Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 101 of 160
Found at i:19119705 original size:17 final size:17
Alignment explanation
Indices: 19119683--19119717 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
19119673 CAACAGACGA
19119683 CTAGGTAATGGCAAGCG
1 CTAGGTAATGGCAAGCG
**
19119700 CTAGGTCCTGGCAAGCG
1 CTAGGTAATGGCAAGCG
19119717 C
1 C
19119718 CAAGTCCTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (17 bp):
CTAGGTAATGGCAAGCG
Found at i:19119724 original size:17 final size:17
Alignment explanation
Indices: 19119691--19119733 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
19119681 GACTAGGTAA
* *
19119691 TGGCAAGCGCTAGGTCC
1 TGGCAAGCGCCAAGTCC
19119708 TGGCAAGCGCCAAGTCC
1 TGGCAAGCGCCAAGTCC
19119725 TGGCAAGCG
1 TGGCAAGCG
19119734 TCAGGTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (17 bp):
TGGCAAGCGCCAAGTCC
Found at i:19120447 original size:23 final size:23
Alignment explanation
Indices: 19120416--19120505 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 23
19120406 TTTGTAGGTT
*
19120416 TTTTTATTTTTATTTATTT-TATA
1 TTTTAATTTTT-TTTATTTATATA
* *
19120439 TTTTAATTTTTTTTCTTTATTTA
1 TTTTAATTTTTTTTATTTATATA
* * *
19120462 TTTTCAATTTTTTGT-TTCATTTA
1 TTTT-AATTTTTTTTATTTATATA
*
19120485 TTTTATTTTATTATTTATTTA
1 TTTTAATTT-TT-TTTATTTA
19120506 CTTTTACTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
22 10 0.19
23 30 0.56
24 11 0.20
25 3 0.06
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (23 bp):
TTTTAATTTTTTTTATTTATATA
Found at i:19125334 original size:32 final size:31
Alignment explanation
Indices: 19125278--19125357 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
19125268 AATAAATGGG
* ** * *
19125278 AAAAAATGAAAAAAAATGAGAAAAAAG-CAC
1 AAAAAAGGAAAAAAAAAAAAAAAAAAGAGAC
19125308 AAAAAAGGTAAAAAAAAAAAAAAAAAAGAGAC
1 AAAAAAGG-AAAAAAAAAAAAAAAAAAGAGAC
**
19125340 AAATGAGGAAAAAAAAAA
1 AAAAAAGGAAAAAAAAAA
19125358 GACTTAAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 7 0.17
31 26 0.63
32 8 0.20
ACGTcount: A:0.78, C:0.04, G:0.14, T:0.05
Consensus pattern (31 bp):
AAAAAAGGAAAAAAAAAAAAAAAAAAGAGAC
Found at i:19127168 original size:60 final size:60
Alignment explanation
Indices: 19126991--19127171 Score: 179
Period size: 60 Copynumber: 3.0 Consensus size: 60
19126981 TTTTCCTGAT
* * * * * * *
19126991 TTACGACATCGTCTCAATCATTCATCTATGACCTTGACTCGATCTTGGTCACTTTCAAAC
1 TTACGACATCATCCCGATCATTCACCTATGACTTTGACTTGATCTTGGTCACTTTCAGAC
* * * *
19127051 TTACGACATCATCCCGGTCATTCACCTACGA-TCTTGACTT-AGTTTTGGTCACTTTCAGAT
1 TTACGACATCATCCCGATCATTCACCTATGACT-TTGACTTGA-TCTTGGTCACTTTCAGAC
* ** *
19127111 TTGC-AGCATCATCTTGATCATTCACCTATGACTTTGACTTGACCTTGGTCACTTTCAGAC
1 TTACGA-CATCATCCCGATCATTCACCTATGACTTTGACTTGATCTTGGTCACTTTCAGAC
19127171 T
1 T
19127172 CATAGCATCG
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
59 2 0.02
60 93 0.96
61 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (60 bp):
TTACGACATCATCCCGATCATTCACCTATGACTTTGACTTGATCTTGGTCACTTTCAGAC
Found at i:19127634 original size:46 final size:46
Alignment explanation
Indices: 19127582--19127671 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
19127572 AAAAAAAACT
* *
19127582 TTGAAGATTTTGCAATAAATTTTGGTGCTTGATTTATGCAATTATG
1 TTGAAGATTTTGCAAGAAATTTCGGTGCTTGATTTATGCAATTATG
*
19127628 TTGAAGATTTTGCAGGAAATTTCGGTGCTTGATTTATGCAATTA
1 TTGAAGATTTTGCAAGAAATTTCGGTGCTTGATTTATGCAATTA
19127672 ATTCACATTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (46 bp):
TTGAAGATTTTGCAAGAAATTTCGGTGCTTGATTTATGCAATTATG
Found at i:19128854 original size:4 final size:4
Alignment explanation
Indices: 19128847--19128893 Score: 53
Period size: 4 Copynumber: 12.0 Consensus size: 4
19128837 TTATATATAT
* *
19128847 TTTA TTTA TTTA TTT- TTAA TTT- TTTA TTTCA TTTA ATTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A TTTA TTTA TTTA TTTA
19128894 CTTTTGCTGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
3 5 0.14
4 27 0.75
5 4 0.11
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:19130923 original size:3 final size:3
Alignment explanation
Indices: 19130915--19130975 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
19130905 ATTATTCCTC
19130915 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19130963 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
19130976 AACAATTTCT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19132465 original size:23 final size:23
Alignment explanation
Indices: 19132413--19132465 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
19132403 AAAAAAAAAA
*
19132413 CCTAAATC-TTGAAACCATAAAC
1 CCTAAAACTTTGAAACCATAAAC
* *
19132435 CCTGAAACTTTGAAACTATAAAC
1 CCTAAAACTTTGAAACCATAAAC
*
19132458 CTTAAAAC
1 CCTAAAAC
19132466 CCTAAATCTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.25
Consensus pattern (23 bp):
CCTAAAACTTTGAAACCATAAAC
Found at i:19132471 original size:15 final size:15
Alignment explanation
Indices: 19132453--19132547 Score: 66
Period size: 15 Copynumber: 6.3 Consensus size: 15
19132443 TTTGAAACTA
19132453 TAAACCTTAAAACCC
1 TAAACCTTAAAACCC
* * *
19132468 TAAATCTTGAAACCG
1 TAAACCTTAAAACCC
* * *
19132483 TAAACCCTAAAAACA
1 TAAACCTTAAAACCC
* * *
19132498 TAAACTTTTAAATCC
1 TAAACCTTAAAACCC
19132513 TGAAACCTT-AAACCC
1 T-AAACCTTAAAACCC
* *
19132528 TAAAGTCTTAAAATCC
1 TAAA-CCTTAAAACCC
19132544 TAAA
1 TAAA
19132548 ATAAGACCCT
Statistics
Matches: 60, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
14 3 0.05
15 42 0.70
16 15 0.25
ACGTcount: A:0.46, C:0.24, G:0.04, T:0.25
Consensus pattern (15 bp):
TAAACCTTAAAACCC
Found at i:19132487 original size:30 final size:29
Alignment explanation
Indices: 19132431--19132531 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 29
19132421 TTGAAACCAT
*
19132431 AAACCCTGAAACTTTGAAACTATAAACCTTA
1 AAACCCT-AAACTTTGAAAC-CTAAACCTTA
*
19132462 AAACCCTAAA-TCTTGAAACCGTAAACCCTA
1 AAACCCTAAACT-TTGAAACC-TAAACCTTA
* * *
19132492 AAAACATAAACTTTTAAATCCTGAAACCTT-
1 AAACCCTAAACTTTGAAA-CCT-AAACCTTA
19132522 AAACCCTAAA
1 AAACCCTAAA
19132532 GTCTTAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 40 0.70
31 16 0.28
ACGTcount: A:0.47, C:0.25, G:0.05, T:0.24
Consensus pattern (29 bp):
AAACCCTAAACTTTGAAACCTAAACCTTA
Found at i:19133902 original size:6 final size:6
Alignment explanation
Indices: 19133891--19133917 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19133881 AATAAAATAG
19133891 CAACCA CAACCA CAACCA CAACCA CAA
1 CAACCA CAACCA CAACCA CAACCA CAA
19133918 AGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (6 bp):
CAACCA
Found at i:19136190 original size:15 final size:15
Alignment explanation
Indices: 19136162--19136205 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
19136152 CATTTTTCAT
*
19136162 CAAAAAGGAA-AAAA
1 CAAAAAAGAACAAAA
19136176 CACAAAAA-AACAAAA
1 CA-AAAAAGAACAAAA
19136191 CAAAAAAGAACAAAA
1 CAAAAAAGAACAAAA
19136206 TTTCCAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.80, C:0.14, G:0.07, T:0.00
Consensus pattern (15 bp):
CAAAAAAGAACAAAA
Found at i:19136484 original size:21 final size:21
Alignment explanation
Indices: 19136451--19136504 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
19136441 ATGATTTAGT
* *
19136451 AAAAAGTTCAAAAATTAAA-AA
1 AAAAAG-TAAAAAAATAAAGAA
19136472 AAAAAGTAAAAAAATAAAGAA
1 AAAAAGTAAAAAAATAAAGAA
*
19136493 ATAAAG-AAAAAA
1 AAAAAGTAAAAAA
19136505 CTTTTCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (21 bp):
AAAAAGTAAAAAAATAAAGAA
Found at i:19137671 original size:155 final size:155
Alignment explanation
Indices: 19137389--19137681 Score: 451
Period size: 155 Copynumber: 1.9 Consensus size: 155
19137379 GATCAAGCTT
* * *
19137389 ATGAAAATTTTGATGAAGCCTAAGTTATCTTCCAATTTACTTCCTTTTCATTTGAGTTTGGCAAG
1 ATGAAAAATTTGATGAAACCTAAGTTATCTTCCAATTTACTTCCTTTTCATATGAGTTTGGCAAG
* * *
19137454 AATATCAAAAAGTTGAATATGGGAGAGGATTAAACACCTCAGAGTGAATAGGTCCAAGAGAAAAA
66 AATATCAAAAAGTTAAATATAGAAGAGGATTAAACACCTCAGAGTGAATAGGTCCAAGAGAAAAA
19137519 ATAAGGTTGTGGACATGAAAAGCAC
131 ATAAGGTTGTGGACATGAAAAGCAC
* * * *
19137544 ATGAAAAATTTGATGAAACCTAAGTTGTCTTCTAGTTTACTTTCTTTTCATATGAGTTTGGCAAG
1 ATGAAAAATTTGATGAAACCTAAGTTATCTTCCAATTTACTTCCTTTTCATATGAGTTTGGCAAG
* * * **
19137609 AATTTCAAAAAGTTAAATCTAGAAGAGTATTAAACACCTCAGAGTGAATAGGTTTAAGAGAAAAA
66 AATATCAAAAAGTTAAATATAGAAGAGGATTAAACACCTCAGAGTGAATAGGTCCAAGAGAAAAA
19137674 ATAAGGTT
131 ATAAGGTT
19137682 ATAGATAGAA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
155 123 1.00
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (155 bp):
ATGAAAAATTTGATGAAACCTAAGTTATCTTCCAATTTACTTCCTTTTCATATGAGTTTGGCAAG
AATATCAAAAAGTTAAATATAGAAGAGGATTAAACACCTCAGAGTGAATAGGTCCAAGAGAAAAA
ATAAGGTTGTGGACATGAAAAGCAC
Found at i:19139328 original size:15 final size:16
Alignment explanation
Indices: 19139302--19139350 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
19139292 GAAAATAAGG
* *
19139302 AAAAGGAATGAAAAAG
1 AAAAGAAATGAAAAAA
19139318 AAAA-AAATGAAAAAA
1 AAAAGAAATGAAAAAA
*
19139333 AAAAGAAAAGAAAAAA
1 AAAAGAAATGAAAAAA
19139349 AA
1 AA
19139351 TTAATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (16 bp):
AAAAGAAATGAAAAAA
Found at i:19140838 original size:26 final size:27
Alignment explanation
Indices: 19140809--19140872 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
19140799 TGGGATAAAA
19140809 ATTTGCATCAAGAAA-AAGATATTTG-C
1 ATTTGCAT-AAGAAAGAAGATATTTGAC
* * *
19140835 ATTTACATATGAAAGGAGATATTTGCAC
1 ATTTGCATAAGAAAGAAGATATTTG-AC
19140863 ATTTGCATAA
1 ATTTGCATAA
19140873 AGCATTCATT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 5 0.17
26 16 0.53
28 9 0.30
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (27 bp):
ATTTGCATAAGAAAGAAGATATTTGAC
Found at i:19141116 original size:23 final size:23
Alignment explanation
Indices: 19141089--19141133 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
19141079 AGATAAGATG
19141089 TTTTGAAA-CAAAGAGTGGAAAAC
1 TTTTGAAATCAAA-AGTGGAAAAC
*
19141112 TTTTGAAATGAAAAGTGGAAAA
1 TTTTGAAATCAAAAGTGGAAAA
19141134 TTTGAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.49, C:0.04, G:0.22, T:0.24
Consensus pattern (23 bp):
TTTTGAAATCAAAAGTGGAAAAC
Found at i:19141309 original size:40 final size:38
Alignment explanation
Indices: 19141252--19141361 Score: 116
Period size: 39 Copynumber: 2.8 Consensus size: 38
19141242 ACTTCTAAGT
* *
19141252 AAAATCTTAAAATTTTGAAAGATTTTCAAGCTCTATAGGC
1 AAAATCTT-AAATTTTGAAAGATTTTCAAGATCT-TAGGA
* *
19141292 AAAATCTTAAATGTTTGAATA-A-TTTCTGAGATCTTTGGA
1 AAAATCTTAAAT-TTTGAA-AGATTTTC-AAGATCTTAGGA
19141331 AAAATCTTAAATTTTTGAAAGATTTTCAAGA
1 AAAATCTTAAA-TTTTGAAAGATTTTCAAGA
19141362 CCTCCAAGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
38 1 0.02
39 32 0.54
40 25 0.42
41 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AAAATCTTAAATTTTGAAAGATTTTCAAGATCTTAGGA
Found at i:19141373 original size:79 final size:79
