Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 62 of 211
Found at i:16645568 original size:15 final size:16
Alignment explanation
Indices: 16645539--16645568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16645529 CAAACATGCT
16645539 TTAACACATTATCAAA
1 TTAACACATTATCAAA
16645555 TTAACACA-TATCAA
1 TTAACACATTATCAA
16645569 CATGACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:16646043 original size:20 final size:19
Alignment explanation
Indices: 16646016--16646057 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
16646006 CTTTCCAAAT
16646016 TTTCTTACTTT-CATTTGCA
1 TTTCTTACTTTCCA-TTGCA
16646035 TTTCATTACTTTCCATTGCA
1 TTTC-TTACTTTCCATTGCA
16646055 TTT
1 TTT
16646058 ACTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.17, C:0.21, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTCTTACTTTCCATTGCA
Found at i:16652658 original size:24 final size:24
Alignment explanation
Indices: 16652624--16652709 Score: 102
Period size: 24 Copynumber: 3.6 Consensus size: 24
16652614 TACTACAAAA
* *
16652624 CACTTATAGAATACGTAACAAAGG
1 CACTTACAGAATACGCAACAAAGG
*
16652648 TACTTACAGAATACGCCAA-AAAGG
1 CACTTACAGAATACG-CAACAAAGG
* *
16652672 CACTTACAGAATACCCCACAAAGG
1 CACTTACAGAATACGCAACAAAGG
*
16652696 CACTTACGGAATAC
1 CACTTACAGAATAC
16652710 CCTGCTTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.04
24 49 0.92
25 2 0.04
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (24 bp):
CACTTACAGAATACGCAACAAAGG
Found at i:16652710 original size:24 final size:24
Alignment explanation
Indices: 16652641--16652711 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 24
16652631 AGAATACGTA
* *
16652641 ACAAAGGTACTTACAGAATACGCC
1 ACAAAGGCACTTACAGAATACCCC
*
16652665 AAAAAGGCACTTACAGAATACCCC
1 ACAAAGGCACTTACAGAATACCCC
*
16652689 ACAAAGGCACTTACGGAATACCC
1 ACAAAGGCACTTACAGAATACCC
16652712 TGCTTAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.42, C:0.28, G:0.15, T:0.14
Consensus pattern (24 bp):
ACAAAGGCACTTACAGAATACCCC
Found at i:16653493 original size:40 final size:40
Alignment explanation
Indices: 16653438--16653514 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
16653428 GCATCGGCAT
*
16653438 TCATCGACTTCTGTCAGACACAATCAGTAGTCATCGATAG
1 TCATCGACTTCTGTCACACACAATCAGTAGTCATCGATAG
* * * *
16653478 TCATCGGCTTTTGTCACACACAATCGGTAGTTATCGA
1 TCATCGACTTCTGTCACACACAATCAGTAGTCATCGA
16653515 CTTCTATTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (40 bp):
TCATCGACTTCTGTCACACACAATCAGTAGTCATCGATAG
Found at i:16663014 original size:53 final size:48
Alignment explanation
Indices: 16662957--16663073 Score: 108
Period size: 53 Copynumber: 2.2 Consensus size: 48
16662947 AGTGATTATC
* * *
16662957 TTAATATTAAATTAAATTTAATGTTTTATCTTTTAGATAAATATTTTATTAAT
1 TTAATATTAAATTAAATCTAAT-ATTTATC--TT-GATAAATATTATA-TAAT
16663010 TTAATAAGATGTAATATTAAATCTAATATTTATCTTGATAAATATTATATAAT
1 TTAAT---AT-TAA-ATTAAATCTAATATTTATCTTGATAAATATTATATAAT
*
16663063 TCAATATTAAA
1 TTAATATTAAA
16663074 ATGATTAAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
48 1 0.02
49 3 0.05
50 2 0.04
53 13 0.24
54 12 0.22
55 2 0.04
56 2 0.04
57 9 0.16
58 11 0.20
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (48 bp):
TTAATATTAAATTAAATCTAATATTTATCTTGATAAATATTATATAAT
Found at i:16663718 original size:11 final size:11
Alignment explanation
Indices: 16663702--16663727 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16663692 TATTTTTTAA
16663702 TTTTAAAATAC
1 TTTTAAAATAC
16663713 TTTTAAAATAC
1 TTTTAAAATAC
16663724 TTTT
1 TTTT
16663728 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:16663741 original size:40 final size:40
Alignment explanation
Indices: 16663686--16663835 Score: 180
Period size: 40 Copynumber: 3.7 Consensus size: 40
16663676 AATTTTTTTA
*
16663686 TTTTTTT-A-TTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* * *
16663724 TTTTTTTAATTTTTTTAATTTT-AATTTTTTTTTAAATAC
1 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
16663763 TTTTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTT-AATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
16663804 TTTTTTAAACTTTTATTTTAATTTTTAAAATA
1 TTTTTTTAA--TTT-TTTTAA-TTTTAAAATA
16663836 AATTTTTTGT
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
38 7 0.07
39 21 0.22
40 28 0.30
41 20 0.21
42 2 0.02
43 6 0.06
44 10 0.11
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:16663778 original size:27 final size:26
Alignment explanation
Indices: 16663748--16663801 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
16663738 TTAATTTTAA
*
16663748 TTTTT-TTTTAAATACTTTTTTTAAAAT
1 TTTTTATTTTAAA-A-TATTTTTAAAAT
16663775 TTTTTAATTTTAAAATATTTTTAAAAT
1 TTTTT-ATTTTAAAATATTTTTAAAAT
16663802 ACTTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 16 0.67
28 1 0.04
29 7 0.29
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTATTTTAAAATATTTTTAAAAT
Found at i:16663785 original size:17 final size:17
Alignment explanation
Indices: 16663766--16663798 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
16663756 TAAATACTTT
16663766 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
16663782 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
16663799 AATACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:16664203 original size:19 final size:18
Alignment explanation
Indices: 16664176--16664214 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16664166 AATTGCGTGT
* *
16664176 TGAATAGAAATAAATGAAA
1 TGAAAAGAAA-AAAAGAAA
16664195 TGAAAAGAAAAAAAGAAA
1 TGAAAAGAAAAAAAGAAA
16664213 TG
1 TG
16664215 GGAAACATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
TGAAAAGAAAAAAAGAAA
Found at i:16667309 original size:41 final size:41
Alignment explanation
Indices: 16667264--16667371 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
16667254 TGATCTAGTA
* * *
16667264 CACCGACATTAAGCCTGCTAGACATATAGTTTTAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
*
16667305 CACCGGCATTAAGCCTGCTAGACGTATAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
* *
16667346 CACTGGCATTAAGCCTGCTAGGCATA
1 CACCGGCATTAAGCCTGCTAGACATA
16667372 AGCTTGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:16679540 original size:37 final size:37
Alignment explanation
Indices: 16679489--16679572 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
16679479 GAAACATCTT
* **
16679489 GTTTCGATACTAAACTAAAATAATAAGTCTAGTTTCC
1 GTTTCGATATTAAACTAAAATAATAAGTCTAAATTCC
*
16679526 GTTTCAATATTAAACTAAAATAATAAGTCTAAATTCC
1 GTTTCGATATTAAACTAAAATAATAAGTCTAAATTCC
16679563 GTTTCGATAT
1 GTTTCGATAT
16679573 AAATTTCAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.10, T:0.37
Consensus pattern (37 bp):
GTTTCGATATTAAACTAAAATAATAAGTCTAAATTCC
Found at i:16680439 original size:20 final size:21
Alignment explanation
Indices: 16680390--16680446 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
16680380 AACCCTAAAC
* *
16680390 TTCAGGGTTCAGAGTTCAATG
1 TTCAAGGTTCAGGGTTCAATG
* *
16680411 TTTAAGGTTCAGGGTTCGA-G
1 TTCAAGGTTCAGGGTTCAATG
16680431 TTCAAGGTTCAGGGTT
1 TTCAAGGTTCAGGGTT
16680447 TAAGGAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (21 bp):
TTCAAGGTTCAGGGTTCAATG
Found at i:16682962 original size:2 final size:2
Alignment explanation
Indices: 16682955--16682994 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
16682945 ACAGTAAATA
*
16682955 AG AG AG AG AG AC AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16682995 TGATGGGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16686321 original size:22 final size:21
Alignment explanation
Indices: 16686262--16686322 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
16686252 AAACAATTAA
* *
16686262 AATTTCAATTAAACATCATTAC
1 AATTT-AATTAAAAATCATAAC
**
16686284 AATTATAATTCCAAATGCATAAC
1 AATT-TAATTAAAAAT-CATAAC
16686307 AATTTAATTAAAAATC
1 AATTTAATTAAAAATC
16686323 TGTATGAACT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.03
22 20 0.65
23 10 0.32
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (21 bp):
AATTTAATTAAAAATCATAAC
Found at i:16689619 original size:31 final size:30
Alignment explanation
Indices: 16689564--16689643 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
16689554 TAATACAAAG
* * *
16689564 TATGAAATTCATAATATGAATGATTAAAGGA
1 TATGAAATGCA-AATGTGATTGATTAAAGGA
* * *
16689595 TCTGAAAATGCAAATGTGATTGATTACAGGG
1 TATG-AAATGCAAATGTGATTGATTAAAGGA
*
16689626 TATGATATGCAAATGTGA
1 TATGAAATGCAAATGTGA
16689644 ATGGAACAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
30 13 0.32
31 21 0.52
32 6 0.15
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.31
Consensus pattern (30 bp):
TATGAAATGCAAATGTGATTGATTAAAGGA
Found at i:16689637 original size:30 final size:30
Alignment explanation
Indices: 16689597--16689664 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
16689587 TTAAAGGATC
* *
16689597 TGAAAATGCAAATGTG-ATTGATTACAGGGTA
1 TGAATATGCAAATGTGAATGGA--ACAGGGTA
16689628 TG-ATATGCAAATGTGAATGGAACAGGGTA
1 TGAATATGCAAATGTGAATGGAACAGGGTA
16689657 TGAATATG
1 TGAATATG
16689665 TTAATATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 10 0.30
30 17 0.52
31 6 0.18
ACGTcount: A:0.38, C:0.06, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAATATGCAAATGTGAATGGAACAGGGTA
Found at i:16694581 original size:24 final size:24
Alignment explanation
Indices: 16694548--16694593 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16694538 ATTGATATAA
* **
16694548 TGGTATCCTTTTTGACCTTTTCAT
1 TGGTAACCTTTTCCACCTTTTCAT
16694572 TGGTAACCTTTTCCACCTTTTC
1 TGGTAACCTTTTCCACCTTTTC
16694594 TTTGTTTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.11, T:0.50
Consensus pattern (24 bp):
TGGTAACCTTTTCCACCTTTTCAT
Found at i:16695479 original size:13 final size:13
Alignment explanation
Indices: 16695459--16695490 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
16695449 TTGACTCATA
16695459 AATATTAATTAAT
1 AATATTAATTAAT
*
16695472 AGTATTAATTAAT
1 AATATTAATTAAT
16695485 AATATT
1 AATATT
16695491 TATGAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
AATATTAATTAAT
Found at i:16700007 original size:36 final size:36
Alignment explanation
