Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, whole genome shotgun sequence
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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 46 of 105
Found at i:8863487 original size:32 final size:32
Alignment explanation
Indices: 8863448--8863629 Score: 106
Period size: 32 Copynumber: 6.1 Consensus size: 32
8863438 TTATTAATAT
**
8863448 ATTTATTTTTATGATTATATATTTAATTGTAA
1 ATTTATTTGCATGATTATATATTTAATTGTAA
*
8863480 ATTTATTTGCATGATTATATATTTAATTG--C
1 ATTTATTTGCATGATTATATATTTAATTGTAA
* *
8863510 ATAT-TTTGCATGGTT-TATA--TAA---T--
1 ATTTATTTGCATGATTATATATTTAATTGTAA
* **
8863533 A-TTATTTCCATGATTGCATGATTT-A-TG-AA
1 ATTTATTTGCATGATTATAT-ATTTAATTGTAA
* * * *
8863562 TTATTATTTTCATGATTATATATTTAATTGCAT
1 AT-TTATTTGCATGATTATATATTTAATTGTAA
* * *
8863595 GTTTATTTACATGATTATATATTTAATTGTTA
1 ATTTATTTGCATGATTATATATTTAATTGTAA
8863627 ATT
1 ATT
8863630 GCACATTTAT
Statistics
Matches: 115, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
22 1 0.01
23 10 0.09
24 2 0.02
25 1 0.01
26 4 0.03
27 1 0.01
28 4 0.03
29 10 0.09
30 7 0.06
31 16 0.14
32 57 0.50
33 2 0.02
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.54
Consensus pattern (32 bp):
ATTTATTTGCATGATTATATATTTAATTGTAA
Found at i:8863552 original size:31 final size:31
Alignment explanation
Indices: 8863515--8863578 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
8863505 ATTGCATATT
*
8863515 TTGCATGGTTTAT-ATAATATTATTTCCATGA
1 TTGCATGATTTATGA-AATATTATTTCCATGA
* *
8863546 TTGCATGATTTATGAATTATTATTTTCATGA
1 TTGCATGATTTATGAAATATTATTTCCATGA
8863577 TT
1 TT
8863579 ATATATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 28 0.97
32 1 0.03
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (31 bp):
TTGCATGATTTATGAAATATTATTTCCATGA
Found at i:8863661 original size:23 final size:22
Alignment explanation
Indices: 8863635--8863680 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
8863625 TAATTGCACA
*
8863635 TTTATTTACATAGTTTATATATT
1 TTTATTTACAT-GATTATATATT
*
8863658 TTTATTTGCATGATTATATATT
1 TTTATTTACATGATTATATATT
8863680 T
1 T
8863681 AATTGCATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTATTTACATGATTATATATT
Found at i:8863677 original size:22 final size:20
Alignment explanation
Indices: 8863596--8863703 Score: 76
Period size: 20 Copynumber: 5.3 Consensus size: 20
8863586 TAATTGCATG
*
8863596 TTTATTTACATGATTATATA
1 TTTATTTGCATGATTATATA
* * * ** *
8863616 TTTAATTG-TTAATTGCACA
1 TTTATTTGCATGATTATATA
* *
8863635 TTTATTTACATAGTTTATATA
1 TTTATTTGCAT-GATTATATA
8863656 TTTTTATTTGCATGATTATATA
1 --TTTATTTGCATGATTATATA
*
8863678 TTTAATTGCATGATTAT-TAA
1 TTTATTTGCATGATTATAT-A
8863698 TTTATT
1 TTTATT
8863704 GATATGTGTG
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
19 13 0.20
20 29 0.45
21 4 0.06
22 8 0.12
23 10 0.16
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTATTTGCATGATTATATA
Found at i:8863797 original size:19 final size:19
Alignment explanation
Indices: 8863760--8863798 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
8863750 TTTATTATTA
* *
8863760 TTATTGCATAATTTTATAT
1 TTATTGCATAATATGATAT
8863779 TTATTGCATAATATGATAT
1 TTATTGCATAATATGATAT
8863798 T
1 T
8863799 ATATGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TTATTGCATAATATGATAT
Found at i:8863800 original size:24 final size:23
Alignment explanation
Indices: 8863768--8863828 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
8863758 TATTATTGCA
*
8863768 TAATTTTATATTTATTGCATA-AT
1 TAATATTATATTTATTGCA-AGAT
*
8863791 ATGATATTATATGTTATTGCAAGAT
1 -TAATATTATAT-TTATTGCAAGAT
8863816 TAATATTATATTT
1 TAATATTATATTT
8863829 GAATGATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.06
24 20 0.62
25 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.52
Consensus pattern (23 bp):
TAATATTATATTTATTGCAAGAT
Found at i:8864055 original size:20 final size:18
Alignment explanation
Indices: 8863991--8864059 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
8863981 TTGCCTAGTA
8863991 ATATATTTGCATGATATT
1 ATATATTTGCATGATATT
* * *
8864009 ATATATTTACATAATTGTT
1 ATATATTTGCATGA-TATT
8864028 AT-TA-TTGCATGATAATT
1 ATATATTTGCATGAT-ATT
8864045 AATATATTTGCATGA
1 -ATATATTTGCATGA
8864060 CATTTTTGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 1 0.03
17 8 0.20
18 16 0.40
19 7 0.17
20 8 0.20
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (18 bp):
ATATATTTGCATGATATT
Found at i:8866976 original size:41 final size:41
Alignment explanation
Indices: 8866931--8867025 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
8866921 CCAGTTTAGG
* ** *
8866931 GTATAGTTCTTTTTTTGTGGAAGTTTATAAACCAATTTAAA
1 GTATAGTTCATTTTGGGTGAAAGTTTATAAACCAATTTAAA
* *
8866972 GTATAGTTCATTTTGGGTGAAAGTTTATGAACCAA-TTGAA
1 GTATAGTTCATTTTGGGTGAAAGTTTATAAACCAATTTAAA
8867012 GATATAG-TCATTTT
1 G-TATAGTTCATTTT
8867026 TTATTTATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (41 bp):
GTATAGTTCATTTTGGGTGAAAGTTTATAAACCAATTTAAA
Found at i:8876141 original size:11 final size:11
Alignment explanation
Indices: 8876125--8876149 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8876115 GATCTTAAGG
8876125 CATAAACAATT
1 CATAAACAATT
8876136 CATAAACAATT
1 CATAAACAATT
8876147 CAT
1 CAT
8876150 TTTCCTAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.20, G:0.00, T:0.28
Consensus pattern (11 bp):
CATAAACAATT
Found at i:8877246 original size:14 final size:15
Alignment explanation
Indices: 8877227--8877264 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
8877217 AGAATTTGAA
8877227 ATCAACATAAT-AAC
1 ATCAACATAATCAAC
8877241 ATCAAC-TAATCAAC
1 ATCAACATAATCAAC
*
8877255 ATAAACATAA
1 ATCAACATAA
8877265 ATGCTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 4 0.19
14 14 0.67
15 3 0.14
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
ATCAACATAATCAAC
Found at i:8893250 original size:13 final size:13
Alignment explanation
Indices: 8893232--8893263 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
8893222 AGAAGTGAGG
8893232 AATGGGATGATGA
1 AATGGGATGATGA
8893245 AATGGGATGATGA
1 AATGGGATGATGA
8893258 AATGGG
1 AATGGG
8893264 GTGAATGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.22
Consensus pattern (13 bp):
AATGGGATGATGA
Found at i:8896414 original size:15 final size:15
Alignment explanation
Indices: 8896396--8896429 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8896386 TTTAACCTCT
* *
8896396 TCTTCTTTTTCAAGA
1 TCTTCCTTTTAAAGA
8896411 TCTTCCTTTTAAAGA
1 TCTTCCTTTTAAAGA
8896426 TCTT
1 TCTT
8896430 TTTCTTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (15 bp):
TCTTCCTTTTAAAGA
Found at i:8901331 original size:20 final size:20
Alignment explanation
Indices: 8901288--8901330 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
8901278 TGTTACATTC
* *
8901288 TTTTGACTTTTGGCTTTTAA
1 TTTTGACTTTTGACTTTGAA
8901308 TTTTGAC-TTTGACTTTGAA
1 TTTTGACTTTTGACTTTGAA
8901327 TTTT
1 TTTT
8901331 TCAATAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.16, C:0.09, G:0.14, T:0.60
Consensus pattern (20 bp):
TTTTGACTTTTGACTTTGAA
Found at i:8912278 original size:12 final size:11
Alignment explanation
Indices: 8912252--8912296 Score: 54
Period size: 12 Copynumber: 3.9 Consensus size: 11
8912242 CAAAACTTAA
*
8912252 AATACAAAAAT
1 AATAAAAAAAT
8912263 AATAAAAAATAT
1 AATAAAAAA-AT
*
8912275 AATAAAAACAAA
1 AATAAAAA-AAT
8912287 AATAAAAAAA
1 AATAAAAAAA
8912297 ATGTGAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 10 0.33
12 19 0.63
13 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (11 bp):
AATAAAAAAAT
Found at i:8918477 original size:59 final size:61
Alignment explanation
Indices: 8918345--8918503 Score: 216
Period size: 59 Copynumber: 2.6 Consensus size: 61
8918335 GGTTTAATTT
* * *
8918345 TTTTTATAAATTTGTTGAAATTTGTTTTGGTTTTGGTTACCAATGTATTGAGTTTTTTGTTAG
1 TTTTTAT--ATTTGTTGAAATTTGTTTGGGTTTTGGTTATCAATGTATTGAGTTTTTTGTTAC
* * * *
8918408 TTATT-TATTTGTTGAAATTTATTTGGGTTTTGGTTATCAATTTGTTGAG-TTTTTGTT-C
1 TTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTATCAATGTATTGAGTTTTTTGTTAC
8918466 TTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTAT
1 TTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTAT
8918504 ATGTTTGTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
58 4 0.05
59 39 0.45
60 38 0.44
62 1 0.01
63 4 0.05
ACGTcount: A:0.18, C:0.03, G:0.19, T:0.60
Consensus pattern (61 bp):
TTTTTATATTTGTTGAAATTTGTTTGGGTTTTGGTTATCAATGTATTGAGTTTTTTGTTAC
Found at i:8920840 original size:158 final size:158
Alignment explanation
Indices: 8920552--8920864 Score: 455
Period size: 158 Copynumber: 2.0 Consensus size: 158
8920542 CCATGCAAAT
* *** * * *
8920552 TATACTTGATCAGGTCTTTTTTATAGCAAACACAGTTATTTGGGATTAGTTGTCAAATGTGGACT
1 TATACTTGATCAGGTATTTCCCATAGCAAACACAGCTATTTGGGATCAGTTATCAAATGTGGACT
* * *
8920617 GCATTATTTATGTTATGGGCTCTCTCTTCACTTCTCTTCCTTCTACCCATCACTAGTAACATTCT
66 GCATTATTTATGCTATAGGCTCTCTCTTCACTTCCCTTCCTTCTACCCATCACTAGTAACATTCT
*
8920682 TGATTATTTATCATAATACATTCTTTAA
131 TAATTATTTATCATAATACATTCTTTAA
* * * *
8920710 TATACTTGATCAGGTATTTCCCATAGCAAACACAGCTGTTTTGGATCAGTTATCATATGTGGATT
1 TATACTTGATCAGGTATTTCCCATAGCAAACACAGCTATTTGGGATCAGTTATCAAATGTGGACT
* **
8920775 GCATTATTTATGCTATAGGCTCTTTCTTCACTTCCCTTCCTTCTACTTATCACTAGTAACATTCT
66 GCATTATTTATGCTATAGGCTCTCTCTTCACTTCCCTTCCTTCTACCCATCACTAGTAACATTCT
*
8920840 TAATTATTTGTCATAATACATTCTT
131 TAATTATTTATCATAATACATTCTT
8920865 CAATCTCTTA
Statistics
Matches: 136, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 136 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (158 bp):
TATACTTGATCAGGTATTTCCCATAGCAAACACAGCTATTTGGGATCAGTTATCAAATGTGGACT
GCATTATTTATGCTATAGGCTCTCTCTTCACTTCCCTTCCTTCTACCCATCACTAGTAACATTCT
TAATTATTTATCATAATACATTCTTTAA
Found at i:8922667 original size:20 final size:20
Alignment explanation
Indices: 8922623--8922676 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 20
8922613 TAAATCAAAA
*
8922623 TAGAATTTAAATT--ACTTG
