Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 22 of 52
Found at i:3432352 original size:50 final size:49
Alignment explanation
Indices: 3432274--3432383 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 49
3432264 TCGCAATTTG
* *
3432274 TATCGATACATTGTTCATTGTATTGATACATTCTGGGTTTTACCCAGATA
1 TATCGATACATGGTTCATTGTATCGATACATTCTGGG-TTTACCCAGATA
*
3432324 TATCGATACATGGTTCATTGTATCGATACATTCTGGGTTTACCCAGATG
1 TATCGATACATGGTTCATTGTATCGATACATTCTGGGTTTACCCAGATA
3432373 TATCGATACAT
1 TATCGATACAT
3432384 TGAAAAATGT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
49 22 0.39
50 35 0.61
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.39
Consensus pattern (49 bp):
TATCGATACATGGTTCATTGTATCGATACATTCTGGGTTTACCCAGATA
Found at i:3432395 original size:49 final size:50
Alignment explanation
Indices: 3432272--3432405 Score: 198
Period size: 49 Copynumber: 2.7 Consensus size: 50
3432262 TTTCGCAATT
*
3432272 TGTATCGATACATTGTTCATTGTATTGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
* *
3432322 TATATCGATACATGGTTCATTGTATCGATACATTCTGGG-TTTACCCAGA
1 TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
*** *
3432371 TGTATCGATACATTGAAAAATGTATCGATACATTC
1 TGTATCGATACATTGTTCATTGTATCGATACATTC
3432406 AAGCATTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 39 0.52
50 36 0.48
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (50 bp):
TGTATCGATACATTGTTCATTGTATCGATACATTCTGGGTTTTACCCAGA
Found at i:3434724 original size:50 final size:50
Alignment explanation
Indices: 3434670--3434779 Score: 152
Period size: 50 Copynumber: 2.2 Consensus size: 50
3434660 TAAATTTCTA
*
3434670 GATTTTTCATCTC-GATGATACTCCAACCCCGACTTTA-TTTCTAAAATATT
1 GATTTTTCATCTCGGA-GATACTCCAACCCCGACTTTATTTTC-AAAATATC
**
3434720 GATTTTTCATCTCGGAGATACTCCAACCCCGGTTTTATTTTCAAAATATC
1 GATTTTTCATCTCGGAGATACTCCAACCCCGACTTTATTTTCAAAATATC
*
3434770 AATTTTTCAT
1 GATTTTTCAT
3434780 AATCGAGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
50 48 0.89
51 6 0.11
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (50 bp):
GATTTTTCATCTCGGAGATACTCCAACCCCGACTTTATTTTCAAAATATC
Found at i:3434824 original size:79 final size:79
Alignment explanation
Indices: 3434736--3435073 Score: 289
Period size: 79 Copynumber: 4.3 Consensus size: 79
3434726 TCATCTCGGA
* * * *
3434736 GATACTCCAACCCCGGTTTTATTTTC-AAAATATCAATTTTTCATAATCGAGAATACTCTAATCC
1 GATACTCCAACCCCGGTTTTATTTTCTAAAATGTCGATTTTTCACAATCGAGGATACTCTAA-CC
*
3434800 CGTTATTTTCGAGGG
65 CGTTATTTTCGAGAG
* * * * *
3434815 GATACTCCAACCCTGGCTTTA-TTTCTAAAATGTTGATTTCTCACAATC-AGGGATACTCCAACC
1 GATACTCCAACCCCGGTTTTATTTTCTAAAATGTCGATTTTTCACAATCGA-GGATACTCTAA-C
* *
3434878 CCGTTATTTTGGCGAG
64 CCGTTATTTTCGAGAG
* ** * * *
3434894 GATACTCCAACCCCTGCCTTA-TTTCTAAAGCT-TTGATTTTTCACAATCGGGGATACTCTAACC
1 GATACTCCAACCCCGGTTTTATTTTCTAAA-ATGTCGATTTTTCACAATCGAGGATACTCTAACC
3434957 TCGTTATTTTCGAGAG
65 -CGTTATTTTCGAGAG
* * * * * * * *
3434973 GATACTCCAA-CCTGATTTTATTTTC-AACACGTCGA-TTTTCTATAATCAAGGATGCTC-CACC
1 GATACTCCAACCCCGGTTTTATTTTCTAAAATGTCGATTTTTC-ACAATCGAGGATACTCTAACC
*
3435034 CTGTTATTTTCGAGGG
65 C-GTTATTTTCGAGAG
**
3435050 GATACTCCAACCCCTATTTTATTT
1 GATACTCCAACCCCGGTTTTATTT
3435074 CTAGAACACC
Statistics
Matches: 210, Mismatches: 39, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
76 1 0.00
77 31 0.15
78 40 0.19
79 137 0.65
80 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (79 bp):
GATACTCCAACCCCGGTTTTATTTTCTAAAATGTCGATTTTTCACAATCGAGGATACTCTAACCC
GTTATTTTCGAGAG
Found at i:3449636 original size:13 final size:13
Alignment explanation
Indices: 3449618--3449650 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
3449608 AGCTTCGTAG
3449618 CGATACATTGTAT
1 CGATACATTGTAT
3449631 CGATACATTGTAT
1 CGATACATTGTAT
3449644 CGATACA
1 CGATACA
3449651 ACACTTATGT
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:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3452579 original size:61 final size:61
Alignment explanation
Indices: 3451980--3452593 Score: 806
Period size: 61 Copynumber: 10.0 Consensus size: 61
3451970 CAAGGAGTAA
*
3451980 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * * *
3452041 GATGCCTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAG
* *
3452103 GACGCC-TTTCCTTTTAAAACCCACACAAGTTGGTTGCACCTTCTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * *
3452163 GACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAGGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAG
* * ** *
3452224 GACGCCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTTTTCAAAGAGGAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * *
3452285 GACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTTCAGTCCTCAAGGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAG
* * ** *
3452346 GACGCCATTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTTTTCAAAGAGGAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
* * *
3452407 GACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGACACTTTTCTAGTCCTCAAAGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAG
*
3452469 GATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAG
1 GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCT-AGTCCTCAAAGAGCAG
* * ** * * * * * *
3452530 AATG-CTTTCTCCTTGCAAAACCCATACAAGTTGGTGGCACCTCCTAGTCCCCAAGGATCAG
1 GACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
3452591 GAC
1 GAC
3452594 CCATTTCATT
Statistics
Matches: 480, Mismatches: 63, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
60 37 0.08
61 359 0.75
62 84 0.17
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
GACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAG
Found at i:3453306 original size:20 final size:20
Alignment explanation
Indices: 3453281--3453334 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
3453271 TTTACCTAGA
3453281 TGTATCGATACATTATTCAT
1 TGTATCGATACATTATTCAT
**
3453301 TGTATCGATACATGGTTCAT
1 TGTATCGATACATTATTCAT
3453321 TGTATCGATACATT
1 TGTATCGATACATT
3453335 CTAGGTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTATTCAT
Found at i:3453306 original size:70 final size:70
Alignment explanation
Indices: 3453230--3453381 Score: 191
Period size: 69 Copynumber: 2.2 Consensus size: 70
3453220 TTTTCACAAT
* * *
3453230 TTGTATCGATACAAT-GTTCATTACATCCATACATTTTGGGTTTTACCTAGATGTATCGATACAT
1 TTGTATCGATACAATGGTTCATTACATCCATACATTCTAGG-TTTACCCAGATGTATCGATACAT
3453294 TATTCA
65 TATTCA
** * *
3453300 TTGTATCGATAC-ATGGTTCATTGTATCGATACATTCTAGGTTTACCCAGATGTATCGATACTTT
1 TTGTATCGATACAATGGTTCATTACATCCATACATTCTAGGTTTACCCAGATGTATCGATACATT
*
3453364 TTTCA
66 ATTCA
* *
3453369 ATGTATCAATACA
1 TTGTATCGATACA
3453382 TTCATGCATT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
69 38 0.54
70 32 0.46
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (70 bp):
TTGTATCGATACAATGGTTCATTACATCCATACATTCTAGGTTTACCCAGATGTATCGATACATT
ATTCA
Found at i:3455463 original size:79 final size:78
Alignment explanation
Indices: 3455310--3455482 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 78
3455300 GATGACGACG
* * * *
3455310 GGGTTGGAGTACCCCTGATTATGGAAAATCGGTGTTCTAGAAATAAATCGAGGTTGGAGTATCCC
1 GGGTTGGAGTATCCCTAATTATAGAAAATCGGCGTTCTAGAAATAAATCGAGGTTGGAGTATCCC
***
3455375 CTTGGAAATAACA
66 CTCAAAAATAACA
* * * *
3455388 GGGTTGGAGTATCCCTAATTATAGAAAGTTGGCGTT-TTGAAAATAAAATCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCTAATTATAGAAAATCGGCGTTCTAG-AAAT-AAATCGAGGTTGGAGTATC
**
3455452 CCCTCAAAAATAATG
64 CCCTCAAAAATAACA
*
3455467 GGGTTGGACTATCCCT
1 GGGTTGGAGTATCCCT
3455483 GCGAAAATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
77 2 0.03
78 34 0.43
79 43 0.54
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCTAATTATAGAAAATCGGCGTTCTAGAAATAAATCGAGGTTGGAGTATCCC
CTCAAAAATAACA
Found at i:3455472 original size:28 final size:29
Alignment explanation
Indices: 3455437--3455510 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
3455427 AAAATAAAAT
3455437 CGGGGTTGGAGTATCCCCT-CAAAAATAA
1 CGGGGTTGGAGTATCCCCTGCAAAAATAA
* * *
3455465 TGGGGTTGGACTAT-CCCTGCGAAAATAA
1 CGGGGTTGGAGTATCCCCTGCAAAAATAA
3455493 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3455511 GATTGTGAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 4 0.10
28 32 0.82
29 3 0.08
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTGCAAAAATAA
Found at i:3455560 original size:79 final size:79
Alignment explanation
Indices: 3455466--3455829 Score: 534
Period size: 79 Copynumber: 4.6 Consensus size: 79
3455456 CAAAAATAAT
*
3455466 GGGGTTGGACTAT-CCCTGCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 GGGGTTGGAGTATCCCCT-CGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
3455530 TTTAGGAATAAAGCC
65 TTTAGGAATAAAGCC
* * * * *
3455545 GGGATTGGAGTATCCCCTTGGAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAATCAAGATT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
3455610 TTAGGAATAAAGCC
66 TTAGGAATAAAGCC
*
3455624 GGGGTTGGAGTTTCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 GGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
3455688 TTTAGGAATAAAGCC
65 TTTAGGAATAAAGCC
* *
3455703 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATC
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
* * *
3455768 TTAGAAATAAAACA
66 TTAGGAATAAAGCC
* * * * * *
3455782 GGTGTTGGTGTATCCCCTCGGAAGTGACAGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
3455830 GATTAACGAG
Statistics
Matches: 258, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
79 253 0.98
80 5 0.02
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
TTAGGAATAAAGCC
Found at i:3455895 original size:106 final size:107
Alignment explanation
Indices: 3455704--3455902 Score: 262
Period size: 106 Copynumber: 1.9 Consensus size: 107
3455694 AATAAAGCCG
* *
3455704 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCT
1 GGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCTATATCT
* *
3455769 TAGAAATAAAACAGGTGTTGGTGTATCCCCTCGGAAGTGACA
66 TAGAAATAAAACAGGAGTTGGAGTATCCCCTCGGAAGTGACA
* * * *
3455811 GGGTTGGAGTAT-CCC-CGATGATTAACGAGGTTGGAGTATCCCCGATTGTGAAAAAT-TGGTGT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCT-ATAT
*
3455873 TTTAGAAATAAAATCA-GAGTTGGAGTATCC
64 CTTAGAAATAAAA-CAGGAGTTGGAGTATCC
3455903 TCGATTATAG
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
105 4 0.05
106 62 0.77
107 14 0.17
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAAATCTATATCT
TAGAAATAAAACAGGAGTTGGAGTATCCCCTCGGAAGTGACA
Found at i:3455899 original size:51 final size:51
Alignment explanation
Indices: 3455840--3456070 Score: 306
Period size: 51 Copynumber: 4.5 Consensus size: 51
3455830 GATTAACGAG
*
3455840 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * *
3455891 GTTGGAGTATCCTCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTAG-AAATAAAATCGGA
* * *
3455942 GTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * *
3455993 GTTGGAGTATCACCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGTG-
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCG-GA
*
3456044 GTTGGAGTATCCCCGATTATGAAAAAT
1 GTTGGAGTATCCCCGATTGTGAAAAAT
3456071 CGAGAAACTT
Statistics
Matches: 155, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
50 2 0.01
51 152 0.98
52 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:3455968 original size:102 final size:102
Alignment explanation
Indices: 3455839--3456070 Score: 344
Period size: 102 Copynumber: 2.3 Consensus size: 102
3455829 TGATTAACGA
* *
3455839 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCAGAGTTGGAGTATC-C
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCAGAGTTGGAGTATCAC
*
3455903 TCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAACCGG
66 -CGATTATGA-AAAATTAGTGTTTTAG-AAATAAAACCGG
* *
3455941 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTCAAAAATAAAATCGGAGTTGGAGTATCAC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCAGAGTTGGAGTATCAC
* *
3456006 CGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGT
66 CGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGG
*
3456043 GGTTGGAGTATCCCCGATTATGAAAAAT
1 GGTTGGAGTATCCCCGATTGTGAAAAAT
3456071 CGAGAAACTT
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
102 115 0.97
103 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.31
Consensus pattern (102 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCAAAAATAAAATCAGAGTTGGAGTATCAC
CGATTATGAAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:3458451 original size:13 final size:13
Alignment explanation
Indices: 3458433--3458457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3458423 GCAAAAATCG
3458433 ATGTATCGATACC
1 ATGTATCGATACC
3458446 ATGTATCGATAC
1 ATGTATCGATAC
3458458 ATCTGAATAA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACC
Found at i:3458516 original size:13 final size:13
Alignment explanation
Indices: 3458498--3458522 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3458488 GCAGTAGCTT
3458498 TGTAGCGATACAC
1 TGTAGCGATACAC
3458511 TGTAGCGATACA
1 TGTAGCGATACA
3458523 ACATTTCTGT
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:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (13 bp):
TGTAGCGATACAC
Found at i:3459276 original size:42 final size:41
Alignment explanation
Indices: 3459225--3459397 Score: 109
Period size: 42 Copynumber: 4.1 Consensus size: 41
3459215 AGGATAAAGG
3459225 AAAAAAGGAAAACGAAA-TGCATCATGCTCTTTAAGGACAGA
1 AAAAAAGGAAAA-GAAAGTGCATCATGCTCTTTAAGGACAGA
* * * * *
3459266 AAAAAGAGGAAAATAAAGTGCATCCTGCTCTTTGAGGATAAA
1 AAAAA-AGGAAAAGAAAGTGCATCATGCTCTTTAAGGACAGA
** ** ** *
3459308 AAAGAAAATAAGGGAATGAGGTGTGTCCTGCTCTTTAAGGACA-A
1 AAA-AAAGGAAAAGAA--A-GTGCATCATGCTCTTTAAGGACAGA
* * * *
3459352 AAAAGAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACA-A
1 AAAA-A-AGGAAAAGAAAGTGCATCATGCTCTTTAAGGACAGA
3459394 AAAA
1 AAAA
3459398 GTGCCACCAA
Statistics
Matches: 103, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
41 8 0.08
42 61 0.59
43 4 0.04
44 6 0.06
45 24 0.23
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAAAAGGAAAAGAAAGTGCATCATGCTCTTTAAGGACAGA
Found at i:3459398 original size:42 final size:42
Alignment explanation
Indices: 3459249--3459398 Score: 167
Period size: 42 Copynumber: 3.5 Consensus size: 42
3459239 AAATGCATCA
*
3459249 TGCTCTTTAAGGACAGAAAAA-AGAGGAAAATAAAGTGCATCC
1 TGCTCTTTAAGGACA-AAAAAGAGAGGAAAATAAAGTGCGTCC
* * * ** * * *
3459291 TGCTCTTTGAGGATAAAAAAGAAAATAAGGGAATGAGGTGTGTCC
1 TGCTCTTTAAGGACAAAAAAGAGAGGAA---AATAAAGTGCGTCC
3459336 TGCTCTTTAAGGACAAAAAAGAGAGGAAAATAAAGTGCGTCC
1 TGCTCTTTAAGGACAAAAAAGAGAGGAAAATAAAGTGCGTCC
*
3459378 TGCTCTTTGAGGACAAAAAAG
1 TGCTCTTTAAGGACAAAAAAG
3459399 TGCCACCAAC
Statistics
Matches: 86, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 5 0.06
42 48 0.56
45 33 0.38
ACGTcount: A:0.41, C:0.13, G:0.25, T:0.21
Consensus pattern (42 bp):
TGCTCTTTAAGGACAAAAAAGAGAGGAAAATAAAGTGCGTCC
Found at i:3459727 original size:55 final size:56
Alignment explanation
Indices: 3459367--3460087 Score: 720
Period size: 61 Copynumber: 12.5 Consensus size: 56
3459357 AGAGGAAAAT
* * *
3459367 AAAGTGCGTCCTGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT-----A
* *
3459428 GAAAGGCGTCCTGCTCTTTGAGGACTAG-AAGGTGCTACCAACTTGTGTGGACTTTGCAA
1 -AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT---A
** * * ** *
3459487 AAAGAAAGTATCCTACTCTTTGAGGACTGGAAA-ACGCCACCAACTTGGGTGGGCTTTGAAAGGA
1 AAAG---GCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT------A
* *
3459551 AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * ** *
3459607 AAAGGTGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTGTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
3459663 AAAGACATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * * *
3459718 AAAGGCATCCTGCTCTTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT------A
* *
3459779 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGGGCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * **
3459835 AAAGGCGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * * * *
3459891 AAAGACATCCTGTTTTTTGAGGACTA-AAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT------A
* * *
3459952 AAAGGCGTCCTGCTCTTTGAGGACTTG-AGGGTGCCACCAACTCGTGTGGGCTTTA
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
* * *
3460007 AAAGACGCCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
3460062 AAAGGCGTCCTGCTCTTTGAGGACTA
1 AAAGGCGTCCTGCTCTTTGAGGACTA
3460088 AAGGGCGAAA
Statistics
Matches: 557, Mismatches: 76, Indels: 58
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.00
55 168 0.30
56 152 0.27
58 4 0.01
59 2 0.00
61 175 0.31
62 50 0.09
64 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (56 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA
Found at i:3459839 original size:228 final size:222
Alignment explanation
Indices: 3459367--3460395 Score: 1026
Period size: 228 Copynumber: 4.5 Consensus size: 222
3459357 AGAGGAAAAT
* *
3459367 AAAGTGCGTCCTGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAA
1 AAAG-GCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGC--TGTAAAAG--
* *
3459431 AGGCGTCCTGCTCTTTGAGGACTAGAAGGTGCTACCAACTTGTGTGGACTTT-GCAAAAAGAAAG
61 A--CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAG--AAAAG---G
* * * *
3459495 TATCCTACTCTTTGAGGACTGGAAAACGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCGTC
118 CATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTC
*
3459560 TTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
176 CTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * *
3459607 AAAGGTGTCCTGCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTGTAAAAGACATC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGACGTC
3459672 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-G-AAAGGCATCCTGCTCTT
66 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTT
*
3459735 TGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGCTCTTTGAG
130 TGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAG
*
3459800 GACTAGAAAAGTGCCACCAACATGTGTGGGCTTTA
188 GACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
3459835 AAAGGCGTCCTACTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACATC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGACGTC
* * * *
3459900 CTGTTTTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTGC
66 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCCTGC
*** * * *
3459965 TCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGACGCCCTGCTCTTTGAGGA
126 TCTTTGAGGAC-TGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGA
* *
3460030 CT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
190 CTAGAAAAGTGCCACCAACTTGTGTGGGCTTTA
* * * *
3460062 AAAGGCGTCCTGCTCTTTGAGGACT---AAAGGGCGA--AA--------GG-AG--AGAG-CGTC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGACGTC
* * *
3460110 CTGCTCTTTGAGGACTAAGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCATCCTGC
66 CTGCTCTTTGAGGACTAA-AGGTGCCACCAACTTGTGTGGGCTTT---A-GAAAAGGCATCCTGC
* * *
3460175 TCTTTGAGGACTAAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCTTGCTCTTTGAGG
126 TCTTTGAGGACTGAA-AA-TGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGG
*
3460240 ACTA-AAGAAGTACCACCAACTTGTGTGGGCTTTAAAGGGA
189 ACTAGAA-AAGTGCCACCAACTTGTGTGGGCTTT------A
* * * * * *
3460280 AAAGGCGTCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTGTGGGCTTTGAAAGGCGTC
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGACGTC
3460345 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAAG
66 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAG
3460396 AAAAGGCGTT
Statistics
Matches: 682, Mismatches: 69, Indels: 86
0.81 0.08 0.10
Matches are distributed among these distances:
209 4 0.01
210 70 0.10
211 49 0.07
212 24 0.04
214 2 0.00
218 23 0.03
221 6 0.01
222 2 0.00
223 2 0.00
224 6 0.01
227 51 0.07
228 233 0.34
230 4 0.01
231 6 0.01
232 1 0.00
233 1 0.00
234 94 0.14
235 46 0.07
236 3 0.00
238 7 0.01
239 19 0.03
240 29 0.04
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (222 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTGTAAAAGACGTC
CTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAGAAAAGGCATCCTGCTCTTT
GAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGACTAGAA
AAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:3459943 original size:173 final size:170
Alignment explanation
Indices: 3459375--3460089 Score: 830
Period size: 173 Copynumber: 4.1 Consensus size: 170
3459365 ATAAAGTGCG
* * *
3459375 TCCTGCTCTTTGAGGACAAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAAGAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGA-AAAGGCGTCCT
* * * *
3459440 GCTCTTTGAGGACTAGAAGGTGCTACCAACTTGTGTGGACTTTGCAAAAAGAAAGTATCCTACTC
65 GCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT---AAAAG--A-CATCCTACTC
* * * *
3459505 TTTGAGGACTGGAAAACGCCACCAACTTGGGTGGGCTTTGAAAGGAAAAGGCG
124 TTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* *
3459558 TCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGTGTCCT
1 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCT
* * * *
3459618 GCTCTTTGAGGACTAAAAAAATGCCACCAACTTGTGTGGGCTGTAAAAGACATCCTGCTCTTTGA
65 GCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTACTCTTTGA
** *
3459683 GGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCA
129 GGACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
3459725 TCCTGCTCTTTGAGGATTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGGCGTCC
* * *
3459789 TGCTCTTTGAGGACTAGAAAAGTGCCACCAACATGTGTGGGCTTTAAAAGGCGTCCTACTCTTTG
64 TGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTACTCTTTG
* *
3459854 AGGACTAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGACA
128 AGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
3459898 TCCTGTTTTTTGAGGACTAAAAGGTGCCACTAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGGCGTCCT
* ** * ** *
3459963 GCTCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGACGCCCTGCTCTTTGAG
65 GCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTACTCTTTGAG
** * *
3460028 GACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
130 GACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
3460069 TCCTGCTCTTTGAGGACTAAA
1 TCCTGCTCTTTGAGGACTAAA
3460090 GGGCGAAAGG
Statistics
Matches: 463, Mismatches: 57, Indels: 36
0.83 0.10 0.06
Matches are distributed among these distances:
166 23 0.05
167 26 0.06
171 51 0.11
172 121 0.26
173 144 0.31
174 1 0.00
176 5 0.01
178 24 0.05
179 24 0.05
183 17 0.04
184 27 0.06
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (170 bp):
TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACATCCTACTCTTTGAGG
ACTGAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:3460217 original size:62 final size:61
Alignment explanation
Indices: 3460095--3460404 Score: 376
Period size: 62 Copynumber: 5.2 Consensus size: 61
3460085 CTAAAGGGCG
* *
3460095 AAAGGAGAGAGCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACTAACTTGTGTGGGCTTTA
1 AAAGGAAAG-GCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
* *
3460156 AAAGGAGAAGGCATCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTATGGGCTTT-
1 AAAGGA-AAGGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
* *
3460217 --A--AAAGGCGTCTTGCTCTTTGAGGACTAAAGAAGTACCACCAACTTGTGTGGGCTTTA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
* * * * *
3460274 AAGGGAAAAGGCGTCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTGTGGGCTTT-
1 AAAGG-AAAGGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
3460335 ----GAAAGGCGTCCTGCTCTTTGAGGACTGAAAG--GTGCCACCAACTTGTGTGGGCTTTAA
1 AAAGGAAAGGCGTCCTGCTCTTTGAGGACT-AAAGAAGTGCCACCAACTTGTGTGGGCTTT-A
*
3460392 AAAGAAAAGGCGT
1 AAAGGAAAGGCGT
3460405 TGTAGACACT
Statistics
Matches: 217, Mismatches: 17, Indels: 30
0.82 0.06 0.11
Matches are distributed among these distances:
55 23 0.11
56 73 0.34
57 5 0.02
59 1 0.00
61 34 0.16
62 81 0.37
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (61 bp):
AAAGGAAAGGCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTA
Found at i:3460246 original size:156 final size:149
Alignment explanation
Indices: 3459956--3460246 Score: 415
Period size: 156 Copynumber: 1.9 Consensus size: 149
3459946 AAAGGAAAAG
* *
3459956 GCGTCCTGCTCTTTGAGGACTTGAGGGTGCCACCAACTCGTGTGGGCTTTAAAAGACGCCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGAGAGTGCCACCAACTCGTGTGGGCTTTAAAAGACGCCCTGCT
* *
3460021 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
3460086 TAAAGGGCGAAAGGAGAGA
131 TAAAGGGCGAAAGGAGAGA
* * *
3460105 GCGTCCTGCTCTTTGAGGACTA-AGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAGAG-AGTGCCACCAACTCGTGTGGGCTTT-AAA--AG-ACGC-
*
3460169 TCCTGCTCTTTGAGGACT-AAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCTTGCTC
60 -CCTGCTCTTTGAGGACTGAAAG--GTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTC
3460233 TTTGAGGACTAAAG
122 TTTGAGGACTAAAG
3460247 AAGTACCACC
Statistics
Matches: 125, Mismatches: 8, Indels: 11
0.87 0.06 0.08
Matches are distributed among these distances:
148 2 0.02
149 43 0.34
150 3 0.02
152 2 0.02
153 3 0.02
154 4 0.03
155 17 0.14
156 51 0.41
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (149 bp):
GCGTCCTGCTCTTTGAGGACTAGAGAGTGCCACCAACTCGTGTGGGCTTTAAAAGACGCCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
TAAAGGGCGAAAGGAGAGA
Found at i:3460271 original size:118 final size:118
Alignment explanation
Indices: 3460105--3460402 Score: 449
Period size: 118 Copynumber: 2.5 Consensus size: 118
3460095 AAAGGAGAGA
* *
3460105 GCGTCCTGCTCTTTGAGGACT-AAGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGAGAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
3460169 TCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTATGGGCTTTAAAAG
66 TCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTATGGGCTTTAAAAG
* * * *
3460222 GCGTCTTGCTCTTTGAGGACTAAAGAAGTACCACCAACTTGTGTGGGCTTTAAAGGGAAAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
3460287 TCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTGTGGGCTTTGAAAG
66 TCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTATGGGCTTTAAAAG
*
3460340 GCGTCCTGCTCTTTGAGGACTGAAAG--GTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGC
1 GCGTCCTGCTCTTTGAGGACT-AAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
3460403 GTTGTAGACA
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
117 54 0.33
118 105 0.64
119 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (118 bp):
GCGTCCTGCTCTTTGAGGACTAAAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
TCATACTCTTTGAGGACTAAAAAAGTACCACCAACTTGTATGGGCTTTAAAAG
Found at i:3460735 original size:13 final size:13
Alignment explanation
Indices: 3460717--3460741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3460707 TATAAAGTGT
3460717 TGTATCGATACAA
1 TGTATCGATACAA
3460730 TGTATCGATACA
1 TGTATCGATACA
3460742 TAAGTGTTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3460752 original size:32 final size:33
Alignment explanation
Indices: 3460697--3460760 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
3460687 TTCAAAGATT
*
3460697 TGTATCGATATATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
3460730 TGTATCGATACAT-AAGTGTTGTATCGATACA
1 TGTATCGATACATAAAGTGTTGTATCGATACA
3460761 TAAGTTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:3460754 original size:19 final size:19
Alignment explanation
Indices: 3460696--3460778 Score: 97
Period size: 19 Copynumber: 4.6 Consensus size: 19
3460686 TTTCAAAGAT
*
3460696 TTGTATCGATATATAAAGTG
1 TTGTATCGATACAT-AAGTG
3460716 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
3460730 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
3460748 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
3460767 TTGTATCGATAC
1 TTGTATCGATAC
3460779 TATGTAAGCT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 29 0.53
20 11 0.20
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:3460898 original size:52 final size:50
Alignment explanation
Indices: 3460835--3460983 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 50
3460825 ATCAATACAT
* *
3460835 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGTAAATTTGCCTAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCTAGA
*
3460887 TGTATCGATACACTATAAAATGTATCGATACATGCAGGCAAATTTGCCTAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCTAGA
3460939 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
3460984 TAATATTTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
51 2 0.02
52 87 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCTAGA
Found at i:3462606 original size:10 final size:11
Alignment explanation
Indices: 3462591--3462619 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
3462581 CCAGCAGACG
3462591 ATTTTTCCAA-
1 ATTTTTCCAAC
3462601 ATTTTTCCAAC
1 ATTTTTCCAAC
3462612 ATTTTTCC
1 ATTTTTCC
3462620 TAAAAGGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTTTTCCAAC
Found at i:3463138 original size:24 final size:26
Alignment explanation
Indices: 3463111--3463164 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
3463101 TCAAAATTTT
3463111 ATTCAT-CG-GGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
*
3463135 ATTCTTCCGAAGGGACACTCCAACCCC
1 ATTCATCCG-AGGGACACTCCAACCCC
3463162 ATT
1 ATT
3463165 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 2 0.08
27 19 0.73
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.20
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:3465542 original size:240 final size:240
Alignment explanation
Indices: 3465119--3465570 Score: 895
Period size: 240 Copynumber: 1.9 Consensus size: 240
3465109 TTGCATGTTG
3465119 TAAAATTTTACCTTTGTGATTTTCGCATGCATCATCACATCATGATCATCCCTTATATCTCCATA
1 TAAAATTTTACCTTTGTGATTTTCGCATGCATCATCACATCATGATCATCCCTTATATCTCCATA
3465184 GCTTGCACTTATAGTCATCTCATCCTACTTTTATTTGGTTGCTATAACCTCATTGCATCACTTGC
66 GCTTGCACTTATAGTCATCTCATCCTACTTTTATTTGGTTGCTATAACCTCATTGCATCACTTGC
3465249 CTTACCCATCAGGGTGATAATTGCATTTACATTGTCAACTTCATTCATTTAAATATCTTGATCAT
131 CTTACCCATCAGGGTGATAATTGCATTTACATTGTCAACTTCATTCATTTAAATATCTTGATCAT
3465314 GCATCCATGCCATGAGTGCTATAACTTCATGATCATGCATTCATT
196 GCATCCATGCCATGAGTGCTATAACTTCATGATCATGCATTCATT
3465359 TAAAATTTTACCTTTGTGATTTTCGCATGCATCATCACATCATGATCATCCCTTATATCTCCATA
1 TAAAATTTTACCTTTGTGATTTTCGCATGCATCATCACATCATGATCATCCCTTATATCTCCATA
*
3465424 GCTTGCACTTATAGTCATCTCATCCTACTTTTATTTGGTTGCTATAACCTCATTGCATGACTTGC
66 GCTTGCACTTATAGTCATCTCATCCTACTTTTATTTGGTTGCTATAACCTCATTGCATCACTTGC
3465489 CTTACCCATCAGGGTGATAATTGCATTTACATTGTCAACTTCATTCATTTAAATATCTTGATCAT
131 CTTACCCATCAGGGTGATAATTGCATTTACATTGTCAACTTCATTCATTTAAATATCTTGATCAT
3465554 GCATCCATGCCATGAGT
196 GCATCCATGCCATGAGT
3465571 CATTCATTAT
Statistics
Matches: 211, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 211 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.39
Consensus pattern (240 bp):
TAAAATTTTACCTTTGTGATTTTCGCATGCATCATCACATCATGATCATCCCTTATATCTCCATA
GCTTGCACTTATAGTCATCTCATCCTACTTTTATTTGGTTGCTATAACCTCATTGCATCACTTGC
CTTACCCATCAGGGTGATAATTGCATTTACATTGTCAACTTCATTCATTTAAATATCTTGATCAT
GCATCCATGCCATGAGTGCTATAACTTCATGATCATGCATTCATT
Found at i:3468165 original size:12 final size:13
Alignment explanation
Indices: 3468148--3468181 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
3468138 AGTAAACACA
3468148 CAAAAAAAA-AGT
1 CAAAAAAAAGAGT
3468160 CAAAAAAAAGAGT
1 CAAAAAAAAGAGT
3468173 -AAAAAAAAG
1 CAAAAAAAAG
3468182 TGCAAAGGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.86
13 3 0.14
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (13 bp):
CAAAAAAAAGAGT
Found at i:3469500 original size:30 final size:30
Alignment explanation
Indices: 3469395--3469517 Score: 113
Period size: 30 Copynumber: 3.9 Consensus size: 30
3469385 TCAAATACCT
* *
3469395 TCTTAAAGTCCACGACTCTGTGGCACCTTC
1 TCTTAAAGTCCACGACTCTGTGGCATCTTG
* * *
3469425 TTTTCAAAGCCCACAACTCTGTGGCACTCTTTG
1 TCTT-AAAGTCCACGACTCTGTGGCA-TC-TTG
*
3469458 TTCCTTTTAAGTCCACGACT-TAGTGGCATCTTG
1 -T-C-TTAAAGTCCACGACTCT-GTGGCATCTTG
*
3469491 TCTTAAAGTCCACGACTCAGTGGCATC
1 TCTTAAAGTCCACGACTCTGTGGCATC
3469518 AAAGTCCATG
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
30 25 0.34
31 20 0.27
32 2 0.03
33 5 0.07
34 4 0.05
35 16 0.22
36 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (30 bp):
TCTTAAAGTCCACGACTCTGTGGCATCTTG
Found at i:3469525 original size:23 final size:23
Alignment explanation
Indices: 3469495--3469538 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
3469485 ATCTTGTCTT
3469495 AAAGTCCACGACTCAGTGGCATC
1 AAAGTCCACGACTCAGTGGCATC
* *
3469518 AAAGTCCATGACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
3469539 CCGTTTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.23, T:0.18
Consensus pattern (23 bp):
AAAGTCCACGACTCAGTGGCATC
Found at i:3469691 original size:100 final size:99
Alignment explanation
Indices: 3469518--3469957 Score: 551
Period size: 100 Copynumber: 4.5 Consensus size: 99
3469508 CAGTGGCATC
** * *
3469518 AAAGTCCATGACTCCGTGGCACCGTTTTCCTTCTAAGTCCACAGCTCCGTGGCACCTTCTTTTCA
1 AAAGTCCACAACTCCGTGGCACC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCA
*
3469583 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
65 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * *
3469618 AAAGTCCATAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCACCTTCTTTTCA
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCA
3469683 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
65 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * *
3469718 AAAGTCCACAACTCCGTGGCA-C----CCGTTTAAGCCCACAACTCCGTGGCACTCTTTTTCTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-C-TTCT-TTT
***
3469778 CAAAGTTTACAACTCCGTGGCAC-C---TT--CTTTT
63 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * *
3469809 CAAAGCCCACAACTCCATGGCACCCTTTTTCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 -AAAGTCCACAACTCCGTGGCA-CC-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTT
*
3469874 CAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
63 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
*
3469911 AAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTC
1 AAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGTCCACAACTC
3469958 TGTAGCATCT
Statistics
Matches: 292, Mismatches: 29, Indels: 38
0.81 0.08 0.11
Matches are distributed among these distances:
91 5 0.02
92 19 0.07
93 2 0.01
94 25 0.09
95 1 0.00
96 26 0.09
97 27 0.09
98 1 0.00
99 29 0.10
100 134 0.46
101 18 0.06
102 5 0.02
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (99 bp):
AAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTCTTTTCAA
AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:3469797 original size:128 final size:131
Alignment explanation
Indices: 3469615--3469988 Score: 431
Period size: 128 Copynumber: 2.9 Consensus size: 131
3469605 CTTTTTCCCT
* * * * * *
3469615 TTTAAAGTCCATAACTTCGTGGCAC-CTTGTTCCTTT-TAAGTCCACAACTTCGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTCAAAGTCCACAACTTCGTGGCACCTTCT
3469678 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACC-C
66 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTC
3469742 G
131 G
* ** *
3469743 TTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CTTTCAAAGTTTACAACTCCGTGGCACCTTCT
1 TTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTCAAAGTCCACAACTTCGTGGCACCTTCT
* * *
3469806 TTTCAAAGCCCACAACTCCATGGCACCCTTTTT-CCTTTT-AAGTCCACGACTCCGTGGCACCTT
66 TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACC-T
*
3469869 CT
130 CG
*
3469871 TTTCAAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACCTT
1 TTT-AAAGCCCACAACTCCATGGCACTCTTTTT-CCTTTCAAAGTCCACAACTTCGTGGCACCTT
* ** * * * * * *
3469936 GTTCCTTTTAAGTCCACAACTCTGTAGCA-TCTTTCTCCTTTTTAAAGCCCACA
64 CTT--TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACA
3469989 CAAGTCGGTG
Statistics
Matches: 205, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
126 21 0.10
127 28 0.14
128 66 0.32
130 27 0.13
132 28 0.14
133 5 0.02
134 23 0.11
135 7 0.03
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (131 bp):
TTTAAAGCCCACAACTCCATGGCACTCTTTTTCCTTTCAAAGTCCACAACTTCGTGGCACCTTCT
TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACCTC
G
Found at i:3469837 original size:65 final size:66
Alignment explanation
Indices: 3469634--3469935 Score: 431
Period size: 65 Copynumber: 4.7 Consensus size: 66
3469624 CATAACTTCG
* *
3469634 TGGCAC-CTTGTTCCTTTT-AAGTCCACAACTTCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
1 TGGCACTCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
*
3469697 G
66 A
*
3469698 TGGCACTCTTTTTCCCTTTTAAAGTCCACAACTCCGTGGCACC--CGTTT--AAGCCCACAACTC
1 TGGCACTCTTTTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTC
*
3469759 CG
65 CA
* **
3469761 TGGCACTCTTTTT-CTTTCAAAGTTTACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
1 TGGCACTCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
3469825 A
66 A
* *
3469826 TGGCACCCTTTTTCCTTTT-AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
1 TGGCACTCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
3469890 A
66 A
*
