Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 89 of 172
Found at i:29869223 original size:43 final size:43
Alignment explanation
Indices: 29869170--29869252 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
29869160 TTCAAAACAG
29869170 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
* * * *
29869213 GTAAGCATCATCGAATTTCATACTCTTCATGGCCAAATAC
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATAC
29869253 TATCTCAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (43 bp):
GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
Found at i:29878362 original size:42 final size:43
Alignment explanation
Indices: 29878255--29878410 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 43
29878245 GATCGTACAG
* * * * *
29878255 TGCCAACATCCTAGGCATGGTCTTTCATGTAATCAAATATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
*
29878298 TGCC-ACTGTCCTAGACAGGGTCTTACACGAAATCAAATA-CGA
1 TGCCAAC-GTCCTAGACATGGTCTTACACGAAATCAAATATCGA
*
29878340 TGCCAACGTCCTAAACATGGTCTTACACGTAAATACAAA-ATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACG-AAAT-CAAATATCGA
* * *
29878384 TGCCAACGTCCCAGACGTGGCCTTACA
1 TGCCAACGTCCTAGACATGGTCTTACA
29878411 TGATTTCATA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.30
43 37 0.39
44 30 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
Found at i:29878409 original size:44 final size:42
Alignment explanation
Indices: 29878255--29878410 Score: 147
Period size: 42 Copynumber: 3.6 Consensus size: 42
29878245 GATCGTACAG
* * * * * *
29878255 TGCCAACATCCTAGGCATGGTCTTTCATGTAATCAAATATCGA
1 TGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAA-ATCGA
29878298 TGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATC-AAATACGA
1 TGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAATCAAAAT-CGA
* *
29878340 TGCCAACGTCCTAAACATGGTCTTACACGTAAATACAAAATCGA
1 TGCCAACGTCCTAGACGTGGTCTTACACG-AAAT-CAAAATCGA
* *
29878384 TGCCAACGTCCCAGACGTGGCCTTACA
1 TGCCAACGTCCTAGACGTGGTCTTACA
29878411 TGATTTCATA
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 30 0.32
44 27 0.29
45 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAAATCGA
Found at i:29883169 original size:43 final size:43
Alignment explanation
Indices: 29883014--29883170 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
29883004 CATGTTATCG
* * * *
29883014 TGTAAGACCACGTCTAGGATGTTGGCATCGAGT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
29883058 TGTAAGACCATGTCAGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
** * *
29883100 TGTAAGACCTTGTCTGGGA-GAGTGGCATCGATATTTGATAACA
1 TGTAAGACCACGTCTGGGACG-TTGGCATCGATATTTGATTACA
29883143 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
29883171 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
42 27 0.31
43 37 0.42
44 24 0.27
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:29887662 original size:57 final size:58
Alignment explanation
Indices: 29887590--29887700 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
29887580 AATTTCACAT
* * * * *
29887590 ACCTGTATCTGGCCCATTAAGCCC-AATGATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
* * *
29887647 ACCTCTATATGGCCCATTAGGCCCAAATCACATTTATATAGCCCGTTAGGCCCA
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCA
29887701 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:29887664 original size:29 final size:29
Alignment explanation
Indices: 29887599--29887700 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
29887589 TACCTGTATC
* * *
29887599 TGGCCCATTAAGCCC-AATGATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATCT-ATA
*
29887627 TGGCCCATTAGGCCCAAATCACCTCTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
*
29887656 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
* *
29887685 TAGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
29887701 GTCACATTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.22
29 49 0.77
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATCTATA
Found at i:29893591 original size:94 final size:94
Alignment explanation
Indices: 29893430--29893618 Score: 378
Period size: 94 Copynumber: 2.0 Consensus size: 94
29893420 GAAAAGAGAT
29893430 ATCTTTGAATTTTCTTCTAAATGTTTGATCTGTCAGCAAGTTAAAGCTGAACATCAGGTGCCATT
1 ATCTTTGAATTTTCTTCTAAATGTTTGATCTGTCAGCAAGTTAAAGCTGAACATCAGGTGCCATT
29893495 TGGTTTGTTACAACCAATTATGATTCCAG
66 TGGTTTGTTACAACCAATTATGATTCCAG
29893524 ATCTTTGAATTTTCTTCTAAATGTTTGATCTGTCAGCAAGTTAAAGCTGAACATCAGGTGCCATT
1 ATCTTTGAATTTTCTTCTAAATGTTTGATCTGTCAGCAAGTTAAAGCTGAACATCAGGTGCCATT
29893589 TGGTTTGTTACAACCAATTATGATTCCAG
66 TGGTTTGTTACAACCAATTATGATTCCAG
29893618 A
1 A
29893619 ATGGAAATGG
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 95 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (94 bp):
ATCTTTGAATTTTCTTCTAAATGTTTGATCTGTCAGCAAGTTAAAGCTGAACATCAGGTGCCATT
TGGTTTGTTACAACCAATTATGATTCCAG
Found at i:29896097 original size:43 final size:43
Alignment explanation
Indices: 29895942--29896098 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
29895932 TGTGTTATCG
* * *
29895942 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATATCTGGGATGTTGGCATCGA-TATTTGA-TTACA
** * * *
29895986 TGTAAGACCATATCTGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
* * *
29896028 TGTAAGACGC-TGTCTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-CATATCTGGGA-TGTTGGCATCGATATTTGATTACA
**
29896071 TGTAAGACCAGGTCTGGGATGTTGGCAT
1 TGTAAGACCATATCTGGGATGTTGGCAT
29896099 TGTACAAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:29900925 original size:39 final size:39
Alignment explanation
Indices: 29900830--29901013 Score: 187
Period size: 40 Copynumber: 4.7 Consensus size: 39
29900820 TTGAATGATG
* *
29900830 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAA
*
29900869 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
* *
29900908 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AA
* *
29900948 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-A
* * * *
29900988 ACCCGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29901014 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
39 55 0.44
40 68 0.55
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:29900965 original size:79 final size:79
Alignment explanation
Indices: 29900830--29901007 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 79
29900820 TTGAATGATG
* *
29900830 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTG
29900895 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* * **
29900909 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGAC-AAATCCGGACTAAGAT-CCGAAGGCAT
*
29900971 TTGTGCGAGTTACT-AT
63 TTGTGCGAGATACTAAT
* * *
29900987 AACCCGGCTATGTCCCGAAGG
1 -TCCGGGCTAAGTCCCGAAGG
29901008 TATTTGAACG
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 17 0.20
79 59 0.70
80 8 0.10
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:29901035 original size:79 final size:79
Alignment explanation
Indices: 29900882--29901036 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
29900872 GGACTAAGAT
* * **
29900882 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCCGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
29900947 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
29900961 CCGAAGGCATTTGTGCGAGTTACT-ATAACCCGGCTATGTCCCGAAGGTATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCCGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
29901024 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
29901037 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCCGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:29907706 original size:56 final size:56
Alignment explanation
Indices: 29907622--29907752 Score: 253
Period size: 56 Copynumber: 2.3 Consensus size: 56
29907612 GAATATGATG
29907622 AAAACAAAAAAAAAAGTGTGTGATTGTTCCCCCCCATTTTGCCGAAACTAGAAAGAA
1 AAAAC-AAAAAAAAAGTGTGTGATTGTTCCCCCCCATTTTGCCGAAACTAGAAAGAA
29907679 AAAACAAAAAAAAAGTGTGTGATTGTTCCCCCCCATTTTGCCGAAACTAGAAAGAA
1 AAAACAAAAAAAAAGTGTGTGATTGTTCCCCCCCATTTTGCCGAAACTAGAAAGAA
29907735 AAAACAAAAAAAAAGTGT
1 AAAACAAAAAAAAAGTGT
29907753 CCATCTTTCT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
56 69 0.93
57 5 0.07
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (56 bp):
AAAACAAAAAAAAAGTGTGTGATTGTTCCCCCCCATTTTGCCGAAACTAGAAAGAA
Found at i:29914926 original size:20 final size:20
Alignment explanation
Indices: 29914903--29914971 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
29914893 AATGTTGGGT
29914903 AAAAAAATAACAAAAGGATG
1 AAAAAAATAACAAAAGGATG
* * * *** *
29914923 AAAAGAACAATATTCGGGT-
1 AAAAAAATAACAAAAGGATG
29914942 AAAAAAATAACAAAAGGATG
1 AAAAAAATAACAAAAGGATG
*
29914962 AAAAGAATAA
1 AAAAAAATAA
29914972 AGTTTTGTCC
Statistics
Matches: 33, Mismatches: 15, Indels: 2
0.66 0.30 0.04
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.13
Consensus pattern (20 bp):
AAAAAAATAACAAAAGGATG
Found at i:29916570 original size:27 final size:27
Alignment explanation
Indices: 29916486--29916590 Score: 117
Period size: 27 Copynumber: 3.9 Consensus size: 27
29916476 AGGAAGCGTC
* *
29916486 CTGGTGGCTATGCCATAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
29916513 CTGATGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
29916540 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
29916567 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
29916591 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.13
27 58 0.85
28 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:29920032 original size:43 final size:43
Alignment explanation
Indices: 29919862--29920017 Score: 140
Period size: 43 Copynumber: 3.6 Consensus size: 43
29919852 ATATCATACA
* * * **
29919862 ATGCCAACGTCCCAGACGTGGTCTTACAT-GTAATCACATGTTA
1 ATGCCAACGTCCCAGACATGGTCTTAC-TCGAAATCACATATCG
* * * *
29919905 ATGCC-ACTGTACCAGACAGGGTCTTACACG-AATCATAATAAT-G
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAAATCA-CAT-ATCG
* *
29919948 ATGCCGATGTCCCAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
*
29919991 ATGCCAACGTCCCAGATATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
29920018 ATGAGAACAC
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
42 9 0.10
43 75 0.82
44 7 0.08
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCG
Found at i:29921497 original size:37 final size:37
Alignment explanation
Indices: 29921438--29921539 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
29921428 AGCTCAGACG
* * *
29921438 AAATCTCCACATGAAGTTATCGGGTCTTACCCGAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
*
29921475 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