Indices: 16699966--16700041 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
16699956 TAATTTAACC
16699966 TTAATCATGCTTAGTGGATGTTCCCATCACTATCTA
1 TTAATCATGCTTAGTGGATGTTCCCATCACTATCTA
* *
16700002 TTAATCATGCTTAGTGGATGTTGCCATCACTGTCTA
1 TTAATCATGCTTAGTGGATGTTCCCATCACTATCTA
16700038 TTAA
1 TTAA
16700042 CTTCACATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (36 bp):
TTAATCATGCTTAGTGGATGTTCCCATCACTATCTA
Found at i:16704271 original size:13 final size:13
Alignment explanation
Indices: 16704253--16704278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16704243 AAAATTGGAC
16704253 AGATGATAAATAA
1 AGATGATAAATAA
16704266 AGATGATAAATAA
1 AGATGATAAATAA
16704279 TAAAATAAAA
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:0.62, C:0.00, G:0.15, T:0.23
Consensus pattern (13 bp):
AGATGATAAATAA
Found at i:16705314 original size:25 final size:25
Alignment explanation
Indices: 16705286--16705364 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
16705276 CTTATGAGTG
*
16705286 TCCCGA-TATATGGCTCTTCGGAGCT
1 TCCCGATTA-ATGGCTCTTTGGAGCT
*
16705311 TCCCGATTAAAGGCTCTTTTGTGAGCT
1 TCCCGATTAATGGCTC-TTTG-GAGCT
**
16705338 TCTTGATTAATGGCTCTTTGGAGCT
1 TCCCGATTAATGGCTCTTTGGAGCT
16705363 TC
1 TC
16705365 TTGATATTGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
25 19 0.41
26 9 0.20
27 18 0.39
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTTGGAGCT
Found at i:16705367 original size:25 final size:25
Alignment explanation
Indices: 16705295--16705377 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 25
16705285 GTCCCGATAT
* **
16705295 ATGGCTCTTCGGAGCTTCCCGATTA
1 ATGGCTCTTTGGAGCTTCTTGATTA
*
16705320 AAGGCTCTTTTGTGAGCTTCTTGATTA
1 ATGGCTC-TTTG-GAGCTTCTTGATTA
16705347 ATGGCTCTTTGGAGCTTCTTGA-TA
1 ATGGCTCTTTGGAGCTTCTTGATTA
*
16705371 TTGGCTC
1 ATGGCTC
16705378 GCTTGAACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.16
25 17 0.34
26 7 0.14
27 18 0.36
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (25 bp):
ATGGCTCTTTGGAGCTTCTTGATTA
Found at i:16705412 original size:24 final size:24
Alignment explanation
Indices: 16705358--16705412 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
16705348 TGGCTCTTTG
* * *
16705358 GAGCTTCTTGATATTGGCTCGCTT
1 GAGCTTCTCGATATTGGCTCACAT
* *
16705382 GAACTTCTCGATATTGGGTCACAT
1 GAGCTTCTCGATATTGGCTCACAT
16705406 GAGCTTC
1 GAGCTTC
16705413 CTGTTATATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (24 bp):
GAGCTTCTCGATATTGGCTCACAT
Found at i:16710473 original size:22 final size:22
Alignment explanation
Indices: 16710447--16710496 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
16710437 ATTTATAGTT
* *
16710447 AATAAATATATTATCAT-ATAGA
1 AATAAAAATAATAT-ATAATAGA
*
16710469 AATAAAAATAATATATAATAGT
1 AATAAAAATAATATATAATAGA
16710491 AATAAA
1 AATAAA
16710497 CAACCAAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (22 bp):
AATAAAAATAATATATAATAGA
Found at i:16716431 original size:24 final size:24
Alignment explanation
Indices: 16716404--16716454 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
16716394 ATACTAAAAA
16716404 TCAGGAAAATAAAAATCTGATTTG
1 TCAGGAAAATAAAAATCTGATTTG
16716428 TCAGGAAAATAAAAATCTGATTTG
1 TCAGGAAAATAAAAATCTGATTTG
16716452 TCA
1 TCA
16716455 TTCTCTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (24 bp):
TCAGGAAAATAAAAATCTGATTTG
Found at i:16723449 original size:31 final size:31
Alignment explanation
Indices: 16723408--16723466 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
16723398 ATTTGGTCAC
*
16723408 TAAATTATTCAAAAATTTCCATTTAAGTTAT
1 TAAACTATTCAAAAATTTCCATTTAAGTTAT
* **
16723439 TAAACTATTCAAAAGTTTTTATTTAAGT
1 TAAACTATTCAAAAATTTCCATTTAAGT
16723467 CACTAAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (31 bp):
TAAACTATTCAAAAATTTCCATTTAAGTTAT
Found at i:16732234 original size:2 final size:2
Alignment explanation
Indices: 16732227--16732268 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
16732217 GCTAGGTCAA
16732227 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16732269 CTTGGCACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16736792 original size:42 final size:42
Alignment explanation
Indices: 16736735--16736877 Score: 126
Period size: 42 Copynumber: 3.4 Consensus size: 42
16736725 GAGTTTCAGA
** * *
16736735 TTAACCCTTCCGGGTTTTAGTTCAACTCTTTTGAGCTCCAGT
1 TTAACCCTTATGGGTTTTAGTTCAGCTCTTATGAGCTCCAGT
* * * * * * * *
16736777 TTAACCCTAATGGGTTTCAATTTAGCTCTTCTAAGCTTCAGA
1 TTAACCCTTATGGGTTTTAGTTCAGCTCTTATGAGCTCCAGT
* *
16736819 TTAACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCC-GT
1 TTAACCCTTATGGGTTTTAGTTCAGCTCTTATGAGC-TCCAGT
* *
16736861 TCAACCCTTACGGGTTT
1 TTAACCCTTATGGGTTT
16736878 CCATTTAGTT
Statistics
Matches: 77, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
42 75 0.97
43 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (42 bp):
TTAACCCTTATGGGTTTTAGTTCAGCTCTTATGAGCTCCAGT
Found at i:16736825 original size:84 final size:84
Alignment explanation
Indices: 16736729--16736885 Score: 208
Period size: 84 Copynumber: 1.9 Consensus size: 84
16736719 TCATATGAGT
* * * * *
16736729 TTCAGATTAACCCTTCCGGGTTTTAGTTCAACTCTTTTGAGC-TCCAGTTTAACCCTAATGGGTT
1 TTCAGATTAACCCTTACGGGTTTTAGTTCAACTCCTATGAGCTTCC-GTTCAACCCTAACGGGTT
16736793 TCAATTTAGCTCTTCTAAGC
65 TCAATTTAGCTCTTCTAAGC
* * * *
16736813 TTCAGATTAACCCTTATGGGTTTTCGTTCAGCTCCTATGAGCTTCCGTTCAACCCTTACGGGTTT
1 TTCAGATTAACCCTTACGGGTTTTAGTTCAACTCCTATGAGCTTCCGTTCAACCCTAACGGGTTT
*
16736878 CCATTTAG
66 CAATTTAG
16736886 TTCGGGATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 59 0.95
85 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (84 bp):
TTCAGATTAACCCTTACGGGTTTTAGTTCAACTCCTATGAGCTTCCGTTCAACCCTAACGGGTTT
CAATTTAGCTCTTCTAAGC
Found at i:16740074 original size:17 final size:18
Alignment explanation
Indices: 16740052--16740092 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
16740042 AGCAATTAGT
16740052 TCAAAAAGT-TTTTTCTA
1 TCAAAAAGTATTTTTCTA
*
16740069 TCAAAAAGTATTTTTTTA
1 TCAAAAAGTATTTTTCTA
16740087 T-AAAAA
1 TCAAAAA
16740093 AAATTCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (18 bp):
TCAAAAAGTATTTTTCTA
Found at i:16740093 original size:18 final size:17
Alignment explanation
Indices: 16740054--16740093 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
16740044 CAATTAGTTC
*
16740054 AAAAAGTTTTTTCTATC
1 AAAAAGTTTTTTCTATA
*
16740071 AAAAAGTATTTTTTTATA
1 AAAAAGT-TTTTTCTATA
16740089 AAAAA
1 AAAAA
16740094 AATTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (17 bp):
AAAAAGTTTTTTCTATA
Found at i:16748997 original size:17 final size:17
Alignment explanation
Indices: 16748975--16749032 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
16748965 ATTAAATCAA
16748975 ATACTCGTACAAAAGAT
1 ATACTCGTACAAAAGAT
* *
16748992 ATACTC--ACATTAAATCAA
1 ATACTCGTACA--AAA-GAT
16749010 ATACTCGTACAAAAGAT
1 ATACTCGTACAAAAGAT
16749027 ATACTC
1 ATACTC
16749033 ACAGAAAATG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
17 16 0.50
18 10 0.31
20 3 0.09
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.26
Consensus pattern (17 bp):
ATACTCGTACAAAAGAT
Found at i:16749011 original size:35 final size:35
Alignment explanation
Indices: 16748965--16749035 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
16748955 AATTTAGCAG
16748965 ATTAAATCAAATACTCGTACAAAAGATATACTCAC
1 ATTAAATCAAATACTCGTACAAAAGATATACTCAC
16749000 ATTAAATCAAATACTCGTACAAAAGATATACTCAC
1 ATTAAATCAAATACTCGTACAAAAGATATACTCAC
16749035 A
1 A
16749036 GAAAATGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.49, C:0.20, G:0.06, T:0.25
Consensus pattern (35 bp):
ATTAAATCAAATACTCGTACAAAAGATATACTCAC
Found at i:16759813 original size:31 final size:29
Alignment explanation
Indices: 16759754--16759823 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 29
16759744 TTTTTTAAAA
* *
16759754 TTTAAAAAATAAAAATATAAAAATATATT
1 TTTAAAAATTAAAAATATAAAAAAATATT
*
16759783 TTTAAAAATTAGAAATTATAAAAAAAATATT
1 TTTAAAAATTA-AAAATAT-AAAAAAATATT
16759814 TTTAAAAATT
1 TTTAAAAATT
16759824 TAATTATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 10 0.28
30 6 0.17
31 20 0.56
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
TTTAAAAATTAAAAATATAAAAAAATATT
Found at i:16763723 original size:22 final size:22
Alignment explanation
Indices: 16763698--16763789 Score: 112
Period size: 22 Copynumber: 4.2 Consensus size: 22
16763688 AAATTCAATA
* *
16763698 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
16763720 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
16763742 TCAATTCCCTTCAAAATTTCTA
1 TCAATTCCCTTCAAAAATTCTC
* *
16763764 TCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
16763786 TCAA
1 TCAA
16763790 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 62 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:16763805 original size:52 final size:51
Alignment explanation
Indices: 16763739--16763841 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
16763729 TTCAAAATTT
* * *
16763739 CTCTCAATTCCCTT-CAAAATTTCTATCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCCAAAA-TCCTATCAATTTCCTTCAAAAAATCTC-CAAA
*
16763791 CTCTCAAATT-CCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
16763842 TCCATATTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAATTCCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCCAAA
Found at i:16763830 original size:21 final size:22
Alignment explanation
Indices: 16763791--16763832 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16763781 TTCTCTCAAA
16763791 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
16763813 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
16763833 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:16763929 original size:29 final size:29
Alignment explanation
Indices: 16763874--16763929 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
16763864 ATTAAATTTC
16763874 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTT
*
16763903 ATTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTT
16763930 AATATTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTT
Found at i:16763937 original size:29 final size:29
