Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 179 of 343
Found at i:59308814 original size:28 final size:28
Alignment explanation
Indices: 59308774--59308857 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
59308764 CACGGACGAT
*
59308774 GACACGGGCATGTCTAGGCTGTGTGAGG
1 GACACGGGCATGTCTAGGCTGTGTGAAG
*
59308802 GACACGGGCATGTCTAGGCCGTGTGAAG
1 GACACGGGCATGTCTAGGCTGTGTGAAG
* * *
59308830 GACACGGGCTTGTGCTCGACTGTGTGAA
1 GACACGGGCATGT-CTAGGCTGTGTGAA
59308858 ATCCCCTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 38 0.78
29 11 0.22
ACGTcount: A:0.19, C:0.20, G:0.39, T:0.21
Consensus pattern (28 bp):
GACACGGGCATGTCTAGGCTGTGTGAAG
Found at i:59312733 original size:50 final size:49
Alignment explanation
Indices: 59312614--59312743 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 49
59312604 GGTAAAGTGT
* *
59312614 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCATCTTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCAAGGC
* *
59312663 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CAT-AACTGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCAA--G-GC
*
59312713 CGATGCCATGTCCCAGACATGGACTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
59312744 GACACATCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
47 2 0.03
48 2 0.03
49 37 0.51
50 31 0.43
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCAAGGC
Found at i:59312876 original size:48 final size:46
Alignment explanation
Indices: 59312820--59312938 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 46
59312810 CATATCTCAA
59312820 ACATGTCTTACACTAGAACTCGCACCAATAT-C-GATGCAATGTCCCAG
1 ACATGTCTTACACTAG-ACTCGCA-CAATATGCTGATGC-ATGTCCCAG
* * *
59312867 ACATGGTCTTACACT-GACTCTCATAATGTGGCTGATGCATGTCCCAG
1 ACAT-GTCTTACACTAGACTCGCACAATAT-GCTGATGCATGTCCCAG
*
59312914 ACATGTCTTACACTAG-CTCACACAA
1 ACATGTCTTACACTAGACTCGCACAA
59312939 ATGACCCAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
45 4 0.06
46 23 0.37
47 20 0.32
48 15 0.24
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (46 bp):
ACATGTCTTACACTAGACTCGCACAATATGCTGATGCATGTCCCAG
Found at i:59320485 original size:46 final size:47
Alignment explanation
Indices: 59320390--59320556 Score: 157
Period size: 46 Copynumber: 3.6 Consensus size: 47
59320380 GTGTCAATGC
***
59320390 CATGTCCCAGACATGGTCTTACACT-G--ACACATCTTGTAGGC-GATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTACACATC-CCAAGGCAGATG
*
59320435 CATGTCCCAGACATGTCTTATACTGGCTA-ACATCCCAAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTACACATCCCAAGGCAGATG
* ** * * * *
59320481 CATGTCCCAAACATGTCTTACACTAAC-ACTCGTCTCAATGCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTACACATCCCAAGGCAGATG
59320527 CCATGTCCCAGACATGGTCTTACACTGGCT
1 -CATGTCCCAGACAT-GTCTTACACTGGCT
59320557 CTCATAATGT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
44 9 0.09
45 20 0.20
46 45 0.45
47 14 0.14
48 11 0.11
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTACACATCCCAAGGCAGATG
Found at i:59320575 original size:94 final size:91
Alignment explanation
Indices: 59320334--59320599 Score: 241
Period size: 94 Copynumber: 2.8 Consensus size: 91
59320324 GGTAAAGTGC
* * * *
59320334 CGATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAACCGT-GTCAATGCCATGTCCC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCT--CATAA-CGTGGCCGATG-CATGTCCC
* **
59320398 AGACATGGTCTTACACTGACACATCTTGTAGG
61 AGACAT-GTCTTACACTAACACATCTTCAAGG
* ** ** ** * *
59320430 CGATGCATGTCCCAGACAT-GTCTTATACTGGCTAACATCCCAAGGCAGATGCATGTCCCAAACA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGACA
*
59320494 TGTCTTACACTAACAC-TCGTCTCAATG
66 TGTCTTACACTAACACATC-T-TCAAGG
*
59320521 CAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
1 C-GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGA
* *
59320586 CATATCTTTCACTA
64 CATGTCTTACACTA
59320600 GCTCACACAA
Statistics
Matches: 135, Mismatches: 29, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
89 2 0.01
90 15 0.11
91 18 0.13
92 11 0.08
93 14 0.10
94 57 0.42
95 13 0.10
96 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAACACATCTTCAAGG
Found at i:59322870 original size:20 final size:21
Alignment explanation
Indices: 59322841--59322880 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
59322831 ATAGAACAAG
59322841 AAAAACTAAAAAAATAAAAAT
1 AAAAACTAAAAAAATAAAAAT
*
59322862 AAAAA-TAAAAACATAAAAA
1 AAAAACTAAAAAAATAAAAA
59322881 AACAACAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (21 bp):
AAAAACTAAAAAAATAAAAAT
Found at i:59329332 original size:17 final size:17
Alignment explanation
Indices: 59329292--59329333 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
59329282 CTAACTTTCA
* *
59329292 TTGTTGATAATAAATAT
1 TTGTTGGTAACAAATAT
59329309 TTGTTGGTAACAAATAT
1 TTGTTGGTAACAAATAT
59329326 TTGTTGGT
1 TTGTTGGT
59329334 TTTCATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (17 bp):
TTGTTGGTAACAAATAT
Found at i:59330499 original size:9 final size:9
Alignment explanation
Indices: 59330485--59330512 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
59330475 ATATTTCACA
59330485 TGTTGTTAG
1 TGTTGTTAG
59330494 TGTTGTTAG
1 TGTTGTTAG
59330503 TGTTGTTAG
1 TGTTGTTAG
59330512 T
1 T
59330513 AGATACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.32, T:0.57
Consensus pattern (9 bp):
TGTTGTTAG
Found at i:59334262 original size:52 final size:53
Alignment explanation
Indices: 59334200--59334343 Score: 159
Period size: 52 Copynumber: 2.7 Consensus size: 53
59334190 TTATTGTAAA
* * *
59334200 TATGTAAACTAATTATAGTAAATGTATATTAAGTAATTATGATTAA-TTATAT
1 TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* * * * *
59334252 TATGTGAACTAATTATGGTTAATATATATTAATTGATTATGGTGAATTTATAT
1 TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* *
59334305 TA-GATAAACAAATTATGGTAAA-ACTATATCAAGTAATTA
1 TATG-TAAACTAATTATGGTAAATA-TATATTAAGTAATTA
59334344 ACTATTTACT
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
52 40 0.53
53 35 0.47
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (53 bp):
TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
Found at i:59335935 original size:37 final size:37
Alignment explanation
Indices: 59335885--59335963 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
59335875 TTATTACGAA
* *
59335885 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
59335922 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
59335959 GTCTT
1 GTCTT
59335964 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:59336160 original size:47 final size:47
Alignment explanation
Indices: 59336082--59336572 Score: 793
Period size: 47 Copynumber: 10.4 Consensus size: 47
59336072 CCCTTCGGGA
* * * * * * *
59336082 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59336129 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59336176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59336223 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59336270 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
59336317 CTTATCACACATATAAACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59336364 CTTATCACACATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59336411 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59336460 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59336507 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59336554 CTTATCACATATATACACT
1 CTTATCACATATATACACT
59336573 GTCTTGGCTG
Statistics
Matches: 420, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 375 0.89
49 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59338024 original size:28 final size:29
Alignment explanation
Indices: 59337950--59338027 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
59337940 CTTAATAATC
* *
59337950 AACCACGCACACTTAGTGCCATGTACTTTA
1 AACC-CGCACACTTAGTGCCATGCACTTCA
*
59337980 AACTCGCACACTTAGTGCCATGCA-TTCA
1 AACCCGCACACTTAGTGCCATGCACTTCA
*
59338008 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
59338028 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 21 0.49
29 19 0.44
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.23
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCACTTCA
Found at i:59338072 original size:41 final size:40
Alignment explanation
Indices: 59338009--59338107 Score: 144
Period size: 41 Copynumber: 2.4 Consensus size: 40
59337999 ATGCATTCAA
*
59338009 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCC-CACAC-TAGTGCCAATCTCACAAACG-GAACACTTATT
59338052 GCCCCACACTAGTGCCAATCTCACAAACGGAACACTTATT
1 GCCCCACACTAGTGCCAATCTCACAAACGGAACACTTATT
*
59338092 GCCGCAACACTAGTGC
1 GCC-CCACACTAGTGC
59338108 TGAAAAACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
40 14 0.26
41 30 0.57
42 5 0.09
43 4 0.08
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.20
Consensus pattern (40 bp):
GCCCCACACTAGTGCCAATCTCACAAACGGAACACTTATT
Found at i:59340001 original size:37 final size:37
Alignment explanation
Indices: 59339951--59340029 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
59339941 TTATTACGAA
* *
59339951 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
59339988 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
59340025 GTCTT
1 GTCTT
59340030 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:59340249 original size:47 final size:47
Alignment explanation
Indices: 59340148--59340633 Score: 811
Period size: 47 Copynumber: 10.4 Consensus size: 47
59340138 CCCTTCGGGA
* * * * * *
59340148 CTTATCACATTTATGCACTTTCACA-TCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59340194 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340241 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59340288 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59340335 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340382 CTTATCACACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59340430 CTTATCATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340477 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340523 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340569 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59340615 CTTATCACATATATACACT
1 CTTATCACATATATACACT
59340634 GTCTTGGCTG
Statistics
Matches: 420, Mismatches: 16, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
46 171 0.41
47 204 0.49
48 12 0.03
49 33 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59350195 original size:46 final size:45
Alignment explanation
Indices: 59350052--59350195 Score: 129
Period size: 46 Copynumber: 3.1 Consensus size: 45
59350042 ACCCGCCATA
*
59350052 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
59350101 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
59350144 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
59350191 AGTGA
1 AGTGA
59350196 CATGTCACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 34 0.43
47 29 0.36
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:59356696 original size:21 final size:22
Alignment explanation
Indices: 59356650--59356696 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
