Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 135 of 218
Found at i:41141919 original size:42 final size:42
Alignment explanation
Indices: 41141860--41141940 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
41141850 TCTTTTTCGG
41141860 CTTTTCGGCTTTTGCCGATTTGCAGATGAGAGGGTGTGATCA
1 CTTTTCGGCTTTTGCCGATTTGCAGATGAGAGGGTGTGATCA
41141902 CTTTTCGGCTTTTGCCGATTTGCAGATGAGAGGGTGTGA
1 CTTTTCGGCTTTTGCCGATTTGCAGATGAGAGGGTGTGA
41141941 CCACACACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (42 bp):
CTTTTCGGCTTTTGCCGATTTGCAGATGAGAGGGTGTGATCA
Found at i:41148796 original size:29 final size:30
Alignment explanation
Indices: 41148747--41148836 Score: 87
Period size: 29 Copynumber: 3.0 Consensus size: 30
41148737 TTTATTTAAT
41148747 GTGCAATTTGATACACA--AACTTTAATT-TG
1 GTGCAA-TT-ATACACATGAACTTTAATTGTG
*
41148776 GTGCAATTATACACATGAACTTTGATTGTG
1 GTGCAATTATACACATGAACTTTAATTGTG
* * * *
41148806 GTTCAAATGTATACATGAAACTTTAATTGTG
1 GTGCAATTATACACATG-AACTTTAATTGTG
41148837 ATTTAATCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 7 0.14
28 2 0.04
29 15 0.29
30 15 0.29
31 12 0.24
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (30 bp):
GTGCAATTATACACATGAACTTTAATTGTG
Found at i:41148835 original size:31 final size:31
Alignment explanation
Indices: 41148763--41148836 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 31
41148753 TTTGATACAC
*
41148763 AAACTTTAATT-TGGTGCAATTATACACATG
1 AAACTTTAATTGTGGTGCAAATATACACATG
* * * *
41148793 -AACTTTGATTGTGGTTCAAATGTATACATG
1 AAACTTTAATTGTGGTGCAAATATACACATG
41148823 AAACTTTAATTGTG
1 AAACTTTAATTGTG
41148837 ATTTAATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 9 0.25
30 15 0.42
31 12 0.33
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (31 bp):
AAACTTTAATTGTGGTGCAAATATACACATG
Found at i:41170087 original size:27 final size:29
Alignment explanation
Indices: 41170036--41170096 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
41170026 AAAAATAAAT
*
41170036 AAATTAATTTTTTTCATAAATAAAGT-TA
1 AAATTAATTGTTTTCATAAATAAAGTATA
41170064 AAATTAATTGTTTT-AT-AATAAAAGTATA
1 AAATTAATTGTTTTCATAAAT-AAAGTATA
41170092 AAATT
1 AAATT
41170097 CGACAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
27 7 0.23
28 20 0.67
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATTAATTGTTTTCATAAATAAAGTATA
Found at i:41178860 original size:40 final size:40
Alignment explanation
Indices: 41178805--41178892 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
41178795 AATAGTGTCA
41178805 TTGGAGGCCCTAACATATGGTTGAGTGATGTAGATACATG
1 TTGGAGGCCCTAACATATGGTTGAGTGATGTAGATACATG
41178845 TTGGAGGCCCTAACATATGGTTGAGTGATGTAGATACATG
1 TTGGAGGCCCTAACATATGGTTGAGTGATGTAGATACATG
41178885 TTGGAGGC
1 TTGGAGGC
41178893 TAAAATCGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (40 bp):
TTGGAGGCCCTAACATATGGTTGAGTGATGTAGATACATG
Found at i:41180976 original size:13 final size:13
Alignment explanation
Indices: 41180958--41180992 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
41180948 AAGTTCTGAG
*
41180958 ATGTTTTCAAGTT
1 ATGTTTTAAAGTT
41180971 ATGTTTTTAAAGTT
1 ATG-TTTTAAAGTT
41180985 ATGTTTTA
1 ATGTTTTA
41180993 TGCGTGCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.26, C:0.03, G:0.14, T:0.57
Consensus pattern (13 bp):
ATGTTTTAAAGTT
Found at i:41180983 original size:14 final size:14
Alignment explanation
Indices: 41180961--41180991 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
41180951 TTCTGAGATG
*
41180961 TTTTCAAGTTATGT
1 TTTTAAAGTTATGT
41180975 TTTTAAAGTTATGT
1 TTTTAAAGTTATGT
41180989 TTT
1 TTT
41180992 ATGCGTGCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (14 bp):
TTTTAAAGTTATGT
Found at i:41192827 original size:13 final size:13
Alignment explanation
Indices: 41192809--41192833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41192799 TAATGGTATA
41192809 TTGAATCCATGAT
1 TTGAATCCATGAT
41192822 TTGAATCCATGA
1 TTGAATCCATGA
41192834 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:41194162 original size:47 final size:47
Alignment explanation
Indices: 41194093--41194762 Score: 1055
Period size: 47 Copynumber: 14.3 Consensus size: 47
41194083 CTCGTAGTGA
41194093 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
41194140 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
41194189 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
41194236 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
41194285 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