Alignment explanation
Indices: 16763874--16763937 Score: 94
Period size: 28 Copynumber: 2.2 Consensus size: 29
16763864 ATTAAATTTC
*
16763874 ATTTTTTTAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
16763903 ATTTTTTTAA-ATAATTTTAAAATTTTTA
1 ATTTTTTTAAGAAAATTTTAAAATTTTTA
*
16763931 ATATTTT
1 ATTTTTT
16763938 CAACAATGGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (29 bp):
ATTTTTTTAAGAAAATTTTAAAATTTTTA
Found at i:16764082 original size:24 final size:23
Alignment explanation
Indices: 16764027--16764082 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
16764017 TAAATTTTAA
*
16764027 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
16764050 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
16764076 ATTTTTT
1 ATTTTTT
16764083 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:16766235 original size:17 final size:18
Alignment explanation
Indices: 16766213--16766247 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16766203 TAAAATCCCT
16766213 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
16766230 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
16766248 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:16766235 original size:23 final size:23
Alignment explanation
Indices: 16766201--16766273 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
16766191 ACATTATTTG
* *
16766201 ATTAAAATCCCTAACCCTACTTA
1 ATTAAAAACCCTAACCCTAATTA
**
16766224 ATTAAAAACCCTAA-TTTAATTAA
1 ATTAAAAACCCTAACCCTAATT-A
*
16766247 ATTAAAAACCCTAAACCCTATTTA
1 ATTAAAAACCCT-AACCCTAATTA
16766271 ATT
1 ATT
16766274 TAATTAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 4 0.10
23 26 0.65
24 6 0.15
25 4 0.10
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTAAAAACCCTAACCCTAATTA
Found at i:16766276 original size:34 final size:35
Alignment explanation
Indices: 16766235--16766307 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 35
16766225 TTAAAAACCC
16766235 TAATTTAATTAAATTAAAAACCCTAAACCCT-ATT
1 TAATTTAATTAAATTAAAAACCCTAAACCCTAATT
*
16766269 TAATTTAATTAAATTAAAAATCCTAAACCCTAATT
1 TAATTTAATTAAATTAAAAACCCTAAACCCTAATT
16766304 TAAT
1 TAAT
16766308 CAAGCTAGCC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 30 0.81
35 7 0.19
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (35 bp):
TAATTTAATTAAATTAAAAACCCTAAACCCTAATT
Found at i:16767942 original size:124 final size:124
Alignment explanation
Indices: 16767722--16767986 Score: 372
Period size: 124 Copynumber: 2.1 Consensus size: 124
16767712 CCACGAGGGC
*
16767722 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
* * * * * **
16767787 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCA
66 AAATCACGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
* *
16767846 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAATTATTTCCT-ACATGACCAACTGTAG
* *
16767909 CGAAATCACGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAGAA
64 CGAAATCACGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
**
16767970 GCGATTTCCCACTATTT
1 GCGATTTGACACTATTT
16767987 AACCAGAAAC
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 95 0.77
125 29 0.23
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (124 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAATTATTTCCTACATGACCAACTGTAGCG
AAATCACGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAGAA
Found at i:16775947 original size:13 final size:13
Alignment explanation
Indices: 16775929--16775953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16775919 ATAAAAGTAG
16775929 AAAAATTAAAATA
1 AAAAATTAAAATA
16775942 AAAAATTAAAAT
1 AAAAATTAAAAT
16775954 TTTAATTTTA
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:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATTAAAATA
Found at i:16778906 original size:21 final size:21
Alignment explanation
Indices: 16778880--16778920 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16778870 ATCTGCTCAA
* *
16778880 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
16778901 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
16778921 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:16783093 original size:45 final size:45
Alignment explanation
Indices: 16783040--16783142 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
16783030 GTTGCTTCCG
* *
16783040 CGTTGCTTCCTTTTTTGTTTGGACATAGATTTGATTGCTTCCACA
1 CGTTGCTTCCTTTTTTGTCTGGACATAGATGTGATTGCTTCCACA
*
16783085 CGTTGCTTCCTTTTTTGTCTGGATATAGATGTGATTGCTTCCACA
1 CGTTGCTTCCTTTTTTGTCTGGACATAGATGTGATTGCTTCCACA
*
16783130 CATTGCTTCCTTT
1 CGTTGCTTCCTTT
16783143 GTCTTTTCTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (45 bp):
CGTTGCTTCCTTTTTTGTCTGGACATAGATGTGATTGCTTCCACA
Found at i:16784111 original size:45 final size:45
Alignment explanation
Indices: 16784039--16784156 Score: 186
Period size: 45 Copynumber: 2.7 Consensus size: 45
16784029 TTTTTGTCCT
* *
16784039 GATGTGGTTGC-TCC-CACGTTGCTTCCTTTTTTGTTTGGACGTA
1 GATGTGGTTGCTTCCACACGTTGCTTCCTTTTTTGTCTGGACATA
* *
16784082 GATGTGATTGCTTCCACATGTTGCTTCCTTTTTTGTCTGGACATA
1 GATGTGGTTGCTTCCACACGTTGCTTCCTTTTTTGTCTGGACATA
16784127 GATGTGGTTGCTTCCACACGTTGCTTCCTT
1 GATGTGGTTGCTTCCACACGTTGCTTCCTT
16784157 ATTGCTTTTC
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 10 0.15
44 3 0.04
45 54 0.81
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (45 bp):
GATGTGGTTGCTTCCACACGTTGCTTCCTTTTTTGTCTGGACATA
Found at i:16795916 original size:13 final size:13
Alignment explanation
Indices: 16795898--16795922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16795888 TCTTCTCAAT
16795898 CATTCTAATTTAG
1 CATTCTAATTTAG
16795911 CATTCTAATTTA
1 CATTCTAATTTA
16795923 ACAAAATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (13 bp):
CATTCTAATTTAG
Found at i:16797976 original size:51 final size:51
Alignment explanation
Indices: 16797880--16797976 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
16797870 CGGTATATGA
* * **
16797880 CGTAAGACCATAAATGAAATACGCTATGGCAATCTAGTATGAGGTACGTCG
1 CGTAAGACCATAAATGAAAGACGCGATGGCAATCTAGTACAAGGTACGTCG
* * *
16797931 CGTAAGATCATAGATGAAAGACGCGATGGCAA-CATGGTACAAGGTA
1 CGTAAGACCATAAATGAAAGACGCGATGGCAATC-TAGTACAAGGTA
16797977 TAAGATATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 37 0.97
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (51 bp):
CGTAAGACCATAAATGAAAGACGCGATGGCAATCTAGTACAAGGTACGTCG
Found at i:16800573 original size:25 final size:24
Alignment explanation
Indices: 16800545--16800648 Score: 78
Period size: 25 Copynumber: 4.5 Consensus size: 24
16800535 ATAAGATTAT
16800545 TTTAATAGTTTAATATTAAATTAAA
1 TTTAATA-TTTAATATTAAATTAAA
*
16800570 TTTAATACTT-ATATT-AA-TAATA
1 TTTAATATTTAATATTAAATTAA-A
16800592 TTT--TA-TTAAT-TTAATATTAAA
1 TTTAATATTTAATATTAA-ATTAAA
* * * *
16800613 ATGATTATTTTAATATTAAATTTAA
1 TTTAATA-TTTAATATTAAATTAAA
16800638 TTTAATATTTA
1 TTTAATATTTA
16800649 TCTTGTAGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 21
0.69 0.08 0.23
Matches are distributed among these distances:
19 4 0.06
20 5 0.08
21 6 0.10
22 9 0.15
23 7 0.11
24 6 0.10
25 21 0.34
26 4 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAATATTTAATATTAAATTAAA
Found at i:16800689 original size:62 final size:59
Alignment explanation
Indices: 16800621--16800738 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 59
16800611 AAATGATTAT
* *
16800621 TTTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATT-ATTTTAATAAGA
1 TTTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTCA-TTTAATAAGA
16800683 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTCATTTAATA
1 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTCATTTAATA
16800739 TTAAAGTGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
59 21 0.40
60 2 0.04
61 1 0.02
62 29 0.55
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.52
Consensus pattern (59 bp):
TTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTCATTTAATAAGA
Found at i:16802805 original size:35 final size:35
Alignment explanation
Indices: 16802734--16802861 Score: 193
Period size: 35 Copynumber: 3.6 Consensus size: 35
16802724 AGTACATCGA
* *
16802734 TAATCCAACCGAAACACACCAAATGCTCATAAGAGC
1 TAATCCATCTGAAACACACC-AATGCTCATAAGAGC
* *
16802770 TAATCTATCTGAAACACACCAATGCTCATATGAGC
1 TAATCCATCTGAAACACACCAATGCTCATAAGAGC
*
16802805 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
1 TAATCCATCTGAAACACACCAATGCTCATAAGAGC
*
16802840 TAATCCATTTGAAACACACCAA
1 TAATCCATCTGAAACACACCAA
16802862 AACAGAAAGT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 66 0.80
36 17 0.20
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (35 bp):
TAATCCATCTGAAACACACCAATGCTCATAAGAGC
Found at i:16806073 original size:27 final size:27
Alignment explanation
Indices: 16806035--16806122 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
16806025 CGATGTCAGG
16806035 GGACGTGGCAGAAAATCACGTCTCTGA
1 GGACGTGGCAGAAAATCACGTCTCTGA
16806062 GGACGTGGCAGAAAATCACGTCTCTGA
1 GGACGTGGCAGAAAATCACGTCTCTGA
* *
16806089 GGACGTGTCAGAAAATCACGTCCCTGA
1 GGACGTGGCAGAAAATCACGTCTCTGA
*
16806116 GGGCGTG
1 GGACGTG
16806123 CTTTGCTTAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.27, C:0.23, G:0.32, T:0.18
Consensus pattern (27 bp):
GGACGTGGCAGAAAATCACGTCTCTGA
Found at i:16806712 original size:124 final size:125
Alignment explanation
Indices: 16806447--16806733 Score: 452
Period size: 125 Copynumber: 2.3 Consensus size: 125
16806437 ATTTATTAAG
* * * *
16806447 GAAATCGCTCACATGTGAACGTGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
16806512 GTTTCTAAGCAAATAGTATAAAAAACACTTGAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTAAGAAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
16806572 AAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATATT-GAGTTGA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAAT-TTCGAGTTGA
* *
16806636 CGTTTCTGAGAAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
65 CGTTTCTAAGAAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
16806696 GAAATCGCTCCCACGTGGACGCGTTTTTACTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
16806734 CATGTTTGGA
Statistics
