Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 61 of 290
Found at i:18748635 original size:8 final size:8
Alignment explanation
Indices: 18748624--18748648 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
18748614 TTTAATAAGA
18748624 TATTTTAT
1 TATTTTAT
18748632 TATTTTAT
1 TATTTTAT
18748640 TATTTTAT
1 TATTTTAT
18748648 T
1 T
18748649 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:18753986 original size:19 final size:20
Alignment explanation
Indices: 18753948--18753986 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
18753938 ATCGACACTC
* *
18753948 ACATGCTCCATTTCCCATTA
1 ACATGCTCCAATTCCAATTA
18753968 ACATGCT-CAATTCCAATTA
1 ACATGCTCCAATTCCAATTA
18753987 GTTTAAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (20 bp):
ACATGCTCCAATTCCAATTA
Found at i:18764299 original size:19 final size:19
Alignment explanation
Indices: 18764275--18764317 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
18764265 CTAATGAATG
*
18764275 CAATATTTTAGGTCATCTA
1 CAATATTTTAGATCATCTA
18764294 CAATATTTTAGATCATCTA
1 CAATATTTTAGATCATCTA
*
18764313 AAATA
1 CAATA
18764318 ATCCCAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.40
Consensus pattern (19 bp):
CAATATTTTAGATCATCTA
Found at i:18778242 original size:17 final size:16
Alignment explanation
Indices: 18778215--18778246 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18778205 AGGGTAATTG
18778215 TTTTTTAATTTTTATC
1 TTTTTTAATTTTTATC
18778231 TTTTTTAGATTTTTAT
1 TTTTTTA-ATTTTTAT
18778247 ATAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTTAATTTTTATC
Found at i:18784963 original size:30 final size:30
Alignment explanation
Indices: 18784927--18784986 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
18784917 GATGAAGTAT
*
18784927 GTATTAACAGAAAACTCTATAATTTATCCG
1 GTATTAACAGAAAACTATATAATTTATCCG
*
18784957 GTATTAACAGAAACCTATATAATTTATCCG
1 GTATTAACAGAAAACTATATAATTTATCCG
18784987 AATGAAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (30 bp):
GTATTAACAGAAAACTATATAATTTATCCG
Found at i:18785033 original size:18 final size:18
Alignment explanation
Indices: 18785010--18785044 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18785000 TTAACGATAT
*
18785010 ACTTAAGATCTAGTTGGC
1 ACTTAAAATCTAGTTGGC
18785028 ACTTAAAATCTAGTTGG
1 ACTTAAAATCTAGTTGG
18785045 ACTGTCACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (18 bp):
ACTTAAAATCTAGTTGGC
Found at i:18785859 original size:46 final size:44
Alignment explanation
Indices: 18785766--18785859 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 44
18785756 ATTACATCAT
*
18785766 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGATCTATTC
*
18785810 CATTCCATTCAACCAAACAGT-TGAATTACTTATTACAGATCTATTC
1 CATTCCATTCAACCAAACA-TAAGAA-TAC-TATTACAGATCTATTC
18785856 CATT
1 CATT
18785860 ACAGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 22 0.49
45 4 0.09
46 19 0.42
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGATCTATTC
Found at i:18785862 original size:16 final size:16
Alignment explanation
Indices: 18785841--18785892 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
18785831 TGAATTACTT
18785841 ATTACAGATCTATTCC
1 ATTACAGATCTATTCC
* *
18785857 ATTACAGCTCTATTCA
1 ATTACAGATCTATTCC
*
18785873 ATTATA-ACTCTATTCC
1 ATTACAGA-TCTATTCC
18785889 ATTA
1 ATTA
18785893 TAAGTGTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (16 bp):
ATTACAGATCTATTCC
Found at i:18785893 original size:16 final size:16
Alignment explanation
Indices: 18785849--18785895 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
18785839 TTATTACAGA
* *
18785849 TCTATTCCATTACAGC
1 TCTATTCCATTATAAC
*
18785865 TCTATTCAATTATAAC
1 TCTATTCCATTATAAC
18785881 TCTATTCCATTATAA
1 TCTATTCCATTATAA
18785896 GTGTTTTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (16 bp):
TCTATTCCATTATAAC
Found at i:18787166 original size:10 final size:10
Alignment explanation
Indices: 18787153--18787301 Score: 69
Period size: 10 Copynumber: 14.7 Consensus size: 10
18787143 AAATATAAAA
*
18787153 AATAAAAATC
1 AATAAAAATT
18787163 AATAAAAATT
1 AATAAAAATT
* *
18787173 ATTAAAATTT
1 AATAAAAATT
*
18787183 AATAAAATTT
1 AATAAAAATT
18787193 AAT-AAAATAT
1 AATAAAAAT-T
*
18787203 ATTAAAAATT
1 AATAAAAATT
18787213 AGA-AAAAA-T
1 A-ATAAAAATT
*
18787222 CATAAAAATCAT
1 AATAAAAAT--T
18787234 AA-AAGAAATT
1 AATAA-AAATT
*
18787244 ATAAAAAAATAT
1 A-ATAAAAAT-T
*
18787256 AA-AAGAATT
1 AATAAAAATT
* *
18787265 -GTAAAATTT
1 AATAAAAATT
*
18787274 TATAAAAATT
1 AATAAAAATT
18787284 -ATAAAAATAT
1 AATAAAAAT-T
18787294 ATATAAAA
1 A-ATAAAA
18787302 TGCATCAAAA
Statistics
Matches: 108, Mismatches: 15, Indels: 30
0.71 0.10 0.20
Matches are distributed among these distances:
8 1 0.01
9 24 0.22
10 54 0.50
11 13 0.12
12 16 0.15
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (10 bp):
AATAAAAATT
Found at i:18787189 original size:30 final size:31
Alignment explanation
Indices: 18787153--18787301 Score: 93
Period size: 30 Copynumber: 4.9 Consensus size: 31
18787143 AAATATAAAA
*
18787153 AATAAAAATCAATAAAAAT-TATTAAAATTT
1 AATAAAAATCAATAAAAATATATTAAAAATT
* *
18787183 AATAAAATTTAAT-AAAATATATTAAAAATT
1 AATAAAAATCAATAAAAATATATTAAAAATT
*
18787213 AGA-AAAAATC-ATAAAAATCATA-AAAGAAATT
1 A-ATAAAAATCAATAAAAAT-ATATTAA-AAATT
* *
18787244 -ATAAAAA--AATATAAAAGA-ATTGTAAAATTT
1 AATAAAAATCAATA-AAAATATA-T-TAAAAATT
* *
18787274 TATAAAAAT-TATAAAAATATATATAAAA
1 AATAAAAATCAATAAAAATATAT-TAAAA
18787302 TGCATCAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 27
0.70 0.09 0.20
Matches are distributed among these distances:
28 1 0.01
29 12 0.13
30 47 0.51
31 29 0.31
32 4 0.04
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (31 bp):
AATAAAAATCAATAAAAATATATTAAAAATT
Found at i:18787247 original size:21 final size:20
Alignment explanation
Indices: 18787205--18787294 Score: 71
Period size: 19 Copynumber: 4.5 Consensus size: 20
18787195 TAAAATATAT
*
18787205 TAAAAAT-TAGAAA-AAATCA
1 TAAAAATATA-AAAGAAATTA
18787224 TAAAAATCATAAAAGAAATTA
1 TAAAAAT-ATAAAAGAAATTA
*
18787245 TAAAAAAATATAAAAG-AATTG
1 T--AAAAATATAAAAGAAATTA
* * *
18787266 TAAAATTTTATAA-AAATTA
1 TAAAAATATAAAAGAAATTA
18787285 TAAAAATATA
1 TAAAAATATA
18787295 TATAAAATGC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
19 28 0.49
20 3 0.05
21 13 0.23
22 7 0.12
23 6 0.11
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
TAAAAATATAAAAGAAATTA
Found at i:18787257 original size:22 final size:22
Alignment explanation
Indices: 18787225--18787270 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
18787215 AAAAAATCAT
18787225 AAAAATCATAAAAGAAATTATAA
1 AAAAATCATAAAAG-AATTATAA
*
18787248 AAAAAT-ATAAAAGAATTGTAA
1 AAAAATCATAAAAGAATTATAA
18787269 AA
1 AA
18787271 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 7 0.32
23 6 0.27
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (22 bp):
AAAAATCATAAAAGAATTATAA
Found at i:18787537 original size:19 final size:20
Alignment explanation
Indices: 18787493--18787539 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
18787483 AATTTTTAGA
*
18787493 AATTTTTTTTACAAATTTTAT
1 AATTTTCTTTAC-AATTTTAT
18787514 -A-TTTCTTTAC-ATTTTAT
1 AATTTTCTTTACAATTTTAT
18787531 AATTTTCTT
1 AATTTTCTT
18787540 ACGACTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 14 0.61
20 1 0.04
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTCTTTACAATTTTAT
Found at i:18787541 original size:18 final size:19
Alignment explanation
Indices: 18787507--18787551 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
18787497 TTTTTTACAA
18787507 ATTTTAT-ATTTCTTTAC-
1 ATTTTATAATTTCTTTACG
18787524 ATTTTATAATTT-TCTTACG
1 ATTTTATAATTTCT-TTACG
*
18787543 ACTTTATAA
1 ATTTTATAA
18787552 AATTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.29, C:0.11, G:0.02, T:0.58
Consensus pattern (19 bp):
ATTTTATAATTTCTTTACG
Found at i:18787619 original size:30 final size:27
Alignment explanation
Indices: 18787578--18787646 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 27
18787568 TACGATTTTT
18787578 TTTATAATTTTTAATAAAAGTTAAATATCAG
1 TTTAT-ATTTTTAATAAAA-TTAAATA--AG
* * *
18787609 TTTATATTTTTATTAAAATTTAATAAT
1 TTTATATTTTTAATAAAATTAAATAAG
18787636 TTTATATTTTT
1 TTTATATTTTT
18787647 TATTATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.34
29 6 0.17
30 12 0.34
31 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (27 bp):
TTTATATTTTTAATAAAATTAAATAAG
Found at i:18788086 original size:19 final size:19
Alignment explanation
Indices: 18788039--18788078 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
18788029 ATTTTGTCTT
18788039 GGTTTTT-A-TTT-CTTTG
1 GGTTTTTGACTTTGCTTTG
18788055 GGTTTTTGACTTTGCTTT-
1 GGTTTTTGACTTTGCTTTG
18788073 GGTTTT
1 GGTTTT
18788079 CTGGCTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 1 0.05
18 9 0.43
19 4 0.19
ACGTcount: A:0.05, C:0.07, G:0.23, T:0.65
Consensus pattern (19 bp):
GGTTTTTGACTTTGCTTTG
Found at i:18788786 original size:3 final size:3
Alignment explanation
Indices: 18788778--18788805 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18788768 CGATTTTCTC
18788778 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18788806 GCAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18789533 original size:17 final size:17
Alignment explanation
Indices: 18789484--18789535 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
18789474 AGTATGAGAA
*
18789484 GTAATCTTAGAAGATAT
1 GTAATCTTAGAAGATTT
* *
18789501 GCAATTTTAGAAGATTT
1 GTAATCTTAGAAGATTT
18789518 GTAATCTTAGAAGATTT
1 GTAATCTTAGAAGATTT
18789535 G
1 G
18789536 ATTATGTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (17 bp):
GTAATCTTAGAAGATTT
Found at i:18789548 original size:24 final size:22
Alignment explanation
Indices: 18789513--18789565 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
18789503 AATTTTAGAA
18789513 GATTTGT-AATCTTAGAAGATTT
1 GATTTGTAAATCTTAG-AGATTT