1 TAGAACTTAAATTAAACTTG
* *
8922641 AAAAACTTAAATTAAACTTG
1 TAGAACTTAAATTAAACTTG
8922661 TAGAACTTTAAATTAA
1 TAGAAC-TTAAATTAA
8922677 CTTAAAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 10 0.36
20 9 0.32
21 9 0.32
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (20 bp):
TAGAACTTAAATTAAACTTG
Found at i:8922678 original size:20 final size:20
Alignment explanation
Indices: 8922623--8922679 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
8922613 TAAATCAAAA
8922623 TAGAA-TTTAAATT-ACTTG
1 TAGAACTTTAAATTAACTTG
* *
8922641 AAAAAC-TTAAATTAAACTTG
1 TAGAACTTTAAATT-AACTTG
8922661 TAGAACTTTAAATTAACTT
1 TAGAACTTTAAATTAACTT
8922680 AAAAGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 10 0.32
20 14 0.45
21 7 0.23
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
TAGAACTTTAAATTAACTTG
Found at i:8925675 original size:65 final size:65
Alignment explanation
Indices: 8925587--8925718 Score: 174
Period size: 65 Copynumber: 2.0 Consensus size: 65
8925577 CAAAAGCTTA
* * * ** ** * *
8925587 AAGTTCAACCAAGCAGCTGAACATAAATTCTTTGAATATTAACCTAAAACCAATAAATGTTCATG
1 AAGTGCAACCAAACAGCTAAACATAAATTCCCTGAATACCAACCTAAAACCAACAAATATTCATG
*
8925652 AAGTGCAACCAAACAGCTAAACATAAATTCCCTGAATGCCAACCTAAAACCAACAAATATTCATG
1 AAGTGCAACCAAACAGCTAAACATAAATTCCCTGAATACCAACCTAAAACCAACAAATATTCATG
8925717 AA
1 AA
8925719 CAATAAGAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.45, C:0.22, G:0.10, T:0.23
Consensus pattern (65 bp):
AAGTGCAACCAAACAGCTAAACATAAATTCCCTGAATACCAACCTAAAACCAACAAATATTCATG
Found at i:8933976 original size:2 final size:2
Alignment explanation
Indices: 8933969--8934004 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8933959 TTTTGAGATC
8933969 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8934005 TCTCTTCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8935026 original size:2 final size:2
Alignment explanation
Indices: 8935019--8935047 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8935009 AAATTTTGTG
8935019 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8935048 AGTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8940763 original size:13 final size:15
Alignment explanation
Indices: 8940745--8940776 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8940735 TTGATTAAGA
8940745 AAAATT-AAA-GATC
1 AAAATTCAAACGATC
8940758 AAAATTCAAACGATC
1 AAAATTCAAACGATC
8940773 AAAA
1 AAAA
8940777 CTTGAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 3 0.18
15 8 0.47
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAATTCAAACGATC
Found at i:8946271 original size:21 final size:20
Alignment explanation
Indices: 8946239--8946277 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
8946229 TTCACTTGAA
*
8946239 GAAAAAAGAAAAGGAAAATT
1 GAAAAAAAAAAAGGAAAATT
8946259 GAAAAAACAAAAAGGAAAA
1 GAAAAAA-AAAAAGGAAAA
8946278 AAAGGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (20 bp):
GAAAAAAAAAAAGGAAAATT
Found at i:8947469 original size:107 final size:107
Alignment explanation
Indices: 8947258--8947528 Score: 338
Period size: 107 Copynumber: 2.5 Consensus size: 107
8947248 CATGTGGCTT
* *
8947258 CATCTCAATCATCTTGATTTTCT-TAACTCGCAGTTCAAT-CCAGTCACTCTTTATTTCCTAACT
1 CATCTCAATCATCTTGATTTTCTCT-ACTCGCGGTTCAATCCCAATCACTCTTTATTTCCTAACT
* *
8947321 TGGAACTTTTTTCCATCATCTTTATTCTTTGAACTTATGGTTC
65 TGGAACTTTTTCCCATCATCTTTATTCCTTGAACTTATGGTTC
* *
8947364 CATCTCGATCATCTTGATTTTCTCTACTCGCGGTTCAATCCCAATCACTCTTTATTTTCTAACTT
1 CATCTCAATCATCTTGATTTTCTCTACTCGCGGTTCAATCCCAATCACTCTTTATTTCCTAACTT
* * *
8947429 GCG-A-TTTTGTCCCGTCATCTTTATTCCTTGGACTTTTGGTTC
66 G-GAACTTTT-TCCCATCATCTTTATTCCTTGAACTTATGGTTC
* * * *
8947471 AATC-CTAGTCATCTTGATTTTTTCTACTCGTAGG-TCAATCCCAATCACTCTTTATTTC
1 CATCTC-AATCATCTTGATTTTCTCTACTCG-CGGTTCAATCCCAATCACTCTTTATTTC
8947529 TTGACTTGCA
Statistics
Matches: 144, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
106 40 0.28
107 101 0.70
108 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.10, T:0.45
Consensus pattern (107 bp):
CATCTCAATCATCTTGATTTTCTCTACTCGCGGTTCAATCCCAATCACTCTTTATTTCCTAACTT
GGAACTTTTTCCCATCATCTTTATTCCTTGAACTTATGGTTC
Found at i:8947593 original size:36 final size:35
Alignment explanation
Indices: 8947545--8947616 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
8947535 TGCAGCTTAG
* *
8947545 TTTCGGTCATCTTTATTCTTTCGACTCATGGTTCAA
1 TTTCAGTCATCTTTATT-TTTCAACTCATGGTTCAA
**
8947581 TTTCAGTCATCTTTATTTTTCAACTTGTGGTTCAA
1 TTTCAGTCATCTTTATTTTTCAACTCATGGTTCAA
8947616 T
1 T
8947617 CTTGATCCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.50
Consensus pattern (35 bp):
TTTCAGTCATCTTTATTTTTCAACTCATGGTTCAA
Found at i:8947616 original size:107 final size:104
Alignment explanation
Indices: 8947266--8947617 Score: 331
Period size: 107 Copynumber: 3.3 Consensus size: 104
8947256 TTCATCTCAA
** * * * *
8947266 TCATCTTGA-TTTTCTTAACTCGCAGTTCAAT-CCAGTCACTCTTTATTTCCTAACTTGGAACTT
1 TCATCTTGATTTTTC-T-ACTCGTGGTTCAATCCCAATCACTCTTTATTTCTTAACTTGCAGC-T
* * *
8947329 TTTTCCATCATCTTTATTCTTTGAACTTATGGTTCCATCTC-G
63 TTTTCCGTCATCTTTATTCTTTG-ACTTATGGTTCAATTTCAG
* *
8947371 ATCATCTTGATTTTCTCTACTCGCGGTTCAATCCCAATCACTCTTTATTT-TCTAACTTGC-GAT
1 -TCATCTTGATTTT-TCTACTCGTGGTTCAATCCCAATCACTCTTTATTTCT-TAACTTGCAGCT
* * *
8947434 TTTGTCCCGTCATCTTTATTCCTTGGACTTTTGGTTCAA-TCCTAG
63 TTT-T-CCGTCATCTTTATT-CTTTGACTTATGGTTCAATTTC-AG
*
8947479 TCATCTTGATTTTTTCTACTCGTAGG-TCAATCCCAATCACTCTTTATTTCTTGACTTGCAGCTT
1 TCATCTTGA-TTTTTCTACTCGT-GGTTCAATCCCAATCACTCTTTATTTCTTAACTTGCAGCTT
* *
8947543 AGTTTCGGTCATCTTTATTCTTTCGACTCATGGTTCAATTTCAG
64 --TTTCCGTCATCTTTATTCTTT-GACTTATGGTTCAATTTCAG
* * *
8947587 TCATCTTTATTTTTCAACTTGTGGTTCAATC
1 TCATCTTGATTTTTCTACTCGTGGTTCAATC
8947618 TTGATCCTTT
Statistics
Matches: 205, Mismatches: 23, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
105 4 0.02
106 26 0.13
107 118 0.58
108 52 0.25
109 3 0.01
110 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (104 bp):
TCATCTTGATTTTTCTACTCGTGGTTCAATCCCAATCACTCTTTATTTCTTAACTTGCAGCTTTT
TCCGTCATCTTTATTCTTTGACTTATGGTTCAATTTCAG
Found at i:8947689 original size:104 final size:105
Alignment explanation
Indices: 8947520--8947712 Score: 232
Period size: 104 Copynumber: 1.8 Consensus size: 105
8947510 CCCAATCACT
*
8947520 CTTTATTTCTTGACTTGCAGCTTAGTTTCGGTCATCTTTATTCTTTCGACTCATGGTTCAATTTC
1 CTTTATTTCTTGACTTGCAGCTTAGTTTCGGTCATCTTTATTCTTTCGACTCATGGATCAATTTC
*
8947585 AGTCATCTT-TATTTTTCAACTTGTGGTTCAATCTTGATC
66 AATCATCTTGTATTTTTCAACTTGTGGTTCAATCTTGATC
* ** * * * *
8947624 CTTTATTTTTTGACTTGTGGCTTAG-TTCGGT-AGTCTTTTATTTTTTTGACTTATGGAAT-AGT
1 CTTTATTTCTTGACTTGCAGCTTAGTTTCGGTCA-TC-TTTATTCTTTCGACTCATGG-ATCAAT
* *
8947686 TTCAATCGTCTTGTATTTTTTAACTTG
63 TTCAATCATCTTGTATTTTTCAACTTG
8947713 CAGTCGAATC
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
102 1 0.01
103 8 0.11
104 51 0.69
105 14 0.19
ACGTcount: A:0.17, C:0.16, G:0.15, T:0.52
Consensus pattern (105 bp):
CTTTATTTCTTGACTTGCAGCTTAGTTTCGGTCATCTTTATTCTTTCGACTCATGGATCAATTTC
AATCATCTTGTATTTTTCAACTTGTGGTTCAATCTTGATC
Found at i:8948840 original size:91 final size:91
Alignment explanation
Indices: 8948732--8948962 Score: 351
Period size: 92 Copynumber: 2.5 Consensus size: 91
8948722 GTGGAAAATT
* *
8948732 AAAA-AAAAAAAGGAAAGGAAAATAGAAGAAGCCAAAGTCAGAAGAAAAAACGCAACAAGCT-GT
1 AAAATAAAAAAAGAAAAGGAAAATAGAAGAAGCCAAAGTCAGAAGAAAAAACGCAACAAGCTGGG
*
8948795 AGAGGCAGACGTGCAGGAGGAAGCGG
66 AGAGGCAGACGTGCAGGAGGAAGCAG
* *
8948821 AAAATAAAAAACAGAAAAGGAAAAGAGAAGAAGCCAAAGTCAGAAGAAAAAACGCAGCAAGCTGG
1 AAAATAAAAAA-AGAAAAGGAAAATAGAAGAAGCCAAAGTCAGAAGAAAAAACGCAACAAGCTGG
* * *
8948886 GAGAGGCGGACGTGCATGAGGAGGCAG
65 GAGAGGCAGACGTGCAGGAGGAAGCAG
8948913 AAAATAAAAAATAGAAAAGGAAAATAGAAGAAGCCAAAGTCAGAA-AAAAA
1 AAAATAAAAAA-AGAAAAGGAAAATAGAAGAAGCCAAAGTCAGAAGAAAAA
8948963 GTAGCAAAGG
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
89 4 0.03
90 6 0.05
91 53 0.41
92 66 0.51
ACGTcount: A:0.55, C:0.11, G:0.27, T:0.06
Consensus pattern (91 bp):
AAAATAAAAAAAGAAAAGGAAAATAGAAGAAGCCAAAGTCAGAAGAAAAAACGCAACAAGCTGGG
AGAGGCAGACGTGCAGGAGGAAGCAG
Found at i:8949929 original size:14 final size:15
Alignment explanation
Indices: 8949906--8949946 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
8949896 TTGAGAAATT
8949906 ATTAAATAATAAAA-
1 ATTAAATAATAAAAG
8949920 A-TATAATAATAAAAG
1 ATTA-AATAATAAAAG
8949935 ATTAAATAATAA
1 ATTAAATAATAA
8949947 TAGTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.08
14 11 0.46
15 9 0.38
16 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (15 bp):
ATTAAATAATAAAAG
Found at i:8950290 original size:14 final size:14
Alignment explanation
Indices: 8950205--8950291 Score: 81
Period size: 14 Copynumber: 6.4 Consensus size: 14
8950195 AAACTTGAAA
*
8950205 CCTAAAATTAAAAT
1 CCTAAAATTAAAAC
8950219 CCTAAAATTAAAAC
1 CCTAAAATTAAAAC
* *
8950233 ACTAAAATTAAAAT
1 CCTAAAATTAAAAC
* *
8950247 CCT-AAAGTGAAAC
1 CCTAAAATTAAAAC
* *
8950260 CC-CAAA-TGAAAC
1 CCTAAAATTAAAAC
*
8950272 TCTAAAATTAAAAC
1 CCTAAAATTAAAAC
8950286 CCTAAA
1 CCTAAA
8950292 TGAAGCCCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
12 7 0.12
13 15 0.25
14 37 0.63
ACGTcount: A:0.55, C:0.20, G:0.03, T:0.22
Consensus pattern (14 bp):
CCTAAAATTAAAAC
Found at i:8950316 original size:39 final size:39
Alignment explanation
Indices: 8950229--8950326 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
8950219 CCTAAAATTA
* *
8950229 AAACACTAAAATTAAAATCCTAAAGTGAAACCCCAAATG
1 AAACACTAAAATTAAAACCCTAAAGTGAAACCCCAAATC
* *
8950268 AAACTCTAAAATTAAAACCCTAAA-TG-AAGCCCAAAGGTC
1 AAACACTAAAATTAAAACCCTAAAGTGAAACCCCAAA--TC
* **
8950307 AAACCCTAAAAACAAAACCC
1 AAACACTAAAATTAAAACCC
8950327 CAAGTCAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 8 0.16
38 2 0.04
39 40 0.80
ACGTcount: A:0.53, C:0.24, G:0.07, T:0.15
Consensus pattern (39 bp):
AAACACTAAAATTAAAACCCTAAAGTGAAACCCCAAATC
Found at i:8958628 original size:17 final size:17
Alignment explanation