Matches: 149, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 73 0.49
125 74 0.50
126 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTAAGAAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:16810119 original size:146 final size:147
Alignment explanation
Indices: 16809940--16810203 Score: 458
Period size: 146 Copynumber: 1.8 Consensus size: 147
16809930 TAAGAATATT
* *
16809940 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGCATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
*
16810005 ATTAAATGAAATAATATCAAAATATTCAAAATAAAATATTTTGTATTTTATTAAATGAAATAGTA
66 ATTAAATCAAATAATATCAAAATATTCAAAATAAAATATTTTGTATTTTATTAAATGAAATAGTA
16810070 TCAAAATATTCAAAATA
131 TCAAAATATTCAAAATA
* *
16810087 AACTATTTTGCA-TTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTTTATTTT
1 AACTATTTTGCATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
* *
16810151 ATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTTATTA
66 ATTAAATCAAATAATATCAAAATATTCAAAATAAAATATTTTGTATTTTATTA
16810204 CATTAATATA
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
146 99 0.90
147 11 0.10
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (147 bp):
AACTATTTTGCATTTTATTAAATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
ATTAAATCAAATAATATCAAAATATTCAAAATAAAATATTTTGTATTTTATTAAATGAAATAGTA
TCAAAATATTCAAAATA
Found at i:16810163 original size:97 final size:98
Alignment explanation
Indices: 16809940--16810206 Score: 455
Period size: 97 Copynumber: 2.7 Consensus size: 98
16809930 TAAGAATATT
16809940 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
* *
16810005 ATTAAATGAAATAATATCAAAATATTCAAAATA
66 ATTACATCAAATAATATCAAAATATTCAAAATA
* * *
16810038 AAATATTTTGTATTTTATTAAATGAAATAGTATCAAAATATTCAAAATAAACTATTTTGCA-TTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
16810102 ATTACATCAAATAATATCAAAATATTCAAAATA
66 ATTACATCAAATAATATCAAAATATTCAAAATA
* * *
16810135 AACTATTTTTTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
16810200 ATTACAT
66 ATTACAT
16810207 TAATATAAAC
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
97 89 0.57
98 68 0.43
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (98 bp):
AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
ATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:16810206 original size:49 final size:49
Alignment explanation
Indices: 16809940--16810203 Score: 449
Period size: 49 Copynumber: 5.4 Consensus size: 49
16809930 TAAGAATATT
16809940 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
16809989 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
* *
16810038 AAATATTTTGTATTTTATTAAATGAAATAGTATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
* * *
16810087 AACTATTTTGCA-TTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
* * *
16810135 AACTATTTTTTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
16810184 AACTATTTTGTATTTTATTA
1 AACTATTTTGTATTTTATTA
16810204 CATTAATATA
Statistics
Matches: 204, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 43 0.21
49 161 0.79
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
Found at i:16812504 original size:11 final size:11
Alignment explanation
Indices: 16812488--16812555 Score: 95
Period size: 11 Copynumber: 6.2 Consensus size: 11
16812478 TCTTTTAAAT
16812488 AGGAATTTGAG
1 AGGAATTTGAG
16812499 AGGAATTTGAG
1 AGGAATTTGAG
16812510 AGGAATTTGAG
1 AGGAATTTGAG
16812521 AGGAATTTGAG
1 AGGAATTTGAG
16812532 A-GAATATT-AG
1 AGGAAT-TTGAG
*
16812542 AGAGAAATTGAG
1 AG-GAATTTGAG
16812554 AG
1 AG
16812556 AAAGGATTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
10 7 0.13
11 38 0.73
12 7 0.13
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:16815953 original size:11 final size:11
Alignment explanation
Indices: 16815937--16816045 Score: 63
Period size: 11 Copynumber: 10.4 Consensus size: 11
16815927 ATTTGTTTAA
16815937 TTTTAAAATAT
1 TTTTAAAATAT
16815948 TTTTAAAATACT
1 TTTTAAAATA-T
****
16815960 TTTTTTTTTAT
1 TTTTAAAATAT
*
16815971 TTTT--TA-AT
1 TTTTAAAATAT
16815979 -TTTAAAATAT
1 TTTTAAAATAT
16815989 TTTTAAAATACT
1 TTTTAAAATA-T
16816001 TTTT-AAAT-T
1 TTTTAAAATAT
** *
16816010 TTTT--TTTAA
1 TTTTAAAATAT
16816019 TTTTAAAATAT
1 TTTTAAAATAT
16816030 TTTTAAAATACT
1 TTTTAAAATA-T
16816042 TTTT
1 TTTT
16816046 TTTAATTTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
7 3 0.04
8 3 0.04
9 11 0.14
10 2 0.03
11 40 0.53
12 17 0.22
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16815977 original size:41 final size:41
Alignment explanation
Indices: 16815927--16816048 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
16815917 TATTTTTTAA
16815927 ATTTGTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTT
1 ATTT-TTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTT
**
16815969 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAATTT
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTT-TTTTT
16816011 -TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTT
1 ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTT
16816049 AATTTTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 67 0.89
42 7 0.09
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (41 bp):
ATTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTT
Found at i:16816055 original size:41 final size:41
Alignment explanation
Indices: 16815919--16816055 Score: 190
Period size: 41 Copynumber: 3.3 Consensus size: 41
16815909 AATATATTTA
*
16815919 TTTTTTAAATTTGTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACT
**
16815960 TTTTTT-TTTATTTTTTAATTTTAAAATATTTTTAAAATAC-
1 TTTTTTAAAT-TTTTTTAATTTTAAAATATTTTTAAAATACT
16816000 -TTTTTAAATTTTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAAA--TTTTTTTAATTTTAAAATATTTTTAAAATACT
*
16816042 TTTTTTTAATTTTT
1 TTTTTTAAATTTTT
16816056 AAAATAAATT
Statistics
Matches: 84, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
39 5 0.06
40 1 0.01
41 70 0.83
42 1 0.01
43 7 0.08
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (41 bp):
TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:16816075 original size:22 final size:21
Alignment explanation
Indices: 16816027--16816081 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
16816017 AATTTTAAAA
* **
16816027 TATTTTTAAAATACTTTTTTT
1 TATTTTTAAAATAATTTTTGG
16816048 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAAT-AATTTTTGG
16816071 TATTTATTAAA
1 TATTT-TTAAA
16816082 CAAATGGGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.04
22 15 0.54
23 12 0.43
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
TATTTTTAAAATAATTTTTGG
Found at i:16817021 original size:20 final size:20
Alignment explanation
Indices: 16816984--16817021 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16816974 TATTTTTTAA
*
16816984 AAAAATTATTTAATATATAT
1 AAAAATTATTTAAAATATAT
16817004 AAAAA-TATTTACAAATAT
1 AAAAATTATTTA-AAATAT
16817022 CAAACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTATTTAAAATATAT
Found at i:16822804 original size:21 final size:21
Alignment explanation
Indices: 16822778--16822818 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
16822768 TGGGTGGATT
16822778 AGCTCTCACGAGCTTCTGTTC
1 AGCTCTCACGAGCTTCTGTTC
* *
16822799 AGCTCTTATGAGCTTCTGTT
1 AGCTCTCACGAGCTTCTGTT
16822819 GGTGTATTCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.39
Consensus pattern (21 bp):
AGCTCTCACGAGCTTCTGTTC
Found at i:16825111 original size:13 final size:14
Alignment explanation
Indices: 16825093--16825123 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
16825083 AACCCCTTTT
16825093 ATAATAATAA-ATA
1 ATAATAATAACATA
16825106 ATAATAATAACATA
1 ATAATAATAACATA
16825120 ATAA
1 ATAA
16825124 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAATAATAACATA
Found at i:16828595 original size:26 final size:25
Alignment explanation
Indices: 16828514--16828595 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
16828504 CAACTACCTA
* *
16828514 TAAATAATTCAAATAAAAT-TATATT
1 TAAAAAATTAAAATAAAATCTA-ATT
*
16828539 TAGAAAATTAAAAT--AATCTAACTT
1 TAAAAAATTAAAATAAAATCTAA-TT
*
16828563 CGTAAAAGATTAAAATAAAATCTAATT
1 --TAAAAAATTAAAATAAAATCTAATT
16828590 TAAAAA
1 TAAAAA
16828596 TAAATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 16 0.36
26 12 0.27
27 2 0.04
28 7 0.16
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (25 bp):
TAAAAAATTAAAATAAAATCTAATT
Found at i:16831236 original size:31 final size:32
Alignment explanation
Indices: 16831194--16831290 Score: 94
Period size: 31 Copynumber: 3.1 Consensus size: 32
16831184 TAGTATCTTT
*
16831194 AAAGTTTTGGTTTCACCCAATAAGTCTTTTTG
1 AAAGTTCTGGTTTCACCCAATAAGTCTTTTTG
* **
16831226 AAAG-TCTGGTTTCAACC---AAGTTCATTTTCA
1 AAAGTTCTGGTTTCACCCAATAAG-TC-TTTTTG
* *
16831256 AAAGTTCTAGTTTCACCTAATAAGTCTTTTTG
1 AAAGTTCTGGTTTCACCCAATAAGTCTTTTTG
16831288 AAA
1 AAA
16831291 ACTCATCTTC
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 8 0.16
31 21 0.42
32 11 0.22
33 2 0.04
34 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (32 bp):
AAAGTTCTGGTTTCACCCAATAAGTCTTTTTG
Found at i:16831451 original size:60 final size:62
Alignment explanation
Indices: 16831357--16831528 Score: 179
Period size: 60 Copynumber: 2.8 Consensus size: 62
16831347 ATCCTGTTTC
*
16831357 ATTTTCAAAAGTTTTGGTTCTATCC-AGTAAGTATTTTTGAAAGTTTGGTTCCG-C-AAATTT
1 ATTTTCAAAAGTTCTGGTTCTA-CCTAGTAAGTATTTTTGAAAGTTTGGTTCCGTCTAAATTT
* * * ** **
16831417 ATTTTCAAAAGTTCTAGTTCCACCTAGTAGGTATTTTTGAAAGACTGGTTCCGTCTAGGTTT
1 ATTTTCAAAAGTTCTGGTTCTACCTAGTAAGTATTTTTGAAAGTTTGGTTCCGTCTAAATTT
** * * * * *
16831479 GCTTTCAAAAGTTCTGGTTCTGCTTAGTATGTATTTATGAAACTTTGGTT
1 ATTTTCAAAAGTTCTGGTTCTACCTAGTAAGTATTTTTGAAAGTTTGGTT
16831529 TCACCTAGGT
Statistics
Matches: 90, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
59 2 0.02
60 44 0.49
61 1 0.01
62 43 0.48
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (62 bp):
ATTTTCAAAAGTTCTGGTTCTACCTAGTAAGTATTTTTGAAAGTTTGGTTCCGTCTAAATTT
Found at i:16831528 original size:62 final size:59
Alignment explanation
Indices: 16831359--16831528 Score: 151
Period size: 62 Copynumber: 2.8 Consensus size: 59
16831349 CCTGTTTCAT
* * * *
16831359 TTTCAAAAGTTTTGGTTCTATCCAGTAAGTATTTTTGAAAGTTTGGTTCCGCAAATTTAT