18789535 GATTATGTAAATCTTAGAGATTT
1 GATT-TGTAAATCTTAGAGATTT
*
18789558 AATTTGTA
1 GATTTGTA
18789566 GATTGCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 12 0.43
24 8 0.29
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (22 bp):
GATTTGTAAATCTTAGAGATTT
Found at i:18793675 original size:75 final size:75
Alignment explanation
Indices: 18793550--18793695 Score: 265
Period size: 75 Copynumber: 1.9 Consensus size: 75
18793540 AGTTTTACTA
*
18793550 ACCTAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCGTTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
18793615 ATACTTTCCC
66 ATACTTTCCC
* *
18793625 ACCTAATATTATAACCATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
18793690 ATACTT
66 ATACTT
18793696 GCCAATTTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 68 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.34
Consensus pattern (75 bp):
ACCTAATATTAAAACCATAAATAGTGAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
ATACTTTCCC
Found at i:18793813 original size:16 final size:16
Alignment explanation
Indices: 18793794--18793845 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
18793784 TGGTTGGCTA
18793794 TAATGGAATA-AGGCTG
1 TAATGGAATAGA-GCTG
* *
18793810 TAATTGAATAGAGTTG
1 TAATGGAATAGAGCTG
18793826 TAATGGAATAGAGCTG
1 TAATGGAATAGAGCTG
18793842 TAAT
1 TAAT
18793846 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 30 0.97
17 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.27, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:18802827 original size:42 final size:42
Alignment explanation
Indices: 18802753--18802878 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
18802743 GTGCTAACGG
* *
18802753 AAACCAGTAAAGGTTAAA-TAAAAGCTCATAAGAGTTTAA-TGAA
1 AAACCAGT-AGGGTTAAACTAAAA-CTCATAAGAGTTGAACTG-A
*
18802796 AAACCAGTAGGGTTAAACTAAAACTCGTAAGAGTTGAACTGA
1 AAACCAGTAGGGTTAAACTAAAACTCATAAGAGTTGAACTGA
* * * *
18802838 AACCCAATAGGGTT-AACTGAAACTCATATGAGTT-AACTGA
1 AAACCAGTAGGGTTAAACTAAAACTCATAAGAGTTGAACTGA
18802878 A
1 A
18802879 GCTTATGAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
40 7 0.10
41 17 0.23
42 34 0.47
43 15 0.21
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.23
Consensus pattern (42 bp):
AAACCAGTAGGGTTAAACTAAAACTCATAAGAGTTGAACTGA
Found at i:18802857 original size:20 final size:20
Alignment explanation
Indices: 18802826--18802878 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
18802816 AAACTCGTAA
18802826 GAGTTGAACTGAAACCCA-AT
1 GAGTT-AACTGAAACCCATAT
* *
18802846 AGGGTTAACTGAAACTCATAT
1 -GAGTTAACTGAAACCCATAT
18802867 GAGTTAACTGAA
1 GAGTTAACTGAA
18802879 GCTTATGAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 22 0.79
21 6 0.21
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (20 bp):
GAGTTAACTGAAACCCATAT
Found at i:18802887 original size:18 final size:19
Alignment explanation
Indices: 18802849--18802887 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18802839 ACCCAATAGG
18802849 GTTAACTGAAACTCATATGA
1 GTTAACTGAAACT-ATATGA
*
18802869 GTTAACTGAAGCT-TATGA
1 GTTAACTGAAACTATATGA
18802887 G
1 G
18802888 AGCTAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (19 bp):
GTTAACTGAAACTATATGA
Found at i:18804882 original size:27 final size:27
Alignment explanation
Indices: 18804852--18804905 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18804842 CATGATAGTC
18804852 GACAATTTTAGGGGGAAAAATTGCACA
1 GACAATTTTAGGGGGAAAAATTGCACA
18804879 GACAATTTTAGGGGGAAAAATTGCACA
1 GACAATTTTAGGGGGAAAAATTGCACA
18804906 AATTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (27 bp):
GACAATTTTAGGGGGAAAAATTGCACA
Found at i:18808609 original size:16 final size:17
Alignment explanation
Indices: 18808588--18808619 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18808578 AAAATAAATT
18808588 GTTAAAAAATA-AAAAA
1 GTTAAAAAATATAAAAA
18808604 GTTAAAAAATATAAAA
1 GTTAAAAAATATAAAA
18808620 CTCAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
GTTAAAAAATATAAAAA
Found at i:18808821 original size:19 final size:21
Alignment explanation
Indices: 18808786--18808827 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
18808776 AATTTTAAAA
18808786 TTTTTATATATTTAAAT-ATT
1 TTTTTATATATTTAAATAATT
18808806 TTTTTA-AT-TTTGAAATAATT
1 TTTTTATATATTT-AAATAATT
18808826 TT
1 TT
18808828 AGTTTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.15
19 6 0.30
20 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTATATATTTAAATAATT
Found at i:18808827 original size:17 final size:17
Alignment explanation
Indices: 18808807--18808857 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
18808797 TTAAATATTT
*
18808807 TTTTAATTTTGAAATAA
1 TTTTAATTTTTAAATAA
* **
18808824 TTTTAGTTTTTTCATAA
1 TTTTAATTTTTAAATAA
18808841 TTTTATATTTTTAAATA
1 TTTTA-ATTTTTAAATA
18808858 TATATTTTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTTAATTTTTAAATAA
Found at i:18810460 original size:17 final size:18
Alignment explanation
Indices: 18810440--18810477 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
18810430 AAGAATTTAT
18810440 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
18810457 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
18810475 AAA
1 AAA
18810478 CCTGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:18811102 original size:15 final size:17
Alignment explanation
Indices: 18811082--18811113 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
18811072 TTAGGAAACG
18811082 TACATAA-A-AAATATA
1 TACATAATATAAATATA
18811097 TACATAATATAAATATA
1 TACATAATATAAATATA
18811114 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:18811119 original size:22 final size:21
Alignment explanation
Indices: 18811091--18811134 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
18811081 GTACATAAAA
18811091 AATATATACATAATATA-AATAT
1 AATATATAC--AATATACAATAT
18811113 AATATATACAATATACAATAT
1 AATATATACAATATACAATAT
18811134 A
1 A
18811135 CACATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 6 0.29
22 9 0.43
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AATATATACAATATACAATAT
Found at i:18811662 original size:11 final size:11
Alignment explanation
Indices: 18811628--18811669 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18811618 AAATCATTTT
18811628 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
18811639 GAA-AAAAAAA
1 GAAGAGAGAAA
*
18811649 GAAGGGAGAAA
1 GAAGAGAGAAA
18811660 GAAGAGAGAA
1 GAAGAGAGAA
18811670 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:18813213 original size:72 final size:72
Alignment explanation
Indices: 18812997--18813697 Score: 970
Period size: 72 Copynumber: 9.5 Consensus size: 72
18812987 GTGATCTGAA
*
18812997 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACCTCAGC
**
18813062 ATGTGAACCGAG
63 --GTGTCCCGAG
* * * *
18813074 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAATAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCG
**
18813139 TGTCTTGAG
64 TGTCCCGAG
** *
18813148 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
18813213 TCTCGAG
66 TCCCGAG
18813220 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
18813285 TCCCGAG
66 TCCCGAG
* * *
18813292 GCTCAACTCACCTATCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
18813357 TCCCGAG
66 TCCCGAG
18813364 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
18813429 TCCCGAG
66 TCCCGAG
* *
18813436 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTCTGAAAAACAAAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT-TG-AAAACAGAAATTGAAATTACCTC
* **
18813501 AGCATGTCTTGAG
60 AGCGTGTCCCGAG
** *
18813514 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
18813579 TCCTGAG
66 TCCCGAG
** * *
18813586 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-AAATTACCTCAG
*
18813651 CGTGTCCTGAG
62 CGTGTCCCGAG
18813662 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTT
18813698 TTGAAAAATA
Statistics
Matches: 571, Mismatches: 42, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
72 335 0.59
73 2 0.00
74 42 0.07
75 16 0.03
76 74 0.13
77 43 0.08
78 59 0.10
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (72 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCCGAG
Found at i:18813293 original size:144 final size:144
Alignment explanation
Indices: 18812992--18814540 Score: 1623
Period size: 144 Copynumber: 10.4 Consensus size: 144
18812982 AGTGTGTGAT
* *
18812992 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATTGAAATTACC
* * *
18813057 TCAGCATGTGAACCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAATAGAAA
63 TCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAA
* *
18813122 TTGAAAATACCTCAACGTGTC
124 TTGAAATTACCTCAGCGTGTC
* ** *
18813143 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
18813208 GCGTGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAA
66 GCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
18813272 TTACCTCAGCGTGTC
130 TTACCTCAGCGTGTC
* * * *
18813287 CCGAGGCTCAACTCACCTATCACAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
18813352 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAA
66 GCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAA
18813416 TTACCTCAGCGTGTC
130 TTACCTCAGCGTGTC
* * *
18813431 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTCTGAAAAACAAAAATTGAAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTT-TG-AAAACAGAAATTGAAATT
* * ** *
18813496 ACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAA
60 ACCTCAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAA
18813560 TTGAAATTACCTCAGCGTGTC
124 TTGAAATTACCTCAGCGTGTC
** *
18813581 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAAATTAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAA-AACAGAAATTG-AAATTAC
*
18813646 CTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAAAATATAA
62 CTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTG-A-----TT------T-T--
* *
