299469 TATACATTGGCACAAAGC
1 TATACACCGGCACAAAGC
78299487 TGCTAGGCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (25 bp):
TATACACCGGCACAAAGCCTGATTA
Found at i:78302553 original size:54 final size:54
Alignment explanation
Indices: 78302495--78302623 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
78302485 ATTATTGAAA
* * *
78302495 TACCCTCGACTTGTAAAATTACCAAAGTACCCTC-GATTTATAGAATTA-TCGTTT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCTCAG-TTTACAAAATTACT-GTTT
* * ***
78302549 TACCCTCGATTTATAGAATTACCATTTTACCCTCAGTTTACAAAATTACTGTTT
1 TACCCTCGACTTATAAAATTACCAAAGTACCCTCAGTTTACAAAATTACTGTTT
*
78302603 TACCCTCGA-TTATGAAATTAC
1 TACCCTCGACTTATAAAATTAC
78302624 TGAAATACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
53 10 0.16
54 51 0.81
55 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (54 bp):
TACCCTCGACTTATAAAATTACCAAAGTACCCTCAGTTTACAAAATTACTGTTT
Found at i:78302576 original size:27 final size:27
Alignment explanation
Indices: 78302495--78302623 Score: 118
Period size: 27 Copynumber: 4.8 Consensus size: 27
78302485 ATTATTGAAA
* * ***
78302495 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTATAAAATTACCATTT
* * *
78302522 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAAAATTACCATTT
*
78302549 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCATTT
* **
78302576 TACCCTC-AGTTTACAAAATTACTGTTT
1 TACCCTCGA-TTTATAAAATTACCATTT
*
78302603 TACCCTCGA-TTATGAAATTAC
1 TACCCTCGATTTATAAAATTAC
78302624 TGAAATACCC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 11 0.13
27 72 0.86
28 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCATTT
Found at i:78302635 original size:27 final size:26
Alignment explanation
Indices: 78302605--78302747 Score: 85
Period size: 27 Copynumber: 5.3 Consensus size: 26
78302595 TACTGTTTTA
**
78302605 CCCTCGATTATGAAATTACTGAAATAC
1 CCCT-GATTATGAAATTACCAAAATAC
**
78302632 CCCTGTAGGAT-AGAATTACCAAAATAC
1 CCCTG-ATTATGA-AATTACCAAAATAC
* * *
78302659 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTATGAAATTACCAAAATAC
* * * *
78302686 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTATGAAATTACCAAAATAC
*
78302712 CCCTCAATT-TGTAAAATTACCAAAATAC
1 CCCT-GATTATG--AAATTACCAAAATAC
78302740 CCCTGATT
1 CCCTGATT
78302748 TACAAAATTA
Statistics
Matches: 91, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
25 2 0.02
26 7 0.08
27 76 0.84
28 6 0.07
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (26 bp):
CCCTGATTATGAAATTACCAAAATAC
Found at i:78302686 original size:54 final size:54
Alignment explanation
Indices: 78302617--78302825 Score: 165
Period size: 54 Copynumber: 3.9 Consensus size: 54
78302607 CTCGATTATG
**
78302617 AAATTACTGAAATACCCCTGTAGGAT-AGAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGTAGGATGA-AATTACCAAAATACCCCTAGTTTGTA
* ** * *
78302671 AAATTACCAAAATACCACTGGTTTG-TGAAATTACCGAAATA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-GTAGGATGAAATTACCAAAATACCCCT-AGTTTGTA
** ** ** * *
78302725 AAATTACCAAAATACCCCTG-ATTTACAAAATTACTGAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGTA-GGATGAAATTACCAAAATACCCCTAGTTTGTA
* * * * * *
78302779 GATTTACCAAAACACCCTTGTAGGATGAAATGACTAAAATACCCCTA
1 AAATTACCAAAATACCCCTGTAGGATGAAATTACCAAAATACCCCTA
78302826 ATAGGTAAAA
Statistics
Matches: 120, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
53 6 0.05
54 106 0.88
55 8 0.07
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.28
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGTAGGATGAAATTACCAAAATACCCCTAGTTTGTA
Found at i:78302748 original size:27 final size:27
Alignment explanation
Indices: 78302645--78302795 Score: 144
Period size: 27 Copynumber: 5.6 Consensus size: 27
78302635 TGTAGGATAG
78302645 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
* * *
78302672 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* *
78302699 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
78302726 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
** * * *
78302753 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCCTGATTTGTAA
* *
78302780 ATTTACCAAAACACCC
1 AATTACCAAAATACCC
78302796 TTGTAGGATG
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
26 3 0.03
27 91 0.93
28 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:78302786 original size:81 final size:81
Alignment explanation
Indices: 78302645--78302796 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
78302635 TGTAGGATAG
** *
78302645 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAA
1 AATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAA
*
78302710 TACCCTCAATTTGTAA
66 CACCCTCAATTTGTAA
** *
78302726 AATTACCAAAATACCCCT-GATTTACAAAATTACTGAAATACC-CTTGGTTTGT-AGATTTACCA