59356640 TAATGATAAA
*
59356650 GAAAATGAACTAAAAAGTAGCT
1 GAAATTGAACTAAAAAGTAGCT
* *
59356672 -AAATTGAACTCAAACG-AGCT
1 GAAATTGAACTAAAAAGTAGCT
59356692 GAAAT
1 GAAAT
59356697 AAGCTCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (22 bp):
GAAATTGAACTAAAAAGTAGCT
Found at i:59361477 original size:28 final size:28
Alignment explanation
Indices: 59361429--59361492 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
59361419 CCTGACACAA
* *
59361429 GCCCGTGTCCTTTACATGGCTAGGACAT
1 GCCCGTGTCCTTTACACGGCTAGGACAC
*
59361457 GCCTGTGTCCTTTACACGGCTAGGACAC
1 GCCCGTGTCCTTTACACGGCTAGGACAC
59361485 GCCCGTGT
1 GCCCGTGT
59361493 GCTAGCCTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.27
Consensus pattern (28 bp):
GCCCGTGTCCTTTACACGGCTAGGACAC
Found at i:59363257 original size:54 final size:54
Alignment explanation
Indices: 59363073--59363269 Score: 213
Period size: 55 Copynumber: 3.6 Consensus size: 54
59363063 AACTTACCAT
* * * *
59363073 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTAT-GAACTCA-CTAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATC-AA
* ** *
59363126 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
** * * *
59363181 TGCCATGTTTTGAAATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
59363235 TGCCATGCCTT-AGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGA-CATGGTCTTACATGATATCCTT
59363270 ATCTTACCAA
Statistics
Matches: 119, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 39 0.33
55 41 0.34
56 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:59363303 original size:47 final size:47
Alignment explanation
Indices: 59363248--59363369 Score: 226
Period size: 47 Copynumber: 2.6 Consensus size: 47
59363238 CATGCCTTAG
* *
59363248 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
59363295 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
59363342 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
59363370 GTACCAATGC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:59371696 original size:40 final size:40
Alignment explanation
Indices: 59371602--59371825 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
59371592 TATTCGAATG
*
59371602 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
59371643 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
59371683 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
59371722 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
59371762 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
59371802 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59371826 CTTGTGCAAG
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 35 0.23
40 90 0.58
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:59371781 original size:79 final size:80
Alignment explanation
Indices: 59371602--59371861 Score: 303
Period size: 79 Copynumber: 3.3 Consensus size: 80
59371592 TATTCGAATG
* * * *
59371602 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
59371667 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
59371683 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
59371747 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
59371762 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
59371827 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
59371841 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59371862 ATTACTTGAG
Statistics
Matches: 153, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 15 0.10
79 79 0.52
80 27 0.18
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:59371814 original size:119 final size:120
Alignment explanation
Indices: 59371602--59371861 Score: 332
Period size: 119 Copynumber: 2.2 Consensus size: 120
59371592 TATTCGAATG
* * *
59371602 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
59371667 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAGCAGTT
* * *
59371722 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
59371785 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGCAGTT
59371841 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
59371862 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
118 26 0.21
119 65 0.53
120 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGCAGTT
Found at i:59379836 original size:40 final size:39
Alignment explanation
Indices: 59379792--59380002 Score: 169
Period size: 40 Copynumber: 5.3 Consensus size: 39
59379782 TATAACCAGA
* * *
59379792 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGG
1 CTAAGATCCGAAGGCATTTGTGCTAG-AGCTATATCCGGG
* ** *
59379832 CTAAGACCCGAAGGCATTTGTGCTAGCAATTATATCTGGG
1 CTAAGATCCGAAGGCATTTGTGCTAG-AGCTATATCCGGG
* * *
59379872 CTAAAACCCGAAGGCATTTGTGCTAGCGACTATATCCGGG
1 CTAAGATCCGAAGGCATTTGTGCTAGAG-CTATATCCGGG
* * * *
59379912 CTAAG-TCCCGAAGGCATTTATGCTAGTGACCACATCCGGG
1 CTAAGAT-CCGAAGGCATTTGTGCTAGAG-CTATATCCGGG
* * * *
59379952 CTAAGAACCGAAGGC-CTTGTGCAAGTAGTTATATCC-GG
1 CTAAGATCCGAAGGCATTTGTGCTAG-AGCTATATCCGGG
59379990 CTAA-ATCCCGAAG
1 CTAAGAT-CCGAAG
59380003 ATTACTTGAA
Statistics
Matches: 138, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
37 1 0.01
38 12 0.09
39 12 0.09
40 113 0.82
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (39 bp):
CTAAGATCCGAAGGCATTTGTGCTAGAGCTATATCCGGG
Found at i:59379953 original size:80 final size:80
Alignment explanation
Indices: 59379792--59380002 Score: 216
Period size: 80 Copynumber: 2.7 Consensus size: 80
59379782 TATAACCAGA
* * *
59379792 CTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA
1 CTAAGAACCGAAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCTA
** * *
59379857 GCAATTATATCTGGG
66 GCAACCACATCCGGG
* * *
59379872 CTAA-AACCCGAAGGCATTTGTGCTAG-CGACTATATCCGGGCTAAGTCCCGAAGGCATTTATGC
1 CTAAGAA-CCGAAGGCATTCGTGCGAGTCG-CTATATCCGGGCTAAGACCCGAAGGCATTTATGC
**
59379935 TAGTGACCACATCCGGG
64 TAGCAACCACATCCGGG
* * * *
59379952 CTAAGAACCGAAGGCCTT-GTGCAAGTAGTTATATCC-GGCTAA-ATCCCGAAG
1 CTAAGAACCGAAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGA-CCCGAAG
59380003 ATTACTTGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
78 13 0.12
79 15 0.14
80 79 0.72
81 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
CTAAGAACCGAAGGCATTCGTGCGAGTCGCTATATCCGGGCTAAGACCCGAAGGCATTTATGCTA
GCAACCACATCCGGG
Found at i:59394247 original size:22 final size:22
Alignment explanation
Indices: 59394194--59394255 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
59394184 CACCTAACAT
* *
59394194 AGGG-GCACACGTCCGTATGGG
1 AGGGAGCACACGCCCGTGTGGG
59394215 AGGGAGCACACGCCCGTGTGGG
1 AGGGAGCACACGCCCGTGTGGG
*
59394237 AGGGA-CAACACACCCGTGT
1 AGGGAGC-ACACGCCCGTGT
59394256 CCTGAACTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.14
22 31 0.86
ACGTcount: A:0.23, C:0.27, G:0.39, T:0.11
Consensus pattern (22 bp):
AGGGAGCACACGCCCGTGTGGG
Found at i:59398408 original size:122 final size:122
Alignment explanation
Indices: 59398191--59398434 Score: 461
Period size: 122 Copynumber: 2.0 Consensus size: 122
59398181 CCTTAAATGG
* *
59398191 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTATAAAATA
1 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATAGTTTAGAAAATA
*
59398256 CTAAGCTGCATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
66 CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
59398313 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATAGTTTAGAAAATA
1 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATAGTTTAGAAAATA
59398378 CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
66 CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
59398435 GATCTAAATA
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 119 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (122 bp):
TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATAGTTTAGAAAATA
CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
Found at i:59408833 original size:366 final size:366
Alignment explanation
Indices: 59408161--59408892 Score: 1428
Period size: 366 Copynumber: 2.0 Consensus size: 366
59408151 CCATTCCATC
59408161 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
1 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
*
59408226 CCCTTGTATCGGGATTGTTAGAGATAAATAACTTTTTGTATTGTTCCCCTAACTTCCTCCTATCT
66 CCCTTGTATCGGGATTGTTAGAGATAAATAACTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
59408291 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTCAGTCTTGCCATTGATTTTCATAGTTAATTA
131 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTCAGTCTTGCCATTGATTTTCATAGTTAATTA
59408356 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
196 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
59408421 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGGAATAATGAAACTGCGCACTTTGA
261 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGGAATAATGAAACTGCGCACTTTGA
59408486 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
326 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
*
59408527 TATGCCCGTTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
1 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
*
59408592 CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
66 CCCTTGTATCGGGATTGTTAGAGATAAATAACTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
*
59408657 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
131 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTCAGTCTTGCCATTGATTTTCATAGTTAATTA
59408722 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
196 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
59408787 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGGAATAATGAAACTGCGCACTTTGA
261 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGGAATAATGAAACTGCGCACTTTGA
59408852 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
326 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
59408893 CTATCAGTTA
Statistics
Matches: 362, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
366 362 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (366 bp):
TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
CCCTTGTATCGGGATTGTTAGAGATAAATAACTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTCAGTCTTGCCATTGATTTTCATAGTTAATTA
TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGGAATAATGAAACTGCGCACTTTGA
CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
Found at i:59409170 original size:93 final size:93
Alignment explanation
Indices: 59409007--59409196 Score: 373
Period size: 93 Copynumber: 2.1 Consensus size: 93
59408997 TAGAGCTCTA
59409007 TTAA-AATGAAGACTCCCTATCTTAGGAATAGTAAAACTACTTTATTAAAATTAATACTACAGGA
1 TTAATAATGAAGACTCCCTATCTTAGGAATAGTAAAACTACTTTATTAAAATTAATACTACAGGA
59409071 AGTTCTTATACTAACTTGTTTACCTACC
66 AGTTCTTATACTAACTTGTTTACCTACC
59409099 TTAATAATGAAGACTCCCTATCTTAGGAATAGTAAAACTACTTTATTAAAATTAATACTACAGGA
1 TTAATAATGAAGACTCCCTATCTTAGGAATAGTAAAACTACTTTATTAAAATTAATACTACAGGA
59409164 AGTTCTTATACTAACTTGTTTACCTACC
66 AGTTCTTATACTAACTTGTTTACCTACC
59409192 TTAAT
1 TTAAT
59409197 TTTCCTCTAC
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 4 0.04
93 93 0.96
