Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 36 of 214
Found at i:9929368 original size:45 final size:44
Alignment explanation
Indices: 9929304--9929395 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
9929294 TAGATGTGTG
*
9929304 ATGGAATAGAGGCGTAATAGTAATTCAAT-TGTTTGGTTGAATGGA
1 ATGGAATAGAGGCGTAATAGT-ATTC-ATGTGTTTGGTTGAATGAA
*
9929349 ATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAATGAA
1 ATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGAA
9929393 ATG
1 ATG
9929396 ATGTTGTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.50
45 21 0.48
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.35
Consensus pattern (44 bp):
ATGGAATAGAGGCGTAATAGTATTCATGTGTTTGGTTGAATGAA
Found at i:9929777 original size:119 final size:119
Alignment explanation
Indices: 9929533--9929887 Score: 647
Period size: 119 Copynumber: 3.0 Consensus size: 119
9929523 TTAATCATAT
*
9929533 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-T
* *
9929598 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACCATAAAATATAA
65 AATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
9929653 TTTAAAATAATTATTATTAAATATAATTTAACAAAAATATATAATTTACTAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
9929718 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
9929772 TTTAAAATAATTATTATTAAACATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
9929837 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATA
66 ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATA
9929888 ATATTTTTAT
Statistics
Matches: 227, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
119 167 0.74
120 60 0.26
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.42
Consensus pattern (119 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATA
ATTATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:9932678 original size:18 final size:18
Alignment explanation
Indices: 9932657--9932696 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
9932647 AGATTTGGAA
9932657 AAGAAAGAAACGTAGGAG
1 AAGAAAGAAACGTAGGAG
*
9932675 AAGAAGGAAACGTAGGAG
1 AAGAAAGAAACGTAGGAG
9932693 AAGA
1 AAGA
9932697 TGCCGAGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.35, T:0.05
Consensus pattern (18 bp):
AAGAAAGAAACGTAGGAG
Found at i:9936953 original size:2 final size:2
Alignment explanation
Indices: 9936946--9936976 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9936936 CACAATCTAA
9936946 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9936977 TATGGTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9942279 original size:22 final size:22
Alignment explanation
Indices: 9942243--9942302 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
9942233 GCGAGCTTAT
* *
9942243 ATGATTATGTGTTATGTGAGCC
1 ATGAATATATGTTATGTGAGCC
* *
9942265 ATGTATTTATGTTATGTGAGCC
1 ATGAATATATGTTATGTGAGCC
9942287 ATGAATATATGTTATG
1 ATGAATATATGTTATG
9942303 CAAACCCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (22 bp):
ATGAATATATGTTATGTGAGCC
Found at i:9942374 original size:33 final size:33
Alignment explanation
Indices: 9942305--9942380 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
9942295 ATGTTATGCA
* * *
9942305 AACCCTAGGATTATGTGAGACTATATGTATATG
1 AACCCTAGGATTATGCGAGACTATATGCATACG
* *
9942338 AACCCTAGGATTATGCGA-ACCTTTATGCATCCG
1 AACCCTAGGATTATGCGAGA-CTATATGCATACG
9942371 AACCCTAGGA
1 AACCCTAGGA
9942381 ACATTCAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (33 bp):
AACCCTAGGATTATGCGAGACTATATGCATACG
Found at i:9942420 original size:29 final size:28
Alignment explanation
Indices: 9942369--9942630 Score: 139
Period size: 29 Copynumber: 9.0 Consensus size: 28
9942359 TTTATGCATC
* *
9942369 CGAACCCTAGGAACATTCAAGCCTATATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
*
9942398 CGAACCCTAGGTAAATGTGAGCCTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * ** *
9942427 CGAACCTTAGGAACTTATGAGCCTGTATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
*
9942456 CGAACCCTA-GAAACTTGCGAGCCTGTATG
1 CGAACCCTAGGAAA--TGCGAGCCTATATG
* * * * *
9942485 CAAACCCTAGGTACACGCAAGCCTATATA
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * * *
9942514 CGAACCTTAGGAACTTGCGAGCCTGTATT
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
* * * * * *
9942543 TGAGCCCCAGGTACATGTGAGCTTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
* * * **
9942572 CAAACCTTAGGAACCTGCGAGTTTATATG
1 CGAACCCTAGGAA-ATGCGAGCCTATATG
** *
9942601 CGAACCCTAGGTGCATGTGAGCCTATATG
1 CGAACCCTAGG-AAATGCGAGCCTATATG
9942630 C
1 C
9942631 CATGCGAACC
Statistics
Matches: 171, Mismatches: 52, Indels: 20
0.70 0.21 0.08
Matches are distributed among these distances:
28 7 0.04
29 158 0.92
30 4 0.02
31 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
CGAACCCTAGGAAATGCGAGCCTATATG
Found at i:9942491 original size:87 final size:87
Alignment explanation
Indices: 9942369--9942541 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 87
9942359 TTTATGCATC
* * * ** *
9942369 CGAACCCTAGGAACATTCAAGCCTATATGCGAACCCTAGGTAAATGTGAGCCTATATGCGAACCT
1 CGAACCCTAGAAACATTCAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
*
9942434 TAGGAACTTATGAGCCTGTATG
66 TAGGAACTTACGAGCCTGTATG
* * *
9942456 CGAACCCTAGAAAC-TTGCGAGCCTGTATGCAAACCCTAGGTACACGCAAGCCTATATACGAACC
1 CGAACCCTAGAAACATT-CAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACC
*
9942520 TTAGGAACTTGCGAGCCTGTAT
65 TTAGGAACTTACGAGCCTGTAT
9942542 TTGAGCCCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
86 2 0.03
87 72 0.97
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (87 bp):
CGAACCCTAGAAACATTCAAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
TAGGAACTTACGAGCCTGTATG
Found at i:9942555 original size:58 final size:58
Alignment explanation
Indices: 9942446--9942592 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 58
9942436 GGAACTTATG
* * * *
9942446 AGCCTGTATGCGAACCCTAGAAACTTGCGAGCCTGTATGCAAACCCTAGGTACACGCA
1 AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
* *** * * **
9942504 AGCCTATATACGAACCTTAGGAACTTGCGAGCCTGTATTTGAGCCCCAGGTACATGTG
1 AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
* * *
9942562 AGCTTATATGCAAACCTTAGGAACCTGCGAG
1 AGCCTATATGCGAACCTTAGGAACTTGCGAG
9942593 TTTATATGCG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 73 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (58 bp):
AGCCTATATGCGAACCTTAGGAACTTGCGAGCCTGTATGCAAACCCCAGGTACACGCA
Found at i:9942572 original size:87 final size:87
Alignment explanation
Indices: 9942369--9942582 Score: 221
Period size: 87 Copynumber: 2.5 Consensus size: 87
9942359 TTTATGCATC
* * * * * * ** *
9942369 CGAACCCTAGGAACATTCAAGCCTATATGCGAACCCTAGGTAAATGTGAGCCTATATGCGAACCT
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
*
9942434 TAGGAACTTATGAGCCTGTATG
66 TAGGAACTTACGAGCCTGTATG
* * * *
9942456 CGAACCCTAGAAACTTGCGAGCCTGTATGCAAACCCTAGGTACACGCAAGCCTATATACGAACCT
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
* *
9942521 TAGGAACTTGCGAGCCTGTATT
66 TAGGAACTTACGAGCCTGTATG
* * ** * * *
9942543 TGAGCCCCAGGTACATGTGAGCTTATATGCAAACCTTAGG
1 CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGG
9942583 AACCTGCGAG
Statistics
Matches: 103, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (87 bp):
CGAACCCCAGAAACATGCGAGCCTATATGCAAACCCTAGGTAAACGCAAGCCTATATACGAACCT
TAGGAACTTACGAGCCTGTATG
Found at i:9942662 original size:34 final size:34
Alignment explanation
Indices: 9942598--9942663 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
9942588 GCGAGTTTAT
* ** *
9942598 ATGCGAACCCTAGGTGCATGTGAGCCTATATGCC
1 ATGCGAACCCTAAGAACATGCGAGCCTATATGCC
*
9942632 ATGCGAACCCTAAGAACATGCGAGCTTATATG
1 ATGCGAACCCTAAGAACATGCGAGCCTATATG
9942664 ATCATGTGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (34 bp):
ATGCGAACCCTAAGAACATGCGAGCCTATATGCC
Found at i:9945316 original size:106 final size:106
Alignment explanation
Indices: 9945129--9945320 Score: 321
Period size: 106 Copynumber: 1.8 Consensus size: 106
9945119 AGATTTAAGG
* * *
9945129 GGATATTTGGCTATTTAGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCGAA
1 GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
*
9945194 TTTCCAAACGTAAAATATTGCCTCACTTTGAAATTTCGAAA
66 TTTCCAAACGCAAAATATTGCCTCACTTTGAAATTTCGAAA
* *
9945235 GGATATTCGACTATTTGGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCATGTTCTCTCGAA
1 GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
*
9945300 TTTCCAAACGCGAAATATTGC
66 TTTCCAAACGCAAAATATTGC
9945321 TTTATTTGAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
106 79 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (106 bp):
GGATATTCGACTATTTAGTCAAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTCTCTCGAA
TTTCCAAACGCAAAATATTGCCTCACTTTGAAATTTCGAAA
Found at i:9949459 original size:43 final size:43
Alignment explanation
Indices: 9949288--9949669 Score: 524
Period size: 43 Copynumber: 9.0 Consensus size: 43
9949278 TACAATGCCC
9949288 CTATAGACCATGGTCTTTAGCGGCGCTTAA--ATAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCA-AAAAACGCCA
*
9949330 CTATAGACTATGGTCTTTAGCGGCGCTTAA--AATAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAA-AAAACGCCA
* * * * *
9949372 TTATAGACCGT-GTGTTTAGTGGCGCTT-ACCAAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* *
9949413 CTATAGACGATGGTCTTTAGCGGCGCTTAACCAAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* * *
9949456 CTATAGACCGTGGTCTTTAGCGGCGCTTAACCAAAAAACACCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* * *
9949499 CTATAGACCGTGGTCTTTAGCGGCGCTTAGGCTAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* *
9949542 CTATAGACCATGGTCTTTAGCGGCGCTTAGGCTAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* *
9949585 CTATAGACCATGGTCTTTAGCGGCGCTTAGGCGAAAAACGCCA
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
* *
9949628 CTATAGACCATGGTCTTTAGTGGCGCTTATGCAAAAAACGCC
1 CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCC
9949670 GCTAATTTTG
Statistics
Matches: 312, Mismatches: 23, Indels: 9
0.91 0.07 0.03
Matches are distributed among these distances:
40 1 0.00
41 32 0.10
42 63 0.20