*
29921512 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
29921540 TAGAGCTCGG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGAACA
Found at i:29921981 original size:96 final size:96
Alignment explanation
Indices: 29921662--29922736 Score: 2009
Period size: 96 Copynumber: 11.3 Consensus size: 96
29921652 TCGGGACTTG
* * * * * * * * *
29921662 TCACAT-T-TATACACTTTCACATCCATCACGTCGGCCACTCGGCCCTGTCTCATATATACACTT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29921725 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29921756 TCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29921819 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29921850 TCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29921913 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29921944 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922009 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922040 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922105 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922136 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922201 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922232 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922297 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922328 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922393 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922424 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922489 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
*
29922520 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922585 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
*
29922616 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTT
1 TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
29922681 TCACATTCATCACATCGGCCATTAGGCCTTA
66 TCACATTCATCACATCGGCCATTAGGCCTTA
29922712 TCACATATATATACACTTTCACATT
1 TCACATATATATACACTTTCACATT
29922737 GATTCAAATA
Statistics
Matches: 967, Mismatches: 10, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
93 1 0.00
94 180 0.19
96 786 0.81
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (96 bp):
TCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATT
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:29926010 original size:14 final size:15
Alignment explanation
Indices: 29925984--29926012 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29925974 AAAATTAATT
29925984 CATGAAAATTTCACA
1 CATGAAAATTTCACA
29925999 CATGAAAA-TTCACA
1 CATGAAAATTTCACA
29926013 AAAAATAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
CATGAAAATTTCACA
Found at i:29926027 original size:13 final size:13
Alignment explanation
Indices: 29926009--29926033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29925999 CATGAAAATT
29926009 CACAAAAAATAAA
1 CACAAAAAATAAA
29926022 CACAAAAAATAA
1 CACAAAAAATAA
29926034 TATTAAAATA
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:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (13 bp):
CACAAAAAATAAA
Found at i:29926813 original size:43 final size:42
Alignment explanation
Indices: 29926743--29926855 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
29926733 CAATGTCAAC
* * *
29926743 GTCCCAGAT-GTGGTCTTACATGTAATCAAATATCTATGTCAG-T
1 GTCCCAGATAG-GGTCTTACACGAAATCAAATA-CGATG-CAGAT
* *
29926786 GTCCCAGATAGGGTCTTACACGAAATCATATACGATGCCGAT
1 GTCCCAGATAGGGTCTTACACGAAATCAAATACGATGCAGAT
* *
29926828 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGATAGGGTCTTACACG-AAATC
29926856 TCAAATCGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 25 0.42
43 32 0.53
44 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCCCAGATAGGGTCTTACACGAAATCAAATACGATGCAGAT
Found at i:29926843 original size:42 final size:43
Alignment explanation
Indices: 29926785--29926895 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
29926775 TCTATGTCAG
* * * *
29926785 TGTCCCAGATAGGGTCTTACACGAAA--TCATATACGATGCCGA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAAAT-CGATGCCAA
29926827 TGTCCCAGACATGGTCTTACACGTAAATCTCAAATCGATGCCAA
1 TGTCCCAGACATGGTCTTACACG-AAATCTCAAATCGATGCCAA
** *
29926871 CATCCCAAACATGGTCTTACACGAA
1 TGTCCCAGACATGGTCTTACACGAA
29926896 GTCACATCTC
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 21 0.36
43 5 0.08
44 28 0.47
45 5 0.08
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAAATCGATGCCAA
Found at i:29932419 original size:32 final size:32
Alignment explanation
Indices: 29932378--29932442 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
29932368 TAATACACCA
29932378 ATTCGACCATATCACACAGACTAATTTCAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
* *
29932410 ATTCGACCATATCACATAGACTAATTTTAGTT
1 ATTCGACCATATCACACAGACTAATTTCAGTT
29932442 A
1 A
29932443 ACATAATAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (32 bp):
ATTCGACCATATCACACAGACTAATTTCAGTT
Found at i:29933414 original size:43 final size:43
Alignment explanation
Indices: 29933355--29933456 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
29933345 TCCCAGACCT
*
29933355 GGTCTTACA--TATAATCAAATATCGATCCCACTGTCCCAAACAG
1 GGTCTTACACGTA-AATCAAATA-CGATCCCAATGTCCCAAACAG
* * * * *
29933398 GGTTTTACACG-AAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
29933440 GGTCTTACACGTAAATC
1 GGTCTTACACGTAAATC
29933457 TCAAATCGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 27 0.55
43 21 0.43
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGTAAATCAAATACGATCCCAATGTCCCAAACAG
Found at i:29933448 original size:42 final size:43
Alignment explanation
Indices: 29933336--29933498 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
29933326 AGGTCGTACA
* * *
29933336 ATGCCAACGTCCCAGACCTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGA-AATCATATATCG
* * * *
29933379 AT-CCCACTGTCCCAAACAGGGTTTTACACGAAATCATATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
29933421 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCG
* * * *
29933465 ATGCCAACATCCCAGACGTGGCCTTACATGAAAT
1 ATGCCAACGTCCCAGACATGGTCTTACACGAAAT
29933499 TACATCTCTG
Statistics
Matches: 96, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 28 0.29
43 40 0.42
44 28 0.29
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGAAATCATATATCG
Found at i:29945141 original size:30 final size:30
Alignment explanation
Indices: 29945105--29945165 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
29945095 CATTTAATAC
*
29945105 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
29945135 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
29945165 A
1 A
29945166 GGCTCGTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:29951238 original size:92 final size:92
Alignment explanation
Indices: 29951077--29951259 Score: 305
Period size: 92 Copynumber: 2.0 Consensus size: 92
29951067 GTTTGACTGC
* * *
29951077 TCTGACCTCTGTATATTACGAATCAGATATCTCTCTGTACAAAATTTCAATGACTATAAAGTTTG
1 TCTGACCTCTGTATATTACGAATCAGACATCTCTCTGTACAAAATTTCAATGACAATAAAGTTTA
29951142 TTTCTATTAAAACTAGACTCAATAAGT
66 TTTCTATTAAAACTAGACTCAATAAGT
*
29951169 TCTGACCTCTGTATATTACGAATCAGACATCTCTCTGTA-AAGAATTTCAATGACAATGAAGTTT
1 TCTGACCTCTGTATATTACGAATCAGACATCTCTCTGTACAA-AATTTCAATGACAATAAAGTTT
*
29951233 ATTTCTCTTAAAACTAGACTCAATAAG
65 ATTTCTATTAAAACTAGACTCAATAAG
29951260 GAATCTGTAA
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
91 2 0.02
92 83 0.98
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (92 bp):
TCTGACCTCTGTATATTACGAATCAGACATCTCTCTGTACAAAATTTCAATGACAATAAAGTTTA
TTTCTATTAAAACTAGACTCAATAAGT
Found at i:29954080 original size:24 final size:24
Alignment explanation
Indices: 29954053--29954099 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
29954043 ATATGTTGAC
29954053 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
29954077 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
29954100 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:29954133 original size:24 final size:24
Alignment explanation
Indices: 29954063--29954125 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
29954053 ATTCAAATCA
* * * *
29954063 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
29954087 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
29954111 GCACACATAGTGCCA
1 GCACACATAGTGCCA
29954126 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:29961552 original size:24 final size:24
Alignment explanation
Indices: 29961525--29961571 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
29961515 ATATGTTGAC
29961525 ATTCAAATCAGCACACATAGTGCT
1 ATTCAAATCAGCACACATAGTGCT
* *
29961549 ATTCAACTCCGCACACATAGTGC
1 ATTCAAATCAGCACACATAGTGC
29961572 CATACTACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (24 bp):
ATTCAAATCAGCACACATAGTGCT
Found at i:29961605 original size:24 final size:24
Alignment explanation
Indices: 29961535--29961597 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
29961525 ATTCAAATCA
* * * *
29961535 GCACACATAGTGCTATTCAACTCC
1 GCACACATAGTGCCATACTACACC
29961559 GCACACATAGTGCCATACTACACC
1 GCACACATAGTGCCATACTACACC
29961583 GCACACATAGTGCCA
1 GCACACATAGTGCCA
29961598 ATGTACACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.32, C:0.35, G:0.14, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATACTACACC
Found at i:29973588 original size:6 final size:6
Alignment explanation
Indices: 29973577--29973609 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
29973567 ATGTATTGTA
*
29973577 TTATTT TTATTT TTATTT TTATTA TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
29973610 GAACAAGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:29986171 original size:36 final size:36
Alignment explanation
Indices: 29986124--29986195 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
29986114 TCCATCGGAC
29986124 TGCTTAAGTACCAAACTCCCTTCGGATCCAATCCTA
1 TGCTTAAGTACCAAACTCCCTTCGGATCCAATCCTA
*
29986160 TGCTTAAGTACCAAGCTCCCTTCGGATCCAATCCTA
1 TGCTTAAGTACCAAACTCCCTTCGGATCCAATCCTA
29986196 AACATGCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.12, T:0.28
Consensus pattern (36 bp):
TGCTTAAGTACCAAACTCCCTTCGGATCCAATCCTA
Found at i:29989758 original size:38 final size:39
Alignment explanation
Indices: 29989714--29989790 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
29989704 AAAATAAAAG
29989714 GGGTGAGTTTGGGG-AAACTCAGTGTGTAAATTAACCCA
1 GGGTGAGTTTGGGGAAAACTCAGTGTGTAAATTAACCCA
29989752 GGGTGAGTTTGGGGAAAACTCAGTGTGTAAATTAACCCA
1 GGGTGAGTTTGGGGAAAACTCAGTGTGTAAATTAACCCA
29989791 ACCATAGCCT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 14 0.37
39 24 0.63