Alignment explanation
Indices: 19141252--19141397 Score: 199
Period size: 79 Copynumber: 1.8 Consensus size: 79
19141242 ACTTCTAAGT
* *
19141252 AAAATCTTAAAATTTTGAAAGATTTTCAAGCTCTATAGGCAAAA-TCTTAAATGTTTGAATAATT
1 AAAATCTTAAAATTTTGAAAGATTTTCAAGCTCCATAGGCAAAACT-TTAAATGTTTAAATAATT
19141316 TCTGAGATCTTTGGA
65 TCTGAGATCTTTGGA
* * *
19141331 AAAATCTTAAATTTTTGAAAGATTTTCAAGACCTCCA-A-GCAAAACTTTAAATTTTTAAATGAT
1 AAAATCTTAAAATTTTGAAAGATTTTCAAG--CTCCATAGGCAAAACTTTAAATGTTTAAATAAT
19141394 TTCT
64 TTCT
19141398 AAGGTCTCCA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
79 53 0.90
80 2 0.03
81 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (79 bp):
AAAATCTTAAAATTTTGAAAGATTTTCAAGCTCCATAGGCAAAACTTTAAATGTTTAAATAATTT
CTGAGATCTTTGGA
Found at i:19141382 original size:40 final size:40
Alignment explanation
Indices: 19141191--19141426 Score: 164
Period size: 40 Copynumber: 5.9 Consensus size: 40
19141181 ATGAGTACAT
* * * * *
19141191 GATTTTCAACACCTTCAAGCAAAATTTTAGATTTTTGAAT
1 GATTTTCAAGACCTCCAAGCAAAATCTTAAATTTTTGAAA
* * * * *
19141231 GATTTCCCAAGACTTCTAAGTAAAATCTTAAAATTTTGAAA
1 GATTT-TCAAGACCTCCAAGCAAAATCTTAAATTTTTGAAA
* *
19141272 GATTTTCAAG--CTCTATAGGCAAAATCTTAAATGTTTGAATA
1 GATTTTCAAGACCTCCA-A-GCAAAATCTTAAATTTTTGAA-A
* * *** *
19141313 -A-TTTCTGAGATCT-TTGGAAAAATCTTAAATTTTTGAAA
1 GATTTTC-AAGACCTCCAAGCAAAATCTTAAATTTTTGAAA
19141351 GATTTTCAAGACCTCCAAGCAAAA-CTTTAAATTTTT-AAA
1 GATTTTCAAGACCTCCAAGCAAAATC-TTAAATTTTTGAAA
**
19141390 TGA-TTTCTAAGGTCTCCAAGCAAAATCTTAAATTTTT
1 -GATTTTC-AAGACCTCCAAGCAAAATCTTAAATTTTT
19141427 TAATATCTTT
Statistics
Matches: 154, Mismatches: 28, Indels: 28
0.73 0.13 0.13
Matches are distributed among these distances:
38 5 0.03
39 38 0.25
40 76 0.49
41 33 0.21
42 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (40 bp):
GATTTTCAAGACCTCCAAGCAAAATCTTAAATTTTTGAAA
Found at i:19141538 original size:11 final size:11
Alignment explanation
Indices: 19141522--19141567 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
19141512 GAGTTTGGGA
19141522 AAAAAGAAAAG
1 AAAAAGAAAAG
19141533 AAAAAG-AAA-
1 AAAAAGAAAAG
*
19141542 AAAAAGGAAAG
1 AAAAAGAAAAG
19141553 AAAATAGATAAAG
1 AAAA-AGA-AAAG
19141566 AA
1 AA
19141568 TTATATAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 6 0.20
10 6 0.20
11 10 0.33
12 2 0.07
13 6 0.20
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.04
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:19141787 original size:33 final size:32
Alignment explanation
Indices: 19141750--19141826 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 32
19141740 CTATCACCTA
*
19141750 GATGAGATCTAAGCCCAATTTAATTGGCACTAT
1 GATGAGATTTAAGCCCAATTTAATTGGCAC-AT
* * *
19141783 GATGAAATTTAAG-CCAGTTTAGTTGGCACAT
1 GATGAGATTTAAGCCCAATTTAATTGGCACAT
19141814 -ATGAGATTTAAGC
1 GATGAGATTTAAGC
19141827 TCAGTTTAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
30 11 0.29
31 2 0.05
32 14 0.37
33 11 0.29
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (32 bp):
GATGAGATTTAAGCCCAATTTAATTGGCACAT
Found at i:19141825 original size:30 final size:32
Alignment explanation
Indices: 19141717--19141835 Score: 109
Period size: 33 Copynumber: 3.7 Consensus size: 32
19141707 TTTTAAAACA
* * **
19141717 GATGAGATTTAAACCCAGTTTAGCTATCACCTA-
1 GATGAGATTT-AAGCCAGTTTAGTTGGCA-CTAT
* * *
19141750 GATGAGATCTAAGCCCAATTTAATTGGCACTAT
1 GATGAGATTTAAG-CCAGTTTAGTTGGCACTAT
*
19141783 GATGAAATTTAAGCCAGTTTAGTTGGCAC-AT
1 GATGAGATTTAAGCCAGTTTAGTTGGCACTAT
19141814 -ATGAGATTTAAGCTCAGTTTAG
1 GATGAGATTTAAGC-CAGTTTAG
19141836 CTAGCATTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
30 12 0.17
31 10 0.14
32 19 0.27
33 30 0.42
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (32 bp):
GATGAGATTTAAGCCAGTTTAGTTGGCACTAT
Found at i:19141983 original size:46 final size:45
Alignment explanation
Indices: 19141922--19142226 Score: 310
Period size: 46 Copynumber: 6.7 Consensus size: 45
19141912 TCAAGATGAG
* *
19141922 ATTTTT-AAAGTTGTTAAGCTTTTGCTTAAAGGAACTTTTAAGTTT
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAA-GAACTTTTAAATTT
*
19141967 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAAGGAGCTTTTAAATTT
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAA-GAACTTTTAAATTT
* * * *
19142013 ATTTTCAAAAGTTGTGAAGCCATTGCTTAGAGAAGCTTTTAAATTT
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAAGAA-CTTTTAAATTT
* * * * *
19142059 ACTTTCAAAAGTTGTTAAACCTTTGCTTAAAAAATTTTTAAATTT
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAAGAACTTTTAAATTT
* * *
19142104 ATTTTTAAAAGTTGTTGAG-TTGTTGCTTAGAAGAGCTTTTAAATTT
1 ATTTTTAAAAGTTGTTAAGCCT-TTGCTTA-AAGAACTTTTAAATTT
* * ***
19142150 ACTTTCAAAAGTTGTGCGGCCTTTGCTTAAAGGAGA-TTTTAAATTT
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAA-GA-ACTTTTAAATTT
* * * *
19142196 ACTTTTAAAAGTTATTAAACTTTTGCTTAAA
1 ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAA
19142227 AGAGTTTGTA
Statistics
Matches: 216, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
44 1 0.00
45 42 0.19
46 172 0.80
47 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (45 bp):
ATTTTTAAAAGTTGTTAAGCCTTTGCTTAAAGAACTTTTAAATTT
Found at i:19142115 original size:137 final size:137
Alignment explanation
Indices: 19141928--19142268 Score: 427
Period size: 137 Copynumber: 2.5 Consensus size: 137
19141918 TGAGATTTTT
* * *
19141928 AAAGTTGTTAAGCTTTTGCTTAAAGGAACTTTTAAGTTTATTTTTAAAAGTTGTTAAGCCTTTGC
1 AAAGTTGTTAAACTTTTGCTTAAA-AAATTTTTAAGTTTATTTTTAAAAGTTGTTAAGCCTTTGC
* * *
19141993 TTA-AAGGAGCTTTTAAATTTATTTTCAAAAGTTGTGAAGCCATTGCTTAGAGAAGCTTTTAAAT
65 TTAGAA-GAGCTTTTAAATTTACTTTCAAAAGTTGTGAAGCCATTGCTTAAAGAAGATTTTAAAT
19142057 TTACTTTCA
129 TTACTTTCA
* * * *
19142066 AAAGTTGTTAAACCTTTGCTTAAAAAATTTTTAAATTTATTTTTAAAAGTTGTTGAG-TTGTTGC
1 AAAGTTGTTAAACTTTTGCTTAAAAAATTTTTAAGTTTATTTTTAAAAGTTGTTAAGCCT-TTGC
** * *
19142130 TTAGAAGAGCTTTTAAATTTACTTTCAAAAGTTGTGCGGCCTTTGCTTAAAGGAGATTTTAAATT
65 TTAGAAGAGCTTTTAAATTTACTTTCAAAAGTTGTGAAGCCATTGCTTAAAGAAGATTTTAAATT
*
19142195 TACTTTTA
130 TACTTTCA
* * * * * *
19142203 AAAGTTATTAAACTTTTGCTTAAAAGAGTTTGTAAGTTTATTTTAAAAAATT-ATAGAGCCTTTG
1 AAAGTTGTTAAACTTTTGCTTAAAA-AATTTTTAAGTTTATTTTTAAAAGTTGTTA-AGCCTTTG
19142267 CT
64 CT
19142269 AAGATAAGTT
Statistics
Matches: 173, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
136 1 0.01
137 119 0.69
138 52 0.30
139 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (137 bp):
AAAGTTGTTAAACTTTTGCTTAAAAAATTTTTAAGTTTATTTTTAAAAGTTGTTAAGCCTTTGCT
TAGAAGAGCTTTTAAATTTACTTTCAAAAGTTGTGAAGCCATTGCTTAAAGAAGATTTTAAATTT
ACTTTCA
Found at i:19142267 original size:46 final size:46
Alignment explanation
Indices: 19141935--19142268 Score: 209
Period size: 46 Copynumber: 7.3 Consensus size: 46
19141925 TTTAAAGTTG
* * * * * *
19141935 TTAAGCTTTTGCTTAAAGGA-ACTTTTAAGTTTATTTTTAAAAGTTG
1 TTAAGCCTTTGCTTAAAAGAGA-TTTTAAATTTACTTTTAAAAATTA
* * * *
19141981 TTAAGCCTTTGCTTAAAGGAGCTTTTAAATTTA-TTTTCAAAAGTTG
1 TTAAGCCTTTGCTTAAAAGAGATTTTAAATTTACTTTT-AAAAATTA
* * * * * * *
19142027 TGAAGCCATTGCTT-AGAGAAGCTTTTAAATTTACTTTCAAAAGTTG
1 TTAAGCCTTTGCTTAAAAG-AGATTTTAAATTTACTTTTAAAAATTA
* * * *
19142073 TTAAACCTTTGCTTAAAA-A-ATTTTTAAATTTATTTTTAAAAGTTG
1 TTAAGCCTTTGCTTAAAAGAGA-TTTTAAATTTACTTTTAAAAATTA
* * * * * * *
19142118 TTGAG-TTGTTGCTTAGAAGAGCTTTTAAATTTACTTTCAAAAGTTG
1 TTAAGCCT-TTGCTTAAAAGAGATTTTAAATTTACTTTTAAAAATTA
*** * *
19142164 TGCGGCCTTTGCTTAAAGGAGATTTTAAATTTACTTTTAAAAGTTA
1 TTAAGCCTTTGCTTAAAAGAGATTTTAAATTTACTTTTAAAAATTA
* * *
19142210 TTAAACTTTTGCTTAAAAGAG-TTTGTAAGTTTA-TTTTAAAAAATTA
1 TTAAGCCTTTGCTTAAAAGAGATTT-TAAATTTACTTTT-AAAAATTA
19142256 -TAGAGCCTTTGCT
1 TTA-AGCCTTTGCT
19142269 AAGATAAGTT
Statistics
Matches: 234, Mismatches: 41, Indels: 26
0.78 0.14 0.09
Matches are distributed among these distances:
44 1 0.00
45 50 0.21
46 177 0.76
47 6 0.03
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (46 bp):
TTAAGCCTTTGCTTAAAAGAGATTTTAAATTTACTTTTAAAAATTA
Found at i:19142346 original size:37 final size:36
Alignment explanation
Indices: 19142294--19142384 Score: 87
Period size: 37 Copynumber: 2.4 Consensus size: 36
19142284 TTTTTAATTT
19142294 AAAAAAATCCAAAAAAAAATTGAAATGAAAAGC-AAAAAA-
1 AAAAAAAT-C-AAAAAAAATT--AA-GAAAAGCTAAAAAAC
* *
19142333 AAAAAAATCAAAAATAATTAAGAAAATCTAAAAAAC
1 AAAAAAATCAAAAAAAATTAAGAAAAGCTAAAAAAC
*
19142369 AAAAAATTTCAAAAAA
1 AAAAAA-ATCAAAAAA
19142385 TAAAAACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 6 0.13
35 8 0.18
36 6 0.13
37 16 0.36
38 1 0.02
39 8 0.18
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.14
Consensus pattern (36 bp):
AAAAAAATCAAAAAAAATTAAGAAAAGCTAAAAAAC
Found at i:19144827 original size:15 final size:15
Alignment explanation
Indices: 19144788--19144892 Score: 68
Period size: 15 Copynumber: 6.9 Consensus size: 15
19144778 AAAAAAAAAA
19144788 AAAACC-TAAACCCT
1 AAAACCTTAAACCCT
* *
19144802 AAAATCATAAACCCT
1 AAAACCTTAAACCCT
* **
19144817 GAAACCTTAAACATT
1 AAAACCTTAAACCCT
* * *
19144832 TATACCTTAAATCCT
1 AAAACCTTAAACCCT
* * *
19144847 AAAACCCTAAATCTT
1 AAAACCTTAAACCCT
*
19144862 AAAACCATAAACCCTT
1 AAAACCTTAAACCC-T
19144878 ATGAAACCTTAAACC
1 A--AAACCTTAAACC
19144893 TTGAAATGCT
Statistics
Matches: 68, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
14 5 0.07
15 50 0.74
16 2 0.03
18 11 0.16
ACGTcount: A:0.47, C:0.28, G:0.02, T:0.24
Consensus pattern (15 bp):
AAAACCTTAAACCCT
Found at i:19147368 original size:145 final size:144
Alignment explanation
Indices: 19147189--19147601 Score: 490
Period size: 145 Copynumber: 2.8 Consensus size: 144
19147179 GGAGAAGTAC
* * *
19147189 AAAATTACCAAAATATCCC-TATAAATAATATTTTTGTAATTTGACTTTCTCAAGCTCAAATTAT
1 AAAA-TACCAAAATA-CCCTTAT-AAGAGTATTTTTGTAATTTGACTTTCTCAAGCTCGAATT-T
*
19147253 T-ATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGATGCATTTAAAATCATAG
62 TCATGAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATG-ATTTAAAATCATAG
*** *
19147317 TGGTA-CCCTAGAAATTATG
126 CAATACCCCGAGAAA-TATG
* *
19147336 AAAATACCAAAATGCCCTTATAAGAGTATTTTTGTAATTTGACTTTCTCAAGCTTGAATTTTCAT
1 AAAATACCAAAATACCCTTATAAGAGTATTTTTGTAATTTGACTTTCTCAAGCTCGAATTTTCAT
* * *
19147401 GAAACTTTTCAGATCTTAATTTCATAATATTTTATCATTTTTGATGTATTTGAAATCATAGCAAT
66 GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATG-ATTTAAAATCATAGCAAT
*
19147466 ACCCCGAGAAATGTG
130 ACCCCGAGAAATATG
* * * * * * *
19147481 AAATTACTAAAATACTCTTATAAGGGTATTTTCGTAATTTGACATTCTCAAGCTCGGATTTTCAT
1 AAAATACCAAAATACCCTTATAAGAGTATTTTTGTAATTTGACTTTCTCAAGCTCGAATTTTCAT
* * * * * * *
19147546 GAAACTTTTCAAATCTCAATTTTATAATATTTCAAGACTTTTGGTGTTTTAAAATC
66 GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATGATTTAAAATC
19147602 TGAAAAATGA
Statistics
Matches: 229, Mismatches: 34, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
144 10 0.04
145 195 0.85
146 20 0.09
147 4 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (144 bp):