43 216 0.69
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (43 bp):
CTATAGACCATGGTCTTTAGCGGCGCTTAAGCAAAAAACGCCA
Found at i:9950004 original size:21 final size:21
Alignment explanation
Indices: 9949978--9950032 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9949968 AGCTGTTCTG
9949978 CTTCCCTCGCTGCAGCCTCTA
1 CTTCCCTCGCTGCAGCCTCTA
** *
9949999 CTTCCCTCGCTTTAGCCTCTG
1 CTTCCCTCGCTGCAGCCTCTA
* *
9950020 CTTCTCTCACTGC
1 CTTCCCTCGCTGC
9950033 CGCATCTGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.07, C:0.45, G:0.13, T:0.35
Consensus pattern (21 bp):
CTTCCCTCGCTGCAGCCTCTA
Found at i:9950120 original size:87 final size:87
Alignment explanation
Indices: 9949993--9950196 Score: 259
Period size: 87 Copynumber: 2.3 Consensus size: 87
9949983 CTCGCTGCAG
* * **
9949993 CCTCTACTTCCCTCGCT-TTAGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGTTG
1 CCTCAACTTCTCTCGCTGTT-GCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCG
9950057 GAGTTCTTCATA-CTTTCGTTGAA
65 GAGTTCTTCATATCTTT-GTTGAA
* * * * *
9950080 CCTCAGCTTCTCTCGCTGTTGCCTCTGCTTCTCTCGCTGCCGTATCTGCTTTAAGTTGTTGCCGG
1 CCTCAACTTCTCTCGCTGTTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCGG
*
9950145 AGTTCTTCATATCTTTTTTGAA
66 AGTTCTTCATATCTTTGTTGAA
* * *
9950167 CCTCAACTTCTCTCGATGTTACCTCCGCTT
1 CCTCAACTTCTCTCGCTGTTGCCTCTGCTT
9950197 TAAGTTGTGT
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
87 95 0.94
88 6 0.06
ACGTcount: A:0.12, C:0.32, G:0.16, T:0.40
Consensus pattern (87 bp):
CCTCAACTTCTCTCGCTGTTGCCTCTGCTTCTCTCACTGCCGCATCTGCTTTAAGCTGCTGCCGG
AGTTCTTCATATCTTTGTTGAA
Found at i:9950127 original size:21 final size:21
Alignment explanation
Indices: 9950085--9950130 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9950075 TTGAACCTCA
** *
9950085 GCTTCTCTCGCTGTTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
9950106 GCTTCTCTCGCTGCCGTATCT
1 GCTTCTCTCGCTGCCGCATCT
9950127 GCTT
1 GCTT
9950131 TAAGTTGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.37, G:0.20, T:0.41
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:9955847 original size:94 final size:94
Alignment explanation
Indices: 9955689--9956477 Score: 434
Period size: 103 Copynumber: 8.0 Consensus size: 94
9955679 ATCATATGAT
* * *
9955689 ATATATTAATAAGTTATGTCGTATT-ATATAAATTATGT-ATTAAAAATGTAAAAGTATTAA--T
1 ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATT---TATGTATAA-TATTAATGT
* *
9955750 AAGTTATGTAAGTTATGTATCAT-TT-ATCCATAA
62 AAGTTATGTAATTTATGTATAATATTAAT--ATAA
*
9955783 ATATATTAATAAGTTATGTCGTATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATTTATGTATAATATTAATGTAAGT
* *
9955848 TATGTAATTTACGTATAATATTAATGTAA
66 TATGTAATTTATGTATAATATTAATATAA
* **
9955877 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATAATAT
* *
9955941 TAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
56 TAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* ** * *
9955980 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTA
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATA-ATA
* *
9956043 TTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
55 TTAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* ** * *
9956083 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTA
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATA-ATA
* *
9956146 TTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
55 TTAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* *
9956186 GT-TATCT-ATAA--TAT-T--AATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAG
1 ATATAT-TAATAAGTTATGTCGTATTAATATAAGTTATGTAATTTATGTATAATATTAATGTAAG
* * *
9956243 TCATGTAATTTATGTGTAATATTAATGTAA
65 TTATGTAATTTATGTATAATATTAATATAA
* ** * * *
9956273 GT-TATGTAAGTTGTAAGTTATGTATAATATTACTTAATTAAGTTATGTAATTTAAGT-TATGTA
1 ATATAT-TAA----TAAGTTATG--TCGTATTA-AT-A-TAAGTTATGTAATTTATGTATA-ATA
* * *
9956336 TTAATGTAAGTTATGTTATTTATGTGTAATATTAATGTAA
55 TTAATGTAAGTTATGTAATTTATGTATAATATTAATATAA
* ** * *
9956376 GT-TATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTATGTATAATAT
1 ATATAT-TAA----TAAGTTATG--TCGTATTAA-T-A-TAAGTTATGTAATTTATGTATAATAT
*
9956440 TAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
56 TAA-T--GTAAGTTATGTAATTTATGTATAATATTAAT
9956478 GTGGCTTCTA
Statistics
Matches: 619, Mismatches: 36, Indels: 68
0.86 0.05 0.09
Matches are distributed among these distances:
87 65 0.11
88 3 0.00
90 1 0.00
91 5 0.01
92 9 0.01
93 11 0.02
94 56 0.09
95 13 0.02
96 8 0.01
97 1 0.00
98 12 0.02
99 4 0.01
100 8 0.01
101 1 0.00
102 5 0.01
103 386 0.62
104 3 0.00
106 28 0.05
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (94 bp):
ATATATTAATAAGTTATGTCGTATTAATATAAGTTATGTAATTTATGTATAATATTAATGTAAGT
TATGTAATTTATGTATAATATTAATATAA
Found at i:9955928 original size:103 final size:103
Alignment explanation
Indices: 9955805--9956479 Score: 737
Period size: 103 Copynumber: 6.4 Consensus size: 103
9955795 GTTATGTCGT
* *
9955805 ATTAATGTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTACGTATAATATT
1 ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATT
9955870 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
65 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
9955909 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTA
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTA
9955974 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
66 ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
* *
9956012 ATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTTATGTAATTTATGTGTAATATT
1 ATTAATTAAGTTATGTAATTTATGTATA-ATATTAATGTAAGTTATGTAATTTATGTGTAATATT
9956076 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
65 AATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
* *
9956115 ATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTTATGTAATTTATGTGTAATATT
1 ATTAATTAAGTTATGTAATTTATGTATA-ATATTAATGTAAGTTATGTAATTTATGTGTAATATT
* * * * *
9956179 AATGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAA
65 AATGTAAG---T-TAT-GTA--AGTT--GTAAGTTATGT-A--TA-ATATTA
* * *
9956231 TATTAATGTAAGTCATGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGT-T-AT
1 -ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAA-TT-TATGTGTAAT
* * * * * * *
9956294 GTATAATATTACTTAAT-TAAGTTATGTAATTTAAGT-T-AT-GT-
62 AT-TAATGTAAGTT-ATGTAAG-T-TGTAAGTTATGTATAATATTA
* * * *
9956335 ATTAATGTAAGTTATGTTATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGT-T-ATG
1 ATTAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAA-TT-TATGTGTAATA
*
9956398 TATAATATTAA-TTAAT-TAAGTTAGGTAAGTTATGTATAATATTA
63 T-TAAT-GTAAGTT-ATGTAAGTT--GTAAGTTATGTATAATATTA
9956442 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
1 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGT
9956480 GGCTTCTACG
Statistics
Matches: 508, Mismatches: 33, Indels: 58
0.85 0.06 0.10
Matches are distributed among these distances:
101 1 0.00
102 3 0.01
103 350 0.69
104 9 0.02
105 2 0.00
106 33 0.06
107 9 0.02
108 3 0.01
110 3 0.01
112 19 0.04
113 2 0.00
114 3 0.01
115 3 0.01
116 7 0.01
117 6 0.01
118 40 0.08
119 11 0.02
120 4 0.01
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (103 bp):
ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTGTAATATTA
ATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTA
Found at i:9956199 original size:87 final size:87
Alignment explanation
Indices: 9956094--9956277 Score: 316
Period size: 87 Copynumber: 2.1 Consensus size: 87
9956084 TTATGTAAGT
* * *
9956094 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-TATGTATTAATGTAAGTT
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATA-ATATTAATGTAAGTC
9956158 ATGTAATTTATGTGTAATATTAA
65 ATGTAATTTATGTGTAATATTAA
*
9956181 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAGTCA
9956246 TGTAATTTATGTGTAATATTAA
66 TGTAATTTATGTGTAATATTAA
9956268 TGTAAGTTAT
1 TGTAAGTTAT
9956278 GTAAGTTGTA
Statistics
Matches: 92, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 90 0.98
88 2 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (87 bp):
TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTAAGTATAATATTAATGTAAGTCA
TGTAATTTATGTGTAATATTAA
Found at i:9956211 original size:293 final size:296
Alignment explanation
Indices: 9955888--9956479 Score: 1066
Period size: 293 Copynumber: 2.0 Consensus size: 296
9955878 TTATGTAAGT
* *
9955888 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTA
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
9955953 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
66 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
9956018 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
131 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
* *
9956083 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAAGT-T-AT-GT
196 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTAAGTATAATAGT
*
9956145 -ATTAATGTAAGTTATGTAATTTATGTGTAATATTAA
261 AATTAAT-TAAGTTATGTAATTTATGTATAATATTAA
9956181 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
1 TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
*
9956246 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTACTTAAT
66 TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
*
9956311 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTTATTTATGTGTAATATTAATGTAA
131 TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
* *
9956376 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTATGTATAATATT
196 GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTAAGTATAATAGT
9956441 AATTAATTAAGTTATGTAATTTATGTATAATATTAA
261 AATTAATTAAGTTATGTAATTTATGTATAATATTAA
9956477 TGT
1 TGT
9956480 GGCTTCTACG
Statistics
Matches: 286, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
293 245 0.86
294 1 0.00
295 2 0.01
296 32 0.11
297 6 0.02
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.48
Consensus pattern (296 bp):
TGTAAGTTATCTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTCA
TGTAATTTATGTGTAATATTAATGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAATTAAT
TAAGTTATGTAATTTAAGTTATGTATTAATGTAAGTTATGTAATTTATGTGTAATATTAATGTAA