3469891 TGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCACCTT
1 TGGCACTCTTTTT-CCTTTTAAAGTCCACAACTCCGTGGCACCTT
3469936 GTTCCTTTTA
Statistics
Matches: 212, Mismatches: 16, Indels: 17
0.87 0.07 0.07
Matches are distributed among these distances:
61 25 0.12
63 32 0.15
64 6 0.03
65 90 0.42
66 16 0.08
67 43 0.20
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (66 bp):
TGGCACTCTTTTTCCTTTTAAAGTCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCC
A
Found at i:3469975 original size:33 final size:34
Alignment explanation
Indices: 3469804--3469988 Score: 105
Period size: 36 Copynumber: 5.4 Consensus size: 34
3469794 GTGGCACCTT
* * * * *
3469804 CTTTTCAAAGCCCACAACTCCATGGCACCCTTTTTC
1 CTTTT-AAAGTCCACAACTTCGTAGCA-CCTTTCTC
* * *
3469840 CTTTT-AAGTCCACGACTCCGTGGCACC-TTCT-
1 CTTTTAAAGTCCACAACTTCGTAGCACCTTTCTC
* * * * * *
3469871 -TTTCAAAGCCCACAACTCCATGGCACTCTTTTTCC
1 CTTTTAAAGTCCACAACTTCGTAGCAC-CTTTCT-C
*
3469906 CTTTTAAAGTCCACAACTTCGTGGCACCTTGT-TC
1 CTTTTAAAGTCCACAACTTCGTAGCACCTT-TCTC
*
3469940 CTTTT-AAGTCCACAAC-TCTGTAGCATCTTTCTC
1 CTTTTAAAGTCCACAACTTC-GTAGCACCTTTCTC
*
3469973 CTTTTTAAAGCCCACA
1 C-TTTTAAAGTCCACA
3469989 CAAGTCGGTG
Statistics
Matches: 122, Mismatches: 16, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
30 3 0.02
31 18 0.15
32 7 0.06
33 27 0.22
34 27 0.22
35 12 0.10
36 28 0.23
ACGTcount: A:0.22, C:0.34, G:0.11, T:0.34
Consensus pattern (34 bp):
CTTTTAAAGTCCACAACTTCGTAGCACCTTTCTC
Found at i:3469979 original size:34 final size:34
Alignment explanation
Indices: 3469832--3469980 Score: 87
Period size: 33 Copynumber: 4.5 Consensus size: 34
3469822 TCCATGGCAC
* * * *
3469832 CCTTTTTCC-TTTTAAGTCCACGACTCCGTGGCA
1 CCTTTCTCCTTTTTAAGTCCACAACTTCGTAGCA
** * * * *
3469865 CC-TTCT--TTTCAAAGCCCACAACTCCATGGCA
1 CCTTTCTCCTTTTTAAGTCCACAACTTCGTAGCA
* * *
3469896 CTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGGCA
1 C-CTTTCT-CCTTTTTAAGTCCACAACTTCGTAGCA
3469932 CCTTGT-TCC-TTTTAAGTCCACAAC-TCTGTAGCA
1 CCTT-TCTCCTTTTTAAGTCCACAACTTC-GTAGCA
*
3469965 TCTTTCTCCTTTTTAA
1 CCTTTCTCCTTTTTAA
3469981 AGCCCACACA
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
31 20 0.22
32 7 0.08
33 30 0.33
34 8 0.09
35 4 0.04
36 23 0.25
ACGTcount: A:0.19, C:0.32, G:0.11, T:0.38
Consensus pattern (34 bp):
CCTTTCTCCTTTTTAAGTCCACAACTTCGTAGCA
Found at i:3470112 original size:33 final size:33
Alignment explanation
Indices: 3469978--3470138 Score: 265
Period size: 32 Copynumber: 5.0 Consensus size: 33
3469968 TTCTCCTTTT
3469978 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
3470011 -AAAGCCCACACAAGTCGGTGGCAACCCTTC-C
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
*
3470042 CAAAGCCCACACAAGTCGGTGGCAACCC-TCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* *
3470074 TAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
*
3470107 TAAAGCCCACACAAGTCCGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT
3470139 AAGCCCAATA
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
31 3 0.03
32 83 0.70
33 33 0.28
ACGTcount: A:0.29, C:0.37, G:0.18, T:0.17
Consensus pattern (33 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:3470248 original size:43 final size:43
Alignment explanation
Indices: 3470186--3471023 Score: 821
Period size: 43 Copynumber: 18.1 Consensus size: 43
3470176 ACCCTCATCT
* * * *
3470186 TTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* * *
3470229 TTTAAGTCCAATATTGCTGGCCTTGAATCAGTATATTGGCGTCTTTGCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT---G-----G-CACC
* *
3470281 TTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCGTCTTTGTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATT---G-----G-CACC
3470333 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
3470382 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
3470425 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCTCCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---C-AC--C
* *
3470474 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
3470517 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
3470566 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
3470609 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
3470658 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
3470701 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
3470750 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
*
3470793 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG---CA-C--C
* * *
3470842 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAAC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
** *
3470885 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* * *
3470934 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC
1 -TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
3470978 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
3471021 TTT
1 TTT
3471024 GTCATCTTTA
Statistics
Matches: 686, Mismatches: 57, Indels: 104
0.81 0.07 0.12
Matches are distributed among these distances:
43 307 0.45
44 2 0.00
45 5 0.01
46 8 0.01
47 6 0.01
49 235 0.34
50 37 0.05
51 1 0.00
52 85 0.12
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:3470486 original size:92 final size:92
Alignment explanation
Indices: 3470329--3471069 Score: 1266
Period size: 92 Copynumber: 8.0 Consensus size: 92
3470319 GCGTCTTTGT
3470329 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470394 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* *
3470421 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCTCCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470486 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
3470513 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470578 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
3470605 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470670 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
*
3470697 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470762 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* * *
3470789 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
3470854 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGG
* ** * * *
3470881 CAACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGTCCAA
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC-TTTAAGTCCAA
*
3470946 TGTCGCTGGCCTTGAATCAGCACATTGG
65 TGTAGCTGGCCTTGAATCAGCACATTGG
* * * *
3470974 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCT
1 CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCTTCTTTAAGTCC
* * *
3471039 AATATCGCTGGCCTTGAATCAGCATATTGG
63 AATGTAGCTGGCCTTGAATCAGCACATTGG
3471069 C
1 C
3471070 GTCTTTGTCA
Statistics
Matches: 623, Mismatches: 22, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
92 500 0.80
93 81 0.13
95 37 0.06
96 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGG
Found at i:3470597 original size:184 final size:184
Alignment explanation
Indices: 3470133--3471069 Score: 1397
Period size: 184 Copynumber: 5.0 Consensus size: 184
3470123 CCGTGGCAAC
* * * * * *
3470133 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCTTATTGGCACCCTCATCTTTTAAGCCCAAT
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC-TTTAAGTCCAAT
* * *
3470198 GTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATTGCTGGCCTTGAATCAGTAT
64 GTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAT
* * * * * *
3470263 ATTGGCGTCTTTGCCATCTTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCGTCTTTG
129 ATTGGC-ACCTT--CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT---G-----G
3470328 TCA
183 -CA
3470331 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
3470396 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
* *
3470461 TGGCTCCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
3470515 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
3470580 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
3470645 TGGCACCTTCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
3470699 CCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
*
3470764 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
*
3470829 TGGCACCATCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* ** * * *
3470883 ACTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTC-TTTAAGTCCAATG
* *
3470948 TCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
65 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATA
* * * * *
3471013 TTGGCGCCTTTGTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGC
130 TTGGCACC--T-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
3471070 GTCTTTGTCA
Statistics
Matches: 699, Mismatches: 36, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
184 408 0.58
185 85 0.12
188 41 0.06
190 1 0.00
193 36 0.05
195 4 0.01
196 78 0.11
197 42 0.06
198 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (184 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATAT
TGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:3470702 original size:21 final size:20
Alignment explanation
Indices: 3470678--3470745 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
3470668 ATGTAGCTGG
3470678 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
3470699 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
3470720 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
3470742 CCTT
1 CCTT
3470746 CTTCTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:3472029 original size:19 final size:19
Alignment explanation
Indices: 3471967--3472050 Score: 90
Period size: 19 Copynumber: 4.7 Consensus size: 19
3471957 TTTCAACGAT
3471967 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
*
3471987 TTGTATCGA-A-ACAA---
1 TTGTATCGATACATAAGTG
*
3472001 -TGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
3472019 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
3472038 TTGTATCGATACA
1 TTGTATCGATACA
3472051 ATGTAAGCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
13 7 0.13
14 1 0.02
15 3 0.06
17 2 0.04
18 1 0.02
19 30 0.57
20 9 0.17
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:3472169 original size:52 final size:50
Alignment explanation
Indices: 3472106--3472254 Score: 217
Period size: 52 Copynumber: 2.9 Consensus size: 50
3472096 ATCAATACAT
*
3472106 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCTAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCTAGA
* *
3472158 TGTATCGATACACTATAAAATGTATCGATACATACAGGCAAATTTGCCTAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCTAGA
3472210 TGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
3472255 TAATATTTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCTAGA
Found at i:3475589 original size:121 final size:120
Alignment explanation
Indices: 3475398--3475668 Score: 393
Period size: 121 Copynumber: 2.2 Consensus size: 120
3475388 TTTAAAAAGA
** *
3475398 AAAAAAAAGGCATCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTACGGGCTTTAAAAAGA
1 AAAAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTACGGGCTTTAAAAAGA
* * *
3475463 AAAAAGGCGTCCTACTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTT
66 AAAAAGGCATCCTACTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTT
* **
3475519 GAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAAA-G-GCCACCAACTTGTGTGGGCTTTAAAAA
1 -AAA-AAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTACGGGCTTTAAAAA
*
3475582 GAAAAAAGGCATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
64 GAAAAAAGGCATCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
**
3475639 AAAAAAAAGGTGTCCTATTCTTTGAGGACT
1 AAAAAAAAGGTGTCCTGCTCTTTGAGGACT
3475669 GGAAGGGCTA
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
118 24 0.18
119 3 0.02
120 26 0.19
121 52 0.39
122 4 0.03
123 26 0.19
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (120 bp):
AAAAAAAAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTACGGGCTTTAAAAAGA
AAAAAGGCATCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT
Found at i:3481893 original size:79 final size:79
Alignment explanation
Indices: 3481806--3482166 Score: 533
Period size: 79 Copynumber: 4.6 Consensus size: 79
3481796 AAATAATGGA
** * *
3481806 GTTGGAGTATCCCAGCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
3481871 GGAATAAAACCGGG
66 GGAATAAAACCGAG
*
3481885 GTTGGAGTATCCCCTCGGAAATAACTGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