Indices: 8958592--8958655 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
8958582 ATCTAAAATT
*
8958592 TTTCCCAAATAGATAAAGG
1 TTTCCAAAAT-GA-AAAGG
8958611 TTTCCAAAATGAAAAGG
1 TTTCCAAAATGAAAAGG
** * *
8958628 TTTAAAAAATGACAA-C
1 TTTCCAAAATGAAAAGG
8958644 TTTCCAAAATGA
1 TTTCCAAAATGA
8958656 CAAATTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 10 0.26
17 17 0.45
18 2 0.05
19 9 0.24
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (17 bp):
TTTCCAAAATGAAAAGG
Found at i:8962857 original size:20 final size:19
Alignment explanation
Indices: 8962822--8962873 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
8962812 ATAATATAAA
*
8962822 ATTAATATAATAAAAATAT
1 ATTAAAATAATAAAAATAT
*
8962841 ATTAAAATAAGTAAAAATTT
1 ATTAAAATAA-TAAAAATAT
8962861 ATTAAAAATAATA
1 ATT-AAAATAATA
8962874 TAACTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.31
20 13 0.45
21 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTAAAATAATAAAAATAT
Found at i:8963447 original size:15 final size:14
Alignment explanation
Indices: 8963426--8963470 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
8963416 TTAGTTATAA
*
8963426 ATTATATAAATTTT
1 ATTATATTAATTTT
*
8963440 AGTTATATTATTTTT
1 A-TTATATTAATTTT
*
8963455 ACTATATTAATTTT
1 ATTATATTAATTTT
8963469 AT
1 AT
8963471 ATCATTGGTC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTATATTAATTTT
Found at i:8963827 original size:31 final size:30
Alignment explanation
Indices: 8963790--8963868 Score: 95
Period size: 31 Copynumber: 2.6 Consensus size: 30
8963780 ATATTAGAGG
* *
8963790 GATTAAATTTCGAATTTCATGCTAGTATAAA
1 GATTAAATTTCAAATTT-ATGCAAGTATAAA
* *
8963821 GGTTAAATTTCAAAATTTATTCAAGTATAAA
1 GATTAAATTTC-AAATTTATGCAAGTATAAA
*
8963852 GACTAAATTTCAAATTT
1 GATTAAATTTCAAATTT
8963869 TGTATGAGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.15
31 30 0.73
32 5 0.12
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (30 bp):
GATTAAATTTCAAATTTATGCAAGTATAAA
Found at i:8963978 original size:21 final size:21
Alignment explanation
Indices: 8963945--8963998 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
8963935 TAAGTCAATG
* * *
8963945 CCACATCAACATGGTCAACTA
1 CCACGTCAGCATGGTCAACAA
*
8963966 CCACGTCAGCATGGTTAACAA
1 CCACGTCAGCATGGTCAACAA
*
8963987 CCATGTCAGCAT
1 CCACGTCAGCAT
8963999 TGGCAAAGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.20
Consensus pattern (21 bp):
CCACGTCAGCATGGTCAACAA
Found at i:8967145 original size:20 final size:21
Alignment explanation
Indices: 8967100--8967159 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 21
8967090 ATAAGATAAG
* *
8967100 ATATCATTATTTAATTTAATTC
1 ATATCA-TATATAATTTTATTC
8967122 -TATCATATATAATTTTA-TC
1 ATATCATATATAATTTTATTC
*
8967141 ATATCTTATTAATAATTTT
1 ATATCATA-T-ATAATTTT
8967160 TTGTACCAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.06
20 16 0.50
21 6 0.19
22 8 0.25
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATCATATATAATTTTATTC
Found at i:8970531 original size:7 final size:6
Alignment explanation
Indices: 8970515--8970582 Score: 50
Period size: 6 Copynumber: 11.0 Consensus size: 6
8970505 GCACAAAAGG
* *
8970515 ATTTTT ATTTGTT A-TTTT ATTTTC ATTTTC ATTTTACT AATTTTT A-TTTT
1 ATTTTT ATTT-TT ATTTTT ATTTTT ATTTTT ATTTT--T -ATTTTT ATTTTT
* *
8970565 ATTTTA ATTTTA ATTTTT
1 ATTTTT ATTTTT ATTTTT
8970583 TGTTATTTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
5 8 0.15
6 35 0.67
7 4 0.08
9 5 0.10
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (6 bp):
ATTTTT
Found at i:8970548 original size:17 final size:17
Alignment explanation
Indices: 8970528--8970581 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
8970518 TTTATTTGTT
* *
8970528 ATTTTATTTTCATTTTC
1 ATTTTATTTTAATTTTA
* *
8970545 ATTTTA--CTAATTTTT
1 ATTTTATTTTAATTTTA
8970560 ATTTTATTTTAATTTTA
1 ATTTTATTTTAATTTTA
8970577 ATTTT
1 ATTTT
8970582 TTGTTATTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 12 0.40
17 18 0.60
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTATTTTAATTTTA
Found at i:8971148 original size:20 final size:21
Alignment explanation
Indices: 8971125--8971169 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
8971115 AATTTCTATT
* *
8971125 TTTTTAGTTGATT-TTTTTAA
1 TTTTTAGATGATTGTTTTGAA
*
8971145 TTTTTCGATGATTGTTTTGAA
1 TTTTTAGATGATTGTTTTGAA
8971166 TTTT
1 TTTT
8971170 CTGCCAAGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.18, C:0.02, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTTAGATGATTGTTTTGAA
Found at i:8971746 original size:14 final size:13
Alignment explanation
Indices: 8971700--8971747 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
8971690 GTACACGTTT
8971700 ATGATATTTTTGC
1 ATGATATTTTTGC
8971713 ATGA-A-TTTTG-
1 ATGATATTTTTGC
*
8971723 TTGATATTTTTGC
1 ATGATATTTTTGC
8971736 ATGATTATTTTT
1 ATGA-TATTTTT
8971748 ATGACATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 3 0.10
11 6 0.21
12 6 0.21
13 7 0.24
14 7 0.24
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (13 bp):
ATGATATTTTTGC
Found at i:8971760 original size:25 final size:23
Alignment explanation
Indices: 8971697--8971762 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 23
8971687 ATGGTACACG
8971697 TTTATGATATTTTTGCATGAATT
1 TTTATGATATTTTTGCATGAATT
8971720 TTGT-TGATATTTTTGCATGATTATT
1 TT-TATGATATTTTTGCATGA--ATT
* *
8971745 TTTATGACATTATTGCAT
1 TTTATGATATTTTTGCAT
8971763 TTTTTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
23 18 0.49
24 2 0.05
25 17 0.46
ACGTcount: A:0.24, C:0.06, G:0.14, T:0.56
Consensus pattern (23 bp):
TTTATGATATTTTTGCATGAATT
Found at i:8971832 original size:25 final size:25
Alignment explanation
Indices: 8971803--8971884 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
8971793 TTATTGCATA
8971803 ATGATATTTCTGCAAAGTGTTTATT
1 ATGATATTTCTGCAAAGTGTTTATT
* *
8971828 ATGATATTAT-TGCATTA-T-TTTTTT
1 ATGATATT-TCTGCA-AAGTGTTTATT
* *
8971852 ATGATATTTCTG-TATGATGTTTATT
1 ATGATATTTCTGCAAAG-TGTTTATT
8971877 ATGATATT
1 ATGATATT
8971885 ATTACATGAT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.02
24 16 0.36
25 26 0.58
26 2 0.04
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.55
Consensus pattern (25 bp):
ATGATATTTCTGCAAAGTGTTTATT
Found at i:8971845 original size:49 final size:49
Alignment explanation
Indices: 8971792--8971887 Score: 122
Period size: 49 Copynumber: 2.0 Consensus size: 49
8971782 TTATTACGAT
8971792 ATTATTGCATAATGATATTTCTGCAAAG-TGTTTATTATGATATTATTGC
1 ATTATTGCATAATGATATTTCTG-AAAGATGTTTATTATGATATTATTGC
*** * * *
8971841 ATTATTTTTTTATGATATTTCTGTATGATGTTTATTATGATATTATT
1 ATTATTGCATAATGATATTTCTGAAAGATGTTTATTATGATATTATT
8971888 ACATGATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 2 0.05
49 38 0.95
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.54
Consensus pattern (49 bp):
ATTATTGCATAATGATATTTCTGAAAGATGTTTATTATGATATTATTGC
Found at i:8971867 original size:13 final size:12
Alignment explanation
Indices: 8971822--8971888 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 12
8971812 CTGCAAAGTG
8971822 TTTATTATGATA
1 TTTATTATGATA
*
8971834 -TTATTGCATTAT-
1 TTTATT--ATGATA
*
8971846 TTTTTTATGATA
1 TTTATTATGATA
* *
8971858 TTTCTGTATGATG
1 TTTAT-TATGATA
8971871 TTTATTATGATA
1 TTTATTATGATA
8971883 -TTATTA
1 TTTATTA
8971889 CATGATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
11 15 0.35
12 10 0.23
13 18 0.42
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (12 bp):
TTTATTATGATA
Found at i:8971897 original size:49 final size:49
Alignment explanation
Indices: 8971803--8971957 Score: 165
Period size: 49 Copynumber: 3.2 Consensus size: 49
8971793 TTATTGCATA
* * * *
8971803 ATGATATTTCTGCA-AAGTGTTTATTATGATATTATTGCATTATTTTTTT
1 ATGATATTTCTGTATGA-TGTTTATTATGATATTATTGCATGATTTTTTC
*
8971852 ATGATATTTCTGTATGATGTTTATTATGATATTATTACATGATTTTTTC
1 ATGATATTTCTGTATGATGTTTATTATGATATTATTGCATGATTTTTTC
* * * **
8971901 ATGTTAACTTT-T-TATGATGCTT-TTATGATATTTTTGCATGATACTTTC
1 ATGAT-A-TTTCTGTATGATGTTTATTATGATATTATTGCATGATTTTTTC
8971949 ATGATATTT
1 ATGATATTT
8971958 TTCTATTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
46 3 0.03
47 1 0.01
48 26 0.29
49 55 0.60
50 3 0.03
51 3 0.03
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (49 bp):
ATGATATTTCTGTATGATGTTTATTATGATATTATTGCATGATTTTTTC
Found at i:8971941 original size:24 final size:24
Alignment explanation
Indices: 8971826--8971985 Score: 94
Period size: 24 Copynumber: 6.6 Consensus size: 24
8971816 AAAGTGTTTA
* * **
8971826 TTATGATATTATTGCATTATTTTT
1 TTATGATATTTTTGCATGATACTT
* * **
8971850 TTATGATATTTCTGTATGATGTTT
1 TTATGATATTTTTGCATGATACTT
* * *
8971874 ATTATGATATTATTACATGAT-TTT
1 -TTATGATATTTTTGCATGATACTT
* *
8971898 TTCATGTTAACTTTTT--ATGATGCTT
1 TT-ATGAT-A-TTTTTGCATGATACTT
8971923 TTATGATATTTTTGCATGATACTT
1 TTATGATATTTTTGCATGATACTT
* *
8971947 TCATGATATTTTT-CTATTATACTTT
1 TTATGATATTTTTGC-ATGATAC-TT
*
8971972 TTATGACATTTTTG
1 TTATGATATTTTTG
8971986 TGTGAAATTT
Statistics
Matches: 108, Mismatches: 18, Indels: 18
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.05
23 4 0.04
24 61 0.56
25 34 0.31
26 4 0.04
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.57
Consensus pattern (24 bp):
TTATGATATTTTTGCATGATACTT
Found at i:8971943 original size:13 final size:12
Alignment explanation
Indices: 8971828--8971984 Score: 69
Period size: 11 Copynumber: 12.9 Consensus size: 12
8971818 AGTGTTTATT
*
8971828 ATGATATTATTGC
1 ATGATATT-TTTC
* *
8971841 ATTAT-TTTTTT
1 ATGATATTTTTC
8971852 ATGATATTTCTGT-
1 ATGATATTT-T-TC
*
8971865 ATGATGTTTATT-
1 ATGATATTT-TTC
*
8971877 ATGATATTATTAC
1 ATGATATT-TTTC
8971890 ATGAT-TTTTTC
1 ATGATATTTTTC
*
8971901 ATGTTAACTTTTT-
1 ATGAT-A-TTTTTC
**
8971914 ATGATGCTTTT-
1 ATGATATTTTTC
8971925 ATGATATTTTTGC
1 ATGATATTTTT-C
*
8971938 ATGATA-CTTTC
1 ATGATATTTTTC
8971949 ATGATATTTTTC
1 ATGATATTTTTC
*
8971961 TATTATACTTTTT-
1 -ATGATA-TTTTTC
*
8971974 ATGACATTTTT
1 ATGATATTTTT
8971985 GTGTGAAATT
Statistics