AAAATACCAAAATACCCTTATAAGAGTATTTTTGTAATTTGACTTTCTCAAGCTCGAATTTTCAT
GAAACTTTTCAGATCTTAATTTCATAATATTTCATGATTTTTGATGATTTAAAATCATAGCAATA
CCCCGAGAAATATG
Found at i:19148945 original size:18 final size:18
Alignment explanation
Indices: 19148896--19148948 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
19148886 TATTCAATAC
19148896 AAAGTTTCATTTCTCTAA
1 AAAGTTTCATTTCTCTAA
**
19148914 AAAGTAACGA-TTCTCTAA
1 AAAGTTTC-ATTTCTCTAA
19148932 AAAGTTTCATTTCTCTA
1 AAAGTTTCATTTCTCTA
19148949 TTTTTCTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.40
Consensus pattern (18 bp):
AAAGTTTCATTTCTCTAA
Found at i:19150190 original size:10 final size:10
Alignment explanation
Indices: 19150175--19150200 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
19150165 AAAATTATTT
19150175 TTTTAATAAA
1 TTTTAATAAA
19150185 TTTTAATAAA
1 TTTTAATAAA
19150195 TTTTAA
1 TTTTAA
19150201 AATTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:19151589 original size:30 final size:30
Alignment explanation
Indices: 19151501--19151589 Score: 133
Period size: 30 Copynumber: 3.0 Consensus size: 30
19151491 CGTCTCATCT
* *
19151501 ACATCAATGGATAGTATATGCATCTCATCC
1 ACATCAATGGATAGTATATGCATCCCATTC
* *
19151531 ATATCAATGGATAGTATATGCATTCCATTC
1 ACATCAATGGATAGTATATGCATCCCATTC
*
19151561 ACATCAATGGATAGTACATGCATCCCATT
1 ACATCAATGGATAGTATATGCATCCCATT
19151590 TTATGCACAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (30 bp):
ACATCAATGGATAGTATATGCATCCCATTC
Found at i:19152786 original size:182 final size:182
Alignment explanation
Indices: 19152479--19152844 Score: 705
Period size: 182 Copynumber: 2.0 Consensus size: 182
19152469 GATGGAGTCA
19152479 CTTGGCTTCAAATAACCCTCACTACCATCCCAAGTTCAAACCTGCACTTAAATTCTTCTCATCAC
1 CTTGGCTTCAAATAACCCTCACTACCATCCCAAGTTCAAACCTGCACTTAAATTCTTCTCATCAC
19152544 TGTTTTCAATCTCCTTTCCAAGCACCTAAGACTAGGCTCCCAAACTTTATACAATCTTTGATAAG
66 TGTTTTCAATCTCCTTTCCAAGCACCTAAGACTAGGCTCCCAAACTTTATACAATCTTTGATAAG
19152609 TCAATATTTGAACCAAAATCTTCGACTTACTATTCCCTAACCACCTATTTAG
131 TCAATATTTGAACCAAAATCTTCGACTTACTATTCCCTAACCACCTATTTAG
*
19152661 CTTGGCTTCAAATAACCCTCACTACCATCCCAAGTTCCAACCTGCACTTAAATTCTTCTCATCAC
1 CTTGGCTTCAAATAACCCTCACTACCATCCCAAGTTCAAACCTGCACTTAAATTCTTCTCATCAC
*
19152726 TGTTTTCAATCTCCTTTCTAAGCACCTAAGACTAGGCTCCCAAACTTTATACAATCTTTGATAAG
66 TGTTTTCAATCTCCTTTCCAAGCACCTAAGACTAGGCTCCCAAACTTTATACAATCTTTGATAAG
*
19152791 TCAATATTTGAACCAAAATCTTTGACTTACTATTCCCTAACCACCTATTTAG
131 TCAATATTTGAACCAAAATCTTCGACTTACTATTCCCTAACCACCTATTTAG
19152843 CT
1 CT
19152845 AATTGCTCAA
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (182 bp):
CTTGGCTTCAAATAACCCTCACTACCATCCCAAGTTCAAACCTGCACTTAAATTCTTCTCATCAC
TGTTTTCAATCTCCTTTCCAAGCACCTAAGACTAGGCTCCCAAACTTTATACAATCTTTGATAAG
TCAATATTTGAACCAAAATCTTCGACTTACTATTCCCTAACCACCTATTTAG
Found at i:19156134 original size:17 final size:17
Alignment explanation
Indices: 19156109--19156142 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
19156099 TGAAAGGATG
19156109 CAAAAAAAAAAAAAAAC
1 CAAAAAAAAAAAAAAAC
19156126 CAAACAAAAAAAAAAAA
1 CAAA-AAAAAAAAAAAA
19156143 AAAAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAC
Found at i:19156163 original size:1 final size:1
Alignment explanation
Indices: 19156110--19156148 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
19156100 GAAAGGATGC
** *
19156110 AAAAAAAAAAAAAAACCAAACAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
19156149 TGAAATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:19156192 original size:15 final size:16
Alignment explanation
Indices: 19156144--19156193 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
19156134 AAAAAAAAAA
*
19156144 AAAAATGAAAT-AAGA
1 AAAAATGAAATGAAGG
*
19156159 AAAAATGAAAGGAAAGG
1 AAAAATGAAATG-AAGG
19156176 AAAAAT-AAATGAAGG
1 AAAAATGAAATGAAGG
19156191 AAA
1 AAA
19156194 GAAAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 17 0.57
16 4 0.13
17 9 0.30
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (16 bp):
AAAAATGAAATGAAGG
Found at i:19156218 original size:20 final size:20
Alignment explanation
Indices: 19156161--19156208 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
19156151 AAATAAGAAA
*
19156161 AAATGAAAGGAAAGGAAAAAT
1 AAATG-AAGGAAAGAAAAAAT
19156182 AAATGAAGGAAAGAAAAAAT
1 AAATGAAGGAAAGAAAAAAT
19156202 AAATGAA
1 AAATGAA
19156209 TGGGAGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (20 bp):
AAATGAAGGAAAGAAAAAAT
Found at i:19157408 original size:34 final size:34
Alignment explanation
Indices: 19157356--19157460 Score: 104
Period size: 34 Copynumber: 3.1 Consensus size: 34
19157346 AAGTCTACAT
* * *
19157356 AAAAATTTAAGCCTAGTTTATCTAG-CCTTCGATG
1 AAAATTTTAAGCCTAGTTTATCTAGCCCCT-AATG
* * * *
19157390 AAAATTTTAAACCCAGTTTTTTTAGCCCCTAATG
1 AAAATTTTAAGCCTAGTTTATCTAGCCCCTAATG
* * *
19157424 AAAATTTTAAGCCTAGTTTACCTAGCACTTAATG
1 AAAATTTTAAGCCTAGTTTATCTAGCCCCTAATG
19157458 AAA
1 AAA
19157461 GTTAATCCTA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
34 53 0.95
35 3 0.05
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (34 bp):
AAAATTTTAAGCCTAGTTTATCTAGCCCCTAATG
Found at i:19157713 original size:34 final size:34
Alignment explanation
Indices: 19157660--19158136 Score: 138
Period size: 34 Copynumber: 14.2 Consensus size: 34
19157650 GTCCATATTA
*
19157660 AAAATGTTAAGCCCT-GTTTATCTAGCCTTTGATG
1 AAAATTTTAAG-CCTAGTTTATCTAGCCTTTGATG
* *
19157694 AAAATTTTAAGCCTAGTTTACCTAACAC-TTGATG
1 AAAATTTTAAGCCTAGTTTATCTAGC-CTTTGATG
* * ** * * **
19157728 -AAA-GTTAAGAC-AACTTAGCT-GGCTTCCAGTG
1 AAAATTTTAAGCCTAGTTTATCTAGCCTTTGA-TG
*
19157759 AAAA-TTTAAACCTAGTTTATCTAG-CTTCTGAT-
1 AAAATTTTAAGCCTAGTTTATCTAGCCTT-TGATG
* * * * ** *
19157791 CAAA-GTTAAGCCCAGTTTATCTGGCCCCTAATG
1 AAAATTTTAAGCCTAGTTTATCTAGCCTTTGATG
* * * *
19157824 AAAATTTTAAGTCC-AATTTA-CTTTGTAC-TTGATA
1 AAAATTTTAAG-CCTAGTTTATC-TAG-CCTTTGATG
* * **
19157858 AAAATTTTAAGCCTAGTTTATTTGGCCCATGATG
1 AAAATTTTAAGCCTAGTTTATCTAGCCTTTGATG
*
19157892 AAAATTTTAAG-CTCAGTTTACCTAGCAC-TTGATG
1 AAAATTTTAAGCCT-AGTTTATCTAGC-CTTTGATG
* * * **
19157926 AAAATTTTAAAACCTAGCTTAGT-T-G-GTTCCCA-G
1 AAAATTTT-AAGCCTAGTTTA-TCTAGCCTT-TGATG
* * * * * * * *
19157959 TAAAAATTGAAGCCCAATTTATTTGGTCTTTGACG
1 -AAAATTTTAAGCCTAGTTTATCTAGCCTTTGATG
* * *
19157994 AAAA-TTTAAGCC-AGTTTATTTGGCCTTTGATA
1 AAAATTTTAAGCCTAGTTTATCTAGCCTTTGATG
** *
19158026 AAAATTTTAAGCCCTA-TTTATCTATTCTCTGATG
1 AAAATTTTAAG-CCTAGTTTATCTAGCCTTTGATG
* * *
19158060 AAAATTTTAATCCCAGTTT-TACCAGACAC-TTGATG
1 AAAATTTTAAGCCTAGTTTAT-CTAG-C-CTTTGATG
* * * *
19158095 AAAATTTTAAAGCCTAGTTTATTTGGCCCTTGATA
1 AAAATTTT-AAGCCTAGTTTATCTAGCCTTTGATG
19158130 AAAATTT
1 AAAATTT
19158137 AAACTCAATT
Statistics
Matches: 320, Mismatches: 84, Indels: 77
0.67 0.17 0.16
Matches are distributed among these distances:
29 1 0.00
30 2 0.01
31 8 0.03
32 57 0.18
33 54 0.17
34 141 0.44
35 43 0.13
36 13 0.04
37 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (34 bp):
AAAATTTTAAGCCTAGTTTATCTAGCCTTTGATG
Found at i:19157878 original size:68 final size:68
Alignment explanation
Indices: 19157796--19157935 Score: 183
Period size: 68 Copynumber: 2.1 Consensus size: 68
19157786 CTGATCAAAG
* * * *
19157796 TTAAGCCCAGTTTATCTGGCCCCTAATGAAAATTTTAAG-TCCAATTTACTTTGTACTTGATAAA
1 TTAAGCCCAGTTTATCTGGCCCATAATGAAAATTTTAAGCT-CAATTTACCTAGCACTTGATAAA
19157860 AATT
65 AATT
* * * * *
19157864 TTAAGCCTAGTTTATTTGGCCCATGATGAAAATTTTAAGCTCAGTTTACCTAGCACTTGATGAAA
1 TTAAGCCCAGTTTATCTGGCCCATAATGAAAATTTTAAGCTCAATTTACCTAGCACTTGATAAAA
19157929 ATT
66 ATT
19157932 TTAA
1 TTAA
19157936 AACCTAGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 61 0.98
69 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (68 bp):
TTAAGCCCAGTTTATCTGGCCCATAATGAAAATTTTAAGCTCAATTTACCTAGCACTTGATAAAA
ATT
Found at i:19157998 original size:33 final size:33
Alignment explanation
Indices: 19157960--19158046 Score: 104
Period size: 32 Copynumber: 2.6 Consensus size: 33
19157950 GGTTCCCAGT
* *
19157960 AAAAATTGAAGCCCAATTTATTTGGTCTTTGAC
1 AAAAATTTAAGCCCAATTTATTTGGCCTTTGAC
* * *
19157993 GAAAATTTAAG-CCAGTTTATTTGGCCTTTGAT
1 AAAAATTTAAGCCCAATTTATTTGGCCTTTGAC
*
19158025 AAAAATTTTAAGCCCTATTTAT
1 AAAAA-TTTAAGCCCAATTTAT
19158047 CTATTCTCTG
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
32 22 0.50
33 15 0.34
34 7 0.16
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (33 bp):
AAAAATTTAAGCCCAATTTATTTGGCCTTTGAC
Found at i:19158240 original size:34 final size:33
Alignment explanation
Indices: 19157796--19158250 Score: 162
Period size: 34 Copynumber: 13.4 Consensus size: 33
19157786 CTGATCAAAG
* * *
19157796 TTAAGCCCAGTTTA-TCTGGCCCCTAATGAAAATT
1 TTAAGCCCAGTTTACT-TGGCACTTGAT-AAAATT
* * * *
19157830 TTAAGTCCAATTTACTTTGTACTTGATAAAAATT
1 TTAAGCCCAGTTTACTTGGCACTTGAT-AAAATT
* * * *
19157864 TTAAGCCTAGTTTATTTGGCCCATGATGAAAATT
1 TTAAGCCCAGTTTACTTGGCACTTGAT-AAAATT
* * *
19157898 TTAAGCTCAGTTTACCTAGCACTTGATGAAAATT
1 TTAAGCCCAGTTTACTTGGCACTTGAT-AAAATT
* * * * ** *
19157932 TTAAAACCTAGCTTAGTTGGTTC-CCAG-TAAAAAT
1 TT-AAGCCCAGTTTACTTGG--CACTTGATAAAATT
* * * * *
19157966 TGAAGCCCAATTTATTTGGTC-TTTGACGAAAA-T
1 TTAAGCCCAGTTTACTTGG-CACTTGA-TAAAATT
*
19157999 TTAAG-CCAGTTTATTTGGC-CTTTGATAAAAATT
1 TTAAGCCCAGTTTACTTGGCAC-TTGAT-AAAATT
* *
19158032 TTAAGCCCTA-TTTATCTAT-TCTC-TGATGAAAATT
1 TTAAGCCC-AGTTTA-CT-TGGCACTTGAT-AAAATT
* ** *
19158066 TTAATCCCAGTTTTACCAGACACTTGATGAAAATT
1 TTAAGCCCAG-TTTACTTGGCACTTGAT-AAAATT
* * * *
19158101 TTAAAGCCTAGTTTATTTGGCCCTTGATAAAAAT
1 TT-AAGCCCAGTTTACTTGGCACTTGATAAAATT
* * * * **
19158135 TTAAACTCAATTTACTTGTCACCCGATAAAGATT
1 TTAAGCCCAGTTTACTTGGCACTTGATAAA-ATT
* * * * *
19158169 TTAAAGCCTAGCTTAAC-TAGCTCCT-AGTGAAAA-T
1 TT-AAGCCCAG-TTTACTTGGCACTTGA-T-AAAATT
19158203 TTAAGCCCAGTTTACTTGGCACTTGATAAAGATT
1 TTAAGCCCAGTTTACTTGGCACTTGATAAA-ATT
19158237 TTAAGCCCAGTTTA
1 TTAAGCCCAGTTTA
19158251 TTAATTAAAA
Statistics
Matches: 305, Mismatches: 88, Indels: 56
0.68 0.20 0.12
Matches are distributed among these distances:
31 1 0.00
32 30 0.10
33 57 0.19
34 145 0.48
35 54 0.18
36 17 0.06
37 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (33 bp):
TTAAGCCCAGTTTACTTGGCACTTGATAAAATT
Found at i:19159267 original size:105 final size:105
Alignment explanation
Indices: 19159096--19159438 Score: 391
Period size: 105 Copynumber: 3.3 Consensus size: 105
19159086 ACCTTCGGGC
* * * * *
19159096 AAAACATTTTAAGTTTTTAAAGTTTCAATGCCTCTTATTGGGATGAGCATCCAAAGATGTCCAGA
1 AAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTTATTGGGAAGAGTATTCAAAGATGTCAAGA
* * *
19159161 TTTGTATGACCTTCGGGCATAATCTTTAAGACATCTGGGT
66 TTTGTAAGACCTTCGGGCATAATCTCTAAGACATCTAGGT
* *
19159201 AAACCATTTTAAATTTTTAAAGTTTCAATGCCTTTTATTGGGAAGAGTATTCAAAGATGTCAAGA
1 AAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTTATTGGGAAGAGTATTCAAAGATGTCAAGA
* * * * * *
19159266 TTTGTAAGGCC-TCTGGACATAATCTCCAAGTCTTCTAGGC
66 TTTGTAAGACCTTC-GGGCATAATCTCTAAGACATCTAGGT