**
3481950 GGAATAAAGTCGAG
66 GGAATAAAACCGAG
** * * *
3481964 GTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCAATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
* *
3482029 GGAATAAAGCCGGG
66 GGAATAAAACCGAG
* * *
3482043 GTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTA
1 GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
3482108 GAAATAAAACCGAG
66 GGAATAAAACCGAG
* *
3482122 GTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGAT
3482167 GATTAACAGG
Statistics
Matches: 253, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 253 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GGAATAAAACCGAG
Found at i:3482232 original size:106 final size:107
Alignment explanation
Indices: 3482039--3482239 Score: 284
Period size: 106 Copynumber: 1.9 Consensus size: 107
3482029 GGAATAAAGC
* *
3482039 CGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATAT
1 CGGGGTTGGAGTATCCCCATGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCTATAT
*
3482104 CTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATGA
66 CTTAGAAATAAAACAGAGGTTGGAGTATCCCCTCGGAAATGA
*
3482146 CGGGGTTGGAGTATCCCCGAT-G-ATTAACAGGGTTGGAGTATCCCCGATTGTGAAAAAT-TACT
1 CGGGGTTGGAGTATCCCC-ATGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCTA-T
* * *
3482208 GTTTTGGAAATAAAATCAGA-GTTGGAGTATCC
64 ATCTTAGAAATAAAA-CAGAGGTTGGAGTATCC
3482240 TCGATTATAG
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
105 2 0.02
106 59 0.70
107 22 0.26
108 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCATGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAAAAATCTATAT
CTTAGAAATAAAACAGAGGTTGGAGTATCCCCTCGGAAATGA
Found at i:3482254 original size:51 final size:51
Alignment explanation
Indices: 3482177--3482292 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
3482167 GATTAACAGG
* *
3482177 GTTGGAGTATCCCCGATTGTGAAAAATT-ACTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGAC-GTTTTGAAAATAAAATCAGA
* * * *
3482228 GTTGGAGTATCCTCGATTAT-AGAAAATTGGCGTTTTGAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGA-AAAATTGACGTTTTGAAAATAAAATCAGA
3482279 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
3482293 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
50 1 0.02
51 54 0.96
52 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGACGTTTTGAAAATAAAATCAGA
Found at i:3482313 original size:28 final size:28
Alignment explanation
Indices: 3482275--3482348 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
3482265 AAAATAAAAT
*
3482275 CGGGGTTGGAGTATCCCCTCAAAAATAA
1 CGGGGTTGGAGTATCCCCACAAAAATAA
* * * *
3482303 TGGTGTTGGAGTATCCCAACGAAAATAA
1 CGGGGTTGGAGTATCCCCACAAAAATAA
*
3482331 CGGGGTTAGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3482349 GATTGTGAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCACAAAAATAA
Found at i:3482390 original size:79 final size:79
Alignment explanation
Indices: 3482307--3482666 Score: 524
Period size: 79 Copynumber: 4.6 Consensus size: 79
3482297 AAATAATGGT
** *
3482307 GTTGGAGTATCCCAACGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
3482372 GGAATAAAGTCGGG
66 GGAATAAAGCCGGG
* *
3482386 GTTGGAGTATCCCTTCG-AAATAACGAGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
*
3482450 GGAATAAAGTCGGG
66 GGAATAAAGCCGGG
* * * *
3482464 GTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCTCAATTGTGAGAAATCAATATTTAA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
3482529 GGAATAAAGCCGGG
66 GGAATAAAGCCGGG
* * * *
3482543 GTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTA
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
* * *
3482608 GAAATAAAACCGAG
66 GGAATAAAGCCGGG
* * *
3482622 GTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCTCCGAT
1 GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
3482667 GATTAACAGG
Statistics
Matches: 255, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
78 74 0.29
79 181 0.71
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
GGAATAAAGCCGGG
Found at i:3482585 original size:500 final size:501
Alignment explanation
Indices: 3481732--3482789 Score: 1913
Period size: 500 Copynumber: 2.1 Consensus size: 501
3481722 ACAGGGTTAA
** *
3481732 AGTATCCCTAATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGTGTATCCCCTCAAA
1 AGTATCCCCGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
*
3481797 AATAATGGAGTTGGAGTATCCCAGCGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAATC
66 AATAATGGAGTTGGAGTATCCCAACGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAATC
3481862 AATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACTGGGTTGGAGTATCCCC
131 AATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACTGGGTTGGAGTATCCCC
3481927 GATTGTGAGAAATCAATATTTTAGGAATAAAGTCGAGGTTGGAGTATCCCCTCAAAAATAACGGG
196 GATTGTGAGAAATCAATATTTTAGGAATAAAGTCGAGGTTGGAGTATCCCCTCAAAAATAACGGG
*
3481992 GTTGGAGTATCCTCAATTGTGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCC
261 GTTGGAGTATCCTCAATTGTGAGAAATCAATATTTAAGGAATAAAGCCGGGGTTGGAGTATCCCC
3482057 TTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTAGAAATAAAACCGAG
326 TTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTAGAAATAAAACCGAG
3482122 GTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTAT
391 GTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTAT
3482187 CCCCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCAGAGTTGG
456 CCCCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCAGAGTTGG
*
3482233 AGTATCCTCGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
1 AGTATCCCCGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
* *
3482298 AATAATGGTGTTGGAGTATCCCAACGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAGAAATC
66 AATAATGGAGTTGGAGTATCCCAACGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAATC
** *
3482363 AATATTTTAGGAATAAAGTCGGGGTTGGAGTATCCCTTC-GAAATAAC-GAGGTTGGAGTATCCC
131 AATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACTG-GGTTGGAGTATCCC
*
3482426 CGATTGTGAGAAATCAATATTTTAGGAATAAAGTCGGGGTTGGAGTATCCCCTCAAAAATAACGG
195 CGATTGTGAGAAATCAATATTTTAGGAATAAAGTCGAGGTTGGAGTATCCCCTCAAAAATAACGG
3482491 GGTTGGAGTATCCTCAATTGTGAGAAATCAATATTTAAGGAATAAAGCCGGGGTTGGAGTATCCC
260 GGTTGGAGTATCCTCAATTGTGAGAAATCAATATTTAAGGAATAAAGCCGGGGTTGGAGTATCCC
*
3482556 CTTGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTAGAAATAAAACCGA
325 CTTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTAGAAATAAAACCGA
*
3482621 GGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCTCCGATGATTAACAGGGTTGGAGTA
390 GGTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTA
**
3482686 TCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTGG
455 TCCCCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCAGAGTTGG
* * * *
3482733 AGTATCCCCGATTATAGAAATTTGGTGTTTTGAAAATAAAACCAGGGTTGGAGTATC
1 AGTATCCCCGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATC
3482790 TCTGATTGTG
Statistics
Matches: 535, Mismatches: 21, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
499 1 0.00
500 375 0.70
501 159 0.30
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (501 bp):
AGTATCCCCGATTATAGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCAAA
AATAATGGAGTTGGAGTATCCCAACGAAAATAACAGGGTTAGAGTATCCCCGATTGTGAGAAATC
AATATTTTAGGAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACTGGGTTGGAGTATCCCC
GATTGTGAGAAATCAATATTTTAGGAATAAAGTCGAGGTTGGAGTATCCCCTCAAAAATAACGGG
GTTGGAGTATCCTCAATTGTGAGAAATCAATATTTAAGGAATAAAGCCGGGGTTGGAGTATCCCC
TTGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCTATATCTTAGAAATAAAACCGAG
GTTGGAGTATCCCCTCGGAAATGACGGGGTTGGAGTATCCCCGATGATTAACAGGGTTGGAGTAT
CCCCGATTGTGAAAAATTACTGTTTTGGAAATAAAATCAGAGTTGG
Found at i:3482742 original size:51 final size:51
Alignment explanation
Indices: 3482677--3482909 Score: 288
Period size: 51 Copynumber: 4.6 Consensus size: 51
3482667 GATTAACAGG
* *
3482677 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
* * *
3482728 GTTGGAGTATCCCCGATTAT-AGAAATTTGGTGTTTTGAAAATAAAACCAGG
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAAATAAAACCAGA
* * * * * *
3482779 GTTGGAGTATCTCTGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
* * * *
3482830 GTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
** *
3482881 GTTCAAGTATCCCCGATTATGAAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
3482910 AGAAACTTAA
Statistics
Matches: 154, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
50 1 0.01
51 153 0.99
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAAATAAAACCAGA
Found at i:3482805 original size:102 final size:102
Alignment explanation
Indices: 3482673--3482909 Score: 332
Period size: 102 Copynumber: 2.3 Consensus size: 102
3482663 CGATGATTAA
* *
3482673 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCAGAGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTAT
* * *
3482738 CCCCGATTAT-AGAAATTTGGTGTTTTGAAAATAAAAC
66 CCCCGATTATGA-AAAATTAGTGTTTTAAAAATAAAAC
* * * *
3482775 CAGGGTTGGAGTATCTCTGATTGTGGAAAATTGGTGTTTCGAAAATAAAATCGGAGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTAT
*
3482840 CCCCGATTGTGAAAAATTAGTGTTTTAAAAATAAAAC
66 CCCCGATTATGAAAAATTAGTGTTTTAAAAATAAAAC
* ** *
3482877 CGGGGTTCAAGTATCCCCGATTATGAAAAATTG
1 CAGGGTTGGAGTATCCCCGATTGTGAAAAATTG
3482910 AGAAACTTAA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
102 116 0.99
103 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.31
Consensus pattern (102 bp):
CAGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTCGAAAATAAAATCAGAGTTGGAGTAT
CCCCGATTATGAAAAATTAGTGTTTTAAAAATAAAAC
Found at i:3486871 original size:50 final size:50
Alignment explanation
Indices: 3486812--3486943 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
3486802 TAAATTTCTA
* *
3486812 GATTTTTCATCTCGGGGATACTCCAACCCCGACTTTATCTCTAAAATATT
1 GATTTTTCATCTCGGGGATACTCCAACCCCGACTTTATCTCTAAAACATC
* * *
3486862 GATTTTTCATCTCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATC
1 GATTTTTCATCTCGGGGATACTCCAACCCCGACTTTATCTCTAAAACATC
* * * *
3486912 AATTTTTTATAATCGGGGATACTCCAATCCCG
1 GATTTTTCAT-CTCGGGGATACTCCAACCCCG
3486944 TTATTTCTGA
Statistics
Matches: 71, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 53 0.75
51 18 0.25
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (50 bp):
GATTTTTCATCTCGGGGATACTCCAACCCCGACTTTATCTCTAAAACATC
Found at i:3487087 original size:79 final size:78
Alignment explanation
Indices: 3487035--3487211 Score: 183
Period size: 79 Copynumber: 2.2 Consensus size: 78
3487025 TCACAATCGA
*
3487035 GGATATTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTTCAAAATGCTGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA-TTTCAAAATGCTGA
*
3487100 TTTTCTATAAACAG
65 TTTTCTACAAACAG
* * ** * * * **
3487114 GGATGCTCCAACCCTGTTATTTTTTAGGGGATACTCAAACCTCGATTTTATTTTCAGAACACTGA
1 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA-TTTCAAAATGCTGA
* * **
3487179 TTTTCCATAATTAGG
65 TTTTCTACAAACA-G
*
3487194 GGATACTCCAGCCCCGTT
1 GGATACTCCAACCCCGTT
3487212 GTCATCTCCA
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 65 0.80
80 16 0.20
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.34
Consensus pattern (78 bp):
GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCAAAATGCTGAT
TTTCTACAAACAG
Found at i:3490096 original size:48 final size:47
Alignment explanation
Indices: 3490015--3490171 Score: 158
Period size: 48 Copynumber: 3.3 Consensus size: 47
3490005 GATTAATAAA
* * *
3490015 TGTATTGATACAATCT-AGAAACCCAAATGTATCGATACATTATTCAT
1 TGTATTGATACATTCTGAAAAACCCAAATATATCGATACATT-TTCAT
* * *
3490062 TGTATTGATACATTCTGAAAAACCCACATCTATCGACACATTTTGCAT
1 TGTATTGATACATTCTGAAAAACCCAAATATATCGATACATTTT-CAT
*
3490110 TGTA-T-ATTACATTCTGAAAAAAAACCTAAATATATCGATACATTGTTCAT
1 TGTATTGA-TACATTCTG---AAAAACCCAAATATATCGATACATT-TTCAT
*
3490160 TGTATCGATACA
1 TGTATTGATACA
3490172 AAAACCTTAA
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
46 1 0.01
47 27 0.30
48 28 0.31
50 28 0.31
51 6 0.07
52 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (47 bp):
TGTATTGATACATTCTGAAAAACCCAAATATATCGATACATTTTCAT
Found at i:3490953 original size:21 final size:21
Alignment explanation
Indices: 3490929--3490985 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
3490919 AATTTATCCA
3490929 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
3490950 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
3490971 AATATATCGATACAT
1 AATGTATCGATACAT