1 TTTCAAAAGTTCTGGTTCTCT-TAGTAAGTATTTTTGAAAGTTTGGTTCCGCAAATTTAC
* * * * ** ** *
16831419 TTTCAAAAGTTCTAGTTCCACCTAGTAGGTATTTTTGAAAGACTGGTTCCGTCTAGGTTTGC
1 TTTCAAAAGTTCTGGTT-CTCTTAGTAAGTATTTTTGAAAGTTTGGTTCCG-C-AAATTTAC
* * *
16831481 TTTCAAAAGTTCTGGTTCTGCTTAGTATGTATTTATGAAACTTTGGTT
1 TTTCAAAAGTTCTGGTTCT-CTTAGTAAGTATTTTTGAAAGTTTGGTT
16831529 TCACCTAGGT
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
60 40 0.47
61 3 0.04
62 42 0.49
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.44
Consensus pattern (59 bp):
TTTCAAAAGTTCTGGTTCTCTTAGTAAGTATTTTTGAAAGTTTGGTTCCGCAAATTTAC
Found at i:16833016 original size:16 final size:16
Alignment explanation
Indices: 16832994--16833053 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
16832984 CTGATTATAA
16832994 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* * * *
16833010 CTTTATTACATTGCAA
1 CTCTATTCCATTACAG
16833026 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
*
16833042 CCCTATTCCATT
1 CTCTATTCCATT
16833054 CTAGTGAACC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:16836541 original size:24 final size:23
Alignment explanation
Indices: 16836492--16836541 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
16836482 ATAAAGTAGT
* *
16836492 TATATATTATTTTTATAATATTA
1 TATATATGATTTTTATAATATCA
16836515 TATATTATGATTTTTATTAAT-TCA
1 TATA-TATGATTTTTA-TAATATCA
16836539 TAT
1 TAT
16836542 TTTAATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.65
25 4 0.17
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATATCA
Found at i:16836861 original size:16 final size:16
Alignment explanation
Indices: 16836840--16836890 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
16836830 TGAATTACTG
*
16836840 ATTACAATTCTATTCT
1 ATTACAGTTCTATTCT
* *
16836856 ATTACAGCTCTATTCC
1 ATTACAGTTCTATTCT
16836872 ATTACAGTTCTATTCT
1 ATTACAGTTCTATTCT
16836888 ATT
1 ATT
16836891 CTCCCCAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTACAGTTCTATTCT
Found at i:16837314 original size:4 final size:4
Alignment explanation
Indices: 16837307--16837334 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
16837297 TTAAAATAGG
16837307 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
16837335 CAAAGATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:16841844 original size:28 final size:29
Alignment explanation
Indices: 16841785--16841846 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
16841775 AAAAAAGTTT
*
16841785 TTTTTTTAATATTTATTGAAATGGGTTGA
1 TTTTTTGAATATTTATTGAAATGGGTTGA
* *
16841814 TTTTTTGATTATTTATTGGAATGGGTT-A
1 TTTTTTGAATATTTATTGAAATGGGTTGA
16841842 TTTTT
1 TTTTT
16841847 CAAGAAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.60
Consensus pattern (29 bp):
TTTTTTGAATATTTATTGAAATGGGTTGA
Found at i:16843789 original size:10 final size:10
Alignment explanation
Indices: 16843774--16843800 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
16843764 TAAAATTATC
16843774 AAATTATGTA
1 AAATTATGTA
16843784 AAATTATGTA
1 AAATTATGTA
16843794 AAATTAT
1 AAATTAT
16843801 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Found at i:16843940 original size:122 final size:121
Alignment explanation
Indices: 16843719--16843960 Score: 333
Period size: 122 Copynumber: 2.0 Consensus size: 121
16843709 ACATTATGTA
* * * *
16843719 AAATTATGTAAGATTATTAAGTCCCAAAATTTTGTTAATGGTTAGTAAAATTATCAAATTATGTA
1 AAATTATGTAAAATTATTAAATCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
* ***
16843784 AAATTATGTAAAATTATTAAGCCAAAATTTTTTTAATTAAATTAGATAAAATTATC
66 AAATTATGTAAAACTATTAAGCCAAAAAAATTTTAATTAAATTAGATAAAATTATC
*** *
16843840 AAATTATGTAAAATTATTAAATCCAAAAATTGTGTTAATGGTTAGGGT-TTTTTATCAAATTATT
1 AAATTATGTAAAATTATTAAATCCAAAAATTGTGTTAATGGTTA--GTAAAATTATCAAATTATG
* *
16843904 TAAACTTATGTAAAACTATTAAGCCAAAAAAATTTTAATTAAATTAGGTAAAATTAT
64 TAAAATTATGTAAAACTATTAAGCCAAAAAAATTTTAATTAAATTAGATAAAATTAT
16843961 TAAGTCCAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
121 40 0.38
122 63 0.60
123 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (121 bp):
AAATTATGTAAAATTATTAAATCCAAAAATTGTGTTAATGGTTAGTAAAATTATCAAATTATGTA
AAATTATGTAAAACTATTAAGCCAAAAAAATTTTAATTAAATTAGATAAAATTATC
Found at i:16844013 original size:55 final size:55
Alignment explanation
Indices: 16843944--16844069 Score: 234
Period size: 55 Copynumber: 2.3 Consensus size: 55
16843934 AATTTTAATT
*
16843944 AAATTAGGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
16843999 AAATTATGTAAAATTATTAAGTCCAACAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
16844054 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
16844070 GGTTAGGGTT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 69 1.00
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:16844100 original size:18 final size:18
Alignment explanation
Indices: 16844077--16844118 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
16844067 TTAGGTTAGG
16844077 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
16844095 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
16844113 ATTAGG
1 GTTAGG
16844119 TTAGGGTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:16844127 original size:29 final size:29
Alignment explanation
Indices: 16844095--16844417 Score: 323
Period size: 29 Copynumber: 10.8 Consensus size: 29
16844085 TTTTAATTAA
16844095 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
16844124 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
16844153 GTTAGGGTTTTTAATTAAGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTA-GGTTAGG
* * *
16844183 GTTAGGATTTTTAAGTAAGTTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
16844212 GTTAGGGTTTTTAATTAAGTTAGGATTTTTAATTAG
1 GTTAGGGTTTTTAATTAAATTAGG----TT-A--GG
** * * *
16844248 GTTA-GGTTAGGGTAAGGGTT--TTTA-ATTA-A
1 GTTAGGGTT--TTTAA---TTAAATTAGGTTAGG
* **
16844277 CTTAGGGTTTTTAATTAGGTTAGGGTTAGG
1 GTTAGGGTTTTTAATTAAATTA-GGTTAGG
16844307 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
16844336 GTTAGAGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
*
16844365 GTAAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGGTTAGG
* *
16844394 GTTAGAGTTTTTAATTAAGTTAGG
1 GTTAGGGTTTTTAATTAAATTAGG
16844418 GTTTTTAATT
Statistics
Matches: 249, Mismatches: 26, Indels: 38
0.80 0.08 0.12
Matches are distributed among these distances:
25 2 0.01
27 3 0.01
28 3 0.01
29 168 0.67
30 50 0.20
32 1 0.00
33 4 0.02
34 1 0.00
35 4 0.02
36 5 0.02
37 3 0.01
38 3 0.01
40 2 0.01
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.44
Consensus pattern (29 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGG
Found at i:16844175 original size:47 final size:47
Alignment explanation
Indices: 16844124--16844388 Score: 224
Period size: 47 Copynumber: 5.1 Consensus size: 47
16844114 TTAGGTTAGG
16844124 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
16844171 GTTAGGGTTAGGGTTAGGATTTTTAAGTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAA
1 GTTAGGGTT---TTTA--A---TT-A--AA-TTAGGTTAGGGTTAGGGTTTTTAATTAA
* ** *
16844230 GTTAGGATTTTTAATTAGGTTAGGTTAGGGTAAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* **
16844277 CTTAGGGTTTTTAATTAGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAGGGTTTTTAATT--A--A
*
16844329 GGTTAGGGTTAGAGTTTTTAATTAAATTAGGTTAGGGTAAGGGTTTTTAATTAA
1 -GTTA--G---G-GTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
*
16844383 ATTAGG
1 GTTAGG
16844389 TTAGGGTTAG
Statistics
Matches: 180, Mismatches: 14, Indels: 47
0.75 0.06 0.20
Matches are distributed among these distances:
47 56 0.31
48 23 0.13
50 5 0.03
51 3 0.02
52 2 0.01
53 6 0.03
54 2 0.01
55 3 0.02
56 5 0.03
58 25 0.14
59 50 0.28
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.44
Consensus pattern (47 bp):
GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:16844235 original size:18 final size:18
Alignment explanation
Indices: 16844211--16844303 Score: 83
Period size: 18 Copynumber: 5.6 Consensus size: 18
16844201 GTTAGGTTAG
16844211 GGTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
* *
16844229 AGTTAGGATTTTTAATTA
1 GGTTAGGGTTTTTAATTA
*
16844247 GGTTA-GG---TT-A--G
1 GGTTAGGGTTTTTAATTA
*
16844258 GGTAAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
**
16844276 ACTTAGGGTTTTTAATTA
1 GGTTAGGGTTTTTAATTA
16844294 GGTTAGGGTT
1 GGTTAGGGTT
16844304 AGGGTTAGGG
Statistics
Matches: 56, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
11 4 0.07
12 2 0.04
13 1 0.02
14 2 0.04
15 2 0.04
16 1 0.02
17 1 0.02
18 43 0.77
ACGTcount: A:0.25, C:0.01, G:0.28, T:0.46
Consensus pattern (18 bp):
GGTTAGGGTTTTTAATTA
Found at i:16844421 original size:18 final size:18
Alignment explanation
Indices: 16844394--16844489 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
16844384 TTAGGTTAGG
*
16844394 GTTAGAGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
16844412 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
**
16844430 GTTA-GG---TT-A--GG
1 GTTAGGGTTTTTAATTAA
16844441 GTTAGGGTTTTTAATTAA
1 GTTAGGGTTTTTAATTAA
*
16844459 GTTAGGGTTTTTAAATAA
1 GTTAGGGTTTTTAATTAA
*
16844477 ATTAGGGTTTTTA
1 GTTAGGGTTTTTA
16844490 TTACATCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 1 0.02
14 2 0.03
15 2 0.03
16 1 0.02
17 2 0.03
18 50 0.78
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (18 bp):
GTTAGGGTTTTTAATTAA
Found at i:16844437 original size:47 final size:47
Alignment explanation
Indices: 16844368--16844482 Score: 203
Period size: 47 Copynumber: 2.4 Consensus size: 47
16844358 GGTTAGGGTA
16844368 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTT
1 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTT
* *
16844415 AGGGTTTTTAATTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTT
1 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTT
*
16844462 AGGGTTTTTAAATAAATTAGG
1 AGGGTTTTTAATTAAATTAGG
16844483 GTTTTTATTA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (47 bp):
AGGGTTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTT
Found at i:16844484 original size:182 final size:183
Alignment explanation
Indices: 16844067--16844485 Score: 698