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (93 bp):
TTAATAATGAAGACTCCCTATCTTAGGAATAGTAAAACTACTTTATTAAAATTAATACTACAGGA
AGTTCTTATACTAACTTGTTTACCTACC
Found at i:59412940 original size:74 final size:72
Alignment explanation
Indices: 59412854--59412995 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 72
59412844 AAAATAAGCC
* * *
59412854 ATTTTATGCATGAAAACTATGTAATAAAGA-ATAAAATCACGTTTTAATAATTTCTATGACCTAA
1 ATTTTATACATGAAAACTATATAATAAA-ACATAAAATCACATTTTAATAATTTC--TGACCTAA
59412918 TTTCATGCTT
63 TTTCATGCTT
*
59412928 ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGTCCTAATTT
1 ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGACCTAATTT
59412993 CAT
66 CAT
59412996 ACTTTCACAT
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
72 13 0.21
73 1 0.02
74 49 0.78
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (72 bp):
ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGACCTAATTT
CATGCTT
Found at i:59416418 original size:50 final size:49
Alignment explanation
Indices: 59416351--59416676 Score: 235
Period size: 49 Copynumber: 6.6 Consensus size: 49
59416341 GAGATGTGTC
*
59416351 AGTGCAAGACCATGTCTAGGACATGGCATCAGTACGGATATGCGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* ** * *
59416401 AGTGTAAGATCATGTCTACAACATAGCATCAGCCT-C-GATGAT-GATAG-T
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGGAGAGCT
* * * *
59416449 CAGTGTAAGACCATGTCTAGGACATCGCATCGGCATGGATATGCGAGAGCT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* * * *
59416500 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT-GATA-TT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGGAGAGCT
* * * *
59416548 CAGTGTAAGACCATGTTTGGGACACGGCATCAGCACGGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* * *
59416599 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT-GATAG-T
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGGAGAGCT
*
59416647 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGTGTAAGACCATGTCTAGGACATGGCAT
59416677 AGGCACCTTA
Statistics
Matches: 223, Mismatches: 31, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
48 8 0.04
49 102 0.46
50 102 0.46
51 10 0.04
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATGGAGAGCT
Found at i:59416465 original size:49 final size:49
Alignment explanation
Indices: 59416167--59416676 Score: 357
Period size: 50 Copynumber: 10.6 Consensus size: 49
59416157 TGCTTGAGCT
* * * * *
59416167 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * * * *
59416213 AGTGTAAGACCATGTTTGGGACATGCCATCGGCATTGA-GACGAGT-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA-TAGTC
* * * * *
59416261 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCCTCG-GGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-AGTC
* * *
59416307 AGTATAAGA-TATGTCTGGGACAT-GCAACGG-CTACGA-GATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGTC
* * * *
59416351 AGTGCAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGCGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT--GATAGTC
* *** * *
59416400 TAGTGTAAGATCATGTCTACAACATAGCATCAGCCTCGATGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * * *
59416450 AGTGTAAGACCATGTCTAGGACATCGCATCGGCATGGAT-ATGCGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAT--GATAGTC
*
59416499 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATATTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * * *
59416549 AGTGTAAGACCATGTTTGGGACACGGCATCAGCAC-GGAT-ATG-TGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGATGAT-AG-TC
59416598 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
59416648 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
59416677 AGGCACCTTA
Statistics
Matches: 372, Mismatches: 58, Indels: 65
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.03
45 17 0.05
46 64 0.17
47 28 0.08
48 28 0.08
49 106 0.28
50 107 0.29
51 10 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
Found at i:59416529 original size:99 final size:99
Alignment explanation
Indices: 59416317--59416676 Score: 498
Period size: 99 Copynumber: 3.7 Consensus size: 99
59416307 AGTATAAGAT
* * *
59416317 ATGTCTGGGACAT-GCAACGG-CTACGA-GATG-T-GTCAGTGCAAGACCATGTCTAGGACATGG
1 ATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATCG
* *
59416377 CATCAGTACGGATATGCGAGAGCTAGTGTAAGATC
65 CATCAGCACGGATATGCGAGAGCTAGTGTAAGACC
*** * *
59416412 ATGTCTACAACATAGCATCAGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATCGC
1 ATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATCGC
* *
59416477 ATCGGCATGGATATGCGAGAGCTAGTGTAAGACC
66 ATCAGCACGGATATGCGAGAGCTAGTGTAAGACC
* * *
59416511 ATGTCTGGGACATGGCATCGGCCTCGATGATGATATTCAGTGTAAGACCATGTTTGGGACA-CGG
1 ATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATC-G
*
59416575 CATCAGCACGGATATGTGAGAGCTAGTGTAAGACC
65 CATCAGCACGGATATGCGAGAGCTAGTGTAAGACC
* *
59416610 ATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTGGGACATGGC
1 ATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATCGC
59416675 AT
66 AT
59416677 AGGCACCTTA
Statistics
Matches: 233, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
95 10 0.04
96 8 0.03
97 6 0.03
98 2 0.01
99 207 0.89
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (99 bp):
ATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTCAGTGTAAGACCATGTCTAGGACATCGC
ATCAGCACGGATATGCGAGAGCTAGTGTAAGACC
Found at i:59424176 original size:22 final size:22
Alignment explanation
Indices: 59424136--59424220 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
59424126 AGAATGGCCA
* **
59424136 AGAGCCATAAACAAAATGGTTAT
1 AGAGCCATAATCAGGATGG-TAT
* * *
59424159 A-AACCATAATCAGGATGGCAC
1 AGAGCCATAATCAGGATGGTAT
*
59424180 AGAGCCATAATCAGGATGATAT
1 AGAGCCATAATCAGGATGGTAT
59424202 AGAGCCATAATCAGGATGG
1 AGAGCCATAATCAGGATGG
59424221 CACAAAGCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 2 0.04
22 47 0.94
23 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
AGAGCCATAATCAGGATGGTAT
Found at i:59424736 original size:27 final size:27
Alignment explanation
Indices: 59424714--59424929 Score: 202
Period size: 27 Copynumber: 8.0 Consensus size: 27
59424704 TCATTTTGCC
*
59424714 CTACAGGGGTATTTCGATAATTTTACA
1 CTACAAGGGTATTTCGATAATTTTACA
* * *
59424741 CTACAAGGGTATTTTGGTAATTGTACA
1 CTACAAGGGTATTTCGATAATTTTACA
* *
59424768 CTACAAGGGTATTTTGATAATTGTACA
1 CTACAAGGGTATTTCGATAATTTTACA
* *
59424795 CTACAAGGGTATTTCGGTAATTTCACA
1 CTACAAGGGTATTTCGATAATTTTACA
* * * * * *
59424822 -AACCGAGCGTATTTTGGTAATTGTACA
1 CTA-CAAGGGTATTTCGATAATTTTACA
*
59424849 CTACAAGGGTATTTCGATAATTTCACA
1 CTACAAGGGTATTTCGATAATTTTACA
* *
59424876 -AATCGAGGGTATTTCGATAATTTTACA
1 CTA-CAAGGGTATTTCGATAATTTTACA
* * * * *
59424903 ATTCGAGGGTATTTTGGTAATTTTACA
1 CTACAAGGGTATTTCGATAATTTTACA
59424930 AACCGAGGTC
Statistics
Matches: 156, Mismatches: 29, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.01
27 153 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
CTACAAGGGTATTTCGATAATTTTACA
Found at i:59424834 original size:81 final size:78
Alignment explanation
Indices: 59424714--59424929 Score: 270
Period size: 81 Copynumber: 2.7 Consensus size: 78
59424704 TCATTTTGCC
* * *
59424714 CTACAGGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGGTAATTGTACACTACAAGGGTA
1 CTACAAGGGTATTTCGATAATTTTACA-AACGAGGGTATTTTGGTAATTGTACACTACAAGGGTA
*
59424779 TTTTGATAATTGTACA
65 TTTCGATAATT-T-CA
* * *
59424795 CTACAAGGGTATTTCGGTAATTTCACAAACCGAGCGTATTTTGGTAATTGTACACTACAAGGGTA
1 CTACAAGGGTATTTCGATAATTTTACAAA-CGAGGGTATTTTGGTAATTGTACACTACAAGGGTA
59424860 TTTCGATAATTTCA
65 TTTCGATAATTTCA
* * * *
59424874 CAAATCGAGGGTATTTCGATAATTTTACAATTCGAGGGTATTTTGGTAATTTTACA
1 C-TA-CAAGGGTATTTCGATAATTTTACAA-ACGAGGGTATTTTGGTAATTGTACA
59424930 AACCGAGGTC
Statistics
Matches: 117, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
79 3 0.03
80 3 0.03
81 111 0.95
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (78 bp):
CTACAAGGGTATTTCGATAATTTTACAAACGAGGGTATTTTGGTAATTGTACACTACAAGGGTAT
TTCGATAATTTCA
Found at i:59424937 original size:54 final size:54
Alignment explanation
Indices: 59424720--59424937 Score: 260
Period size: 54 Copynumber: 4.0 Consensus size: 54
59424710 TGCCCTACAG
* * * *
59424720 GGGTATTTCGATAATTTTACACTACAAGGGTATTTTGGTAATTGT-ACACTA-CAA
1 GGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATT-TCACA-AACCGA
*
59424774 GGGTATTTTGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCGA
1 GGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCGA
* * * * *
59424828 GCGTATTTTGGTAATTGTACACTACAAGGGTATTTCGATAATTTCACAAATCGA
1 GGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCGA
* * * * * *
59424882 GGGTATTTCGATAATTTTACAATTCGAGGGTATTTTGGTAATTTTACAAACCGA
1 GGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCGA
59424936 GG
1 GG
59424938 TCTAAACGAC
Statistics
Matches: 142, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 140 0.99
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCGA
Found at i:59425848 original size:10 final size:10
Alignment explanation
Indices: 59425833--59425857 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
59425823 TCTGATTGTC
59425833 GAACCCAAAG
1 GAACCCAAAG
59425843 GAACCCAAAG
1 GAACCCAAAG
59425853 GAACC
1 GAACC
59425858 AAGAGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.32, G:0.20, T:0.00
Consensus pattern (10 bp):
GAACCCAAAG
Found at i:59437550 original size:18 final size:18
Alignment explanation
Indices: 59437527--59437562 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
59437517 AGGTTAAATG
59437527 TGAAAAATTAGAATTTAA
1 TGAAAAATTAGAATTTAA
59437545 TGAAAAATTAGAATTTAA
1 TGAAAAATTAGAATTTAA
59437563 ATAAGTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (18 bp):
TGAAAAATTAGAATTTAA
Found at i:59443260 original size:27 final size:27
Alignment explanation
Indices: 59443176--59443261 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 27
59443166 ATCGGTATAT
* * *
59443176 AGCCACGGGTAAATATGATTGACACAG
1 AGCCACAGGTAAATATGATTGGCACAA
* * * **
59443203 AGTCATCA-ATAAATATGATAGGCACTT
1 AGCCA-CAGGTAAATATGATTGGCACAA
*
59443230 AGCCACAGGTAAATACGATTGGCACAA
1 AGCCACAGGTAAATATGATTGGCACAA
59443257 AGCCA
1 AGCCA
59443262 TAATCAAGAT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
26 2 0.05
27 41 0.93
28 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (27 bp):
AGCCACAGGTAAATATGATTGGCACAA
Found at i:59443656 original size:27 final size:26
Alignment explanation
Indices: 59443626--59443893 Score: 130
Period size: 27 Copynumber: 10.0 Consensus size: 26
59443616 TATTTTGCCC
* *
59443626 TACAGGGGTATTTTGCTAATTTTACA
1 TACAGGGGTATTTCGGTAATTTTACA
* * * *
59443652 TTACAAGGGTATATCGGTAACTATACA
1 -TACAGGGGTATTTCGGTAATTTTACA
* *
59443679 CTACAAGGGTATTTCGGTAATTATACA
1 -TACAGGGGTATTTCGGTAATTTTACA
* * ** * *
59443706 CTATAAGGGTATTTTAGTAATTTAAAA
1 -TACAGGGGTATTTCGGTAATTTTACA
*
59443733 AACTAGGGGTATTTCGGTAATTTTACA
1 TAC-AGGGGTATTTCGGTAATTTTACA
** * *
59443760 -ATTTGAAGGTATTTAGGTAATTTTACA
1 TA-CAG-GGGTATTTCGGTAATTTTACA
* *
59443787 AACTAGGGGTA-TTCGATAATTTTACA
1 TAC-AGGGGTATTTCGGTAATTTTACA
* * * *
59443813 AACCGGGAGTATTTTGATAATTTTACA