3490986 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:3491065 original size:19 final size:19
Alignment explanation
Indices: 3491041--3491108 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
3491031 AATTCAACAA
3491041 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
3491060 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
3491075 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
3491092 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
3491109 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:3491080 original size:13 final size:13
Alignment explanation
Indices: 3491062--3491086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3491052 ACATAAGTTT
3491062 TGTATCGATACAA
1 TGTATCGATACAA
3491075 TGTATCGATACA
1 TGTATCGATACA
3491087 TAAGTATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3491084 original size:32 final size:32
Alignment explanation
Indices: 3491043--3491105 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
3491033 TTCAACAATT
*
3491043 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
3491075 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
3491106 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:3491166 original size:13 final size:13
Alignment explanation
Indices: 3491148--3491173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3491138 CATTTTTCTA
3491148 TGTATCGATACAT
1 TGTATCGATACAT
3491161 TGTATCGATACAT
1 TGTATCGATACAT
3491174 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3491170 original size:33 final size:33
Alignment explanation
Indices: 3491128--3491194 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3491118 GCCAAGGAAA
***
3491128 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
3491161 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
3491194 T
1 T
3491195 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:3493697 original size:28 final size:27
Alignment explanation
Indices: 3493630--3493700 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
3493620 CTTCACAATC
* *
3493630 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
* **
3493657 GGGGATACTCCAACCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTAATCAT-A
3493685 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
3493701 TGACTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:3493746 original size:51 final size:50
Alignment explanation
Indices: 3493685--3493854 Score: 178
Period size: 52 Copynumber: 3.3 Consensus size: 50
3493675 TTATTTTTGA
* ***
3493685 GGGGATACTCCAACCCTGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAATACCAATTTTTCATAATC
* * * * *
3493736 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAATACCAATTTTTC-ATAATC
* * *
3493788 GGGGATACTCAAACACCGATTTTATTTTCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAAC-CCGATTTTA-TTTCCAAAATACCAATTTTTCATAATC
*
3493840 GAGGATACTCCAACC
1 GGGGATACTCCAACC
3493855 TCGTTATTTC
Statistics
Matches: 96, Mismatches: 19, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
51 35 0.36
52 44 0.46
53 17 0.18
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAATACCAATTTTTCATAATC
Found at i:3493928 original size:211 final size:211
Alignment explanation
Indices: 3493521--3493928 Score: 561
Period size: 211 Copynumber: 1.9 Consensus size: 211
3493511 AATTCTCCAC
* * * *
3493521 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* * *
3493586 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 AAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* ** * * * *
3493651 ATCATCGGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGACTTTATTTCCAA
131 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
3493716 AATATTGATTTTTCAT
196 AATATTGATTTTTCAT
* *
3493732 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* * * *
3493797 CAAACACCGATTTTATTTTC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
65 CAAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
* * *
3493860 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCTAACCCCG-TTATTATCTC
130 A-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCTC
3493924 CAAAA
193 CAAAA
3493929 CATTAAATTT
Statistics
Matches: 171, Mismatches: 23, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
210 28 0.16
211 110 0.64
212 33 0.19
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (211 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
AAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AATATTGATTTTTCAT
Found at i:3505963 original size:13 final size:12
Alignment explanation
Indices: 3505945--3506009 Score: 80
Period size: 12 Copynumber: 5.4 Consensus size: 12
3505935 ACCTTCTCTT
3505945 CAAAAAAAAAGAG
1 CAAAAAAAAA-AG
3505958 C-AAAAAAAAAG
1 CAAAAAAAAAAG
*
3505969 CAAAAAAAAAAA
1 CAAAAAAAAAAG
3505981 CAAAACAAAAAA-
1 CAAAA-AAAAAAG
*
3505993 CAAAAAAAAAAA
1 CAAAAAAAAAAG
3506005 CAAAA
1 CAAAA
3506010 CAAAGAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
11 9 0.19
12 32 0.67
13 7 0.15
ACGTcount: A:0.85, C:0.11, G:0.05, T:0.00
Consensus pattern (12 bp):
CAAAAAAAAAAG
Found at i:3505977 original size:24 final size:24
Alignment explanation
Indices: 3505945--3506013 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
3505935 ACCTTCTCTT
* *
3505945 CAAAAAAAAAGAGCAAAA-AAAAAG
1 CAAAAAAAAA-AACAAAACAAAAAA
3505969 CAAAAAAAAAAACAAAACAAAAAA
1 CAAAAAAAAAAACAAAACAAAAAA
3505993 CAAAAAAAAAAACAAAACAAA
1 CAAAAAAAAAAACAAAACAAA
3506014 GAAAAAGAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
23 6 0.14
24 36 0.86
ACGTcount: A:0.84, C:0.12, G:0.04, T:0.00
Consensus pattern (24 bp):
CAAAAAAAAAAACAAAACAAAAAA
Found at i:3506009 original size:17 final size:17
Alignment explanation
Indices: 3505959--3506019 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 17
3505949 AAAAAAGAGC
*
3505959 AAAAAAAAAGCAAAA-A
1 AAAAAAAAAACAAAACA
3505975 AAAAAACAAAACAAAAAACA
1 AAAAAA-AAAAC--AAAACA
3505995 AAAAAAAAAACAAAACA
1 AAAAAAAAAACAAAACA
3506012 AAGAAAAA
1 AA-AAAAA
3506020 GAGAGAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
16 6 0.15
17 12 0.31
18 5 0.13
19 9 0.23
20 7 0.18
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAAAACA
Found at i:3506034 original size:1 final size:1
Alignment explanation
Indices: 3505959--3506019 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
3505949 AAAAAAGAGC
** * * * * * *
3505959 AAAAAAAAAGCAAAAAAAAAAACAAAACAAAAAACAAAAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3506020 GAGAGAAAAG
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.87, C:0.10, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:3507081 original size:55 final size:54
Alignment explanation
Indices: 3506999--3507638 Score: 791
Period size: 55 Copynumber: 11.4 Consensus size: 54
3506989 TCCTTCCGCT
* * *
3506999 TTTCAGTCCCCAAAGAGAAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
3507053 TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* *
3507109 TTTCAGTCCTCAAAGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* *
3507163 TTTCCAGTCCTCAGAGAGGAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3507218 CTTCAGTCCTCAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACAC-----CTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3507277 CTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA-C
* *
3507337 TTT-AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* *
3507397 TTTCAGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-C
* * *
3507452 TTTCAGTCCCCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
3507506 TTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACC
1 TTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-C
*
3507562 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGGTGGCAC
1 TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
* * *
3507616 TTTTTACTCCTCAATGAGCAGGA
1 -TTTCAGTCCTCAAAGAGCAGGA
3507639 TACACTTTAT
Statistics
Matches: 527, Mismatches: 31, Indels: 55
0.86 0.05 0.09
Matches are distributed among these distances:
54 33 0.06
55 338 0.64
56 11 0.02
58 2 0.00
59 90 0.17
60 30 0.06
61 18 0.03
64 4 0.01
65 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (54 bp):
TTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:3508432 original size:19 final size:18
Alignment explanation
Indices: 3508389--3508442 Score: 99
Period size: 18 Copynumber: 2.9 Consensus size: 18
3508379 AATTCAACAA
3508389 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3508407 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
3508425 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
3508443 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 19 0.54
19 16 0.46
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:3508522 original size:33 final size:33
Alignment explanation
Indices: 3508462--3508524 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
3508452 GCCAAGGAAA
***
3508462 TGTATCGATACATTTTTCTGTGGATCGATATAT
1 TGTATCGATACATGGATCTGTGGATCGATATAT
* *
3508495 TGTATCGATACATGGATCTTTGTATCGATA
1 TGTATCGATACATGGATCTGTGGATCGATA
3508525 CATTTGGAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGGATCGATATAT
Found at i:3511071 original size:51 final size:51
Alignment explanation
Indices: 3510993--3511165 Score: 202
Period size: 52 Copynumber: 3.4 Consensus size: 51
3510983 CCCGTTAATC
* * ***
3510993 ATCGGGGATACTCCAACCACGACTTTATTTCCAAAATATTGATTTTTCATA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCATA
* * * * *
3511044 ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTC-ATA
* * *
3511096 ATCGGGGATACTCAAACACCGATTTTATTTCCAAAAATACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAATACCAATTTTTCATA
*
3511148 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
3511166 TCGTTATTTC
Statistics
Matches: 99, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
51 39 0.39
52 46 0.46
53 14 0.14
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTCCAAAATACCAATTTTTCATA
Found at i:3511180 original size:183 final size:183
Alignment explanation
Indices: 3510860--3511193 Score: 519
Period size: 183 Copynumber: 1.8 Consensus size: 183
3510850 AATTCTCCAC
* * * *
3510860 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTTTAATCGAGGATACTC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTTTAATCGAGGATACTC
* * *
3510925 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGACACTCCAACCCCGTTA
66 AAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
3510990 ATCATCGGGGATACTCCAACCACGACTTTATTTCCAAAATATTGATTTTTCAT
131 ATCATCGGGGATACTCCAACCACGACTTTATTTCCAAAATATTGATTTTTCAT
* *
3511043 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTTTAATCGAGGATACT
* * *
3511108 CAAACACCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
65 CAAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTT
*
3511171 ATTTCATCGGGGATACTCCAACC
130 A-ATCATCGGGGATACTCCAACC
3511194 CCGTTACTTC
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
182 27 0.20
183 75 0.55
184 34 0.25
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (183 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTTTAATCGAGGATACTC
AAACACCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCACGACTTTATTTCCAAAATATTGATTTTTCAT
Found at i:3511184 original size:28 final size:28
Alignment explanation
Indices: 3511148--3511229 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
3511138 ATTTTTCACA
* *
3511148 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3511176 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTATTTC
*
3511204 --CGAGGGAACACTCCAACCCCGTTATT
1 ATCG-GGG-ATACTCCAACCCCGTTATT
3511230 ATCTCCAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.06
28 42 0.89
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATTTC
Found at i:3515550 original size:29 final size:29
Alignment explanation
Indices: 3515508--3515566 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3515498 AGATTCAAAT
3515508 TCTAATGCCAACTCATGAAAAGTATCTTG
1 TCTAATGCCAACTCATGAAAAGTATCTTG
3515537 TCTAATGCCAACTCATGAAAAGTATCTTG
1 TCTAATGCCAACTCATGAAAAGTATCTTG
3515566 T
1 T
3515567 AATTCATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (29 bp):
TCTAATGCCAACTCATGAAAAGTATCTTG
Found at i:3518873 original size:51 final size:50
Alignment explanation
Indices: 3518818--3518937 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 50
3518808 ACTTTCCACT
* *