* ** * ** * **
19159306 AAAACATTTTAAATTTTTAAAGTTTTAATGCCTCGAATTAGGAAGAGTATTCATGGATTTTGAGA
1 AAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTTATTGGGAAGAGTATTCAAAGATGTCAAGA
* * * * *
19159371 TTTGTAAGACATTTGGGCATAAACTCTAAGACCTATAGGT
66 TTTGTAAGACCTTCGGGCATAATCTCTAAGACATCTAGGT
*
19159411 AAAACATTTTAAATTTTCAAAGTTTCAA
1 AAAACATTTTAAATTTTTAAAGTTTCAA
19159439 AGCCACTATT
Statistics
Matches: 197, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
104 2 0.01
105 194 0.98
106 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (105 bp):
AAAACATTTTAAATTTTTAAAGTTTCAATGCCTCTTATTGGGAAGAGTATTCAAAGATGTCAAGA
TTTGTAAGACCTTCGGGCATAATCTCTAAGACATCTAGGT
Found at i:19159488 original size:37 final size:37
Alignment explanation
Indices: 19159423--19159557 Score: 155
Period size: 37 Copynumber: 3.6 Consensus size: 37
19159413 AACATTTTAA
**
19159423 ATTTTCAAAGTTTCAAAGCCACTATTTGGGGGGAGCT
1 ATTTTCAAAGTTTCAAAGCCTTTATTTGGGGGGAGCT
* * *
19159460 ATTTTCAAAGTTTTAAATCCTTTGTTTGGGGGGAGCCATT
1 ATTTTCAAAGTTTCAAAGCCTTTATTTGGGGGGAG-C--T
* * *
19159500 TTTTTTAAAGTTTCAAAGCCTTTATTTGAGGGGAG-T
1 ATTTTCAAAGTTTCAAAGCCTTTATTTGGGGGGAGCT
19159536 CATTTTCAAAGTTTCAAAGCCT
1 -ATTTTCAAAGTTTCAAAGCCT
19159558 CTGCTTAGGG
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
36 1 0.01
37 49 0.60
38 1 0.01
40 30 0.37
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (37 bp):
ATTTTCAAAGTTTCAAAGCCTTTATTTGGGGGGAGCT
Found at i:19159578 original size:37 final size:38
Alignment explanation
Indices: 19159422--19159583 Score: 132
Period size: 37 Copynumber: 4.3 Consensus size: 38
19159412 AAACATTTTA
* * *
19159422 AATTTTCAAAGTTTCAAAGCCACTATTTG-GGGGGAGC
1 AATTTTCAAAGTTTCAAAGCCTCTATTTGAGGGGAACC
* * * * * * *
19159459 TATTTTCAAAGTTTTAAATCCTTTGTTTGGGGGGAGCC
1 AATTTTCAAAGTTTCAAAGCCTCTATTTGAGGGGAACC
* * * **
19159497 ATTTTTTTTAAAGTTTCAAAGCCTTTATTTGAGGGGAGTC
1 A--ATTTTCAAAGTTTCAAAGCCTCTATTTGAGGGGAACC
**
19159537 -ATTTTCAAAGTTTCAAAGCCTCTGCTT-AGGGGAACC
1 AATTTTCAAAGTTTCAAAGCCTCTATTTGAGGGGAACC
19159573 AATTTTCAAAG
1 AATTTTCAAAG
19159584 AAGTTAAAAA
Statistics
Matches: 97, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
36 7 0.07
37 55 0.57
38 5 0.05
40 30 0.31
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (38 bp):
AATTTTCAAAGTTTCAAAGCCTCTATTTGAGGGGAACC
Found at i:19159578 original size:77 final size:77
Alignment explanation
Indices: 19159424--19159578 Score: 188
Period size: 77 Copynumber: 2.0 Consensus size: 77
19159414 ACATTTTAAA
* * * * * *
19159424 TTTTCAAAGTTTCAAAGCCACTATTTGGGGGGAGCTATTTTCAAAGTTTTAAATCCTTTGTTTGG
1 TTTTCAAAGTTTCAAAGCCACTATTTGAGGGGAGCTATTTTCAAAGTTTCAAAGCCTCTGCTTGA
*
19159489 GGGGAGCCATTT
66 GGGGAACCATTT
* **
19159501 TTTTTAAAGTTTCAAAGCCTTTATTTGAGGGGAG-TCATTTTCAAAGTTTCAAAGCCTCTGCTT-
1 TTTTCAAAGTTTCAAAGCCACTATTTGAGGGGAGCT-ATTTTCAAAGTTTCAAAGCCTCTGCTTG
*
19159564 AGGGGAACCAATT
65 AGGGGAACCATTT
19159577 TT
1 TT
19159579 CAAAGAAGTT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 13 0.20
77 53 0.80
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (77 bp):
TTTTCAAAGTTTCAAAGCCACTATTTGAGGGGAGCTATTTTCAAAGTTTCAAAGCCTCTGCTTGA
GGGGAACCATTT
Found at i:19160256 original size:145 final size:143
Alignment explanation
Indices: 19160040--19160435 Score: 505
Period size: 144 Copynumber: 2.7 Consensus size: 143
19160030 AAAAAGTACA
* * *
19160040 AAATTACCAAAATA-TCCCTATAAAAGATATTTTTGTAATTTTACCTTTTCAAGCTCAGA-TTTC
1 AAATTACCAAAATACT-CCTAT-AAAGGTATTTTTGTAATTTAACCTTTTC-GGCTCAGATTTTC
* * *
19160103 ATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGTATTTGAAATTATAGCC
63 ATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTT-GTGTAATTGAAATCATAGCA
*
19160168 GTACCCT-AAGAAGTGTG
127 GTACCCTGAA-AAATGTG
*
19160185 AAATTACCCAAATACTCCTATAAAGGTATTTTTGTAATTTAACCTTTTCGGCCTC-GAATTTTCA
1 AAATTACCAAAATACTCCTATAAAGGTATTTTTGTAATTTAACCTTTTCGG-CTCAG-ATTTTCA
* * * *
19160249 TGAAACTTTTCAGCTCTTAATTTCATAATATTTCATGATTTTTGTGTAATTGAAATCATGGCAGT
64 TGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGTGTAATTGAAATCATAGCAGT
*
19160314 ACCTTGAAAAATGTG
129 ACCCTGAAAAATGTG
* * * *
19160329 AAATTACCAAAATACCCCTAT-AAGTGTATTTTAGTAATTTGACCTTCTCGAGCTCAGATTTTCA
1 AAATTACCAAAATACTCCTATAAAG-GTATTTTTGTAATTTAACCTTTTCG-GCTCAGATTTTCA
* *
19160393 TGAAACTTTCTAGATCTTAATTTTATAATATTTCATAATTTTT
64 TGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTT
19160436 ATTGTTTTAA
Statistics
Matches: 220, Mismatches: 23, Indels: 17
0.85 0.09 0.07
Matches are distributed among these distances:
143 5 0.02
144 147 0.67
145 67 0.30
146 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (143 bp):
AAATTACCAAAATACTCCTATAAAGGTATTTTTGTAATTTAACCTTTTCGGCTCAGATTTTCATG
AAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGTGTAATTGAAATCATAGCAGTAC
CCTGAAAAATGTG
Found at i:19160875 original size:13 final size:13
Alignment explanation
Indices: 19160857--19160899 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
19160847 TAAAGAGGTG
19160857 AAGAAGAAAGAGA
1 AAGAAGAAAGAGA
19160870 AAGAAGAAAGAGA
1 AAGAAGAAAGAGA
*
19160883 AAGAAGAAAGAAA
1 AAGAAGAAAGAGA
19160896 AAGA
1 AAGA
19160900 GAGGGACTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAGA
Found at i:19160877 original size:7 final size:7
Alignment explanation
Indices: 19160857--19160899 Score: 65
Period size: 6 Copynumber: 6.6 Consensus size: 7
19160847 TAAAGAGGTG
19160857 AAGAAGA
1 AAGAAGA
19160864 AAG-AGA
1 AAGAAGA
19160870 AAGAAGA
1 AAGAAGA
19160877 AAG-AGA
1 AAGAAGA
19160883 AAGAAGA
1 AAGAAGA
19160890 AAGAA-A
1 AAGAAGA
19160896 AAGA
1 AAGA
19160900 GAGGGACTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.50
7 17 0.50
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGAAGA
Found at i:19160885 original size:19 final size:19
Alignment explanation
Indices: 19160861--19160901 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
19160851 GAGGTGAAGA
19160861 AGAAAG-AGAAAGAAGAAAG
1 AGAAAGAAGAAAGAA-AAAG
19160880 AGAAAGAAGAAAGAAAAAG
1 AGAAAGAAGAAAGAAAAAG
19160899 AGA
1 AGA
19160902 GGGACTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (19 bp):
AGAAAGAAGAAAGAAAAAG
Found at i:19162548 original size:34 final size:34
Alignment explanation
Indices: 19162509--19162576 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
19162499 ATCTTTAGGC
19162509 AAGAAAATCTATCTAAAATGCCACCAATGTATTG
1 AAGAAAATCTATCTAAAATGCCACCAATGTATTG
19162543 AAGAAAATCTATCTAAAATGCCACCAATGTATTG
1 AAGAAAATCTATCTAAAATGCCACCAATGTATTG
19162577 GAGCATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (34 bp):
AAGAAAATCTATCTAAAATGCCACCAATGTATTG
Found at i:19165080 original size:17 final size:17
Alignment explanation
Indices: 19165058--19165102 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
19165048 TCTGGCTATA
**
19165058 AGGCTTTTGAGACGGTG
1 AGGCTTTTGAGACAATG
* *
19165075 AGGCTTTTAAGATAATG
1 AGGCTTTTGAGACAATG
19165092 AGGCTTTTGAG
1 AGGCTTTTGAG
19165103 GTTGGCTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (17 bp):
AGGCTTTTGAGACAATG
Found at i:19170443 original size:7 final size:7
Alignment explanation
Indices: 19170413--19170538 Score: 83
Period size: 7 Copynumber: 17.4 Consensus size: 7
19170403 AATGGTTGGT
19170413 TTTAGGG
1 TTTAGGG
*
19170420 TTCA-GG
1 TTTAGGG
**
19170426 TTTAGTA
1 TTTAGGG
19170433 TTTAGGG
1 TTTAGGG
**
19170440 TTTAAGAT
1 TTT-AGGG
*
19170448 TTTAGAGT
1 TTTAG-GG
*
19170456 TTTTAGTG
1 T-TTAGGG
19170464 TTTAGGG
1 TTTAGGG
*
19170471 TTTATGG
1 TTTAGGG
*
19170478 TTTAAGG
1 TTTAGGG
*
19170485 TTGAGGG
1 TTTAGGG
19170492 TTTAGGG
1 TTTAGGG
*
19170499 TTTTAGGA
1 -TTTAGGG
*
19170507 TTTAGAGT
1 TTTAG-GG
*
19170515 TTTAAGG
1 TTTAGGG
19170522 TTTAGGG
1 TTTAGGG
19170529 TTTAGGG
1 TTTAGGG
19170536 TTT
1 TTT
19170539 GTTGTCAAGG
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
6 5 0.05
7 63 0.69
8 19 0.21
9 4 0.04
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:19170516 original size:15 final size:15
Alignment explanation
Indices: 19170433--19170531 Score: 71
Period size: 15 Copynumber: 6.7 Consensus size: 15
19170423 AGGTTTAGTA
*
19170433 TTTAGGG-TTTAAGAT
1 TTTAGGGTTTTAAG-G
* *
19170448 TTTAGAGTTTTTAGTG
1 TTTAGGGTTTTAAG-G
*
19170464 TTTAGGG-TTTATGG
1 TTTAGGGTTTTAAGG
* * *
19170478 TTTAAGG-TTGAGGG
1 TTTAGGGTTTTAAGG
19170492 TTTAGGGTTTT-AGG
1 TTTAGGGTTTTAAGG
*
19170506 ATTTAGAGTTTTAAGG
1 -TTTAGGGTTTTAAGG
19170522 TTTAGGGTTT
1 TTTAGGGTTT
19170532 AGGGTTTGTT
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
14 20 0.31
15 31 0.48
16 14 0.22
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.48
Consensus pattern (15 bp):
TTTAGGGTTTTAAGG
Found at i:19172567 original size:20 final size:20
Alignment explanation
Indices: 19172542--19172587 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
19172532 TTTTATTCAT
19172542 TTTGAC-CAATTGTGATCAAG
1 TTTGACTCAATT-TGATCAAG
**
19172562 TTTGACTTTATTTGATCAAG
1 TTTGACTCAATTTGATCAAG
19172582 TTTGAC
1 TTTGAC
19172588 ATTGGGGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTGACTCAATTTGATCAAG
Found at i:19172838 original size:15 final size:14
Alignment explanation
Indices: 19172817--19172850 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
19172807 GCTGAGGCGG
19172817 TTTTGTTTGTGTGT
1 TTTTGTTTGTGTGT
*
19172831 TGTTTGTTTGTTTGT
1 T-TTTGTTTGTGTGT
19172846 TTTTG
1 TTTTG
19172851 CATGTTAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (14 bp):
TTTTGTTTGTGTGT
Found at i:19172965 original size:50 final size:49
Alignment explanation
Indices: 19172907--19173109 Score: 200
Period size: 49 Copynumber: 4.1 Consensus size: 49
19172897 CACCAAACTT
* * * *
19172907 TTTTTTTTTTGAACAA-GCCTCATACGAAGATAGACAACAAACTTTAAAA
1 TTTTCTTTTTGAA-AAGGCCTCATATGAAAATAGGCAACAAACTTTAAAA
* * *
19172956 TTTTCTTTTTGAAAAGGCCTTATATGAAAATAGGCAATAAAATTTTAAAA
1 TTTTCTTTTTGAAAAGGCCTCATATGAAAATAGGCAA-CAAACTTTAAAA
* * * *
19173006 ATTTCTTTTTGAAAAGGACTCTTATGAAAAT-GGCAACAAACTTT-ACA
1 TTTTCTTTTTGAAAAGGCCTCATATGAAAATAGGCAACAAACTTTAAAA
* * *
19173053 TATTTCTTCTTGAAAAGTG-CTCTTATG-AAATAGCCAACAAACTTTTAAAA
1 T-TTTCTTTTTGAAAAG-GCCTCATATGAAAATAGGCAACAAAC-TTTAAAA
19173103 TTTTCTT
1 TTTTCTT
19173110 CTATGAAAGG
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
47 6 0.05
48 39 0.30
49 44 0.34
50 40 0.31
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (49 bp):
TTTTCTTTTTGAAAAGGCCTCATATGAAAATAGGCAACAAACTTTAAAA
Found at i:19173076 original size:48 final size:47
Alignment explanation
Indices: 19172912--19173105 Score: 187
Period size: 48 Copynumber: 4.0 Consensus size: 47
19172902 AACTTTTTTT
* * * * *
19172912 TTTTTGAACAAGCCTCATACGAAGATAGACAACAAACTTTAAAATTTTC
1 TTTTTGAA-AAGGCTCTTATGAAAATAGGCAACAAACTTTAAAA-TTTC
* *
19172961 TTTTTGAAAAGGC-CTTATATGAAAATAGGCAATAAAATTTTAAAAATTTC
1 TTTTTGAAAAGGCTC-T-TATGAAAATAGGCAA-CAAACTTT-AAAATTTC
*
19173011 TTTTTGAAAAGGACTCTTATGAAAAT-GGCAACAAACTTTACATATTTC