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (39 bp):
GGGTGAGTTTGGGGAAAACTCAGTGTGTAAATTAACCCA
Found at i:29990071 original size:27 final size:27
Alignment explanation
Indices: 29990023--29990234 Score: 215
Period size: 27 Copynumber: 7.9 Consensus size: 27
29990013 GCGAGGCTGC
* *
29990023 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* **
29990050 AAGATATTGTGGTGGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
29990076 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
29990103 -AGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
29990129 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
29990156 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
29990183 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
29990210 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
29990235 GATGCTTCCT
Statistics
Matches: 158, Mismatches: 14, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
26 31 0.20
27 122 0.77
28 5 0.03
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:29990166 original size:107 final size:108
Alignment explanation
Indices: 29990041--29990234 Score: 311
Period size: 107 Copynumber: 1.8 Consensus size: 108
29990031 GTGACGAAGT
** *
29990041 CACCAGATAAAGATATTGTGGTGGAGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAT-AG
1 CACCAGATAAAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
29990105 ATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
66 ATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
29990148 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCA
1 CACCAGATAAAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCA
*
29990212 GATAATTGTGGCATAGCCACCAG
65 GATAATCGTGGCATAGCCACCAG
29990235 GATGCTTCCT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
106 4 0.05
107 52 0.66
108 23 0.29
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (108 bp):
CACCAGATAAAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAG
ATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:29990183 original size:54 final size:54
Alignment explanation
Indices: 29990065--29990234 Score: 315
Period size: 54 Copynumber: 3.2 Consensus size: 54
29990055 ATTGTGGTGG
* *
29990065 AGCCACCAGAATAGATATATGTGGCAGAGCCACCAGAT-AGATAATCGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
29990118 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
29990172 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
1 AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
29990226 AGCCACCAG
1 AGCCACCAG
29990235 GATGCTTCCT
Statistics
Matches: 114, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
53 37 0.32
54 77 0.68
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
AGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCAT
Found at i:29991884 original size:26 final size:26
Alignment explanation
Indices: 29991853--29991908 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
29991843 TGAAATGCCC
29991853 ATCATGGAACATTTACCTAAAC-CATT
1 ATCATGGAACATTTACCT-AACTCATT
29991879 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACTCATT
29991905 ATCA
1 ATCA
29991909 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACTCATT
Found at i:29996175 original size:5 final size:5
Alignment explanation
Indices: 29996155--29996189 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
29996145 AATAATCATA
29996155 AAAAT AAAACT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAA
29996190 TAGACTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 22 0.79
6 2 0.07
7 4 0.14
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:29997913 original size:21 final size:21
Alignment explanation
Indices: 29997854--29997914 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
29997844 ATACACTAAG
*
29997854 AATAATAA-ATAATAAAGCAAT
1 AATAATAATATAATAAA-TAAT
*
29997875 AA-AATATTATAACT-AATAAT
1 AATAATAATATAA-TAAATAAT
29997895 AATAATAATATAATAAATAA
1 AATAATAATATAATAAATAA
29997915 ATAAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 10 0.30
21 22 0.67
22 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAATAATATAATAAATAAT
Found at i:30001826 original size:14 final size:14
Alignment explanation
Indices: 30001809--30001835 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30001799 AAAAACAAAC
30001809 AAAACAAAAATTAG
1 AAAACAAAAATTAG
30001823 AAAACAAAAATTA
1 AAAACAAAAATTA
30001836 AACTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAACAAAAATTAG
Found at i:30006606 original size:13 final size:12
Alignment explanation
Indices: 30006588--30006646 Score: 57
Period size: 13 Copynumber: 4.7 Consensus size: 12
30006578 CATAAAATAA
30006588 AAAAATATTTCTT
1 AAAAATATTT-TT
30006601 AAAAATAATTTTT
1 AAAAAT-ATTTTT
*
30006614 AAAAACACTTTTT
1 AAAAATA-TTTTT
30006627 AAAAACT-TTTTT
1 AAAAA-TATTTTT
*
30006639 AGAAATAT
1 AAAAATAT
30006647 CGCTAAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
11 1 0.03
12 11 0.28
13 23 0.59
14 4 0.10
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (12 bp):
AAAAATATTTTT
Found at i:30011364 original size:23 final size:23
Alignment explanation
Indices: 30011337--30011387 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
30011327 TTCGATGCAT
* *
30011337 TAACAAAT-AGGTTTCTCATGTAG
1 TAACAAATAAGG-TTCGCATGTAA
*
30011360 TAACAGATAAGGTTCGCATGTAA
1 TAACAAATAAGGTTCGCATGTAA
30011383 TAACA
1 TAACA
30011388 GTTTGGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (23 bp):
TAACAAATAAGGTTCGCATGTAA
Found at i:30011424 original size:21 final size:21
Alignment explanation
Indices: 30011395--30011458 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
30011385 ACAGTTTGGG
30011395 GCTCACATGTCATAACCTAGA
1 GCTCACATGTCATAACCTAGA
* * * *
30011416 GCTCGCATGTAATAACATAGGGG
1 GCTCACATGTCATAACCTA--GA
*
30011439 GTTCACATGTCATAACCTAG
1 GCTCACATGTCATAACCTAG
30011459 GGTTCACGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 17 0.52
23 16 0.48
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
GCTCACATGTCATAACCTAGA
Found at i:30011455 original size:44 final size:44
Alignment explanation
Indices: 30011370--30011535 Score: 217
Period size: 44 Copynumber: 3.8 Consensus size: 44
30011360 TAACAGATAA
** *
30011370 GGTTCGCATGTAATAACAGTTTGGGGCTCACATGTCATAACCTAG
1 GGTTCGCATGTAATAACA-TAGGGGGTTCACATGTCATAACCTAG
* *
30011415 AGCTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
1 GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
* * *
30011459 GGTTCACGTGTAATAACATAGGGGGTTCGCATGTCATAACCTAG
1 GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
**
30011503 GGTTCAG-ATGTAATAACATAAAGGGTTCACATG
1 GGTTC-GCATGTAATAACATAGGGGGTTCACATG
30011536 ATTAAACAAA
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
44 89 0.85
45 16 0.15
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
GGTTCGCATGTAATAACATAGGGGGTTCACATGTCATAACCTAG
Found at i:30011463 original size:21 final size:21
Alignment explanation
Indices: 30011343--30011535 Score: 116
Period size: 23 Copynumber: 8.7 Consensus size: 21
30011333 GCATTAACAA
* * *
30011343 ATAGGTTTCTCATGTAGTAAC
1 ATAGGGTTCACATGTAATAAC
* *
30011364 AGATAAGGTTCGCATGTAATAAC
1 --ATAGGGTTCACATGTAATAAC
* * *
30011387 AGTTTGGGGCTCACATGTCATAAC
1 A---TAGGGTTCACATGTAATAAC
* * * *
30011411 CTAGAGCTCGCATGTAATAAC
1 ATAGGGTTCACATGTAATAAC
*
30011432 ATAGGGGGTTCACATGTCATAAC
1 ATA--GGGTTCACATGTAATAAC
* *
30011455 CTAGGGTTCACGTGTAATAAC
1 ATAGGGTTCACATGTAATAAC
* *
30011476 ATAGGGGGTTCGCATGTCATAAC
1 ATA--GGGTTCACATGTAATAAC
* *
30011499 CTAGGGTTCAGATGTAATAAC
1 ATAGGGTTCACATGTAATAAC
30011520 ATAAAGGGTTCACATG
1 AT--AGGGTTCACATG
30011536 ATTAAACAAA
Statistics
Matches: 129, Mismatches: 32, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
21 53 0.41
23 61 0.47
24 15 0.12
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (21 bp):
ATAGGGTTCACATGTAATAAC
Found at i:30011543 original size:23 final size:23
Alignment explanation
Indices: 30011517--30011580 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 23
30011507 CAGATGTAAT
* *
30011517 AACATAAAGGGTTCACATGATTA
1 AACATAAAGGGTTCACATAAATA
*
30011540 AACA-AATAGGGTTCGCATAAATA
1 AACATAA-AGGGTTCACATAAATA
*
30011563 TAC-TAAA-GGTTCACATAA
1 AACATAAAGGGTTCACATAA
30011581 TGAATCCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
21 10 0.29
22 3 0.09
23 21 0.62
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (23 bp):
AACATAAAGGGTTCACATAAATA
Found at i:30024701 original size:22 final size:22
Alignment explanation
Indices: 30024648--30024710 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
30024638 TCAAATTGAT
*
30024648 CACACGGGCATGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
**
30024670 CACACGGGCGTGTTGCCTTTTC
1 CACACGGGCGTGTTGCCCCTTC
*
30024692 CACACGGGCGT-ATGCCCCT
1 CACACGGGCGTGTTGCCCCT
30024711 GTGTCAAGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.13, C:0.38, G:0.25, T:0.24
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:30028777 original size:54 final size:54
Alignment explanation
Indices: 30028680--30028824 Score: 211
Period size: 54 Copynumber: 2.7 Consensus size: 54
30028670 TGGAGGAAGC
* *
30028680 GTCCTAGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
*
30028735 GTCCTGGTGGCTATGCTACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
30028789 ATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
30028825 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 6 0.07
54 57 0.70
55 19 0.23
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:30028821 original size:27 final size:27
Alignment explanation
Indices: 30028686--30028842 Score: 153
Period size: 27 Copynumber: 5.8 Consensus size: 27
30028676 AAGCGTCCTA
* *
30028686 GTGGCTATGCCACAATTTATCT-AATCTG
1 GTGGCTCTGCCACAA--TATCTGTATCTG
*
30028714 GTGGCTCTGCCACATATATCTGT-CCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
* *
30028741 GTGGCTATGCTACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
*
30028768 GTGGCTCTGCCACATATATCTAT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
30028795 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
30028822 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
30028843 GCAGCCTCGC
Statistics
Matches: 109, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.08
27 85 0.78
28 14 0.13
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:30029837 original size:16 final size:16
Alignment explanation
Indices: 30029807--30029836 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30029797 TGGGTTTACA
30029807 AAAAACAAAGATTTTC
1 AAAAACAAAGATTTTC
30029823 AAAAACAAA-ATTTT
1 AAAAACAAAGATTTT