3518818 ATCGGGGATACTCCAACCTCAG-TTTTATTTCCAAACCATCGATTTTTCACA
1 ATCGGGGATACTCCAACC-CAGATTTT-TTTCCAAAACATCAATTTTTCACA
* * * *
3518869 ATCGGGGATACCCCAACCCTGATTTTTTTTCAAAATATCAATTTTTCACA
1 ATCGGGGATACTCCAACCCAGATTTTTTTCCAAAACATCAATTTTTCACA
*
3518919 ATTGGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
3518938 GTTCCAATGG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 39 0.65
51 21 0.35
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.33
Consensus pattern (50 bp):
ATCGGGGATACTCCAACCCAGATTTTTTTCCAAAACATCAATTTTTCACA
Found at i:3519022 original size:51 final size:51
Alignment explanation
Indices: 3518946--3519064 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
3518936 CCGTTCCAAT
* * * *
3518946 GGGATACTCTAACCCCGGCTTTATTT-TTAAAACATCAATTTTTCATAATCG
1 GGGATACTCTAACCTCGACTTTATTTCTT-AAACATCAACTTTCCATAATCG
* * *
3518997 GGGATACTCTAACCTTGATTTTATTTCTTAAACATCAACTTTCCATAATTG
1 GGGATACTCTAACCTCGACTTTATTTCTTAAACATCAACTTTCCATAATCG
* *
3519048 AGGATACTCCAACCTCG
1 GGGATACTCTAACCTCG
3519065 TTATTTCCCA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 55 0.96
52 2 0.04
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (51 bp):
GGGATACTCTAACCTCGACTTTATTTCTTAAACATCAACTTTCCATAATCG
Found at i:3519117 original size:130 final size:124
Alignment explanation
Indices: 3518822--3519141 Score: 372
Period size: 124 Copynumber: 2.5 Consensus size: 124
3518812 TCCACTATCG
* * * * * *
3518822 GGGATACTCCAACCTCAGTTTTATTTCCAAACCATCGATTTTTCACAATCGGGGATACCCCAACC
1 GGGATACTCCAACCTCGGTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTCTAACC
* * * * *
3518887 CTGATTTTTTTTCAAAATATCAATTTTTCACAATTGGGGATACTCCAACCCGTTCCAAT
66 CTGATTTTATTTCAAAACATCAACTTTCCACAATTGAGGATACTCCAACCCGTTCCAAT
* * * * *
3518946 GGGATACTCTAACCCCGGCTTTATTTTTAAAACATCAATTTTTCATAATCGGGGATACTCTAACC
1 GGGATACTCCAACCTCGGTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTCTAACC
* * *
3519011 TTGATTTTATTTCTTAAACATCAACTTTCCATAATTGAGGATACTCCAACCTCGTTATTTCCCAA
66 CTGATTTTATTTC-AAAACATCAACTTTCCACAATTGAGGATACTCCAACC-CG----TT-CCAA
3519076 -
124 T
* * *
3519076 GGGATACTCCAACCTCGGTTTTATTTTCAAAACATCGATTTTCCATCATCGGGGCTACTCTAACC
1 GGGATACTCCAACCTCGGTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTCTAACC
3519141 C
66 C
3519142 CGTTATTTCT
Statistics
Matches: 161, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
124 65 0.40
125 31 0.19
126 2 0.01
130 59 0.37
131 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (124 bp):
GGGATACTCCAACCTCGGTTTTATTTTCAAAACATCGATTTTTCATAATCGGGGATACTCTAACC
CTGATTTTATTTCAAAACATCAACTTTCCACAATTGAGGATACTCCAACCCGTTCCAAT
Found at i:3519135 original size:79 final size:79
Alignment explanation
Indices: 3518997--3519265 Score: 281
Period size: 79 Copynumber: 3.4 Consensus size: 79
3518987 TTCATAATCG
* * * * * * * *
3518997 GGGATACTCTAACCTTGATTTTATTTCTTAAACATCAACTTTCCATAATTGAGGATACTCCAACC
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCCATCATCGGGGATACTCCAACC
*
3519062 TCGTTATTTCCCAA
66 CCGTTATTTCCCAA
* * *
3519076 GGGATACTCCAACCTCGGTTTTATTT-TCAAAACATCGATTTTCCATCATCGGGGCTACTCTAAC
1 GGGATACTCCAACCTCGATTTTATTTCT-AAAACATCGATTTTCCATCATCGGGGATACTCCAAC
** *
3519140 CCCGTTATTTCTGAG
65 CCCGTTATTTCCCAA
* *
3519155 GGGATACTCCAACCCCGATTTTATTTCTAAAACATCGATTTTCCACCATCGGGGATACTCCAACC
1 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCCATCATCGGGGATACTCCAACC
* * * *
3519220 CCATCATTT-TCGA
66 CCGTTATTTCCCAA
* * * *
3519233 GTAGATACTCCAACCCCGTTTTTATCTCTAAAA
1 G-GGATACTCCAACCTCGATTTTATTTCTAAAA
3519266 TATTAAATTT
Statistics
Matches: 159, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
78 3 0.02
79 155 0.97
80 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCTCGATTTTATTTCTAAAACATCGATTTTCCATCATCGGGGATACTCCAACC
CCGTTATTTCCCAA
Found at i:3521919 original size:20 final size:20
Alignment explanation
Indices: 3521896--3521968 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3521886 ACAATTCAAA
3521896 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
3521916 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
3521937 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
3521957 GTATCGATACAT
1 GTATCGATACAT
3521969 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:3521947 original size:41 final size:42
Alignment explanation
Indices: 3521896--3521990 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
3521886 ACAATTCAAA
*
3521896 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3521937 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
3521979 GTATCGATACAT
1 GTATCGATACAT
3521991 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:3522047 original size:13 final size:13
Alignment explanation
Indices: 3522029--3522054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3522019 TACAGCAAGT
3522029 ATGTATCGATACA
1 ATGTATCGATACA
3522042 ATGTATCGATACA
1 ATGTATCGATACA
3522055 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3525031 original size:123 final size:123
Alignment explanation
Indices: 3524872--3525127 Score: 334
Period size: 123 Copynumber: 2.1 Consensus size: 123
3524862 AAATTTTTTG
* * *
3524872 TTTTGGG-TTGTTTCAGTTTGGAAAAAAAATAGAATGAAGGAGGTGAAACTTGTATTGAAATATT
1 TTTTGGGTTTGTTTCAGTTTGGAAAAAAAATAAAATGAAAGAGGTGAAACTCGTATTGAAATATT
** ** * *
3524936 TCAAATATTTAATTTTTCAATGTTTTTTTTGAATTCGAGTTATTTTGATGTTGAGTCA
66 TCAAATATTTAATTTTTCAACATCATTTTCGAATTCGAGTTATTTTGATATTGAGTCA
* * *
3524994 TTTTGGGTTTTTTTGAGTTTGGCAAAAAAATAAAATGAAAGAGGTGAAACTCGTATTGAAATATT
1 TTTTGGGTTTGTTTCAGTTTGGAAAAAAAATAAAATGAAAGAGGTGAAACTCGTATTGAAATATT
* ** ** * *
3525059 TTAGGTATTTAATTTTTCAACATCATTTTCGGGTTCTAGTTGTTTTGATATTGAGTCA
66 TCAAATATTTAATTTTTCAACATCATTTTCGAATTCGAGTTATTTTGATATTGAGTCA
3525117 TTTTGGGTTTG
1 TTTTGGGTTTG
3525128 AGTTATTTCA
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
122 7 0.06
123 106 0.94
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (123 bp):
TTTTGGGTTTGTTTCAGTTTGGAAAAAAAATAAAATGAAAGAGGTGAAACTCGTATTGAAATATT
TCAAATATTTAATTTTTCAACATCATTTTCGAATTCGAGTTATTTTGATATTGAGTCA
Found at i:3525465 original size:15 final size:16
Alignment explanation
Indices: 3525434--3525468 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
3525424 TCAATTTTAG
*
3525434 GTTTAGGCCATTTTGA
1 GTTTAAGCCATTTTGA
3525450 GTTTAAGCCA-TTTGA
1 GTTTAAGCCATTTTGA
3525465 GTTT
1 GTTT
3525469 CGATTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.46
Consensus pattern (16 bp):
GTTTAAGCCATTTTGA
Found at i:3526830 original size:20 final size:20
Alignment explanation
Indices: 3526788--3526841 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
3526778 GTTAGAAGCA
*
3526788 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
3526808 ATGTATCGATACAATGT-ACC
1 ATGTATCGATACAAT-TCACC
3526828 ATGTA-CAGATACAA
1 ATGTATC-GATACAA
3526842 ACAGTGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:3526918 original size:19 final size:19
Alignment explanation
Indices: 3526869--3526920 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
3526859 ACTGCCAGTT
3526869 TCATGTATCGATACAATTG
1 TCATGTATCGATACAATTG
3526888 TCTATGTATCGATACAA-TG
1 TC-ATGTATCGATACAATTG
*
3526907 ATCATATATCGATA
1 -TCATGTATCGATA
3526921 TATTGTATCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (19 bp):
TCATGTATCGATACAATTG
Found at i:3527464 original size:22 final size:22
Alignment explanation
Indices: 3527428--3527469 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3527418 ATATTGACAG
**
3527428 AAATATTAATTATTAATTATTA
1 AAATATTAAAAATTAATTATTA
*
3527450 AAATATTAAAAATTATTTAT
1 AAATATTAAAAATTAATTAT
3527470 CATTAAACTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATATTAAAAATTAATTATTA
Found at i:3527617 original size:20 final size:20
Alignment explanation
Indices: 3527592--3527636 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
3527582 TTAAAACATA
3527592 ATTAT-ATAAATATTTAAAAT
1 ATTATAATAAATA-TTAAAAT
*
3527612 ATTATAATAATTATTAAAAT
1 ATTATAATAAATATTAAAAT
3527632 ATTAT
1 ATTAT
3527637 TTTTACAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATAATAAATATTAAAAT
Found at i:3527732 original size:36 final size:34
Alignment explanation
Indices: 3527691--3527800 Score: 106
Period size: 34 Copynumber: 3.3 Consensus size: 34
3527681 GTAATTTGTC
* *
3527691 ATTAAAATAATAAATTATAGTAATATTTTATTTATT
1 ATTAAAATAATAAATTA-A-TAATATATTATATATT
*
3527727 ATTAAAATAAATAAA-TAATATTATATTATATATT
1 ATTAAAAT-AATAAATTAATAATATATTATATATT
* *
3527761 ATTAAAAT-ATAAA-TATTAA-AAATTATA-A-T
1 ATTAAAATAATAAATTAATAATATATTATATATT
3527790 ATTAAAATAAT
1 ATTAAAATAAT
3527801 TTTGTACTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
29 9 0.14
30 3 0.05
31 7 0.11
32 9 0.14
34 21 0.32
35 1 0.02
36 10 0.15
37 6 0.09
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (34 bp):
ATTAAAATAATAAATTAATAATATATTATATATT
Found at i:3527771 original size:15 final size:15
Alignment explanation
Indices: 3527735--3527798 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
3527725 TTATTAAAAT
*
3527735 AAATAAATAATATTA
1 AAATATATAATATTA
* * *
3527750 TATTATATATTATTA
1 AAATATATAATATTA
3527765 AAATATA-AATATTA
1 AAATATATAATATTA
3527779 AAA-ATTATAATATTA
1 AAATA-TATAATATTA
3527794 AAATA
1 AAATA
3527799 ATTTTGTACT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.03
14 11 0.28
15 26 0.67
16 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATATATAATATTA
Found at i:3530854 original size:30 final size:30
Alignment explanation
Indices: 3530816--3530884 Score: 113
Period size: 29 Copynumber: 2.3 Consensus size: 30
3530806 ATTTTTGATA
*
3530816 TTAATTTTTTTTACTATAATGTA-ATCAAT
1 TTAATTTTTTTTACTATAATGTATATAAAT
*
3530845 TTAATTTTTTTTACTATAATTTATATAAAT
1 TTAATTTTTTTTACTATAATGTATATAAAT
3530875 TTAATTTTTT
1 TTAATTTTTT
3530885 ATTATATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (30 bp):
TTAATTTTTTTTACTATAATGTATATAAAT
Found at i:3531517 original size:21 final size:21
Alignment explanation
Indices: 3531478--3531541 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
3531468 CCTTTGATTA
* *
3531478 TAAAAATTGCATTTTTTTCATC
1 TAAAAAATGCA-TTCTTTCATC
*
3531500 TAAAAAATGCATTCTTTCATT
1 TAAAAAATGCATTCTTTCATC
* *
3531521 TAAAAAATGTATTCGTTCATC
1 TAAAAAATGCATTCTTTCATC
3531542 CAGTCAATGC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 26 0.72
22 10 0.28
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (21 bp):
TAAAAAATGCATTCTTTCATC
Found at i:3531961 original size:14 final size:14
Alignment explanation
Indices: 3531944--3531991 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3531934 ATTTTGATAT
3531944 TAATTTTTTTACTA
1 TAATTTTTTTACTA
** * * *
3531958 TAATTTAATCAATT
1 TAATTTTTTTACTA
3531972 TAATTTTTTTACTA
1 TAATTTTTTTACTA
3531986 TAATTT
1 TAATTT
3531992 ATATAAATTT
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TAATTTTTTTACTA
Found at i:3532015 original size:28 final size:28
Alignment explanation
Indices: 3531943--3532009 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
3531933 TATTTTGATA
*
3531943 TTAATTTTTTTACTATAATTTAATCAAT
1 TTAATTTTTTTACTATAATTTAATAAAT
3531971 TTAATTTTTTTACTATAATTTATATAAAT
1 TTAATTTTTTTACTATAATTTA-ATAAAT
3532000 TTAATTTTTT
1 TTAATTTTTT
3532010 ATTATATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
TTAATTTTTTTACTATAATTTAATAAAT
Found at i:3534146 original size:3 final size:3
Alignment explanation
Indices: 3534131--3534170 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
3534121 TGAAATTAAA
* *
3534131 AAT AAT GAT AAT AAT AAT AAT AAT AAT -AT TAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
3534171 AATTAAATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:3534166 original size:14 final size:14
Alignment explanation
Indices: 3534138--3534175 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
3534128 AAAAATAATG
3534138 ATAATAATA--ATA
1 ATAATAATATTATA
3534150 ATAATAATATTATA
1 ATAATAATATTATA
*
3534164 ATAATAAAATTA
1 ATAATAATATTA
3534176 AATGTATCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.39
14 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATAATATTATA
Found at i:3534711 original size:2 final size:2
Alignment explanation
Indices: 3534704--3534730 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3534694 TATCAAATCA
3534704 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
3534731 ATTTATCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3542593 original size:13 final size:14
Alignment explanation