18813711 ATTGAAAAGAAGAAATTGAAATTACCTCAACGTG-C
111 -TTGAAAA-CAGAAATTGAAATTACCTCAGCGTGTC
*
18813746 CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACAT
1 C-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCT
* ** *
18813811 CAGCGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTTGAAAAATAGATTGAA
64 CAGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTT------T---TTGAA
* * *
18813876 ACACAAAAATTGACAA-TACCTCAGTGTGCC
116 A-ACAGAAATTGA-AATTACCTCAGCGTGTC
* *
18813906 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
*
18813971 GCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTGGAAAAACAAAAA
66 GCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTT-G-AAAACAGAAA
* *
18814036 TTGAAAATACCTCAGCATGTC
124 TTGAAATTACCTCAGCGTGTC
* ** *
18814057 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
** *
18814122 GCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTAACAACAGAAATT
66 GCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAA-AACAGAAATT
*
18814187 GAAAATTACCTCAGTGTGTC
126 G-AAATTACCTCAGCGTGTC
*
18814207 CTGAGGCTCAACTCACC-CATCGC-A-AT--G-TGA-----G----CAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTC-TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
* * * * *
18814257 AACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAA-ATAAAATGAA
65 AGCGTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAA
* *
18814320 AATACCTCAGCGTGCC
129 ATTACCTCAGCGTGTC
* * *
18814336 CTGAGGCTTAACTCACCTTTCGCAATATGAGTTGATTTTTGACAAACATAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCTC
18814401 AGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAA
65 AGCGTGT--CC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTGAAA-ACAGAA
* *
18814466 ATTGAAAATACCTCAACGTGTC
123 ATTGAAATTACCTCAGCGTGTC
* * * *
18814488 TTGAGGCTCAACCCACCTCTCGTAATATGAGTTGATTTTTTG-AAACATAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATT
18814541 AAAACATAAA
Statistics
Matches: 1212, Mismatches: 109, Indels: 154
0.82 0.07 0.10
Matches are distributed among these distances:
129 35 0.03
130 7 0.01
131 4 0.00
132 7 0.01
133 1 0.00
134 3 0.00
136 55 0.05
139 1 0.00
140 1 0.00
144 226 0.19
145 5 0.00
146 72 0.06
147 11 0.01
148 80 0.07
149 24 0.02
150 183 0.15
151 162 0.13
152 55 0.05
153 7 0.01
154 1 0.00
158 58 0.05
159 74 0.06
160 10 0.01
161 1 0.00
162 2 0.00
163 45 0.04
164 17 0.01
165 10 0.01
166 55 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (144 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAT
TACCTCAGCGTGTC
Found at i:18813806 original size:73 final size:73
Alignment explanation
Indices: 18813721--18813859 Score: 224
Period size: 73 Copynumber: 1.9 Consensus size: 73
18813711 ATTGAAAAGA
*
18813721 AGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACATCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
18813786 TGACAAAC
66 TGACAAAC
* * ** *
18813794 AGAAATTGAAATTACATCAGCGTGTCTTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTT
1 AGAAATTGAAATTACATCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
18813859 T
66 T
18813860 TGAAAAATAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 60 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (73 bp):
AGAAATTGAAATTACATCAACGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGACAAAC
Found at i:18814001 original size:72 final size:73
Alignment explanation
Indices: 18813871--18814237 Score: 418
Period size: 72 Copynumber: 4.9 Consensus size: 73
18813861 GAAAAATAGA
* * * * *
18813871 TTGAAACACAAAAATTGACAA-TACCTCAGTGTGCCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAA-ACAGAAATTGA-AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
18813935 AGTTGA-TTT
64 AGTTGATTTT
*
18813944 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
18814009 TTGATTTTTTTT
66 TTGA----TTTT
* * * * **
18814021 TTGGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TT-G-AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
18814086 AGTTGA-ATT
64 AGTTGATTTT
**
18814095 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
18814160 TTGATTTTTTT
66 TTGA---TTTT
* * *
18814171 TTTAACAACAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACC-CATCGCAATGT
1 TTGAA-AACAGAAATTG-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTC-TCGCAATAT
18814235 GAG
63 GAG
18814238 CAGAAATTGA
Statistics
Matches: 257, Mismatches: 22, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
71 2 0.01
72 118 0.46
73 7 0.03
74 4 0.02
76 6 0.02
77 17 0.07
78 44 0.17
79 59 0.23
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:18814112 original size:151 final size:147
Alignment explanation
Indices: 18813712--18814540 Score: 892
Period size: 151 Copynumber: 5.6 Consensus size: 147
18813702 AAAATATAAA
* *
18813712 TTGAAAAGA-AGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAA-ACAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATAT
* * **
18813775 GAGTTGATTTTTGACAAACAGAAATTGAAATTACATCAGCGTGTCTTGAGGCTCAACTCATTTCT
64 GAGTTGATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
*
18813840 CGTAATATGAGTTGATTTTT
128 CGCAATATGAGTTGATTTTT
* * * * * *
18813860 TGAAAAATAGATTGAAACACAAAAATTGACAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTT
1 T------T-GA---AAA-ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTC
*
18813925 TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAAC
55 TCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAAC
18813990 TCACCTCTCGCAATATGAGTTGATTTTTTTT
120 TCACCTCTCGCAATATGAGTTGA---TTTTT
* * * **
18814021 TTGGAAAAACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TT-GAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
* **
18814086 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCG
65 AGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCG
18814151 CAATATGAGTTGATTTTTTT
130 CAATATGAGTTGA--TTTTT
* * *
18814171 TTTAACAACAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACC-CATCGC-A-AT
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTC-TCGCAATAT
* * * *
18814233 --G-TGA-----G----CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTC
64 GAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
18814286 GCAATATGAGTTGA--TTT
129 GCAATATGAGTTGATTTTT
* * * *
18814303 TTGAAAAATA-AAA-TGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
18814366 GTTGATTTTTGACAAACATAAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCT
66 GTTGATTTTTGA-AAACAGAAATTGAAATTACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCT
18814431 CGCAATATGAGTTGATTTTTTT
128 CGCAATATGAGTTGA--TTTTT
* * * * *
18814453 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGTAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
18814518 GTTGATTTTTTG-AAACATAAATT
66 GTTGA-TTTTTGAAAACAGAAATT
18814541 AAAACATAAA
Statistics
Matches: 576, Mismatches: 63, Indels: 81
0.80 0.09 0.11
Matches are distributed among these distances:
129 32 0.06
130 7 0.01
131 5 0.01
132 10 0.02
133 1 0.00
134 3 0.01
136 56 0.10
139 1 0.00
140 1 0.00
144 23 0.04
145 3 0.01
146 35 0.06
148 3 0.01
149 18 0.03
150 50 0.09
151 136 0.24
152 51 0.09
153 6 0.01
154 1 0.00
155 5 0.01
158 63 0.11
159 58 0.10
160 2 0.00
161 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTT
Found at i:18814309 original size:59 final size:59
Alignment explanation
Indices: 18814179--18814295 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 59
18814169 TTTTTAACAA
** *
18814179 CAGAAATTGAAAATTACCTCAGTGTGTCCTGAGGCTCAACTCACCCATCGCAATGTGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCATCGCAATATGAG
* *
18814238 CAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTTAACTCACCTC-TCGCAATATGAG
1 CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACC-CATCGCAATATGAG
18814296 TTGATTTTTG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
58 38 0.73
59 14 0.27
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (59 bp):
CAGAAATTGAAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCCATCGCAATATGAG
Found at i:18814361 original size:71 final size:73
Alignment explanation
Indices: 18814241--18814544 Score: 393
Period size: 71 Copynumber: 4.1 Consensus size: 73
18814231 ATGTGAGCAG
* *
18814241 AAATTGAAAATACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18814305 GAAAA-AT
66 GAAAACAT
* * * * *
18814312 AAAATGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTTTCGCAATATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18814376 GACAAACAT
66 GA-AAACAT
* *
18814385 AAATTGAAATTACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---T
*
18814450 TTTTTGAAAGACAG
61 TTTTTGAAA-ACAT
* * *
18814464 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACCCACCTCTCGTAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18814529 G-AAACAT
66 GAAAACAT
18814536 AAATT-AAAA
1 AAATTGAAAA
18814545 CATAAAAATT
Statistics
Matches: 207, Mismatches: 17, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
71 65 0.31
72 11 0.05
73 24 0.12
74 7 0.03
75 34 0.16
77 33 0.16
78 2 0.01
79 31 0.15
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (73 bp):
AAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
GAAAACAT
Found at i:18814609 original size:86 final size:88
Alignment explanation
Indices: 18814490--18814703 Score: 244
Period size: 89 Copynumber: 2.4 Consensus size: 88
18814480 AACGTGTCTT
* *
18814490 GAGGCTCAACCCACCTCTCGTAATATGAGTTGATTTTTTG-AAACATAAATT-AAAACATAAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAA-ATAAAAA
* *
18814553 T-TGACAATACCTCAG-CGT-A-CCCC
65 TAT-A-AATACCTC-GTCATGAGACCC
* **
18814576 GAGGCTCAACTCACCTCTCGCAATATGAATTGA-TTTTTGAAAAACATAAATTGAAAAATGGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATTGAAAAATAAAAA
*
18814640 TCATAAATACCTCGTCATGAGACCT
65 T-ATAAATACCTCGTCATGAGACCC
*
18814665 GAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
18814704 TTATGAACAG
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
85 6 0.06
86 31 0.28