1 AATTACCAAAATACCCCTAG-TTTACAAAATTACCAAAATACCAC-TGGTTTGTGA-AATTACCA
78302788 AAACACCCT
63 AAACACCCT
78302797 TGTAGGATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
80 3 0.05
81 58 0.95
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAA
CACCCTCAATTTGTAA
Found at i:78303756 original size:24 final size:25
Alignment explanation
Indices: 78303675--78303743 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
78303665 AGGAAGTGCT
* * * *
78303675 AAAAGGGCTATGCCCCAGTCTACCT
1 AAAAGGGCTTTGCCCCAGTTTATCA
**
78303700 AAAA-TTCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
78303724 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
78303744 ATTAAAAGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:78304012 original size:31 final size:31
Alignment explanation
Indices: 78303963--78304045 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
78303953 CACTTACAGT
78303963 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
78303993 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
78304024 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
78304046 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:78321951 original size:40 final size:39
Alignment explanation
Indices: 78321783--78321953 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
78321773 AGAAATTGAA
* *
78321783 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78321823 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78321863 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78321903 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
78321943 TGATATCCGGG
1 TGATATCCGGG
78321954 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78329913 original size:40 final size:39
Alignment explanation
Indices: 78329745--78329915 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
78329735 AGAAATTGAA
* *
78329745 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
78329785 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
78329825 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
78329865 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
78329905 TGATATCCGGG
1 TGATATCCGGG
78329916 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:78344236 original size:27 final size:26
Alignment explanation
Indices: 78344182--78344278 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 26
78344172 GAAGTTTACC
*
78344182 AAATTACTAAAATACCCCCAA-TTGTA
1 AAATTAC-CAAATACCCCCAATTTGTA
*
78344208 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACCAAA-TACCCCCAATTTGTA
* * *
78344235 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCCCAATTTGTA
78344262 AAATTACCGAAATACCC
1 AAATTACC-AAATACCC
78344279 TTGTAGGGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
25 3 0.05
26 18 0.30
27 34 0.57
28 5 0.08
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (26 bp):
AAATTACCAAATACCCCCAATTTGTA
Found at i:78344348 original size:27 final size:26
Alignment explanation
Indices: 78344263--78344349 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 26
78344253 CGATTTGTAA
* *
78344263 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCC-TGTAAGGTAG
*
78344290 AAATACCT-AAATACCCCTGTAAGGTAG
1 AATTA-CTGAAATA-CCCTGTAAGGTAG
*
78344317 GATTACTGAAATACTCCTGTAAGGTAG
1 AATTACTGAAATAC-CCTGTAAGGTAG
78344344 AATTAC
1 AATTAC
78344350 ATTGATACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
26 3 0.06
27 43 0.86
28 4 0.08
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (26 bp):
AATTACTGAAATACCCTGTAAGGTAG
Found at i:78344376 original size:54 final size:54
Alignment explanation
Indices: 78344259--78344377 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 54
78344249 TCCTCGATTT
* *
78344259 GTAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCTAAATACCCCTGTAAG
1 GTAAAATTACCGAAATACCCTTGTAAGGTAGAAATACATAAATACCCCTGTAAG
** * * ** * **
78344313 GTAGGATTACTGAAATACTCC-TGTAAGGTAGAATTACATTGATACCCTTGTGGG
1 GTAAAATTACCGAAATAC-CCTTGTAAGGTAGAAATACATAAATACCCCTGTAAG
78344367 GTAAAATTACC
1 GTAAAATTACC
78344378 ATTTTACCCC
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
54 48 0.96
55 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCTTGTAAGGTAGAAATACATAAATACCCCTGTAAG
Found at i:78344660 original size:27 final size:26
Alignment explanation
Indices: 78344622--78344672 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
78344612 CTCGCTGCAA
*
78344622 TCTGGTGGCTTCGCCACATATATCTAT
1 TCTGGTGACTTCGCCACA-ATATCTAT
*
78344649 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACTTCGCCACAATATCT
78344673 GGCAGCCTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (26 bp):
TCTGGTGACTTCGCCACAATATCTAT
Found at i:78344711 original size:67 final size:67