41194330 ATATGTGATAAGGCCTAATAGCCTATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
41194377 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
41194426 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41194471 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41194518 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41194565 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
41194612 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
**
41194659 ATATGCAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
41194704 ATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
41194751 AAATGTGATAAG
1 ATATGTGATAAG
41194763 TCCCGAAGGG
Statistics
Matches: 580, Mismatches: 31, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
45 123 0.21
47 322 0.56
49 135 0.23
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:41204081 original size:11 final size:11
Alignment explanation
Indices: 41204067--41204116 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
41204057 GGTGCTAGGA
41204067 TGGTTGAATGG
1 TGGTTGAATGG
*
41204078 TGG-TGATTAGG
1 TGGTTGAAT-GG
*
41204089 TGGTTGTATGG
1 TGGTTGAATGG
41204100 TGG-TGATATGG
1 TGGTTGA-ATGG
41204111 TGGTTG
1 TGGTTG
41204117 TTCAGTGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
10 6 0.19
11 20 0.65
12 5 0.16
ACGTcount: A:0.14, C:0.00, G:0.46, T:0.40
Consensus pattern (11 bp):
TGGTTGAATGG
Found at i:41204117 original size:22 final size:22
Alignment explanation
Indices: 41204037--41204117 Score: 85
Period size: 22 Copynumber: 3.7 Consensus size: 22
41204027 GATACGATTT
* * *
41204037 TGATGTGGTGGTGGTGTGGTGG
1 TGATATGGTGGTTGTATGGTGG
* *
41204059 TGCTA-GGATGGTTGAATGGTGG
1 TGATATGG-TGGTTGTATGGTGG
41204081 TGAT-TAGGTGGTTGTATGGTGG
1 TGATAT-GGTGGTTGTATGGTGG
41204103 TGATATGGTGGTTGT
1 TGATATGGTGGTTGT
41204118 TCAGTGGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.04
22 43 0.90
23 3 0.06
ACGTcount: A:0.12, C:0.01, G:0.48, T:0.38
Consensus pattern (22 bp):
TGATATGGTGGTTGTATGGTGG
Found at i:41204124 original size:22 final size:22
Alignment explanation
Indices: 41204062--41204126 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
41204052 GTGGTGGTGC
* *
41204062 TAGGATGGTTGAATGGTGGTGAT
1 TAGG-TGGTTGTATAGTGGTGAT
*
41204085 TAGGTGGTTGTATGGTGGTGA-
1 TAGGTGGTTGTATAGTGGTGAT
41204106 TATGGTGGTTGT-TCAGTGGTG
1 TA-GGTGGTTGTAT-AGTGGTG
41204127 TTTCAGTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
21 3 0.08
22 31 0.82
23 4 0.11
ACGTcount: A:0.15, C:0.02, G:0.45, T:0.38
Consensus pattern (22 bp):
TAGGTGGTTGTATAGTGGTGAT
Found at i:41214000 original size:12 final size:12
Alignment explanation
Indices: 41213983--41214012 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
41213973 CCATACACGT
41213983 CCGTGTGCTAGG
1 CCGTGTGCTAGG
41213995 CCGTGTGCTAGG
1 CCGTGTGCTAGG
41214007 CCGTGT
1 CCGTGT
41214013 AACAATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.07, C:0.27, G:0.40, T:0.27
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:41216024 original size:16 final size:17
Alignment explanation
Indices: 41216003--41216034 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
41215993 AAAAACAACA
41216003 TAATAAACATT-TAATT
1 TAATAAACATTATAATT
41216019 TAATAAACATTATAAT
1 TAATAAACATTATAAT
41216035 GATTACAATT
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:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAAACATTATAATT
Found at i:41218233 original size:19 final size:19
Alignment explanation
Indices: 41218179--41218233 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
41218169 GCACACATGA
* *
41218179 TTCCACTAATCACACACGG
1 TTCCACTAATCAAACACAG
*
41218198 TTCCACTAATCAGACACAG
1 TTCCACTAATCAAACACAG
41218217 TTCCACTAATCAAACAC
1 TTCCACTAATCAAACAC
41218234 CATTAACGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.36, C:0.35, G:0.07, T:0.22
Consensus pattern (19 bp):
TTCCACTAATCAAACACAG
Found at i:41225875 original size:124 final size:124
Alignment explanation
Indices: 41225694--41225930 Score: 354
Period size: 124 Copynumber: 1.9 Consensus size: 124
41225684 AAATAGTGGG
** * * *
41225694 AAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGCCTCGTGGACGCGATT
41225759 TCGCTACAGT-GGTCATGT-GAGAAATAATTTTTTTTGACGTTTTCTGAGGAAATAGTATA
66 TCGCTACAGTGGGTCATGTAG-GAAATAATTTTTTTTGACG-TTTCTGAGGAAATAGTATA
* * *
41225818 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGC-GCGTTCGTGGACGCGAT
1 AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGC-CTCGTGGACGCGAT
41225882 TTCGCTACAGTGGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAG
65 TTCGCTACAGTGGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAG
41225931 CAAACAGTGT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
123 2 0.02
124 72 0.71
125 27 0.26
126 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (124 bp):
AAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGGCCTCGTGGACGCGATT
TCGCTACAGTGGGTCATGTAGGAAATAATTTTTTTTGACGTTTCTGAGGAAATAGTATA
Found at i:41229145 original size:23 final size:24
Alignment explanation
Indices: 41229115--41229509 Score: 254
Period size: 23 Copynumber: 15.2 Consensus size: 24
41229105 TACAATTTCA
41229115 TTAGGGTTTTTAA-TTAAATAGGG
1 TTAGGGTTTTTAATTTAAATAGGG
*
41229138 TTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAATA-G---GG
41229166 TTAGGGTTTTTAA-TTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAA-TA-G---GG
*
41229194 TTAGGGTTAGGGTTTTTAATTTAATTAGGTTAGG
1 TTA-GG-----GTTTTTAATTTAAATA-G---GG
*
41229228 TTAGGGTTTTTAATTTAAGTA-GG
1 TTAGGGTTTTTAATTTAAATAGGG
41229251 TTAGGGTTTTTAA-TTAAATTAGGTTAGG
1 TTAGGGTTTTTAATTTAAA-TA-G---GG
41229279 TTAGGGTTTTTAATTTAATTAAATTA-GG
1 TTAGGGTTTTTAA--T--TTAAA-TAGGG
* *
41229307 TTAAGGTTTTTAA-TTAAGTAGGG
1 TTAGGGTTTTTAATTTAAATAGGG
41229330 TTTAGGGTTTTTAATTTAATTAAGTAGGGG
1 -TTAGGGTTTTTAATTT-A--AA-TA-GGG
*
41229360 TTAGGGTTTTTAATTTAAGTA-GG
1 TTAGGGTTTTTAATTTAAATAGGG
*
41229383 TTAGGGTTTTTAATTTAATTAAATAAGG
1 TTAGGGTTTTTAA--T--TTAAATAGGG
*
41229411 TTAGGGTTTTTAATTTAAGTAGGGG
1 TTAGGGTTTTTAATTTAAATA-GGG
*
41229436 TTAGGGTTTTTAATTTAAGTA-GG
1 TTAGGGTTTTTAATTTAAATAGGG
41229459 TTAGGGTTTTTAA-TTAAATTA-GG
1 TTAGGGTTTTTAATTTAAA-TAGGG
*
41229482 TTAGGGTTTTTAATTTAATTA-GG
1 TTAGGGTTTTTAATTTAAATAGGG
41229505 TTAGG
1 TTAGG
41229510 TTAGGGTTAG
Statistics
Matches: 317, Mismatches: 15, Indels: 80
0.77 0.04 0.19
Matches are distributed among these distances:
22 10 0.03
23 92 0.29
24 28 0.09
25 29 0.09
26 3 0.01
27 10 0.03
28 88 0.28
29 20 0.06
30 3 0.01
33 10 0.03
34 20 0.06
35 4 0.01
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (24 bp):
TTAGGGTTTTTAATTTAAATAGGG
Found at i:41229167 original size:28 final size:28
Alignment explanation
Indices: 41229136--41229622 Score: 424
Period size: 28 Copynumber: 17.8 Consensus size: 28
41229126 AATTAAATAG
41229136 GGTTAGGGTTTTTAATTTAATTAGGTTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
*
41229164 GGTTAGGGTTTTTAATTAAATTAGGTTAGGTTA
1 GGTTAGGGTTTTTAA-T---TTA-ATTAGGTTA
41229197 GGGTTAGGGTTTTTAATTTAATTAGGTTA
1 -GGTTAGGGTTTTTAATTTAATTAGGTTA
41229226 GGTTAGGGTTTTTAATTT-A--A-G-TA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
*
41229249 GGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
**
41229277 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
* *
41229305 GGTTAAGGTTTTTAA-TTAAGTAGG---
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
* *
41229329 GTTTAGGGTTTTTAATTTAATTAAG-TA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
41229356 GGGGTTAGGGTTTTTAATTT-A--A-G-TA
1 --GGTTAGGGTTTTTAATTTAATTAGGTTA
** *
41229381 GGTTAGGGTTTTTAATTTAATTAAATAA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
*
41229409 GGTTAGGGTTTTTAATTTAAGTAGG---
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
41229434 GGTTAGGGTTTTTAATTT-A--A-G-TA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
41229457 GGTTAGGGTTTTTAA-TTAA--A--TTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
41229480 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTA
1 GGTTAGGGTTTTTAATTT-A--A--TTAGGTTA
*
41229513 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 -GGTTAGGGTTTTTAATTTAATTAGGTTA
**
41229542 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGGTTTTTAATTTAATTAGGTTA
* * *
41229570 GGTTCGGGTTAGAGTT--TTTAATTAAG-TA
1 GGTTAGGGTT---TTTAATTTAATTAGGTTA
41229598 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
41229623 AATTAGGGTT
Statistics
Matches: 387, Mismatches: 29, Indels: 85
0.77 0.06 0.17
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 71 0.18
24 19 0.05
25 30 0.08
26 3 0.01
27 11 0.03
28 134 0.35
29 53 0.14
30 10 0.03
31 4 0.01
32 3 0.01
33 13 0.03
34 32 0.08
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (28 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTA
Found at i:41229202 original size:34 final size:33
Alignment explanation
Indices: 41229133--41229235 Score: 144
Period size: 34 Copynumber: 3.2 Consensus size: 33
41229123 TTTAATTAAA
*
41229133 TAGGGTTAGGGTTTTTAA-T--TTA-ATTAGGT
1 TAGGGTTAGGGTTTTTAATTAATTAGGTTAGGT
41229162 TA-GGTTAGGGTTTTTAATTAAATTAGGTTAGGT