GTTATGTAAGTTGTAAGTTATGTATAATATTAATTAATTAAGTTAGGTAAGTTAAGTATAATAGT
AATTAATTAAGTTATGTAATTTATGTATAATATTAA
Found at i:9956230 original size:34 final size:34
Alignment explanation
Indices: 9956180--9956477 Score: 304
Period size: 34 Copynumber: 8.7 Consensus size: 34
9956170 TGTAATATTA
* *
9956180 ATGTAAGTTATCTATAATATTAATTAATTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
* *
9956214 ATGTAATTTATGTATAATATTAA-T--GTAAGTC
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
* * *
9956245 ATGTAATTTATGTGTAATATTAATGTAAGTTATGTA
1 ATGTAATTTATGTATAATATTAAT-TAA-TTAAGTT
* *
9956281 AGTTGTAAGTTATGTATAATATTACTTAATTAAGTT
1 A--TGTAATTTATGTATAATATTAATTAATTAAGTT
* *
9956317 ATGTAATTTAAGT-T-AT-GT-ATTAATGTAAGTT
1 ATGTAATTTATGTATAATATTAATTAAT-TAAGTT
* * * *
9956348 ATGTTATTTATGTGTAATATTAATGTAAGTTATGTA
1 ATGTAATTTATGTATAATATTAAT-TAA-TTAAGTT
*
9956384 AGTTGTAAGTTATGTATAATATTAATTAATTAAGTT
1 A--TGTAATTTATGTATAATATTAATTAATTAAGTT
* *
9956420 AGGTAAGTTATGTATAATATTAATTAATTAAGTT
1 ATGTAATTTATGTATAATATTAATTAATTAAGTT
9956454 ATGTAATTTATGTATAATATTAAT
1 ATGTAATTTATGTATAATATTAAT
9956478 GTGGCTTCTA
Statistics
Matches: 218, Mismatches: 30, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
30 5 0.02
31 45 0.21
32 3 0.01
33 5 0.02
34 86 0.39
35 2 0.01
36 25 0.11
37 7 0.03
38 40 0.18
ACGTcount: A:0.38, C:0.01, G:0.14, T:0.47
Consensus pattern (34 bp):
ATGTAATTTATGTATAATATTAATTAATTAAGTT
Found at i:9957010 original size:47 final size:47
Alignment explanation
Indices: 9956956--9957049 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
9956946 AACGCTAGAC
*
9956956 CACCTCCACATGCATTAATCAAATCCTAAATTATATTTTAGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
* * * *
9957003 CACCTCCATATGCATTAATCAAGCCCTAAATTATCTTTTGGAAGGGG
1 CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
9957050 AATCGAAGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (47 bp):
CACCTCCACATGCATTAATCAAACCCTAAATTATATTTTAGAAGGGG
Found at i:9959261 original size:14 final size:14
Alignment explanation
Indices: 9959233--9959287 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
9959223 CCAAACTATA
*
9959233 TAAACTCT-TACCC
1 TAAACTCTAAACCC
9959246 TAAACTCTAAACCC
1 TAAACTCTAAACCC
* *
9959260 TAAA-TCGTAAAACT
1 TAAACTC-TAAACCC
*
9959274 TAAACCCTAAACCC
1 TAAACTCTAAACCC
9959288 GCCAGTTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.30
14 22 0.67
15 1 0.03
ACGTcount: A:0.42, C:0.33, G:0.02, T:0.24
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:9960819 original size:21 final size:22
Alignment explanation
Indices: 9960777--9960825 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9960767 TTTAAAAAAT
9960777 AAATAACATATAAAACAATTTA
1 AAATAACATATAAAACAATTTA
* * *
9960799 AAATAATATGTAAAA-AGTTTA
1 AAATAACATATAAAACAATTTA
9960820 AAATAA
1 AAATAA
9960826 ATTATATGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (22 bp):
AAATAACATATAAAACAATTTA
Found at i:9961058 original size:25 final size:21
Alignment explanation
Indices: 9961026--9961087 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 21
9961016 ATGAAAAAAC
9961026 TTAAAATAAATAATAATAGAACGAT
1 TTAAAATAAATAAT-ATA-AA-G-T
9961051 TTAAAAT-AA-AATATAAAGT
1 TTAAAATAAATAATATAAAGT
9961070 TTAAAATAAATAA-ATAAA
1 TTAAAATAAATAATATAAA
9961088 TTGCAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 8 0.23
20 8 0.23
21 4 0.11
22 3 0.09
23 3 0.09
24 2 0.06
25 7 0.20
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (21 bp):
TTAAAATAAATAATATAAAGT
Found at i:9963506 original size:16 final size:15
Alignment explanation
Indices: 9963487--9963526 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
9963477 AATATTGTGT
9963487 AAATAAAAGGAAAAG
1 AAATAAAAGGAAAAG
**
9963502 AAAATAAAAATAAAAG
1 -AAATAAAAGGAAAAG
9963518 AAATAAAAG
1 AAATAAAAG
9963527 ATGAAGAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAATAAAAGGAAAAG
Found at i:9965443 original size:4 final size:4
Alignment explanation
Indices: 9965434--9965466 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
9965424 TGATAACCTA
9965434 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
9965467 TATATGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:9966016 original size:16 final size:16
Alignment explanation
Indices: 9965982--9966034 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
9965972 ATGGCATCAG
9965982 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
9965998 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* * *
9966014 TCATACCATACTCTAT
1 TCATGCAATACTCAAT
9966030 TCATG
1 TCATG
9966035 AGTATATAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 5 0.17
16 20 0.69
17 4 0.14
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.36
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:9966346 original size:41 final size:40
Alignment explanation
Indices: 9966224--9966359 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 40
9966214 ACTAGTTTGG
* * * * * *
9966224 CACCCAGTGCCTTATCGGATAATTCAAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
* * * * *
9966264 CACCCATTGTCTCATCGACTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
9966301 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCGAAGTAGTAAATTGA
* *
9966342 CACCCAATGTCTCATCGA
1 CACCCAGTGCCTCATCGA
9966360 CTCGAAGTCG
Statistics
Matches: 74, Mismatches: 18, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
37 23 0.31
38 6 0.08
39 2 0.03
40 18 0.24
41 25 0.34
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCGAAGTAGTAAATTGA
Found at i:9966551 original size:24 final size:24
Alignment explanation
Indices: 9966506--9966552 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
9966496 TATATATACC
9966506 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
9966530 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
9966553 CCATTTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:9967239 original size:4 final size:4
Alignment explanation
Indices: 9967230--9967269 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
9967220 AAGGCCGTGG
9967230 CTTT CTTT C-TT CTTT CTCTT -TTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CT-TT CTTT CTTT CTTT CTTT CTTT C
9967270 CTGTTTCGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 5 0.15
4 26 0.79
5 2 0.06
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:9972883 original size:20 final size:20
Alignment explanation
Indices: 9972859--9973012 Score: 96
Period size: 20 Copynumber: 7.7 Consensus size: 20
9972849 AAAGCATATA
*
9972859 AAAAAATTATGAGGGAGTACC
1 AAAAAA-TATGAGGGAATACC
** *
9972880 AAAATTTATGAGAGAATACC
1 AAAAAATATGAGGGAATACC
* ** * *
9972900 AAAAAACACAAGGGAGTACA
1 AAAAAATATGAGGGAATACC
* * *
9972920 AAAAAACATAAGAGAATACC
1 AAAAAATATGAGGGAATACC
* * *
9972940 AAAAATTATGAGGAAATA-A
1 AAAAAATATGAGGGAATACC
* *
9972959 AAAAAATTATGAGGGATTACT
1 AAAAAA-TATGAGGGAATACC
* *
9972980 AAAAAACATGATGGG-GTACC
1 AAAAAATATGA-GGGAATACC
9973000 AAAAAATATGAGG
1 AAAAAATATGAGG
9973013 AATTATAAAA
Statistics
Matches: 100, Mismatches: 30, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
19 7 0.07
20 80 0.80
21 13 0.13
ACGTcount: A:0.55, C:0.09, G:0.19, T:0.18
Consensus pattern (20 bp):
AAAAAATATGAGGGAATACC
Found at i:9972974 original size:60 final size:61
Alignment explanation
Indices: 9972910--9973025 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 61
9972900 AAAAAACACA
*
9972910 AGGGAGTACAAAAAAACAT-AAGAGAATACCAAAAATTATGAGGAAATA-AAAAAAATTATG
1 AGGGAGTACAAAAAAACATGAAG-GAATACCAAAAAATATGAGGAAATATAAAAAAATTATG
* * * ** *
9972970 AGGGATTACTAAAAAACATGATGGGGTACCAAAAAATATGAGGAATTATAAAAAAA
1 AGGGAGTACAAAAAAACATGAAGGAATACCAAAAAATATGAGGAAATATAAAAAAA
9973026 GAGAGAGGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
60 38 0.81
61 9 0.19
ACGTcount: A:0.57, C:0.07, G:0.18, T:0.18
Consensus pattern (61 bp):
AGGGAGTACAAAAAAACATGAAGGAATACCAAAAAATATGAGGAAATATAAAAAAATTATG
Found at i:9973023 original size:20 final size:20
Alignment explanation
Indices: 9972940--9973025 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
9972930 AGAGAATACC
* *
9972940 AAAAATTATGAGGAAATA-A
1 AAAAAATATGAGGAATTATA
*
9972959 AAAAAATTATGAGGGATTACTA
1 AAAAAA-TATGAGGAATTA-TA
* **
9972981 AAAAACATGATG-GG--GTACC
1 AAAAA-AT-ATGAGGAATTATA
9973000 AAAAAATATGAGGAATTATA
1 AAAAAATATGAGGAATTATA
9973020 AAAAAA
1 AAAAAA
9973026 GAGAGAGGAG
Statistics
Matches: 50, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
17 3 0.06
18 4 0.08
19 10 0.20
20 20 0.40
22 9 0.18
23 4 0.08
ACGTcount: A:0.57, C:0.05, G:0.17, T:0.21
Consensus pattern (20 bp):
AAAAAATATGAGGAATTATA
Found at i:9974854 original size:105 final size:101
Alignment explanation
Indices: 9974639--9974855 Score: 238
Period size: 105 Copynumber: 2.1 Consensus size: 101
9974629 AATTGACGGA
*** * *
9974639 TAAGACCATGGTTGGACCATGACAATGTTTAAATGTAAGACCATAGCTGGGTTATGGCATTTTAA
1 TAAGACCATGGTTGGACCATGACAATAAATAAATGTAAGACCATAGCTGGGTTATGACATTCTAA
* **
9974704 TGAAAAGATCATAACTGGGTTATGAAACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGAAACCTCAAACG
* * * *
9974740 CAAGGCCATGGTTGGACCATGACAGTATAAATACATGTGCAAGACCATAGTTGGGTTATGACATT
1 TAAGACCATGGTTGGACCATGACA--ATAAATAAATGT--AAGACCATAGCTGGGTTATGACATT
* * * *
9974805 CTGATGATAAGACCATAACTGGGTTATGGAA-CTACAAATG
62 CTAATGAAAAGACCATAACTGGGTTATGAAACCT-CAAACG
9974845 TAAGACCATGG
1 TAAGACCATGG
9974856 AAGGGTCATG
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
101 22 0.24
103 8 0.09
104 2 0.02
105 61 0.66
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAATAAATAAATGTAAGACCATAGCTGGGTTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGAAACCTCAAACG
Found at i:9979560 original size:8 final size:8
Alignment explanation
Indices: 9979539--9979570 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
9979529 AATTTAAAGT
9979539 TATTATATA
1 TATTATA-A
9979548 TATTATAA
1 TATTATAA
9979556 TATTATAA
1 TATTATAA
9979564 TATTATA
1 TATTATA
9979571 TCTTAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TATTATAA
Found at i:9979631 original size:13 final size:13
Alignment explanation