Alignment explanation
Indices: 78344603--78344756 Score: 281
Period size: 67 Copynumber: 2.3 Consensus size: 67
78344593 GAGGAAGCGT
* *
78344603 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTATTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTATTCTGGTGAATTCGTCACAA
78344668 TA
66 TA
*
78344670 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTGTTCTGGTGAATTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTATTCTGGTGAATTCGTCACAA
78344735 TA
66 TA
78344737 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
78344757 TTCTGTGGTG
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 84 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTAGCTTCGCCACATATATCTATTCTGGTGAATTCGTCACAA
TA
Found at i:78344889 original size:6 final size:6
Alignment explanation
Indices: 78344858--78344957 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
78344848 TTGCATTCAC
* *
78344858 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
78344907 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
78344956 AT
1 AT
78344958 AATGTTTCTT
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:78344893 original size:31 final size:31
Alignment explanation
Indices: 78344858--78344936 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
78344848 TTGCATTCAC
* *
78344858 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
78344889 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
78344920 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
78344937 CATTTTGATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:78350344 original size:29 final size:29
Alignment explanation
Indices: 78350282--78350384 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
78350272 GTGACGAGAT
* * *
78350282 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
78350311 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
78350340 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
78350369 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78350385 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:78358363 original size:29 final size:29
Alignment explanation
Indices: 78358301--78358403 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
78358291 GTGACGAGAT
* * *
78358301 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
78358330 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
78358359 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
78358388 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
78358404 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:78362249 original size:13 final size:13
Alignment explanation
Indices: 78362231--78362263 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
78362221 AAATAATTCA
78362231 ACACGGGTGGGAC
1 ACACGGGTGGGAC
78362244 ACACGGGTGGGAC
1 ACACGGGTGGGAC
78362257 ACACGGG
1 ACACGGG
78362264 CATGTTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.45, T:0.06
Consensus pattern (13 bp):
ACACGGGTGGGAC
Found at i:78369309 original size:23 final size:23
Alignment explanation
Indices: 78369282--78369364 Score: 139
Period size: 23 Copynumber: 3.6 Consensus size: 23
78369272 TGTCCCTAAG
* *
78369282 CACACGGGTGTGTGCTTTGCCTC
1 CACACGGGCGTGTGCTTTCCCTC
78369305 CACACGGGCGTGTGCTTTCCCTC
1 CACACGGGCGTGTGCTTTCCCTC
78369328 CACACGGGCGTGTGCTTTCCCTC
1 CACACGGGCGTGTGCTTTCCCTC
*
78369351 CACACGGGCATGTG
1 CACACGGGCGTGTG
78369365 AGGCATAACT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.11, C:0.35, G:0.29, T:0.25
Consensus pattern (23 bp):
CACACGGGCGTGTGCTTTCCCTC
Found at i:78371948 original size:13 final size:13
Alignment explanation
Indices: 78371926--78372002 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
78371916 AGTTCTTCAT
*
78371926 TGCTTCTGAAAAG
1 TGCTTTTGAAAAG
78371939 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
78371952 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* *
78371965 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
78371978 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
78371991 TGCTTTGGAAAA
1 TGCTTTTGAAAA
78372003 ATTTAAGTGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:78373116 original size:30 final size:30
Alignment explanation
Indices: 78373082--78373143 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
78373072 ACTTATTTTC
78373082 TTGTT-AATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAAATTTT-TTATTATTTTAAAGGCAT
*
78373112 TTGTTAAATTTTTTATTATTTTAGAGGCAT
1 TTGTTAAATTTTTTATTATTTTAAAGGCAT
78373142 TT
1 TT
78373144 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.80
31 6 0.20
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (30 bp):
TTGTTAAATTTTTTATTATTTTAAAGGCAT