Period size: 182 Copynumber: 2.3 Consensus size: 183
16844057 TTATGTAAAA
16844067 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTA-GGTTAGGGTTAGGG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGG
* * *
16844131 TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTAGGGTTAGGATTTTTA
66 TTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGGTTAGGGTAAGGATTTTTA
* * *
16844196 AGTAAGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGATTTTTAATTAGG
131 AGTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTTAGGATTTTTAATTAAG
* * **
16844249 TTAGGTTAGGGTAAGGGTTTTTAATTAACTTAGGGTTTTTAATTAGGTTAGGGTTAGGGTTAGGG
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGG
*
16844314 TTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTA-GGTTAGGGTAAGGGTTTTTA
66 TTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGGTTAGGGTAAGGATTTTTA
* *
16844378 ATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTTAGGGTTTTTAATTAAG
131 AGTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTTAGGATTTTTAATTAAG
*
16844431 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAAATAAATTAGGGTT
1 TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGGTT
16844486 TTTATTACAT
Statistics
Matches: 218, Mismatches: 18, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
182 162 0.74
183 56 0.26
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (183 bp):
TTAGGTTAGGGTTAGGGTTTTTAATTAAGTTAGGGTTTTTAATTAAATTAGGGTTAGGGTTAGGG
TTTTTAATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGGTTAGGGTAAGGATTTTTA
AGTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAGTTAGGATTTTTAATTAAG
Found at i:16844537 original size:25 final size:26
Alignment explanation
Indices: 16844485--16844548 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
16844475 AAATTAGGGT
*
16844485 TTTTATTACATCAAATTGAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
* *
16844511 TTTTATTATATTAAA-TAAACTTCTA
1 TTTTATTACATCAAATTAAACTTCTA
16844536 TTTTATTACATCA
1 TTTTATTACATCA
16844549 GATAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 20 0.61
26 13 0.39
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (26 bp):
TTTTATTACATCAAATTAAACTTCTA
Found at i:16844981 original size:18 final size:18
Alignment explanation
Indices: 16844954--16844988 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16844944 CGAAAAAGGA
* *
16844954 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
16844972 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
16844989 AAACACACTT
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:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:16845650 original size:7 final size:7
Alignment explanation
Indices: 16845640--16845664 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16845630 TTATATACAT
16845640 AATACTA
1 AATACTA
16845647 AATACTA
1 AATACTA
16845654 AATACTA
1 AATACTA
16845661 AATA
1 AATA
16845665 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:16846387 original size:16 final size:17
Alignment explanation
Indices: 16846351--16846392 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16846341 GAATCTTTTG
16846351 TTTTGAAAACACAAGA-A
1 TTTTG-AAACACAAGATA
* *
16846368 TTTTGAAACACAATATT
1 TTTTGAAACACAAGATA
16846385 TTTTGAAA
1 TTTTGAAA
16846393 ATACGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (17 bp):
TTTTGAAACACAAGATA
Found at i:16846422 original size:21 final size:21
Alignment explanation
Indices: 16846383--16846425 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16846373 AAACACAATA
*
16846383 TTTTTTGAAAATACGGAATTT
1 TTTTTTGAAAACACGGAATTT
16846404 TTTTTTG-AAACACGAGAATTT
1 TTTTTTGAAAACACG-GAATTT
16846425 T
1 T
16846426 GGAAACACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.47
Consensus pattern (21 bp):
TTTTTTGAAAACACGGAATTT
Found at i:16846433 original size:55 final size:57
Alignment explanation
Indices: 16846341--16846448 Score: 152
Period size: 55 Copynumber: 1.9 Consensus size: 57
16846331 TGAAACACGA
*
16846341 GAATCTTTTGTTTTGAAAACACAAGAATTTTGAAACAC-AATATTTTTTGAAAATACG
1 GAATCTTTTGTTTTGAAAACACAAGAATTTTGAAACACGAA-AATTTTTGAAAATACG
*
16846398 GAAT-TTTT-TTTTG-AAACACGAGAATTTTGGAAACACGAAAATTTTTGAAAA
1 GAATCTTTTGTTTTGAAAACACAAGAATTTT-GAAACACGAAAATTTTTGAAAA
16846449 CCTGAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
54 14 0.30
55 23 0.49
56 6 0.13
57 4 0.09
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (57 bp):
GAATCTTTTGTTTTGAAAACACAAGAATTTTGAAACACGAAAATTTTTGAAAATACG
Found at i:16846449 original size:18 final size:17
Alignment explanation
Indices: 16846405--16846597 Score: 80
Period size: 17 Copynumber: 11.2 Consensus size: 17
16846395 ACGGAATTTT
*
16846405 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
*
16846422 TTTTGGAAACACGAAAA
1 TTTTTGAAACACGAAAA
16846439 TTTTTGAAA-ACCTGAAAAAAA
1 TTTTTGAAACA-C-G---AAAA
*
16846460 ATTTT--AACACGAAAA
1 TTTTTGAAACACGAAAA
** * *
16846475 TTTGCGAAACATGACAA
1 TTTTTGAAACACGAAAA
* *
16846492 TTTTT-AAACATGAGAAT
1 TTTTTGAAACACGA-AAA
16846509 TTTTTGAGAACACG-AAA
1 TTTTTGA-AACACGAAAA
* *
16846526 ----TAAAACACGGAAA
1 TTTTTGAAACACGAAAA
*
16846539 TTTGTGAAACACAAGAAAA
1 TTTTTGAAACAC--GAAAA
* *
16846558 GTTTTTAAAAGCACGGAAA
1 -TTTTTGAAA-CACGAAAA
* *
16846577 TTTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
16846594 TTTT
1 TTTT
16846598 AAAAACATAA
Statistics
Matches: 131, Mismatches: 25, Indels: 40
0.67 0.13 0.20
Matches are distributed among these distances:
12 6 0.05
13 5 0.04
15 6 0.05
16 9 0.07
17 59 0.45
18 11 0.08
19 16 0.12
20 8 0.06
21 11 0.08
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:16846502 original size:16 final size:16
Alignment explanation
Indices: 16846481--16846512 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16846471 AAAATTTGCG
16846481 AAACATGACAATTTTT
1 AAACATGACAATTTTT
*
16846497 AAACATGAGAATTTTT
1 AAACATGACAATTTTT
16846513 TGAGAACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (16 bp):
AAACATGACAATTTTT
Found at i:16846612 original size:17 final size:17
Alignment explanation
Indices: 16846592--16846648 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
16846582 GAAATACGAG
*
16846592 AATTTTAAAAACATAAA
1 AATTTTAAAAACACAAA
* *
16846609 AA-TTTACAAAACACGAG
1 AATTTTA-AAAACACAAA
* *
16846626 AATTTTAAAAATACAGA
1 AATTTTAAAAACACAAA
16846643 AATTTT
1 AATTTT
16846649 TGAAAAAATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 4 0.13
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (17 bp):
AATTTTAAAAACACAAA
Found at i:16846612 original size:34 final size:34
Alignment explanation
Indices: 16846560--16846653 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 34
16846550 CAAGAAAAGT
* ** *
16846560 TTTTAAAAGCACGGAAATTTTTGAAATACGAGAA
1 TTTTAAAAACACAAAAATTTTTGAAACACGAGAA
* ***
16846594 TTTTAAAAACATAAAAATTTACAAAACACGAGAA
1 TTTTAAAAACACAAAAATTTTTGAAACACGAGAA
* *
16846628 TTTTAAAAATACAGAAATTTTTGAAA
1 TTTTAAAAACACAAAAATTTTTGAAA
16846654 AAATAGATTT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.30
Consensus pattern (34 bp):
TTTTAAAAACACAAAAATTTTTGAAACACGAGAA
Found at i:16846774 original size:18 final size:18
Alignment explanation
Indices: 16846753--16847008 Score: 156
Period size: 18 Copynumber: 14.5 Consensus size: 18
16846743 GAAAATTTAC
16846753 AAAACAC-AAAAGTTTTTG
1 AAAACACGAAAA-TTTTTG
*
16846771 AAAACACGATAATTTTTG
1 AAAACACGAAAATTTTTG
*
16846789 -AAACATGAAAATTTTTGG
1 AAAACACGAAAATTTTT-G
** ***
16846807 AAAACGTGATTTTTTTTG
1 AAAACACGAAAATTTTTG
*
16846825 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* * **
16846843 -AAACACCAGAACCTTTG
1 AAAACACGAAAATTTTTG
* * *
16846860 TAAACAAGAAAAATTTTG
1 AAAACACGAAAATTTTTG
* *
16846878 AAAACATGAAGATTTTTG
1 AAAACACGAAAATTTTTG
*
16846896 -AAACACGGGAAA-TTTTG
1 AAAACAC-GAAAATTTTTG
* *
16846913 GAAACACGGAAATTTTT-
1 AAAACACGAAAATTTTTG
* *
16846930 AAAACAC-AGGAGTTTTTG
1 AAAACACGA-AAATTTTTG
16846948 AAAA-A-GCAGAAATTTTT-
1 AAAACACG-A-AAATTTTTG
** *
16846965 AAAACACGGGAGTTTTTG
1 AAAACACGAAAATTTTTG
16846983 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
16847001 -AAACACGA
1 AAAACACGA
16847009 TTTTTTTTAA
Statistics
Matches: 184, Mismatches: 40, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
17 72 0.39
18 96 0.52
19 16 0.09
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:16846793 original size:35 final size:34
Alignment explanation
Indices: 16846754--16847006 Score: 124
Period size: 35 Copynumber: 7.2 Consensus size: 34
16846744 AAAATTTACA
16846754 AAACACAAAAGTTTTTGAAAACACGATAATTTTTG
1 AAACACAAAAGTTTTTGAAAACACGA-AATTTTTG
* ** **
16846789 AAACATGAAAA-TTTTTGGAAAACGTGATTTTTTTTG
1 AAACA-CAAAAGTTTTT-GAAAACACGA-AATTTTTG
* * **
16846825 AAA-ACATGAAAATTTTTG-AAACACCAGAACCTTTG
1 AAACACA--AAAGTTTTTGAAAACACGA-AATTTTTG
** *
16846860 TAAACA-AGAAAAATTTTGAAAACATGAAGATTTTTG
1 -AAACACA-AAAGTTTTTGAAAACACGAA-ATTTTTG
* * *
16846896 AAACACGGGAAA--TTTTGGAAACACGGAAATTTTTA
1 AAACAC--AAAAGTTTTTGAAAACAC-GAAATTTTTG
** *
16846931 AAACACAGGAGTTTTTGAAAA-AGCAGAAATTTTTA
1 AAACACAAAAGTTTTTGAAAACA-C-GAAATTTTTG
***
16846966 AAACACGGGAGTTTTTGAAAACACGAAAATTTTTG
1 AAACACAAAAGTTTTTGAAAACACG-AAATTTTTG
16847001 AAACAC
1 AAACAC
16847007 GATTTTTTTT
Statistics
Matches: 170, Mismatches: 30, Indels: 36
0.72 0.13 0.15
Matches are distributed among these distances:
33 1 0.01
34 3 0.02
35 112 0.66
36 45 0.26
37 9 0.05
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (34 bp):
AAACACAAAAGTTTTTGAAAACACGAAATTTTTG
Found at i:16846918 original size:53 final size:52
Alignment explanation
Indices: 16846820--16847006 Score: 142
Period size: 53 Copynumber: 3.6 Consensus size: 52
16846810 ACGTGATTTT
* *
16846820 TTTTGAAAACATGAAAATTTTTGAAACACCAGAACCTTTGTAAACAAGAAAAA
1 TTTTGAAAACATGAAAATTTTTGAAACACCAGAAACTTTGGAAACAAG-AAAA
* ** * * *
16846873 TTTTGAAAACATGAAGATTTTTGAAACACGGGAAATTTTGGAAACACGGAAA
1 TTTTGAAAACATGAAAATTTTTGAAACACCAGAAACTTTGGAAACAAGAAAA
* * * * * * * ** * * **
16846925 TTTTTAAAACA-CAGGAGTTTTTGAAAAAGCAGAAATTTTTAAAACACGGGAGT
1 TTTTGAAAACATGA-AAATTTTTGAAACACCAGAAACTTTGGAAACA-AGAAAA
*
16846978 TTTTGAAAACACGAAAATTTTTGAAACAC
1 TTTTGAAAACATGAAAATTTTTGAAACAC
16847007 GATTTTTTTT
Statistics