Indices: 9979613--9979654 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9979603 TATATTATAT
9979613 AATAAAAGAAAGA
1 AATAAAAGAAAGA
9979626 AATAAAAGAAAAGGA
1 AATAAAAG-AAA-GA
9979641 AAT-AAAGAAAGA
1 AATAAAAGAAAGA
9979653 AA
1 AA
9979655 CAAAGAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.15
13 11 0.41
14 7 0.26
15 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AATAAAAGAAAGA
Found at i:9982218 original size:18 final size:19
Alignment explanation
Indices: 9982195--9982242 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
9982185 GTATAAAAAA
*
9982195 ATATATTTTATTCCAAAT-
1 ATATATTTTATGCCAAATC
9982213 ATATATTTCTTATGCCAAATC
1 ATATA-TT-TTATGCCAAATC
9982234 ATA-ATTTTA
1 ATATATTTTA
9982243 AAACTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 4 0.15
20 11 0.42
21 3 0.12
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (19 bp):
ATATATTTTATGCCAAATC
Found at i:9982788 original size:20 final size:18
Alignment explanation
Indices: 9982755--9982830 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 18
9982745 CACAAGGGAG
*
9982755 TATCAAATAATATGATGAAT
1 TATCAAA-AATATGA-GAAA
9982775 TATCAAAAATTATGAAGAAA
1 TATCAAAAA-TATG-AGAAA
*
9982795 TACCAAAAGATATGAGAAAA
1 TATCAAAA-ATATGAG-AAA
9982815 TATCAAAAATTATGAG
1 TATCAAAAA-TATGAG
9982831 TGGTTACCAA
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.10
20 41 0.85
21 2 0.04
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.26
Consensus pattern (18 bp):
TATCAAAAATATGAGAAA
Found at i:9983038 original size:21 final size:21
Alignment explanation
Indices: 9983014--9983070 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
9983004 CTGAATATAA
9983014 TAAATATATATTTTTTAA-TTT
1 TAAA-ATATATTTTTTAATTTT
*
9983035 TAAAATACTTTTTTTTAATTTT
1 TAAAATA-TATTTTTTAATTTT
*
9983057 TAAAATAAATTTTT
1 TAAAATATATTTTT
9983071 AGTGTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 3 0.10
21 18 0.58
22 10 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TAAAATATATTTTTTAATTTT
Found at i:9983041 original size:22 final size:23
Alignment explanation
Indices: 9983015--9983070 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
9983005 TGAATATAAT
9983015 AAATATATATTTTTTAA-TTTTA
1 AAATATATATTTTTTAATTTTTA
9983037 AAATACT-T-TTTTTTAATTTTTA
1 AAATA-TATATTTTTTAATTTTTA
9983059 AAATA-A-ATTTTT
1 AAATATATATTTTT
9983071 AGTGTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
21 13 0.43
22 16 0.53
23 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (23 bp):
AAATATATATTTTTTAATTTTTA
Found at i:9985015 original size:42 final size:42
Alignment explanation
Indices: 9984969--9985074 Score: 126
Period size: 42 Copynumber: 2.5 Consensus size: 42
9984959 GTTTTCGTTC
* *
9984969 AGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTCTATTT
1 AGCTCTTATGAGCTTCTGTTTAACCCTTACGGGTTTCTATTT
* * *
9985011 AGCTCTTATGAGCTTCCT-TTCAACCCTTACGGGTTTTTGTTT
1 AGCTCTTATGAGCTT-CTGTTTAACCCTTACGGGTTTCTATTT
*
9985053 AG-TACTTATGTGCTTCTGTTTA
1 AGCT-CTTATGAGCTTCTGTTTA
9985075 GCCTTCGGGC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 3 0.06
42 49 0.91
43 2 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTTAACCCTTACGGGTTTCTATTT
Found at i:9991359 original size:18 final size:18
Alignment explanation
Indices: 9991329--9991376 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9991319 TTGAAGAAGG
9991329 AAGGAAGGGAAAAAGAGAA
1 AAGGAAGGGAAAAAGA-AA
9991348 AAGGAA-GGAAAAAGAAA
1 AAGGAAGGGAAAAAGAAA
**
9991365 AAAAAAGGGAAA
1 AAGGAAGGGAAA
9991377 GGAGATGAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 6 0.23
18 14 0.54
19 6 0.23
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAGGAAGGGAAAAAGAAA
Found at i:9998122 original size:24 final size:24
Alignment explanation
Indices: 9998063--9998122 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
9998053 CATCTTACCG
* *
9998063 CCTTATCTCTCATTCTACCACCTT
1 CCTTATCTCTCCTTCTACCACATT
9998087 CCTTATCTCTCCTTCT-CTCACATT
1 CCTTATCTCTCCTTCTAC-CACATT
9998111 CCTTATCTCTCC
1 CCTTATCTCTCC
9998123 AACAATGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
23 1 0.03
24 32 0.97
ACGTcount: A:0.13, C:0.43, G:0.00, T:0.43
Consensus pattern (24 bp):
CCTTATCTCTCCTTCTACCACATT
Found at i:10000987 original size:42 final size:42
Alignment explanation
Indices: 10000925--10001028 Score: 181
Period size: 42 Copynumber: 2.5 Consensus size: 42
10000915 AGTGATTCGG
* *
10000925 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
*
10000967 GGGATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
10001009 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
10001029 ACCAATGATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:10002485 original size:51 final size:51
Alignment explanation
Indices: 10002354--10002540 Score: 202
Period size: 51 Copynumber: 3.7 Consensus size: 51
10002344 AGTGAAAGTG
* *
10002354 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-A-TG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * *
10002403 ATAGGTCGCATGTGTAGTACTATGTACAGGCTACTATGCGTACCGGATAGT-
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
* * * * * *
10002454 TTCGATCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
*
10002506 ATGGTCACATGTGTAGTCAC-ATGTGTAGGCTACTA
1 ATGGTCACATGTGTAGT-ACTATGTGCAGGCTACTA
10002541 TGTGAACTGA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 70 0.61
52 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:10002485 original size:101 final size:102
Alignment explanation
Indices: 10002358--10002542 Score: 268
Period size: 101 Copynumber: 1.8 Consensus size: 102
10002348 AAAGTGATGG
* *
10002358 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
10002421 -ACTATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
65 CAC-ATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
10002459 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTATCGAATGGTAATGGTCACATGTGTAGTC
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTC
**
10002524 ACATGTGTAGGCTACTATG
66 ACATGTACAGGCTACTATG
10002543 TGAACTGAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
100 6 0.08
101 37 0.50
102 29 0.39
103 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTC
ACATGTACAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:10002526 original size:12 final size:12
Alignment explanation
Indices: 10002509--10002533 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10002499 AATGGTAATG
10002509 GTCACATGTGTA
1 GTCACATGTGTA
10002521 GTCACATGTGTA
1 GTCACATGTGTA
10002533 G
1 G
10002534 GCTACTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (12 bp):
GTCACATGTGTA
Found at i:10011900 original size:18 final size:18
Alignment explanation
Indices: 10011866--10011900 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10011856 ATATATGTTA
**
10011866 AAATAATAAAAGTAAAAC
1 AAATAATAAAACAAAAAC
10011884 AAATAATAAAACAAAAA
1 AAATAATAAAACAAAAA
10011901 GACAACCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.03, T:0.14
Consensus pattern (18 bp):
AAATAATAAAACAAAAAC
Found at i:10012310 original size:45 final size:45
Alignment explanation
Indices: 10012261--10012475 Score: 184
Period size: 45 Copynumber: 4.8 Consensus size: 45
10012251 TTCTGGAAAT
* *
10012261 GAGTAAGACCACAGCTGAAAAACGCTATGGCATCATGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** * * **
10012306 GAGTAAGATTGTAGCTTAAAGAAGCTATGGCATCACAATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
*** * **
10012351 GAGTAAGATTGTAGCTTAAAGACGCTATGGCATCACAATTC-AAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
* * ** * *
10012395 GTGTAAGACCATAGTTGAAAGACATTATGGCAACATGA-TCGAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTC-AAAC
* * *
10012440 GAATAAGACCATAGTTGAAAGACAC-ATGGCATCATG
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATG
10012476 TCGGAAATAA
Statistics
Matches: 142, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
43 2 0.01
44 40 0.28
45 100 0.70
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAAAC
Found at i:10012542 original size:45 final size:44
Alignment explanation
Indices: 10012398--10012522 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
10012388 ATTCAACGTG
*
10012398 TAAGACCATAGTTGAAAGACATTATGGCAACATGATCGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAT-ATCGAAATGAA
* * *
10012443 TAAGACCATAGTTGAAAGACAC-ATGGCATCATGTCGGAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACATATC-GAAATGAA
* * * *
10012487 TAAAATCATAGTTGAAAGGCACTATGGCACCATATC
1 TAAGACCATAGTTGAAAGACACTATGGCAACATATC
10012523 AAAAGTGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.03
44 35 0.51
45 32 0.46
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.22
Consensus pattern (44 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACATATCGAAATGAA
Found at i:10012854 original size:13 final size:13
Alignment explanation
Indices: 10012825--10012886 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
10012815 GAAATGGTTA
* *
10012825 TATATAAAAAGAA
1 TATATAAAATGAT
10012838 TATATAAAATGAT
1 TATATAAAATGAT
* *
10012851 TATAT-GAATCAGT
1 TATATAAAATGA-T
*
10012864 TATATGAAAATAAT
1 TATAT-AAAATGAT
10012878 TATATAAAA
1 TATATAAAA
10012887 ATTTTATACG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
12 4 0.10
13 26 0.65
14 6 0.15
15 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (13 bp):
TATATAAAATGAT
Found at i:10012947 original size:13 final size:13
Alignment explanation
Indices: 10012929--10012963 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
10012919 AATGGGACAT
10012929 TTGAAATGAACGC
1 TTGAAATGAACGC
10012942 TTGAAATGAACGC
1 TTGAAATGAACGC
10012955 TTGAAATGA
1 TTGAAATGA
10012964 GAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (13 bp):
TTGAAATGAACGC
Found at i:10013083 original size:73 final size:73
Alignment explanation
Indices: 10012972--10013108 Score: 202
Period size: 73 Copynumber: 1.9 Consensus size: 73
10012962 GAGAAATATT
* * *
10012972 AAATGAAAAGATGTTGAATGAGTGATATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
1 AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
10013037 GAAATGTG
66 GAAATGTG
* * * * *