Found at i:78374315 original size:20 final size:20
Alignment explanation
Indices: 78374266--78374320 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
78374256 GATAAAAATA
*
78374266 AAAAGGAAAAAAAA-GACAG
1 AAAAGTAAAAAAAATGACAG
* *
78374285 AAAATTCAAAAAAATCGA-AG
1 AAAAGTAAAAAAAAT-GACAG
78374305 AAAAGTAAAAATAAAT
1 AAAAGTAAAAA-AAAT
78374321 AAATAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 11 0.39
20 11 0.39
21 6 0.21
ACGTcount: A:0.71, C:0.05, G:0.13, T:0.11
Consensus pattern (20 bp):
AAAAGTAAAAAAAATGACAG
Found at i:78375281 original size:13 final size:15
Alignment explanation
Indices: 78375240--78375285 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
78375230 TGAAAAATAA
78375240 ATTTTTAAATAATTTTT
1 ATTTTT-AA-AATTTTT
78375257 ATTTTTAAAATTTTT
1 ATTTTTAAAATTTTT
*
78375272 -TTTTT-GAATTTTT
1 ATTTTTAAAATTTTT
78375285 A
1 A
78375286 AGATTAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
15 7 0.26
16 2 0.07
17 6 0.22
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
ATTTTTAAAATTTTT
Found at i:78377358 original size:50 final size:50
Alignment explanation
Indices: 78377283--78377383 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
78377273 TTGCTAACCT
*
78377283 ACACAAGTTAGAAGGTAGAAGCACCACCAAAAATAACACTTTCTTCACCC
1 ACACAAGTTAGAAGGTAGAAGCACCACCAAAAACAACACTTTCTTCACCC
*
78377333 ACACAAGTTAGATGGTAGAAGCACCACCAAAAACAACACTTTCTTCACCC
1 ACACAAGTTAGAAGGTAGAAGCACCACCAAAAACAACACTTTCTTCACCC
78377383 A
1 A
78377384 ATTAATTAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.42, C:0.29, G:0.12, T:0.18
Consensus pattern (50 bp):
ACACAAGTTAGAAGGTAGAAGCACCACCAAAAACAACACTTTCTTCACCC
Found at i:78380124 original size:30 final size:30
Alignment explanation
Indices: 78380088--78380145 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
78380078 ATACGAGAAA
*
78380088 AGACACGGGCGTGTGTCTTAGCCATGTGCG
1 AGACACGGGCGTGTGGCTTAGCCATGTGCG
78380118 AGACACGGGCGTGTGGCTTAGCCATGTG
1 AGACACGGGCGTGTGGCTTAGCCATGTG
78380146 TCCCCTGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.22
Consensus pattern (30 bp):
AGACACGGGCGTGTGGCTTAGCCATGTGCG
Found at i:78389331 original size:8 final size:8
Alignment explanation
Indices: 78389320--78389345 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
78389310 GGTTAAGTGC
78389320 AGTGTTGG
1 AGTGTTGG
78389328 AGTGTTGG
1 AGTGTTGG
78389336 AGTGTTGG
1 AGTGTTGG
78389344 AG
1 AG
78389346 GTCTTGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.50, T:0.35
Consensus pattern (8 bp):
AGTGTTGG
Found at i:78410076 original size:17 final size:17
Alignment explanation
Indices: 78410054--78410086 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
78410044 TCTCTTCACT
78410054 TTAGTTTAATTAGTTAA
1 TTAGTTTAATTAGTTAA
*
78410071 TTAGTTTAGTTAGTTA
1 TTAGTTTAATTAGTTA
78410087 GTTTAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (17 bp):
TTAGTTTAATTAGTTAA
Found at i:78415517 original size:6 final size:6
Alignment explanation
Indices: 78415506--78415558 Score: 81
Period size: 6 Copynumber: 8.7 Consensus size: 6
78415496 TCCTCCTATC
78415506 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTA TTATTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -T-TTTTA
78415555 TTTT
1 TTTT
78415559 GAAAGATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.11
6 33 0.75
7 1 0.02
8 5 0.11
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:78418005 original size:60 final size:60
Alignment explanation
Indices: 78417927--78418063 Score: 170
Period size: 60 Copynumber: 2.3 Consensus size: 60
78417917 CAGTGTTAAC
* *
78417927 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTATCAGAATATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGT-TCAG-ATATAT
* * *
78417988 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATTACAAGTTGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATATAT
* *
78418048 TAGGCCTTGCCCATAT
1 TGGGCCTAGCCCATAT
78418064 TAACATAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
60 51 0.76
61 13 0.19
62 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATTACAAGTTCAGATATAT
Found at i:78418027 original size:28 final size:27
Alignment explanation
Indices: 78417926--78418027 Score: 80
Period size: 28 Copynumber: 3.5 Consensus size: 27
78417916 TCAGTGTTAA
* *
78417926 CTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCC-TAGCCCATATCAGTATCAAT
*
78417954 CTGGGCCATAGCCCCT-TACAGTATCAGAATAT
1 CTGGGCC-TAGCCCATAT-CAGTATC---A-AT
*
78417986 ATTGGGCCTAGCCCATATCAGTATCAAT
1 -CTGGGCCTAGCCCATATCAGTATCAAT
78418014 CTGGGCCGTAGCCC
1 CTGGGCC-TAGCCC
78418028 TATTACAAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
27 7 0.12
28 27 0.46
29 1 0.02
31 1 0.02
32 16 0.27
33 7 0.12