Matches: 111, Mismatches: 20, Indels: 28
0.70 0.13 0.18
Matches are distributed among these distances:
11 38 0.34
12 27 0.24
13 35 0.32
14 11 0.10
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (12 bp):
ATGATATTTTTC
Found at i:8971972 original size:48 final size:49
Alignment explanation
Indices: 8971875--8971985 Score: 116
Period size: 48 Copynumber: 2.3 Consensus size: 49
8971865 ATGATGTTTA
* * ** * * *
8971875 TTATGATATTATTACATGATTTTTTCATGTTAACTTTTTATGATGC-TT
1 TTATGATATTTTTGCATGATACTTTCATGATAACTTTCTATGATACTTT
** *
8971923 TTATGATATTTTTGCATGATACTTTCATGATATTTTTCTATTATACTTT
1 TTATGATATTTTTGCATGATACTTTCATGATAACTTTCTATGATACTTT
*
8971972 TTATGACATTTTTG
1 TTATGATATTTTTG
8971986 TGTGAAATTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 36 0.71
49 15 0.29
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (49 bp):
TTATGATATTTTTGCATGATACTTTCATGATAACTTTCTATGATACTTT
Found at i:8973520 original size:65 final size:64
Alignment explanation
Indices: 8973449--8973594 Score: 149
Period size: 64 Copynumber: 2.3 Consensus size: 64
8973439 TTTTAAATGC
* * *
8973449 TCTTTTAATTTATTTATAAAATGATCATTTAAGGCATTTT-TATATAGAAAACATCTTAAGTAA-
1 TCTTTTAATTTATTTATAAAATGATCATTTAAGGCATTTTCTATACAGAAAA-ACCTTAAATAAT
* * * *
8973512 TCTTTT--TTATATGCATATAAAATGATTATTTAAGGCGTTTTCTGTACAGAAAAACCTTAAATA
1 TCTTTTAATT-TAT--TTATAAAATGATCATTTAAGGCATTTTCTATACAGAAAAACCTTAAATA
8973575 AT
63 AT
8973577 TCTTTTAAGTTT-TTTATA
1 TCTTTTAA-TTTATTTATA
8973595 TTATGGACCA
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
61 2 0.03
62 3 0.04
63 6 0.09
64 37 0.55
65 15 0.22
66 1 0.01
67 1 0.01
68 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (64 bp):
TCTTTTAATTTATTTATAAAATGATCATTTAAGGCATTTTCTATACAGAAAAACCTTAAATAAT
Found at i:8973763 original size:91 final size:92
Alignment explanation
Indices: 8973621--8973929 Score: 275
Period size: 91 Copynumber: 3.3 Consensus size: 92
8973611 AATTATCTTT
* *** * * *
8973621 TAAAATATAAAAGGATTATTTTAAGGCATTTT-TGTATAGATAACACCTTAAATTATCCTTTTAT
1 TAAAATATAAAAAGATTA-TTTAAGATGTTTTCTGTACAGAAAACACCTTAAATAATCCTTTTAT
*
8973685 AAAAATATTAATCCTAAACCCTAAATCC
65 AAAAATATTAATCCTAAACCATAAATCC
* ** * *
8973713 TAAAATATAAAAAGATTATTTAAGTTGTTTTCTGTACA-AAAATGCCTTAAATAATTCTTTTATT
1 TAAAATATAAAAAGATTATTTAAGATGTTTTCTGTACAGAAAACACCTTAAATAATCCTTTTATA
*** ** **** *
8973777 TTTATATTATAGACTATTTAATAATTATCTTT
66 AAAATATTA-ATCCTAAACCATAA--ATC--C
* * *
8973809 TAAAATAT-AAAGGATTATTTAAGAT-ATTTCTGTACAGAAAACACCTTAAATAATCTTTTTATA
1 TAAAATATAAAAAGATTATTTAAGATGTTTTCTGTACAGAAAACACCTTAAATAATCCTTTTATA
* *
8973872 AAAATATTAATCCTAAACCTTAAACCC
66 AAAATATTAATCCTAAACCATAAATCC
*
8973899 TAAAATATAAAAAGATTATTTAAGGTGTTTT
1 TAAAATATAAAAAGATTATTTAAGATGTTTT
8973930 ATAGAAATGC
Statistics
Matches: 163, Mismatches: 45, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
90 8 0.05
91 51 0.31
92 34 0.21
94 20 0.12
95 42 0.26
96 8 0.05
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (92 bp):
TAAAATATAAAAAGATTATTTAAGATGTTTTCTGTACAGAAAACACCTTAAATAATCCTTTTATA
AAAATATTAATCCTAAACCATAAATCC
Found at i:8973907 original size:186 final size:190
Alignment explanation
Indices: 8973526--8973929 Score: 620
Period size: 186 Copynumber: 2.1 Consensus size: 190
8973516 TTTTATATGC
* *
8973526 ATATAAAATGATTATTTAAGGCGTTTTCTGTACAGAAAAACCTTAAATAATTCTTTTAAGTTTTT
1 ATATAAAAAGATTATTTAAGGTGTTTTCTGTACAGAAAAACCTTAAATAATTCTTTTAAG-TTTT
* * *
8973591 TATATTATGGACCATTTAATAATTATCTTTTAAAATATAAAAGGATTATTTTAAGGCATTTTTGT
65 TATATTATAGACCATTTAATAATTATCTTTTAAAATATAAAAGGATTATTTTAAGACATTTCTGT
* * * *
8973656 ATAGATAACACCTTAAATTATCCTTTTATAAAAATATTAATCCTAAACCCTAAATCCTAAA
130 ACAGAAAACACCTTAAATAATCCTTTTATAAAAATATTAATCCTAAACCCTAAACCCTAAA
* *
8973717 ATATAAAAAGATTATTTAAGTTGTTTTCTGTACA-AAAATGCCTTAAATAATTCTTTT-A-TTTT
1 ATATAAAAAGATTATTTAAGGTGTTTTCTGTACAGAAAA-ACCTTAAATAATTCTTTTAAGTTTT
* *
8973779 TATATTATAGACTATTTAATAATTATCTTTTAAAATAT-AAAGGATTA-TTTAAGATATTTCTGT
65 TATATTATAGACCATTTAATAATTATCTTTTAAAATATAAAAGGATTATTTTAAGACATTTCTGT
* *
8973842 ACAGAAAACACCTTAAATAATCTTTTTATAAAAATATTAATCCTAAACCTTAAACCCTAAA
130 ACAGAAAACACCTTAAATAATCCTTTTATAAAAATATTAATCCTAAACCCTAAACCCTAAA
8973903 ATATAAAAAGATTATTTAAGGTGTTTT
1 ATATAAAAAGATTATTTAAGGTGTTTT
8973930 ATAGAAATGC
Statistics
Matches: 196, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
186 94 0.48
187 9 0.05
188 40 0.20
190 5 0.03
191 48 0.24
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (190 bp):
ATATAAAAAGATTATTTAAGGTGTTTTCTGTACAGAAAAACCTTAAATAATTCTTTTAAGTTTTT
ATATTATAGACCATTTAATAATTATCTTTTAAAATATAAAAGGATTATTTTAAGACATTTCTGTA
CAGAAAACACCTTAAATAATCCTTTTATAAAAATATTAATCCTAAACCCTAAACCCTAAA
Found at i:8978834 original size:22 final size:24
Alignment explanation
Indices: 8978808--8978855 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
8978798 TATCGTAGGA
*
8978808 TTTTCA-TTTTATTT-TTTTATTT
1 TTTTCATTTTTATTTATTTTACTT
8978830 TTTTCATTTTTATTTATTTTACTT
1 TTTTCATTTTTATTTATTTTACTT
8978854 TT
1 TT
8978856 AGATTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.26
23 8 0.35
24 9 0.39
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTCATTTTTATTTATTTTACTT
Found at i:8978884 original size:3 final size:3
Alignment explanation
Indices: 8978876--8978912 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
8978866 TTATTTTACG
8978876 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8978913 CTATCTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8982864 original size:29 final size:27
Alignment explanation
Indices: 8982809--8982881 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 27
8982799 GGTTTTCCAT
* **
8982809 TTGTTTTTCTATTTTATTTTTTCTTTTC
1 TTGTTATT-TATTTTATTTTTGATTTTC
8982837 ATTGTTATTTATTTTATTTTTAGATTTTC
1 -TTGTTATTTATTTTATTTTT-GATTTTC
8982866 TT-TTA-TTATTATTATT
1 TTGTTATTTATT-TTATT
8982882 ATTATTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 5 0.13
27 8 0.21
28 14 0.36
29 12 0.31
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.74
Consensus pattern (27 bp):
TTGTTATTTATTTTATTTTTGATTTTC
Found at i:8982876 original size:3 final size:3
Alignment explanation
Indices: 8982868--8982905 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
8982858 AGATTTTCTT
8982868 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA CTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT
8982906 TTAAATTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8983108 original size:20 final size:21
Alignment explanation
Indices: 8983080--8983118 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
8983070 TCAAAGATCA
*
8983080 AATTTTTAT-AAAAAAATAAT
1 AATTATTATCAAAAAAATAAT
*
8983100 AATTATTATCAATAAAATA
1 AATTATTATCAAAAAAATA
8983119 TTTTGTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AATTATTATCAAAAAAATAAT
Found at i:8991393 original size:9 final size:10
Alignment explanation
Indices: 8991370--8991406 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
8991360 GCTTGTAAAA
8991370 GAAAAAATTT
1 GAAAAAATTT
8991380 GAAAAAATTT
1 GAAAAAATTT
8991390 -AAAAAATTT
1 GAAAAAATTT
8991399 GAGAAAAA
1 GA-AAAAA
8991407 AGAAAAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 11 0.44
11 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.11, T:0.24
Consensus pattern (10 bp):
GAAAAAATTT
Found at i:8991412 original size:19 final size:18
Alignment explanation
Indices: 8991366--8991414 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
8991356 GCTAGCTTGT
8991366 AAAAGAAAAAATTTGAAA
1 AAAAGAAAAAATTTGAAA
**
8991384 AAATTTAAAAAATTTGAGAA
1 AAA-AGAAAAAATTTGA-AA
8991404 AAAAGAAAAAA
1 AAAAGAAAAAA
8991415 GAAAGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAAGAAAAAATTTGAAA
Found at i:8992760 original size:15 final size:15
Alignment explanation
Indices: 8992736--8992794 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
8992726 AGACTTTAGC
*
8992736 TTTGGATTTTATTTT
1 TTTGTATTTTATTTT
* *
8992751 TTTGTTTTTTA-GTT
1 TTTGTATTTTATTTT
* *
8992765 TTTGCATTTTCTTTT
1 TTTGTATTTTATTTT
*
8992780 ATTGTATTTTATTTT
1 TTTGTATTTTATTTT
8992795 CCTAGGAACC
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
14 10 0.30
15 23 0.70
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (15 bp):
TTTGTATTTTATTTT
Found at i:8992773 original size:29 final size:28
Alignment explanation
Indices: 8992736--8992794 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
8992726 AGACTTTAGC
* * *
8992736 TTTGGATTTTATTTTTTTGTTTTTTAGTT
1 TTTGCATTTTATTTTATTGTATTTTA-TT
*
8992765 TTTGCATTTTCTTTTATTGTATTTTATT
1 TTTGCATTTTATTTTATTGTATTTTATT
8992793 TT
1 TT
8992795 CCTAGGAACC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.12, C:0.03, G:0.10, T:0.75
Consensus pattern (28 bp):
TTTGCATTTTATTTTATTGTATTTTATT
Found at i:8994212 original size:142 final size:142
Alignment explanation
Indices: 8993952--8994381 Score: 833
Period size: 142 Copynumber: 3.0 Consensus size: 142
8993942 GTTTGCTTCA
* *
8993952 TAATTGTATCTTACTTTGAAATCACTCCTTACCTTTGTCAGTTTCAAGCTAATACTAATTCAATT
1 TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
*
8994017 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTAACATAATAGCATTCGA
66 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
8994082 TTTTTCTTGGTT
131 TTTTTCTTGGTT
8994094 TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
1 TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
8994159 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
66 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
8994224 TTTTTCTTGGTT
131 TTTTTCTTGGTT
8994236 TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
1 TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
8994301 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
66 GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
8994366 TTTTTCTTGGTT
131 TTTTTCTTGGTT
8994378 TAAT
1 TAAT
8994382 AGTGACGTGA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 285 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (142 bp):