10013045 AAATGAATAGATGTTGAATAAATGGCATATCTATTGTGTTTCCTTGTATATGTTTTATAACATG
1 AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATG
10013109 AAAAGGTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 56 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (73 bp):
AAATGAAAAGATGTTGAATAAATGACATATCTAATGTGTTTACTTGTATACGTTTTATAACATGT
GAAATGTG
Found at i:10015555 original size:3 final size:3
Alignment explanation
Indices: 10015549--10015595 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10015539 AGAGAGAAGA
10015549 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10015596 GTCATCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10016524 original size:23 final size:23
Alignment explanation
Indices: 10016494--10016573 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
10016484 TGATTAAACA
* *
10016494 TGCAAGTGATAGTGGCACTATGG
1 TGCAAGTGATAATGACACTATGG
* *
10016517 TGCAAGTGA-AATAGACAGTACGG
1 TGCAAGTGATAAT-GACACTATGG
* * *
10016540 TGCAAGTG-TATTGTCACTTTGG
1 TGCAAGTGATAATGACACTATGG
10016562 TGCAAAGTGATA
1 TGC-AAGTGATA
10016574 TTCGCACGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
22 11 0.25
23 31 0.70
24 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.28
Consensus pattern (23 bp):
TGCAAGTGATAATGACACTATGG
Found at i:10019306 original size:22 final size:23
Alignment explanation
Indices: 10019281--10019323 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10019271 ATATAGTATG
10019281 TAAATAT-TAAAAAATGTTAAGA
1 TAAATATATAAAAAATGTTAAGA
* *
10019303 TAAATATATAGAAAATTTTAA
1 TAAATATATAAAAAATGTTAA
10019324 TAAATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TAAATATATAAAAAATGTTAAGA
Found at i:10020218 original size:27 final size:28
Alignment explanation
Indices: 10020180--10020239 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
10020170 AGCTGCCAAT
*
10020180 ACAG-AATATGTGGCAAAGCCACCAGTA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
*
10020207 ACAGTAAT-TGTGGCAGAGCCACCAGAA
1 ACAGTAATATGTGGCAAAGCCACCAGAA
10020234 ACAGTA
1 ACAGTA
10020240 CTTCCTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.90
28 3 0.10
ACGTcount: A:0.40, C:0.22, G:0.23, T:0.15
Consensus pattern (28 bp):
ACAGTAATATGTGGCAAAGCCACCAGAA
Found at i:10020453 original size:26 final size:26
Alignment explanation
Indices: 10020424--10020507 Score: 116
Period size: 26 Copynumber: 3.2 Consensus size: 26
10020414 GCTCTACGGG
10020424 GTATTTTGGTAATTTACCCATCGAGA
1 GTATTTTGGTAATTTACCCATCGAGA
***
10020450 GTATTTCAATAATTTACCCATC-AGA
1 GTATTTTGGTAATTTACCCATCGAGA
*
10020475 GGTATTTTGGTAATTTACCCATCGAGG
1 -GTATTTTGGTAATTTACCCATCGAGA
10020502 GTATTT
1 GTATTT
10020508 CGATAATCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
25 3 0.06
26 44 0.90
27 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (26 bp):
GTATTTTGGTAATTTACCCATCGAGA
Found at i:10027301 original size:17 final size:18
Alignment explanation
Indices: 10027261--10027305 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
10027251 TATTATTATT
*
10027261 TTATTTATTTCCCTCTAC
1 TTATTTATTTCCATCTAC
*
10027279 TTATTTATTTCCATTTA-
1 TTATTTATTTCCATCTAC
10027296 TTATTTATTT
1 TTATTTATTT
10027306 ATTATTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTATTTCCATCTAC
Found at i:10034210 original size:45 final size:45
Alignment explanation
Indices: 10034159--10034464 Score: 477
Period size: 45 Copynumber: 6.8 Consensus size: 45
10034149 ATAGTATATA
*
10034159 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
10034204 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
10034249 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* *
10034294 TTGTCTTCCTGTATTAGCAGCGAAGTAGATCGAAGATAGTAGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * *
10034339 TTGTCTTCATGTATTGGCAGTGAAGTAGATCGAAGATAGCGGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * * **
10034384 TTGTCTTCCTGTATTGGAAGCAAAATAGATCGAAGATAGTGGATC
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
* * * *
10034429 TTGTCTTCCTGTATTGACAGTGAAGTAAATCAAAGA
1 TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
10034465 CACTAGCCTT
Statistics
Matches: 240, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 240 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (45 bp):
TTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAGATC
Found at i:10034641 original size:51 final size:51
Alignment explanation
Indices: 10034560--10034727 Score: 228
Period size: 51 Copynumber: 3.3 Consensus size: 51
10034550 AAGACACCAG
* **
10034560 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * *
10034611 TCTTGTTTCCTTGGCGTTGCAGTGAAACAGATTAAAGCTAAAGATAGCGGA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * *
10034662 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAA
1 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
*
10034713 TCTTGTTTCCTTGGC
1 TCTTGTTTCCCTGGC
10034728 ATTACAGCGG
Statistics
Matches: 100, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 100 1.00
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (51 bp):
TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
Found at i:10034744 original size:51 final size:51
Alignment explanation
Indices: 10034560--10034751 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 51
10034550 AAGACACCAG
* * ** * *
10034560 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
* * *
10034611 TCTTGTTTCCTTGGCGTTGCAGTGAAACAGATTAAAGCT-AAAGATAGCGGA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAG-TAGCGAA
* * *
10034662 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAA
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
* * * * *
10034713 TCTTGTTTCCTTGGCATTACAGCGGAGTAGATTAGAGCT
1 TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCT
10034752 GAAGTAGAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 3 0.03
51 112 0.94
52 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
TCTTGTTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGAA
Found at i:10034745 original size:102 final size:103
Alignment explanation
Indices: 10034560--10034765 Score: 261
Period size: 102 Copynumber: 2.0 Consensus size: 103
10034550 AAGACACCAG
* * *
10034560 TCTTATTTCCCTGGCGTTATAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCTTGG
1 TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
* * * *
10034625 CGTTGCAGTGAAACAGATTAAAGCTAAAG-ATAGCGGA
66 CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
* * * *
10034662 TCTTGTTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTAAAAGTATCGAATCTTGTTTCCTTGG
1 TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
* ** * *
10034727 CATTACAGCGGAGTAGATTAGAGCTGAAGTAGAGCGGA
66 CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
10034765 T
1 T
10034766 TAAAGCTGAG
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
102 79 0.91
103 8 0.09
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (103 bp):
TCTTATTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTGTTTCCTTGG
CATTACAGCGAAACAGATTAAAGCTAAAGTAGAGCGGA
Found at i:10036242 original size:14 final size:14
Alignment explanation
Indices: 10036174--10036246 Score: 62
Period size: 18 Copynumber: 4.9 Consensus size: 14
10036164 AATCCAAGGC
10036174 ATTTATTATTA-TT
1 ATTTATTATTATTT
10036187 A-TTATT-TTATTT
1 ATTTATTATTATTT
10036199 ATTTACCTCTACTTATTT
1 ATTTA--T-TA-TTATTT
10036217 ATTTCCATTTATTATTT
1 ATTT--A-TTATTATTT
10036234 ATTTATTATTATT
1 ATTTATTATTATT
10036247 CTTTCAATCT
Statistics
Matches: 50, Mismatches: 1, Indels: 17
0.74 0.01 0.25
Matches are distributed among these distances:
11 3 0.06
12 8 0.16
13 4 0.08
14 8 0.16
15 2 0.04
16 1 0.02
17 10 0.20
18 12 0.24
19 1 0.02
20 1 0.02
ACGTcount: A:0.26, C:0.08, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTATTATTATTT
Found at i:10037546 original size:32 final size:32
Alignment explanation
Indices: 10037475--10037546 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
10037465 ATAAATTTTG
** * *
10037475 AAAAGTTAGAAATGTGAAGAGACTTGAATATG
1 AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
* *
10037507 AAGAGTTAGTAATGTGAAGAGACAAGAAGATA
1 AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
10037539 AAAAGTTA
1 AAAAGTTA
10037547 CACACATGCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.50, C:0.03, G:0.25, T:0.22
Consensus pattern (32 bp):
AAAAGTTAGAAATGTGAAGAGACAAGAAGATA
Found at i:10037643 original size:38 final size:39
Alignment explanation
Indices: 10037556--10037644 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
10037546 ACACACATGC
* *
10037556 ATGAATAGTCACAACTTCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
* *
10037595 ATGAACAGTCACAACTCCTATAGCATTT-AGTGATGTAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
10037633 ATGAATAGTCAC
1 ATGAATAGTCAC
10037645 TTACAACTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 19 0.42
39 26 0.58
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
Found at i:10042033 original size:32 final size:32
Alignment explanation
Indices: 10041962--10042033 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
10041952 ATAAATTTTG
* * *
10041962 AAAAGTTAGAAATGTGAAGAGACTTGGATATG
1 AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
* *
10041994 AAGAGTTAGTAATGTGAAGAGACTTGAAGATA
1 AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
10042026 AAAAGTTA
1 AAAAGTTA
10042034 CACACATGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (32 bp):
AAAAGTTAGAAATGTGAAGAGACTTGAAGATA
Found at i:10042127 original size:38 final size:39
Alignment explanation
Indices: 10042043--10042131 Score: 153
Period size: 39 Copynumber: 2.3 Consensus size: 39
10042033 ACACACATGC
*
10042043 ATGAATAGTCACAACTCCTATAGCATTTAAGTTATGTAA
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
*
10042082 ATGAATAGTCACAACTCCTATAGCATTTAA-TGATGTAG
1 ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
10042120 ATGAATAGTCAC
1 ATGAATAGTCAC
10042132 TTATAACTCC
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 18 0.38
39 30 0.62
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (39 bp):
ATGAATAGTCACAACTCCTATAGCATTTAAGTGATGTAA