1 TTTTTGAAAAGG-CTCTTATGAAAATAGGCAACAAACTTTA-AAATTTC
* *
19173059 TTCTTGAAAAGTGCTCTTATG-AAATAGCCAACAAACTTTTAAAATTT
1 TTTTTGAAAAG-GCTCTTATGAAAATAGGCAACAAAC-TTTAAAATTT
19173106 TCTTCTATGA
Statistics
Matches: 122, Mismatches: 13, Indels: 21
0.78 0.08 0.13
Matches are distributed among these distances:
47 6 0.05
48 48 0.39
49 30 0.25
50 31 0.25
51 6 0.05
52 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (47 bp):
TTTTTGAAAAGGCTCTTATGAAAATAGGCAACAAACTTTAAAATTTC
Found at i:19173117 original size:98 final size:98
Alignment explanation
Indices: 19172941--19173117 Score: 227
Period size: 98 Copynumber: 1.8 Consensus size: 98
19172931 CGAAGATAGA
* * *
19172941 CAACAAACTTTAAAATTTTCTTTTTGAAAAGGCCTTATATGAAAATAGGCAATAAAATTTTAAAA
1 CAACAAACTTTAAAATTTTCTTCTTGAAAAGGCCTTATATGAAAATAGCCAACAAAATTTTAAAA
*
19173006 ATTTCTTTTTGAAAAGGACTCTTATGAAAATGG
66 ATTTCTTTATGAAAAGGACTCTTATGAAAATGG
* *
19173039 CAACAAACTTT-ACATATTTCTTCTTGAAAAGTG-CTCT-TATG-AAATAGCCAACAAACTTTTA
1 CAACAAACTTTAAAAT-TTTCTTCTTGAAAAG-GCCT-TATATGAAAATAGCCAACAAAATTTTA
*
19173100 AAATTTTCTTCTATGAAA
63 AAAATTTCTT-TATGAAA
19173118 GGGTTTGAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
97 29 0.43
98 37 0.54
99 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (98 bp):
CAACAAACTTTAAAATTTTCTTCTTGAAAAGGCCTTATATGAAAATAGCCAACAAAATTTTAAAA
ATTTCTTTATGAAAAGGACTCTTATGAAAATGG
Found at i:19174452 original size:16 final size:15
Alignment explanation
Indices: 19174433--19174463 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
19174423 ACCTAGATCC
19174433 TTTTTCTTTTCTTTTT
1 TTTTTCTTTT-TTTTT
19174449 TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTTTT
19174464 CGTTTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTCTTTTTTTTT
Found at i:19184536 original size:20 final size:20
Alignment explanation
Indices: 19184511--19184569 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
19184501 AAGTTTTTTT
*
19184511 TAATTTTGACTTTATTTGAC
1 TAATTTTGACATTATTTGAC
* *
19184531 TAATTTTAACCTTA-TTGAC
1 TAATTTTGACATTATTTGAC
* * *
19184550 CAAGTTTGACAATATTTGAC
1 TAATTTTGACATTATTTGAC
19184570 CCGAGTTGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.46
Consensus pattern (20 bp):
TAATTTTGACATTATTTGAC
Found at i:19184871 original size:6 final size:6
Alignment explanation
Indices: 19184860--19184944 Score: 86
Period size: 6 Copynumber: 13.8 Consensus size: 6
19184850 TTCATTTCTT
* *
19184860 TTTTTG TTTTTG TTTTTG TTTTTA TTTTTG TTGCTTTTG TTTTT- TTTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG -T--TTTTG TTTTTG TTTTTG
19184910 TGTTTTG TTTTTG -TTTTG TTGTTTG TTTTT- TTTTT
1 T-TTTTG TTTTTG TTTTTG TT-TTTG TTTTTG TTTTT
19184945 ATTGGGAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
5 15 0.22
6 36 0.52
7 12 0.17
8 1 0.01
9 5 0.07
ACGTcount: A:0.01, C:0.01, G:0.14, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:19184898 original size:33 final size:30
Alignment explanation
Indices: 19184853--19184947 Score: 106
Period size: 31 Copynumber: 3.1 Consensus size: 30
19184843 CCCTTCCTTC
*
19184853 ATTTCTTT-TTTTGTTTTTGTTTTTGTTTTT
1 ATTTTTTTGTTTTGTTTTTGTTTTT-TTTTT
19184883 ATTTTTGTTGCTTTTGTTTTT-TTTTTTTGTTT
1 ATTTTT-TTG-TTTTGTTTTTGTTTTTTT-TTT
*
19184915 -TGTTTTTGTTTTGTTGTTTGTTTTTTTTTT
1 ATTTTTTTGTTTTGTT-TTTGTTTTTTTTTT
19184945 ATT
1 ATT
19184948 GGGAAAATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
29 7 0.13
30 14 0.25
31 16 0.29
32 8 0.15
33 10 0.18
ACGTcount: A:0.03, C:0.02, G:0.13, T:0.82
Consensus pattern (30 bp):
ATTTTTTTGTTTTGTTTTTGTTTTTTTTTT
Found at i:19185237 original size:35 final size:35
Alignment explanation
Indices: 19185095--19185279 Score: 99
Period size: 35 Copynumber: 5.2 Consensus size: 35
19185085 AATAGTCAGG
* * * * * *
19185095 AAAATAAATATGACCAGGACAGCACCCTAGGTTAG
1 AAAATAAAAATGACTAGGACAACACCATAGGTAAA
* * * ** *
19185130 AAAATAAAAATGA-TCAAGATAATACCATAAATCAA
1 AAAATAAAAATGACT-AGGACAACACCATAGGTAAA
* * * ** *
19185165 AAAATAAAAATGA-TCGAAACACCACCGCAAGTCAAA
1 AAAATAAAAATGACTAG-GACAACACCATAGGT-AAA
19185201 AAAATAAAAATGACTAGGACAACACCATAGGTAAA
1 AAAATAAAAATGACTAGGACAACACCATAGGTAAA
* * *
19185236 AAAATAAATATGAC-GGGATAACACCA-ATGGTTGAAA
1 AAAATAAAAATGACTAGGACAACACCATA-GG-T-AAA
19185272 AAAATAAA
1 AAAATAAA
19185280 TACGATGGGG
Statistics
Matches: 113, Mismatches: 30, Indels: 13
0.72 0.19 0.08
Matches are distributed among these distances:
33 1 0.01
34 12 0.11
35 62 0.55
36 36 0.32
37 2 0.02
ACGTcount: A:0.55, C:0.15, G:0.14, T:0.16
Consensus pattern (35 bp):
AAAATAAAAATGACTAGGACAACACCATAGGTAAA
Found at i:19185280 original size:36 final size:35
Alignment explanation
Indices: 19185198--19185496 Score: 117
Period size: 36 Copynumber: 8.4 Consensus size: 35
19185188 ACCGCAAGTC
*
19185198 AAAAAAATAAAAATGACTAGGACAACACCATAGGT
1 AAAAAAATAAATATGACTAGGACAACACCATAGGT
* *
19185233 AAAAAAATAAATATGAC-GGGATAACACCA-ATGGTT
1 AAAAAAATAAATATGACTAGGACAACACCATA-GG-T
* * * * * *
19185268 GAAAAAAATAAATACGA-TGGGGATAGCATCGTAGGT
1 -AAAAAAATAAATATGACT-AGGACAACACCATAGGT
* * * * *
19185304 CAAAAAATAAATATGACCAAGACAACACCAACAGTT
1 AAAAAAATAAATATGACTAGGACAACACC-ATAGGT
** * * *
19185340 AGGAAAACAAATATGACCAGGACAACATTGCA-A-GT
1 AAAAAAATAAATATGACTAGGACAACA--CCATAGGT
** * * ***
19185375 TGAAAAATAAAAATGAC-GGAGACAACATTGTAGGTT
1 AAAAAAATAAATATGACTAG-GACAACACCATAGG-T
* * ** * * *
19185411 GAAAAAAATAAAGATGACAAAAAAAACACCGTAAGT
1 -AAAAAAATAAATATGACTAGGACAACACCATAGGT
* *
19185447 CAAAAAAATAAATATGATTAGGGCAACACCA-ATGGTT
1 -AAAAAAATAAATATGACTAGGACAACACCATA-GG-T
19185484 AAAAAAATAAATA
1 AAAAAAATAAATA
19185497 GTAAGGTTTC
Statistics
Matches: 193, Mismatches: 53, Indels: 35
0.69 0.19 0.12
Matches are distributed among these distances:
33 1 0.01
34 14 0.07
35 60 0.31
36 80 0.41
37 36 0.19
38 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.17, T:0.17
Consensus pattern (35 bp):
AAAAAAATAAATATGACTAGGACAACACCATAGGT
Found at i:19201058 original size:46 final size:46
Alignment explanation
Indices: 19201005--19201102 Score: 187
Period size: 46 Copynumber: 2.1 Consensus size: 46
19200995 TTAATTAGAG
*
19201005 GCTAGGAAGGCTGAGCTTAACTATGACCATGACCTTTATTCCAAAA
1 GCTAGGAAGGCTAAGCTTAACTATGACCATGACCTTTATTCCAAAA
19201051 GCTAGGAAGGCTAAGCTTAACTATGACCATGACCTTTATTCCAAAA
1 GCTAGGAAGGCTAAGCTTAACTATGACCATGACCTTTATTCCAAAA
19201097 GCTAGG
1 GCTAGG
19201103 TGGAAAAGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (46 bp):
GCTAGGAAGGCTAAGCTTAACTATGACCATGACCTTTATTCCAAAA
Found at i:19202210 original size:36 final size:36
Alignment explanation
Indices: 19202169--19202241 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
19202159 TTTTTTATTA
*
19202169 ACTTGCTCGACTGCAAGCTATGAG-TCATTATATACT
1 ACTTGCTCGACTGCAAGCTACGAGCT-ATTATATACT
*
19202205 ACTTGCTCGACTGCAAGCTACGAGCTATTATGTACT
1 ACTTGCTCGACTGCAAGCTACGAGCTATTATATACT
19202241 A
1 A
19202242 GGAGACCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (36 bp):
ACTTGCTCGACTGCAAGCTACGAGCTATTATATACT
Found at i:19208059 original size:70 final size:65
Alignment explanation
Indices: 19207905--19208078 Score: 181
Period size: 66 Copynumber: 2.6 Consensus size: 65
19207895 ATTTTTCAGT
* * * * * * *
19207905 ATTATTTTTTAAATTTATAAA-ATCTTTCAATATGTTGATAAGA-TATTATGAATTTATTTTCAA
1 ATTATTTTTTAAACTCATAAAGTTCTTT-AATATTTTGGTAAGACT-TTATAAATCTATTTTCAA
19207968 AA
64 AA
* * *
19207970 ATTATTTTTTAAACTCATAAATTTTTTTTCATATTTTGGTAAGACTTTATAAATCTATTTTCAAA
1 ATTATTTTTTAAACTCATAAA-GTTCTTTAATATTTTGGTAAGACTTTATAAATCTATTTTCAAA
19208035 TA
65 -A
19208037 ATATATTTTTTTAAAACTCATAAAGTTCTTTAATATTTTGGT
1 AT-TA-TTTTTT-AAACTCATAAAGTTCTTTAATATTTTGGT
19208079 TTTAGTTTAT
Statistics
Matches: 90, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
65 19 0.21
66 29 0.32
67 8 0.09
68 2 0.02
69 21 0.23
70 11 0.12
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (65 bp):
ATTATTTTTTAAACTCATAAAGTTCTTTAATATTTTGGTAAGACTTTATAAATCTATTTTCAAAA
Found at i:19208088 original size:69 final size:68
Alignment explanation
Indices: 19207927--19208113 Score: 186
Period size: 69 Copynumber: 2.8 Consensus size: 68
19207917 ATTTATAAAA
* *
19207927 TCTTTCAATATGTTGATAAGA-TATTATGAATTTATTTTCAAAAAT-TA-TTTTTTAAACTCATA
1 TCTTT-AATATTTTGGTAAGACT-TTATGAATTTATTTTCAAAAATATATTTTTTTAAACTCATA
*
19207989 AATTT
64 AATGT
* * * *
19207994 TTTTTCATATTTTGGTAAGACTTTATAAATCTATTTTCAAATAATATATTTTTTTAAAACTCATA
1 TCTTTAATATTTTGGTAAGACTTTATGAATTTATTTTCAAA-AATATATTTTTTT-AAACTCATA
19208059 AA-GT
64 AATGT
*** * * *
19208063 TCTTTAATATTTTGGTTTTAGTTTATGAATTTAATTTAAAAAATA-ATTTTT
1 TCTTTAATATTTTGGTAAGACTTTATGAATTTATTTTCAAAAATATATTTTT
19208114 AAAGAAAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
66 29 0.30
67 14 0.14
68 6 0.06
69 38 0.39
70 11 0.11
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (68 bp):
TCTTTAATATTTTGGTAAGACTTTATGAATTTATTTTCAAAAATATATTTTTTTAAACTCATAAA
TGT
Found at i:19209177 original size:18 final size:20
Alignment explanation
Indices: 19209151--19209191 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
19209141 ATTATAATAT
19209151 AATTAATAAACTTAATA-AA
1 AATTAATAAACTTAATATAA
**
19209170 AATT-ATAATTTTAATATAA
1 AATTAATAAACTTAATATAA
19209189 AAT
1 AAT
19209192 AAGAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTAATAAACTTAATATAA
Found at i:19211448 original size:2 final size:2
Alignment explanation
Indices: 19211441--19211471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19211431 TGACAGTAGG
19211441 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
19211472 TCTAGCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:19211506 original size:3 final size:3
Alignment explanation
Indices: 19211500--19211550 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
19211490 ATAATAGTTG
*
19211500 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19211548 TTA
1 TTA
19211551 GAAATATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19221189 original size:32 final size:32
Alignment explanation
Indices: 19221127--19221195 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
19221117 AATTGATTTT
***
19221127 GGTAAACCAAAAGCAATATAATTTGTAGGCAA
1 GGTAAACCAAAAGCAATATAATTCACAGGCAA
*
19221159 GGTAAACCAAACGCAATATAATTCACAGGCAA
1 GGTAAACCAAAAGCAATATAATTCACAGGCAA
*
19221191 TGTAA
1 GGTAA
19221196 TTAGATAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.20
Consensus pattern (32 bp):
GGTAAACCAAAAGCAATATAATTCACAGGCAA
Found at i:19221831 original size:42 final size:42
Alignment explanation
Indices: 19221772--19221857 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
19221762 AACGGTAAAT
***
19221772 TAAAAACAATAATACCAATTTGAGTTAATTACCTACCTTCAA
1 TAAAAACAATAATACCAATCCAAGTTAATTACCTACCTTCAA
19221814 TAAAAACAATAATACCAATCCAAGTTAATTACCTACCTTCAA
1 TAAAAACAATAATACCAATCCAAGTTAATTACCTACCTTCAA
19221856 TA
1 TA
19221858 CTCTAGGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (42 bp):
TAAAAACAATAATACCAATCCAAGTTAATTACCTACCTTCAA