1 TAGGGTTAGGGTTTTTAATT-AATTAGGTTAGGT
41229195 TAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGT
1 TAGGGTTAGGGTTTTTAA-TTAATTAGGTTAGGT
41229229 TAGGGTT
1 TAGGGTT
41229236 TTTAATTTAA
Statistics
Matches: 66, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
28 15 0.23
29 3 0.05
32 3 0.05
33 8 0.12
34 35 0.53
35 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (33 bp):
TAGGGTTAGGGTTTTTAATTAATTAGGTTAGGT
Found at i:41229519 original size:34 final size:32
Alignment explanation
Indices: 41229480--41229592 Score: 144
Period size: 34 Copynumber: 3.5 Consensus size: 32
41229470 AATTAAATTA
41229480 GGTTAGGGTTTTTAATTTAATTAGGTTAGGTTAG
1 GGTTAGGGTTTTTAATTTAATTA--TTAGGTTAG
41229514 GGTTAGGGTTTTTAA-TTAA--ATTAGGTTA-
1 GGTTAGGGTTTTTAATTTAATTATTAGGTTAG
*
41229542 GGTTAGGGTTTTTAATTTAATTAAATTAGGTTCG
1 GGTTAGGGTTTTTAATTTAATT--ATTAGGTTAG
*
41229576 GGTTAGAGTTTTTAATT
1 GGTTAGGGTTTTTAATT
41229593 AAGTAGGGTT
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
28 15 0.21
29 12 0.17
31 1 0.01
33 12 0.17
34 31 0.44
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.48
Consensus pattern (32 bp):
GGTTAGGGTTTTTAATTTAATTATTAGGTTAG
Found at i:41229602 original size:23 final size:23
Alignment explanation
Indices: 41229575--41229662 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 23
41229565 AATTAGGTTC
*
41229575 GGGTTAGAGTTTTTAATTAAGTA
1 GGGTTAGGGTTTTTAATTAAGTA
*
41229598 GGGTTTAGGGTTTTTAATTTAATTA
1 GGG-TTAGGGTTTTTAA-TTAAGTA
**
41229623 -AATTAGGGTTTTTAATTAAGTA
1 GGGTTAGGGTTTTTAATTAAGTA
*
41229645 GGGTTTAGGGATTTTAAT
1 GGG-TTAGGGTTTTTAAT
41229663 CAAATAATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
22 6 0.11
23 16 0.30
24 25 0.47
25 6 0.11
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (23 bp):
GGGTTAGGGTTTTTAATTAAGTA
Found at i:41229648 original size:17 final size:18
Alignment explanation
Indices: 41229615--41229650 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
41229605 GGGTTTTTAA
*
41229615 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
41229633 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
41229650 T
1 T
41229651 AGGGATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:41231968 original size:29 final size:29
Alignment explanation
Indices: 41231934--41231989 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
41231924 TGAAAATATT
*
41231934 AAAAATTTTAAAATTAT-TTAAAAAAATA
1 AAAAAATTTAAAATTATCTTAAAAAAATA
*
41231962 AAAAAATTTAAAATTTTCTTAAAAAAAT
1 AAAAAATTTAAAATTATCTTAAAAAAAT
41231990 GAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAAATTTAAAATTATCTTAAAAAAATA
Found at i:41232061 original size:22 final size:22
Alignment explanation
Indices: 41232031--41232072 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
41232021 ATTTGGAGAT
*
41232031 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
41232053 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
41232073 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:41232114 original size:52 final size:51
Alignment explanation
Indices: 41232022--41232124 Score: 122
Period size: 52 Copynumber: 2.0 Consensus size: 51
41232012 TTAATATGGA
* * *
41232022 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAA-TTGAGAG
41232073 TTTGAGAGAATTTTGGAAGGAAATTGATG-GAAATTTT-GAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGA-GAG-AATTTTGGAAGGGAATTGAGAG
41232125 AAATTTTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
51 4 0.09
52 31 0.69
53 10 0.22
ACGTcount: A:0.34, C:0.00, G:0.33, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGGAATTGAGAG
Found at i:41232133 original size:12 final size:12
Alignment explanation
Indices: 41232118--41232163 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
41232108 TTGAAGGGAA
*
41232118 TTGAGAGAAATT
1 TTGAAAGAAATT
41232130 TTGAAAGAAA--
1 TTGAAAGAAATT
*
41232140 TTGAGAGAAATT
1 TTGAAAGAAATT
41232152 TTGAAAGAAATT
1 TTGAAAGAAATT
41232164 GATATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (12 bp):
TTGAAAGAAATT
Found at i:41232176 original size:22 final size:22
Alignment explanation
Indices: 41232074--41232165 Score: 125
Period size: 22 Copynumber: 4.2 Consensus size: 22
41232064 ATTTGAGAGT
*
41232074 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTT-GAAAGAAA
* *
41232096 TTGATG-GAAATTTTGAAGGGAA
1 TTGA-GAGAAATTTTGAAAGAAA
41232118 TTGAGAGAAATTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGAAA
41232140 TTGAGAGAAATTTTGAAAGAAA
1 TTGAGAGAAATTTTGAAAGAAA
41232162 TTGA
1 TTGA