Found at i:10042346 original size:18 final size:20
Alignment explanation
Indices: 10042323--10042360 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10042313 GCTAACCTTG
10042323 ATGTCCCT-C-CATATATTT
1 ATGTCCCTGCGCATATATTT
10042341 ATGTCCCTGCGCATATATTT
1 ATGTCCCTGCGCATATATTT
10042361 GAGTCTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTCCCTGCGCATATATTT
Found at i:10044034 original size:64 final size:64
Alignment explanation
Indices: 10043932--10044052 Score: 181
Period size: 64 Copynumber: 1.9 Consensus size: 64
10043922 AAGAATCCAC
10043932 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCT-ATCACTCCATTAAGACCCT
1 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGA-CACTCCATTAAGACCCT
* ** * *
10043996 CAAAACTTTACATATGTCGAACATGTGGCATTATCGTTAGGACCTGACACTCCATTA
1 CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGACACTCCATTA
10044053 CACCGCCACC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
64 50 0.98
65 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (64 bp):
CAAAACTTTACACATGTCGAACATGTAACATTAACGTTAGCACCTGACACTCCATTAAGACCCT
Found at i:10045298 original size:44 final size:44
Alignment explanation
Indices: 10045250--10045416 Score: 198
Period size: 43 Copynumber: 3.9 Consensus size: 44
10045240 ATAGACCCTG
10045250 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
* * * *
10045294 ATCTTTAGCGGCGCTTT-CCCCCAAAACGCCGCTAAAG-ACCATG
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACC-TA
* ** * * *
10045337 ATCTTTAGTGGCGCTTTTTCCAC-AAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
*
10045380 ATCTTTAGCGGCACTTTGACCA-AAAACGCCACTAAAG
1 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAG
10045417 GCCAACACCT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.03
43 80 0.76
44 22 0.21
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (44 bp):
ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
Found at i:10045408 original size:86 final size:87
Alignment explanation
Indices: 10045242--10045458 Score: 249
Period size: 86 Copynumber: 2.5 Consensus size: 87
10045232 ACGTCGCAAT
* * ** *
10045242 AGACCCTGATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCG
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
* * *
10045307 CTTTCCCCCAAAACGCCGCTAA
66 CTTTCACCAAAAACGCCACTAA
* * *
10045329 AGACCATGATCTTTAGTGGCGCTTTTTCCAC-AAACGCCGCTAAAGACCCTTATCTTTAGCGGCA
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
*
10045393 CTTTGACCAAAAACGCCACTAA
66 CTTTCACCAAAAACGCCACTAA
* ** * * **
10045415 AGGCCAACACCTTTAGTGGCGTTTTTTTTA-AAAACGCCACTAAA
1 AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAA
10045459 TTTGGTAAAT
Statistics
Matches: 109, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
86 82 0.75
87 27 0.25
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (87 bp):
AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAATCTTTAGCGGCA
CTTTCACCAAAAACGCCACTAA
Found at i:10045429 original size:43 final size:42
Alignment explanation
Indices: 10045250--10045458 Score: 175
Period size: 43 Copynumber: 4.9 Consensus size: 42
10045240 ATAGACCCTG
*
10045250 ATCTTTAGCGGCGCTTTGACCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
** * * *
10045294 ATCTTTAGCGGCGCTTTCCCCCAAAACGCCGCTAAAGACCATG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * **
10045337 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
* *
10045380 ATCTTTAGCGGCACTTTGACCAAAAACGCCACTAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* * * ****
10045422 CACCTTTAGTGGCGTTTTTTTTAAAAACGCCACTAAA
1 -ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAA
10045459 TTTGGTAAAT
Statistics
Matches: 132, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
42 5 0.04
43 106 0.80
44 21 0.16
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:10058097 original size:3 final size:3
Alignment explanation
Indices: 10058089--10058126 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10058079 TCAACATCTG
*
10058089 CTT CTT CTT CTT CTT CTT CTT CTT CAT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
10058127 GCTCATTCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:10059428 original size:22 final size:21
Alignment explanation
Indices: 10059394--10059436 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
10059384 AATTTTTAAA
*
10059394 AAAAATTCAAATAGTCAAAAAT
1 AAAAATTCAAATA-CCAAAAAT
10059416 AAAAATT-ATAATACCAAAAAT
1 AAAAATTCA-AATACCAAAAAT
10059437 TATGAAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.65, C:0.09, G:0.02, T:0.23
Consensus pattern (21 bp):
AAAAATTCAAATACCAAAAAT
Found at i:10062304 original size:45 final size:45
Alignment explanation
Indices: 10062254--10062354 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
10062244 TATGGTGCGA
* * * *
10062254 ATAAACCACTAACCGGTGCAGATAAAATCTGTTAGTACGGTGTGG
1 ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
***
10062299 ATAAACCACTATTTGATGCAGATAAAATATATTAATACGGTGTGG
1 ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
10062344 ATAAACCACTA
1 ATAAACCACTA
10062355 TTCAATGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (45 bp):
ATAAACCACTAACCGATGCAGATAAAATATATTAATACGGTGTGG
Found at i:10062355 original size:45 final size:45
Alignment explanation
Indices: 10062270--10062370 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
10062260 CACTAACCGG
* * * **
10062270 TGCAGATAAAATCTGTTAGTACGGTGTGGATAAACCACTATTTGA
1 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
10062315 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
1 TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
*
10062360 TGTAGATAAAA
1 TGCAGATAAAA
10062371 GCTGCTAACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (45 bp):
TGCAGATAAAATATATTAATACGGTGTGGATAAACCACTATTCAA
Found at i:10067892 original size:25 final size:25
Alignment explanation
Indices: 10067838--10067892 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
10067828 CTCAATAATA
*
10067838 TATTTATTAAGTCTTATATTTTTTG
1 TATTTATTAAGTCTAATATTTTTTG
* * *
10067863 GATTTATTTATTCTAAT-TTTTTTAG
1 TATTTATTAAGTCTAATATTTTTT-G
10067888 TATTT
1 TATTT
10067893 TAGGTTAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (25 bp):
TATTTATTAAGTCTAATATTTTTTG
Found at i:10073434 original size:22 final size:23
Alignment explanation
Indices: 10073399--10073443 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10073389 TGGCTAAATG
* **
10073399 TTTTCATTTAGTGATTAAATAGA
1 TTTTCATTAAGTGAAAAAATAGA
10073422 TTTTC-TTAAGTGAAAAAATAGA
1 TTTTCATTAAGTGAAAAAATAGA
10073444 GGTTGGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.42
Consensus pattern (23 bp):
TTTTCATTAAGTGAAAAAATAGA
Found at i:10073951 original size:30 final size:31
Alignment explanation
Indices: 10073892--10073951 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
10073882 AGAACAATCT
* * **
10073892 AGTGATTTAAATGAAAAATTTTGAATAGTTC
1 AGTGACTTAAATGAAAAACTTCAAATAGTTC
10073923 AGTGACTTAAATG-AAAACTTCAAATAGTT
1 AGTGACTTAAATGAAAAACTTCAAATAGTT
10073952 TAGCGACCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATGAAAAACTTCAAATAGTTC
Found at i:10080175 original size:5 final size:5
Alignment explanation
Indices: 10080167--10080196 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
10080157 TTCTTTTTAG
10080167 AATTT AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT AATTT
10080197 TACTTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:10083116 original size:3 final size:3
Alignment explanation
Indices: 10083108--10083144 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10083098 TGTTTACTCA
10083108 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
10083145 CGGGCCGAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10083302 original size:17 final size:17
Alignment explanation
Indices: 10083276--10083316 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
10083266 TTATTGTAAG
10083276 TAACAAAAATAAGAAAA
1 TAACAAAAATAAGAAAA
* *
10083293 TAACAGAAATAATAAAA
1 TAACAAAAATAAGAAAA
*
10083310 TTACAAA
1 TAACAAA
10083317 CAAGCATAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.71, C:0.07, G:0.05, T:0.17
Consensus pattern (17 bp):
TAACAAAAATAAGAAAA
Found at i:10086579 original size:63 final size:63
Alignment explanation
Indices: 10086506--10086628 Score: 228
Period size: 63 Copynumber: 2.0 Consensus size: 63
10086496 CATGCTATTT
*
10086506 TTGAATTTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
1 TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
*
10086569 TTGAAATTTGAATTTATTTGAATATTTTTGTAATTTTAAATACTTTGTTGTTGAGGATTA
1 TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTA
10086629 CCATGCGGTT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.32, C:0.02, G:0.14, T:0.53
Consensus pattern (63 bp):
TTGAAATTTGAATTTATTTGAATATTTTTATAATTTTAAATACTTTGTTGTTGAGGATTAAAA
Found at i:10090875 original size:78 final size:78
Alignment explanation
Indices: 10090745--10090899 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
10090735 ATCACCAAGG
10090745 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
1 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
10090810 ATAGTCAAACACA
66 ATAGTCAAACACA
* *
10090823 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATTGATAAGGCATGTCTATCTTAATCTTCCTCAA
1 ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
10090888 ATAGTCAAACAC
66 ATAGTCAAACAC
10090900 GACCACCATG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (78 bp):
ATAAAGGCTAAAAGAATAAGGATAATCCTTAATCGATAAGGCATGTCGATCTTAATCTTCCTCAA
ATAGTCAAACACA
Found at i:10092771 original size:10 final size:10
Alignment explanation
Indices: 10092756--10092783 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
10092746 CCTTAAACAC
10092756 AAAATCATCA
1 AAAATCATCA
10092766 AAAATCATCA
1 AAAATCATCA
10092776 AAAATCAT
1 AAAATCAT
10092784 TTATTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATCATCA
Found at i:10097519 original size:66 final size:67
Alignment explanation
Indices: 10097398--10097528 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
10097388 CCATTTTCTA
* * *