30029837 TTTTACGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (16 bp):
AAAAACAAAGATTTTC
Found at i:30036639 original size:40 final size:40
Alignment explanation
Indices: 30036555--30036779 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
30036545 TTGAATGATG
* * * *
30036555 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
30036595 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30036635 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30036674 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30036714 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30036755 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30036780 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30036801 original size:119 final size:119
Alignment explanation
Indices: 30036555--30036802 Score: 281
Period size: 119 Copynumber: 2.1 Consensus size: 119
30036545 TTGAATGATG
* *
30036555 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
30036620 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
30036674 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
30036737 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
30036794 TCC-GGTTAA
1 TCCGGGTTAA
30036803 ATTCTGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 75 0.69
120 31 0.28
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:30039549 original size:54 final size:54
Alignment explanation
Indices: 30039450--30039594 Score: 229
Period size: 54 Copynumber: 2.7 Consensus size: 54
30039440 TGGAGGAAGC
*
30039450 GTCCTAGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTAGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCT
30039505 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
30039559 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTAGTGGCTATGCCACAATTATCTG-ATCTGGTG
30039595 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
53 6 0.07
54 58 0.68
55 21 0.25
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (54 bp):
GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:30039590 original size:32 final size:27
Alignment explanation
Indices: 30039456--30039594 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
30039446 AAGCGTCCTA
* * *
30039456 GTGGCTATGCCACAATTTATCTAATCTG
1 GTGGCTCTGCCAC-ATATATCTGATCTG
*
30039484 GTGGCTCTGCCACATATATCTG-TCCTA
1 GTGGCTCTGCCACATATATCTGAT-CTG
*
30039511 GTGGCTATGCCACA-ATTATCTGATCTG
1 GTGGCTCTGCCACATA-TATCTGATCTG
*
30039538 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACATATATCTGATCTG
30039565 GTGGCTCTGCCACA-ATATCTGTATCTG
1 GTGGCTCTGCCACATATATCTG-ATCTG
30039592 GTG
1 GTG
30039595 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
26 9 0.09
27 74 0.76
28 14 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACATATATCTGATCTG
Found at i:30039591 original size:27 final size:27
Alignment explanation
Indices: 30039456--30039612 Score: 162
Period size: 27 Copynumber: 5.8 Consensus size: 27
30039446 AAGCGTCCTA
* *
30039456 GTGGCTATGCCACAATTTATCT-AATCTG
1 GTGGCTCTGCCACAA--TATCTGTATCTG
* *
30039484 GTGGCTCTGCCACATATATCTGT-CCTA
1 GTGGCTCTGCCACA-ATATCTGTATCTG
*
30039511 GTGGCTATGCCACAATTATCTG-ATCTG
1 GTGGCTCTGCCACAA-TATCTGTATCTG
30039538 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACA-ATATCTGTATCTG
30039565 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
30039592 GTGACT-TCGTCACAATATCTG
1 GTGGCTCT-GCCACAATATCTG
30039613 GTAGCCTCGC
Statistics
Matches: 111, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
26 10 0.09
27 86 0.77
28 14 0.13
29 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:30039606 original size:81 final size:81
Alignment explanation
Indices: 30039456--30039612 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
30039446 AAGCGTCCTA
* *
30039456 GTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTATGC
1 GTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTATGC
30039521 CACAATTATCTGATCTG
66 CACAA-TATCTGATCTG
* ** * *
30039538 GTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-TC
1 GTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTAGTGACTAT-
*
30039600 GTCACAATATCTG
64 GCCACAATATCTG
30039613 GTAGCCTCGC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 15 0.23
81 38 0.58
82 12 0.18
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (81 bp):
GTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTATGC
CACAATATCTGATCTG
Found at i:30044337 original size:16 final size:16
Alignment explanation
Indices: 30044316--30044367 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
30044306 AGTATAAACT
30044316 CACATGTAACCAAATA
1 CACATGTAACCAAATA
** *
30044332 CACATGCTCAATATAAATT
1 CACATG-T-AA-CCAAATA
30044351 CACATGTAACCAAATA
1 CACATGTAACCAAATA
30044367 C
1 C
30044368 TCAAGTTTGA
Statistics
Matches: 27, Mismatches: 6, Indels: 6
0.69 0.15 0.15
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 3 0.11
19 10 0.37
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (16 bp):
CACATGTAACCAAATA
Found at i:30044382 original size:35 final size:35
Alignment explanation
Indices: 30044300--30044372 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
30044290 GTATATATAT
*
30044300 AAGCTCAGTATAAACTCACATGTAACCAAATACAC
1 AAGCTCAATATAAACTCACATGTAACCAAATACAC
* * *
30044335 ATGCTCAATATAAATTCACATGTAACCAAATACTC
1 AAGCTCAATATAAACTCACATGTAACCAAATACAC
30044370 AAG
1 AAG
30044373 TTTGATATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.23
Consensus pattern (35 bp):
AAGCTCAATATAAACTCACATGTAACCAAATACAC
Found at i:30049230 original size:38 final size:38
Alignment explanation
Indices: 30049188--30049321 Score: 169
Period size: 38 Copynumber: 3.5 Consensus size: 38
30049178 ATTTTCAATT
* *
30049188 ATAGCTCTTATAAGCAAACTGGCATGTTAACGGATGGA
1 ATAGCTCTTATAAGCAAACTGGCATGTTATCAGATGGA
* * * ** *
30049226 ATAGCTCTTATGAGAAAATTGGCATGTTATCCTATAGA
1 ATAGCTCTTATAAGCAAACTGGCATGTTATCAGATGGA
* *
30049264 ATAACTCTTATAAGCAAATTGGCATGTTATCAGATGGA
1 ATAGCTCTTATAAGCAAACTGGCATGTTATCAGATGGA
*
30049302 ATAGCTCTTATGAGCAAACT
1 ATAGCTCTTATAAGCAAACT
30049322 AGTGTGTTTC
Statistics
Matches: 80, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 80 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (38 bp):
ATAGCTCTTATAAGCAAACTGGCATGTTATCAGATGGA
Found at i:30050512 original size:32 final size:32
Alignment explanation
Indices: 30050476--30050538 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
30050466 GTGTTACATA
*
30050476 AATGTATTTGAACAACCATATGTCGAAATTCT
1 AATGTATTTGAACAACCATATGTCCAAATTCT
* *
30050508 AATGTATTTGGACAACTATATGTCCAAATTC
1 AATGTATTTGAACAACCATATGTCCAAATTC
30050539 ATTCTTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
AATGTATTTGAACAACCATATGTCCAAATTCT
Found at i:30051344 original size:27 final size:30
Alignment explanation
Indices: 30051284--30051355 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
30051274 TTAATATAAT
* *
30051284 ATTTTGTACCTAAATTTGATTTTTTTTCCTA
1 ATTTGGTACCTAAATTT-ATTTTTGTTCCTA
30051315 ATTTGGTACCTAAATTT-TTTTTGTT-C-A
1 ATTTGGTACCTAAATTTATTTTTGTTCCTA
*
30051342 ATTTGGTACATAAA
1 ATTTGGTACCTAAA
30051356 CTTGTCAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 14 0.37
28 1 0.03
29 7 0.18
31 16 0.42
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (30 bp):
ATTTGGTACCTAAATTTATTTTTGTTCCTA
Found at i:30051482 original size:23 final size:22
Alignment explanation
Indices: 30051451--30051493 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
30051441 GTGGCAGATG
*
30051451 ACATGTAATTTCTTTTTTTTAAA
1 ACATGTAATTT-TTTATTTTAAA
*
30051474 ACATTTAATTTTTTATTTTA
1 ACATGTAATTTTTTATTTTA
30051494 TTAATTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
ACATGTAATTTTTTATTTTAAA
Found at i:30061178 original size:16 final size:16
Alignment explanation
Indices: 30061154--30061227 Score: 82
Period size: 17 Copynumber: 4.6 Consensus size: 16
30061144 CTTCTATTTC
*
30061154 AAAA-AAAAAGAAAAA
1 AAAAGAAAAAGAGAAA
30061169 GAAAAGAAAAAGAGAAA
1 -AAAAGAAAAAGAGAAA
*
30061186 AAAATATAAAA-AGAAAA
1 AAAAGA-AAAAGAG-AAA
30061203 AAAAGAAAAA-AGAAA
1 AAAAGAAAAAGAGAAA
30061218 AAAAGAAAAA
1 AAAAGAAAAA
30061228 TGGAGAAGCC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
15 13 0.25
16 17 0.33
17 22 0.42
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAAGAAAAAGAGAAA
Found at i:30061184 original size:8 final size:8
Alignment explanation
Indices: 30061156--30061227 Score: 74
Period size: 8 Copynumber: 8.6 Consensus size: 8
30061146 TCTATTTCAA
30061156 AAAAAAAG
1 AAAAAAAG
30061164 AAAAAGAAAAG
1 --AAA-AAAAG
*
30061175 AAAAAGAG
1 AAAAAAAG
*
30061183 AAAAAAAT
1 AAAAAAAG
*
30061191 ATAAAAAG
1 AAAAAAAG
30061199 AAAAAAA-
1 AAAAAAAG
30061206 AGAAAAAAG
1 A-AAAAAAG
30061215 AAAAAAAG
1 AAAAAAAG
30061223 AAAAA
1 AAAAA
30061228 TGGAGAAGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
7 1 0.02
8 40 0.75
9 4 0.08
10 3 0.06
11 5 0.09
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (8 bp):
AAAAAAAG
Found at i:30061227 original size:6 final size:6
Alignment explanation
Indices: 30061154--30061219 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
30061144 CTTCTATTTC
* *
30061154 AAAA-A AAAAGA AAAAG- AAAAGA AAAAGA GAAAA-A AATATA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAAGA AAAAGA AAAAGA
*
30061200 AAAA-A AAGA-A AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAA
30061220 AAGAAAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
5 20 0.39
6 27 0.53
7 4 0.08
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:30062515 original size:44 final size:44
Alignment explanation
Indices: 30062459--30062546 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
30062449 TTTCGCGTGC
*
30062459 TTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
1 TTACACTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
*
30062503 TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
1 TTACACTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
30062547 CAGAGAACAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.36
Consensus pattern (44 bp):
TTACACTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
Found at i:30062697 original size:249 final size:249
Alignment explanation
Indices: 30062254--30062751 Score: 987
Period size: 249 Copynumber: 2.0 Consensus size: 249
30062244 TTTCGCGTGC
*
30062254 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
1 TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
30062319 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
66 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
30062384 AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAAACATAGCTTATTTGGT
131 AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAAACATAGCTTATTTGGT
30062449 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
196 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
30062503 TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
1 TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
30062568 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
66 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
30062633 AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAAACATAGCTTATTTGGT
131 AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAAACATAGCTTATTTGGT
30062698 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
196 TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
30062752 CAGAGAATAA
Statistics
Matches: 248, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
249 248 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (249 bp):
TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAAACATAGCTTATTTGGT
TTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGT
Found at i:30063015 original size:204 final size:205
Alignment explanation
Indices: 30062503--30063177 Score: 1050
Period size: 205 Copynumber: 3.3 Consensus size: 205
30062493 TCTGTATTGT
* *
30062503 TTACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
1 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
30062568 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
66 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * ** * *
30062633 AGATCCAAGATGGTTTGGCATCCTTGTTCTTACACTGAGCAAATCGAAA-ACATAGCTTATTTGG
131 AGATCCAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATC-AAAGACATAGCTGATTTGG
30062697 TTTTCGCGTGC
195 TTTTCGCGTGC
* * *
30062708 TTACGCTGAAGCAAATCTAAGATGATTTGCCATCTCTGTATTGTCAGAGAATAAATCGAAGTCTG
1 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
* * * * * *
30062773 GCATCTCTATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTTAGATGTTTATACTGAAGC
66 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
30062838 AAATCCAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGG-
131 AGATCCAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGT
* *
30062902 CTTCACGTGC
196 TTTCGCGTGC
* *
30062912 TTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATTGAAGTTTG
1 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
30062977 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
66 GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
* * *
30063042 AGATCCAAGATGGTTTGGA-ATCCTTGTGCTTACAAGGAACAAATCGAAGGCATAGCAGATTTGG
131 AGATCCAAGATGGTTT-GACATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGG
*
30063106 TTTTTGCGTGC
195 TTTTCGCGTGC
* * *
30063117 TTATGCTGAGGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
1 TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
30063178 AAACAGATTT
Statistics
Matches: 424, Mismatches: 43, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
204 187 0.44
205 237 0.56
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (205 bp):
TTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTG
GCATCTCCATTTCGGCGGAGAGTAGATATATCGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGGT
TTTCGCGTGC
Found at i:30063359 original size:86 final size:86
Alignment explanation
Indices: 30063247--30063410 Score: 199
Period size: 86 Copynumber: 1.9 Consensus size: 86
30063237 TCATAAGTTT
* * *
30063247 ACAAGAAGCAAATTAAAGACATAGCAGATCTGACCTTCA-GATGATTTTA-CTG-AGCAGATCCA
1 ACAAGAAGAAAATCAAAGACACAGCAGATCTGACCTTCACG-TG--TTTACCTGAAGCAGATCCA
30063309 AGATGATTTGGCATCCTTGTGTTC
63 AGATGATTTGGCATCCTTGTGTTC
* * * * *
30063333 ACAAGGAGAAAATCAAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAG
1 ACAAGAAGAAAATCAAAGACACAGCAGATCTGACCTTCACGTGTTTAC-CTGAAGCAGATCCAAG
30063398 ATGATTTGGCATC
65 ATGATTTGGCATC
30063411 TCTGTATTGT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
84 4 0.06
86 37 0.56
87 25 0.38
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (86 bp):
ACAAGAAGAAAATCAAAGACACAGCAGATCTGACCTTCACGTGTTTACCTGAAGCAGATCCAAGA
TGATTTGGCATCCTTGTGTTC
Found at i:30063832 original size:17 final size:17
Alignment explanation
Indices: 30063812--30063845 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30063802 AAGGATATGC
30063812 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
30063829 AATCTTAGATATGATAT
1 AATCTTAGATATGATAT
30063846 TATATGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (17 bp):
AATCTTAGATATGATAT
Found at i:30071768 original size:10 final size:10
Alignment explanation
Indices: 30071753--30071831 Score: 69
Period size: 10 Copynumber: 8.0 Consensus size: 10
30071743 TAATACAGGG
30071753 AATAATATAT
1 AATAATATAT
30071763 AATAATATAT
1 AATAATATAT
*
30071773 GATAAGTA-AT
1 AATAA-TATAT
30071783 AA-AATATAT
1 AATAATATAT
*
30071792 AAATAAAATAT
1 -AATAATATAT
30071803 AATGAA-ATAT
1 AAT-AATATAT
30071813 AAATAA-ATAT
1 -AATAATATAT
30071823 AATAA-ATAT
1 AATAATATAT
30071832 CATATAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 13
0.79 0.04 0.17
Matches are distributed among these distances:
8 2 0.03
9 13 0.22
10 32 0.53
11 13 0.22
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
AATAATATAT
Found at i:30071784 original size:17 final size:16
Alignment explanation
Indices: 30071761--30071842 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 16
30071751 GGAATAATAT
30071761 ATAATAATATATGATAA
1 ATAATAATATAT-ATAA
* *
30071778 GTAATAAAATATATAA
1 ATAATAATATATATAA
30071794 ATAA-AATATA-ATGAA
1 ATAATAATATATAT-AA
*
30071809 AT-ATAA-ATA-A-AT
1 ATAATAATATATATAA
30071821 ATAATAAATATCATATAA
1 ATAAT-AATAT-ATATAA
30071839 ATAA
1 ATAA
30071843 GGATAATATA
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 9 0.18
15 13 0.25
16 8 0.16
17 11 0.22
18 5 0.10
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (16 bp):
ATAATAATATATATAA
Found at i:30071804 original size:20 final size:22
Alignment explanation
Indices: 30071779--30071842 Score: 78
Period size: 24 Copynumber: 2.9 Consensus size: 22
30071769 ATATGATAAG
30071779 TAATAAAATATATAAATAAAATA
1 TAATAAAATATATAAAT-AAATA
*
30071802 TAAT-GAA-ATATAAATAAATA
1 TAATAAAATATATAAATAAATA
30071822 TAATAAATATCATATAAATAA
1 TAATAAA-AT-ATATAAATAA
30071843 GGATAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
22 3 0.09
23 4 0.11
24 10 0.29
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAATAAAATATATAAATAAATA
Found at i:30071812 original size:21 final size:19
Alignment explanation
Indices: 30071753--30071841 Score: 74
Period size: 20 Copynumber: 4.4 Consensus size: 19
30071743 TAATACAGGG
30071753 AATAATATATAAT-AATATA
1 AATAA-ATATAATAAATATA
* *
30071772 TGATAAGTAATAA-AATATATA
1 -AATAAAT-ATAATAA-ATATA
30071793 AATAAAATATAATGAAATATA
1 AAT-AAATATAAT-AAATATA
30071814 AATAAATATAATAAATATCA
1 AATAAATATAATAAATAT-A
*
30071834 TATAAATA
1 AATAAATA
30071842 AGGATAATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
19 7 0.12
20 32 0.56
21 16 0.28
22 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (19 bp):
AATAAATATAATAAATATA
Found at i:30071826 original size:15 final size:15
Alignment explanation
Indices: 30071780--30071852 Score: 57
Period size: 15 Copynumber: 5.0 Consensus size: 15
30071770 TATGATAAGT
30071780 AATAAA-AT-ATATA
1 AATAAATATAATATA
30071793 AATAAAATATAATGA-A
1 AAT-AAATATAAT-ATA
30071809 ATATAAATA-AATAT-
1 A-ATAAATATAATATA
*
30071823 AATAAATATCATATA
1 AATAAATATAATATA
**
30071838 AATAAGGATAATATA
1 AATAAATATAATATA
30071853 TACATACTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
13 10 0.21
14 9 0.19
15 17 0.35
16 9 0.19
17 3 0.06
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (15 bp):
AATAAATATAATATA
Found at i:30071848 original size:24 final size:23
Alignment explanation
Indices: 30071779--30071858 Score: 69
Period size: 24 Copynumber: 3.6 Consensus size: 23
30071769 ATATGATAAG
*
30071779 TAATAAA-ATATATAAATAAA-A
1 TAATAAATACATATAAATAAAGA
* *
30071800 T-AT-AATGAAATATAAATAAATA
1 TAATAAAT-ACATATAAATAAAGA
*
30071822 TAATAAATATCATATAAATAAGGA
1 TAATAAATA-CATATAAATAAAGA
*
30071846 TAATATATACATA
1 TAATAAATACATA
30071859 CTATTATTTA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.04
20 2 0.04
21 13 0.27
22 2 0.04
23 7 0.15
24 22 0.46
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (23 bp):
TAATAAATACATATAAATAAAGA
Found at i:30071930 original size:22 final size:23
Alignment explanation
Indices: 30071905--30071958 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
30071895 TCTAGACAAT
*
30071905 TAATGAATAATAAAAT-AATACA
1 TAATGAATAATAAAATAAAAACA
**
30071927 TAATTTATAATAAAATAAAAACA
1 TAATGAATAATAAAATAAAAACA
*
30071950 TAAGGAATA
1 TAATGAATA
30071959 GTATATATAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.28
Consensus pattern (23 bp):
TAATGAATAATAAAATAAAAACA
Found at i:30072024 original size:12 final size:12
Alignment explanation
Indices: 30071993--30072054 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
30071983 TAATAAAATT
30071993 TATAAATAA-AA
1 TATAAATAATAA
*
30072004 TGTATAATAATAA
1 TATA-AATAATAA
30072017 TATAAATAAT-A
1 TATAAATAATAA
**
30072028 TAATGGATAAT-A
1 T-ATAAATAATAA
30072040 TATAAATAATAA
1 TATAAATAATAA
30072052 TAT
1 TAT
30072055 TTTATATAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
11 12 0.29
12 24 0.59
13 5 0.12
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
TATAAATAATAA
Found at i:30072044 original size:7 final size:7
Alignment explanation
Indices: 30071960--30072092 Score: 54
Period size: 7 Copynumber: 20.0 Consensus size: 7
30071950 TAAGGAATAG
30071960 TATAT-A
1 TATATAA
30071966 TA-ATAA
1 TATATAA
* *
30071972 CATATAG
1 TATATAA
30071979 TATATAA
1 TATATAA
30071986 TA-A-AA
1 TATATAA
*
30071991 TTTATAA
1 TATATAA
*
30071998 -ATAAAA
1 TATATAA
*
30072004 TGTATAA
1 TATATAA
30072011 TA-ATAA
1 TATATAA
30072017 TATA-AA
1 TATATAA
30072023 TAATATAA
1 T-ATATAA
**
30072031 TGGATAA
1 TATATAA
30072038 TATATAA
1 TATATAA
30072045 -ATAATAA
1 TAT-ATAA
* *
30072052 TATTTTA
1 TATATAA
30072059 TATAACTAA
1 TAT-A-TAA
*
30072068 TATTTAA
1 TATATAA
30072075 -A-A-AA
1 TATATAA
*
30072079 TAAATAA
1 TATATAA
30072086 TATATAA
1 TATATAA
30072093 GGTATTTAAT
Statistics
Matches: 91, Mismatches: 21, Indels: 29
0.65 0.15 0.21
Matches are distributed among these distances:
4 2 0.02
5 6 0.07
6 23 0.25
7 50 0.55
8 5 0.05
9 5 0.05
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (7 bp):
TATATAA
Found at i:30073693 original size:44 final size:44
Alignment explanation
Indices: 30073642--30073758 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 44
30073632 AAACTTAGGA
* *
30073642 ATACCAAATCTGTTATCTTCGATCTGTTCTCTGACAATACAGAG