87 27 0.25
88 6 0.06
89 34 0.31
90 5 0.05
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (88 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAAATAAAAAT
ATAAATACCTCGTCATGAGACCC
Found at i:18815582 original size:6 final size:6
Alignment explanation
Indices: 18815571--18815609 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
18815561 GATCCCTCTC
*
18815571 TCTTTT TCTTTT TCTTTT TTTCTTT TCTTTT CTCTTTT T
1 TCTTTT TCTTTT TCTTTT TCT-TTT TCTTTT -TCTTTT T
18815610 TTTAAGATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:18815588 original size:12 final size:12
Alignment explanation
Indices: 18815571--18815609 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
18815561 GATCCCTCTC
18815571 TCTTTTTCTTTT
1 TCTTTTTCTTTT
*
18815583 TCTTTTTTTCTTT
1 TCTTTTTCT-TTT
18815596 TCTTTTCTCTTTT
1 TCTTTT-TCTTTT
18815609 T
1 T
18815610 TTTAAGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.35
13 13 0.57
14 2 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:18815598 original size:19 final size:20
Alignment explanation
Indices: 18815574--18815611 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
18815564 CCCTCTCTCT
18815574 TTTTCTTTT-TCTTTTTTTC
1 TTTTCTTTTCTCTTTTTTTC
18815593 TTTTCTTTTCTCTTTTTTT
1 TTTTCTTTTCTCTTTTTTT
18815612 TAAGATGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTCTTTTCTCTTTTTTTC
Found at i:18822999 original size:4 final size:4
Alignment explanation
Indices: 18822954--18822988 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
18822944 AGGATATGCC
* *
18822954 ATGA ATGA ATGA ATGA ATGC ATGA ATGA TTGA ATG
1 ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATGA ATG
18822989 CCAAATGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.29
Consensus pattern (4 bp):
ATGA
Found at i:18824898 original size:18 final size:18
Alignment explanation
Indices: 18824856--18824900 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
18824846 GAAAAATAAG
18824856 AATTTTT-AAAACACGAA
1 AATTTTTGAAAACACGAA
18824873 AA-TTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
18824890 AATTTTTGAAA
1 AATTTTTGAAA
18824901 CCTGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.15
17 14 0.54
18 8 0.31
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:18825554 original size:23 final size:23
Alignment explanation
Indices: 18825503--18825554 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
18825493 TAGGAAACGT
*
18825503 ACATAAAAATATATACATAATATA
1 ACATATAAATATATACA-AATATA
18825527 A-ATATAAATATATAC-AATATA
1 ACATATAAATATATACAAATATA
18825548 CACATAT
1 -ACATAT
18825555 GATAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 6 0.24
22 1 0.04
23 17 0.68
24 1 0.04
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (23 bp):
ACATATAAATATATACAAATATA
Found at i:18826077 original size:11 final size:11
Alignment explanation
Indices: 18826044--18826086 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
18826034 AAATCATTTT
18826044 GAAGAGAGAAA
1 GAAGAGAGAAA
* * *
18826055 GAAAAAAAAAA
1 GAAGAGAGAAA
*
18826066 GAAGGGAGAAA
1 GAAGAGAGAAA
18826077 GAAGAGAGAA
1 GAAGAGAGAA
18826087 GGGAGGGGGA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:18827378 original size:22 final size:22
Alignment explanation
Indices: 18827351--18827397 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
18827341 CTTTTACAAC
* * *
18827351 TAGATCTTTCTATTCAATTCAT
1 TAGATCCTACTATTAAATTCAT
18827373 TAGATCCTACTATTAAATTCAT
1 TAGATCCTACTATTAAATTCAT
18827395 TAG
1 TAG
18827398 TTTTTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (22 bp):
TAGATCCTACTATTAAATTCAT
Found at i:18831483 original size:19 final size:19
Alignment explanation
Indices: 18831459--18831496 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
18831449 AAAATATTTT
18831459 TTATAATGTTTTA-AAAAAA
1 TTATAAT-TTTTATAAAAAA
18831478 TTATAATTTTTATAAAAAA
1 TTATAATTTTTATAAAAAA
18831497 AACTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (19 bp):
TTATAATTTTTATAAAAAA
Found at i:18833850 original size:58 final size:58
Alignment explanation
Indices: 18833782--18833941 Score: 268
Period size: 59 Copynumber: 2.8 Consensus size: 58
18833772 ATTATTCCCT
18833782 CATTGGGGCTTGAACTTGTTTTTTCCAAGTTAGTCCCTTAACTTGGTAATTGCTCTCA
1 CATTGGGGCTTGAACTTGTTTTTTCCAAGTTAGTCCCTTAACTTGGTAATTGCTCTCA
*
18833840 CATTGGGGCTTGAACTTGTTTTTTTCCAAGTTAGTCCCTTAACCTGGTAATTGCTCTCA
1 CATTGGGGCTTGAACTTG-TTTTTTCCAAGTTAGTCCCTTAACTTGGTAATTGCTCTCA
* * *
18833899 CATTGGGGCTTAAACAT-TTTTTTCCAAGTTAGTCCCTGAACTT
1 CATTGGGGCTTGAACTTGTTTTTTCCAAGTTAGTCCCTTAACTT
18833942 TTTTTGGGTC
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
57 24 0.25
58 18 0.19
59 54 0.56
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.41
Consensus pattern (58 bp):
CATTGGGGCTTGAACTTGTTTTTTCCAAGTTAGTCCCTTAACTTGGTAATTGCTCTCA
Found at i:18846937 original size:26 final size:25
Alignment explanation
Indices: 18846907--18846962 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
18846897 AATACCTTTT
*
18846907 AATTAATTAATA-TAAATTATTTATAA
1 AATTAA-TAATACTAAAATATTT-TAA
18846933 AATTAATAATACTTAAAATATTTTAA
1 AATTAATAATAC-TAAAATATTTTAA
18846959 AATT
1 AATT
18846963 TTAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 5 0.19
26 13 0.48
27 9 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
AATTAATAATACTAAAATATTTTAA
Found at i:18847019 original size:33 final size:33
Alignment explanation
Indices: 18846940--18847051 Score: 106
Period size: 33 Copynumber: 3.4 Consensus size: 33
18846930 TAAAATTAAT
* * *
18846940 AATACTTAAAATATTTTAA-AATTT--TAAATAT
1 AATACATAAAATATTTAAATAATTTAATAAA-AC
18846971 AATA-ATAAATTATATTTAAATAATTTAATAAAAC
1 AATACATAAA--ATATTTAAATAATTTAATAAAAC
* * *
18847005 AATACATGAAATATTTAAATAATTTAATATAAT
1 AATACATAAAATATTTAAATAATTTAATAAAAC
*
18847038 AGTACATAAAATAT
1 AATACATAAAATAT
18847052 AAATTAATCT
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
30 4 0.06
31 4 0.06
32 8 0.12
33 38 0.57
34 5 0.07
35 8 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (33 bp):
AATACATAAAATATTTAAATAATTTAATAAAAC
Found at i:18864732 original size:6 final size:6
Alignment explanation
Indices: 18864721--18864745 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18864711 GGAACAGATT
18864721 CGGCTG CGGCTG CGGCTG CGGCTG C
1 CGGCTG CGGCTG CGGCTG CGGCTG C
18864746 TGCATTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.36, G:0.48, T:0.16
Consensus pattern (6 bp):
CGGCTG
Found at i:18864898 original size:6 final size:6
Alignment explanation
Indices: 18864884--18864939 Score: 103
Period size: 6 Copynumber: 9.3 Consensus size: 6
18864874 TAAGATTAGA
*
18864884 TTTGAT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT
18864932 TTTGGT TT
1 TTTGGT TT
18864940 ACTTTTTGGG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 49 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (6 bp):
TTTGGT
Found at i:18865744 original size:27 final size:27
Alignment explanation
Indices: 18865713--18865766 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
18865703 AAAAAAATGA
18865713 AAAGTTTTCTTTAACTTTAAATTTAAT
1 AAAGTTTTCTTTAACTTTAAATTTAAT
18865740 AAAGTTTTCTTTAACTTTAAATTTAAT
1 AAAGTTTTCTTTAACTTTAAATTTAAT
18865767 TAATAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (27 bp):
AAAGTTTTCTTTAACTTTAAATTTAAT
Found at i:18868024 original size:24 final size:23
Alignment explanation
Indices: 18867980--18868029 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
18867970 AAAATGAGAG
* * *
18867980 AAAATAATAAAGAAAATGAAATA
1 AAAATAAGAAAGAAAAAGAAAGA
18868003 AAAATAAGAGAAGAAAAAGAAAGA
1 AAAATAAGA-AAGAAAAAGAAAGA
18868027 AAA
1 AAA
18868030 GACGAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (23 bp):
AAAATAAGAAAGAAAAAGAAAGA
Found at i:18875113 original size:46 final size:48
Alignment explanation
Indices: 18875046--18875142 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
18875036 ACAGGACAAA
* *
18875046 AATGAGCCATATAAGTCCATATCA-GT-TATATGGCTTTGGAGACAGG
1 AATGAGCCATATAAGTCCATATCATATATATATGGCATTGGAGACAGG
* * *
18875092 AATGAGCCATGTAAG-CTCATATTATATATATATGGCATTGGAGGCAGG
1 AATGAGCCATATAAGTC-CATATCATATATATATGGCATTGGAGACAGG
18875140 AAT
1 AAT
18875143 AATTCATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
45 1 0.02
46 20 0.47
47 1 0.02
48 21 0.49
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (48 bp):
AATGAGCCATATAAGTCCATATCATATATATATGGCATTGGAGACAGG
Found at i:18877271 original size:14 final size:14
Alignment explanation
Indices: 18877252--18877280 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18877242 ACATTTAAAC
18877252 ATTAAAGCTAAAAT
1 ATTAAAGCTAAAAT
18877266 ATTAAAGCTAAAAT
1 ATTAAAGCTAAAAT
18877280 A
1 A
18877281 AGAAAACAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.28
Consensus pattern (14 bp):
ATTAAAGCTAAAAT
Found at i:18878755 original size:7 final size:7
Alignment explanation
Indices: 18878736--18878764 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
18878726 TTTTTGATAT
18878736 TTTAAAA
1 TTTAAAA
18878743 -TTAAAA
1 TTTAAAA
18878749 TTTAAAA
1 TTTAAAA
18878756 TTTAAAA
1 TTTAAAA
18878763 TT
1 TT
18878765 AGAATATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:18887246 original size:26 final size:26
Alignment explanation
Indices: 18887181--18887263 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 26
18887171 GTTACCTAAT
* *
18887181 CAGTGAAAAGTGGTAGCTTCTGTACCTGAT
1 CAGTGAAAAGTGGTAG-TTCTG--GCT-AC
*
18887211 CAGTAAAAAGTGGTAGTTCTGGCTAC
1 CAGTGAAAAGTGGTAGTTCTGGCTAC
* *
18887237 CAGTGAAAAGTGGTAGCTCCGGCTAC
1 CAGTGAAAAGTGGTAGTTCTGGCTAC
18887263 C
1 C
18887264 TGATTAGTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 25 0.53
27 2 0.04
29 5 0.11
30 15 0.32
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (26 bp):
CAGTGAAAAGTGGTAGTTCTGGCTAC
Found at i:18887247 original size:56 final size:57
Alignment explanation
Indices: 18887181--18887294 Score: 160