10097398 ATAATTGACAATTACCAGTCACGCAGAGTATACTCTTAAGAACTTCACACAGAATATGCTCAGAC
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
10097463 GC
66 GC
* * * * * * *
10097465 ATAATTGAAAATTACCGGTCAAGCGGAGTGTATTC-TAAGAACTTCATACTGAATACGTTCAGAC
1 ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
10097529 TTCAGACAGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
66 25 0.46
67 29 0.54
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (67 bp):
ATAATTGAAAATTACCAGTCAAGCAGAGTATACTCTTAAGAACTTCACACAGAATACGCTCAGAC
GC
Found at i:10103179 original size:14 final size:15
Alignment explanation
Indices: 10103160--10103188 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10103150 ACAATATGCC
10103160 AAAATTGCT-GAAAG
1 AAAATTGCTGGAAAG
10103174 AAAATTGCTGGAAAG
1 AAAATTGCTGGAAAG
10103189 CCATCATGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.48, C:0.07, G:0.24, T:0.21
Consensus pattern (15 bp):
AAAATTGCTGGAAAG
Found at i:10105810 original size:17 final size:14
Alignment explanation
Indices: 10105779--10105822 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
10105769 ATAAGAGAGT
*
10105779 GAAAAAAAATGAAA
1 GAAAAAAAATAAAA
10105793 GTTAAAAAAACATAAAA
1 G--AAAAAAA-ATAAAA
10105810 GAAAAAAAATAAA
1 GAAAAAAAATAAA
10105823 TTGCTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 7 0.27
17 6 0.23
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (14 bp):
GAAAAAAAATAAAA
Found at i:10114925 original size:29 final size:29
Alignment explanation
Indices: 10114893--10114956 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
10114883 ATAAAAGAAC
* *
10114893 CATTAGAAGAATCACAAGAAAAACTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
*
10114922 CATTAAAAGAATCAAAAGAAAACCTGATT
1 CATTAAAAGAATCAAAAGAAAAACTGATT
10114951 CATTAA
1 CATTAA
10114957 CCAAAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.22
Consensus pattern (29 bp):
CATTAAAAGAATCAAAAGAAAAACTGATT
Found at i:10117650 original size:14 final size:15
Alignment explanation
Indices: 10117611--10117652 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10117601 TTTTAACATA
*
10117611 ATTATTATTAAATAT
1 ATTATAATTAAATAT
10117626 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
10117640 A-TATAATTTAATA
1 ATTATAATTAAATA
10117653 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:10117761 original size:16 final size:16
Alignment explanation
Indices: 10117717--10117789 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
10117707 TACTATAAAA
*
10117717 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
10117733 TATTATT-AAATATAT
1 TATAATTAAAATATAT
10117748 TATAATTAAAATATAT
1 TATAATTAAAATATAT
*
10117764 AATTTAA-TAAAAT-TAT
1 --TATAATTAAAATATAT
10117780 TAATAATTAA
1 T-ATAATTAA
10117790 TATTCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.11
15 13 0.28
16 18 0.39
17 6 0.13
18 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:10117763 original size:18 final size:18
Alignment explanation
Indices: 10117742--10117789 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
10117732 TTATTATTAA
10117742 ATATATTATAATTAAAAT
1 ATATATTATAATTAAAAT
10117760 ATATAATT-TAA-TAAAAT
1 ATAT-ATTATAATTAAAAT
*
10117777 -TAT-TAATAATTAA
1 ATATATTATAATTAA
10117790 TATTCTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 6 0.23
17 6 0.23
18 7 0.27
19 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTATAATTAAAAT
Found at i:10118025 original size:120 final size:120
Alignment explanation
Indices: 10117602--10118016 Score: 717
Period size: 120 Copynumber: 3.5 Consensus size: 120
10117592 TTAATCATAT
10117602 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
10117667 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
10117722 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
10117787 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAAGATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* *
10117841 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
10117906 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* * * *
10117961 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATACATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
10118017 TAAAATAATT
Statistics
Matches: 280, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
119 113 0.40
120 165 0.59
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:10118151 original size:90 final size:91
Alignment explanation
Indices: 10118032--10118323 Score: 532
Period size: 91 Copynumber: 3.2 Consensus size: 91
10118022 TAATTATAAC
* *
10118032 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10118097 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
10118123 TAATAAA-TTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
10118187 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
10118213 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
10118278 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
10118304 TAATAAATGTTCTTATATGA
1 TAATAAATTTTCTTATATGA
10118324 TAAATGCTTG
Statistics
Matches: 195, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
90 87 0.45
91 108 0.55
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:10118318 original size:16 final size:17
Alignment explanation
Indices: 10118297--10118329 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10118287 TTTCATAAAA
10118297 TTCTTA-ATAATAAATG
1 TTCTTATATAATAAATG
*
10118313 TTCTTATATGATAAATG
1 TTCTTATATAATAAATG
10118330 CTTGAGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (17 bp):
TTCTTATATAATAAATG
Found at i:10118324 original size:44 final size:44
Alignment explanation
Indices: 10118098--10118325 Score: 177
Period size: 47 Copynumber: 5.1 Consensus size: 44
10118088 TTTAATAATA
*
10118098 ATATATAATTTCATAAAATTCTTGATAATAAAT-TTCTTATATG
1 ATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
** *
10118141 AATTTATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTAATAATG
1 -A--TATATAATTTCATAAAATTCTTAATAATAAATAT--TCTT-AT-ATG
* *
10118188 ATATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATG
1 ATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
** *
10118232 AATTTATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTAATAATG
1 -A--TATATAATTTCATAAAATTCTTAATAATAAATAT--TCTT-AT-ATG
*
10118279 ATATATAATTTCATAAAATTCTTAATAATAAATGTTCTTATATG
1 ATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
10118323 ATA
1 ATA
10118326 AATGCTTGAG
Statistics
Matches: 144, Mismatches: 18, Indels: 44
0.70 0.09 0.21
Matches are distributed among these distances:
43 16 0.11
44 42 0.29
45 17 0.12
46 21 0.15
47 48 0.33
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (44 bp):
ATATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATG
Found at i:10118653 original size:16 final size:16
Alignment explanation
Indices: 10118632--10118662 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10118622 TACCAAATAT
10118632 TTGTTTTTTAATCAAG
1 TTGTTTTTTAATCAAG
10118648 TTGTTTTTTAATCAA
1 TTGTTTTTTAATCAA
10118663 TCATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TTGTTTTTTAATCAAG
Found at i:10118748 original size:64 final size:64
Alignment explanation
Indices: 10118675--10118795 Score: 233
Period size: 64 Copynumber: 1.9 Consensus size: 64
10118665 ATAATAAAAA
*
10118675 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCCAATTTTAATATAT
1 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTTAATATAT
10118739 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTT
1 TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTT
10118796 TATTTTATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 56 1.00
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (64 bp):
TGAATATTTGTTTTTTAATCAAGTTGTTTACTTGATTATATCTAATGATCAAATTTTAATATAT
Found at i:10118915 original size:24 final size:26
Alignment explanation
Indices: 10118863--10118912 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
10118853 TATATGTAAT
10118863 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
10118890 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
10118913 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:10121072 original size:41 final size:41
Alignment explanation
Indices: 10120872--10121074 Score: 212
Period size: 41 Copynumber: 5.0 Consensus size: 41
10120862 TGCAAATAAG
* * * * * * *
10120872 ATGTTTCAGACTTTACGTCTAGGAGGCTTGATGCTGATGAA
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
10120913 ATGTTTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG-A
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* *
10120953 AT-TACTTCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAA
1 ATGTA--TCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
10120995 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTGAA
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
* * *
10121036 ATGTATCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTG
10121075 TTTTATACAA
Statistics
Matches: 146, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 3 0.02
41 137 0.94
42 3 0.02
43 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (41 bp):
ATGTATCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAA
Found at i:10135662 original size:25 final size:25
Alignment explanation
Indices: 10135634--10135856 Score: 142
Period size: 25 Copynumber: 9.1 Consensus size: 25
10135624 GACTCATCAC
* *
10135634 GTATCATCTAGAAGGCCTTTGTGGT
1 GTATCATCTGGAAAGCCTTTGTGGT
*
10135659 GTATCATCTGG-AAGACCTTTATGGCT
1 GTATCATCTGGAAAG-CCTTTGTGG-T
* * *
10135685 -AAT-ATGTGGAAAGCCTTTGTGGC
1 GTATCATCTGGAAAGCCTTTGTGGT
10135708 GTATCATCTGGAAAGCCTTTGTGG-
1 GTATCATCTGGAAAGCCTTTGTGGT
* ** * * * *
10135732 CTATTTTGTGGAAAGCTTTTGTAGC
1 GTATCATCTGGAAAGCCTTTGTGGT
* *
10135757 GTATCATCT-AAAAGGCATTTGTGG-
1 GTATCATCTGGAAA-GCCTTTGTGGT
*
10135781 CTA--ATCTGCAGAAAGCCTTTGTGGT
1 GTATCATCTG--GAAAGCCTTTGTGGT
*
10135806 GTATCAACTGGAAAGCCTTTGTGGCT
1 GTATCATCTGGAAAGCCTTTGTGG-T
* * *
10135832 -AAT-TTGTGGAAAGCCTTTGTGGT
1 GTATCATCTGGAAAGCCTTTGTGGT
10135855 GT
1 GT
10135857 GTTATTTGGA
Statistics
Matches: 151, Mismatches: 32, Indels: 31
0.71 0.15 0.14