1 TACAGGG-GTATTTCGGTAATTTTACA
* * *
59443840 AACCGAAGGTATTTCGGTAAATTTATA-A
1 TACAG-GGGTATTTCGGT-AATTT-TACA
* *
59443868 T-CCGAGGGTATTTCGATAATTTTACA
1 TACAG-GGGTATTTCGGTAATTTTACA
59443894 AACTGGAGTC
Statistics
Matches: 191, Mismatches: 39, Indels: 23
0.75 0.15 0.09
Matches are distributed among these distances:
25 5 0.03
26 28 0.15
27 147 0.77
28 9 0.05
29 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.37
Consensus pattern (26 bp):
TACAGGGGTATTTCGGTAATTTTACA
Found at i:59443838 original size:80 final size:81
Alignment explanation
Indices: 59443741--59443896 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 81
59443731 AAAACTAGGG
* *** *
59443741 GTATTTCGGTAATTTTACAATTTGAAGGTATTTAGGTAATTTTACAAACTAG-GGGTA-TTCGAT
1 GTATTTCGATAATTTTACAAACCGAAGGTATTTAGGTAAATTTACAAAC-AGAGGGTATTTCGAT
59443804 AATTTTACAAACCGGGA
65 AATTTTACAAACCGGGA
* * * * *
59443821 GTATTTTGATAATTTTACAAACCGAAGGTATTTCGGTAAATTTATAATCCGAGGGTATTTCGATA
1 GTATTTCGATAATTTTACAAACCGAAGGTATTTAGGTAAATTTACAAACAGAGGGTATTTCGATA
59443886 ATTTTACAAAC
66 ATTTTACAAAC
59443897 TGGAGTCTGC
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 1 0.02
80 45 0.70
81 18 0.28
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAACCGAAGGTATTTAGGTAAATTTACAAACAGAGGGTATTTCGATA
ATTTTACAAACCGGGA
Found at i:59443894 original size:54 final size:55
Alignment explanation
Indices: 59443686--59443896 Score: 173
Period size: 54 Copynumber: 3.9 Consensus size: 55
59443676 ACACTACAAG
* * *** * * * *
59443686 GGTATTTCGGTAATTATACACTATAAGGGTATTTTAG-TAA-TTTAAAAAACTAGG
1 GGTATTTCGGTAATTTTACAATCCGAGGGTA-TTTAGATAATTTTACAAACCGAGA
** * * * *
59443740 GGTATTTCGGTAATTTTACAATTTGAAGGTATTTAGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAACCGAGA
* * *
59443794 GGTA-TTCGATAATTTTACAAACCG-GGAGTATTTTGATAATTTTACAAACCGA-A
1 GGTATTTCGGTAATTTTACAATCCGAGG-GTATTTAGATAATTTTACAAACCGAGA
* * *
59443847 GGTATTTCGGTAAATTTATAATCCGAGGGTATTTCGATAATTTTACAAAC
1 GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAAC
59443897 TGGAGTCTGC
Statistics
Matches: 131, Mismatches: 20, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
52 1 0.01
53 44 0.34
54 77 0.59
55 9 0.07
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (55 bp):
GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAACCGAGA
Found at i:59455571 original size:29 final size:29
Alignment explanation
Indices: 59455533--59455589 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
59455523 GTAAAATAGG
*
59455533 ATAGCTTCGGCTATCGACTACGAAAAGGA
1 ATAGCCTCGGCTATCGACTACGAAAAGGA
* * *
59455562 ATAGCCTCGGCTATTGATTATGAAAAGG
1 ATAGCCTCGGCTATCGACTACGAAAAGG
59455590 GATGGTGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (29 bp):
ATAGCCTCGGCTATCGACTACGAAAAGGA
Found at i:59455610 original size:29 final size:30
Alignment explanation
Indices: 59455578--59455801 Score: 102
Period size: 30 Copynumber: 7.5 Consensus size: 30
59455568 TCGGCTATTG
59455578 ATTATGAAAAGGGATGGTGATAACCATC-A
1 ATTATGAAAAGGGATGGTGATAACCATCAA
* * *
59455607 ATTATGGAAAGGGGTGGTGATGACCATCAA
1 ATTATGAAAAGGGATGGTGATAACCATCAA
* * ****
59455637 ACTATAAAAAGGGATGGCT--TCGGGTATC-A
1 ATTATGAAAAGGGATGG-TGAT-AACCATCAA
* * ** *
59455666 ATCATTAAAAGGGATGGCT--TCGGCTATCAA
1 ATTATGAAAAGGGATGG-TGAT-AACCATCAA
* * **
59455696 ATTATGAAAAGGGATGGTAATGACCATTGA
1 ATTATGAAAAGGGATGGTGATAACCATCAA
** * **
59455726 ACCATGAAAAGGGATGATGACGACCATCAA
1 ATTATGAAAAGGGATGGTGATAACCATCAA
* ** *
59455756 ATTATGAAAAGGGATAGCTTCT-ACCATAAA
1 ATTATGAAAAGGGAT-GGTGATAACCATCAA
59455786 ATTATGAAAAAGGGAT
1 ATTATG-AAAAGGGAT
59455802 AGTCTCGGCT
Statistics
Matches: 153, Mismatches: 34, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
29 52 0.34
30 88 0.58
31 13 0.08
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGATAACCATCAA
Found at i:59455666 original size:30 final size:30
Alignment explanation
Indices: 59455632--59455712 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
59455622 GGTGATGACC
*
59455632 ATCAAACTATAAAAAGGGATGGCTTCGGGT
1 ATCAAACTATAAAAAGGGATGGCTTCGGCT
* *
59455662 ATCAATC-ATTAAAAGGGATGGCTTCGGCT
1 ATCAAACTATAAAAAGGGATGGCTTCGGCT
* *
59455691 ATCAAATTATGAAAAGGGATGG
1 ATCAAACTATAAAAAGGGATGG
59455713 TAATGACCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
29 25 0.57
30 19 0.43
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
ATCAAACTATAAAAAGGGATGGCTTCGGCT
Found at i:59456161 original size:13 final size:13
Alignment explanation
Indices: 59456138--59456171 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
59456128 AAACATATTA
59456138 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
59456152 TAAAATTTTGTGT
1 TAAAATTTTGTGT
59456165 TAGAAAT
1 TA-AAAT
59456172 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:59457520 original size:40 final size:40
Alignment explanation
Indices: 59457472--59457677 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
59457462 GGACTAAGAT
*
59457472 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
59457512 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
59457552 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTGAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
59457592 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * * *
59457632 CCGAAGGCATTTGTACGAGTTACTCTATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
59457671 CCGAAGG
1 CCGAAGG
59457678 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:59464942 original size:28 final size:28
Alignment explanation
Indices: 59464906--59464980 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
59464896 TCAAATATGT
* *
59464906 CACTCAGTGTACGAAATATTGAGAATGG
1 CACTTAGTGTACGAAATATTGAGAATGA
*
59464934 CACTTAGTGTACGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* * *
59464962 CACTTGGTGTGCAAAATAT
1 CACTTAGTGTACGAAATAT
59464981 CAAATGATTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:59471714 original size:28 final size:28
Alignment explanation
Indices: 59471648--59471729 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
59471638 TCAAATATGG
* *
59471648 CACTTAGTGTACGAAATATTGAGAATGG
1 CACTTAGTGTGCGAAATATTGAGAATGA
*
59471676 CACTTAGTGTGCGAGATATTGAGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
* *
59471704 CACTTAATGTGCAAAATA-T-AGAATGA
1 CACTTAGTGTGCGAAATATTGAGAATGA
59471730 TTCAAAGGGC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
26 7 0.15
27 1 0.02
28 40 0.83
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAAATATTGAGAATGA
Found at i:59494731 original size:29 final size:29
Alignment explanation
Indices: 59494646--59494798 Score: 131
Period size: 29 Copynumber: 5.4 Consensus size: 29
59494636 GTGAGCATGG
*
59494646 ATAT-AATGT-GATTTGGGCCGGATGGGCC
1 ATATGAATGTAGA-TTGGGCCTGATGGGCC
* * *
59494674 ATATAAATG-AGATTGGGCCTAACGGGCC
1 ATATGAATGTAGATTGGGCCTGATGGGCC
*
59494702 ATATGAATGTCA-ATTTGGCCTGATGGGCC
1 ATATGAATGT-AGATTGGGCCTGATGGGCC
* * *
59494731 ATATGAACGT-GAATTGGGTCGGATGGGCC
1 ATATGAATGTAG-ATTGGGCCTGATGGGCC
*
59494760 ATATAAATG-AGATTGGGCCT-AGTGGGCC
1 ATATGAATGTAGATTGGGCCTGA-TGGGCC
*
59494788 ATATGCATGTA
1 ATATGAATGTA
59494799 TGTAGGGGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
27 1 0.01
28 45 0.45
29 52 0.53
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATGAATGTAGATTGGGCCTGATGGGCC
Found at i:59494779 original size:57 final size:57
Alignment explanation
Indices: 59494658--59494792 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 57
59494648 ATAATGTGAT
* * *
59494658 TTGGGCCGGATGGGCCATAT-AAATGAGATTGGGCCTAACGGGCCATATGAATGTCAA
1 TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAACGGGCCATATAAATG-CAA
* * * * *
59494715 TTTGGCCTGATGGGCCATATGAACGTGA-ATTGGGTCGGATGGGCCATATAAATG-AGA
1 TTGGGCCTGATGGGCCATATGAA-ATGAGATTGGGCCGAACGGGCCATATAAATGCA-A
59494772 TTGGGCCT-AGTGGGCCATATG
1 TTGGGCCTGA-TGGGCCATATG
59494793 CATGTATGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
56 2 0.03
57 37 0.57
58 23 0.35
59 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (57 bp):
TTGGGCCTGATGGGCCATATGAAATGAGATTGGGCCGAACGGGCCATATAAATGCAA
Found at i:59502503 original size:29 final size:28
Alignment explanation
Indices: 59502419--59502563 Score: 132
Period size: 29 Copynumber: 5.1 Consensus size: 28
59502409 GTGAGCATGG
* *
59502419 ATAT-AATGTGATTTGGGCCAGATGGACC
1 ATATAAATGTGA-TTGGGCCTGATGGGCC
* * * *
59502447 ATAAAAATGAGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTGATGGGCC
*
59502475 ATATAAATGTGAATTTGGCCTGATGGGCC
1 ATATAAATGTG-ATTGGGCCTGATGGGCC
* * * *
59502504 ATATGAACGTGAATTGGGTCGGATGGGCC
1 ATATAAATGTG-ATTGGGCCTGATGGGCC
* *
59502533 ATATAAATGAGATTGGGCTTG-TGGGCC
1 ATATAAATGTGATTGGGCCTGATGGGCC
59502560 ATAT
1 ATAT
59502564 GCATGTATGT
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
27 10 0.11
28 31 0.33
29 52 0.56
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTGATGGGCC
Found at i:59504390 original size:40 final size:40
Alignment explanation
Indices: 59504292--59504594 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
59504282 TCCTCGTTCA
* * * * *
59504292 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59504331 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
59504371 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59504411 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
59504451 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59504491 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
59504531 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
59504571 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59504595 CAGCATTCAA
Statistics
Matches: 238, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 37 0.16
40 193 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59511175 original size:20 final size:20
Alignment explanation
Indices: 59511138--59511175 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59511128 AATATAATGT
*
59511138 AAATAATAGAAATTAAATAA
1 AAATAATAGAAATGAAATAA
59511158 AAATAATTAG-AATGAAAT
1 AAATAA-TAGAAATGAAAT
59511176 TAAATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
AAATAATAGAAATGAAATAA
Found at i:59511186 original size:25 final size:28
Alignment explanation
Indices: 59511119--59511187 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 28
59511109 ATAAAGGGGG
*
59511119 ATTAAATCTAATATAATGTAAATAATAGAA
1 ATTAAATCTAA-ATAATGT-AAGAATAGAA
**
59511149 ATTAAATAAAAATAAT-T-AGAAT-GAA
1 ATTAAATCTAAATAATGTAAGAATAGAA
59511174 ATTAAATCTAAATA
1 ATTAAATCTAAATA
59511188 TATCAAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 15 0.44
26 4 0.12
28 1 0.03
29 5 0.15
30 9 0.26
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTAAATCTAAATAATGTAAGAATAGAA
Found at i:59520138 original size:15 final size:15
Alignment explanation
Indices: 59520113--59520149 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
59520103 AATCAGTTGA
*
59520113 AAGCTCTTTTGACTG
1 AAGCTCCTTTGACTG
*
59520128 GAGCTCCTTTGACTG
1 AAGCTCCTTTGACTG
59520143 AAGCTCC
1 AAGCTCC
59520150 AGTGTTAGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.32
Consensus pattern (15 bp):