41232166 TATTGAATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.02
22 56 0.88
23 7 0.11
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (22 bp):
TTGAGAGAAATTTTGAAAGAAA
Found at i:41235219 original size:27 final size:27
Alignment explanation
Indices: 41235181--41235311 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
41235171 CCATAACAGT
*
41235181 TAATTTTACCCATCGGGGGTATTTCGA
1 TAATTTTACCCATCAGGGGTATTTCGA
* * *
41235208 TAATTTTACCCAT-TGGGGTATTTTGG
1 TAATTTTACCCATCAGGGGTATTTCGA
* * *
41235234 TAATTTTACCTATTAAGGGTATTTC-A
1 TAATTTTACCCATCAGGGGTATTTCGA
* *
41235260 GTAATTTTACCTATCGGGGGTATTTCGA
1 -TAATTTTACCCATCAGGGGTATTTCGA
*
41235288 TAATTTTACCCATCAAGGGTATTT
1 TAATTTTACCCATCAGGGGTATTT
41235312 TGGTATAGTC
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.25
27 64 0.74
28 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACCCATCAGGGGTATTTCGA
Found at i:41235297 original size:54 final size:53
Alignment explanation
Indices: 41235181--41235311 Score: 165
Period size: 53 Copynumber: 2.5 Consensus size: 53
41235171 CCATAACAGT
** * * *
41235181 TAATTTTACCCATCGGGGGTATTTCGATAATTTTACCCATTGGGGTATTTTGG
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATGGGGGTATTTCGA
* * *
41235234 TAATTTTACCTATTAAGGGTATTTC-AGTAATTTTACCTATCGGGGGTATTTCGA
1 TAATTTTACCCATCAAGGGTATTTCGA-TAATTTTACCCAT-GGGGGTATTTCGA
41235288 TAATTTTACCCATCAAGGGTATTT
1 TAATTTTACCCATCAAGGGTATTT
41235312 TGGTATAGTC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 33 0.50
54 32 0.48
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (53 bp):
TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATGGGGGTATTTCGA
Found at i:41236817 original size:25 final size:25
Alignment explanation
Indices: 41236783--41236833 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
41236773 ACCTCTGACA
*
41236783 TCCTTACCACACCTGTGATGCCACC
1 TCCTTACCACACCTATGATGCCACC
* *
41236808 TCCTTGCCACACCTATGTTGCCACC
1 TCCTTACCACACCTATGATGCCACC
41236833 T
1 T
41236834 TGCCACTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.18, C:0.43, G:0.12, T:0.27
Consensus pattern (25 bp):
TCCTTACCACACCTATGATGCCACC
Found at i:41238888 original size:114 final size:114
Alignment explanation
Indices: 41238721--41238982 Score: 321
Period size: 114 Copynumber: 2.3 Consensus size: 114
41238711 ATAGTCTATA
* * * * ** * * * *
41238721 AATTTTAGGTTCAATATTTG-AAAATTTTAGCAAAA-AATAAATGTATCAATACCCTTTCCATAG
1 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAAGAGCAAAGGTGTCGATACCCTTGCCATAG
* * * * * *
41238784 TATTGATACTAGGGTCAAAGTATCGATACCCTTTCCTAGTATCGATACC
66 CATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTAGTACCGATACC
* **
41238833 AATTTGAGCTTTGATGTTTGAAAAAATTTAGCAAAAGAGCAAAGGTGTCGATACCCTTGCCATAG
1 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAAGAGCAAAGGTGTCGATACCCTTGCCATAG
* *
41238898 CATTAATACCAGGGTCATAGTATCGACACCCTTGCCTGGTACCGATACC
66 CATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTAGTACCGATACC
41238947 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAA
1 AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAA
41238983 AACAAATGTA
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
112 15 0.12
113 14 0.11
114 96 0.77
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (114 bp):
AATTTAAGCTTCAATGTTTGAAAAAATTTAGCAAAAGAGCAAAGGTGTCGATACCCTTGCCATAG
CATTAATACCAGGGTCAAAGTATCGACACCCTTGCCTAGTACCGATACC
Found at i:41242469 original size:44 final size:41
Alignment explanation
Indices: 41242393--41242478 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
41242383 ATATTTATGA
*
41242393 AAGTTAAAAAAAATATGTACATAAATATATATAGACATGTATAT
1 AAGTTAAAAAAAATATGTA-ATAAATACATAT--ACATGTATAT
*
41242437 AAGTTAAAAAATAAGTATGT-ATATATACATATACATGTATAT
1 AAGTTAAAAAA-AA-TATGTAATAAATACATATACATGTATAT
41242479 GCATTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 10 0.26
44 21 0.55
45 2 0.05
46 5 0.13
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.34
Consensus pattern (41 bp):
AAGTTAAAAAAAATATGTAATAAATACATATACATGTATAT
Found at i:41242503 original size:29 final size:31
Alignment explanation
Indices: 41242457--41242517 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
41242447 ATAAGTATGT
41242457 ATATATACATATACATGTATATGCAT-TAAA
1 ATATATACATATACATGTATATGCATGTAAA
* *
41242487 ATATATA-ATATATATGTATATGTATGTAAA
1 ATATATACATATACATGTATATGCATGTAAA
41242517 A
1 A
41242518 GTGTGCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (31 bp):
ATATATACATATACATGTATATGCATGTAAA
Found at i:41242607 original size:25 final size:24
Alignment explanation