TAATTGTGTCTTACTTTGAAATCACTCCTTACTTTTGTCAGTTTCAAGCTAATACTAATTCAATT
GATGCAAAATAAGTCCAAAATCATTGTTGAATATGTGATTCCATCCTTGACATAATAGCATTCGA
TTTTTCTTGGTT
Found at i:9001297 original size:20 final size:20
Alignment explanation
Indices: 9001272--9001317 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
9001262 GTTTTACTTG
* *
9001272 AAAAAAA-AAAGAGAATGAA
1 AAAAAAATAAAAAGAAAGAA
*
9001291 AAAAAAATAAAAATAAAGAA
1 AAAAAAATAAAAAGAAAGAA
9001311 AAAAAAA
1 AAAAAAA
9001318 GAAGACTCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.07
Consensus pattern (20 bp):
AAAAAAATAAAAAGAAAGAA
Found at i:9002380 original size:50 final size:48
Alignment explanation
Indices: 9002326--9002436 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 48
9002316 AAAATAAGAA
* * *
9002326 TTTTGATTGTAATTTTTTTAAAGTTTCAAAGCCTTTAG-TAATGAGGAGCT
1 TTTTGATTGTAA--TTTCTAAAGTTTCAAAGCCTTT-GTTAAGGAGAAGCT
* * *
9002376 TTTTGATTTTGAATTTCTAAAGTTTCAATGCCTTTGTTAAGGAGAATCT
1 TTTTGATTGT-AATTTCTAAAGTTTCAAAGCCTTTGTTAAGGAGAAGCT
*
9002425 TTTTGGTTGTAA
1 TTTTGATTGTAA
9002437 AATTTTTGAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
48 3 0.06
49 37 0.73
50 9 0.18
51 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.48
Consensus pattern (48 bp):
TTTTGATTGTAATTTCTAAAGTTTCAAAGCCTTTGTTAAGGAGAAGCT
Found at i:9003001 original size:13 final size:12
Alignment explanation
Indices: 9002970--9003012 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9002960 GCCAAACATG
9002970 ATTTTTT-ATTTT
1 ATTTTTTCA-TTT
*
9002982 ATGTTTTCATTAT
1 ATTTTTTCATT-T
9002995 ATTTTTTCATTT
1 ATTTTTTCATTT
9003007 ATTTTT
1 ATTTTT
9003013 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (12 bp):
ATTTTTTCATTT
Found at i:9003940 original size:12 final size:12
Alignment explanation
Indices: 9003925--9003967 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
9003915 TAATTTCTTA
9003925 TTTTATTTTTTG
1 TTTTATTTTTTG
*
9003937 TTTTATTTTATTT
1 TTTTATTTT-TTG
9003950 TTTTAATTATTTTG
1 TTTT-ATT-TTTTG
9003964 TTTT
1 TTTT
9003968 TTATTCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 9 0.35
13 6 0.23
14 9 0.35
15 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTTG
Found at i:9003959 original size:17 final size:17
Alignment explanation
Indices: 9003922--9003969 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
9003912 TAATAATTTC
*
9003922 TTATTTTATTTTTTGTT
1 TTATTTTATTTTTTGTA
9003939 TTATTTTATTTTTT-TAA
1 TTATTTTATTTTTTGT-A
*
9003956 TTATTTTGTTTTTT
1 TTATTTTATTTTTT
9003970 ATTCAATATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 1 0.04
17 27 0.96
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (17 bp):
TTATTTTATTTTTTGTA
Found at i:9004139 original size:13 final size:12
Alignment explanation
Indices: 9004118--9004449 Score: 85
Period size: 12 Copynumber: 27.7 Consensus size: 12
9004108 TTTTTTTGCA
9004118 TTTTATGATA-T
1 TTTTATGATATT
9004129 TTTTAT-ATGA-T
1 TTTTATGAT-ATT
9004140 TTTTATGATAATT
1 TTTTATGAT-ATT
* *
9004153 TTGTATGAT-TG
1 TTTTATGATATT
9004164 TTTTAT-ATGA-T
1 TTTTATGAT-ATT
9004175 TTTTATGATAATT
1 TTTTATGAT-ATT
**
9004188 TTGCATGAT-TGT
1 TTTTATGATAT-T
9004200 TTTTATGATATT
1 TTTTATGATATT
**
9004212 ATTGCATG-T-TT
1 -TTTTATGATATT
9004223 TTATTATGATA-T
1 TT-TTATGATATT
* *
9004235 TATTA-CATGATT
1 TTTTATGAT-ATT
*
9004247 TTATATGATATT
1 TTTTATGATATT
*
9004259 ATTACATGATGATATT
1 -TT---TTATGATATT
* *
9004275 TTTGCATGATGTT
1 TTT-TATGATATT
*
9004288 TATTATGATA--
1 TTTTATGATATT
*
9004298 TTAT-TGCATA-T
1 TTTTATG-ATATT
9004309 TTTTATGATATAT
1 TTTTATGATAT-T
* *
9004322 TTGTATGATGTT
1 TTTTATGATATT
*
9004334 TATTATGATATT
1 TTTTATGATATT
**
9004346 ATTGCATGAT-TT
1 -TTTTATGATATT
*
9004358 TTTCATGATATT
1 TTTTATGATATT
*
9004370 TTTGTA--AGATT
1 TTT-TATGATATT
*
9004381 TTTTATGTTATT
1 TTTTATGATATT
* *
9004393 TTTGCATGATA-C
1 TTT-TATGATATT
*
9004405 TTTCATGATATT
1 TTTTATGATATT
* *
9004417 TTTCTTTAATA-T
1 TTT-TATGATATT
9004429 TTTTAT-AGTATT
1 TTTTATGA-TATT
9004441 TTTGTATGA
1 TTT-TATGA
9004450 AATTGTTTGT
Statistics
Matches: 233, Mismatches: 50, Indels: 73
0.65 0.14 0.21
Matches are distributed among these distances:
9 2 0.01
10 16 0.07
11 68 0.29
12 71 0.30
13 65 0.28
14 1 0.00
15 2 0.01
16 8 0.03
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.58
Consensus pattern (12 bp):
TTTTATGATATT
Found at i:9004168 original size:35 final size:35
Alignment explanation
Indices: 9004121--9004208 Score: 144
Period size: 35 Copynumber: 2.5 Consensus size: 35
9004111 TTTTGCATTT
9004121 TATGATAT-TTTTATATGATTTTTATGATAATTTTG
1 TATGAT-TGTTTTATATGATTTTTATGATAATTTTG
9004156 TATGATTGTTTTATATGATTTTTATGATAATTTTG
1 TATGATTGTTTTATATGATTTTTATGATAATTTTG
*
9004191 CATGATTGTTTT-TATGAT
1 TATGATTGTTTTATATGAT
9004209 ATTATTGCAT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
34 7 0.14
35 44 0.86
ACGTcount: A:0.26, C:0.01, G:0.14, T:0.59
Consensus pattern (35 bp):
TATGATTGTTTTATATGATTTTTATGATAATTTTG
Found at i:9004208 original size:25 final size:24
Alignment explanation
Indices: 9004174--9004268 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
9004164 TTTTATATGA
9004174 TTTTTATGATAATT-TTGCATGATT
1 TTTTTATGAT-ATTATTGCATGATT
9004198 GTTTTTATGATATTATTGCATG-TT
1 -TTTTTATGATATTATTGCATGATT
*
9004222 TTTATTATGATATTATTACATGA-T
1 TTT-TTATGATATTATTGCATGATT
* *
9004246 TTTATATGATATTATTACATGAT
1 TTTTTATGATATTATTGCATGAT
9004269 GATATTTTTG
Statistics
Matches: 64, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
23 21 0.33
24 26 0.41
25 17 0.27
ACGTcount: A:0.28, C:0.04, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTTTATGATATTATTGCATGATT
Found at i:9004224 original size:46 final size:45
Alignment explanation
Indices: 9004174--9004400 Score: 200
Period size: 46 Copynumber: 5.0 Consensus size: 45
9004164 TTTTATATGA
9004174 TTTTTATGATAATTTTGCATGATTGTTTTTATGATATTATTGCATG
1 TTTTTATGATAATTTTGCATGA-TGTTTTTATGATATTATTGCATG
* * * *
9004220 TTTTTATTATGATATTATTACATGAT-TTTATATGATATTATTACATG
1 TTTTTATGAT-A-ATT-TTGCATGATGTTTTTATGATATTATTGCATG
* *
9004267 -----ATGATATTTTTGCATGATGTTTATTATGATATTATTGCATA
1 TTTTTATGATAATTTTGCATGATGTTT-TTATGATATTATTGCATG
*
9004308 TTTTTATGAT-ATATTTGTATGATGTTTATTATGATATTATTGCATG
1 TTTTTATGATAAT-TTTGCATGATGTTT-TTATGATATTATTGCATG
* * * * *
9004354 ATTTTTTCATGATATTTTTGTAAGAT-TTTTTATGTTATTTTTGCATG
1 --TTTTT-ATGATAATTTTGCATGATGTTTTTATGATATTATTGCATG
9004401 ATACTTTCAT
Statistics
Matches: 149, Mismatches: 17, Indels: 29
0.76 0.09 0.15
Matches are distributed among these distances:
39 8 0.05
40 5 0.03
41 16 0.11
42 4 0.03
45 1 0.01
46 45 0.30
47 36 0.24
48 12 0.08
49 21 0.14
50 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.13, T:0.56
Consensus pattern (45 bp):
TTTTTATGATAATTTTGCATGATGTTTTTATGATATTATTGCATG
Found at i:9004272 original size:16 final size:16
Alignment explanation
Indices: 9004251--9004285 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
9004241 ATGATTTTAT
9004251 ATGATATTATTACATG
1 ATGATATTATTACATG
* *
9004267 ATGATATTTTTGCATG
1 ATGATATTATTACATG
9004283 ATG
1 ATG
9004286 TTTATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (16 bp):
ATGATATTATTACATG
Found at i:9004283 original size:88 final size:87
Alignment explanation
Indices: 9004179--9004355 Score: 245
Period size: 88 Copynumber: 2.0 Consensus size: 87
9004169 TATGATTTTT
* *
9004179 ATGATAATTTTGCATGATTGTTT-TTATGATATTATTGCATGTTTTTATTATGATATTAT-TACA
1 ATGATAATTTTGCATGA-TGTTTATTATGATATTATTGCATATTTTTATGAT-ATATT-TGT--A
9004242 TGAT-TTTA-TATGATATTATTACATG
61 TGATGTTTATTATGATATTATTACATG
*
9004267 ATGATATTTTTGCATGATGTTTATTATGATATTATTGCATATTTTTATGATATATTTGTATGATG
1 ATGATAATTTTGCATGATGTTTATTATGATATTATTGCATATTTTTATGATATATTTGTATGATG
*
9004332 TTTATTATGATATTATTGCATG
66 TTTATTATGATATTATTACATG
9004354 AT
1 AT
9004356 TTTTTCATGA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
85 5 0.06
86 5 0.06
87 29 0.36
88 42 0.52
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.54
Consensus pattern (87 bp):
ATGATAATTTTGCATGATGTTTATTATGATATTATTGCATATTTTTATGATATATTTGTATGATG
TTTATTATGATATTATTACATG
Found at i:9004304 original size:25 final size:23
Alignment explanation
Indices: 9004267--9004416 Score: 135
Period size: 24 Copynumber: 6.3 Consensus size: 23
9004257 TTATTACATG
*
9004267 ATGATATTTTTGCATGATGTTTATT
1 ATGATATTATTGCATGAT-TTT-TT
9004292 ATGATATTATTGCAT-A-TTTTT
1 ATGATATTATTGCATGATTTTTT
*
9004313 ATGATA-TATTTGTATGATGTTTATT
1 ATGATATTA-TTGCATGAT-TTT-TT
9004338 ATGATATTATTGCATGATTTTTT
1 ATGATATTATTGCATGATTTTTT
* * *
9004361 CATGATATTTTTGTAAGATTTTTT
1 -ATGATATTATTGCATGATTTTTT
* * * *
9004385 ATGTTATTTTTGCATGATACTTTC
1 ATGATATTATTGCATGAT-TTTTT
9004409 ATGATATT
1 ATGATATT
9004417 TTTCTTTAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
20 2 0.02
21 13 0.12
22 4 0.04
23 17 0.16
24 37 0.35
25 30 0.29
26 2 0.02
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (23 bp):
ATGATATTATTGCATGATTTTTT
Found at i:9004342 original size:12 final size:12
Alignment explanation
Indices: 9004120--9004370 Score: 64
Period size: 11 Copynumber: 20.9 Consensus size: 12
9004110 TTTTTGCATT
9004120 TTATGATATTT-
1 TTATGATATTTA
9004131 TTAT-ATGATTT-
1 TTATGAT-ATTTA
9004142 TTATGATAATTT-
1 TTATGAT-ATTTA
9004154 TGTATGAT-TGTT-
1 T-TATGATAT-TTA
9004166 TTAT-ATGATTT-
1 TTATGAT-ATTTA
9004177 TTATGATAATTT-
1 TTATGAT-ATTTA
* *
9004189 TGCATGAT-TGTTT
1 T-TATGATAT-TTA
9004202 TTATGATA-TTA
1 TTATGATATTTA
*
9004213 TTGCATG-TTTTTA
1 TT--ATGATATTTA
9004226 TTATGATA-TTA
1 TTATGATATTTA
9004237 TTACATGAT-TTTA
1 TT--ATGATATTTA
9004250 -TATGATA-TTA
1 TTATGATATTTA
*
9004260 TTACATGATGATATTT
1 TT--ATGAT-AT-TTA
*
9004276 TTGCATGATGTTTA
1 TT--ATGATATTTA
9004290 TTATGATA-TTA
1 TTATGATATTTA
9004301 -T-TGCATATTT-
1 TTATG-ATATTTA
9004311 TTATGATATATT-
1 TTATGATAT-TTA
*
9004323 TGTATGATGTTTA
1 T-TATGATATTTA
9004336 TTATGATA-TTA
1 TTATGATATTTA
9004347 TTGCATGAT-TTT-
1 TT--ATGATATTTA
9004359 TTCATGATATTT
1 TT-ATGATATTT
9004371 TTGTAAGATT
Statistics
Matches: 190, Mismatches: 14, Indels: 71