Period size: 57 Copynumber: 2.0 Consensus size: 57
18887171 GTTACCTAAT
* * * *
18887181 CAGTGAAAAGTGGTAGCTTCTG-TACCTGATCAGT-AAAAAGTGGTAGTTCTGGCTAC
1 CAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAA-TGGTAGCTCTAGCTAC
*
18887237 CAGTGAAAAGTGGTAGCTCCGGCTACCTGATTAGTGAAAAATGGTAGCTCTAGCTAC
1 CAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCTAGCTAC
18887294 C
1 C
18887295 TGATCAGTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
56 20 0.39
57 26 0.51
58 5 0.10
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (57 bp):
CAGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCTAGCTAC
Found at i:18887254 original size:87 final size:88
Alignment explanation
Indices: 18887151--18887324 Score: 228
Period size: 87 Copynumber: 2.0 Consensus size: 88
18887141 ATAAATGACA
* * *
18887151 AGTGAAAAGTGGTAGCTTCAGTTACCTAATCAGTGAAAAGTGGTAGCTTCT-G-TACCTGATCAG
1 AGTGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGC-TCTAGCTACCTGATCAG
*
18887214 TAAAAAGTGGTAG-TTCTGGCTACC
65 TAAAAAGTGATAGCTTC-GGCTACC
* * *
18887238 AGTGAAAAGTGGTAGCTCCGGCTACCTGATTAGTGAAAAATGGTAGCTCTAGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGCTCTAGCTACCTGATCAGT
* *
18887303 GAATAGTGATAGCTTCGGCTAC
66 AAAAAGTGATAGCTTCGGCTAC
18887325 AAATGACAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
86 3 0.04
87 42 0.56
88 27 0.36
89 3 0.04
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (88 bp):
AGTGAAAAGTGGTAGCTCCAGCTACCTAATCAGTGAAAAATGGTAGCTCTAGCTACCTGATCAGT
AAAAAGTGATAGCTTCGGCTACC
Found at i:18887324 original size:31 final size:31
Alignment explanation
Indices: 18887151--18887324 Score: 175
Period size: 31 Copynumber: 5.8 Consensus size: 31
18887141 ATAAATGACA
* * *
18887151 AGTGAAAAGTGGTAGCTTCAGTTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18887182 AGTGAAAAGTGGTAGCTTCTG-TACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
18887212 AGTAAAAAGTGGTAG-TTCTGGCTA-C----C
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
18887238 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
18887269 AGTGAAAAATGGTAGC-TCTAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
18887300 AGTGAATAGTGATAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
18887325 AAATGACAAG
Statistics
Matches: 118, Mismatches: 15, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
26 20 0.17
27 3 0.03
29 3 0.03
30 25 0.21
31 65 0.55
32 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:18887419 original size:47 final size:46
Alignment explanation
Indices: 18887349--18887513 Score: 153
Period size: 47 Copynumber: 3.7 Consensus size: 46
18887339 AAGTGATTTC
* *
18887349 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
** * *
18887395 CAGTATAAGACCATATCTGGGATATGGCATAAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* *
18887442 CGTGTAAGACCATAGT-TGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATA-TCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
18887484 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
18887514 ATTATGTGAA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.25
47 41 0.40
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:18887504 original size:42 final size:43
Alignment explanation
Indices: 18887443--18887557 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 43
18887433 TATGTGATTC
*
18887443 GTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* *
18887485 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* **
18887527 GTGTAAAACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
18887558 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:18902371 original size:46 final size:46
Alignment explanation
Indices: 18902304--18902395 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
18902294 CCCCAAGTGG
18902304 CTTGTTCAGTTAATAAGGGGACGGACTCGTCAACTTGGCCTTCGAT
1 CTTGTTCAGTTAATAAGGGGACGGACTCGTCAACTTGGCCTTCGAT
18902350 CTTGTTCAGTTAATAAGGGGACGGACTCGTCAACTTGGCCTTCGAT
1 CTTGTTCAGTTAATAAGGGGACGGACTCGTCAACTTGGCCTTCGAT
18902396 TTCATATACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (46 bp):
CTTGTTCAGTTAATAAGGGGACGGACTCGTCAACTTGGCCTTCGAT
Found at i:18905080 original size:29 final size:30
Alignment explanation
Indices: 18905038--18905118 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 30
18905028 GGATTGAATC
* *
18905038 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTACACAT
* * *
18905068 AAATCAAAGTTCATATATACAATTATACATT
1 AAATCAAAGTTCATGTATAAAATTACACA-T
* *
18905099 AAATCATAGTTTATGTATAA
1 AAATCAAAGTTCATGTATAA
18905119 TTTAATATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 19 0.47
30 5 0.12
31 16 0.40
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTACACAT
Found at i:18905856 original size:47 final size:47
Alignment explanation
Indices: 18905787--18905879 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
18905777 AGATATTGCC
*
18905787 ACTACTTATTTCATTTTTGGGTGAAGTTTGTGAGAAAAAAAAGATCA
1 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATCA
18905834 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATC
1 ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATC
18905880 TCGATAGGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (47 bp):
ACTACTTATTTCATTTTTGGGTGAAGATTGTGAGAAAAAAAAGATCA
Found at i:18916447 original size:18 final size:18
Alignment explanation
Indices: 18916426--18916464 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
18916416 TAAAATAAAA
*
18916426 ATTTAAATAAAAACTATT
1 ATTTAAATAAAAAATATT
**
18916444 ATTTTTATAAAAAATATT
1 ATTTAAATAAAAAATATT
18916462 ATT
1 ATT
18916465 GATTTAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAAATAAAAAATATT
Found at i:18916472 original size:18 final size:18
Alignment explanation
Indices: 18916432--18916478 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
18916422 AAAAATTTAA
* *
18916432 ATAAAAACTATTATTTTT
1 ATAAAAAATATTATTATT
18916450 ATAAAAAATATTATTGATT
1 ATAAAAAATATTATT-ATT
*
18916469 -TAAATAATAT
1 ATAAAAAATAT
18916479 ATTTTTACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAAAAAATATTATTATT
Found at i:18917482 original size:14 final size:14
Alignment explanation
Indices: 18917465--18917513 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
18917455 TTAAAAATGC
18917465 ATATTTAATTATTT
1 ATATTTAATTATTT
*
18917479 ATATTT--TTGA-TA
1 ATATTTAATT-ATTT
*
18917491 AAATTTAATTATTT
1 ATATTTAATTATTT
18917505 ATATTTAAT
1 ATATTTAAT
18917514 AATATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 17 0.63
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
ATATTTAATTATTT
Found at i:18917526 original size:26 final size:26
Alignment explanation
Indices: 18917471--18917529 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
18917461 ATGCATATTT
* * *
18917471 AATTATTTATATTTTTGATAAAATTT
1 AATTATTTATATTTATAATAAAATTA
*
18917497 AATTATTTATATTTAATAATATAA-TA
1 AATTATTTATATTT-ATAATAAAATTA
18917523 AATTATT
1 AATTATT
18917530 AATAAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATAATAAAATTA
Found at i:18917676 original size:11 final size:11
Alignment explanation
Indices: 18917617--18917676 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
18917607 TAATTTTAAA
*
18917617 ATTTAAATAAT
1 ATTTTAATAAT
18917628 ATTCTTAA-AAT
1 ATT-TTAATAAT
*
18917639 ATTATTGAAAAAT
1 ATT-TT-AATAAT
*
18917652 ATTTATATTAAT
1 ATTT-TAATAAT
18917664 ATTTTAATAAT
1 ATTTTAATAAT
18917675 AT
1 AT
18917677 ATATTAATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
11 19 0.47
12 14 0.35
13 7 0.17
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:18919877 original size:22 final size:22
Alignment explanation
Indices: 18919852--18919937 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 22
18919842 ATTATTAAAT
18919852 TTATATATGATATTTATTATTA
1 TTATATATGATATTTATTATTA
* * * *
18919874 TTAT-TATAAAATATTATCA-AA
1 TTATATATGATAT-TTATTATTA
* *
18919895 TTAGATAT--TCTTTATTATGT-
1 TTATATATGATATTTATTAT-TA
*
18919915 TTATATATGATGTTTATTATTA
1 TTATATATGATATTTATTATTA
18919937 T
1 T
18919938 AAAATATTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 14
0.65 0.15 0.20
Matches are distributed among these distances:
19 5 0.11
20 8 0.17
21 11 0.24
22 22 0.48
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (22 bp):
TTATATATGATATTTATTATTA
Found at i:18931374 original size:31 final size:31
Alignment explanation
Indices: 18931319--18931386 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
18931309 TTTAATAGCC
** *
18931319 TAATAACTTAAATAAATTTTTTTAAATAGTT
1 TAATAACTTAAATAAAAATATTTAAATAGTT
* *
18931350 TAATTACTTAAATAAAAATATTTAAATAATT
1 TAATAACTTAAATAAAAATATTTAAATAGTT
*
18931381 AAATAA
1 TAATAA
18931387 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
TAATAACTTAAATAAAAATATTTAAATAGTT
Found at i:18931382 original size:22 final size:23
Alignment explanation
Indices: 18931342--18931386 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
18931332 AAATTTTTTT
* *
18931342 AAATAGTTTAATTACTTAAATAA
1 AAATAGTTTAAATAATTAAATAA
18931365 AAATA-TTTAAATAATTAAATAA
1 AAATAGTTTAAATAATTAAATAA
18931387 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AAATAGTTTAAATAATTAAATAA
Found at i:18938023 original size:13 final size:13
Alignment explanation
Indices: 18938005--18938031 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18937995 AGAAACCAAA
18938005 TTGATTATACCAG
1 TTGATTATACCAG
18938018 TTGATTATACCAG
1 TTGATTATACCAG
18938031 T
1 T
18938032 AAAGTATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGATTATACCAG
Found at i:18939697 original size:30 final size:30
Alignment explanation
Indices: 18939656--18939713 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
18939646 TATTGTTAAT
18939656 TTTTATTATTATTTTAAAGACATTTGCTAA
1 TTTTATTATTATTTTAAAGACATTTGCTAA
* * *
18939686 TTTTGTTATTATTTTAGAGGCATTTGCT
1 TTTTATTATTATTTTAAAGACATTTGCT