Indices: 41242550--41242607 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 24
41242540 TATATAACAA
*
41242550 ATAAAAAAATGTGTACGTATATAT
1 ATAAAAAAATGTATACGTATATAT
* *
41242574 ATTATAAAAATGTATATGTATATAT
1 A-TAAAAAAATGTATACGTATATAT
*
41242599 ATAACAAAA
1 ATAAAAAAA
41242608 CTTGGAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (24 bp):
ATAAAAAAATGTATACGTATATAT
Found at i:41244120 original size:44 final size:44
Alignment explanation
Indices: 41244035--41244126 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
41244025 TCTACTGCAC
* * **
41244035 TTCAGAGAGATACAATTTGTAGCTTCAATTCACTCTGCTGCAAA
1 TTCAGAGAGATACAACTTGTAGCTTCAATCCACTCCACTGCAAA
* *
41244079 TTCAGAGAGATACAACTTGTAGCTTTAATCCACTCCACTGCAAC
1 TTCAGAGAGATACAACTTGTAGCTTCAATCCACTCCACTGCAAA
41244123 TTCA
1 TTCA
41244127 AAGGGACAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (44 bp):
TTCAGAGAGATACAACTTGTAGCTTCAATCCACTCCACTGCAAA
Found at i:41244484 original size:139 final size:138
Alignment explanation
Indices: 41244246--41244562 Score: 501
Period size: 139 Copynumber: 2.3 Consensus size: 138
41244236 TAAGATCCGC
* *
41244246 TATCTACAGCCTGCTCCACTACAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
1 TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
*
41244311 CTACTGCAACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
66 CTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
*
41244376 AAGG-TTTG
131 -AGGATTAG
41244384 TTATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAA
1 -TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAA
* *
41244449 CCTACTGTAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTTAGGGAGA
65 CCTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGA
41244514 TAGGATTAG
130 TAGGATTAG
* * * * * *
41244523 TAGCTTCAATTTGCTCCGCTATAACTTCAGGGAGATAAGA
1 TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGA
41244563 TTGGTATCTT
Statistics
Matches: 165, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
138 37 0.22
139 128 0.78
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (138 bp):
TATCTACAGTCTGCTCCACTATAACTTTAGGGAGATAAGACTCGTTATGGTAGATTTAATCCAAC
CTACTGCAACTTCAGAGGTATAGGATTCAACATTTTAATCCGCTCCACTGCAACTTCAGGGAGAT
AGGATTAG
Found at i:41244539 original size:44 final size:44
Alignment explanation
Indices: 41244486--41244828 Score: 260
Period size: 44 Copynumber: 7.8 Consensus size: 44
41244476 TCAACATTTT
* * *
41244486 AATCCGCTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * ** * *
41244530 AATTTGCTCCGCTATAACTTCAGGGAGATAAGATTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * *
41244574 AACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * * * * *
41244619 AGTCTACTCCACTACAACTTTAGTGAGATAAGATCAGTAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* * * * * *
41244663 AGTCTGCTCCTCTGTAACTTCAGGGTGATAAGACTCA-TATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTAGCTTC
* * * * * *
41244707 AGTCTACTCCACTGCAACTTCATGGAAATAAGA-CA-TATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
* ** * * * *
41244749 AACCTGCTCCACCACAACTTCAAGGAGATAAGGTTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TAGCTTC
* * *
41244794 AGTCTGTTCCACTGTAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
41244829 TGATTTGATA
Statistics
Matches: 234, Mismatches: 60, Indels: 9
0.77 0.20 0.03
Matches are distributed among these distances:
42 34 0.15
44 129 0.55
45 71 0.30
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGCTTC
Found at i:41244658 original size:133 final size:133
Alignment explanation
Indices: 41244492--41244738 Score: 341
Period size: 133 Copynumber: 1.9 Consensus size: 133
41244482 TTTTAATCCG
* * * *
41244492 CTCCACTGCAACTTTAGGGAGATAGGATTAGTAGCTTCAATTTGCTCCGCTATAACTTCAGGGAG
1 CTCCACTACAACTTTAGGGAGATAAGATCAGTAGCTTCAATCTGCTCCGCTATAACTTCAGGGAG
* ** * *
41244557 ATAAGATTGGTATCTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTACAGT
66 ATAAGACTCATATCTTCAACCTACTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTACAGT
41244622 CTA
131 CTA
* * * * *
41244625 CTCCACTACAACTTTAGTGAGATAAGATCAGTAGCTTCAGTCTGCTCCTCTGTAACTTCAGGGTG
1 CTCCACTACAACTTTAGGGAGATAAGATCAGTAGCTTCAATCTGCTCCGCTATAACTTCAGGGAG
** *
41244690 ATAAGACTCATATCTTCAGTCTACTCCACTGCAACTTCATGGAAATAAG
66 ATAAGACTCATATCTTCAACCTACTCCACTGCAACTTCAGGGAAATAAG
41244739 ACATATCTTC
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
133 97 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (133 bp):
CTCCACTACAACTTTAGGGAGATAAGATCAGTAGCTTCAATCTGCTCCGCTATAACTTCAGGGAG