0.69 0.05 0.26
Matches are distributed among these distances:
9 2 0.01
10 16 0.08
11 57 0.30
12 51 0.27
13 48 0.25
14 5 0.03
15 1 0.01
16 10 0.05
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (12 bp):
TTATGATATTTA
Found at i:9004409 original size:47 final size:47
Alignment explanation
Indices: 9004170--9004419 Score: 218
Period size: 47 Copynumber: 5.4 Consensus size: 47
9004160 ATTGTTTTAT
* * *
9004170 ATGATTTTTATGATAATTTTGCATGATTGTTT-TTATGATATTATTGC
1 ATGATTTTCATGATATTTTTGTATGA-TGTTTATTATGATATTATTGC
* * * ** *
9004217 ATGTTTTTATTATGATATTATTACATGAT-TTTA-TATGATATTATTAC
1 ATG-ATTT-TCATGATATTTTTGTATGATGTTTATTATGATATTATTGC
*
9004264 ATG------ATGATATTTTTGCATGATGTTTATTATGATATTATTGC
1 ATGATTTTCATGATATTTTTGTATGATGTTTATTATGATATTATTGC
* *
9004305 AT-ATTTTTATGATATATTTGTATGATGTTTATTATGATATTATTGC
1 ATGATTTTCATGATATTTTTGTATGATGTTTATTATGATATTATTGC
* * *
9004351 ATGATTTTTTCATGATATTTTTGTAAGAT-TTT-TTATGTTATTTTTGC
1 ATGA--TTTTCATGATATTTTTGTATGATGTTTATTATGATATTATTGC
9004398 ATGATACTTTCATGATATTTTT
1 ATGAT--TTTCATGATATTTTT
9004420 CTTTAATATT
Statistics
Matches: 172, Mismatches: 15, Indels: 32
0.79 0.07 0.15
Matches are distributed among these distances:
39 16 0.09
40 4 0.02
41 15 0.09
45 1 0.01
46 38 0.22
47 55 0.32
48 7 0.04
49 36 0.21
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (47 bp):
ATGATTTTCATGATATTTTTGTATGATGTTTATTATGATATTATTGC
Found at i:9005675 original size:19 final size:18
Alignment explanation
Indices: 9005638--9005676 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 18
9005628 CTAAAAAAAG
9005638 AATTTTCAAAAAAATTAA
1 AATTTTCAAAAAAATTAA
9005656 AATTTTCAAAAAAATCTAA
1 AATTTTCAAAAAAAT-TAA
9005675 AA
1 AA
9005677 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTTTCAAAAAAATTAA
Found at i:9005853 original size:19 final size:18
Alignment explanation
Indices: 9005804--9005853 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9005794 TGAAAATCCC
9005804 AAAAATCTAAAATATAAA
1 AAAAATCTAAAATATAAA
* * *
9005822 AAAAAACTCAAAATATCTAG
1 AAAAATCT-AAAATAT-AAA
9005842 AAAAATCTAAAA
1 AAAAATCTAAAA
9005854 AATTTTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 11 0.42
20 8 0.31
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAATCTAAAATATAAA
Found at i:9005864 original size:18 final size:18
Alignment explanation
Indices: 9005843--9005929 Score: 63
Period size: 18 Copynumber: 4.8 Consensus size: 18
9005833 AATATCTAGA
*
9005843 AAAATCTAAAAAATTTTT
1 AAAATATAAAAAATTTTT
* * *
9005861 AAAAATATTAAAAA-GTTG
1 -AAAATATAAAAAATTTTT
**
9005879 AAAAT-TAAAAAAATCCTT
1 AAAATAT-AAAAAATTTTT
9005897 AAAATATAAAAAA-TTTT
1 AAAATATAAAAAATTTTT
*
9005914 AAAATTTTAAAAAATT
1 AAAA-TATAAAAAATT
9005930 CCAAAAACTC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
16 1 0.02
17 16 0.31
18 22 0.42
19 13 0.25
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAATATAAAAAATTTTT
Found at i:9005917 original size:27 final size:26
Alignment explanation
Indices: 9005843--9005925 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 26
9005833 AATATCTAGA
*
9005843 AAAATCTAAAAAATTTTTAAAAATATT
1 AAAATATAAAAAA-TTTTAAAAATATT
** ** *
9005870 AAAA-AGTTGAAAATTAAAAAAATCCTT
1 AAAATA-TAAAAAATTTTAAAAAT-ATT
*
9005897 AAAATATAAAAAATTTT-AAAATTTT
1 AAAATATAAAAAATTTTAAAAATATT
9005922 AAAA
1 AAAA
9005926 AATTCCAAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
25 6 0.14
26 13 0.31
27 22 0.52
28 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (26 bp):
AAAATATAAAAAATTTTAAAAATATT
Found at i:9006058 original size:26 final size:26
Alignment explanation
Indices: 9006007--9006056 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
9005997 TTAATATTAC
*
9006007 ATTTTCAATTTTTTTAGAACATTTTA
1 ATTTTCAATTCTTTTAGAACATTTTA
9006033 ATTTTCAATATCTTTT-GAA-ATTTT
1 ATTTTCAAT-TCTTTTAGAACATTTT
9006057 TAGGATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 5 0.23
26 12 0.55
27 5 0.23
ACGTcount: A:0.30, C:0.08, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTTTCAATTCTTTTAGAACATTTTA
Found at i:9006133 original size:20 final size:19
Alignment explanation
Indices: 9006089--9006134 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
9006079 TTTTTTTTTG
*
9006089 AATTTTTATGAATTTTTTA
1 AATTTTTATGAATTTTTAA
* *
9006108 AGTTTTTCTCGAATTTTTAA
1 AATTTTTAT-GAATTTTTAA
9006128 AATTTTT
1 AATTTTT
9006135 TTATTTTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (19 bp):
AATTTTTATGAATTTTTAA
Found at i:9008130 original size:19 final size:17
Alignment explanation
Indices: 9008083--9008133 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
9008073 TTTAAAATAT
**
9008083 TTAAAATAATATCACTTA
1 TTAAAATAATAT-TTTTA
9008101 TTAAAATAATATTTTTA
1 TTAAAATAATATTTTTA
9008118 TTAATATATAATATTT
1 TTAA-A-ATAATATTT
9008134 AAAATAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.24
18 13 0.45
19 9 0.31
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAAAATAATATTTTTA
Found at i:9008139 original size:31 final size:29
Alignment explanation
Indices: 9008101--9008174 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
9008091 ATATCACTTA
* *
9008101 TTAAAATAATATTTTTATTAATATATAATAT
1 TTAAAATAATATTTTAATT-AT-TAAAATAT
*
9008132 TTAAAATAGTAATTTTAATTATTAAAATAT
1 TTAAAATAAT-ATTTTAATTATTAAAATAT
*
9008162 TAAAAATACATAT
1 TTAAAATA-ATAT
9008175 GTTTCATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 16 0.44
31 12 0.33
32 8 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (29 bp):
TTAAAATAATATTTTAATTATTAAAATAT
Found at i:9008144 original size:22 final size:21
Alignment explanation
Indices: 9008119--9008160 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
9008109 ATATTTTTAT
9008119 TAATATATAA-TATTTAAAATAG
1 TAAT-TATAATTA-TTAAAATAG
*
9008141 TAATTTTAATTATTAAAATA
1 TAATTATAATTATTAAAATA
9008161 TTAAAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
TAATTATAATTATTAAAATAG
Found at i:9008596 original size:67 final size:65
Alignment explanation
Indices: 9008490--9008621 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 65
9008480 AAAAAGAAAA
* *
9008490 AAAAATAATTTTTACCATACAAACGGGCCTTAATATAGTTTGAAATTCAAAGCAAAGACAAAAGC
1 AAAAATAATTTTTACCAAACAAACGGACCTTAATATAGTTTGAAATTCAAAGCAAAGACAAAAGC
* * * *
9008555 AAAAATAATTTTTTTACCAAACAAACGGACCTTTATTTAGTTTGAAATTCAAAGCAAATAGAAAA
1 AAAAATAA--TTTTTACCAAACAAACGGACCTTAATATAGTTTGAAATTCAAAGCAAAGACAAAA
9008620 GC
64 GC
9008622 GTCTTCCCTC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 8 0.14
67 51 0.86
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.27
Consensus pattern (65 bp):
AAAAATAATTTTTACCAAACAAACGGACCTTAATATAGTTTGAAATTCAAAGCAAAGACAAAAGC
Found at i:9012261 original size:16 final size:17
Alignment explanation
Indices: 9012240--9012277 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
9012230 ATATTATTTT
9012240 TTATTATATAA-AATAA
1 TTATTATATAATAATAA
9012256 TTATTA-ATAATAATAA
1 TTATTATATAATAATAA
9012272 -TATTAT
1 TTATTAT
9012278 TTATATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTATATAATAATAA
Found at i:9012287 original size:18 final size:18
Alignment explanation
Indices: 9012243--9012283 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9012233 TTATTTTTTA
9012243 TTATATAA-AATAATTAT
1 TTATATAATAATAATTAT
*
9012260 TAATAATAATAAT-ATTAT
1 TTAT-ATAATAATAATTAT
9012278 TTATAT
1 TTATAT
9012284 TAATCAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 5 0.25
18 12 0.60
19 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATATAATAATAATTAT
Found at i:9013993 original size:22 final size:22
Alignment explanation
Indices: 9013941--9013996 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
9013931 AAATTTGAGA
*
9013941 TTTTTATTTGTA-CTTTTTTAT
1 TTTTTATTTTTATCTTTTTTAT
9013962 TTTTTATTTTTATC-TTTTTAT
1 TTTTTATTTTTATCTTTTTTAT
9013983 TATTTTATTTTTAT
1 T-TTTTATTTTTAT
9013997 TATATCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTTATTTTTATCTTTTTTAT
Found at i:9013999 original size:14 final size:13
Alignment explanation
Indices: 9013941--9013997 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 13
9013931 AAATTTGAGA
*
9013941 TTTTTATTTGTACT
1 TTTTTATTTTTA-T
9013955 TTTTTATTTTTTAT
1 TTTTTA-TTTTTAT
*
9013969 TTTTATCTTTTTAT
1 TTTT-TATTTTTAT
9013983 TATTTTATTTTTAT
1 T-TTTTATTTTTAT
9013997 T
1 T
9013998 ATATCTTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 28 0.76
15 9 0.24
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:9014059 original size:34 final size:34
Alignment explanation
Indices: 9013994--9014059 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
9013984 ATTTTATTTT
* *
9013994 TATTATATCTTTTGTTTTTATCCTTCATTTTTCC
1 TATTATATATTTTATTTTTATCCTTCATTTTTCC
9014028 TATTATATATTTCTATTATTTAT-CTTC-TTTTT
1 TATTATATATTT-TATT-TTTATCCTTCATTTTT
9014060 GTTTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 16 0.57
35 7 0.25
36 5 0.18
ACGTcount: A:0.18, C:0.14, G:0.02, T:0.67
Consensus pattern (34 bp):
TATTATATATTTTATTTTTATCCTTCATTTTTCC
Found at i:9014806 original size:56 final size:56
Alignment explanation
Indices: 9014732--9014885 Score: 211
Period size: 56 Copynumber: 2.7 Consensus size: 56
9014722 AATAAATTAT
* * *
9014732 AAAACTTTACCAACATATTGGAAGATTGAAGTTTTAAAAATAAGTTTT-AGGAAATA
1 AAAACCTTACCAACATATTGGAAGATTGAAATTTTAAAAATAAGTTTTGA-AAAATA
* *
9014788 AAAACCTTACCAACATATTAGAAGGTTGAAATTTTAAAAATAAGTTTTGAAAAATA
1 AAAACCTTACCAACATATTGGAAGATTGAAATTTTAAAAATAAGTTTTGAAAAATA
* *
9014844 AAATCCTTACCAACATATTGGAAGATTTTGAAATTTGAAAAA
1 AAAACCTTACCAACATATTGGAAGA--TTGAAATTTTAAAAA
9014886 CAATGTTGCA
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
56 71 0.83
57 1 0.01
58 14 0.16
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (56 bp):
AAAACCTTACCAACATATTGGAAGATTGAAATTTTAAAAATAAGTTTTGAAAAATA
Found at i:9015045 original size:15 final size:15
Alignment explanation
Indices: 9015001--9015044 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
9014991 AATTCTTATT
*
9015001 AATTTAAAAAATAATA
1 AATTTAAGAAA-AATA