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (27 bp):
CTGGGCCTAGCCCATATCAGTATCAAT
Found at i:78420424 original size:15 final size:15
Alignment explanation
Indices: 78420385--78420424 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
78420375 TTTTTCCCTC
78420385 TTTAATAATAATAAT
1 TTTAATAATAATAAT
*
78420400 TATAATAATAATAAT
1 TTTAATAATAATAAT
*
78420415 TTTAAAAATA
1 TTTAATAATA
78420425 TATCTAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTAATAATAATAAT
Found at i:78420547 original size:19 final size:18
Alignment explanation
Indices: 78420510--78420552 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
78420500 ATACATGCAG
78420510 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
78420527 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
78420546 TACTAAT
1 TAATAAT
78420553 CAAAATTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 5 0.23
19 13 0.59
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:78422000 original size:13 final size:13
Alignment explanation
Indices: 78421982--78422006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78421972 TAGTTTAATT
78421982 AGTTAATTAGTTA
1 AGTTAATTAGTTA
78421995 AGTTAATTAGTT
1 AGTTAATTAGTT
78422007 TAATAAACAA
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
AGTTAATTAGTTA
Found at i:78422688 original size:46 final size:48
Alignment explanation
Indices: 78422561--78422783 Score: 221
Period size: 47 Copynumber: 4.8 Consensus size: 48
78422551 ATGGTATAAT
** *
78422561 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GATCATCCATC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-C-TCGAG
* * *
78422608 GTCGATGCCATGTCCTAGACATGGTCTTACACTAG-TTTACATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCGAG
* * * *
78422656 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGAG
* * * *
78422702 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCGAG
78422750 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
78422784 ACACAAATAA
Statistics
Matches: 147, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
46 37 0.25
47 72 0.49
48 34 0.23
49 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCGAG
Found at i:78422730 original size:94 final size:93
Alignment explanation
Indices: 78422561--78422783 Score: 267
Period size: 94 Copynumber: 2.4 Consensus size: 93
78422551 ATGGTATAAT
* * *
78422561 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGATCATCCATCAAGTCGATGCCATGTCCTAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCTAG
* *
78422626 ACATGGTCTTACACTAG-TTTACAT-CTCGAG
64 ACATGGTCTTACACTAGCTCT-CATAAT-GAG
*
78422656 GCCGATGCATGTCCCAAACATGTCTTACACTAGCTC-TCGTC-TCAATGCCGATGCCATGTTCC-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATC--CATCAA-GCCGATGCCATG-TCCT
* *
78422718 AGACATGGTCTTACACTGGCTCTCATAATGTG
62 AGACATGGTCTTACACTAGCTCTCATAATGAG
78422750 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
78422784 ACACAAATAA
Statistics
Matches: 113, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
92 2 0.02
93 17 0.15
94 81 0.72
95 13 0.12
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (93 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCCATCAAGCCGATGCCATGTCCTAGAC
ATGGTCTTACACTAGCTCTCATAATGAG
Found at i:78427628 original size:27 final size:27
Alignment explanation
Indices: 78427596--78427677 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
78427586 CGTTGCAAAA
* *
78427596 GTCCTCCCTATCGGGAATGATCACTGG
1 GTCCTCCCTACCGAGAATGATCACTGG
78427623 GTCCTCCCTACCGAGAATGATCACTGG
1 GTCCTCCCTACCGAGAATGATCACTGG
78427650 GTCCTCCCTACCGAGAATGATCACTGG
1 GTCCTCCCTACCGAGAATGATCACTGG
78427677 G
1 G
78427678 CCCATAACAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.21, C:0.32, G:0.24, T:0.23
Consensus pattern (27 bp):
GTCCTCCCTACCGAGAATGATCACTGG
Found at i:78429849 original size:23 final size:23
Alignment explanation
Indices: 78429813--78429857 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
78429803 ATTAATAAAC
78429813 ACAATTTTTCTTTT-AAAATTTA
1 ACAATTTTTCTTTTGAAAATTTA
*
78429835 ACAACTTTTTTTTTTGAAAATTT
1 ACAA-TTTTTCTTTTGAAAATTT
78429858 TAACTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 9 0.45
24 7 0.35
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (23 bp):
ACAATTTTTCTTTTGAAAATTTA
Found at i:78430760 original size:32 final size:32
Alignment explanation
Indices: 78430719--78430784 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
78430709 CTTGAAATAA
78430719 GTTAGTTAGAGATTAGAATCAAATATTTATGT
1 GTTAGTTAGAGATTAGAATCAAATATTTATGT
78430751 GTTAGTTAGAGATTAGAATCAAATATTTATGT
1 GTTAGTTAGAGATTAGAATCAAATATTTATGT
78430783 GT
1 GT
78430785 CAAGTATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (32 bp):