Indices: 3542575--3542609 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
3542565 TTTTATTTAT
3542575 TATAAATAATA-AA
1 TATAAATAATATAA
3542588 TATAAATAATATAA
1 TATAAATAATATAA
3542602 -ATAAATAA
1 TATAAATAA
3542610 AACAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.90
14 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TATAAATAATATAA
Found at i:3542620 original size:22 final size:22
Alignment explanation
Indices: 3542575--3542633 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
3542565 TTTTATTTAT
* *
3542575 TATAAAT-AATAAATATAAATAA
1 TATAAATAAATAAA-ACAAAAAA
3542597 TATAAATAAATAAAACAAAAAA
1 TATAAATAAATAAAACAAAAAA
*
3542619 TA-AATTTAAATAAAA
1 TATAA-ATAAATAAAA
3542634 AAATCAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.06
22 24 0.75
23 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
TATAAATAAATAAAACAAAAAA
Found at i:3542628 original size:26 final size:25
Alignment explanation
Indices: 3542591--3542642 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
3542581 TAATAAATAT
3542591 AAATAATATAAATAAATAAAA-CAAA
1 AAATAATATAAATAAA-AAAATCAAA
*
3542616 AAATAAATTTAAATAAAAAAATCAAA
1 AAAT-AATATAAATAAAAAAATCAAA
3542642 A
1 A
3542643 TTTTATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (25 bp):
AAATAATATAAATAAAAAAATCAAA
Found at i:3543020 original size:21 final size:21
Alignment explanation
Indices: 3542977--3543038 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
3542967 ATTAGTTTGG
*
3542977 ATAATATTAAAAATAATAA-TA
1 ATAATAATAAAAATAA-AATTA
*
3542998 ATAATAATAAAATTAAAATTA
1 ATAATAATAAAAATAAAATTA
* ** *
3543019 ATGATTGTAAAAGTAAAATT
1 ATAATAATAAAAATAAAATT
3543039 GAAATTGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
ATAATAATAAAAATAAAATTA
Found at i:3543302 original size:29 final size:28
Alignment explanation
Indices: 3543240--3543299 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
3543230 ATAATTATTA
* *
3543240 AATAATTATATGAATAATTTGTTTTAAAT
1 AATAATTATATAAAAAATTTG-TTTAAAT
3543269 AATAATTATATAAAAAATTTG-TTAAAT
1 AATAATTATATAAAAAATTTGTTTAAAT
3543296 AATA
1 AATA
3543300 TAAAATTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 10 0.34
29 19 0.66
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (28 bp):
AATAATTATATAAAAAATTTGTTTAAAT
Found at i:3544061 original size:32 final size:32
Alignment explanation
Indices: 3544025--3544097 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
3544015 TTTAAATTTG
*
3544025 AAAATGATTTGC-ACTCGAAATGAC-CTAAATCC
1 AAAATGATTT-CAAATCGAAATGACTC-AAATCC
*
3544057 AAAAT-ATTTCAAAATCGAAATGACTCAAATTC
1 AAAATGATTTC-AAATCGAAATGACTCAAATCC
3544089 AAAATGATT
1 AAAATGATT
3544098 CGAACTCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
30 1 0.03
31 4 0.11
32 26 0.74
33 4 0.11
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (32 bp):
AAAATGATTTCAAATCGAAATGACTCAAATCC
Found at i:3545648 original size:17 final size:16
Alignment explanation
Indices: 3545588--3545652 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 16
3545578 AGACTTGGCA
*
3545588 ATTTTTATAATTTTTAT
1 ATTTTAATAATTTTT-T
* *
3545605 ATTTTTAATATATTATGT
1 A-TTTTAATA-ATTTTTT
*
3545623 ATTTAAATAATTTTTT
1 ATTTTAATAATTTTTT
3545639 ATTATTAATAATTT
1 ATT-TTAATAATTT
3545653 ATATTATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 8 0.21
17 17 0.45
18 9 0.24
19 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTAATAATTTTTT
Found at i:3545657 original size:16 final size:16
Alignment explanation
Indices: 3545600--3545659 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
3545590 TTTTATAATT
*
3545600 TTTATATTTTTAATATA
1 TTTATATTATTAATA-A
* *
3545617 TTATGTATT-TAAATAA
1 TT-TATATTATTAATAA
*
3545633 TTTTTTATTATTAATAA
1 -TTTATATTATTAATAA
3545650 TTTATATTAT
1 TTTATATTAT
3545660 ATAAATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
16 15 0.43
17 15 0.43
18 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTATATTATTAATAA
Found at i:3545665 original size:35 final size:35
Alignment explanation
Indices: 3545594--3545665 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
3545584 GGCAATTTTT
* *
3545594 ATAATTTTTATATTTTTAATATATTATGTATTTAA
1 ATAATTTTTATATTATTAATATATTATGTATATAA
*
3545629 ATAATTTTT-TATTATTAATA-ATTTATATTATATAA
1 ATAATTTTTATATTATTAATATA-TTAT-GTATATAA
3545664 AT
1 AT
3545666 TTTGATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 1 0.03
34 14 0.44
35 17 0.53
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (35 bp):
ATAATTTTTATATTATTAATATATTATGTATATAA
Found at i:3545737 original size:28 final size:29
Alignment explanation
Indices: 3545683--3545745 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
3545673 TATCTATACG
3545683 TTTATATTATTTTTTATATAATGTTATAT
1 TTTATATTATTTTTTATATAATGTTATAT
3545712 TTTA-ATTA-TTTTTATATTATAT-TTATAT
1 TTTATATTATTTTTTATA-TA-ATGTTATAT
*
3545740 TATATA
1 TTTATA
3545746 ATTGTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 8 0.27
28 15 0.50
29 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTATATTATTTTTTATATAATGTTATAT
Found at i:3545743 original size:11 final size:11
Alignment explanation
Indices: 3545706--3545762 Score: 62
Period size: 11 Copynumber: 5.0 Consensus size: 11
3545696 TTATATAATG
3545706 TTATATTT-TAA
1 TTATATTTAT-A
*
3545717 TTATTTTTATA
1 TTATATTTATA
3545728 TTATATTTATA
1 TTATATTTATA
*
3545739 TTATATAATTGTA
1 TTATAT--TTATA
3545752 TTATATTTATA
1 TTATATTTATA
3545763 GTTTATGCGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 28 0.72
12 1 0.03
13 10 0.26
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTATATTTATA
Found at i:3548282 original size:24 final size:22
Alignment explanation
Indices: 3548217--3548300 Score: 82
Period size: 22 Copynumber: 3.8 Consensus size: 22
3548207 TAATTATATA
*
3548217 AATTTAATTTAATTTTT-TAATT
1 AATTTAATTT-ATTTTTAAAATT
** *
3548239 AATTTAA-AAAATTTTAAAATCT
1 AATTTAATTTATTTTTAAAAT-T
*
3548261 AATTTATTTTTATTTTTAAAATT
1 AATTTA-ATTTATTTTTAAAATT
3548284 AATTTAATTTATTTTTA
1 AATTTAATTTATTTTTA
3548301 TGAAATTTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 5 0.10
21 3 0.06
22 24 0.49
23 7 0.14
24 10 0.20
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTTAATTTATTTTTAAAATT
Found at i:3548306 original size:24 final size:23
Alignment explanation
Indices: 3548250--3548318 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
3548240 ATTTAAAAAA
*
3548250 TTTTAAAATCTAATTTATTTTTAT
1 TTTTAAAAT-TAATTTATATTTAT
3548274 TTTTAAAATTAATTTA-ATTTAT
1 TTTTAAAATTAATTTATATTTAT
* *
3548296 TTTTATGAAATTTATTTTTATTT
1 TTTTA--AAATTAATTTATATTT
3548319 TATTATATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 10 0.26
23 7 0.18
24 18 0.46
25 4 0.10
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTTAAAATTAATTTATATTTAT
Found at i:3548539 original size:125 final size:121
Alignment explanation
Indices: 3548410--3548811 Score: 358
Period size: 125 Copynumber: 3.3 Consensus size: 121
3548400 AATTGTGTAA
* *
3548410 TTTTTTTTAAAGTAATTAAATTTAAAAATTTAATAAATAATAATGTATTAATTATTATTTTTTAA
1 TTTTTTTTAAAATAA--AAATTT-AAAA-TTAA-AAATAATAATGTATTTATTATTATTTTTTAA
*
3548475 TAAAAATAATATTTAATTAA-CTTAAAAAATTTACATTAATAAATTAAAATATTAATTA--
61 TAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATT
* *** * * *
3548533 -TTTTTTTAAAATGAAAAAATT-AAATTAAAAAGGGT-TTATATTTATTATT-TTTTAATAAAAT
1 TTTTTTTTAAAAT-AAAAATTTAAAATTAAAAATAATAATGTATTTATTATTATTTT--T-TAA-
* * *
3548594 TAAAAATAAAATTTAATTAAGTTTAGAAAAA-TTATATTAACAAATTAAAATATTAATTATT
61 TAAAAATAATATTTAATTAAGTTTA-AAAAATTTACATTAATAAATTAAAATATTAATTATT
* * * * * *
3548655 ATGTGTTTATAAAATAAAAAATTTAAAATAAAAAATAA-AAAGTTTTTATTA-TAATTTTTAATA
1 -T-TTTTTTTAAAAT-AAAAATTTAAAATTAAAAATAATAATGTATTTATTATTATTTTTTAAT-
*
3548718 AAATAAAAAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATT
62 -AA-AAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATT
* *
3548780 ATTTTTTTAAAACAAAAAAATTT-AAATTAAAA
1 -TTTTTTTTAAA-ATAAAAATTTAAAATTAAAA
3548812 TGTTATTAGT
Statistics
Matches: 223, Mismatches: 36, Indels: 40
0.75 0.12 0.13
Matches are distributed among these distances:
115 4 0.02
116 11 0.05
117 5 0.02
118 6 0.03
119 22 0.10
120 29 0.13
121 10 0.04
122 12 0.05
123 12 0.05
124 23 0.10
125 69 0.31
126 20 0.09
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (121 bp):
TTTTTTTTAAAATAAAAATTTAAAATTAAAAATAATAATGTATTTATTATTATTTTTTAATAAAA
ATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATT
Found at i:3548683 original size:14 final size:14
Alignment explanation
Indices: 3548664--3548690 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3548654 TATGTGTTTA
3548664 TAAAATAAAAAATT
1 TAAAATAAAAAATT
3548678 TAAAATAAAAAAT
1 TAAAATAAAAAAT
3548691 AAAAAGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAAATAAAAAATT
Found at i:3548826 original size:125 final size:125
Alignment explanation
Indices: 3548475--3548842 Score: 427
Period size: 125 Copynumber: 3.0 Consensus size: 125
3548465 TATTTTTTAA
*
3548475 TAAAAATAATATTTAATTAA-CTTAAAAAATTTACATTAATAAATTAAAATATT-A--ATTATTT
1 TAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTATTT
* * *
3548536 TTTTAAAATGAAAAAA-TTAAATTAAAAAGGGT-TTA-TATTTATTAT-TTTTTAATAAAAT
66 TTTTAAAA-AAAAAAATTTAAATTAAAAA-GTTATTAGTTTTTATTATATTTTTAATAAAAT
* * *
3548594 TAAAAATAAAATTTAATTAAGTTTAGAAAAA-TTATATTAACAAATTAAAATATTAATTATTATG
1 TAAAAATAATATTTAATTAAGTTTA-AAAAATTTACATTAATAAATTAAAATATTAATTATTAT-
* * * * * **
3548658 TGTTTATAAAATAAAAAATTTAAAATAAAAAATAAAAAGTTTTTATTATAATTTTTAATAAAA-
64 T-TTTTTAAAAAAAAAAATTTAAATTAAAAAGTTATTAGTTTTTATTAT-ATTTTTAATAAAAT
3548721 T-AAAA-AATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTATTT
1 TAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTATTT
* * *
3548784 TTTTAAAACAAAAAAATTTAAATTAAAATGTTATTAGTTTTTTTTATCATTTTTTATAA
66 TTTTAAAA-AAAAAAATTTAAATTAAAAAGTTATTAGTTTTTATTAT-ATTTTTAATAA
3548843 GCATTGCTTA
Statistics
Matches: 208, Mismatches: 27, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
119 19 0.09
120 24 0.12
121 6 0.03
123 13 0.06
124 53 0.25
125 67 0.32
126 13 0.06
127 1 0.00
128 12 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (125 bp):
TAAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAATAAATTAAAATATTAATTATTATTT
TTTTAAAAAAAAAAATTTAAATTAAAAAGTTATTAGTTTTTATTATATTTTTAATAAAAT
Found at i:3549790 original size:20 final size:20
Alignment explanation
Indices: 3549767--3549831 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
3549757 CACACCCAAA
3549767 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
3549787 TGTATCGATACA--A-----
1 TGTATCGATACATTATGCTT
3549800 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
3549820 TGTATCGATACA
1 TGTATCGATACA
3549832 ATGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
18 1 0.03
20 24 0.63
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:3549805 original size:13 final size:13
Alignment explanation
Indices: 3549787--3549844 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
3549777 CATTATGCTT
3549787 TGTATCGATACAA
1 TGTATCGATACAA
3549800 TGTATCGATAC-A
1 TGTATCGATACAA
**
3549812 T-TAT-G---CTT
1 TGTATCGATACAA
3549820 TGTATCGATACAA
1 TGTATCGATACAA
3549833 TGTATCGATACA
1 TGTATCGATACA
3549845 TGTTCATTGT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.06
11 3 0.08
12 2 0.06
13 24 0.67
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3549807 original size:33 final size:33
Alignment explanation
Indices: 3549765--3549863 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 33
3549755 TACACACCCA
3549765 AATGTATCGATACATTATGCTTTGTATCGATAC
1 AATGTATCGATACATTATGCTTTGTATCGATAC
3549798 AATGTATCGATACATTATGCTTTGTATCGATAC
1 AATGTATCGATACATTATGCTTTGTATCGATAC
*
3549831 AATGTATCGATACATGT-T-CATTGTATCGATAC
1 AATGTATCGATACAT-TATGCTTTGTATCGATAC
3549863 A
1 A
3549864 TGGACAATTG
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
32 14 0.22
33 49 0.77
34 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (33 bp):
AATGTATCGATACATTATGCTTTGTATCGATAC
Found at i:3549875 original size:20 final size:20
Alignment explanation
Indices: 3549829--3549885 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
3549819 TTGTATCGAT
*
3549829 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
3549848 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
3549867 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
3549886 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Done.