18939714 TGTTAAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.07, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTTATTATTATTTTAAAGACATTTGCTAA
Found at i:18939815 original size:18 final size:20
Alignment explanation
Indices: 18939794--18939834 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
18939784 GAAATATTTA
*
18939794 TTTTGAT-GTTTTTA-ATAT
1 TTTTGATGGTTTATATATAT
18939812 TTTTGATGGTTTATATATAT
1 TTTTGATGGTTTATATATAT
18939832 TTT
1 TTT
18939835 AAAATTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 6 0.30
20 7 0.35
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (20 bp):
TTTTGATGGTTTATATATAT
Found at i:18944025 original size:26 final size:25
Alignment explanation
Indices: 18943985--18944033 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
18943975 TCTCATCCCA
18943985 ATTTTACTCCAGTAAAATTTTGATG
1 ATTTTACTCCAGTAAAATTTTGATG
*
18944010 ATTTTAGCTCCGGTAAAATTTTGA
1 ATTTTA-CTCCAGTAAAATTTTGA
18944034 GAAAATTCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (25 bp):
ATTTTACTCCAGTAAAATTTTGATG
Found at i:18951860 original size:20 final size:21
Alignment explanation
Indices: 18951831--18951870 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18951821 AGTTAATATT
18951831 TATTGATTAA-AAAAATTATG
1 TATTGATTAATAAAAATTATG
* *
18951851 TATTGTTTAATAAAAGTTAT
1 TATTGATTAATAAAAATTAT
18951871 TTTAAAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (21 bp):
TATTGATTAATAAAAATTATG
Found at i:18956557 original size:44 final size:44
Alignment explanation
Indices: 18956506--18956706 Score: 153
Period size: 44 Copynumber: 4.5 Consensus size: 44
18956496 TCAGTCAGTT
*
18956506 TCCCTACTGCTTAGGGGGATAAGGCT-CACCGTCTTCAATCC-GC
1 TCCCTACTGCTTAGGGAGATAAGGCTGCACCGTCTTCAA-CCTGC
* * * * * *
18956549 TCCACTACTGTTTAGGGAGATAAGATCTGTA--ATTTTCAACCTGT
1 TCC-CTACTGCTTAGGGAGATAAG-GCTGCACCGTCTTCAACCTGC
* ** * *
18956593 TCCCTACTACTTAGGGAGATAAGG-TGGTCTGTCATTTTCAACCTGTT
1 TCCCTACTGCTTAGGGAGATAAGGCTGCACCGTC---TTCAACCTG-C
* * *
18956640 TCCCTACTGCTTAGGGGGATAAGGCT-CACCGTCTTCGATCTGC
1 TCCCTACTGCTTAGGGAGATAAGGCTGCACCGTCTTCAACCTGC
18956683 TCCACTACTGCTTAGGGAGATAAG
1 TCC-CTACTGCTTAGGGAGATAAG
18956707 ATCTGTAATT
Statistics
Matches: 123, Mismatches: 23, Indels: 23
0.73 0.14 0.14
Matches are distributed among these distances:
41 2 0.02
43 27 0.22
44 54 0.44
45 2 0.02
46 10 0.08
47 27 0.22
48 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (44 bp):
TCCCTACTGCTTAGGGAGATAAGGCTGCACCGTCTTCAACCTGC
Found at i:18956630 original size:46 final size:47
Alignment explanation
Indices: 18956574--18956663 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
18956564 GGAGATAAGA
18956574 TCTGTAATTTTCAACCTG-TTCCCTACTACTTAGGGAGATAAGGTGG
1 TCTGTAATTTTCAACCTGTTTCCCTACTACTTAGGGAGATAAGGTGG
* * *
18956620 TCTGTCATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGG
1 TCTGTAATTTTCAACCTGTTTCCCTACTACTTAGGGAGATAAGG
18956664 CTCACCGTCT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 17 0.43
47 23 0.57
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (47 bp):
TCTGTAATTTTCAACCTGTTTCCCTACTACTTAGGGAGATAAGGTGG
Found at i:18956735 original size:44 final size:43
Alignment explanation
Indices: 18956553--18956740 Score: 173
Period size: 44 Copynumber: 4.2 Consensus size: 43
18956543 ATCCGCTCCA
*
18956553 CTACTGTTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTCC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTCC
* * *
18956596 CTACTACTTAGGGAGATAAGGTGGTCTGTCATTTTCAACCTGTTTCC
1 CTACTGCTTAGGGAGATAA---GATCTGTAATTTTCAACCTG-TTCC
* * * * * * * *
18956643 CTACTGCTTAGGGGGATAAG-GCT-CACCGTCTTCGATCTGCTCC
1 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAACCTGTTCC
*
18956686 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTTCC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTG-TTCC
18956731 CTACTGCTTA
1 CTACTGCTTA
18956741 TGGGGTTATT
Statistics
Matches: 112, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
43 22 0.20
44 45 0.40
45 5 0.04
46 19 0.17
47 21 0.19
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAACCTGTTCC
Found at i:18956870 original size:87 final size:88
Alignment explanation
Indices: 18956620--18957062 Score: 631
Period size: 88 Copynumber: 5.1 Consensus size: 88
18956610 GATAAGGTGG
* * * * **
18956620 TCTGTCATTTTCAACCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
*
18956685 CACTACTGCTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* * ** *
18956708 TCTGTAATTTTCAGCCTGTTTCCCTACTGCTTATGGGGTTATTGCTCACCGTCTTCGATCCGCTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
* **
18956773 CACTATTGTTTAGGGAGATCGGA
66 CACTACTGTTTAGGGAGATAAGA
18956796 TCTGTAATTTTCAGCCTGTTTTCCT-CTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
18956860 CACTACTGTTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* * *
18956883 TCTGTAATTTCCAGCCTG-TTTCCTACTGCTTAGGGGGTTAAGACTCACCGTCTT-GATCCATTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
18956946 CACTACTGTTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
* * * * * *
18956969 TTTGTAATTTCCAGCCTGTTTTCCTATTACTTAGGGGGTTAAGGCTCACTGTCTTCGACCCACTC
1 TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
**
18957034 CACTACTACTTAGGGAGATAAGA
66 CACTACTGTTTAGGGAGATAAGA
18957057 TCTGTA
1 TCTGTA
18957063 CAATCAATTT
Statistics
Matches: 320, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
86 54 0.17
87 132 0.41
88 134 0.42
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (88 bp):
TCTGTAATTTTCAGCCTGTTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCGATCCACTC
CACTACTGTTTAGGGAGATAAGA
Found at i:18956910 original size:43 final size:43
Alignment explanation
Indices: 18956862--18956994 Score: 103
Period size: 43 Copynumber: 3.1 Consensus size: 43
18956852 ATCCACTCCA
18956862 CTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
1 CTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
* * * * * * * * *
18956905 CTACTGCTTAGGGGGTTAAGACTCACCGT--CTT-GATCC-ATTCC
1 CTACTGTTTAGGGAGATAAGA-T--CTGTAATTTCCAGCCTGTTTC
*
18956947 ACTACTGTTTAGGGAGATAAGATTTGTAATTTCCAGCCTGTTTTC
1 -CTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTG-TTTC
18956992 CTA
1 CTA
18956995 TTACTTAGGG
Statistics
Matches: 62, Mismatches: 19, Indels: 17
0.63 0.19 0.17
Matches are distributed among these distances:
40 2 0.03
42 6 0.10
43 42 0.68
44 6 0.10
45 3 0.05
46 3 0.05
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (43 bp):
CTACTGTTTAGGGAGATAAGATCTGTAATTTCCAGCCTGTTTC
Found at i:18962985 original size:88 final size:88
Alignment explanation
Indices: 18962830--18963359 Score: 704
Period size: 88 Copynumber: 6.0 Consensus size: 88
18962820 AAATCGATTC
* * * * *
18962830 TACAGATCTTATCTCCTTAAGCAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTGAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
18962895 CAGTAGGGAAACAGGCT-GAAGAT
66 CAGTAGGGAAACAGGCTGGAA-AT
* *
18962918 TACAGATCTTATCTCCCTAAATAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCTTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
*
18962983 CAGTA-GGAACACAAGCTGGAAAT
66 CAGTAGGGAA-ACAGGCTGGAAAT
* * * *
18963006 TACAGATCCTATCTCCCTAAACAGTAGTGTAGTGGATAGAAGACGGTAAGCCTTAACCCCCCCTA
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAA--CCCCCTA
* * *
18963071 AACAGTAGGGAAACAAGCTGAAAAT
64 AGCAGTAGGGAAACAGGCTGGAAAT
** *
18963096 TACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGTCTTAACCCCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
18963161 CAGTAGGGAAACAGGCTGGAAAT
66 CAGTAGGGAAACAGGCTGGAAAT
* * * * * *
18963184 TACAAATCTTATTTCCCTAAACAGTAGTGGAGTGGATCAAAAATGGTGAGCCTTAACCGCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
18963249 CAGTAGGGAAACAGGCTGGAAAT
66 CAGTAGGGAAACAGGCTGGAAAT
* * * * ** * *
18963272 TACATATCTTATTTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTATCCCCCTAAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
* *
18963337 CAGTAGGGAAACATGCTGAAAAT
66 CAGTAGGGAAACAGGCTGGAAAT
18963360 GATAGACCAC
Statistics
Matches: 391, Mismatches: 46, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
87 4 0.01
88 305 0.78
89 3 0.01
90 75 0.19
91 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACCCCCTAAG
CAGTAGGGAAACAGGCTGGAAAT
Found at i:18963127 original size:178 final size:175
Alignment explanation
Indices: 18962830--18963359 Score: 702
Period size: 178 Copynumber: 3.0 Consensus size: 175
18962820 AAATCGATTC
* * * * *
18962830 TACAGATCTTATCTCCTTAAGCAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTGAG
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATAGAAAACGGTGAGCCTTAACCCCCTAAG
* *
18962895 CAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAAATAGTAGTGGAGTGGATCGAAG
66 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
*
18962960 ACGGTGAGCCTTAACCCCTTAAGCAGTAGGAACACAAGCTGGAAAT
131 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGAA-ACAAGCTGGAAAT
* * * *
18963006 TACAGATCCTATCTCCCTAAACAGTAGTGTAGTGGATAGAAGACGGTAAGCCTTAACCCCCCCTA
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATAGAAAACGGTGAGCCTTAA--CCCCCTA
* * **
18963071 AACAGTAGGGAAACAAGCTGAAAATTACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGA
64 AGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGA
* *
18963136 AGACGGTGAGTCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAAT
129 AGACGGTGAGCCTTAACCCCCTAAGCAGTA-GGAAACAAGCTGGAAAT
* * * *
18963184 TACAAATCTTATTTCCCTAAACAGTAGTGGAGTGGATCA-AAAATGGTGAGCCTTAACCGCCTAA
1 TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGAT-AGAAAACGGTGAGCCTTAACCCCCTAA
* * * * * **
18963248 GCAGTAGGGAAACAGGCTGGAAATTACATATCTTATTTCCTTAAGCAGTAGTGGAGCAGATCGAA
65 GCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAA
* * * *
18963313 GACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACATGCTGAAAAT
130 GACGGTGAGCCTTAACCCCCTAAGCAGTA-GGAAACAAGCTGGAAAT
18963360 GATAGACCAC
Statistics
Matches: 308, Mismatches: 42, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