GTTAGTTAGAGATTAGAATCAAATATTTATGT
Found at i:78436615 original size:27 final size:27
Alignment explanation
Indices: 78436567--78436726 Score: 168
Period size: 27 Copynumber: 5.9 Consensus size: 27
78436557 GCGAGGTTGC
* *
78436567 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
78436594 CAGATATTATGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
78436620 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
78436647 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
78436674 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
78436701 TAGATAAATTGTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
78436727 GACGCTTCCT
Statistics
Matches: 114, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 83 0.73
28 19 0.17
29 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:78436661 original size:54 final size:54
Alignment explanation
Indices: 78436585--78436726 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
78436575 GTGACGAAGT
* *
78436585 CACCAGATACAGAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
78436639 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
78436693 CACCAGATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
78436727 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 5 0.06
54 57 0.70
55 20 0.24
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:78442638 original size:40 final size:40
Alignment explanation
Indices: 78442472--78442656 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
78442462 TTCGAATGAT
* * *
78442472 ATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAA
** * *
78442512 ATCCGGAATAAGAT-CCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
78442552 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGCGAGCTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAA
* *
78442592 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTGTA
1 ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT-AA
*
78442633 A-CCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATT
78442657 TGAATGTGTA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 111 0.93
41 8 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:78442650 original size:80 final size:80
Alignment explanation
Indices: 78442472--78442659 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
78442462 TTCGAATGAT
* *
78442472 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGAATAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
78442537 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* * **
78442552 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-GAGCT-ACTAAATCCGGGTTAAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGAATAAGAT-CCGAAGG
* *
78442613 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
78442633 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
78442660 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGAATAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:78447746 original size:27 final size:28
Alignment explanation
Indices: 78447716--78447857 Score: 161
Period size: 27 Copynumber: 5.2 Consensus size: 28
78447706 GTGACGAAGT
*
78447716 CACCAGATACAGATAT-TATGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
78447743 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
*
78447770 CACCAGAT-CAGATA-ATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
*
78447797 CACCAG-GACAGATATATGTGGCAGAGC
1 CACCAGATACAGATATATGTGGCAGAGC
* * * *
78447824 CACCAAAT-TAGATAAATTGTGGCATAGC
1 CACCAGATACAGATATA-TGTGGCAGAGC
78447852 CACCAG
1 CACCAG
78447858 GACAGTTACT
Statistics
Matches: 98, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.09
27 73 0.74
28 16 0.16
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCAGAGC
Found at i:78447792 original size:54 final size:54
Alignment explanation
Indices: 78447716--78447862 Score: 224
Period size: 54 Copynumber: 2.7 Consensus size: 54
78447706 GTGACGAAGT
* * *
78447716 CACCAGATACAGAT-ATTATGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
78447770 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
78447824 CACCAAATTAGATAAATTGTGGCATAGCCACCAGGACAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAGGACAG
78447863 TTACTCCATA
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
53 5 0.06
54 56 0.65
55 25 0.29
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:78450629 original size:5 final size:5
Alignment explanation
Indices: 78450619--78450648 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
78450609 TTGTGTGTAT
78450619 TTTTA TTTTA TTTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTT
78450649 TTCTCAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:78450638 original size:16 final size:16