ATAAGACTCATATCTTCAACCTACTCCACTGCAACTTCAGGGAAATAAGGTTTGTTATCTACAGT
CTA
Found at i:41245206 original size:103 final size:102
Alignment explanation
Indices: 41244991--41245270 Score: 328
Period size: 103 Copynumber: 2.7 Consensus size: 102
41244981 CTCATCGTGG
** * * ** * *
41244991 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTATCTTCAGT-CTATTCTACCGCAACCTC
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATTAT-TTTAATCCGCTTC-ACTGCAACTTC
* * *
41245055 AGTGAGATAAGACTTGTAGCTTCAATAAAGTCTGATACAA
64 AG-GAGATAGGACTAGTAACTTCAATAAAGTCTGATACAA
* * *
41245095 TCTACTCTACTGCAACTTCGGAGAGATAAGATCCATTATTTTAATCCGCTTCATTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATCCGCTTCACTGCAACTTCAG
* *
41245160 GAAGATAGGACTAGTAACTTCAATAAAGTCTGATGCGA
66 G-AGATAGGACTAGTAACTTCAATAAAGTCTGATACAA
* * * *
41245198 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATTTTGACCCGCTCCACTGCAACTTCAG
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATCCGCTTCACTGCAACTTCA-
41245263 GGAGATAG
65 GGAGATAG
41245271 AACTCATATC
Statistics
Matches: 150, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
102 1 0.01
103 108 0.72
104 41 0.27
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (102 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATTATTTTAATCCGCTTCACTGCAACTTCAG
GAGATAGGACTAGTAACTTCAATAAAGTCTGATACAA
Found at i:41245269 original size:44 final size:45
Alignment explanation
Indices: 41245201--41245316 Score: 123
Period size: 44 Copynumber: 2.6 Consensus size: 45
41245191 GATGCGATCT
* * * *
41245201 GCTCTACTGCAACTTCAGAGAGATAAGATC-CATCAT-TTTGACCC
1 GCTCCACTGCAACTTCAGGGAGATAAGAACTCAT-ATCTTTAACCC
**
41245245 GCTCCACTGCAACTTCAGGGAGAT-AGAACTCATATCTTTAACTT
1 GCTCCACTGCAACTTCAGGGAGATAAGAACTCATATCTTTAACCC
*
41245289 GCCCCACTGCAACTTCAGAGG-GATAAGA
1 GCTCCACTGCAACTTCAG-GGAGATAAGA
41245317 CTTGTAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
43 6 0.10
44 50 0.82
45 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAGGGAGATAAGAACTCATATCTTTAACCC
Found at i:41245556 original size:44 final size:42
Alignment explanation
Indices: 41245482--41245669 Score: 100
Period size: 44 Copynumber: 4.4 Consensus size: 42
41245472 CATTCCACTA
* * * *
41245482 CAACTTCAGGGAGGTAGGATTAGTAACTTCAATCTGCTCTCCTG
1 CAACTTCAGGAAGATAAGATT-GTATCTTCAA-CTGCTCTCCTG
*
41245526 CAACTTCAGGAAGATAAGACTTGTATCTTCAACTTGC-CCCACTG
1 CAACTTCAGGAAGATAAGA-TTGTATCTTCAAC-TGCTCTC-CTG
* * **
41245570 CAACTTCATGG-GGATAAGGTTTGCTAT-TTCAACCTGCTCTATTG
1 CAACTTCA-GGAAGATAA-GATTG-TATCTTCAA-CTGCTCTCCTG
* * * * *
41245614 CAACTTCA-GAGAGATAAAGTTTG-AT-ATGATCTGCTCTACTG
1 CAACTTCAGGA-AGAT-AAGATTGTATCTTCAACTGCTCTCCTG
*
41245655 CAACTTCAGAAAGAT
1 CAACTTCAGGAAGAT
41245670 GAGTCTGTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
41 22 0.19
42 6 0.05
43 3 0.03
44 73 0.63
45 12 0.10
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (42 bp):
CAACTTCAGGAAGATAAGATTGTATCTTCAACTGCTCTCCTG
Found at i:41245955 original size:89 final size:89
Alignment explanation
Indices: 41245791--41245957 Score: 212
Period size: 89 Copynumber: 1.9 Consensus size: 89
41245781 ACCTACTCTA
* *
41245791 CTGCAAACTCGGAGAGGCAAGGCTGGTGTTTTTGATCTGCTTCACTGCCAGTACAGAAGGACAAG
1 CTGCAAACTCGGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGAAGGACAAG
* *
41245856 ATCTGTTATCTTCAGTCTGCTCCG
66 ATATGCTATCTTCAGTCTGCTCCG
** * * *
41245880 CTGCAAACTCAGG-GAGGTGAGGTTGGTGTCTTCGATCTGCTTCGCTGCCGGTACAGGAA-GACA
1 CTGCAAACTC-GGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACA-GAAGGACA
*
41245943 AGTTATGCTATCTTC
64 AGATATGCTATCTTC
41245958 TTTAATCCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
89 61 0.92
90 5 0.08
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.28
Consensus pattern (89 bp):
CTGCAAACTCGGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGCCAGTACAGAAGGACAAG
ATATGCTATCTTCAGTCTGCTCCG
Found at i:41246327 original size:24 final size:24
Alignment explanation
Indices: 41246273--41246330 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
41246263 CGGATTGCCC
*
41246273 CCACTGTAATCTTTAAAGTTTAAT
1 CCACTGTAATCTTTAAAGGTTAAT
* *
41246297 CCGCTGTAATC-TTCAAGGTTAAGT
1 CCACTGTAATCTTTAAAGGTTAA-T
41246321 CCACTGTAAT
1 CCACTGTAAT
41246331 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (24 bp):
CCACTGTAATCTTTAAAGGTTAAT
Found at i:41247507 original size:68 final size:71
Alignment explanation
Indices: 41247347--41247521 Score: 209
Period size: 68 Copynumber: 2.5 Consensus size: 71
41247337 CCCCTTTGGT
* * *