9015017 AATTTAAGAAAAATA
1 AATTTAAGAAAAATA
*
9015032 ATTTTCAAGAAAA
1 AATTT-AAGAAAA
9015045 TTCTACCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (15 bp):
AATTTAAGAAAAATA
Found at i:9019875 original size:159 final size:158
Alignment explanation
Indices: 9019639--9019957 Score: 593
Period size: 159 Copynumber: 2.0 Consensus size: 158
9019629 ACTTTTTAAC
* *
9019639 TCATTGGGTTCTAACTTTGAGCCATGTTATCCATGAAGGGAAAATATATAAAGATTGTGAAAAAA
1 TCATTGGGTCCTAACTTTGAGCCATGTTATCCATGAAGGGAAAATATATAAAGATTGCGAAAAAA
9019704 ATCATTGAAGTCAGCCCCAAATTAGAATGAAGAAAAAATCAATGAAATAGGCAATGCAATTACTT
66 ATCATTGAAGTCAGCCCCAAATTAGAATGAAGAAAAAATCAATGAAATAGGCAATGCAATTACTT
9019769 TGTATTCATAACTTGCATAGTGAATTGCA
131 TGTATTCATAACTTGCATA-TGAATTGCA
*
9019798 TCATTGGGTCCTAACTTTGAGCCATGTTATCCATGAAGGGAAAATATATAAAGATTGCGAAAGAA
1 TCATTGGGTCCTAACTTTGAGCCATGTTATCCATGAAGGGAAAATATATAAAGATTGCGAAAAAA
*
9019863 ATCATTGAAGTCAGCCCCAAATTAGAATGAAGAAAAAATCAATGAAATAGGCAATGCAGTTACTT
66 ATCATTGAAGTCAGCCCCAAATTAGAATGAAGAAAAAATCAATGAAATAGGCAATGCAATTACTT
9019928 TGTATTCATAACTTGCATATGAATTGCA
131 TGTATTCATAACTTGCATATGAATTGCA
9019956 TC
1 TC
9019958 GACATATTTG
Statistics
Matches: 156, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
158 11 0.07
159 145 0.93
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (158 bp):
TCATTGGGTCCTAACTTTGAGCCATGTTATCCATGAAGGGAAAATATATAAAGATTGCGAAAAAA
ATCATTGAAGTCAGCCCCAAATTAGAATGAAGAAAAAATCAATGAAATAGGCAATGCAATTACTT
TGTATTCATAACTTGCATATGAATTGCA
Found at i:9022141 original size:40 final size:40
Alignment explanation
Indices: 9022065--9022142 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
9022055 GACCTTATTA
* *
9022065 AGTAATCTAGAGATGAGAAAGTTGTTAATTAATTATGCTG
1 AGTAATCTAGAGATAAGAAAGTTGTCAATTAATTATGCTG
* * * * *
9022105 AGTAATTTAGGGATAAGGAAGTTGTCGATTAGTTATGC
1 AGTAATCTAGAGATAAGAAAGTTGTCAATTAATTATGC
9022143 AAAATCGTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.35
Consensus pattern (40 bp):
AGTAATCTAGAGATAAGAAAGTTGTCAATTAATTATGCTG
Found at i:9022461 original size:20 final size:21
Alignment explanation
Indices: 9022438--9022480 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9022428 AGCATTGTAG
9022438 GAAAAAATAG-AGCAATGCAA
1 GAAAAAATAGAAGCAATGCAA
*
9022458 GAAAAAATGGAAGCAATGCAA
1 GAAAAAATAGAAGCAATGCAA
9022479 GA
1 GA
9022481 CATTGTTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.58, C:0.09, G:0.23, T:0.09
Consensus pattern (21 bp):
GAAAAAATAGAAGCAATGCAA
Found at i:9024022 original size:13 final size:13
Alignment explanation
Indices: 9024004--9024028 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9023994 ATGGTTTGTC
9024004 AACAAAAAATACA
1 AACAAAAAATACA
9024017 AACAAAAAATAC
1 AACAAAAAATAC
9024029 TTCTTTTTTG
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):
AACAAAAAATACA
Found at i:9028037 original size:258 final size:258
Alignment explanation
Indices: 9027580--9028082 Score: 663
Period size: 258 Copynumber: 1.9 Consensus size: 258
9027570 CATCTACCAT
* ** * ** *
9027580 AAGAATCTTATGGTTTTAAGGTCTGTTAGGTGGTAATCTTTTCGGTAGTTCAAACATATCTTCAT
1 AAGAATCTTATGGTTTTAAGGTCTATTAGGTAATAATCCTTTCAATAGTTCAAACACATCTTCAT
* * * * *
9027645 AGGCTTGTAAAAATTAACTTAGCTCCTTTTGGAACTTTATTACCTCTAGTTGATAGATGGTGATC
66 AGGCCTGCAAAAATTAACTTAGCTCATTTGGGAACTCTATTACCTCTAGTTGATAGATGGTGATC
* * * *
9027710 ATATTCAATGAGAGCAATGCTCTATCAGAGATCATCATAGTATAAGGTTGATAAAGTCTATTCCC
131 ATATTCAATAAGAGCAATGCTCTATCAGAGATCATCATAGTACAAGGTTAATAAAGTATATTCCC
9027775 TAATAGTGA-CTGCAGCATTTTCATACCTTGTTTTCTATTCACCAAGTGTATTTCATCCACTAA
196 TAATAGTGATC-GCAGCATTTTCATACCTTGTTTTCTATTCACCAAGTGTATTTCATCCACTAA
* *
9027838 AAGAATCTTATGGTTTTGAGGTTTATT-GGATAATAATCCTTTCAATAGTTCAAACACATCTTCA
1 AAGAATCTTATGGTTTTAAGGTCTATTAGG-TAATAATCCTTTCAATAGTTCAAACACATCTTCA
* * * * * *
9027902 TAGGCCTGCAAGAATTGACTTAGCTCATTTGGGACCTCTATTTCCTTTGGTTGAT-GATTGGTGA
65 TAGGCCTGCAAAAATTAACTTAGCTCATTTGGGAACTCTATTACCTCTAGTTGATAGA-TGGTGA
* * *
9027966 TCATATTCAATTAAG-GCTATGCTCTATTAGAGATCATCATAGTACAAGGTTAATAAGGTATATT
129 TCATATTCAA-TAAGAGCAATGCTCTATCAGAGATCATCATAGTACAAGGTTAATAAAGTATATT
* * * *
9028030 CCCTAATAGTGATCGTAGCATTTTCATATCTTGTTTTTTGTTCACCAAGTGTA
193 CCCTAATAGTGATCGCAGCATTTTCATACCTTGTTTTCTATTCACCAAGTGTA
9028083 CTTTTTTAGG
Statistics
Matches: 210, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
257 4 0.02
258 202 0.96
259 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (258 bp):
AAGAATCTTATGGTTTTAAGGTCTATTAGGTAATAATCCTTTCAATAGTTCAAACACATCTTCAT
AGGCCTGCAAAAATTAACTTAGCTCATTTGGGAACTCTATTACCTCTAGTTGATAGATGGTGATC
ATATTCAATAAGAGCAATGCTCTATCAGAGATCATCATAGTACAAGGTTAATAAAGTATATTCCC
TAATAGTGATCGCAGCATTTTCATACCTTGTTTTCTATTCACCAAGTGTATTTCATCCACTAA
Found at i:9029783 original size:188 final size:184
Alignment explanation
Indices: 9029466--9029944 Score: 484
Period size: 188 Copynumber: 2.6 Consensus size: 184
9029456 ATACTTTAAC
* * * * *
9029466 TTTTAATTGAAGGGAATTATTTAAGGCATTTTTAGCCAAAAACACCTTGAATAACCCCATTCAAT
1 TTTTAATTGAAGGG-ATTATTTAAGGCGTTTTTAGCTAGAAACGCCTTGAATAATCCCATTCAAT
* * * *
9029531 TTTTTGTAAGGGATTATCCAATGTATTTTTGGTCAGAAAAACACCTTGAATCTCTAAAAAAAAAT
65 TTTTTGTAAAGGATTATTCAAGGTATTTTTGG-CA-AAAAACACCTTGAATATCTAAAAAAAAA-
* * * *
9029596 TTCAA-GGGATTATTGAAGGCGTT-TTCAGCCAAAAATGCATTGAATAATCTCCTCAAA
127 -TCAAGGGGATTATTGAAGGCGTTCTTCAGCAAAAAATACATTGAATAATCCCCCCAAA
* * *
9029653 TTTTTAATTAAAAGGGATTATTTAAGGCGTTTTTAGCTAGAAATGTCTTGAATAATCCCATTCAA
1 -TTTTAATT-GAAGGGATTATTTAAGGCGTTTTTAGCTAGAAACGCCTTGAATAATCCCATTCAA
** * *
9029718 TTTTTTGTAAAGGATTATTCAAGGTATTTTCTGGCAAAAAATGCCTTGATTAATGC-CAAAAAAA
64 TTTTTTGTAAAGGATTATTCAAGGTATTTT-TGGCAAAAAACACCTTGAAT-AT-CTAAAAAAAA
* ** *
9029782 ATGAATGGGGATTATTGAAGGCGTTCTTTTGCAAAAAATACCTTGAATAATCCCCCCAAA
126 ATCAA-GGGGATTATTGAAGGCGTTCTTCAGCAAAAAATACATTGAATAATCCCCCCAAA
* ** * * ** * *
9029842 ---AAAGGGAAGGGATTATTCAAGGTGGCTTTGGCTAGAAACGCCTTGAATAATCCAATTCAATT
1 TTTTAATTGAAGGGATTATTTAAGGCGTTTTTAGCTAGAAACGCCTTGAATAATCCCATTCAATT
* *
9029904 TTTTGTAAAGGATTATTCAAGGCTTTTTTTTGACAAAAAAC
66 TTTTGTAAAGGATTATTCAAGG--TATTTTTGGCAAAAAAC
9029945 GTATTGAATA
Statistics
Matches: 243, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
184 70 0.29
185 11 0.05
186 8 0.03
187 12 0.05
188 106 0.44
189 36 0.15
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (184 bp):
TTTTAATTGAAGGGATTATTTAAGGCGTTTTTAGCTAGAAACGCCTTGAATAATCCCATTCAATT
TTTTGTAAAGGATTATTCAAGGTATTTTTGGCAAAAAACACCTTGAATATCTAAAAAAAAATCAA
GGGGATTATTGAAGGCGTTCTTCAGCAAAAAATACATTGAATAATCCCCCCAAA
Found at i:9031401 original size:33 final size:31
Alignment explanation
Indices: 9031364--9031442 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
9031354 ATGTTTTATG
9031364 ATAAAAACGTCACTAAGTTAGTGGCATTTTGTT
1 ATAAAAACGTCACTAAGTTAGTGGCA-TTT-TT
* *
9031397 ATAAAAAC-ACTATTAAGTTAGTGGCATTTTT
1 ATAAAAACGTC-ACTAAGTTAGTGGCATTTTT
* *
9031428 AGAAAAATGTCACTA
1 ATAAAAACGTCACTA
9031443 TTTTCTCCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 11 0.29
32 5 0.13
33 22 0.58
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.34
Consensus pattern (31 bp):
ATAAAAACGTCACTAAGTTAGTGGCATTTTT
Found at i:9039372 original size:22 final size:21
Alignment explanation
Indices: 9039346--9039398 Score: 97
Period size: 22 Copynumber: 2.5 Consensus size: 21
9039336 CAAAGTACTA
9039346 CAAATATGATAATATTTTAGC
1 CAAATATGATAATATTTTAGC
9039367 CAAAATATGATAATATTTTAGC
1 C-AAATATGATAATATTTTAGC
9039389 CAAATATGAT
1 CAAATATGAT
9039399 TCTTTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
CAAATATGATAATATTTTAGC
Found at i:9048332 original size:22 final size:22
Alignment explanation
Indices: 9048275--9048337 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
9048265 AAAAACTTAG
9048275 AGATTTTTAAC-TGAAA--TAA
1 AGATTTTTAACTTGAAATTTAA
* *
9048294 AGA-TTCTAACTTAAAATTTAA
1 AGATTTTTAACTTGAAATTTAA
9048315 AGATTTTTAACTTGAAATTTAA
1 AGATTTTTAACTTGAAATTTAA
9048337 A
1 A
9048338 TATTCACAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.17
19 7 0.19
21 6 0.17
22 17 0.47
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (22 bp):
AGATTTTTAACTTGAAATTTAA
Found at i:9048795 original size:46 final size:48
Alignment explanation
Indices: 9048737--9048946 Score: 232
Period size: 46 Copynumber: 4.5 Consensus size: 48
9048727 ATATTTAATA
* * * *
9048737 TTCAAATATTCACATTTGAAAAAAA-ATTGAA-ATTCACATCCAAAAT
1 TTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCACATTCAAAAT
* * * *
9048783 TTCAAATTTTCACATTTGAAAAAAATTTTTAAGATTCATATTCAAATT
1 TTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCACATTCAAAAT
* * * *
9048831 TTCAAAGATTCACATTCG--AGATATTTTAAAGATTCACATTCAAAAT
1 TTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCACATTCAAAAT
* *
9048877 TTCAAATATTCATATTCGAAATAAAATTTTTAAGATTCATATTCAAAAT
1 TTCAAATATTCACATTCGAAA-AAAATTTTTAAGATTCACATTCAAAAT
* *
9048926 TTCAAAT-GTCACATTAGAAAA
1 TTCAAATATTCACATTCGAAAA
9048947 GTTTTTAGAA
Statistics
Matches: 136, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
46 63 0.46
47 5 0.04
48 38 0.28
49 30 0.22
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.37
Consensus pattern (48 bp):
TTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCACATTCAAAAT
Found at i:9048841 original size:22 final size:22
Alignment explanation
Indices: 9048805--9048931 Score: 96
Period size: 22 Copynumber: 5.5 Consensus size: 22
9048795 CATTTGAAAA
*
9048805 AAATTTT-TAAGATTCATATTC
1 AAATTTTCAAAGATTCATATTC
*
9048826 AAATTTTCAAAGATTCACATTC
1 AAATTTTCAAAGATTCATATTC
*
9048848 GAGATATTTT-AAAGATTCACATTC
1 -A-A-ATTTTCAAAGATTCATATTC
* *
9048872 AAAATTTCAAATATTCATATTC
1 AAATTTTCAAAGATTCATATTC
**
9048894 GAAATAAAATTTTTAAGATTCATATTC
1 -AAAT----TTTCAAAGATTCATATTC
*
9048921 AAAATTTCAAA
1 AAATTTTCAAA
9048932 TGTCACATTA
Statistics
Matches: 84, Mismatches: 12, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
21 11 0.13
22 30 0.36
23 5 0.06
24 15 0.18
25 5 0.06
26 3 0.04
27 15 0.18
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (22 bp):
AAATTTTCAAAGATTCATATTC