1 ATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
* * *
30073686 ATGCCAAACCTGCTATCTTCGATCTGCTCTCTGACAATATAGAG
1 ATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
30073730 ATACCAAATCTGCTATCTTCGATCTGCTC
1 ATACCAAATCTGCTATCTTCGATCTGCTC
30073759 CTTGTAAACG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (44 bp):
ATACCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
Found at i:30074033 original size:222 final size:218
Alignment explanation
Indices: 30073733--30074164 Score: 657
Period size: 222 Copynumber: 2.0 Consensus size: 218
30073723 TATAGAGATA
* *
30073733 CCAAATCTGCTATCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTGCT
1 CCAAATCTGCTATCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACT
* *
30073798 TCGATGCGAAAACATCCGAATGTTAGATCTACTATATCTTCGATCTACTCTCCGTCGAATATGGA
66 TCGATGCGAAAACATCCGAAGGTTAGATCTACTATATCTTCGATCTACTCTCCGTCGAATACGGA
* * *
30073863 GGTTCCAAATCTGTTCCTTCGATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCT
131 GATGCCAAATCTGTTCCTTCAATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATC-
30073928 TGCTTCAGCGTAAACATGTGAAAG
195 TGCTTCAGCGTAAACATGTGAAAG
* *
30073952 CCAAATCTGCTATGTCTTCTATCTACTCCTTGTAAAACGCAAGGATGCCAAATCATCTTGTATCT
1 CCAAATCTGCTA--TCTTCGATCTACTCCTTGT-AAACGCAAGGATGCCAAATCATCTTGGATCT
* ** * * *
30074017 ACTTCGATGTGAAAACATCCGAAGGTTAGATCTGTTATGTCTTCGATCTGCTTTCCGTCGAATAC
63 ACTTCGATGCGAAAACATCCGAAGGTTAGATCTACTATATCTTCGATCTACTCTCCGTCGAATAC
* * *
30074082 GGAGATGCCAAATCTGTTTCTTCAATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTGGA
128 GGAGATGCCAAATCTGTTCCTTCAATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGA
*
30074147 TCTGCTTCAGTGTAAACA
193 TCTGCTTCAGCGTAAACA
30074165 CCTGAAGGTC
Statistics
Matches: 191, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
219 12 0.06
221 32 0.17
222 147 0.77
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (218 bp):
CCAAATCTGCTATCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACT
TCGATGCGAAAACATCCGAAGGTTAGATCTACTATATCTTCGATCTACTCTCCGTCGAATACGGA
GATGCCAAATCTGTTCCTTCAATTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATCT
GCTTCAGCGTAAACATGTGAAAG
Found at i:30083094 original size:241 final size:241
Alignment explanation
Indices: 30082671--30083109 Score: 770
Period size: 241 Copynumber: 1.8 Consensus size: 241
30082661 GTCGCCAAGC
*
30082671 TGTCGAAATCCACTTTTAAAAGGCAAAAGGTATTTTGAAAACGGGAGTCGTCACCAACCTTTTAA
1 TGTCGAAATCCACTTTTAAAAGGCAAAAGGTATTTTGAAAACGGGAGTCGCCACCAACCTTTTAA
* * * *
30082736 AGTGTGATTGGATCACCTTATAAAACACTTTGGTCTACGAAATTATGAGAAAACGAGCTCGGGAG
66 AGTGTAATTGGATCACCTTATAAAACACTTTAGTCTAAGAAATTATAAGAAAACGAGCTCGGGAG
30082801 TCAGTTACGTACGAGGAAGGGTTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATTGAATAAT
131 TCAGTTACGTACGAGGAAGGGTTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATTGAATAAT
30082866 TTTTCAAACTCTCTAGAAAAAATTGTTCCCTACTTCTTTTTGTTAT
196 TTTTCAAACTCTCTAGAAAAAATTGTTCCCTACTTCTTTTTGTTAT
* *
30082912 TGTCGAACTCCACTTTTAAAAGGCAAAGGGTATTTTGAAAACGGGAGTCGCCACCAACCTTTTAA
1 TGTCGAAATCCACTTTTAAAAGGCAAAAGGTATTTTGAAAACGGGAGTCGCCACCAACCTTTTAA
* * * *
30082977 AGTGTAATTGGATTACCTTATAAAATACTTTAGTCTAAGAAATTATAAGAAAACGGGCTTGGGAG
66 AGTGTAATTGGATCACCTTATAAAACACTTTAGTCTAAGAAATTATAAGAAAACGAGCTCGGGAG
*
30083042 TCGGTTACGTACGAGGAAGGGTTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATTGAATAAT
131 TCAGTTACGTACGAGGAAGGGTTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATTGAATAAT
30083107 TTT
196 TTT
30083110 ATCTTAATGT
Statistics
Matches: 186, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
241 186 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (241 bp):
TGTCGAAATCCACTTTTAAAAGGCAAAAGGTATTTTGAAAACGGGAGTCGCCACCAACCTTTTAA
AGTGTAATTGGATCACCTTATAAAACACTTTAGTCTAAGAAATTATAAGAAAACGAGCTCGGGAG
TCAGTTACGTACGAGGAAGGGTTAGCACCCTCGCAACGCCCAAAATTGGTACCAAATTGAATAAT
TTTTCAAACTCTCTAGAAAAAATTGTTCCCTACTTCTTTTTGTTAT
Found at i:30083649 original size:283 final size:283
Alignment explanation
Indices: 30083141--30083704 Score: 1022
Period size: 283 Copynumber: 2.0 Consensus size: 283
30083131 AAGAATTTAA
* *
30083141 CAATAAGATCTCTTTTAAAACCGCAATAATTTGAGTTGAAAATCGAAATTCTTTCGTCCCAAAAG
1 CAATAAGATCTCTTTTAAAACCACAATAATTTGAGTTGAAAATCAAAATTCTTTCGTCCCAAAAG
* *
30083206 AATGCAAACATCACATCCATCGTGATTGGACACGATATTCTTAAACTTCCGTAATTAAAGATCAT
66 AATGCAAACATCACATCCAGCGTGATTGGACACGATATTCTTAAACTTCCGTAACTAAAGATCAT
*
30083271 CTCGTAATTTGTAAAATCTATTAAAAAGGATACTTTAGATATTTAGATAAACGGGAAATCACAAC
131 CTCGTAATTTGTAAAATCTATTAAAAAGGATACTTTAGATATTTAGACAAACGGGAAATCACAAC
30083336 CCACCATGTTAGGGCACTATTCCTCGAATTCCTAAATACAAAAGACATTGCCTTGTTTTTTAAGA
196 CCACCATGTTAGGGCACTATTCCTCGAATTCCTAAATACAAAAGACATTGCCTTGTTTTTTAAGA
30083401 CTCCTTTGGATTAAATGAAAAGG
261 CTCCTTTGGATTAAATGAAAAGG
*
30083424 CAATAAGATCTCTTTTAAAACCATAATAATTTGAGTTGAAAATCAAAATTCTTTCGTCCCAAAAG
1 CAATAAGATCTCTTTTAAAACCACAATAATTTGAGTTGAAAATCAAAATTCTTTCGTCCCAAAAG
*
30083489 AATGCGAACATCACATCCAGCGTGATTGGACACGATATTCTTAAACTTCCGTAACTAAAGATCAT
66 AATGCAAACATCACATCCAGCGTGATTGGACACGATATTCTTAAACTTCCGTAACTAAAGATCAT
**
30083554 CTCGTAATTTGTAAAATCTATTAAAAAGGATACTTTAGATATTTAGACAAACGGGAAATCGTAAC
131 CTCGTAATTTGTAAAATCTATTAAAAAGGATACTTTAGATATTTAGACAAACGGGAAATCACAAC
*
30083619 CCAGCATGTTAGGGCACTATT-CTCCGAATTCCTAAATACAAAAGACATTGCCTTGTTTTTTAAG
196 CCACCATGTTAGGGCACTATTCCT-CGAATTCCTAAATACAAAAGACATTGCCTTGTTTTTTAAG
30083683 ACTCCTTTGGATTAAATGAAAA
260 ACTCCTTTGGATTAAATGAAAA
30083705 ATTTTAAAAA
Statistics
Matches: 270, Mismatches: 10, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
282 2 0.01
283 268 0.99
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (283 bp):
CAATAAGATCTCTTTTAAAACCACAATAATTTGAGTTGAAAATCAAAATTCTTTCGTCCCAAAAG
AATGCAAACATCACATCCAGCGTGATTGGACACGATATTCTTAAACTTCCGTAACTAAAGATCAT
CTCGTAATTTGTAAAATCTATTAAAAAGGATACTTTAGATATTTAGACAAACGGGAAATCACAAC
CCACCATGTTAGGGCACTATTCCTCGAATTCCTAAATACAAAAGACATTGCCTTGTTTTTTAAGA
CTCCTTTGGATTAAATGAAAAGG
Found at i:30086310 original size:54 final size:54
Alignment explanation
Indices: 30086228--30086332 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
30086218 TTTTGTAGGG
30086228 ACTAAATGGCTGTTGTCTGTTTCTTCAAATATAGGCATGGATACGAATATCTGA
1 ACTAAATGGCTGTTGTCTGTTTCTTCAAATATAGGCATGGATACGAATATCTGA
30086282 ACTAAATGGCTGTTGTCTGTTTCTTCAAATATAGGCATGGATACGAATATC
1 ACTAAATGGCTGTTGTCTGTTTCTTCAAATATAGGCATGGATACGAATATC
30086333 GTAGTTAGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (54 bp):
ACTAAATGGCTGTTGTCTGTTTCTTCAAATATAGGCATGGATACGAATATCTGA
Found at i:30087961 original size:100 final size:100
Alignment explanation
Indices: 30087846--30088245 Score: 766
Period size: 100 Copynumber: 4.0 Consensus size: 100
30087836 TTATTAAAGA
30087846 AAACAACTC-GAAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCT
1 AAACAACTCAG-AAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCT
30087910 CCTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
65 CCTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
30087946 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
1 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
30088011 CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
66 CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
30088046 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
1 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
30088111 CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
66 CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
30088146 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
1 AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
* *
30088211 CTTTTGATTTCTTTGAAGTTTATTATGGCTTTTCT
66 CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
30088246 TGTTTCTTGT
Statistics
Matches: 297, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
100 296 1.00
101 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (100 bp):
AAACAACTCAGAAAACACCATTGAAGCCGACTCTGAAGCAGATTTCTATCAAGATTGAAGATCTC
CTTTTGATTTCTTTGAAGTTCATTATGACTTTTCT
Found at i:30089070 original size:21 final size:20
Alignment explanation
Indices: 30089045--30089101 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
30089035 TTTATTTCTA
*
30089045 TTAATTTAGCTATTTTT-TATT
1 TTAATTTA-ATATTTTTGT-TT
30089066 TTAATTTTAATATTTTTGTTT
1 TTAA-TTTAATATTTTTGTTT
30089087 TTAATTTAAT-TTTTT
1 TTAATTTAATATTTTT
30089102 CATTCTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 17 0.52
22 5 0.15
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTAATTTAATATTTTTGTTT
Found at i:30089087 original size:20 final size:19
Alignment explanation
Indices: 30089056--30089101 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
30089046 TAATTTAGCT
30089056 ATTTTTTA-TTTTAATTTTA
1 ATTTTTTATTTTTAA-TTTA
*
30089075 ATATTTTTGTTTTTAATTTA
1 AT-TTTTTATTTTTAATTTA
30089095 ATTTTTT
1 ATTTTTT
30089102 CATTCTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 7 0.29
20 11 0.46
21 6 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATTTTTTATTTTTAATTTA
Found at i:30092082 original size:18 final size:18
Alignment explanation
Indices: 30092059--30092341 Score: 167
Period size: 18 Copynumber: 15.3 Consensus size: 18
30092049 GAATAATTAT
30092059 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* *
30092077 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * **
30092095 TTATTCAATAATAACCAG
1 TTATTCAGTAACAGTCAG
*
30092113 TTATTCAGTATCGATCAATTGATCGG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
30092139 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
30092157 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
30092174 ATATTCAGTAACTATTAAG
1 TTATTCAGTAAC-AGTCAG
*
30092193 TTATTCAGTAGCAGTCA-
1 TTATTCAGTAACAGTCAG
* *
30092210 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* * *
30092229 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAG
* * *
30092247 TTATTCAGTAATATTCAA
1 TTATTCAGTAACAGTCAG
30092265 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
30092283 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
30092301 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
30092319 TTATTCGGTAATAATCAG
1 TTATTCAGTAACAGTCAG
30092337 TTATT
1 TTATT
30092342 TTATACCTTT
Statistics
Matches: 210, Mismatches: 41, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
17 17 0.08
18 159 0.76
19 18 0.09
21 2 0.01
22 1 0.00
23 2 0.01
26 11 0.05
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:30092101 original size:36 final size:36
Alignment explanation
Indices: 30092059--30092341 Score: 196
Period size: 36 Copynumber: 7.6 Consensus size: 36