Matches are distributed among these distances:
22 4 0.03
23 1 0.01
24 65 0.43
25 75 0.50
26 2 0.01
27 4 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (25 bp):
GTATCATCTGGAAAGCCTTTGTGGT
Found at i:10135701 original size:24 final size:24
Alignment explanation
Indices: 10135674--10135853 Score: 125
Period size: 24 Copynumber: 7.4 Consensus size: 24
10135664 ATCTGGAAGA
*
10135674 CCTTTATGGCTAATATGTGGAAAG
1 CCTTTGTGGCTAATATGTGGAAAG
*
10135698 CCTTTGTGGCGT-ATCATCTGGAAAG
1 CCTTTGTGGC-TAAT-ATGTGGAAAG
* *
10135723 CCTTTGTGGCTATTTTGTGGAAAG
1 CCTTTGTGGCTAATATGTGGAAAG
* * * *
10135747 CTTTTGTAGCGT-ATCATCT-AAAAGG
1 CCTTTGTGGC-TAAT-ATGTGGAAA-G
* * **
10135772 CATTTGTGGCTAATCTGCAGAAAG
1 CCTTTGTGGCTAATATGTGGAAAG
* **
10135796 CCTTTGTGG-TGTATCAACTGGAAAG
1 CCTTTGTGGCT-AAT-ATGTGGAAAG
*
10135821 CCTTTGTGGCTAATTTGTGGAAAG
1 CCTTTGTGGCTAATATGTGGAAAG
10135845 CCTTTGTGG
1 CCTTTGTGG
10135854 TGTGTTATTT
Statistics
Matches: 117, Mismatches: 28, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
23 1 0.01
24 61 0.52
25 54 0.46
26 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.35
Consensus pattern (24 bp):
CCTTTGTGGCTAATATGTGGAAAG
Found at i:10135869 original size:49 final size:49
Alignment explanation
Indices: 10135648--10135856 Score: 269
Period size: 49 Copynumber: 4.3 Consensus size: 49
10135638 CATCTAGAAG
* *
10135648 GCCTTTGTGGTGTATCATCTGG-AAGACCTTTATGGCTAATATGTGGAAA
1 GCCTTTGTGGTGTATCATCTGGAAAG-CCTTTGTGGCTAATTTGTGGAAA
* *
10135697 GCCTTTGTGGCGTATCATCTGGAAAGCCTTTGTGGCTATTTTGTGGAAA
1 GCCTTTGTGGTGTATCATCTGGAAAGCCTTTGTGGCTAATTTGTGGAAA
* * * * * * **
10135746 GCTTTTGTAGCGTATCATCT-AAAAGGCATTTGTGGCTAATCTGCAGAAA
1 GCCTTTGTGGTGTATCATCTGGAAA-GCCTTTGTGGCTAATTTGTGGAAA
*
10135795 GCCTTTGTGGTGTATCAACTGGAAAGCCTTTGTGGCTAATTTGTGGAAA
1 GCCTTTGTGGTGTATCATCTGGAAAGCCTTTGTGGCTAATTTGTGGAAA
10135844 GCCTTTGTGGTGT
1 GCCTTTGTGGTGT
10135857 GTTATTTGGA
Statistics
Matches: 136, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.02
49 127 0.93
50 6 0.04
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (49 bp):
GCCTTTGTGGTGTATCATCTGGAAAGCCTTTGTGGCTAATTTGTGGAAA
Found at i:10137174 original size:15 final size:15
Alignment explanation
Indices: 10137138--10137175 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
10137128 GAAAAATTAC
10137138 TTAAAAAGGACCAAA
1 TTAAAAAGGACCAAA
10137153 TTGAAAAAGGACCAAA
1 TT-AAAAAGGACCAAA
10137169 TTAAAAA
1 TTAAAAA
10137176 AAAGTGCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (15 bp):
TTAAAAAGGACCAAA
Found at i:10137239 original size:13 final size:13
Alignment explanation
Indices: 10137217--10137250 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
10137207 ATCGAACTCG
10137217 TAAATA-TTTTTA
1 TAAATATTTTTTA
10137229 TAAATATTTTTTA
1 TAAATATTTTTTA
10137242 TAAATATTT
1 TAAATATTT
10137251 ACGAAGCTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTTTTA
Found at i:10137485 original size:32 final size:35
Alignment explanation
Indices: 10137439--10137505 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 35
10137429 TATGTATATT
*
10137439 ATATGTAAATTTAATTTAT-A-TAT-TATATTATA
1 ATATGTAAATTTAATTGATAAGTATATATATTATA
10137471 ATATG-AAATCTTAATTGATAAGTATATATATTATA
1 ATATGTAAAT-TTAATTGATAAGTATATATATTATA
10137506 TAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 4 0.13
32 13 0.43
33 1 0.03
34 3 0.10
35 9 0.30
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (35 bp):
ATATGTAAATTTAATTGATAAGTATATATATTATA
Found at i:10141200 original size:22 final size:22
Alignment explanation
Indices: 10141172--10141290 Score: 116
Period size: 22 Copynumber: 5.4 Consensus size: 22
10141162 TACACCACAC
*
10141172 CAGTAGGCACCATAGTGTAAAT
1 CAGTAGGCACCATAGTGCAAAT
* *
10141194 CAGTAGGCACCAAAGTGC-AGT
1 CAGTAGGCACCATAGTGCAAAT
*
10141215 ACAGTAGGCACCATAGTACAAAT
1 -CAGTAGGCACCATAGTGCAAAT
* * *
10141238 CAGAAGGCACTATAGTACAGAA-
1 CAGTAGGCACCATAGTGCA-AAT
* * *
10141260 CAATAGACACCGTAGTGCAAAT
1 CAGTAGGCACCATAGTGCAAAT
10141282 CAGTAGGCA
1 CAGTAGGCA
10141291 TCGAATTGCA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 4 0.05
22 69 0.90
23 4 0.05
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (22 bp):
CAGTAGGCACCATAGTGCAAAT
Found at i:10141238 original size:44 final size:44
Alignment explanation
Indices: 10141172--10141290 Score: 148
Period size: 44 Copynumber: 2.7 Consensus size: 44
10141162 TACACCACAC
* * *
10141172 CAGTAGGCACCATAGTGTAAATCAGTAGGCACCAAAGTGCAGTA
1 CAGTAGGCACCATAGTGCAAATCAGTAGGCACCAAAGTACAGAA
* * * *
10141216 CAGTAGGCACCATAGTACAAATCAGAAGGCACTATAGTACAGAA
1 CAGTAGGCACCATAGTGCAAATCAGTAGGCACCAAAGTACAGAA
* * *
10141260 CAATAGACACCGTAGTGCAAATCAGTAGGCA
1 CAGTAGGCACCATAGTGCAAATCAGTAGGCA
10141291 TCGAATTGCA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (44 bp):
CAGTAGGCACCATAGTGCAAATCAGTAGGCACCAAAGTACAGAA
Found at i:10144916 original size:33 final size:34
Alignment explanation
Indices: 10144874--10144943 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
10144864 TTCCACAAAC
10144874 AACTTTTAAAAATTGCAC-GTCTCTTTTTTTTAA
1 AACTTTTAAAAATTGCACGGTCTCTTTTTTTTAA
10144907 AACTTTTAAAAATTGCACGTGTCTCTTTTTTTTAA
1 AACTTTTAAAAATTGCACG-GTCTCTTTTTTTTAA
10144942 AA
1 AA
10144944 TATTTTACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 18 0.51
35 17 0.49
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (34 bp):
AACTTTTAAAAATTGCACGGTCTCTTTTTTTTAA
Found at i:10145108 original size:14 final size:13
Alignment explanation
Indices: 10145085--10145114 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
10145075 AACAATTACA
10145085 ATTTAGAAAATTT
1 ATTTAGAAAATTT
10145098 ATTTAAGAAAATTT
1 ATTT-AGAAAATTT
10145112 ATT
1 ATT
10145115 CAATATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (13 bp):
ATTTAGAAAATTT
Found at i:10146762 original size:19 final size:18
Alignment explanation
Indices: 10146740--10146784 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10146730 CTATTTCCTA
*
10146740 AAATAAATATTATTTAATC
1 AAATAAATATT-CTTAATC
* *
10146759 AAATTAATATTCTTAATT
1 AAATAAATATTCTTAATC
10146777 AAATAAAT
1 AAATAAAT
10146785 TTTTCAACTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATAAATATTCTTAATC
Found at i:10150942 original size:9 final size:9
Alignment explanation
Indices: 10150899--10150945 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 9
10150889 TAATATTTTA
10150899 TTTTTT-AT
1 TTTTTTAAT
10150907 TTTTTT-AT
1 TTTTTTAAT
10150915 TTTTTTAAT
1 TTTTTTAAT
* *
10150924 TTCATATAAT
1 TT-TTTTAAT
10150934 TTTTTTAAT
1 TTTTTTAAT
10150943 TTT
1 TTT
10150946 CTATTATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 14 0.42
9 12 0.36
10 7 0.21
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTAAT
Found at i:10150954 original size:19 final size:19
Alignment explanation
Indices: 10150899--10150956 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
10150889 TAATATTTTA
10150899 TTTTTT-ATTTT-T-TTAT
1 TTTTTTAATTTTCTATTAT
*
10150915 TTTTTTAA-TTTCATATAAT
1 TTTTTTAATTTTC-TATTAT
10150934 TTTTTTAATTTTCTATTAT
1 TTTTTTAATTTTCTATTAT
10150953 TTTT
1 TTTT
10150957 GAATAATTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 9 0.26
17 1 0.03
18 1 0.03
19 20 0.57
20 4 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTAATTTTCTATTAT
Found at i:10150994 original size:19 final size:19
Alignment explanation
Indices: 10150914--10150994 Score: 67
Period size: 20 Copynumber: 4.2 Consensus size: 19
10150904 TATTTTTTTA
* *
10150914 TTTTTTTAATTTCATATAA
1 TTTTTTTAATTTTATATAT
*
10150933 TTTTTTTAATTTTCTATTAT
1 TTTTTTTAATTTTATA-TAT
**
10150953 TTTTGAATAATTTGTA-ATAT
1 TTTT-TTTAATTT-TATATAT
10150973 TTTTTTGTAATTTTATAT-T
1 TTTTTT-TAATTTTATATAT
10150992 TTT
1 TTT
10150995 CCATATTTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
19 20 0.41
20 21 0.43
21 7 0.14
22 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (19 bp):
TTTTTTTAATTTTATATAT
Found at i:10151010 original size:26 final size:27
Alignment explanation
Indices: 10150981--10151040 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
10150971 ATTTTTTTGT
* *
10150981 AATTTTATATTTTTCCATA-TTTTATA
1 AATTTTACACTTTTCCATATTTTTATA
* *
10151007 AATTTTGCACTTTTCTATATTTTTATA
1 AATTTTACACTTTTCCATATTTTTATA
10151034 ACATTTT
1 A-ATTTT
10151041 TAATAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.54
27 8 0.29
28 5 0.18
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.60
Consensus pattern (27 bp):
AATTTTACACTTTTCCATATTTTTATA
Found at i:10151067 original size:17 final size:17
Alignment explanation
Indices: 10151036--10151102 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
10151026 TTTTTATAAC
* *
10151036 ATTTTTAATAATTTTCT
1 ATTTTTAATATTTTTCA
*
10151053 ATTTTTCATATTTTTACA
1 ATTTTTAATATTTTT-CA
**
10151071 ATTTTTTTTATTTTTCGTA
1 ATTTTTAATATTTTTC--A
*
10151090 ATTTATAATATTT
1 ATTTTTAATATTT
10151103 GTAATATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 14 0.36
18 14 0.36
19 11 0.28
ACGTcount: A:0.27, C:0.06, G:0.01, T:0.66
Consensus pattern (17 bp):
ATTTTTAATATTTTTCA
Found at i:10153507 original size:11 final size:11
Alignment explanation
Indices: 10153491--10153516 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10153481 TTTATAAATA
10153491 AAAAATTCTTT
1 AAAAATTCTTT
10153502 AAAAATTCTTT
1 AAAAATTCTTT
10153513 AAAA
1 AAAA
10153517 TATTAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATTCTTT
Found at i:10153534 original size:9 final size:9
Alignment explanation
Indices: 10153464--10153546 Score: 59
Period size: 9 Copynumber: 9.2 Consensus size: 9
10153454 ACAAAAATTA
10153464 TTATAAAA-
1 TTATAAAAT
10153472 TTATAAAAT
1 TTATAAAAT
10153481 TT-TATAAA-
1 TTATA-AAAT
*
10153489 -TAAAAAAT
1 TTATAAAAT
*
10153497 TCTTTAAAAAT
1 T-TAT-AAAAT
*
10153508 TCTTTAAAAT
1 T-TATAAAAT
10153518 ATTA-AAAAT
1 -TTATAAAAT
10153527 TTATAAAAT
1 TTATAAAAT
10153536 TTATAAAAT
1 TTATAAAAT
10153545 TT
1 TT
10153547 TTTTGTTATT
Statistics
Matches: 62, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.06
8 14 0.23
9 26 0.42
10 7 0.11
11 11 0.18
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TTATAAAAT
Done.