Found at i:19224102 original size:15 final size:14
Alignment explanation
Indices: 19224084--19224166 Score: 76
Period size: 14 Copynumber: 5.7 Consensus size: 14
19224074 GGTTCAGGAT
19224084 TTTAAGGTTTTAAG
1 TTTAAGGTTTTAAG
**
19224098 ATTTAAGGTTTTGTG
1 -TTTAAGGTTTTAAG
*
19224113 TTTTAGGATTTTAAGG
1 TTTAAGG-TTTTAA-G
*
19224129 TTTAGGGTTTTAAG
1 TTTAAGGTTTTAAG
* *
19224143 TTTAGGGTTTTAGG
1 TTTAAGGTTTTAAG
*
19224157 TTTAGGGTTT
1 TTTAAGGTTT
19224167 CATAGATCAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
14 30 0.52
15 22 0.38
16 6 0.10
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTAAGGTTTTAAG
Found at i:19224147 original size:14 final size:14
Alignment explanation
Indices: 19224084--19224166 Score: 85
Period size: 15 Copynumber: 5.7 Consensus size: 14
19224074 GGTTCAGGAT
*
19224084 TTTAAGGTTTTAAG
1 TTTAGGGTTTTAAG
* **
19224098 ATTTAAGGTTTTGTG
1 -TTTAGGGTTTTAAG
*
19224113 TTTTAGGATTTTAAGG
1 -TTTAGGGTTTTAA-G
19224129 TTTAGGGTTTTAAG
1 TTTAGGGTTTTAAG
*
19224143 TTTAGGGTTTTAGG
1 TTTAGGGTTTTAAG
19224157 TTTAGGGTTT
1 TTTAGGGTTT
19224167 CATAGATCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
14 24 0.41
15 33 0.57
16 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
TTTAGGGTTTTAAG
Found at i:19225465 original size:68 final size:68
Alignment explanation
Indices: 19225313--19225465 Score: 195
Period size: 68 Copynumber: 2.2 Consensus size: 68
19225303 TTGTATATAG
* * * *
19225313 GACTAATTTCATATTTATATTGTTAGATAAAAAATCATACTTGTGTGAATGATATAAATATTTGT
1 GACTAATTTCATATTTGTATTGTTAGATAAAAAATCATACTTGTGTAAATGATATAAAAATTTGA
19225378 TTT
66 TTT
* **
19225381 GACTATTTTCATATTTGTACTT-TTAGA-ACAAAAATTGTACTTGTGTAAATGATATAAAAATTT
1 GACTAATTTCATATTTGTA-TTGTTAGATA-AAAAATCATACTTGTGTAAATGATATAAAAATTT
19225444 GGATTT
64 -GATTT
19225450 G-CTAATTTCATATTTG
1 GACTAATTTCATATTTG
19225466 CATTAATATA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
67 1 0.01
68 66 0.89
69 7 0.09
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.45
Consensus pattern (68 bp):
GACTAATTTCATATTTGTATTGTTAGATAAAAAATCATACTTGTGTAAATGATATAAAAATTTGA
TTT
Found at i:19236146 original size:21 final size:20
Alignment explanation
Indices: 19236100--19236147 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
19236090 AGGTATGAAA
19236100 TTTTAGAAAAAGAAAATTTTG
1 TTTT-GAAAAAGAAAATTTTG
*
19236121 ATTTGAAAAAG-AAATTTGATG
1 TTTTGAAAAAGAAAATTT--TG
19236142 TTTTGA
1 TTTTGA
19236148 TGAATGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 6 0.26
20 7 0.30
21 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
TTTTGAAAAAGAAAATTTTG
Found at i:19245973 original size:15 final size:16
Alignment explanation
Indices: 19245945--19245978 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19245935 ATTTATATAA
*
19245945 ATTTTTTATTTTTTTC
1 ATTTTTTATGTTTTTC
19245961 ATTTTTT-TGTTTTTC
1 ATTTTTTATGTTTTTC
19245976 ATT
1 ATT
19245979 ATACCTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (16 bp):
ATTTTTTATGTTTTTC
Found at i:19252239 original size:35 final size:34
Alignment explanation
Indices: 19252179--19252262 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 34
19252169 TCTCTAAATT
**
19252179 TTTATTATTTATTATTTATTAATATACATATTTA
1 TTTATTATTTATTACATATTAATATACATATTTA
19252213 TTTATTTATTTATTAACATATT-ATATACATATATATA
1 TTTA-TTATTTATT-ACATATTAATATACATAT-T-TA
* *
19252250 TTTCTTCTTTATT
1 TTTATTATTTATT
19252263 TTTATTACTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
34 4 0.10
35 19 0.45
36 14 0.33
37 5 0.12
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (34 bp):
TTTATTATTTATTACATATTAATATACATATTTA
Found at i:19252287 original size:3 final size:3
Alignment explanation
Indices: 19252258--19252322 Score: 51
Period size: 3 Copynumber: 20.7 Consensus size: 3
19252248 TATTTCTTCT
* *
19252258 TTA TTT TTA TTA CTA TTTA TCTA TTA TTA TTA TTA TTTA TCTA TTA -TA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA -TTA T-TA TTA TTA
* *
19252306 TTA TTT TTA TTT TTA TT
1 TTA TTA TTA TTA TTA TT
19252323 TTTTCTTTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 2 0.04
3 36 0.73
4 11 0.22
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:19252287 original size:20 final size:20
Alignment explanation
Indices: 19252259--19252308 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
19252249 ATTTCTTCTT
*
19252259 TATTTTTATTACTATTTATC
1 TATTATTATTACTATTTATC
*
19252279 TATTATTATTATTATTTATC
1 TATTATTATTACTATTTATC
19252299 TATTA-TATTA
1 TATTATTATTA
19252309 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTATTATTACTATTTATC
Found at i:19253134 original size:12 final size:11
Alignment explanation
Indices: 19253118--19253175 Score: 59
Period size: 12 Copynumber: 5.3 Consensus size: 11
19253108 TTCTCAAATT
19253118 TTATTTATTTA
1 TTATTTATTTA
*
19253129 TTTATTTATTAA
1 -TTATTTATTTA
19253141 TTACTATTA-TTA
1 TTA-T-TTATTTA
19253153 TTA-TTA-TTA
1 TTATTTATTTA
19253162 TTATTTATTTA
1 TTATTTATTTA
19253173 TTA
1 TTA
19253176 GATTAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 9 0.22
10 3 0.08
11 9 0.22
12 16 0.40
13 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:19253220 original size:13 final size:13
Alignment explanation
Indices: 19253202--19253249 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
19253192 TACTTTTTAT
19253202 TTTATTTTATTTC
1 TTTATTTTATTTC
19253215 TTTATTTTATTTC
1 TTTATTTTATTTC
*
19253228 CTTATTTTTATTT-
1 TTTA-TTTTATTTC
19253241 TATTATTTT
1 T-TTATTTT
19253250 TTAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 20 0.65
14 11 0.35
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTTC
Found at i:19253238 original size:14 final size:14
Alignment explanation
Indices: 19253206--19253250 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
19253196 TTTTATTTTA
*
19253206 TTTTATTTCTTTA-
1 TTTTATTTCATTAT
*
19253219 TTTTATTTCCTTAT
1 TTTTATTTCATTAT
*
19253233 TTTTATTTTATTAT
1 TTTTATTTCATTAT
19253247 TTTT
1 TTTT
19253251 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 12 0.43
14 16 0.57
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTATTTCATTAT
Found at i:19253333 original size:58 final size:59
Alignment explanation
Indices: 19253265--19253426 Score: 236
Period size: 58 Copynumber: 2.7 Consensus size: 59
19253255 TAAAATTCAA
* * * *
19253265 AAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGATAATAAG-TTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCT
* *
19253323 AAAAATTATTTTTGAGGAAAAGTTGAAAGTATCATTTTTCCTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTTCT
* *
19253383 AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
19253427 TACAAAAGCA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
58 46 0.50
60 46 0.50
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (59 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCT
Found at i:19263910 original size:13 final size:12
Alignment explanation
Indices: 19263893--19263935 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 12
19263883 AAAAAACAAG
19263893 AGAAAAAATGAA
1 AGAAAAAATGAA
19263905 ATGAAAAAATG-A
1 A-GAAAAAATGAA
19263917 A-AAAAAATGAAA
1 AGAAAAAATG-AA
19263929 AGAAAAA
1 AGAAAAA
19263936 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.30
12 5 0.19
13 14 0.52
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (12 bp):
AGAAAAAATGAA
Found at i:19265010 original size:41 final size:40
Alignment explanation
Indices: 19264965--19265059 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 40
19264955 TTGTCATGGG
* *
19264965 GCAATTTATTTTCCTAAGTTGTGATGCCTCTGTTTA-AAGGA
1 GCAATCTATTTTCCGAAGTTGT-ATGCCTCTGTTTAGAA-GA
*
19265006 GCAATCTATTTTTCGAAGTTGTATGCCTCTGTTTAGAAGA
1 GCAATCTATTTTCCGAAGTTGTATGCCTCTGTTTAGAAGA
19265046 GCAATCTACTTTTC
1 GCAATCTA-TTTTC
19265060 AAAAGTCGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 23 0.48
41 25 0.52
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (40 bp):
GCAATCTATTTTCCGAAGTTGTATGCCTCTGTTTAGAAGA
Found at i:19265048 original size:40 final size:41
Alignment explanation
Indices: 19264965--19265059 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 41
19264955 TTGTCATGGG
* * *
19264965 GCAATTTATTTTCCTAAGTTGTGATGCCTCTGTTTAAAGGA
1 GCAATCTATTTTTCGAAGTTGTGATGCCTCTGTTTAAAGGA
19265006 GCAATCTATTTTTCGAAGTTGT-ATGCCTCTGTTTAGAA-GA
1 GCAATCTATTTTTCGAAGTTGTGATGCCTCTGTTTA-AAGGA
*
19265046 GCAATCTACTTTTC
1 GCAATCTATTTTTC
19265060 AAAAGTCGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 28 0.57
41 21 0.43
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (41 bp):
GCAATCTATTTTTCGAAGTTGTGATGCCTCTGTTTAAAGGA
Found at i:19265170 original size:45 final size:45
Alignment explanation
Indices: 19265055--19265481 Score: 287
Period size: 45 Copynumber: 9.9 Consensus size: 45
19265045 AGCAATCTAC
* *
19265055 TTTTCAAAAGTCGTTGAGCCTCTG-ATTGGAGGAGC-CTTTTA-T
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTTTTTATT
* * * *
19265097 TTTT-AAAAGTTGTTAAGCCTCTAT-TTAGAGGAGCTTTGTTTATC
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTT-TTTATT
* * * *
19265141 TTTCCAAAAGTCGTTGAGCCACT-TATTAGATGAGC-CTTTTA-T
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTTTTTATT
* * *
19265183 TTTT-AAAAGTTGTTAAGCCTATGT-TTAGAGGAGCTTTATTTATT
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTT-TTTATT
* *
19265227 TTTTCAAAAGTCATTGAGCCTTTG-ATTAGAGGAGCCTTTTATT-TT
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAG-CTTTT-TTATT
* ** *
19265272 TTTTTAAAAGTCACTGAGCTTCTGT-TTAGAGGAGCTTTGTTTA-T
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTT-TTTATT
* * * *
19265316 TTTTCTAAAA-TTGTTGAGCCTATAT-TTAGAGGAG-TTATTTA-T
1 TTTTC-AAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTTTTTATT
* *
19265358 TTTTCTAAAGTCATTGAGCCTCTGT-TTAGAGGAGCTTTATTTA-T
1 TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTT-TTTATT
* ** * * *
19265402 TTTTCTGAAA-TTATCGAGCCTCTAT-TTAGAGGAG-TTATTTA-T
1 TTTTC-AAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTTTTTATT
* *
19265444 TTTTCCAAAGTCATTGAGCCTC--TACTTAGAGGAG-TTTT
1 TTTTCAAAAGTCGTTGAGCCTCTGTA-TTAGAGGAGCTTTT
19265482 GATCAAATTT
Statistics
Matches: 309, Mismatches: 51, Indels: 50
0.75 0.12 0.12
Matches are distributed among these distances:
40 1 0.00
41 54 0.17
42 72 0.23
43 18 0.06
44 70 0.23
45 88 0.28
46 6 0.02
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (45 bp):
TTTTCAAAAGTCGTTGAGCCTCTGTATTAGAGGAGCTTTTTTATT
Found at i:19265176 original size:86 final size:85
Alignment explanation
Indices: 19265030--19265406 Score: 370
Period size: 86 Copynumber: 4.4 Consensus size: 85
19265020 GAAGTTGTAT
* * * * * *
19265030 GCCTCTGTTTAGAAGAGC--AATCTACTTTT-CAAAAGTCGTTGAGCCTCTGATTGGAGGAGCCT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAAGTCGTTGAGCC-CTTATTAGAGGAGCCT
**
19265092 TTTATTTTTAAAAGTTGTTAA
65 TTTATTTTTAAAAGTCATTAA
* * * *