AAGCTCCTTTGACTG
Found at i:59530088 original size:18 final size:19
Alignment explanation
Indices: 59530053--59530088 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59530043 ATAATTTTCA
*
59530053 TTTTTTTTCATGTTCAAGT
1 TTTTTTTTCATGTACAAGT
59530072 TTTTTTTTCAT-TACAAG
1 TTTTTTTTCATGTACAAG
59530089 ATTTCTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.11, G:0.08, T:0.61
Consensus pattern (19 bp):
TTTTTTTTCATGTACAAGT
Found at i:59538000 original size:16 final size:16
Alignment explanation
Indices: 59537981--59538012 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59537971 AATTGTTTTA
59537981 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
59537997 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
59538013 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:59538287 original size:50 final size:50
Alignment explanation
Indices: 59538223--59538808 Score: 507
Period size: 50 Copynumber: 11.6 Consensus size: 50
59538213 CTAGTACGCA
* * * *
59538223 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
** * * * ** *
59538273 TAGTAGCCTGCACTTAGTACTACACACATGA-TTGAAGTTAAT-GGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA--CAATCTGGTACACG
* *
59538324 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * *
59538374 TTGTAGCCT-CACTTAGTACTACACACGTGACCTAAGC-ATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGGTACACG
* ** * * *
59538423 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAACTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTGGTACACG
* * **
59538474 TAGCAACCTGCACTTAGTACTACACATGCCACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * ** *
59538524 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAA-AACTCTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAA-TCTGGT--ACACG
* * * ** * * ** *
59538576 AAGTAGACTGCACTTAGTACTATACACATGACCTATCCATCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * ** * * *
59538626 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTAACAATCTGGTACACG
*
59538677 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
* * * *** *
59538727 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTGGTACACG
* *
59538779 TAGTAGCTTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
59538809 TTCTCACAAC
Statistics
Matches: 425, Mismatches: 95, Indels: 30
0.77 0.17 0.05
Matches are distributed among these distances:
49 48 0.11
50 186 0.44
51 111 0.26
52 79 0.19
53 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACG
Found at i:59538516 original size:101 final size:101
Alignment explanation
Indices: 59538324--59538806 Score: 501
Period size: 101 Copynumber: 4.8 Consensus size: 101
59538314 TGGGTATGCA
* ** * * * * * *
59538324 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCTATCAATCCGGTACACGTTGTAGCCT-CACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAACCTGCACT
* *
59538387 TAGTACTACACACGTGACCTAAGC-ATCTGATACACG
66 TAGTACTACACATGCGACCTAA-CAATCTGATACACG
* *
59538423 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAACTATCGGGTACACATAGCAACCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAACCTGCACT
* *
59538488 TAGTACTACACATGCCACCTAACAATCTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGATACACG
* * * * **** *
59538524 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACAAAGTAGA-CTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAACTATCGGGTACACATAGTA-ACCTGCA
* * * *
59538588 CTTAGTACTATACACAT--GACCTATCCATCTAATACATG
64 CTTAGTAC--TACACATGCGACCTAACAATCTGATACACG
* *
59538626 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAACCTGCACT
*
59538691 TAGTACTACACATGCGACCTAACAATCTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGATACACG
* * * **** * *
59538727 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACATAGTAGCTTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-GAAACTATCGGGTACACATAGTAACCTGCAC
*
59538792 ATAGTACTACACATG
65 TTAGTACTACACATG
59538807 TGTTCTCACA
Statistics
Matches: 316, Mismatches: 57, Indels: 19
0.81 0.15 0.05
Matches are distributed among these distances:
99 37 0.12
100 20 0.06
101 139 0.44
102 112 0.35
103 1 0.00
104 7 0.02
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAACCTGCACT
TAGTACTACACATGCGACCTAACAATCTGATACACG
Found at i:59538648 original size:203 final size:203
Alignment explanation
Indices: 59538383--59538804 Score: 702
Period size: 203 Copynumber: 2.1 Consensus size: 203
59538373 GTTGTAGCCT
* * *
59538383 CACTTAGTACTACACACGTGACCTAAGCATCTGATACACGTAGTAGCCTGCACTTAGTACTACAC
1 CACTTAGTACTACACACATGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACAC
59538448 AAGTGATCGAAACTATCGGGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAA
66 AAGTGATCGAAACTATCGGGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAA
*
59538513 TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACAAA
131 TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACAAA
59538578 GTAGAC-TG
196 GTAG-CTTG
* * * *
59538586 CACTTAGTACTATACACATGACCTATCCATCTAATACATGTAGTATCCTGCACTTAGTACTACAC
1 CACTTAGTACTACACACATGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACAC
* * * *
59538651 ACGTGATCGAAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
66 AAGTGATCGAAACTATCGGGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAA
*
59538716 TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACATA
131 TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACAAA
59538781 GTAGCTTG
196 GTAGCTTG
*
59538789 CACATAGTACTACACA
1 CACTTAGTACTACACA
59538805 TGTGTTCTCA
Statistics
Matches: 203, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
202 1 0.00
203 202 1.00
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (203 bp):
CACTTAGTACTACACACATGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACAC
AAGTGATCGAAACTATCGGGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAA
TCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACAAA
GTAGCTTG
Found at i:59539188 original size:19 final size:20
Alignment explanation
Indices: 59539160--59539206 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
59539150 AAGAACATGT
59539160 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
59539181 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
59539200 TATATAT
1 TATATAT
59539207 ACTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:59559190 original size:13 final size:13
Alignment explanation
Indices: 59559174--59559206 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59559164 ATTGATTAAA
*
59559174 TTAGTTAATTAGT
1 TTAGATAATTAGT
59559187 TTAGATAATTAGT
1 TTAGATAATTAGT
59559200 TTA-ATAA
1 TTAGATAA
59559207 AAAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59561163 original size:28 final size:28
Alignment explanation
Indices: 59561100--59561253 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
59561090 ATATTAAGTC
* *
59561100 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59561127 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
59561155 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
59561183 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59561211 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
59561239 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59561254 GTACAATTTA
Statistics
Matches: 122, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 22 0.18
28 100 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:59561192 original size:56 final size:55
Alignment explanation
Indices: 59561100--59561278 Score: 268
Period size: 56 Copynumber: 3.2 Consensus size: 55
59561090 ATATTAAGTC
* *
59561100 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
*
59561155 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTATATAATCAAACT
* * * *
59561211 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAACT
59561268 CGCACACTTAG
1 CGCACACTTAG
59561279 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
55 23 0.20
56 72 0.64
57 18 0.16
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
Found at i:59567168 original size:40 final size:40
Alignment explanation
Indices: 59567122--59567365 Score: 366
Period size: 40 Copynumber: 6.1 Consensus size: 40
59567112 ACTAAGATCT
*
59567122 GAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
59567162 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * * **
59567202 AAAGGCATTTGTACTAGTTACTATATTTGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
59567242 GAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
59567282 GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* *
59567322 GAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
59567361 GAAGG
1 GAAGG
59567366 TACTTAGGTT
Statistics
Matches: 186, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 15 0.08
40 169 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:59570375 original size:6 final size:6
Alignment explanation
Indices: 59570364--59570410 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
59570354 AATCCTCTTA
* *
59570364 TATTTT TATTTT TATTTT TATTCT TATTTT TATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
59570411 CAATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:59570410 original size:18 final size:17
Alignment explanation
Indices: 59570367--59570430 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 17
59570357 CCTCTTATAT
59570367 TTTTATTTTTATTTTTA
1 TTTTATTTTTATTTTTA
59570384 TTCTTATTTTTATTTTTA
1 TT-TTATTTTTATTTTTA
**
59570402 TTTTCATTTCAATTTTATTA
1 TTTT-ATTTTTA-TTT-TTA
59570422 TTTTATTTT
1 TTTTATTTT
59570431 GAAAGACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.10
18 22 0.55
19 7 0.17
20 7 0.17
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTTATTTTTA
Found at i:59570416 original size:24 final size:24
Alignment explanation
Indices: 59570365--59570430 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
59570355 ATCCTCTTAT
* *
59570365 ATTTTTATTTTTATTTTTATTCTT
1 ATTTTTATTTTTATTTTCATTCTA
59570389 ATTTTTATTTTTATTTTCATT-TCA
1 ATTTTTATTTTTATTTTCATTCT-A
59570413 A-TTTTATTATTTTATTTT
1 ATTTTTA-T-TTTTATTTT
59570431 GAAAGACATA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.16
24 22 0.59
25 9 0.24
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTTTATTTTTATTTTCATTCTA
Found at i:59573350 original size:13 final size:13
Alignment explanation
Indices: 59573334--59573366 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
59573324 TTTGATTAAA
*
59573334 TTAGTTAATTAGT
1 TTAGATAATTAGT
59573347 TTAGATAATTAGT
1 TTAGATAATTAGT
59573360 TTA-ATAA
1 TTAGATAA
59573367 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:59573674 original size:13 final size:11
Alignment explanation
Indices: 59573656--59573692 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
59573646 GAAGAGTATC
59573656 AGAGAGAGAAA
1 AGAGAGAGAAA
59573667 AGAGAGAGAAA
1 AGAGAGAGAAA
59573678 AGAGAGAG-AA
1 AGAGAGAGAAA
59573688 AGAGA
1 AGAGA
59573693 TTGAGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (11 bp):
AGAGAGAGAAA
Found at i:59577445 original size:46 final size:46
Alignment explanation