30092049 GAATAATTAT
*
30092059 TTATTCAGTAACAGTCAGTTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * * *
30092095 TTATTCAATAATAACCAGTTATTCAGTATCGATCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
30092131 TTGATCGGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGA
1 TT-A-----T-T-CAGTAACAATCAGTTATTCAGTAACAATCA-A
* * * *
30092175 -TATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-A
1 TTATTCAGTAAC-AATCAGTTATTCAGTAACAATCAA
* *
30092210 TTCATTCAGTGACAATCAGTTATTCAGTAATAATCAA
1 TT-ATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* * * *
30092247 TTATTCAGTAATATTCAATTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATC-AA
* * * * * *
30092284 -TATCCAGTAACAGTCAATTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
* *
30092319 TTATTCGGTAATAATCAGTTATT
1 TTATTCAGTAACAATCAGTTATT
30092342 TTATACCTTT
Statistics
Matches: 190, Mismatches: 41, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
35 10 0.05
36 134 0.71
37 19 0.10
42 2 0.01
43 6 0.03
44 19 0.10
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (36 bp):
TTATTCAGTAACAATCAGTTATTCAGTAACAATCAA
Found at i:30092108 original size:54 final size:54
Alignment explanation
Indices: 30092050--30092341 Score: 230
Period size: 54 Copynumber: 5.3 Consensus size: 54
30092040 TAACACTTAG
* * * *
30092050 AATAATTATTTATTCAGTAACAGTCAGTTATTCAGTAACAATCAATTATTCAAT
1 AATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTATTCAGT
* * *
30092104 AATAACCAGTTATTCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTATTCAGT
1 AATAATCAGTTATTCAGTA---A-C-A--G-TCAGTTATTCAGTAACAGTCAATTATTCAGT
* * * *
30092166 AA-AATCAGATATTCAGTAACTATTAAGTTATTCAGTAGCAGTC-ATTCATTCAGT
1 AATAATCAGTTATTCAGTAAC-AGTCAGTTATTCAGTAACAGTCAATT-ATTCAGT
* * * * * * *
30092220 GACAATCAGTTATTCAGTAATAATCAATTATTCAGTAATATTCAATTATTCAGT
1 AATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTATTCAGT
* * * * * * * *
30092274 AACAGTCTA-ATATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCGGT
1 AATAATC-AGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTATTCAGT
30092328 AATAATCAGTTATT
1 AATAATCAGTTATT
30092342 TTATACCTTT
Statistics
Matches: 186, Mismatches: 39, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
53 4 0.02
54 112 0.60
55 20 0.11
57 3 0.02
58 2 0.01
59 1 0.01
61 15 0.08
62 29 0.16
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (54 bp):
AATAATCAGTTATTCAGTAACAGTCAGTTATTCAGTAACAGTCAATTATTCAGT
Found at i:30092319 original size:72 final size:70
Alignment explanation
Indices: 30092140--30092341 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 70
30092130 ATTGATCGGT
30092140 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGA-TATTCAGTAACTATT-AAGTTATTCAGTA
1 TATCCAGTAACAGTCAATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAA-TTATTCAGTA
* *
30092203 GCAGTCAT
63 ACAGTCAA
* * * *
30092211 TCATTCAGTGACAATCAGTTATTCAGTAATAATCAATTATTCAGTAATATTCAATTATTCAGTAA
1 T-ATCCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAATTATTCAGTAA
30092276 CAGTCTAA
64 CAGTC-AA
* * * * * *
30092284 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCGGTAATAATCAGTTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AATCAATTATTCAGTAATATTCAATTATT
30092342 TTATACCTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
71 1 0.01
72 89 0.82
73 19 0.17
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (70 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAATCAATTATTCAGTAATATTCAATTATTCAGTAACA
GTCAA
Found at i:30092581 original size:45 final size:45
Alignment explanation
Indices: 30092527--30092715 Score: 279
Period size: 45 Copynumber: 4.2 Consensus size: 45
30092517 AACAGTAATA
* * * * * *
30092527 GTAATAGTAACAGTATTCAACACACAAAGAGCTGAATCGGTAATG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
30092572 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAGCG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
30092617 GTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAACG
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
* *
30092662 GTAACAGTAACAATATTCGACACACAAGGTGCCGAATCGGTAACA
1 GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
*
30092707 GTAGCAGTA
1 GTAACAGTA
30092716 GCGGTAATAG
Statistics
Matches: 131, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 131 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (45 bp):
GTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAACG
Found at i:30093148 original size:15 final size:16
Alignment explanation
Indices: 30093111--30093160 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
30093101 CAATACACAT
30093111 TTCAATT-AA-TCATAA
1 TTCAATTCAATTCA-AA
* *
30093126 TTCCATTCCATTC-AA
1 TTCAATTCAATTCAAA
30093141 TTCAATTCAATTCAAA
1 TTCAATTCAATTCAAA
30093157 TTCA
1 TTCA
30093161 CCCTTCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 19 0.68
16 7 0.25
17 2 0.07
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (16 bp):
TTCAATTCAATTCAAA
Found at i:30094157 original size:39 final size:39
Alignment explanation
Indices: 30094114--30094315 Score: 142
Period size: 39 Copynumber: 5.1 Consensus size: 39
30094104 ATTTCTAACT
30094114 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
1 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
** * * * *** **
30094153 TGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC-T-
1 TGAATTTCTAT-CTATTTAATCCTTAAAGCA--TAAAACTTA
30094193 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
1 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
** * * * *** **
30094232 TGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC-T-
1 TGAATTTCTAT-CTATTTAATCCTTAAAGCA--TAAAACTTA
30094272 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
1 TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
30094311 TGAAT
1 TGAAT
30094316 CACTTTACAA
Statistics
Matches: 113, Mismatches: 40, Indels: 20
0.65 0.23 0.12
Matches are distributed among these distances:
37 8 0.07
38 2 0.02
39 49 0.43
40 44 0.39
41 2 0.02
42 8 0.07
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (39 bp):
TGAATTTCTATCTATTTAATCCTTAAAGCATAAAACTTA
Found at i:30094376 original size:79 final size:79
Alignment explanation
Indices: 30094048--30094368 Score: 615
Period size: 79 Copynumber: 4.1 Consensus size: 79
30094038 AATTCTTTCA
*
30094048 ATTTAGTCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
1 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
30094113 TTGAATTTCTATCT
66 TTGAATTTCTATCT
30094127 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
1 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
30094192 TTGAATTTCTATCT
66 TTGAATTTCTATCT
30094206 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
1 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
30094271 TTGAATTTCTATCT
66 TTGAATTTCTATCT
*
30094285 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCATTATTTCATTTCTAAC
1 ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
*
30094350 TTGAATTTCTATCA
66 TTGAATTTCTATCT
30094364 ATTTA
1 ATTTA
30094369 GCCCTTAATT
Statistics
Matches: 239, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 239 1.00
ACGTcount: A:0.35, C:0.18, G:0.04, T:0.43
Consensus pattern (79 bp):
ATTTAATCCTTAAAGCATAAAACTTATGAATCACTTTACAATTCAATCCTTATTTCATTTCTAAC
TTGAATTTCTATCT
Found at i:30094640 original size:14 final size:14
Alignment explanation
Indices: 30094621--30094663 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
30094611 TCTTTTTCTG
*
30094621 TTTCATTTCTTTTA
1 TTTCATTTATTTTA
*
30094635 TTTCATTTATTTCA
1 TTTCATTTATTTTA
30094649 TTTC-TTTATTTTA
1 TTTCATTTATTTTA
30094662 TT
1 TT
30094664 ATTAAACTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTCATTTATTTTA
Found at i:30094685 original size:23 final size:22
Alignment explanation
Indices: 30094656--30094731 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
30094646 TCATTTCTTT
30094656 ATTTTATTATTAAACTATTATA
1 ATTTTATTATTAAACTATTATA
* *
30094678 ATGTTTATTATTTATAC-A-TGT-
1 AT-TTTATTA-TTAAACTATTATA
30094699 -TTTTATTATTAAACTATTATA
1 ATTTTATTATTAAACTATTATA
30094720 ATATTTATTATT
1 AT-TTTATTATT
30094732 TATACATTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 13
0.72 0.07 0.22
Matches are distributed among these distances:
18 5 0.12
19 8 0.19
20 3 0.07
22 5 0.12
23 17 0.40
24 5 0.12
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.58
Consensus pattern (22 bp):
ATTTTATTATTAAACTATTATA
Found at i:30094692 original size:16 final size:16
Alignment explanation
Indices: 30094673--30094705 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30094663 TATTAAACTA
30094673 TTATA-ATGTTTATTAT
1 TTATACATGTTT-TTAT
30094689 TTATACATGTTTTTAT
1 TTATACATGTTTTTAT
30094705 T
1 T
30094706 ATTAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATACATGTTTTTAT
Found at i:30094704 original size:42 final size:42
Alignment explanation
Indices: 30094657--30094738 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
30094647 CATTTCTTTA
*
30094657 TTTTATTATTAAACTATTATAATGTTTATTATTTATACATGT
1 TTTTATTATTAAACTATTATAATATTTATTATTTATACATGT
30094699 TTTTATTATTAAACTATTATAATATTTATTATTTATACAT
1 TTTTATTATTAAACTATTATAATATTTATTATTTATACAT
30094739 TTGTATATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.57
Consensus pattern (42 bp):
TTTTATTATTAAACTATTATAATATTTATTATTTATACATGT
Found at i:30094746 original size:23 final size:23
Alignment explanation
Indices: 30094681--30094752 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
30094671 TATTATAATG
30094681 TTTATTATTTATACA--TGT-T-
1 TTTATTATTTATACATTTGTATA
* *
30094700 TTTATTA-TTAAACTATTAT-AATA
1 TTTATTATTTATAC-ATT-TGTATA
30094723 TTTATTATTTATACATTTGTATA
1 TTTATTATTTATACATTTGTATA
30094746 TTTATTA
1 TTTATTA
30094753 ATACACATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
22 3 0.07
23 20 0.49
24 5 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (23 bp):
TTTATTATTTATACATTTGTATA
Found at i:30097787 original size:5 final size:5
Alignment explanation
Indices: 30097764--30097816 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
30097754 ATTTTTTAGT
* * *
30097764 TTTTA TTTTTA TTCTA TTTTA TTTT- TTTTA TTTTT TTATTT TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA
30097815 TT
1 TT
30097817 ATTTTAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
4 4 0.10
5 27 0.66
6 10 0.24
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:30097789 original size:17 final size:15
Alignment explanation
Indices: 30097755--30097821 Score: 71
Period size: 16 Copynumber: 4.2 Consensus size: 15
30097745 GTTCTTTCCA
*
30097755 TTTTTTAGTTTTTAT