19265113 GCCTCTATTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCCACTTATTAGATGAGCCT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAAGTCGTTGAGCC-CTTATTAGAGGAGCCT
**
19265178 TTTATTTTTAAAAGTTGTTAA
65 TTTATTTTTAAAAGTCATTAA
* * * *
19265199 GCCTATGTTTAGAGGAGCTTTATTTATTTTTTCAAAAGTCATTGAGCCTTTGATTAGAGGAGCCT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAAGTCGTTGAGCCCTT-ATTAGAGGAGCCT
* *
19265264 TTTATTTTTTTTTAAAAGTCACTGA
65 TTTA----TTTTTAAAAGTCATTAA
* * * * *
19265289 GCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAA-TTGTTGAG-CCTATATTTAGAGGAG-T
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAAGTCGTTGAGCCCT-TA-TTAGAGGAGCC
* *
19265351 TATTTATTTTTCTAAAGTCATTGA
64 T-TTTATTTTT-AAAAGTCATTAA
19265375 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTC
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTC
19265407 TGAAATTATC
Statistics
Matches: 246, Mismatches: 36, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
83 16 0.07
85 13 0.05
86 148 0.60
88 4 0.02
89 20 0.08
90 45 0.18
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (85 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCCAAAAGTCGTTGAGCCCTTATTAGAGGAGCCTT
TTATTTTTAAAAGTCATTAA
Found at i:19265290 original size:131 final size:129
Alignment explanation
Indices: 19265092--19265405 Score: 336
Period size: 131 Copynumber: 2.4 Consensus size: 129
19265082 GGAGGAGCCT
** * * * **
19265092 TTTATTTTT-AAAAGTTGTTAAGCCTCT-ATTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGT
1 TTTATTTTTCAAAAGTCATTGAGCCTCTGA-TTAGAGGAGCTTTATTTAT-TTT-TAAAAGTCAC
* *
19265155 TGAGCCACT-TATTAGATGAGC-CT-TTTA-TTTT-TAAAAGTTGTTAAGCCTATGTTTAGAGGA
63 TGAGCCACTGT-TTAGAGGAGCTCTGTTTATTTTTCTAAAA-TTGTTAAGCCTATATTTAGAGGA
19265215 GCTTTA
126 G--TTA
* *
19265221 TTTATTTTTTCAAAAGTCATTGAGCCTTTGATTAGAGGAGCCTTTTATTTTTTTTTAAAAGTCAC
1 TTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAG-C-TTTATTTATTTTTAAAAGTCAC
** * *
19265286 TGAGCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAATTGTTGAGCCTATATTTAGAGGAGT
63 TGAGCCACTGTTTAGAGGAGCTCTGTTTATTTTTCTAAAATTGTTAAGCCTATATTTAGAGGAGT
19265351 TA
128 TA
* *
19265353 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTATTTTT
1 TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTT
19265406 CTGAAATTAT
Statistics
Matches: 156, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
129 16 0.10
130 6 0.04
131 78 0.50
132 14 0.09
133 11 0.07
134 26 0.17
135 5 0.03
ACGTcount: A:0.25, C:0.11, G:0.18, T:0.46
Consensus pattern (129 bp):
TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTAAAAGTCACTGA
GCCACTGTTTAGAGGAGCTCTGTTTATTTTTCTAAAATTGTTAAGCCTATATTTAGAGGAGTTA
Found at i:19265386 original size:176 final size:172
Alignment explanation
Indices: 19265055--19265482 Score: 440
Period size: 176 Copynumber: 2.5 Consensus size: 172
19265045 AGCAATCTAC
* * ***
19265055 TTTTCAAAAGTCGTTGAGCCTCTGATTGGAGGAGCCTTTTATTTTTAAAAGTTGTTAAGCCTCTA
1 TTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTATTTTTAAAAGTCACTAAGCCTCTA
*
19265120 TTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCCACTTATTAGATGAGCCTTTTATTT
66 TTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCCACTTATTAGAGGAGCCTTTTATTT
**
19265185 TTAAAAGTTGTTAAGCCTATGTTTAGAGGAGCTTTATTTATT
131 TTAAAAGTCATTAAGCCTATGTTTAGAGGAGCTTTATTTATT
* * *
19265227 TTTTCAAAAGTCATTGAGCCTTTGATTAGAGGAGCCTTTTATTTTTTTTTAAAAGTCACTGAGCT
1 TTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTA----TTTTTAAAAGTCACTAAGCC
* * * * *
19265292 TCTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAA-TTGTTGAG-C-CTATATTTAGAGGAG-TTA
62 TCTATTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCCACT-TA-TTAGAGGAGCCT-
* * *
19265353 TTTATTTTTCTAAAGTCATTGAGCCTCTGTTTAGAGGAGCTTTATTTA-T
124 TTTATTTTT-AAAAGTCATTAAGCCTATGTTTAGAGGAGCTTTATTTATT
* * * * * * *
19265402 TTTTCTGAAA-TTATCGAGCCTCT-ATTTAGAGGAG-TTATTTATTTTTCCAAAGTCATTGAGCC
1 TTTTC-AAAAGTCATTGAGCCTCTGA-TTAGAGGAGCCT-TTTATTTTT-AAAAGTCACTAAGCC
* *
19265464 TCTACTTAGAGGAGTTTTG
62 TCTATTTAGAGGAGCTTTG
19265483 ATCAAATTTT
Statistics
Matches: 214, Mismatches: 30, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
171 5 0.02
172 66 0.31
173 2 0.01
174 6 0.03
175 53 0.25
176 82 0.38
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.44
Consensus pattern (172 bp):
TTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAGCCTTTTATTTTTAAAAGTCACTAAGCCTCTA
TTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCCACTTATTAGAGGAGCCTTTTATTT
TTAAAAGTCATTAAGCCTATGTTTAGAGGAGCTTTATTTATT
Found at i:19265407 original size:86 final size:87
Alignment explanation
Indices: 19265030--19265477 Score: 359
Period size: 86 Copynumber: 5.2 Consensus size: 87
19265020 GAAGTTGTAT
* * * * * * * *
19265030 GCCTCTGTTTAGAAGAGC--AATCTACTTTTC-AAAAGTCGTTGAGCCTCTGA-TTGGAGGAGCC
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGAGCCTAT-ATTTAGAGGAGCT
* ** *
19265091 T-TTTATTTTTAAAAGTTGTTAA
65 TATTTATTTTTTAAAGTCATTGA
* * * * * *
19265113 GCCTCTATTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGAGCC-ACT-TATTAGATGAGC
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGAGCCTA-TAT-TTAGAGGAGC
* * ** *
19265176 CT-TTTATTTTTAAAAGTTGTTAA
64 TTATTTATTTTTTAAAGTCATTGA
* *
19265199 GCCTATGTTTAGAGGAGCTTTATTTATTTTT-TCAAAAGTCATTGAGCCTTTGA-TTAGAGGAGC
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCT-AAAAGTCATTGAGCCTAT-ATTTAGAGGAG-
*
19265262 CTTTTATTT-TTTTTTAAAAGTCACTGA
63 C--TTATTTATTTTTT-AAAGTCATTGA
* * **
19265289 GCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAA-TTGTTGAGCCTATATTTAGAGGAG-TT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGAGCCTATATTTAGAGGAGCTT
19265352 ATTTATTTTTCTAAAGTCATTGA
66 ATTTATTTTT-TAAAGTCATTGA
* * * *
19265375 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTGAAA-TTATCGAGCCTCTATTTAGAGGAG-TT
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGAGCCTATATTTAGAGGAGCTT
*
19265438 ATTTATTTTTCCAAAGTCATTGA
66 ATTTATTTTT-TAAAGTCATTGA
**
19265461 GCCTCTACTTAGAGGAG
1 GCCTCTGTTTAGAGGAG
19265478 TTTTGATCAA
Statistics
Matches: 306, Mismatches: 40, Indels: 35
0.80 0.10 0.09
Matches are distributed among these distances:
83 16 0.05
85 13 0.04
86 206 0.67
87 2 0.01
88 1 0.00
89 25 0.08
90 42 0.14
91 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (87 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGAGCCTATATTTAGAGGAGCTT
ATTTATTTTTTAAAGTCATTGA
Found at i:19265421 original size:44 final size:45
Alignment explanation
Indices: 19265030--19265477 Score: 348
Period size: 42 Copynumber: 10.4 Consensus size: 45
19265020 GAAGTTGTAT
* * * * *
19265030 GCCTCTGTTTAGAAGAGC--AATCTACTTTTC-AAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* * * ** *
19265072 GCCTCTGATTGGAGGAGC-CT-TTTA-TTTT-TAAAAGTTGTTAA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* * * * *
19265113 GCCTCTATTTAGAGGAGCTTTGTTTATCTTTCCAAAAGTCGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* * * ** *
19265158 GCCACT-TATTAGATGAGC-CT-TTTA-TTTT-TAAAAGTTGTTAA
1 GCCTCTGT-TTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
*
19265199 GCCTATGTTTAGAGGAGCTTTATTTATTTTT-TCAAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCT-AAAAGTCATTGA
* * *
19265244 GCCTTTGATTAGAGGAGCCTTTTATTT-TTTTT-TAAAAGTCACTGA
1 GCCTCTGTTTAGAGGAG-C-TTTATTTATTTTTCTAAAAGTCATTGA
* * **
19265289 GCTTCTGTTTAGAGGAGCTTTGTTTATTTTTCTAAAA-TTGTTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* *
19265333 GCCTATATTTAGAGGAG--TTATTTATTTTTCT-AAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* * *
19265375 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTGAAA-TTATCGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
* *
19265419 GCCTCTATTTAGAGGAG--TTATTTATTTTTC-CAAAGTCATTGA
1 GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
**
19265461 GCCTCTACTTAGAGGAG
1 GCCTCTGTTTAGAGGAG
19265478 TTTTGATCAA
Statistics
Matches: 331, Mismatches: 54, Indels: 42
0.78 0.13 0.10
Matches are distributed among these distances:
41 58 0.18
42 91 0.27
43 18 0.05
44 69 0.21
45 81 0.24
46 7 0.02
47 7 0.02
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (45 bp):
GCCTCTGTTTAGAGGAGCTTTATTTATTTTTCTAAAAGTCATTGA
Found at i:19265735 original size:22 final size:21
Alignment explanation
Indices: 19265705--19265755 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
19265695 TTTTATTATT
19265705 TATTATTTATTAA-TATACATA
1 TATTATTTATTAATTA-ACATA
*
19265726 TATTTATTTATTTATTAACATA
1 TA-TTATTTATTAATTAACATA
19265748 TATTATTT
1 TATTATTT
19265756 TTTTTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 8 0.30
22 17 0.63
23 2 0.07
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTATTTATTAATTAACATA
Found at i:19265795 original size:3 final size:3
Alignment explanation
Indices: 19265766--19265833 Score: 66
Period size: 3 Copynumber: 21.7 Consensus size: 3
19265756 TTTTTCTTAT
* *
19265766 TTA TTT TTA TTA CTA TTTA TCTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA
*
19265814 TCTA TTA -TA TTA TTT TTA TT
1 T-TA TTA TTA TTA TTA TTA TT
19265834 TTTTCTTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 2 0.04
3 41 0.76
4 11 0.20
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19265798 original size:29 final size:28
Alignment explanation
Indices: 19265762--19265833 Score: 110
Period size: 29 Copynumber: 2.6 Consensus size: 28
19265752 ATTTTTTTTC
19265762 TTAT-TTATTTTTATTACTATTTATCTA
1 TTATATTATTTTTATTACTATTTATCTA
* *
19265789 TTATTATTATTATTATTATTATTTATCTA
1 TTA-TATTATTTTTATTACTATTTATCTA
19265818 TTATATTATTTTTATT
1 TTATATTATTTTTATT
19265834 TTTTCTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 13 0.32
29 24 0.60
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (28 bp):
TTATATTATTTTTATTACTATTTATCTA
Found at i:19266836 original size:58 final size:59
Alignment explanation
Indices: 19266766--19266926 Score: 247
Period size: 59 Copynumber: 2.7 Consensus size: 59
19266756 ATAAAATTAA
*
19266766 AAAAAATATTTTTAAGAAAAAGTTGAAATTATCAATTTTCCTTGAAAATAAG-TTTTCT
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCT
*
19266824 AAAAAATATTTTTGAGGAAAAA-TTGAAAGTATCAATTTT-CTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTT-AAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG-TTTTTCT
**
19266883 AAAAAATATTTTCGAGAAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTG
19266927 TACAAAAGCA
Statistics
Matches: 93, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
57 12 0.13
58 35 0.38
59 42 0.45
60 4 0.04
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (59 bp):
AAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTCT
Found at i:19267009 original size:21 final size:21
Alignment explanation
Indices: 19266980--19267021 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19266970 AAACTGAATC
*
19266980 ATTTTTTTTCTTTTTCGTTTT
1 ATTTCTTTTCTTTTTCGTTTT
*
19267001 ATTTCTTTTCTTTTTTGTTTT
1 ATTTCTTTTCTTTTTCGTTTT