176 151 0.49
178 152 0.49
179 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (175 bp):
TACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATAGAAAACGGTGAGCCTTAACCCCCTAAG
CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
ACGGTGAGCCTTAACCCCCTAAGCAGTAGGAAACAAGCTGGAAAT
Found at i:18963316 original size:266 final size:264
Alignment explanation
Indices: 18962830--18963359 Score: 733
Period size: 266 Copynumber: 2.0 Consensus size: 264
18962820 AAATCGATTC
** * * *
18962830 TACAGATCTTATCTCCTTAAGCAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTGAG
1 TACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTAAG
* * * *
18962895 CAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAAATAGTAGTGGAGTGGATCGAAG
66 CAGTAGGGAAACAGGCTGAAGATTACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAA
18962960 ACGGTGAGCCTTAACCCCTTAAGCAGTAGGAACACAAGCTGGAAATTACAGATCCTATCTCCCTA
131 ACGGTGAGCCTTAACCCCTTAAGCAGTAGGAACACAAGCTGGAAATTACAGATCCTATCTCCCTA
* ** *
18963025 AACAGTAGTGTAGTGGATAGAAGACGGTAAGCCTTAACCCCCCCTAAACAGTAGGGAAACAAGCT
196 AACAGTAGTGGAGCAGATAGAAGACGATAAGCCTT-A-CCCCCCTAAACAGTAGGGAAACAAGCT
18963090 GAAAAT
259 GAAAAT
* * *
18963096 TACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGTCTTAACCCCCTAAG
1 TACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTAAG
*
18963161 CAGTAGGGAAACAGGCTGGAA-ATTACAAATCTTATTTCCCTAAACAGTAGTGGAGTGGATCAAA
66 CAGTAGGGAAACAGGCT-GAAGATTACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAA
* * * * *
18963225 AATGGTGAGCCTTAACCGCC-TAAGCAGTAGGGAA-ACAGGCTGGAAATTACATATCTTATTTCC
130 AACGGTGAGCCTTAACC-CCTTAAGCAGTA-GGAACACAAGCTGGAAATTACAGATCCTATCTCC
* * * * * * *
18963288 TTAAGCAGTAGTGGAGCAGATCGAAGACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACATGC
193 CTAAACAGTAGTGGAGCAGATAGAAGACGATAAGCCTTACCCCCCTAAACAGTAGGGAAACAAGC
18963353 TGAAAAT
258 TGAAAAT
18963360 GATAGACCAC
Statistics
Matches: 232, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
264 30 0.13
265 1 0.00
266 192 0.83
267 9 0.04
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (264 bp):
TACAGATCCGATCTCCCTAAACAGTAGTGGAGTGGATCGAAAACAGTGAGCCTTAACCCCCTAAG
CAGTAGGGAAACAGGCTGAAGATTACAAATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAA
ACGGTGAGCCTTAACCCCTTAAGCAGTAGGAACACAAGCTGGAAATTACAGATCCTATCTCCCTA
AACAGTAGTGGAGCAGATAGAAGACGATAAGCCTTACCCCCCTAAACAGTAGGGAAACAAGCTGA
AAAT
Found at i:18963432 original size:134 final size:135
Alignment explanation
Indices: 18963245--18963490 Score: 361
Period size: 134 Copynumber: 1.8 Consensus size: 135
18963235 CTTAACCGCC
* * * *
18963245 TAAGCAGTAGGGAAACAGGCTGGAAATTACATATCTTATTTCCTTAAGCAGTAGTGGAGC-AGAT
1 TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGA-AT
*
18963309 CGAAGACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACATGCTGAAAATGATAGACCACATTA
65 CGAAGACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATGATAGACCACATTA
18963374 TCCCCT
130 TCCCCT
* * * *
18963380 TAAGCAGTAGGG-AACGGGTTGAAAATTACAGATCTTATCTCCCTCAGCAGTAGTGGAGCGAATT
1 TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGAATC
* * *
18963444 GAAGACGGTGAGCTTTATCCCCTTAAGCAGTAGGGAAACAGGCTGAA
66 GAAGACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAA
18963491 GATTACAAAT
Statistics
Matches: 98, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
134 85 0.87
135 13 0.13
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (135 bp):
TAAGCAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGAATC
GAAGACGATGAGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAAATGATAGACCACATTAT
CCCCT
Found at i:18965117 original size:14 final size:15
Alignment explanation
Indices: 18965039--18965121 Score: 52
Period size: 14 Copynumber: 5.9 Consensus size: 15
18965029 TATTGTTTTG
*
18965039 TATATTATTTACTT-
1 TATATTATTTATTTA
*
18965053 TATATTATTTATCT-
1 TATATTATTTATTTA
* *
18965067 TA-A--ATTCATTTG
1 TATATTATTTATTTA
* * * *
18965079 TATATTGTTAAATAA
1 TATATTATTTATTTA
18965094 TATATTATTTATTTA
1 TATATTATTTATTTA
18965109 TAT-TTATTTATTT
1 TATATTATTTATTT
18965122 TTTAAAAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
11 6 0.12
12 2 0.04
13 2 0.04
14 24 0.46
15 18 0.35
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (15 bp):
TATATTATTTATTTA
Found at i:18966509 original size:14 final size:14
Alignment explanation
Indices: 18966490--18966519 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18966480 CTTAATTCAG
18966490 TAATAAAAATAAAA
1 TAATAAAAATAAAA
*
18966504 TAATAAAAATTAAA
1 TAATAAAAATAAAA
18966518 TA
1 TA
18966520 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
TAATAAAAATAAAA
Found at i:18967616 original size:25 final size:24
Alignment explanation
Indices: 18967575--18967624 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
18967565 TAACAATGAT
* *
18967575 AAATTTTAATTAAAATATAATTTA
1 AAATATTAATTAAAATAAAATTTA
*
18967599 AAATATTATATTATAATAAAATTTA
1 AAATATTA-ATTAAAATAAAATTTA
18967624 A
1 A
18967625 CTTAAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATATTAATTAAAATAAAATTTA
Found at i:18970452 original size:114 final size:114
Alignment explanation
Indices: 18970252--18970479 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
18970242 GACTTAATTG
*
18970252 AACGTTCTAAATCTTTCAAATAAGGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
1 AACGTTCTAAATCTTTCAAATAAAGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
18970317 AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
66 AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
18970366 AACGTTCTAAATCTTTCAAATAAAGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
1 AACGTTCTAAATCTTTCAAATAAAGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
18970431 AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
66 AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
18970480 GTAACACCCC
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (114 bp):
AACGTTCTAAATCTTTCAAATAAAGACCTAATCATTTAAATGACAAAATGTAAGGGACCAGATTT
AGAATTTTCAATTATTCATTTCTGCCAAATGCTTAAGGCATTTCACTCT
Found at i:18970963 original size:20 final size:21
Alignment explanation
Indices: 18970909--18970966 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
18970899 GGATAGGGGC
18970909 ACATGCCCGTGTGGCCTGGGAT
1 ACATGCCCGTGTGGCCT-GGAT
*
18970931 ACA--CCCGTATGGCCTGGA-
1 ACATGCCCGTGTGGCCTGGAT
*
18970949 ACATGCCAGTGTGGCCTG
1 ACATGCCCGTGTGGCCTG
18970967 CCCATGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 22 0.71
22 3 0.10
ACGTcount: A:0.17, C:0.29, G:0.33, T:0.21
Consensus pattern (21 bp):
ACATGCCCGTGTGGCCTGGAT
Found at i:18971836 original size:54 final size:51
Alignment explanation
Indices: 18971762--18971900 Score: 170
Period size: 52 Copynumber: 2.6 Consensus size: 51
18971752 ATAACATACT
* * * **
18971762 GATGTCATATCCCAGATATGGTCTTATACGGAATCATATTATCACATTCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAA-C-TAAAATCACATT-ACACC
* **
18971816 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTAAAATCATATTGTACC
1 GATGCCATAGCCCAGCTATGGTCTTATAC-GGAACTAAAATCACATTACACC
18971868 GATGCCATAGCCCAGCTATGGTCTTATACGGAA
1 GATGCCATAGCCCAGCTATGGTCTTATACGGAA
18971901 ATACATATCA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.05
52 32 0.42
53 9 0.12
54 27 0.36
55 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (51 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGAACTAAAATCACATTACACC
Found at i:18975545 original size:5 final size:5
Alignment explanation
Indices: 18975535--18975577 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
18975525 GTGTAATTAA
* *
18975535 TTTTC TTTTC TTTTC TTTT- TTGTC GTTTC TTTTC TTCTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTT
18975578 CTTCTTCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 3 0.09
5 24 0.75
6 5 0.16
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:18975933 original size:21 final size:22
Alignment explanation
Indices: 18975898--18975940 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
18975888 GAACTAGGCG
*
18975898 TTAACTCGGAAAAAGTCTCAAA
1 TTAACTCGAAAAAAGTCTCAAA
18975920 TTAACTC-AAAAAAGTCTCAAA
1 TTAACTCGAAAAAAGTCTCAAA
18975941 AGCACAAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (22 bp):
TTAACTCGAAAAAAGTCTCAAA
Found at i:18976520 original size:29 final size:29
Alignment explanation
Indices: 18976476--18976531 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
18976466 ACACGGTCAA
18976476 GACACACACCCATGTTCCAGACCGTGTGG
1 GACACACACCCATGTTCCAGACCGTGTGG
* *
18976505 GACACACGCCCGTGTTCCAGACCGTGT
1 GACACACACCCATGTTCCAGACCGTGT
18976532 AGCACACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (29 bp):
GACACACACCCATGTTCCAGACCGTGTGG
Found at i:18976538 original size:29 final size:29
Alignment explanation
Indices: 18976477--18976539 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
18976467 CACGGTCAAG
* *
18976477 ACACACACCCATGTTCCAGACCGTGTGGG
1 ACACACACCCATGTTCCAGACCGTGTAGC
* *
18976506 ACACACGCCCGTGTTCCAGACCGTGTAGC
1 ACACACACCCATGTTCCAGACCGTGTAGC
18976535 ACACA
1 ACACA
18976540 TGGCTGAGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.25, C:0.37, G:0.22, T:0.16
Consensus pattern (29 bp):
ACACACACCCATGTTCCAGACCGTGTAGC
Found at i:18977764 original size:28 final size:27
Alignment explanation
Indices: 18977721--18977810 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
18977711 GTGACAGAGT
*
18977721 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* **
18977750 CATCAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
18977777 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
18977805 CACCAG
1 CACCAG
18977811 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:18977963 original size:28 final size:28
Alignment explanation
Indices: 18977916--18977980 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
18977906 AAATTAACCC
*
18977916 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