1 TTTTTTATTTTTTAT
* *
30097770 TTTTATTCTATTTTATT
1 TTTT-TTATTTTTTA-T
30097787 TTTTTTATTTTTTTAT
1 TTTTTTA-TTTTTTAT
30097803 TTTTTTATTTTATTAT
1 TTTTTTATTTT-TTAT
30097819 TTT
1 TTT
30097822 AAATTTTTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
15 8 0.19
16 24 0.56
17 11 0.26
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTTTAT
Found at i:30097790 original size:30 final size:26
Alignment explanation
Indices: 30097754--30097821 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
30097744 GGTTCTTTCC
30097754 ATTTTTTAGTTTTTATTTTTATTCTATTTT
1 ATTTTTTA-TTTTT-TTTTTATT-T-TTTT
*
30097784 ATTTTTT-TTATTTTTTTATTTTTTT
1 ATTTTTTATTTTTTTTTTATTTTTTT
30097809 ATTTTATTATTTT
1 ATTTT-TTATTTT
30097822 AAATTTTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 9 0.26
26 3 0.09
27 11 0.32
28 4 0.12
30 7 0.21
ACGTcount: A:0.16, C:0.01, G:0.01, T:0.81
Consensus pattern (26 bp):
ATTTTTTATTTTTTTTTTATTTTTTT
Found at i:30097797 original size:8 final size:8
Alignment explanation
Indices: 30097769--30097821 Score: 70
Period size: 8 Copynumber: 6.2 Consensus size: 8
30097759 TTAGTTTTTA
30097769 TTTTTATT
1 TTTTTATT
30097777 CTATTTTATTT
1 -T-TTTTA-TT
30097788 TTTTTATT
1 TTTTTATT
30097796 TTTTTATT
1 TTTTTATT
30097804 TTTTTATT
1 TTTTTATT
*
30097812 TTATTATT
1 TTTTTATT
30097820 TT
1 TT
30097822 AAATTTTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
8 27 0.66
9 6 0.15
10 6 0.15
11 2 0.05
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTATT
Found at i:30097798 original size:31 final size:30
Alignment explanation
Indices: 30097755--30097857 Score: 93
Period size: 30 Copynumber: 3.4 Consensus size: 30
30097745 GTTCTTTCCA
30097755 TTTTTTAGTTTTTATTTTTATTCTATTTTATT
1 TTTTTTA-TTTTT-TTTTTATTCTATTTTATT
*
30097787 TTTTTTATTTTTTTATTT-TTTTATTTTATT
1 TTTTTTATTTTTTT-TTTATTCTATTTTATT
* * * * *
30097817 ATTTTAAATTTTTTCTTATTGCTATTATA-T
1 TTTTTTATTTTTTTTTTATT-CTATTTTATT
*
30097847 TATTTTATTTT
1 TTTTTTATTTT
30097858 CTTAGTATTT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
29 2 0.04
30 34 0.60
31 14 0.25
32 7 0.12
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.77
Consensus pattern (30 bp):
TTTTTTATTTTTTTTTTATTCTATTTTATT
Found at i:30097828 original size:21 final size:20
Alignment explanation
Indices: 30097785--30097836 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
30097775 TTCTATTTTA
* **
30097785 TTTTTTTTATTTTTTTATTT
1 TTTTTTTTATTATTTTAAAT
30097805 TTTTATTTTATTATTTTAAAT
1 TTTT-TTTTATTATTTTAAAT
*
30097826 TTTTTCTTATT
1 TTTTTTTTATT
30097837 GCTATTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTTTATTATTTTAAAT
Found at i:30098473 original size:26 final size:25
Alignment explanation
Indices: 30098420--30098474 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
30098410 AATGGGATCC
*
30098420 ATTTTTTACCATTATCGAGTCTTCT
1 ATTTTTTACCATTATCGAGTCTACT
30098445 ATTTTTTACCATTATCGAGTCTACTT
1 ATTTTTTACCATTATCGAGTCTAC-T
30098471 ATTT
1 ATTT
30098475 AGAGTCACAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.82
26 5 0.18
ACGTcount: A:0.22, C:0.18, G:0.07, T:0.53
Consensus pattern (25 bp):
ATTTTTTACCATTATCGAGTCTACT
Found at i:30104669 original size:19 final size:19
Alignment explanation
Indices: 30104637--30104673 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
30104627 CAAGGTTAGT
30104637 TTTTGTTCGGTTTTTGATAA
1 TTTTGTTC-GTTTTTGATAA
30104657 TTTT-TTCGTTTTTGATA
1 TTTTGTTCGTTTTTGATA
30104674 TCGTTGCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 3 0.18
20 4 0.24
ACGTcount: A:0.14, C:0.05, G:0.16, T:0.65
Consensus pattern (19 bp):
TTTTGTTCGTTTTTGATAA
Found at i:30104889 original size:28 final size:26
Alignment explanation
Indices: 30104841--30104892 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
30104831 GATTTTGAGT
*
30104841 AATTAGGGATAAATTGCAAAATAATA
1 AATTAGGGATAAAATGCAAAATAATA
*
30104867 AATTGAGGGACTAAAATGTAAAATAA
1 AATT-AGGGA-TAAAATGCAAAATAA
30104893 ATGAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 5 0.23
28 13 0.59
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (26 bp):
AATTAGGGATAAAATGCAAAATAATA
Found at i:30113448 original size:43 final size:43
Alignment explanation
Indices: 30113401--30113553 Score: 136
Period size: 43 Copynumber: 3.6 Consensus size: 43
30113391 TATGTGTACT
*
30113401 CGTGTAAGACCACGTCTAGGACGTTGGCATCGATATATGATTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
* * * ** * *
30113444 CGTGTAAGACCATGTTTGGGACATCAGTATC-ATATTTGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
* *
30113485 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATGTGA-TA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATATGATTA
* *
30113527 GCATGTAAGACCACATCTGGGACGTTG
1 -CGTGTAAGACCACGTCTGGGACGTTG
30113554 CCATTGTACG
Statistics
Matches: 85, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
41 23 0.27
42 17 0.20
43 44 0.52
44 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATATGATTA
Found at i:30124029 original size:18 final size:18
Alignment explanation
Indices: 30124006--30124040 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30123996 ACTTAGGACG
*
30124006 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
30124024 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
30124041 AACGTTACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:30131306 original size:20 final size:20
Alignment explanation
Indices: 30131250--30131306 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
30131240 ACATGGTTGA
*
30131250 TATGATATGCACATGACATG
1 TATGATATGCACATGATATG
30131270 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
30131290 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
30131307 GTATTCATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:30131401 original size:25 final size:24
Alignment explanation
Indices: 30131356--30131438 Score: 123
Period size: 24 Copynumber: 3.4 Consensus size: 24
30131346 GAGGAAGTGC
30131356 AAAAGGGCTTATGCCCCAGTTTATT
1 AAAAGGGCTT-TGCCCCAGTTTATT
*
30131381 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATT
30131406 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATT
30131429 AAAAGAGGCT
1 AAAAG-GGCT
30131439 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
23 9 0.17
24 22 0.41
25 13 0.24
26 10 0.19
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATT
Found at i:30131449 original size:49 final size:50
Alignment explanation
Indices: 30131355--30131450 Score: 135
Period size: 49 Copynumber: 1.9 Consensus size: 50
30131345 GGAGGAAGTG
**
30131355 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTAGGCCCCAGTTTAT
30131405 CAAAAGGGCTT-TGCCCCAG-TTATT-AAAAGAGGCTAGGCCTCCAGTT
1 CAAAAGGGCTTATGCCCCAGTTTATTGAAAAG-GGCTAGGCC-CCAGTT
30131451 ACATGATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
47 5 0.12
48 12 0.29
49 14 0.33
50 11 0.26
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (50 bp):
CAAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:30137231 original size:15 final size:15
Alignment explanation
Indices: 30137211--30137240 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30137201 AAAATAAATG
30137211 AAAGATATGGGCTTA
1 AAAGATATGGGCTTA
30137226 AAAGATATGGGCTTA
1 AAAGATATGGGCTTA
30137241 TATGAACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AAAGATATGGGCTTA
Found at i:30140475 original size:20 final size:21
Alignment explanation
Indices: 30140450--30140491 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
30140440 AGGTTCATCA
30140450 AGTGGTGG-TCGAT-GTGTTCG
1 AGTGGTGGAT-GATCGTGTTCG
30140470 AGTGGTGGATGATCGTGTTCG
1 AGTGGTGGATGATCGTGTTCG
30140491 A
1 A
30140492 CACTGAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.14, C:0.10, G:0.43, T:0.33
Consensus pattern (21 bp):
AGTGGTGGATGATCGTGTTCG
Found at i:30141653 original size:26 final size:26
Alignment explanation
Indices: 30141624--30141731 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
30141614 TGGTACAAAT
30141624 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
30141650 TGATAATAGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30141676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
30141702 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
30141728 TGAT
1 TGAT
30141732 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:30150379 original size:21 final size:22
Alignment explanation
Indices: 30150346--30150389 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30150336 ATAAAATAAT
*
30150346 AAACATATTTAA-TAATACATGA
1 AAACATATGTAATTAATA-ATGA
30150368 AAACATA-GTAATTAATAATGA
1 AAACATATGTAATTAATAATGA
30150389 A
1 A
30150390 TTTTGAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (22 bp):
AAACATATGTAATTAATAATGA
Found at i:30150576 original size:16 final size:15
Alignment explanation
Indices: 30150504--30150578 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 15
30150494 AATATCAATT
30150504 TAATATGAA-AATAA
1 TAATATGAATAATAA
*
30150518 TAATGTGAATAATAA
1 TAATATGAATAATAA
*
30150533 T-ATACCTGAAAATATATA
1 TAATA--TGAATA-ATA-A
30150551 TAATA-G-ATAATAA
1 TAATATGAATAATAA
30150564 TAATATGAAATAATA
1 TAATATG-AATAATA
30150579 TATTGTTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
13 6 0.12
14 14 0.29
15 8 0.17
16 12 0.25
17 3 0.06
18 2 0.04
19 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (15 bp):
TAATATGAATAATAA
Found at i:30150608 original size:8 final size:8
Alignment explanation
Indices: 30150595--30150793 Score: 80
Period size: 8 Copynumber: 25.1 Consensus size: 8
30150585 TAAAATGTAA
30150595 AATAATAT
1 AATAATAT
30150603 AATAATAT
1 AATAATAT
*
30150611 AAAAATAT
1 AATAATAT
30150619 -ATAA-AT
1 AATAATAT
* *
30150625 ATTATGTGAT
1 AATA-AT-AT
30150635 AA-AA-AT
1 AATAATAT
30150641 -ATAATAT
1 AATAATAT
30150648 AATAA-AT
1 AATAATAT
*
30150655 AATAA-GT
1 AATAATAT
*
30150662 AATGATAT
1 AATAATAT
** *
30150670 -ATGTTAA
1 AATAATAT
30150677 AAT-ATAT
1 AATAATAT
*
30150684 ATTAATAT
1 AATAATAT
* *
30150692 GATAATAG
1 AATAATAT
*
30150700 AAAAATAT
1 AATAATAT
30150708 GAAGTAATAT
1 -AA-TAATAT
30150718 AAT-ATAAT
1 AATAAT-AT
30150726 AA-AATAT
1 AATAATAT
30150733 AAGTAA-AT
1 AA-TAATAT
30150741 AATAATAT
1 AATAATAT
*
30150749 AAAATATAT
1 AATA-ATAT
30150758 AATACATAT
1 AATA-ATAT
* *
30150767 ATATATTAA
1 A-ATAATAT
*
30150776 AATAAAAT
1 AATAATAT
30150784 AATACATAT
1 AATA-ATAT
30150793 A
1 A
30150794 CAATTTAAAA
Statistics
Matches: 141, Mismatches: 30, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
5 1 0.01
6 6 0.04
7 37 0.26
8 60 0.43
9 26 0.18
10 11 0.08
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (8 bp):
AATAATAT
Done.