Matches: 103, Mismatches: 28, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
51 1 0.01
52 36 0.35
53 65 0.63
54 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (52 bp):
TTTTGAAAACATGAAAATTTTTGAAACACCAGAAACTTTGGAAACAAGAAAA
Found at i:16847007 original size:35 final size:35
Alignment explanation
Indices: 16846873--16847007 Score: 157
Period size: 35 Copynumber: 3.9 Consensus size: 35
16846863 ACAAGAAAAA
* * * **
16846873 TTTTGAAAACATGAAGATTTTTGAAACACGGGAAA
1 TTTTGAAAACACGAAAATTTTTAAAACACGGGAGT
* * *
16846908 TTTTGGAAACACGGAAATTTTTAAAACACAGGAGT
1 TTTTGAAAACACGAAAATTTTTAAAACACGGGAGT
16846943 TTTTGAAAA-A-GCAGAAATTTTTAAAACACGGGAGT
1 TTTTGAAAACACG-A-AAATTTTTAAAACACGGGAGT
*
16846978 TTTTGAAAACACGAAAATTTTTGAAACACG
1 TTTTGAAAACACGAAAATTTTTAAAACACG
16847008 ATTTTTTTTA
Statistics
Matches: 84, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
33 1 0.01
34 1 0.01
35 79 0.94
36 2 0.02
37 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (35 bp):
TTTTGAAAACACGAAAATTTTTAAAACACGGGAGT
Found at i:16847326 original size:25 final size:25
Alignment explanation
Indices: 16847278--16847334 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
16847268 TGCCTTATTT
* *
16847278 ATTGAAATTATTTAAATTTTAAAAA
1 ATTGAAATTAATTAAATTTAAAAAA
*
16847303 ATTGAAATTAAATTAAA-TTAAAAAT
1 ATTGAAATT-AATTAAATTTAAAAAA
16847328 A-TGAAAT
1 ATTGAAAT
16847335 ACAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 16 0.57
26 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
ATTGAAATTAATTAAATTTAAAAAA
Found at i:16847499 original size:4 final size:4
Alignment explanation
Indices: 16847485--16847554 Score: 65
Period size: 4 Copynumber: 17.8 Consensus size: 4
16847475 TGAACCTTTC
* * *
16847485 TCTT TCTTT TCTT TCTT T-TT TTTCT TCTT T-TT TCTT TTTT TCCT T-TT
1 TCTT TC-TT TCTT TCTT TCTT TCT-T TCTT TCTT TCTT TCTT TCTT TCTT
*
16847532 TCTT TCTT TTTT TCTT TCTT TCT
1 TCTT TCTT TCTT TCTT TCTT TCT
16847555 CTTTTTTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
3 8 0.15
4 39 0.72
5 7 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TCTT
Found at i:16847518 original size:19 final size:18
Alignment explanation
Indices: 16847487--16847565 Score: 97
Period size: 19 Copynumber: 4.3 Consensus size: 18
16847477 AACCTTTCTC
*
16847487 TTTCTTTTCTTTCTTTTT
1 TTTCTTTTTTTTCTTTTT
16847505 TTTCTTCTTTTTTCTTTTT
1 TTTCTT-TTTTTTCTTTTT
*
16847524 TTCCTTTTTCTTTC-TTTT
1 TTTCTTTTT-TTTCTTTTT
*
16847542 TTTCTTTCTTTCTCTTTTT
1 TTTCTTT-TTTTTCTTTTT
16847561 TTTCT
1 TTTCT
16847566 GTTGGGCCGG
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
18 22 0.42
19 31 0.58
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTTTTTTTCTTTTT
Found at i:16847533 original size:38 final size:37
Alignment explanation
Indices: 16847491--16847562 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 37
16847481 TTTCTCTTTC
*
16847491 TTTTCTTTCTTTTTTT-TCTTCTTTTTTCTTTTTTTCCT
1 TTTTCTTTCTTTTTTTCT-TTC-TTTCTCTTTTTTTCCT
16847529 TTTTCTTTCTTTTTTTCTTTCTTTCTCTTTTTTT
1 TTTTCTTTCTTTTTTTCTTTCTTTCTCTTTTTTT
16847563 TCTGTTGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 12 0.38
38 19 0.59
39 1 0.03
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (37 bp):
TTTTCTTTCTTTTTTTCTTTCTTTCTCTTTTTTTCCT
Found at i:16847564 original size:38 final size:38
Alignment explanation
Indices: 16847491--16847562 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
16847481 TTTCTCTTTC
*
16847491 TTTTCTTTCTTTTTTTTCTTCTTTTTTCTTTTTTTCCT
1 TTTTCTTTCTTTTTTTTCTTCTTTTCTCTTTTTTTCCT
16847529 TTTTCTTTC-TTTTTTTCTT-TCTTTCTCTTTTTTT
1 TTTTCTTTCTTTTTTTTCTTCT-TTTCTCTTTTTTT
16847563 TCTGTTGGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 1 0.03
37 22 0.69
38 9 0.28
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (38 bp):
TTTTCTTTCTTTTTTTTCTTCTTTTCTCTTTTTTTCCT
Found at i:16847882 original size:7 final size:6
Alignment explanation
Indices: 16847832--16847967 Score: 98
Period size: 7 Copynumber: 21.3 Consensus size: 6
16847822 TGCTTTATTA
*
16847832 TTTTTC TTTTTCC TTTTTC TTTTTC TTTTTTT TTTTCTC TTTTTC TATTTTC
1 TTTTTC TTTTT-C TTTTTC TTTTTC -TTTTTC TTTT-TC TTTTTC T-TTTTC
* * *
16847884 TATTTT- TTTCTC TTTTTC TTTTTTC TTTCTTC TTCTTTC TTCTTC TTCTTC
1 T-TTTTC TTTTTC TTTTTC -TTTTTC TTT-TTC TT-TTTC TTTTTC TTTTTC
* *
16847935 TTCCTTC TTTCTT- TCTTTC TTTTT- TTTCTTC TT
1 TT-TTTC TTT-TTC TTTTTC TTTTTC TTT-TTC TT
16847968 CTCTCGGATC
Statistics
Matches: 109, Mismatches: 8, Indels: 25
0.77 0.06 0.18
Matches are distributed among these distances:
5 8 0.07
6 47 0.43
7 53 0.49
8 1 0.01
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:16847918 original size:3 final size:3
Alignment explanation
Indices: 16847910--16847969 Score: 57
Period size: 3 Copynumber: 18.3 Consensus size: 3
16847900 TCTTTTTTCT
*
16847910 TTC TTC TTC TTTC TTC TTC TTC TTC TTCC TTC TTTC TTTC TTTC TTT
1 TTC TTC TTC -TTC TTC TTC TTC TTC TT-C TTC -TTC -TTC -TTC TTC
*
16847957 TTT TTC TTC TTC T
1 TTC TTC TTC TTC T
16847970 CTCGGATCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
3 35 0.67
4 17 0.33
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:16848539 original size:30 final size:30
Alignment explanation
Indices: 16848505--16848634 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 30
16848495 AAGAGTTTAG
*
16848505 GGGTCAAAGTG-AAATTTTGAGAAAGTATAA
1 GGGTCAAAATGTAAATTTT-AGAAAGTATAA
* * * * **
16848535 GGGTCGAAAT-TTAATTTTAGAAATTTTTG
1 GGGTCAAAATGTAAATTTTAGAAAGTATAA
* *
16848564 GGGTCAAAATGTAAATTTTAGAAAATTTTAA
1 GGGTCAAAATGTAAATTTTAG-AAAGTATAA
* *
16848595 -GGTCAAAATGTAAATTTT-GAAAAGTACAG
1 GGGTCAAAATGTAAATTTTAG-AAAGTATAA
*
16848624 GGGTTAAAATG
1 GGGTCAAAATG
16848635 CAAAAAAAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
29 23 0.29
30 50 0.62
31 7 0.09
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (30 bp):
GGGTCAAAATGTAAATTTTAGAAAGTATAA
Found at i:16848567 original size:29 final size:30
Alignment explanation
Indices: 16848444--16848617 Score: 110
Period size: 30 Copynumber: 5.9 Consensus size: 30
16848434 GCAAAGCTTC
* *
16848444 TGGGG-CAAAAGTGT-AATTTTAGCAAAAATA
1 TGGGGTCAAAA-TGTAAATTTTAG-AAAATTT
* * * *
16848474 TGGGCT-AAAATGTAATTTCTTA-AGAGTTT
1 TGGGGTCAAAATGTAAATT-TTAGAAAATTT
* * * *
16848503 AGGGGTCAAAGTG-AAATTTTGAGAAAGTAT
1 TGGGGTCAAAATGTAAATTTT-AGAAAATTT
** * * *
16848533 AAGGGTCGAAAT-TTAATTTTAGAAATTTT
1 TGGGGTCAAAATGTAAATTTTAGAAAATTT
16848562 TGGGGTCAAAATGTAAATTTTAGAAAATTT
1 TGGGGTCAAAATGTAAATTTTAGAAAATTT
**
16848592 TAAGGTCAAAATGTAAATTTT-GAAAA
1 TGGGGTCAAAATGTAAATTTTAGAAAA
16848618 GTACAGGGGT
Statistics
Matches: 111, Mismatches: 25, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
28 2 0.02
29 36 0.32
30 70 0.63
31 3 0.03
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (30 bp):
TGGGGTCAAAATGTAAATTTTAGAAAATTT
Found at i:16848920 original size:75 final size:74
Alignment explanation
Indices: 16848832--16850021 Score: 403
Period size: 77 Copynumber: 15.5 Consensus size: 74
16848822 GGCGTGCGAA
* * *
16848832 CCGAGACTCAACTCACCTCTTGGATTATGAGTTTATCTTCGAAAAACAAAAATCG-AAAAT-ACA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACAAAAATCGAAAAATAAC-
*
16848895 TCGACATGTGCC
65 TCGAC--GTGAC
* * * * * *
16848907 CCGAGGCTCAACTCACCTCTCAGAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAATAACT
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACAAAAATCGAAAAATAACT
*
16848972 CGGCGTGAC
66 CGACGTGAC
* * * * * * **
16848981 CCGAGGCTCAACTCATCTCTCGCATTATGAGTTGATTTTTGAAAAATAGAAATTTAAAAGAAATA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACA-AAA-ATCGAA-AAATA
* * * **
16849046 CCTCGGCATGGT
63 ACTCGACGTGAC
* * * * * * * * **
16849058 CCAAGGCTCAACTCACCTATCGCAATATGAGCTGATTTTTGAAAAACAGAAATTTAAAAGAAGTA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACA-AAAATCGAAA-AA-TA
* *
16849123 CCTC-AGCATGAC
63 ACTCGA-CGTGAC
* * * ** **
16849135 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAAC--AAAAATCGAA-AAATA
* * *
16849199 CCTCGGCATGAC
63 ACTCGACGTGAC
* * * ** **
16849211 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAAC--AAAAATCGAA-AAATA
* * *
16849275 CCTCGGCATGAC
63 ACTCGACGTGAC
** * * * ** ** *
16849287 CCGAAACTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAACA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACAAAAATCGAAAA-ATA-A
* *
16849351 CCTCGGCATGAC
64 -CTCGACGTGAC
** * ** * **
16849363 CCGAGGCTCAACTCACCTCT-ATATTATGAGTTGATTTTTTTAAAAAAGCAGAAATTTAAAAAAA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA--TCTTCGAAAAA-CA-AAA-AT-CGAAAA
*
16849427 ATACCTC-AGCGTGAC
60 ATAACTCGA-CGTGAC
* * * * * **
16849442 CCGAGGCTCAACTCATCTCT-GTATTATGAGTTGATTTTTTGAAAAAAAATAGAAATTAAAAAAA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCG-AAAAACA-A-AAA-T-CGAAAA
*
16849506 ATACCTC-AGCGTGAC
60 ATAACTCGA-CGTGAC
* * * * * **
16849521 CTGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTAAAAAAAA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCG-AAAAA-CA-AAAAT-CGAAAAA
* *
16849585 TACCTC-AGTGTGAC
61 TAACTCGA-CGTGAC
* * * ** * * *
16849599 CCAAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTAAAAAAAGACATAAAT-TAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTT-CGAAAA-ACAAAAATCGAAAAATAA
16849662 CTC-AGCGTGAC
64 CTCGA-CGTGAC
* * * * * **
16849673 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTAATTTTTTGAAAAAAAGTAGAAATTTAAAAAA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCGAAAAACA--A-AAA--TCGAAAA
*
16849737 ATACCTC-AGCGTGAC
60 ATAACTCGA-CGTGAC
* * * * **
16849752 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAAACAGAAATTAAAAAAAT
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCG--AAAAACA-AAAATCGAAAAAT
*
16849816 ACCTC-AGCGTGAC
62 AACTCGA-CGTGAC
* * * * **
16849829 CCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTAAAAAAAT
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCG-AAAAA-CA-AAAATCGAAAAAT
* *
16849893 ACCTC-AGTGTGAC
62 AACTCGA-CGTGAC
* * * * *
16849906 CCGAGACTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAATCAGAAATTAAATTGAAA
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TCTTCGAAAAA-C---AA--AAATCG-AA
*
16849970 AAATACCTC-AGCGTGAC