Indices: 59577395--59577567 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
59577385 TGGTTGAGCA
*
59577395 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
59577441 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
59577488 TCTGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
59577534 CCCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
59577568 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.59
47 27 0.27
48 3 0.03
50 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:59577551 original size:93 final size:93
Alignment explanation
Indices: 59577392--59577562 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
59577382 GGATGGTTGA
* * *
59577392 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
59577457 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * * *
59577485 GCATCTGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTTAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
59577550 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59577563 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:59584671 original size:28 final size:28
Alignment explanation
Indices: 59584631--59584711 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
59584621 TGGGAAGTAG
* *
59584631 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
59584659 TTGGGCCTAATGGGCCATGTGAACGAGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
59584687 TTGGGCCTAAAGTGGCCAAATGAAT
1 TTGGGCCTAATG-GGCCATATGAAT
59584712 AAGTGTGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 35 0.80
29 9 0.20
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGAGA
Found at i:59585047 original size:27 final size:27
Alignment explanation
Indices: 59585011--59585269 Score: 276
Period size: 27 Copynumber: 9.7 Consensus size: 27
59585001 TAATAAAGAT
* *
59585011 AAATTACTGAAATACGCTCTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
59585038 AAATTGCTGAAATACCCTCGATTTCTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
59585065 AGATTA-TCGAAATACCCTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
59585091 AAATTATTGAAATACCCTCAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
59585118 AAATTA-TGAAACACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
59585144 AAATTACCGAAATACCTTTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
59585171 AAATTATTGAAATACCCT-TATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
59585197 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
59585224 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
59585251 AAATTAATAGAAATACCCT
1 AAATTACT-GAAATACCCT
59585270 TGTAGTGTAA
Statistics
Matches: 193, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 66 0.34
27 118 0.61
28 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:59585092 original size:53 final size:54
Alignment explanation
Indices: 59585011--59585269 Score: 276
Period size: 53 Copynumber: 4.8 Consensus size: 54
59585001 TAATAAAGAT
* * ** *
59585011 AAATTA-CTGAAATACGCTCTATTTGTAAAATTGCTGAAATACCCTCGATTTCTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTATA
* * *
59585065 AGATTATCGAAATACCCTCGA-TTGTAAAATTATTGAAATACCCTCAATTTATA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTATA
* * ** * *
59585118 AAATTAT-GAAACACCTTCGATTTGTAAAATTACCGAAATACCTTTGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTATA
* * *
59585171 AAATTATTGAAATACCCT-TATTTGTAAAATT-ATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAAT-GAAATACCCTCGATTTATA
* * *
59585224 AAATTACCGAAACACCCCCGATTTGTAAAATTAATAGAAATACCCT
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAAT-GAAATACCCT
59585270 TGTAGTGTAA
Statistics
Matches: 170, Mismatches: 29, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
52 11 0.06
53 110 0.65
54 36 0.21
55 13 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTATA
Found at i:59585173 original size:80 final size:80
Alignment explanation
Indices: 59585011--59585269 Score: 333
Period size: 80 Copynumber: 3.2 Consensus size: 80
59585001 TAATAAAGAT
* * * * * *
59585011 AAATTACTGAAATACGCTCTATTTGTAAAATTGCTGAAATACCCTCGATTTCTAAGATTATCGAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATT-ATGAAATACCCTCGATTTGTAAAATTACCGAA
59585076 ATACCCTCGA-TTGTA
65 ATACCCTCGATTTGTA
* * * *
59585091 AAATTATTGAAATACCCTCAATTTATAAAATTATGAAACACCTTCGATTTGTAAAATTACCGAAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACCGAAA
* * *
59585156 TACCTTTGATTTATA
66 TACCCTCGATTTGTA
59585171 AAATTATTGAAATACCCT-TATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATTAT-GAAATACCCTCGATTTGTAAAATTACCGAA
* *
59585235 ACACCCCCGATTTGTA
65 ATACCCTCGATTTGTA
*
59585251 AAATTAATAGAAATACCCT
1 AAATT-ATTGAAATACCCT
59585270 TGTAGTGTAA
Statistics
Matches: 153, Mismatches: 23, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
79 47 0.31
80 94 0.61
81 12 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (80 bp):
AAATTATTGAAATACCCTCTATTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACCGAAA
TACCCTCGATTTGTA
Found at i:59585278 original size:28 final size:27
Alignment explanation
Indices: 59585247--59585309 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
59585237 ACCCCCGATT
* *
59585247 TGTAAAATTAATAGAAATACCCTTGTAG
1 TGTAAAATTAACA-AAATACCCTTATAG
* **
59585275 TGTAAATTTTCCAAAATACCCTTATAG
1 TGTAAAATTAACAAAATACCCTTATAG
59585302 TGTAAAAT
1 TGTAAAAT
59585310 GACTGACATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTAAAATTAACAAAATACCCTTATAG
Found at i:59592609 original size:26 final size:26
Alignment explanation
Indices: 59592573--59592625 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
59592563 CCACCGTCCC
59592573 AGATAGGGTCTTACTCGCACACATAT
1 AGATAGGGTCTTACTCGCACACATAT
59592599 AGATAGGGTCTTACTCGCACACATAT
1 AGATAGGGTCTTACTCGCACACATAT
59592625 A
1 A
59592626 TCGGAGTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (26 bp):
AGATAGGGTCTTACTCGCACACATAT
Found at i:59592758 original size:56 final size:56
Alignment explanation
Indices: 59592605--59592758 Score: 209
Period size: 56 Copynumber: 2.8 Consensus size: 56
59592595 ATATAGATAG
* *
59592605 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATACCAACGTACAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAATGT
** * * *
59592661 GGTCTTACTCATACACATATATCGGAATCACAAATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAATGT
* ** *
59592717 GGTCTTACTCGCACATATATATCAAAATCACATGTCGATGCC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCC
59592759 TCATATACAT
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 83 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAATGT
Found at i:59597191 original size:39 final size:40
Alignment explanation
Indices: 59597108--59597276 Score: 240
Period size: 39 Copynumber: 4.3 Consensus size: 40
59597098 TATCCGGACT
* *
59597108 CCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGAT-
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAG-TC
*
59597148 CCGAAGGCATTTGTGCGAGTTACT-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
59597187 CCGAAGGCATTTGTGCGAG-TACTAAATCCGGG-TCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT-AAGTC
*
59597226 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTC
59597266 CCGAAGGCATT
1 CCGAAGGCATT
59597277 GAACGAGTAG
Statistics
Matches: 119, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
38 6 0.05
39 62 0.52
40 48 0.40
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTC
Found at i:59597285 original size:78 final size:79
Alignment explanation
Indices: 59597108--59597296 Score: 251
Period size: 79 Copynumber: 2.4 Consensus size: 79
59597098 TATCCGGACT
59597108 CCGAAGGCATTTGTACGAGTTACTAAATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTACGAG-TACTAAATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
* *
59597172 AATCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* *
59597187 CCGAAGGCATTTGTGCGAGTACTAAATCCGGGTC-AAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTACGAGTACTAAATCCGGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
*
59597250 ATAACCGGGCTATGTC
65 A-AACCGGGCTAAGTC
* *
59597266 CCGAAGGCA-TTGAACGAGTAGCTATATCCGG
1 CCGAAGGCATTTGTACGAGTA-CTAAATCCGG
59597297 TTAAATTCGA
Statistics
Matches: 98, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 47 0.48
79 50 0.51
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTACTAAATCCGGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
AACCGGGCTAAGTC
Found at i:59604899 original size:40 final size:40
Alignment explanation
Indices: 59604852--59605003 Score: 170
Period size: 40 Copynumber: 3.8 Consensus size: 40
59604842 AAGTGACCAT
59604852 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTA-A
1 ATCCGGACTAAG-TCCGAAGGCATTTGTACGAGTTACTATA
* *
59604892 ATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC-ATA
1 ATCCGGACTAAG-TCCGAAGGCATTTGTACGAGTTACTATA
* *
59604932 ATCCGG-GTCAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGACT-AAGT-CCGAAGGCATTTGTACGAGTTACTATA
* * *
59604973 A-CCGGGCTATGT-CGAAGGCATTTGAACGAGT
1 ATCCGGACTAAGTCCGAAGGCATTTGTACGAGT
59605004 AGGTATACCC
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
38 17 0.17
39 3 0.03
40 74 0.75
41 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGACTAAGTCCGAAGGCATTTGTACGAGTTACTATA
Found at i:59615528 original size:38 final size:38
Alignment explanation
Indices: 59615477--59615551 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
59615467 AATGGTAAGA
*
59615477 TACTTTATCAAACTGTCTTTCAAGTACACTGATACTGG
1 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTGG
59615515 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTG
1 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTG
59615552 TTAATAATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (38 bp):
TACTTTATCAAACTGTCTTTCAAGTACACGGATACTGG
Found at i:59617038 original size:24 final size:24
Alignment explanation
Indices: 59617006--59617056 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
59616996 AATTTTATGA
59617006 CATAGCATTTTTGGTAAGGCAAAG
1 CATAGCATTTTTGGTAAGGCAAAG
59617030 CATAGCATTTTTGGTAAGGCAAAG
1 CATAGCATTTTTGGTAAGGCAAAG
59617054 CAT
1 CAT
59617057 TATATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
CATAGCATTTTTGGTAAGGCAAAG
Found at i:59621567 original size:18 final size:17
Alignment explanation
Indices: 59621537--59621576 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
59621527 ATAAAAATGC
59621537 TAAAGATAGTTTTTAATA
1 TAAA-ATAGTTTTTAATA
59621555 TAAAATAGTTTTTAATA
1 TAAAATAGTTTTTAATA
59621572 TAAAA
1 TAAAA
59621577 ACTAAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.42
Consensus pattern (17 bp):
TAAAATAGTTTTTAATA
Found at i:59622857 original size:22 final size:22
Alignment explanation
Indices: 59622815--59622858 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
59622805 TGTATAAACC
* *
59622815 AAATAAACTTTATTTCAGTAAA
1 AAATAAACTTAATATCAGTAAA
*
59622837 AAATAAACTTAATATCTGTAAA
1 AAATAAACTTAATATCAGTAAA
59622859 CTGAAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATAAACTTAATATCAGTAAA
Found at i:59625517 original size:12 final size:12
Alignment explanation