Found at i:9048842 original size:94 final size:95
Alignment explanation
Indices: 9048707--9048931 Score: 260
Period size: 94 Copynumber: 2.4 Consensus size: 95
9048697 GAAGACTCAC
* * * * * * *
9048707 AAATGAAA-TTTTAAAACTTCATATT-TAATATTCAAATATTCACATTTGAAAAAAAATTGAA-A
1 AAATAAAATTTTTAAGA-TTCATATTCAAATTTTCAAAGATTCACATTCG-AAAAAAATTAAAGA
* *
9048769 TTCACATCCAAAATTTCAAATTTTCACATTTG
64 TTCACATCCAAAATTTCAAATATTCACATTCG
* * **
9048801 AAA-AAAATTTTTAAGATTCATATTCAAATTTTCAAAGATTCACATTCGAGATATTTTAAAGATT
1 AAATAAAATTTTTAAGATTCATATTCAAATTTTCAAAGATTCACATTCGAAAAAAATTAAAGATT
* *
9048865 CACATTCAAAATTTCAAATATTCATATTCG
66 CACATCCAAAATTTCAAATATTCACATTCG
*
9048895 AAATAAAATTTTTAAGATTCATATTCAAAATTTCAAA
1 AAATAAAATTTTTAAGATTCATATTCAAATTTTCAAA
9048932 TGTCACATTA
Statistics
Matches: 111, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
93 18 0.16
94 61 0.55
95 32 0.29
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (95 bp):
AAATAAAATTTTTAAGATTCATATTCAAATTTTCAAAGATTCACATTCGAAAAAAATTAAAGATT
CACATCCAAAATTTCAAATATTCACATTCG
Found at i:9048902 original size:27 final size:27
Alignment explanation
Indices: 9048872--9048925 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
9048862 ATTCACATTC
* *
9048872 AAAATTTCAAATATTCATATTCGAAAT
1 AAAATTTCAAAGATTCATATTCAAAAT
**
9048899 AAAATTTTTAAGATTCATATTCAAAAT
1 AAAATTTCAAAGATTCATATTCAAAAT
9048926 TTCAAATGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (27 bp):
AAAATTTCAAAGATTCATATTCAAAAT
Found at i:9048953 original size:95 final size:92
Alignment explanation
Indices: 9048766--9048992 Score: 269
Period size: 94 Copynumber: 2.4 Consensus size: 92
9048756 AAAAAAATTG
* * *
9048766 AAATTCACATCCAAAATTTCAAATTTTCACATTTGAAAAAAATTTTTAAGATTCATATTCAAATT
1 AAATTCACATCCAAAATTTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCATATTCAAAAT
* *
9048831 TTCAAAGATTCACATTCGAGATATTTTA
66 TTCAAAGA-TCACATTAGAAATATTTTA
* *
9048859 AAGATTCACATTCAAAATTTCAAATATTCATATTCGAAATAAAATTTTTAAGATTCATATTCAAA
1 AA-ATTCACATCCAAAATTTCAAATATTCACATTCGAAA-AAAATTTTTAAGATTCATATTCAAA
9048924 ATTTCAAATG-TCACATTAGAAA-AGTTTTTA
64 ATTTCAAA-GATCACATTAGAAATA--TTTTA
* * * * * *
9048954 GAATTAACATCCAAAAATTCAAAGATTTACATTCCAAAA
1 AAATTCACATCCAAAATTTCAAATATTCACATTCGAAAA
9048993 GTATTAGAGA
Statistics
Matches: 114, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
93 4 0.04
94 71 0.62
95 38 0.33
96 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (92 bp):
AAATTCACATCCAAAATTTCAAATATTCACATTCGAAAAAAATTTTTAAGATTCATATTCAAAAT
TTCAAAGATCACATTAGAAATATTTTA
Found at i:9049063 original size:148 final size:146
Alignment explanation
Indices: 9048911--9049189 Score: 321
Period size: 148 Copynumber: 1.9 Consensus size: 146
9048901 AATTTTTAAG
*
9048911 ATTCATAT-TCAAAATTTCAAATG-TCACATTAGAAAAGTTTTT-AGAATTAACATCCAAAAATT
1 ATTCATATCT-AAAA-TTC-AATGATCACATTAGAAAAATTTTTGAG-ATTAACATCCAAAAATT
* * *
9048973 CAAAGATTTACATTCCAAAAGTATTAGAGACTTAAGGATTCTCATTCTAAAAAACTTTAAAGATT
62 CAAAGATTTACATTCCAAAAGTATTAGAGACTCAAAGATTCTCATTC-AAAAAAATTTAAAGATT
9049038 CACATTCGAAAAGTCTTAAAA
126 CACATTCGAAAAGTCTTAAAA
* ** * * * *
9049059 ATTCATATCTAAGATTCAATGATTCTTATTTGAAAAATTTTTGAGATTCACATTCAAAATTTCAA
1 ATTCATATCTAAAATTCAATGA-TCACATTAGAAAAATTTTTGAGATTAACATCCAAAAATTCAA
* ** * * * *
9049124 AGATTTGCATTTGAAAAGTCTTAGAGACTCAAAGATTTTCATTCAAAAAAATTTAGATATTCACA
65 AGATTTACATTCCAAAAGTATTAGAGACTCAAAGATTCTCATTCAAAAAAATTTAAAGATTCACA
9049189 T
130 T
9049190 CTAAAATTTC
Statistics
Matches: 109, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
146 4 0.04
147 22 0.20
148 80 0.73
149 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.35
Consensus pattern (146 bp):
ATTCATATCTAAAATTCAATGATCACATTAGAAAAATTTTTGAGATTAACATCCAAAAATTCAAA
GATTTACATTCCAAAAGTATTAGAGACTCAAAGATTCTCATTCAAAAAAATTTAAAGATTCACAT
TCGAAAAGTCTTAAAA
Found at i:9049296 original size:22 final size:22
Alignment explanation
Indices: 9049271--9049312 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9049261 AAAAATTTTT
9049271 AAGATTCATA-TCTAAAAATTCA
1 AAGATTCATAGT-TAAAAATTCA
*
9049293 AAGATTCTTAGTTAAAAATT
1 AAGATTCATAGTTAAAAATT
9049313 TTAGAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (22 bp):
AAGATTCATAGTTAAAAATTCA
Found at i:9049651 original size:40 final size:39
Alignment explanation
Indices: 9049572--9049691 Score: 134
Period size: 40 Copynumber: 3.1 Consensus size: 39
9049562 CATCCAAAAC
* * *
9049572 ATCTCATCATGAAAAATTTT-CTCATTTGAGGATTTAAA
1 ATCTCATCATGAAAAGTTTTCCTCATTCGAGGATTCAAA
* * *
9049610 ATCTCATCCTGAAAATGTTTTCCTCATTCAAGGAATCAAA
1 ATCTCATCATGAAAA-GTTTTCCTCATTCGAGGATTCAAA
* **
9049650 ATCTCATTTAAAAAAAGTTTTCCTCATTCGAGGATTCAAA
1 ATCTCA-TCATGAAAAGTTTTCCTCATTCGAGGATTCAAA
9049690 AT
1 AT
9049692 TGTATTTTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.21
39 4 0.06
40 44 0.66
41 5 0.07
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (39 bp):
ATCTCATCATGAAAAGTTTTCCTCATTCGAGGATTCAAA
Found at i:9049704 original size:40 final size:39
Alignment explanation
Indices: 9049621--9049769 Score: 158
Period size: 39 Copynumber: 3.8 Consensus size: 39
9049611 TCTCATCCTG
* * * * *
9049621 AAAATGTTTTCCTCATTCAAGGAATCAAAATCT-CATTTAA
1 AAAAAGTTTTCCTCATTCGAGGATTCAAAAT-TGTATTT-T
9049661 AAAAAGTTTTCCTCATTCGAGGATTCAAAATTGTATTTT
1 AAAAAGTTTTCCTCATTCGAGGATTCAAAATTGTATTTT
* * * *
9049700 AAAAAGCTTTCTTCATTCGAGGATTTAAAATTGTATCTT
1 AAAAAGTTTTCCTCATTCGAGGATTCAAAATTGTATTTT
* * *
9049739 AAAAAG-CTTCCTCATTTGAGAATTCAAAATT
1 AAAAAGTTTTCCTCATTCGAGGATTCAAAATT
9049770 TTAAATTTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 20 0.21
39 42 0.45
40 32 0.34
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.38
Consensus pattern (39 bp):
AAAAAGTTTTCCTCATTCGAGGATTCAAAATTGTATTTT
Found at i:9049966 original size:16 final size:17
Alignment explanation
Indices: 9049945--9049976 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9049935 AATACTTTAA
9049945 CCATGATT-AAATGTTT
1 CCATGATTAAAATGTTT
9049961 CCATGATTAAAATGTT
1 CCATGATTAAAATGTT
9049977 CACTACATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
CCATGATTAAAATGTTT
Found at i:9051292 original size:28 final size:27
Alignment explanation
Indices: 9051261--9051320 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
9051251 CTCGAACATG
* *
9051261 TTTTTCATCTTTTCATTTTTTTTCTTCC
1 TTTTTCATCTTCTCATTTATTTTC-TCC
* *
9051289 TTTTTCTTGTTCTCATTTATTTTCTCC
1 TTTTTCATCTTCTCATTTATTTTCTCC
9051316 TTTTT
1 TTTTT
9051321 TTTTCTTGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (27 bp):
TTTTTCATCTTCTCATTTATTTTCTCC
Found at i:9051326 original size:13 final size:13
Alignment explanation
Indices: 9051276--9051326 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
9051266 CATCTTTTCA
9051276 TTTTTTTTCTTCCT
1 TTTTTTTTC-TCCT
*
9051290 TTTTCTTGTTCT-CA
1 TTTT-TT-TTCTCCT
*
9051304 TTTATTTTCTCCT
1 TTTTTTTTCTCCT
9051317 TTTTTTTTCT
1 TTTTTTTTCT
9051327 TGCATGCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
12 4 0.13
13 12 0.40
14 8 0.27
15 3 0.10
16 3 0.10
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTTTTTCTCCT
Found at i:9057079 original size:13 final size:13
Alignment explanation
Indices: 9057061--9057086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9057051 CATTAGAAGC
9057061 TTTTCCTTTTCTT
1 TTTTCCTTTTCTT
9057074 TTTTCCTTTTCTT
1 TTTTCCTTTTCTT
9057087 ACTTTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTCCTTTTCTT
Found at i:9063110 original size:25 final size:25
Alignment explanation
Indices: 9063076--9063128 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
9063066 CAAAATTGCA
*
9063076 CTAGCAAATGCACACTACATGTAAC
1 CTAGCAAATGCACACCACATGTAAC
9063101 CTAGCAAATGCACACCACATGTAAC
1 CTAGCAAATGCACACCACATGTAAC
9063126 CTA
1 CTA
9063129 TAGTCTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (25 bp):
CTAGCAAATGCACACCACATGTAAC
Found at i:9068044 original size:51 final size:50
Alignment explanation
Indices: 9067906--9068058 Score: 161
Period size: 50 Copynumber: 3.0 Consensus size: 50
9067896 TATAACCATA
* * *
9067906 CAAACTTGCCCATTAAGAATCC-CTCTCCTCTT-AATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCTCT-TTCTCTTAAATTCTTCT-CTGCAAGT
* *
9067956 CAAACTTGCCTATTAAAAAT--TCTTTCCTTTTAGAATTCTTCTCTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTT-CTCTTA-AATTCTTCTCTGCAAGT
* *
9068006 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGAAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTCTTTCTCTT-AAATTCTTC-TCTGCAAGT
9068058 C
1 C
9068059 TTCTTGTCCA
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
48 1 0.01
49 6 0.07
50 43 0.50
51 21 0.24
52 15 0.17
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.40
Consensus pattern (50 bp):
CAAACTTGCCTATTAAGAATCCTCTTTCTCTTAAATTCTTCTCTGCAAGT
Found at i:9068099 original size:11 final size:11
Alignment explanation
Indices: 9068083--9068114 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
9068073 GCAATATCTG
9068083 ACAAATCTCTA
1 ACAAATCTCTA
*
9068094 ACAAATCTCAA
1 ACAAATCTCTA
9068105 ACAAATCTCT
1 ACAAATCTCT
9068115 TATAGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
ACAAATCTCTA
Found at i:9068843 original size:36 final size:36
Alignment explanation
Indices: 9068803--9068874 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
9068793 ATCCGACCCG
* *
9068803 ATATTATATAAAAAATTAT-TTTTTAATTATTTATAT
1 ATATT-TATAAAAAATGATATTTTTAAATATTTATAT
* * *
9068839 ATATTTTTATATAATGATATTTTTAAATATTTATAT
1 ATATTTATAAAAAATGATATTTTTAAATATTTATAT
9068875 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (36 bp):
ATATTTATAAAAAATGATATTTTTAAATATTTATAT
Found at i:9068874 original size:16 final size:16
Alignment explanation
Indices: 9068838--9068876 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9068828 ATTATTTATA
*
9068838 TATATTTTTATATAAT
1 TATATTTTTAAATAAT
* *
9068854 GATATTTTTAAATATT
1 TATATTTTTAAATAAT
9068870 TATATTT
1 TATATTT
9068877 AAAAAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATATTTTTAAATAAT
Done.