18977944 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
18977972 TAGGGGTAT
1 TAGGGGTAT
18977981 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:18978240 original size:8 final size:8
Alignment explanation
Indices: 18978227--18978258 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
18978217 CCTAAAATAC
18978227 CGGCTTTT
1 CGGCTTTT
18978235 CGGCTTTT
1 CGGCTTTT
*
18978243 CGGCATTT
1 CGGCTTTT
18978251 CGGCTTTT
1 CGGCTTTT
18978259 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.25, T:0.47
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18985654 original size:28 final size:27
Alignment explanation
Indices: 18985611--18985700 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
18985601 GTGACAGAGT
*
18985611 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
* **
18985640 CATCAGAACAGATATACGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
**
18985667 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAGGGC
18985695 CACCAG
1 CACCAG
18985701 GATGCTTCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:18985853 original size:28 final size:28
Alignment explanation
Indices: 18985810--18985870 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
18985800 TAACCCTAGA
*
18985810 GGTATAAAGGTCATTTTGCATACATAGG
1 GGTATAAAGGTAATTTTGCATACATAGG
*
18985838 GGTATAATGGTAATTTTGCATACATAGG
1 GGTATAAAGGTAATTTTGCATACATAGG
18985866 GGTAT
1 GGTAT
18985871 TCTAGTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
GGTATAAAGGTAATTTTGCATACATAGG
Found at i:18990636 original size:18 final size:18
Alignment explanation
Indices: 18990615--18990663 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
18990605 ATGGAGAGAA
18990615 GAAGAAAAGAAAAGAAAG
1 GAAGAAAAGAAAAGAAAG
* *
18990633 GAAGAGAAG-AAAGAATG
1 GAAGAAAAGAAAAGAAAG
*
18990650 GTCAGAAAAGAAAA
1 G-AAGAAAAGAAAA
18990664 AAACGGCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 14 0.56
19 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.29, T:0.04
Consensus pattern (18 bp):
GAAGAAAAGAAAAGAAAG
Found at i:18993393 original size:5 final size:6
Alignment explanation
Indices: 18993365--18993391 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18993355 GCCATATGGT
18993365 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
18993392 TATATTTTGG
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:18994309 original size:48 final size:48
Alignment explanation
Indices: 18994254--18994398 Score: 229
Period size: 48 Copynumber: 3.0 Consensus size: 48
18994244 GTCAACAATT
* * *
18994254 ATACATAACATTTAACACATATAGAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
18994302 ATACATAACATATATCACATACAGAGTCATATTAACTTACT-TTTTGCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTT-CA
* *
18994350 ATGCATAACATATATCACATACAAAGTCATATTAACTTACTCTTTTCA
1 ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
18994398 A
1 A
18994399 ATCTTTCTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 4 0.04
48 82 0.91
49 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (48 bp):
ATACATAACATATATCACATACAGAGTCATATTAACTTACTCTTTTCA
Found at i:18995434 original size:7 final size:8
Alignment explanation
Indices: 18995406--18995434 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
18995396 GCAATTGGGT
18995406 CCACAATC
1 CCACAATC
18995414 CCACAATC
1 CCACAATC
18995422 CCACAAT-
1 CCACAATC
18995429 CCACAA
1 CCACAA
18995435 CTGGCATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.41, C:0.48, G:0.00, T:0.10
Consensus pattern (8 bp):
CCACAATC
Found at i:19003189 original size:16 final size:14
Alignment explanation
Indices: 19003168--19003201 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
19003158 AAACTTTTTT
19003168 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
19003184 TTATAAATTTTATA
1 TTATAAATTTTATA
19003198 TTAT
1 TTAT
19003202 TTTTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:19004636 original size:29 final size:28
Alignment explanation
Indices: 19004603--19004739 Score: 121
Period size: 28 Copynumber: 4.9 Consensus size: 28
19004593 GATAGTCCAT
*
19004603 ATGGACTATCTTTCAAGCAATAGTAGTGC
1 ATGGACTATCTTTCAAGCAAGAGT-GTGC
* ** *
19004632 ATGGACTATCATTCAAGCAAGAGTCCGT
1 ATGGACTATCTTTCAAGCAAGAGTGTGC
* * *
19004660 AGGGACTATATTTCAAGCAAGAGTCTGC
1 ATGGACTATCTTTCAAGCAAGAGTGTGC
* * * ***
19004688 ATGGACCAACTTTCAAGAAAGAGTCCAC
1 ATGGACTATCTTTCAAGCAAGAGTGTGC
* *
19004716 ATGGACCAACTTTCAAGCAAGAGT
1 ATGGACTATCTTTCAAGCAAGAGT
19004740 CCATATGGAG
Statistics
Matches: 90, Mismatches: 18, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
28 68 0.76
29 22 0.24
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (28 bp):
ATGGACTATCTTTCAAGCAAGAGTGTGC
Found at i:19004674 original size:28 final size:28
Alignment explanation
Indices: 19004643--19004741 Score: 128
Period size: 28 Copynumber: 3.5 Consensus size: 28
19004633 TGGACTATCA
* * *
19004643 TTCAAGCAAGAGTCCGTAGGGACTATA-T
1 TTCAAGCAAGAGTCCGCATGGACCA-ACT
*
19004671 TTCAAGCAAGAGTCTGCATGGACCAACT
1 TTCAAGCAAGAGTCCGCATGGACCAACT
* *
19004699 TTCAAGAAAGAGTCCACATGGACCAACT
1 TTCAAGCAAGAGTCCGCATGGACCAACT
19004727 TTCAAGCAAGAGTCC
1 TTCAAGCAAGAGTCC
19004742 ATATGGAGCA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 1 0.02
28 61 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (28 bp):
TTCAAGCAAGAGTCCGCATGGACCAACT
Found at i:19004712 original size:56 final size:56
Alignment explanation
Indices: 19004596--19004740 Score: 166
Period size: 56 Copynumber: 2.6 Consensus size: 56
19004586 ATTTTATGAT
* * * * * *
19004596 AGTCCATATGGACTATCTTTCAAGCAATAGTAGTGCATGGACTATCATTCAAGCAAG
1 AGTCCATATGGACTATATTTCAAGCAAGAGT-CTGCATGGACCAACATTCAAGAAAG
* * *
19004653 AGTCCGTAGGGACTATATTTCAAGCAAGAGTCTGCATGGACCAACTTTCAAGAAAG
1 AGTCCATATGGACTATATTTCAAGCAAGAGTCTGCATGGACCAACATTCAAGAAAG
* *
19004709 AGTCCACATGGACCA-ACTTTCAAGCAAGAGTC
1 AGTCCATATGGACTATA-TTTCAAGCAAGAGTC
19004741 CATATGGAGC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
55 1 0.01
56 46 0.62
57 27 0.36
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (56 bp):
AGTCCATATGGACTATATTTCAAGCAAGAGTCTGCATGGACCAACATTCAAGAAAG
Found at i:19004795 original size:28 final size:28
Alignment explanation
Indices: 19004748--19004838 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
19004738 GTCCATATGG
* * *
19004748 AGCAAGAGTCCTCATGGACTAACTTTTA
1 AGCAAGAGTTCGCATGGACTAACTTTCA
* *
19004776 AGCAAGAGTTCGCATAGACTACCTTTCA
1 AGCAAGAGTTCGCATGGACTAACTTTCA
* *
19004804 AGCAAGAGTTTGCATGGACTATCTTTCA
1 AGCAAGAGTTCGCATGGACTAACTTTCA
19004832 AGCAAGA
1 AGCAAGA
19004839 ATCTACAGGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (28 bp):
AGCAAGAGTTCGCATGGACTAACTTTCA
Found at i:19004802 original size:73 final size:73
Alignment explanation
Indices: 19004675--19004812 Score: 188
Period size: 73 Copynumber: 1.9 Consensus size: 73
19004665 CTATATTTCA
*
19004675 AGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGTCCACATGGACCAACTTTCAAGCAAGAGT
1 AGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAGT
19004740 CCATATGG
66 CCATATGG
* * * * * * *
19004748 AGCAAGAGTCCT-CATGGACTAACTTTTAAGCAAGAGTTCGCATAGACTACCTTTCAAGCAAGAG
1 AGCAAGAGT-CTGCATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAG
19004812 T
65 T
19004813 TTGCATGGAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 54 0.96
74 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (73 bp):
AGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGTCCACATAGACCAACTTTCAAGCAAGAGT
CCATATGG
Found at i:19004822 original size:101 final size:101
Alignment explanation
Indices: 19004647--19004838 Score: 237
Period size: 101 Copynumber: 1.9 Consensus size: 101
19004637 CTATCATTCA
*
19004647 AGCAAGAGTCCGTAGGGACTATATTTCAAGCAAGAGTCTGCATGGACCAACTTTCAAGAAAGAGT
1 AGCAAGAGTCCGTAGGGACTATATTTCAAGCAAGAGTCTGCATAGACCAACTTTCAAGAAAGAGT
19004712 CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
66 CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
* * * * *
19004748 AGCAAGAGTCC-TCATGGACTA-ACTTTTAAGCAAGAGT-TCGCATAGACTACCTTTCAAGCAAG
1 AGCAAGAGTCCGT-AGGGACTATA-TTTCAAGCAAGAGTCT-GCATAGACCAACTTTCAAGAAAG
*** * *
19004810 AGTTTGCATGGACTATCTTTCAAGCAAGA
63 AGTCCACATGGACCAACTTTCAAGCAAGA
19004839 ATCTACAGGA
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
100 3 0.04
101 74 0.96
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (101 bp):
AGCAAGAGTCCGTAGGGACTATATTTCAAGCAAGAGTCTGCATAGACCAACTTTCAAGAAAGAGT
CCACATGGACCAACTTTCAAGCAAGAGTCCATATGG
Found at i:19004960 original size:28 final size:28
Alignment explanation
Indices: 19004928--19004996 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
19004918 AAGAATGAGT
*
19004928 TTGCATGCAT-AATTCCACATCTATTAAC
1 TTGCATGCATGAA-TCCACATCTATGAAC
* *
19004956 TTGCATGTATGAATCCATATCTATGAAC
1 TTGCATGCATGAATCCACATCTATGAAC
* *
19004984 TCGCATGTATGAA
1 TTGCATGCATGAA
19004997 ATCAATACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (28 bp):
TTGCATGCATGAATCCACATCTATGAAC
Found at i:19005284 original size:46 final size:46
Alignment explanation
Indices: 19005212--19005304 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
19005202 ACATAATAAT
* *
19005212 ATCATGATTGGGTGTGTTATATTAAAAACTCACTAAGTTAATTTTA
1 ATCATGATTGAGTGTGTTATAGTAAAAACTCACTAAGTTAATTTTA
19005258 ATCATGATTGAGTGTGTTATAGTAAAAACTCACTAAGTTAATTTTA
1 ATCATGATTGAGTGTGTTATAGTAAAAACTCACTAAGTTAATTTTA
19005304 A
1 A
19005305 CTTAGATTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.40
Consensus pattern (46 bp):
ATCATGATTGAGTGTGTTATAGTAAAAACTCACTAAGTTAATTTTA
Found at i:19006427 original size:16 final size:16
Alignment explanation
Indices: 19006406--19006436 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19006396 GAGAATTCTT
19006406 TGTAATTACAAGAAAG
1 TGTAATTACAAGAAAG
*
19006422 TGTAATTACTAGAAA
1 TGTAATTACAAGAAA
19006437 AATTTCATCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.29
Consensus pattern (16 bp):
TGTAATTACAAGAAAG
Done.