Indices: 59625500--59625526 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
59625490 AAGATAATGG
59625500 TATATATATGTA
1 TATATATATGTA
59625512 TATATATATGTA
1 TATATATATGTA
59625524 TAT
1 TAT
59625527 TTATCCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:59632749 original size:26 final size:26
Alignment explanation
Indices: 59632701--59632753 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
59632691 TATTTTGATG
*
59632701 TTTTATACAACATTTTGTTTATATAT
1 TTTTATACAACATTTTGTATATATAT
59632727 TTTTATAC-ACATTTATGTATATATAT
1 TTTTATACAACATTT-TGTATATATAT
59632753 T
1 T
59632754 AATTTAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATACAACATTTTGTATATATAT
Found at i:59645666 original size:41 final size:41
Alignment explanation
Indices: 59645621--59646276 Score: 192
Period size: 41 Copynumber: 14.5 Consensus size: 41
59645611 ACACCAACAG
* * *
59645621 ATCTCCTTGAAGTTTCAGTGGAGTAGATCAACACAAGTCTT
1 ATCTCCTTGAAGTTGCAGTGGAGTAGATAAACACAAATCTT
* * *
59645662 ATCTCAC-TGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATTTT
1 ATCTC-CTTGAAGTTGCAGTGGAGTAGA-T-AA-ACA-CAAATCTT
* * * * *
59645707 ATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATAAACCACAAATCTC
1 ATCTCCTTGAAGTTGCAGTGG-----A--GTAG--ATAAA-CACAAATCTT
* * *
59645758 ATCTCCTTGAAGTTTCAGTGGAGTAGATCAACACAAGTCTT
1 ATCTCCTTGAAGTTGCAGTGGAGTAGATAAACACAAATCTT
* * *
59645799 ATCT-CTCTGAAGTTGCAATGGAGCAGACTAAAGATAGCAAATCTT
1 ATCTCCT-TGAAGTTGCAGTGGAGTAGA-T-AA-ACA-CAAATCTT
* * * * *
59645844 ATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACAGATCTC
1 ATCTCCTTGAAGTTGCAGTGG-----A--GTAG--ATAAA-CACAAATCTT
* * *
59645895 ATCT-CTCTGAAGTTGCAGTAGAGTAGATCAACACAAGTCTT
1 ATCTCCT-TGAAGTTGCAGTGGAGTAGATAAACACAAATCTT
* *
59645936 ATCTCAC-TGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAATCTT
1 ATCTC-CTTGAAGTTGCAGTGGAGTAGA-T-AA-ACA-CAAATCTT
* * * * *
59645981 ATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
1 ATCTCCTTGAAGTTGCAGTGG---AG--T--AG--ATAAA-CACAAATCTT
* * *
59646032 ATCT-CTCTGAAGTTACAGTAGG-GTAGATCAACACAAGTCTT
1 ATCTCCT-TGAAGTTGCAGT-GGAGTAGATAAACACAAATCTT
* * * *
59646073 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAATCTT
1 ATCTCCTTGAAGTTGCAGTGGAGTAGA-T-AA-ACA-CAAATCTT
* * *
59646118 ATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
1 ATCTCCTTGAAGTTGCAGTGG---AG--T--AG--ATAAA-CACAAATCTT
* * * * *
59646169 ATCT-CTATGATGTTGCAGTAGAGTAGATCACCACAAGTCTT
1 ATCTCCT-TGAAGTTGCAGTGGAGTAGATAAACACAAATCTT
* *
59646210 ATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGGTCGCAAATCTT
1 ATCTCCTTGAAGTTGCAGTGGAGTAGA-TAAA---CACAAATCTT
* * *
59646255 ATTTCCCTGAAGTTGTAGTGGA
1 ATCTCCTTGAAGTTGCAGTGGA
59646277 ACAGATTGAA
Statistics
Matches: 450, Mismatches: 91, Indels: 144
0.66 0.13 0.21
Matches are distributed among these distances:
40 4 0.01
41 135 0.30
42 25 0.06
43 5 0.01
44 20 0.04
45 122 0.27
46 5 0.01
48 7 0.02
50 6 0.01
51 89 0.20
52 24 0.05
53 4 0.01
54 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (41 bp):
ATCTCCTTGAAGTTGCAGTGGAGTAGATAAACACAAATCTT
Found at i:59645720 original size:45 final size:45
Alignment explanation
Indices: 59645658--59646281 Score: 292
Period size: 45 Copynumber: 13.7 Consensus size: 45
59645648 TCAACACAAG
*
59645658 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * * * * *
59645703 TTTTATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATAAACCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG--AT--A--GCAAA
* * * * * * *
59645754 TCTCATCTCCTTGAAGTTTCAGTGGAGTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* *
59645795 TCTTATCTCTCTGAAGTTGCAATGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * * *
59645840 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG--AT--AGCA-A-A
* * * * * * *
59645891 TCTCATCTCTCTGAAGTTGCAGTAGAGTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
*
59645932 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * * *
59645977 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG--AT--AGCA-A-A
* * * * * * *
59646028 TCTCATCTCTCTGAAGTTACAGTAGG-GTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTAAAGATAGCAAA
*
59646069 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * * * * *
59646114 TCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG--AT--AGCA-A-A
* ** * * * * ** *
59646165 TCTCATCTCTATGATGTTGCAGTAGAGTAGA-T-CA-CCA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * *
59646206 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGGTCGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
* * *
59646251 TCTTATTTCCCTGAAGTTGTAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
59646282 TTGAAGCTAT
Statistics
Matches: 424, Mismatches: 113, Indels: 84
0.68 0.18 0.14
Matches are distributed among these distances:
40 2 0.00
41 104 0.25
42 7 0.02
43 10 0.02
44 10 0.02
45 160 0.38
46 3 0.01
47 8 0.02
49 13 0.03
50 7 0.02
51 98 0.23
52 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
Found at i:59645867 original size:137 final size:137
Alignment explanation
Indices: 59645628--59646385 Score: 1207
Period size: 137 Copynumber: 5.5 Consensus size: 137
59645618 CAGATCTCCT
* *
59645628 TGAAGTTTCAGTGGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
* * * *
59645693 AGATAGCAAATTTTATTTCCCTGAAGTTACAGTGGAACAAATTGAAGCTATAAACCACAAATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
59645758 ATCTC-C
131 ATCTCTC
* * * *
59645764 TTGAAGTTTCAGTGGAGTAGATCAACACAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTA
1 -TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTA
*
59645829 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACAGATCT
65 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCT
59645894 CATCTCTC
130 CATCTCTC
59645902 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
*
59645967 AGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
59646032 ATCTCTC
131 ATCTCTC
* * *
59646039 TGAAGTTACAGTAGGGTAGATCAACACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
* *
59646104 AGATAGTAAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
*
59646169 ATCTCTA
131 ATCTCTC
* *
59646176 TGATGTTGCAGTAGAGTAGATCACCACAAGTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCAC-TGAAGTTGCAGTGGAGCAGACTA
* * * *
59646240 AAGGTCGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCATAGATCT
65 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCT
59646305 CATCTCTC
130 CATCTCTC
* * * * *
59646313 TAAAGTTGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
*
59646378 TGAT-GCAA
66 AGATAGCAA
59646386 TAGAGCAGAT
Statistics
Matches: 581, Mismatches: 37, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
136 5 0.01
137 574 0.99
138 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (137 bp):
TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
ATCTCTC
Found at i:59646421 original size:62 final size:62
Alignment explanation
Indices: 59646312--59646444 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 62
59646302 TCTCATCTCT
* * * *** * *
59646312 CTAAAGTTGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGA
1 CTAAAGATGCAATAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAATGAAGCAGA
* * *
59646374 CTAATGATGCAATAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGA
1 CTAAAGATGCAATAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAATGAAGCAGA
59646436 CTAAAGATG
1 CTAAAGATG
59646445 GCAAATCTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (62 bp):
CTAAAGATGCAATAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAATGAAGCAGA
Found at i:59646559 original size:199 final size:199
Alignment explanation
Indices: 59646182--59646563 Score: 530
Period size: 199 Copynumber: 1.9 Consensus size: 199
59646172 TCTATGATGT
* * * ** * * * *
59646182 TGCAGTAGAGTAGATCACCACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGGTCG
1 TGCAATAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGACTAAAGATCG
* * * *
59646247 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCATAGATCTCATCTCT
66 CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
* * ***
59646312 CTAAAGTTGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
131 CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
59646377 ATGA
196 ATGA
*
59646381 TGCAATAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGACTAAAGATGG
1 TGCAATAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGACTAAAGATCG
* *
59646446 CAAATCTTATCTCCATGAAGTTGCATTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTCT
66 CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
* * * * *
59646511 CTGAAGTTGTAGTAGAGCAGATCAAAACAAAACCTATCTTCTTGAAGTTGCAG
131 CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAG
59646564 AGGAGCGATA
Statistics
Matches: 157, Mismatches: 26, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
199 157 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (199 bp):
TGCAATAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAATGGAGCAGACTAAAGATCG
CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
ATGA
Found at i:59648231 original size:26 final size:26
Alignment explanation
Indices: 59648183--59648235 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
59648173 TATTTTGATG
*
59648183 TTTTATACAACATTTTGTTTATATAT
1 TTTTATACAACATTTTGTATATATAT
59648209 TTTTATAC-ACATTTATGTATATATAT
1 TTTTATACAACATTT-TGTATATATAT
59648235 T
1 T
59648236 AATTTAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATACAACATTTTGTATATATAT
Found at i:59650448 original size:12 final size:12
Alignment explanation
Indices: 59650417--59650441 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
59650407 TTGTATGTTC
59650417 TTTATTTTATTT
1 TTTATTTTATTT
59650429 TTTATTTTATTT
1 TTTATTTTATTT
59650441 T
1 T
59650442 ATTTTTTTCA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:59656503 original size:24 final size:24
Alignment explanation
Indices: 59656468--59656517 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
59656458 GGTTGTACCT
*
59656468 AAAATATGAATATATATTTTTTCA
1 AAAATATAAATATATATTTTTTCA
59656492 AAAATATAAATATATATTTTTTCA
1 AAAATATAAATATATATTTTTTCA
59656516 AA
1 AA
59656518 CTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
AAAATATAAATATATATTTTTTCA
Found at i:59656825 original size:19 final size:19
Alignment explanation
Indices: 59656797--59656833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59656787 ATTCAATAAC
59656797 CTATAACTATATATAAATA
1 CTATAACTATATATAAATA
* *
59656816 CTATATCTATCTATAAAT
1 CTATAACTATATATAAAT
59656834 GCAGGGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (19 bp):
CTATAACTATATATAAATA
Found at i:59658635 original size:28 final size:28
Alignment explanation
Indices: 59658593--59658659 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
59658583 CGTGTCCCTA
* *
59658593 GCCCGCGTTCTTCACACGGCCTTGACAC
1 GCCCGTGTCCTTCACACGGCCTTGACAC
* *
59658621 GTCCGTGTCCTTCACACGGCCTTGACAT
1 GCCCGTGTCCTTCACACGGCCTTGACAC
59658649 GCCCGTGTCCT
1 GCCCGTGTCCT
59658660 AGCCCATGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.12, C:0.40, G:0.22, T:0.25