Alignment explanation
Indices: 78450619--78450649 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
78450609 TTGTGTGTAT
78450619 TTTTATTTTATTTTTA
1 TTTTATTTTATTTTTA
78450635 TTTTATTTTATTTTT
1 TTTTATTTTATTTTT
78450650 TCTCAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:78450649 original size:11 final size:11
Alignment explanation
Indices: 78450616--78450648 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
78450606 AATTTGTGTG
78450616 TATTTTTATTT
1 TATTTTTATTT
78450627 TATTTTTATTT
1 TATTTTTATTT
78450638 TA-TTTTATTT
1 TATTTTTATTT
78450648 T
1 T
78450649 TTCTCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:78451114 original size:15 final size:17
Alignment explanation
Indices: 78451083--78451114 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
78451073 AAATAAATCA
78451083 AATAGTTTAAAATAGAT
1 AATAGTTTAAAATAGAT
78451100 AATA-TTTAAAA-AGAT
1 AATAGTTTAAAATAGAT
78451115 TTAAGATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 7 0.47
17 4 0.27
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (17 bp):
AATAGTTTAAAATAGAT
Found at i:78451117 original size:26 final size:26
Alignment explanation
Indices: 78451088--78451156 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 26
78451078 AATCAAATAG
* * *
78451088 TTTAAAATAGATAATATTTAAAAAGA
1 TTTAAAATAAATAACATGTAAAAAGA
*
78451114 TTTAAGATAAATAACATGTAAAAAAGAAA
1 TTTAAAATAAATAACATGT-AAAAAG--A
*
78451143 TTTGAAATAAATAA
1 TTTAAAATAAATAA
78451157 TGTATACATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 15 0.44
27 6 0.18
29 13 0.38
ACGTcount: A:0.59, C:0.01, G:0.09, T:0.30
Consensus pattern (26 bp):
TTTAAAATAAATAACATGTAAAAAGA
Found at i:78451262 original size:2 final size:2
Alignment explanation
Indices: 78451255--78451285 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78451245 AGTTTAAAAG
78451255 AT AT 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 AT AT A
78451286 AAACAATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78451386 original size:15 final size:16
Alignment explanation
Indices: 78451368--78451397 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78451358 AAAAGGGATC
78451368 TATATAT-AAATATTA
1 TATATATAAAATATTA
78451383 TATATATAAAATATT
1 TATATATAAAATATT
78451398 TAAAATAGAT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATATAAAATATTA
Found at i:78458359 original size:2 final size:2
Alignment explanation
Indices: 78458352--78458406 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
78458342 AGTCAATGTA
*
78458352 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
78458394 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
78458407 AATGTTTGCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:78459059 original size:2 final size:2
Alignment explanation
Indices: 78459054--78459093 Score: 71
Period size: 2 Copynumber: 19.5 Consensus size: 2
78459044 AAATGAGATT
78459054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
78459094 GCTTTGAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78465959 original size:26 final size:26
Alignment explanation
Indices: 78465920--78465986 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
78465910 ACCCTCTCTT
78465920 GCACATAACCCTAATATATAA-TTTG
1 GCACATAACCCTAATATATAACTTTG
* *
78465945 GGATCATAACCCTAATATATAACTTTT
1 GCA-CATAACCCTAATATATAACTTTG
78465972 GCACATAACCCTAAT
1 GCACATAACCCTAAT
78465987 TTCATCATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 2 0.05
26 30 0.81
27 5 0.14
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.31
Consensus pattern (26 bp):
GCACATAACCCTAATATATAACTTTG
Found at i:78467450 original size:101 final size:101
Alignment explanation
Indices: 78467270--78467485 Score: 324
Period size: 101 Copynumber: 2.1 Consensus size: 101
78467260 GTGTGATGGA
* * *
78467270 ACACAGGCGTGTGATCAACGATCCAGGCCGTGCACGCATGACACTACCGTGTGATGGCCAGGTAG
1 ACACAGGCGTGTGATCAACGAGCCAGGCCGTGCACGCATGACACGACCGTGTGATGGCCAGATAG
* * *
78467335 GCCGTGTGCTAGACACGGGCTACACTGAGTGAGACT
66 GCCGTGTGCGAGACACAGGCTACACTGAGTAAGACT
* * * * * *
78467371 ACACGGGCGTGTGATCGACGAGCCAGGCTGTGCACGCATGACACGGCTGTGTGGTGGCCAGATAG
1 ACACAGGCGTGTGATCAACGAGCCAGGCCGTGCACGCATGACACGACCGTGTGATGGCCAGATAG
78467436 GCCGTGTGCGAGACACAGGCTACACTGAGTAAGACT
66 GCCGTGTGCGAGACACAGGCTACACTGAGTAAGACT
78467472 ACACAGGCGTGTGA
1 ACACAGGCGTGTGA
78467486 GATTCTGGGT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.24, C:0.25, G:0.34, T:0.17
Consensus pattern (101 bp):
ACACAGGCGTGTGATCAACGAGCCAGGCCGTGCACGCATGACACGACCGTGTGATGGCCAGATAG
GCCGTGTGCGAGACACAGGCTACACTGAGTAAGACT
Found at i:78469477 original size:30 final size:30
Alignment explanation
Indices: 78469442--78469528 Score: 147