58 AAATAACTCGA-CGTGAC
* *
16849987 CCGAGGCTCAACTCACTTCT-GTATTATGAGTTGAT
1 CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT
16850022 TTTTTGAAAA
Statistics
Matches: 966, Mismatches: 105, Indels: 83
0.84 0.09 0.07
Matches are distributed among these distances:
73 4 0.00
74 107 0.11
75 53 0.05
76 234 0.24
77 239 0.25
78 77 0.08
79 180 0.19
80 9 0.01
81 59 0.06
82 4 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.28
Consensus pattern (74 bp):
CCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATCTTCGAAAAACAAAAATCGAAAAATAACT
CGACGTGAC
Found at i:16849201 original size:76 final size:77
Alignment explanation
Indices: 16848906--16850048 Score: 1430
Period size: 76 Copynumber: 14.8 Consensus size: 77
16848896 CGACATGTGC
* * *
16848906 CCCGAGGCTCAACTCACCTCTCAG-AATATGAGTTGA-TTTTTGAAAAACATAAA-TT--GAAAA
1 CCCGAGGCTCAACTCACCTCT--GTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAA
* *
16848966 ATAACTCGGCGTGA
64 ATACCTCAGCGTGA
* * * *
16848980 CCCGAGGCTCAACTCATCTCTCGCATTATGAGTTGA-TTTTTGAAAAATAGAAATTTAAAAGAAA
1 CCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAA
* * *
16849044 TACCTCGGCATGG
65 TACCTCAGCGTGA
* * * * * * * *
16849057 TCCAAGGCTCAACTCACCTATCGCAATATGAGCTGA-TTTTTGAAAAACAGAAATTTAAAAGAAG
1 CCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAA
*
16849121 TACCTCAGCATGA
65 TACCTCAGCGTGA
* *
16849134 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACGGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAAT
* *
16849198 ACCTCGGCATGA
66 ACCTCAGCGTGA
* *
16849210 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACGGAAATTTAAAAGAAAT
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAAT
* *
16849274 ACCTCGGCATGA
66 ACCTCAGCGTGA
** * * *
16849286 CCCGAAACTCAACTCACCTCTGTATTATGAGTTGA-TTTTTGAAAAACGGAAATTTAAAAGAAAC
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAAT
* *
16849350 ACCTCGGCATGA
66 ACCTCAGCGTGA
* *
16849362 CCCGAGGCTCAACTCACCTCTATATTATGAGTTGATTTTTTTAAAAAAGCAGAAATTTAAAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAA-CAGAAATTTAAAAAAA
16849427 ATACCTCAGCGTGA
64 ATACCTCAGCGTGA
* *
16849441 CCCGAGGCTCAACTCATCTCTGTATTATGAGTTGATTTTTTGAAAAAAAATAGAAA-TTAAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG---AAAAACAGAAATTTAAAAAA
16849505 AATACCTCAGCGTGA
63 AATACCTCAGCGTGA
*
16849520 CCTGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAA-TTAAAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAA-CAGAAATTTAAAAAAA
*
16849584 ATACCTCAGTGTGA
64 ATACCTCAGCGTGA
* * *
16849598 CCCAAGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTT-AAAAAAAGACA--TAAATTAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAA--AAAA
16849658 ATACCTCAGCGTGA
64 ATACCTCAGCGTGA
* *
16849672 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTAATTTTTTGAAAAAAAGTAGAAATTT-AAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG--AAAAA-CAGAAATTTAAAAAA
16849736 AATACCTCAGCGTGA
63 AATACCTCAGCGTGA
16849751 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAACAGAAA-TT-AAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG--AAAAACAGAAATTTAAAAAAA
16849814 ATACCTCAGCGTGA
64 ATACCTCAGCGTGA
16849828 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAA-TT-AAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAA-CAGAAATTTAAAAAAA
*
16849891 ATACCTCAGTGTGA
64 ATACCTCAGCGTGA
* *
16849905 CCCGAGACTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAATCAGAAATTAAATTGAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-CAGAAATTTAA---AAA
16849970 AAATACCTCAGCGTGA
62 AAATACCTCAGCGTGA
* *
16849986 CCCGAGGCTCAACTCACTTCTGTATTATGAGTTGATTTTTTGAAAAAAACAGAATTTTAAAAA
1 CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG--AAAAACAGAAATTTAAAAA
16850049 TATTTCTTGA
Statistics
Matches: 971, Mismatches: 69, Indels: 53
0.89 0.06 0.05
Matches are distributed among these distances:
72 4 0.00
73 5 0.01
74 101 0.10
75 2 0.00
76 255 0.26
77 238 0.25
78 82 0.08
79 195 0.20
80 9 0.01
81 65 0.07
82 10 0.01
83 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (77 bp):
CCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAAAAAT
ACCTCAGCGTGA
Found at i:16850078 original size:30 final size:30
Alignment explanation
Indices: 16850020--16850078 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
16850010 TTATGAGTTG
* *
16850020 ATTTTTTGAAAAAAACAGAATTTTAAAAAT
1 ATTTCTTGAAAAAAACAGAATTTCAAAAAT
* **
16850050 ATTTCTTGAAAGAAACAGGGTTTCAAAAA
1 ATTTCTTGAAAAAAACAGAATTTCAAAAA
16850079 AACCTCAAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (30 bp):
ATTTCTTGAAAAAAACAGAATTTCAAAAAT
Found at i:16850935 original size:16 final size:16
Alignment explanation
Indices: 16850916--16850959 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
16850906 TTCTCTTCTT
16850916 TTTTTGTTTTTTCCCC
1 TTTTTGTTTTTTCCCC
16850932 TTTTTGTTTTTTCCCC
1 TTTTTGTTTTTTCCCC
16850948 TTTTTGTTTTTT
1 TTTTTGTTTTTT
16850960 GTTTTGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.75
Consensus pattern (16 bp):
TTTTTGTTTTTTCCCC
Found at i:16856716 original size:16 final size:17
Alignment explanation
Indices: 16856680--16856721 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
16856670 GAATCTCTTG
16856680 TTTTGAAAACACAAGA-A
1 TTTTG-AAACACAAGATA
* *
16856697 TTTTGAAACACAATATT
1 TTTTGAAACACAAGATA
16856714 TTTTGAAA
1 TTTTGAAA
16856722 ATGCGGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.36
Consensus pattern (17 bp):
TTTTGAAACACAAGATA
Found at i:16856759 original size:17 final size:17
Alignment explanation
Indices: 16856734--16856982 Score: 84
Period size: 17 Copynumber: 14.5 Consensus size: 17
16856724 GCGGAATTTT
*
16856734 TTTTTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
*
16856751 TTTTGGAAACACGAAAA
1 TTTTTGAAACACGAAAA
16856768 TTTTTGAAA-ACCTGAAAAAAA
1 TTTTTGAAACA-C-G---AAAA
*
16856789 ATTTT--AACACGAAAA
1 TTTTTGAAACACGAAAA
** * *
16856804 TTTGCGAAACATGACAA
1 TTTTTGAAACACGAAAA
* *
16856821 TTTTT-AAACATGAGAAT
1 TTTTTGAAACACGA-AAA
16856838 TTTTTGAGAACACG-AAA
1 TTTTTGA-AACACGAAAA
* *
16856855 ----TAAAACACGGAAA
1 TTTTTGAAACACGAAAA
*
16856868 TTTGTGAAACACAAGAAAA
1 TTTTTGAAACAC--GAAAA
* *
16856887 GTTTTTAAAAGCACGGAAA
1 -TTTTTGAAA-CACGAAAA
* *
16856906 TTTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
** **
16856923 TTTTAAAAACATAAAAA
1 TTTTTGAAACACGAAAA
*** *
16856940 TTTACAAAACACGAGAA
1 TTTTTGAAACACGAAAA
*** *
16856957 TTTAAAAAATACGAAAA
1 TTTTTGAAACACGAAAA
16856974 TTTTTGAAA
1 TTTTTGAAA
16856983 AAAATAGATT
Statistics
Matches: 170, Mismatches: 42, Indels: 40
0.67 0.17 0.16
Matches are distributed among these distances:
12 6 0.04
13 5 0.03
15 6 0.04
16 9 0.05
17 98 0.58
18 11 0.06
19 16 0.09
20 8 0.05
21 11 0.06
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.27
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:16856831 original size:16 final size:16
Alignment explanation
Indices: 16856810--16856841 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16856800 AAAATTTGCG
16856810 AAACATGACAATTTTT
1 AAACATGACAATTTTT
*
16856826 AAACATGAGAATTTTT
1 AAACATGACAATTTTT
16856842 TGAGAACACG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (16 bp):
AAACATGACAATTTTT
Found at i:16857056 original size:17 final size:17
Alignment explanation
Indices: 16857033--16857098 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
16857023 TTTTTTTCAA
16857033 AAAATACGAAAGTTTAT
1 AAAATACGAAAGTTTAT
* *
16857050 GAAATACGAGAA-TTTAA
1 AAAATACGA-AAGTTTAT
* *
16857067 AAAATACGAAAATTTAC
1 AAAATACGAAAGTTTAT
*
16857084 AAAACACGAAAGTTT
1 AAAATACGAAAGTTT
16857099 TTGAAAACAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
16 2 0.05
17 37 0.90
18 2 0.05
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAATACGAAAGTTTAT
Found at i:16857105 original size:18 final size:17
Alignment explanation
Indices: 16857084--16857336 Score: 144
Period size: 18 Copynumber: 14.5 Consensus size: 17
16857074 GAAAATTTAC
16857084 AAAACACGAAAGTTTTTG
1 AAAACACGAAA-TTTTTG
16857102 AAAACACGATAATTTTTG
1 AAAACACGA-AATTTTTG
*
16857120 -AAAGA--AAATTTTTGG
1 AAAACACGAAATTTTT-G
** **
16857135 AAAACGTGATTTTTTTTG
1 AAAACACGA-AATTTTTG
*
16857153 AAAACATGAAAATTTTTG
1 AAAACACG-AAATTTTTG
* **
16857171 -AAACACCGGAACCTTTG
1 AAAACA-CGAAATTTTTG
* *
16857188 TAAACAAGAAAATTTTTG
1 AAAACACG-AAATTTTTG
*
16857206 AAAACATGAAGATTTTTG
1 AAAACACGAA-ATTTTTG
*
16857224 -AAACACGGGAATTTTTG
1 AAAACAC-GAAATTTTTG
*
16857241 GAAACACGGAAATTTTT-
1 AAAACAC-GAAATTTTTG
* * *
16857258 AAAACGCAGGAGTTTTTG
1 AAAACAC-GAAATTTTTG
*
16857276 AAAACGCGGAAATTTTT-
1 AAAACAC-GAAATTTTTG
* *
16857293 AAAACACGGGAGTTTTTG
1 AAAACAC-GAAATTTTTG
16857311 AAAACACGAAAATTTTTG
1 AAAACACG-AAATTTTTG
16857329 -AAACACGA
1 AAAACACGA
16857337 TTTTTTTTAA
Statistics
Matches: 185, Mismatches: 34, Indels: 34
0.73 0.13 0.13
Matches are distributed among these distances:
14 7 0.04
15 2 0.01
16 4 0.02
17 64 0.35
18 100 0.54
19 8 0.04
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (17 bp):
AAAACACGAAATTTTTG
Found at i:16857228 original size:35 final size:34
Alignment explanation
Indices: 16857085--16857333 Score: 123
Period size: 35 Copynumber: 7.1 Consensus size: 34
16857075 AAAATTTACA
* * *
16857085 AAACACGAAAGTTTTTGAAAACACGATAATTTTTG
1 AAACAAGAAAATTTTTGAAAACAGGA-AATTTTTG
**
16857120 --A-AAGAAAATTTTTGGAAAAC-GTGATTTTTTTTG
1 AAACAAGAAAATTTTT-GAAAACAG-GA-AATTTTTG
* * **
16857153 AAAACATGAAAATTTTTGAAACACCGG-AACCTTTG
1 -AAACAAGAAAATTTTTGAAA-ACAGGAAATTTTTG
*
16857188 TAAACAAGAAAATTTTTGAAAACATGAAGATTTTTG
1 -AAACAAGAAAATTTTTGAAAACAGGAA-ATTTTTG
* ** * *
16857224 AAACACGGGAATTTTTGGAAACACGGAAATTTTTA
1 AAACAAGAAAATTTTTGAAAACA-GGAAATTTTTG
* * * * *
16857259 AAACGCAG-GAGTTTTTGAAAACGCGGAAATTTTTA
1 AAAC-AAGAAAATTTTTGAAAAC-AGGAAATTTTTG
* ** * *
16857294 AAACACGGGAGTTTTTGAAAACACGAAAATTTTTG
1 AAACAAGAAAATTTTTGAAAACA-GGAAATTTTTG
16857329 AAACA
1 AAACA
16857334 CGATTTTTTT
Statistics
Matches: 167, Mismatches: 32, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
32 10 0.06
33 16 0.10
34 4 0.02
35 108 0.65
36 14 0.08
37 14 0.08
38 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (34 bp):
AAACAAGAAAATTTTTGAAAACAGGAAATTTTTG
Done.