Consensus pattern (28 bp):
GCCCGTGTCCTTCACACGGCCTTGACAC
Found at i:59659801 original size:47 final size:45
Alignment explanation
Indices: 59659650--59659818 Score: 137
Period size: 46 Copynumber: 3.6 Consensus size: 45
59659640 TCAACTTGTA
* * * * ** *
59659650 GCCGATGCATGTCCCAGACATGTCTTACACTGGCGTACATCTTGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCT-CGTCTCAAT
**
59659696 GTTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG-CCTCGTCTCAAT
* *
59659742 GCCGATACCATGTCCCAAACATGGTCTTAGACTAG-CTC-TCAT-AATGT
1 GCCGAT-GCATGTCCCAAACAT-GTCTTACACTAGCCTCGTC-TCAA--T
*
59659789 GGCCGATGCATGTCCCAGACATGTCTTACA
1 -GCCGATGCATGTCCCAAACATGTCTTACA
59659819 TTAACTCACA
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 4 0.04
46 49 0.49
47 30 0.30
48 17 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCGTCTCAAT
Found at i:59661128 original size:31 final size:31
Alignment explanation
Indices: 59661090--59661158 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
59661080 AATAGCGGTG
59661090 TTTTAGATAGTATG-AAAAATCAATAAGGG-TA
1 TTTTAGATAGTA-GCAAAAATCAAT-AGGGATA
59661121 TTTTAGATAGTAGCAAAAATCAATAGGGATA
1 TTTTAGATAGTAGCAAAAATCAATAGGGATA
*
59661152 ATTTAGA
1 TTTTAGA
59661159 CATCATAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (31 bp):
TTTTAGATAGTAGCAAAAATCAATAGGGATA
Found at i:59669909 original size:42 final size:43
Alignment explanation
Indices: 59669861--59669965 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
59669851 TGAGATTTAT
* *
59669861 GTGTAAGACCATGTCTGGGAGA-TCGACATC-ATATATGATTTC
1 GTGTAAGACCATGTCTGGGACAGT-GACATCGATATATGATTAC
* * * *
59669903 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGACATCGATATATGATTAC
*
59669946 ATGTAAGACCATGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
59669966 TGTTGGCATT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.46
43 28 0.54
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGACATCGATATATGATTAC
Found at i:59670542 original size:24 final size:23
Alignment explanation
Indices: 59670513--59670570 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 23
59670503 AGAATATGAT
59670513 TGAGACTATGGGATTTGTCTTGG
1 TGAGACTATGGGATTTGTCTTGG
59670536 TAGAGACTATGGGATTTGTCTTGG
1 T-GAGACTATGGGATTTGTCTTGG
59670560 TGTAGACTATG
1 TG-AGACTATG
59670571 TGATGGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.38
Consensus pattern (23 bp):
TGAGACTATGGGATTTGTCTTGG
Found at i:59672805 original size:13 final size:13
Alignment explanation
Indices: 59672787--59672811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59672777 AAGTAATCAC
59672787 ACACGGGCGTGTT
1 ACACGGGCGTGTT
59672800 ACACGGGCGTGT
1 ACACGGGCGTGT
59672812 CCCTGCCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:59679924 original size:16 final size:15
Alignment explanation
Indices: 59679905--59679940 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
59679895 CTTCATTAAG
59679905 TTTTTAAGACTCATT
1 TTTTTAAGACTCATT
*
59679920 TTTTTAAGATTCATT
1 TTTTTAAGACTCATT
59679935 TGTTTT
1 T-TTTT
59679941 CCTTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.61
Consensus pattern (15 bp):
TTTTTAAGACTCATT
Found at i:59687085 original size:26 final size:26
Alignment explanation
Indices: 59687062--59687114 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
59687052 CTTATTTTTT
*
59687062 TCCTCATTTTTATCTATAACTTTTAA
1 TCCTCATTTTTATCAATAACTTTTAA
59687088 TCCTCATTTTTATCAATAACTTTTAA
1 TCCTCATTTTTATCAATAACTTTTAA
59687114 T
1 T
59687115 TTTCTTATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (26 bp):
TCCTCATTTTTATCAATAACTTTTAA
Found at i:59691193 original size:24 final size:24
Alignment explanation
Indices: 59691166--59691267 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
59691156 CCATTAAGGT
* * *
59691166 GTATTCTGTAAGTTCCTTTGTGAC
1 GTATTCTATAAGTGCCTTTGTGGC
* *
59691190 GTATTCTATAAGTACCTTTCTGGC
1 GTATTCTATAAGTGCCTTTGTGGC
59691214 GTATTCTATAAGTGCCTTTGTGGC
1 GTATTCTATAAGTGCCTTTGTGGC
*
59691238 GTATTCTGTAAGTGCCTTTGTGGC
1 GTATTCTATAAGTGCCTTTGTGGC
*
59691262 ATATTC
1 GTATTC
59691268 GGGAATGCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.43
Consensus pattern (24 bp):
GTATTCTATAAGTGCCTTTGTGGC
Found at i:59692630 original size:16 final size:16
Alignment explanation
Indices: 59692609--59692642 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
59692599 AGAAATAGAA
59692609 GGCATGAAAAGAGGAG
1 GGCATGAAAAGAGGAG
59692625 GGCATGAAAAGAGGAG
1 GGCATGAAAAGAGGAG
59692641 GG
1 GG
59692643 GCTGGACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.47, T:0.06
Consensus pattern (16 bp):
GGCATGAAAAGAGGAG
Found at i:59697506 original size:22 final size:22
Alignment explanation
Indices: 59697480--59697524 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
59697470 ATTATGTGTA
59697480 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
59697502 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
59697524 T
1 T
59697525 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:59714009 original size:90 final size:90
Alignment explanation
Indices: 59713822--59714016 Score: 207
Period size: 90 Copynumber: 2.2 Consensus size: 90
59713812 GCTCCTTGCA
* * * *
59713822 CTTAAT-AAGTTCATAGCCCAGAGTTTGGGTGGTCATGTTAAGACGAACTTGATGAATTCACTAA
1 CTTAATGAA-TTCATAACCCAGAGTTTGGGTGGTCATATTAAGACGAACTTGATAAACTCACTAA
* *
59713886 ATTTATAAGATGAACTACTAGATGCT
65 ATTTATAAGATGAACCACTAAATGCT
* * * * ** * *
59713912 ATAAATGATTTCATAACCCAGGGTTTGGGTGGTCATATTAAGACGGTCTTGATAAAC-CTATTGA
1 CTTAATGAATTCATAACCCAGAGTTTGGGTGGTCATATTAAGACGAACTTGATAAACTC-ACTAA
*
59713976 ATTTATAAGAT-AAGCCACTAAATGTT
65 ATTTATAAGATGAA-CCACTAAATGCT
59714002 CTTAATGAATTCATA
1 CTTAATGAATTCATA
59714017 TCCTGTGCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
89 3 0.04
90 80 0.95
91 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (90 bp):
CTTAATGAATTCATAACCCAGAGTTTGGGTGGTCATATTAAGACGAACTTGATAAACTCACTAAA
TTTATAAGATGAACCACTAAATGCT
Found at i:59719577 original size:23 final size:23
Alignment explanation
Indices: 59719542--59719644 Score: 131
Period size: 22 Copynumber: 4.6 Consensus size: 23
59719532 TAGCTCATAT
*
59719542 GAGCTTACCGTTTCATCTCTTCAG
1 GAGCTTACCGTTTCAGCTCTTC-G
* * * *
59719566 G-GCTTACTGTTTTATCTCTACG
1 GAGCTTACCGTTTCAGCTCTTCG
59719588 GAGCTTACCG-TTCAGCTCTTCG
1 GAGCTTACCGTTTCAGCTCTTCG
59719610 GAGCTTACCG-TTCAGCTCTTCG
1 GAGCTTACCGTTTCAGCTCTTCG
59719632 GAGCTTACCGTTT
1 GAGCTTACCGTTT
59719645 ATCAGCTCAG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
22 43 0.61
23 26 0.37
24 1 0.01
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCTTCG
Found at i:59719833 original size:9 final size:9
Alignment explanation
Indices: 59719821--59719875 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
59719811 TAATAGCTAT
59719821 ATGAATTAC
1 ATGAATTAC
59719830 ATGAATT--
1 ATGAATTAC
59719837 AT-AAGTTAC
1 ATGAA-TTAC
*
59719846 ATGATTTAC
1 ATGAATTAC
*
59719855 ATGAATTAT
1 ATGAATTAC
*
59719864 ATGACTTAC
1 ATGAATTAC
59719873 ATG
1 ATG
59719876 GATAATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.05
7 4 0.11
9 30 0.81
10 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (9 bp):
ATGAATTAC
Found at i:59719872 original size:18 final size:18
Alignment explanation
Indices: 59719846--59719885 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59719836 TATAAGTTAC
* *
59719846 ATGATTTACATGAATTAT
1 ATGACTTACATGAATAAT
*
59719864 ATGACTTACATGGATAAT
1 ATGACTTACATGAATAAT
59719882 ATGA
1 ATGA
59719886 TACATGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGACTTACATGAATAAT
Found at i:59727318 original size:9 final size:9
Alignment explanation
Indices: 59727306--59727360 Score: 53
Period size: 9 Copynumber: 6.3 Consensus size: 9
59727296 TAATAGCTAT
*
59727306 ATGATTTAC
1 ATGAATTAC
59727315 ATGAATT--
1 ATGAATTAC
59727322 AT-AAGTTAC
1 ATGAA-TTAC
*
59727331 ATGATTTAC
1 ATGAATTAC
*
59727340 ATGAATTAT
1 ATGAATTAC
59727349 ATGAATTAC
1 ATGAATTAC
59727358 ATG
1 ATG
59727361 GATAATATGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
6 2 0.05
7 4 0.11
9 30 0.81
10 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (9 bp):
ATGAATTAC
Found at i:59727357 original size:18 final size:18
Alignment explanation
Indices: 59727331--59727370 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
59727321 TATAAGTTAC
* *
59727331 ATGATTTACATGAATTAT
1 ATGAATTACATGAATAAT
*
59727349 ATGAATTACATGGATAAT
1 ATGAATTACATGAATAAT
59727367 ATGA
1 ATGA
59727371 TACATGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.15, T:0.38
Consensus pattern (18 bp):
ATGAATTACATGAATAAT
Found at i:59731723 original size:46 final size:46
Alignment explanation
Indices: 59731666--59731885 Score: 316
Period size: 46 Copynumber: 4.8 Consensus size: 46
59731656 AGTGTGCTCT
*
59731666 CTGAAATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
59731712 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
59731758 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
59731804 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
59731850 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATA
1 CTGACATG-AAATGTGTAAGACCATGGTTGAAAGATA
59731886 TTATGGCATC
Statistics
Matches: 161, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 160 0.99
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:59737209 original size:49 final size:48
Alignment explanation
Indices: 59737132--59737319 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 48
59737122 TAGCCGAAAC
*
59737132 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAA
* * * * *
59737180 TAATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACGTGTGATCACAA
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATG-CAAC-CAA
* * * *
59737231 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAA
* *
59737280 TTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
59737320 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 71 0.62
50 7 0.06
51 36 0.31
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAA
Found at i:59737254 original size:100 final size:100
Alignment explanation
Indices: 59737137--59737318 Score: 328
Period size: 100 Copynumber: 1.8 Consensus size: 100
59737127 GAAACTATCT
*
59737137 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
*
59737202 TGTACTTAGTACTACACGTGTGATCACAATTTTTG
66 TGCACTTAGTACTACACGTGTGATCACAATTTTTG
* *
59737237 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
59737302 TGCACTTAGTACTACAC
66 TGCACTTAGTACTACAC
59737319 ACGTGACCTC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACGTGTGATCACAATTTTTG
Found at i:59741478 original size:26 final size:24
Alignment explanation
Indices: 59741433--59741484 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
59741423 TATTTATTTT
*
59741433 ATTTTAAATATTAATAATTATAAAA
1 ATTTTAAATATAAATAATTA-AAAA
59741458 ATTTTAAAATATCAAAT-ATTAAAAA
1 ATTTT-AAATAT-AAATAATTAAAAA
59741483 AT
1 AT
59741485 AAAGAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 11 0.46
26 10 0.42
27 3 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTTTAAATATAAATAATTAAAAA
Done.