Period size: 30 Copynumber: 2.9 Consensus size: 30
78469432 TAGACACTTC
** *
78469442 CACACGGGTAATCTACATACCCGTGTGAGA
1 CACACGGGTAGGCCACATACCCGTGTGAGA
78469472 CACACGGGTAGGCCACATACCCGTGTGAGA
1 CACACGGGTAGGCCACATACCCGTGTGAGA
78469502 CACACGGGTAGGCCACATACCCGTGTG
1 CACACGGGTAGGCCACATACCCGTGTG
78469529 TCATGACCGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGGCCACATACCCGTGTGAGA
Found at i:78474850 original size:18 final size:19
Alignment explanation
Indices: 78474827--78474865 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
78474817 ATTAAAAAAT
78474827 TTGTTCAATCATAAG-TAA
1 TTGTTCAATCATAAGCTAA
*
78474845 TTGTTCAATTATAAGCTAA
1 TTGTTCAATCATAAGCTAA
78474864 TT
1 TT
78474866 AACTATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
TTGTTCAATCATAAGCTAA
Found at i:78476713 original size:28 final size:28
Alignment explanation
Indices: 78476681--78476779 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
78476671 GCCATAAGCC
*
78476681 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
78476709 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
78476737 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
78476766 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78476780 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:78484375 original size:28 final size:28
Alignment explanation
Indices: 78484343--78484441 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
78484333 TGCATAAGCC
*
78484343 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
78484371 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
78484399 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
78484428 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78484442 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:78494624 original size:28 final size:28
Alignment explanation
Indices: 78494592--78494690 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
78494582 GCCATAAGCC
*
78494592 CGCACACTTAGTGCTTAATAGTTGAACT
1 CGCACACTTAGTGCTTAATAATTGAACT
**
78494620 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATTGAACT
* *
78494648 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TTGAACT
78494677 CGCACACTTAGTGC
1 CGCACACTTAGTGC
78494691 CAATTTGTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.03
28 39 0.66
29 17 0.29
30 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATTGAACT
Found at i:78499384 original size:7 final size:7
Alignment explanation
Indices: 78499362--78499427 Score: 69
Period size: 7 Copynumber: 8.9 Consensus size: 7
78499352 TATTAACATG
78499362 TAAAAAA
1 TAAAAAA
78499369 TAAAGAAAA
1 T-AA-AAAA
78499378 TAAAAAA
1 TAAAAAA
78499385 TAAAAAA
1 TAAAAAA
78499392 TAAAAAA
1 TAAAAAA
*
78499399 TAAAATA
1 TAAAAAA
*
78499406 TATAAATA
1 TA-AAAAA
*
78499414 CAATAAAA
1 TAA-AAAA
78499422 TAAAAA
1 TAAAAA
78499428 CAAAATTGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
7 31 0.61
8 15 0.29
9 5 0.10
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (7 bp):
TAAAAAA
Found at i:78499388 original size:23 final size:22
Alignment explanation
Indices: 78499362--78499427 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
78499352 TATTAACATG
78499362 TAAAAAATAAAGAAAATAAAAAA
1 TAAAAAATAAA-AAAATAAAAAA
*
78499385 TAAAAAAT-AAAAAATAAAATA
1 TAAAAAATAAAAAAATAAAAAA
*
78499406 T-ATAAATACAATAAAATAAAAA
1 TAAAAAATA-AA-AAAATAAAAA
78499428 CAAAATTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.14
21 11 0.30
22 4 0.11
23 17 0.46
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (22 bp):
TAAAAAATAAAAAAATAAAAAA
Found at i:78499411 original size:30 final size:32
Alignment explanation
Indices: 78499362--78499421 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
78499352 TATTAACATG
78499362 TAAAAAATAAAGAAAATAAA-A-AATAAAAAA
1 TAAAAAATAAAGAAAATAAATACAATAAAAAA
*
78499392 TAAAAAATAAA-ATATATAAATACAATAAAA
1 TAAAAAATAAAGA-AAATAAATACAATAAAA
78499422 TAAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 1 0.04
30 17 0.65
31 1 0.04
32 7 0.27
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (32 bp):
TAAAAAATAAAGAAAATAAATACAATAAAAAA
Found at i:78503949 original size:50 final size:50
Alignment explanation
Indices: 78503874--78503975 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
78503864 GTTACAGGCC
*
78503874 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTTTATCAACT
1 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
*
78503924 TTGCTTTTACTGTAAAAAGAGAATTCATAATATTAGTAAGTCTATCAACT
1 TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
78503974 TT
1 TT
78503976 ATCTTCTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (50 bp):
TTGCTTTTACTGTAAAAAGAGAATTCACAATATTAGTAAGTCTATCAACT
Done.