19267022 CTTGAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.81
Consensus pattern (21 bp):
ATTTCTTTTCTTTTTCGTTTT
Found at i:19268847 original size:202 final size:203
Alignment explanation
Indices: 19268494--19268877 Score: 569
Period size: 202 Copynumber: 1.9 Consensus size: 203
19268484 TCCTCCAAGG
* * * *
19268494 TTAGTTCTTTTTTAAATTCGTAGTTTTGATCTTTTTATGCTTTTTGGATCAATTCTTAATGAATT
1 TTAGTTCTTTTTGAAATTCGTAGTTTTGAACTCTTTATGCTTTTTGAATCAATTCTTAATGAATT
* *
19268559 CTAGCTTGTTTTGAGCAATTTGTTTTTTTGTTAGATTCCTAACTCACAGATCTTTAATTCTAGAA
66 CTAGCTTATTTTGAGCAATATGTTTTTTTGTTAGATTCCTAACTCACAGATCTTTAATTCTAGAA
19268624 AAAATTAGCTTCAAATTCCATCCACACAAGTACA-AAAATTCTCCAAAGTCATGTCTAAACTCAG
131 AAAATTAGCTTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAGTCATGTCTAAACTCAG
19268688 TTGATGGA
196 TTGATGGA
* * * *
19268696 TTAGTTCTTTTTGAAATTTGTAGTTTTGAACTCTTTGTGGC-TTTTGAATCAGTTCTTGATGAAT
1 TTAGTTCTTTTTGAAATTCGTAGTTTTGAACTCTTTAT-GCTTTTTGAATCAATTCTTAATGAAT
** * * *
19268760 TCTAGCTTATTTTGAGCCAA-AT-TTTTTTTGTTAGATTCCTAACTCTTAGATCTTTATTTTTGG
65 TCTAGCTTATTTTGAG-CAATATGTTTTTTTGTTAGATTCCTAACTCACAGATCTTTAATTCTAG
*
19268823 AAAAAAATTAGCTTCAATTTCCATCCACACAAGTACAGAAAATTCTCCAAAGTCA
129 -AAAAAATTAGCTTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAGTCA
19268878 CAACATTGCA
Statistics
Matches: 162, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
201 36 0.22
202 104 0.64
203 22 0.14
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (203 bp):
TTAGTTCTTTTTGAAATTCGTAGTTTTGAACTCTTTATGCTTTTTGAATCAATTCTTAATGAATT
CTAGCTTATTTTGAGCAATATGTTTTTTTGTTAGATTCCTAACTCACAGATCTTTAATTCTAGAA
AAAATTAGCTTCAAATTCCATCCACACAAGTACAGAAAATTCTCCAAAGTCATGTCTAAACTCAG
TTGATGGA
Found at i:19282475 original size:33 final size:33
Alignment explanation
Indices: 19282399--19282484 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
19282389 TATAAAATAT
* * *
19282399 AATAAAAATATATAAATTATTAATATTTTATAT
1 AATATAAATATACAAATTATTAATATTTTATAC
* * * *
19282432 GATATTAATATACGAATTATTAATGTTTTATAC
1 AATATAAATATACAAATTATTAATATTTTATAC
19282465 AATATAAATATGA-AAATTAT
1 AATATAAATAT-ACAAATTAT
19282485 GAAGTCTAAA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
33 41 0.98
34 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (33 bp):
AATATAAATATACAAATTATTAATATTTTATAC
Found at i:19284339 original size:12 final size:12
Alignment explanation
Indices: 19284316--19284354 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
19284306 TGATTATATT
*
19284316 TATATATATATG
1 TATATATGTATG
*
19284328 TATGTATGTATG
1 TATATATGTATG
19284340 TATATATGTATG
1 TATATATGTATG
19284352 TAT
1 TAT
19284355 TAAAAGAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.51
Consensus pattern (12 bp):
TATATATGTATG
Found at i:19284351 original size:4 final size:4
Alignment explanation
Indices: 19284324--19284354 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
19284314 TTTATATATA
*
19284324 TATG TATG TATG TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
19284355 TAAAAGAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:19286334 original size:17 final size:16
Alignment explanation
Indices: 19286302--19286350 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
19286292 TAATATTTTT
*
19286302 ATATTTTTATATAAAA
1 ATATTTTTAAATAAAA
19286318 ATATTTTTAAATAAAA
1 ATATTTTTAAATAAAA
*
19286334 ATATTTTTTAATAAAA
1 ATATTTTTAAATAAAA
19286350 A
1 A
19286351 ATAATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTTTTAAATAAAA
Found at i:19291206 original size:133 final size:133
Alignment explanation
Indices: 19291022--19291284 Score: 445
Period size: 133 Copynumber: 2.0 Consensus size: 133
19291012 ATGAATATGA
* *
19291022 CTTTAGAATTTATCTACTCAATTGTTTAGATAAAATTTTAAACTATACTTAATTCAAGAGATGAT
1 CTTTAGAATTTACCTACTCAATTGTTTAGATAAAATTCTAAACTATACTTAATTCAAGAGATGAT
*
19291087 CTAGGTATTCTTTAGATAGTTTGAGCCTTTCCAAACCCACCTTTAATAATGCATCCCTAGTACTT
66 CTAGGTATTCTTTAAATAGTTTGAGCCTTTCCAAACCCACCTTTAATAATGCATCCCTAGTACTT
19291152 GAT
131 GAT
* * * *
19291155 CTTTAGAATTTACCTACTCAATTTTTTAGGTAAAATTCTAGACTATACTTAATTTAAGAGATGAT
1 CTTTAGAATTTACCTACTCAATTGTTTAGATAAAATTCTAAACTATACTTAATTCAAGAGATGAT
* *
19291220 TTAGGTATTCTTTAAATAGTTTGAGCCTTTTCAAACCCACCTTTAATAATGCATCCCTAGTACTT
66 CTAGGTATTCTTTAAATAGTTTGAGCCTTTCCAAACCCACCTTTAATAATGCATCCCTAGTACTT
19291285 TATATTTTGA
Statistics
Matches: 121, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 121 1.00
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (133 bp):
CTTTAGAATTTACCTACTCAATTGTTTAGATAAAATTCTAAACTATACTTAATTCAAGAGATGAT
CTAGGTATTCTTTAAATAGTTTGAGCCTTTCCAAACCCACCTTTAATAATGCATCCCTAGTACTT
GAT
Found at i:19291547 original size:19 final size:18
Alignment explanation
Indices: 19291515--19291552 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
19291505 ATAAAAGCTG
19291515 AAAAATGGCTAAATGAAAA
1 AAAAATGGCTAAAT-AAAA
19291534 AAAAAT-GCTAAAATAAAA
1 AAAAATGGCT-AAATAAAA
19291552 A
1 A
19291553 TGCCTTAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (18 bp):
AAAAATGGCTAAATAAAA
Found at i:19294152 original size:23 final size:23
Alignment explanation
Indices: 19294116--19294168 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
19294106 CTTGCAATTT
*
19294116 TTGTTTCACATTTAAA-CTTTAAC
1 TTGTTTCACATTTAAATCTCT-AC
19294139 TTGTTTGCAC-TTTAAATCTCTAC
1 TTGTTT-CACATTTAAATCTCTAC
19294162 TTGTTTC
1 TTGTTTC
19294169 TGCAATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 20 0.74
24 6 0.22
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.51
Consensus pattern (23 bp):
TTGTTTCACATTTAAATCTCTAC
Found at i:19306049 original size:29 final size:29
Alignment explanation
Indices: 19305988--19306051 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
19305978 AAAATGACTT
* *
19305988 TAAAATTATGATTAATTTATTTTTATAAT
1 TAAAATTATGATTAATTTATTATTATAAC
* *
19306017 TAAAATTATGGATTATTTTGTTATT-TAAC
1 TAAAATTAT-GATTAATTTATTATTATAAC
19306046 TAAAAT
1 TAAAAT
19306052 AACTTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.52
Consensus pattern (29 bp):
TAAAATTATGATTAATTTATTATTATAAC
Found at i:19306552 original size:22 final size:22
Alignment explanation
Indices: 19306521--19306574 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
19306511 TATATACTCT
19306521 TTTTACATTTATGATATTATATA
1 TTTTA-ATTTATGATATTATATA
* *
19306544 TTTTAATTTGTTATATTATATA
1 TTTTAATTTATGATATTATATA
19306566 TTTTAATTT
1 TTTTAATTT
19306575 TTTTAAGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (22 bp):
TTTTAATTTATGATATTATATA
Found at i:19318316 original size:31 final size:31
Alignment explanation
Indices: 19318281--19318342 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19318271 TCTTAGAGGT
19318281 TTACATCCAAAATTAAAAGATTCACATTCAA
1 TTACATCCAAAATTAAAAGATTCACATTCAA
19318312 TTACATCCAAAATTAAAAGATTCACATTCAA
1 TTACATCCAAAATTAAAAGATTCACATTCAA
19318343 AAATTTTAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.03, T:0.29
Consensus pattern (31 bp):
TTACATCCAAAATTAAAAGATTCACATTCAA
Found at i:19318443 original size:23 final size:22
Alignment explanation
Indices: 19318369--19318445 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
19318359 CCAAATTCAA
* *
19318369 AGATTCATATTAAAAAATTTTAG
1 AGATTCACATTTAAAAA-TTTAG
* *
19318392 AGATTCATATTT-AAAATTTAA
1 AGATTCACATTTAAAAATTTAG
19318413 AGATTCACATTTAAAAATCTTAG
1 AGATTCACATTTAAAAAT-TTAG
19318436 AGATTCACAT
1 AGATTCACAT
19318446 CCAAATTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.31
22 9 0.19
23 24 0.50
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (22 bp):
AGATTCACATTTAAAAATTTAG
Found at i:19319074 original size:51 final size:51
Alignment explanation
Indices: 19319014--19319115 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
19319004 CTTTAGAAGT
* *
19319014 AACTCACAAGTTCTATCAACTTATCCATCATCAATTTCATCA-TTGGGTCAC
1 AACTCACAAGTTCTATCAACTAATCCATCACCAATTTCATCACTT-GGTCAC
* **
19319065 AACTCACAAGTTTTATTGACTAATCCATCACCAATTTCATCACTTGGTCAC
1 AACTCACAAGTTCTATCAACTAATCCATCACCAATTTCATCACTTGGTCAC
19319116 TATAATTACC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.33
Consensus pattern (51 bp):
AACTCACAAGTTCTATCAACTAATCCATCACCAATTTCATCACTTGGTCAC
Found at i:19320654 original size:14 final size:14
Alignment explanation
Indices: 19320637--19320678 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 14
19320627 AATTTAAAAT
19320637 TTTATTTTTATATA
1 TTTATTTTTATATA
19320651 TTTA-TTTTA-ATA
1 TTTATTTTTATATA
19320663 -TTATTTTTAATATA
1 TTTATTTTT-ATATA
19320677 TT
1 TT
19320679 AAATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 3 0.12
12 7 0.29
13 6 0.25
14 7 0.29
15 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTTTATATA
Found at i:19326483 original size:23 final size:23
Alignment explanation
Indices: 19326457--19326505 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
19326447 TTATGCAAAG
19326457 TTCAA-TTTTAGTTTTCTTTTAAA
1 TTCAAGTTTT-GTTTTCTTTTAAA
* *
19326480 TTCAAGTTTTGTTTTGTTTTCAA
1 TTCAAGTTTTGTTTTCTTTTAAA
19326503 TTC
1 TTC
19326506 CATTCAAGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.20, C:0.10, G:0.08, T:0.61
Consensus pattern (23 bp):
TTCAAGTTTTGTTTTCTTTTAAA
Found at i:19326946 original size:32 final size:32
Alignment explanation
Indices: 19326910--19326974 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
19326900 ATATTGATAC
* *
19326910 TAACATACATTTTTTATAATTTTAATTTATTT
1 TAACACACATTTTTTATAATTTAAATTTATTT
*
19326942 TAACACACCTTTTTTATAATTTAAATTTATTT
1 TAACACACATTTTTTATAATTTAAATTTATTT
19326974 T
1 T
19326975 CTTGTGCCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (32 bp):
TAACACACATTTTTTATAATTTAAATTTATTT
Found at i:19330501 original size:19 final size:19
Alignment explanation
Indices: 19330460--19330501 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
19330450 AGCCCTTAGT
*
19330460 TTTCCTATTTTAAGAAGGT
1 TTTCCTATTTTAAGAAGGA
19330479 TTTCCTATTTTAAGTAA-GA
1 TTTCCTATTTTAAG-AAGGA
19330498 TTTC
1 TTTC
19330502 TCACTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (19 bp):
TTTCCTATTTTAAGAAGGA
Found at i:19331135 original size:23 final size:23
Alignment explanation
Indices: 19331109--19331161 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
19331099 TTATACAAAG
19331109 TTCAATTTCAATTTTATTTGAAA
1 TTCAATTTCAATTTTATTTGAAA
* * * **
19331132 TTCAAGTTCTATTTTTTTTTCAA
1 TTCAATTTCAATTTTATTTGAAA
19331155 TTCAATT
1 TTCAATT
19331162 CAAACCTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (23 bp):
TTCAATTTCAATTTTATTTGAAA
Found at i:19331632 original size:21 final size:21
Alignment explanation
Indices: 19331597--19331638 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19331587 CATACAATCT
*
19331597 CAATCCTAAGCTGATATCTAA
1 CAATCCTAAACTGATATCTAA
* *
19331618 CAATCCTAAATTGATCTCTAA
1 CAATCCTAAACTGATATCTAA
19331639 TGATCCCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (21 bp):
CAATCCTAAACTGATATCTAA
Done.