41247347 CTCAAAGTGCCCTTTGCGGGTTTTCACCTTGG-CCTCTCCTTTTTCTTTTTTCTTCTTTTTCTTT
1 CTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGTCTTCTCCTTTTTCTTTTTTCTTCTCTTTCTTT
**
41247411 TTTTGA
66 TTAGGA
* * *
41247417 CTCAAAGCGCCCTTTGTAGGTTTTCACCTTGGTCTTCT-CTTTTT-TTCTTT-TTCTCCTTT-TT
1 CTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGTCTTCTCCTTTTTCTTTTTTCTTCT-CTTTCTT
41247478 TTTAGGA
65 TTTAGGA
* *
41247485 CTCAAGGTGCCCTTTTTGGGTTTTCACCTTGGT-TTCT
1 CTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGTCTTCT
41247522 TCCTGTTCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
67 4 0.04
68 40 0.44
69 8 0.09
70 35 0.38
71 4 0.04
ACGTcount: A:0.09, C:0.25, G:0.15, T:0.52
Consensus pattern (71 bp):
CTCAAAGTGCCCTTTGTGGGTTTTCACCTTGGTCTTCTCCTTTTTCTTTTTTCTTCTCTTTCTTT
TTAGGA
Found at i:41249040 original size:40 final size:39
Alignment explanation
Indices: 41248949--41249064 Score: 98
Period size: 42 Copynumber: 2.9 Consensus size: 39
41248939 ATATTTATGA
* *
41248949 AAGTTAAAAA-AAATGTAAATAAATATATAGACATGTATAT
1 AAGTTAAAAATATATGTAAAT--ATATATATACATGTATAT
41248989 AAGTTAAAAAATAAGTATGTAAATATATATATACATGTATAT
1 AAGTT-AAAAAT-A-TATGTAAATATATATATACATGTATAT
* * *
41249031 GCA-TT-AAAATATAT-T-AATATATATGTATATGTAT
1 -AAGTTAAAAATATATGTAAATATATATATACATGTAT
41249065 GTAGAAGTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
36 17 0.26
37 1 0.02
38 3 0.05
39 1 0.02
40 10 0.15
41 5 0.08
42 19 0.29
43 2 0.03
44 8 0.12
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (39 bp):
AAGTTAAAAATATATGTAAATATATATATACATGTATAT
Found at i:41251256 original size:19 final size:20
Alignment explanation
Indices: 41251214--41251265 Score: 88
Period size: 21 Copynumber: 2.6 Consensus size: 20
41251204 TTCAAGGATG
41251214 TGCAATCTTAGATATGATATA
1 TGCAATCTTAGATATGA-ATA
41251235 TGCAATCTTAGATATG-ATA
1 TGCAATCTTAGATATGAATA
41251254 TGCAATCTTAGA
1 TGCAATCTTAGA
41251266 AGATGTGATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 15 0.48
21 16 0.52
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (20 bp):
TGCAATCTTAGATATGAATA
Found at i:41251780 original size:17 final size:17
Alignment explanation
Indices: 41251749--41251792 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
41251739 CATAACTTTT
* *
41251749 ATATACA-TATATATAT
1 ATATACATTTTATATAC
*
41251765 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
41251782 ATATACATTTT
1 ATATACATTTT
41251793 TTATTTCCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:41252007 original size:30 final size:31
Alignment explanation
Indices: 41251955--41252012 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
41251945 TATTTGTTTT
*
41251955 TATATATATGTAATTATCTTTTT-TATAATC
1 TATATATATGTAATAATCTTTTTATATAATC
41251985 TATATATATGTAGATAAT-TTTTTATATA
1 TATATATATGTA-ATAATCTTTTTATATA
41252013 TGTACATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
TATATATATGTAATAATCTTTTTATATAATC
Found at i:41253424 original size:115 final size:114
Alignment explanation
Indices: 41253149--41253722 Score: 611
Period size: 115 Copynumber: 5.0 Consensus size: 114
41253139 CTTTCGGGGA
* * *
41253149 TTTAGCGGTGCTTTT-ATAAAGCGCCAC--AAAAACCTAATCCCAACGACGTCGTTTTCTGAGCT
1 TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * ** * * * * *
41253211 TTCGAGGATTTAGTGGCATTTTTCGGGAAGCGACGCCAATACCCAGGGC
66 TTCGAGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * * *
41253260 TTTAGCGGTGTTTTTGCTAAAGCGCCACAAAAAAATCTAAGCCTAACGACGCCATTTTCTGAGCT
1 TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
41253325 TTCGGGGATTTAGCGGCGTTTTTAATTAAGCGCCGCTAATGCTCAGTGGC
66 TTCGAGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAG-GGC
* * *
41253375 TTTAGCGGTGTTTTTGCTAAAGCGCCACAAAAAAACCTAAGCCCGACGACGCCGTTTTTTGAGCT
1 TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* ** * * * *
41253440 TTCGGGGATTTAGCGATGTTTTTAAGTAAGCTCCGATAATGCTCAAGGT
66 TTCGAGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* * * * *
41253489 TTTAGCGGCGTTTTTGATAAAGCACCATAAAAAAACCTCAGCCCAACGACACCGTTTTCTGAGCT
1 TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* *
41253554 TTCGAGGATTTACCGGCGTTTTTTAAGTAAGAGCCGCTAATGCTCA-GGC
66 TTCGAGGATTTAGCGGCG-TTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
* ** * *** * * *
41253603 TTTTAGCGGCGTTTTTGGGAAGGCGCTGTAAAGAAACCTAAGCCCAACGACGCCATTTTCTTAGC
1 -TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
* * * * *
41253668 -TTCTGTGGTTTTAGTGGCATTTTTAA-TAAAGCGCCGCTAATGCTCAGTGC
65 TTTC-GAGGATTTAGCGGCGTTTTTAAGT-AAGCGCCGCTAATGCTCAGGGC
41253718 TTTAG
1 TTTAG
41253723 TGGCATTTTT
Statistics
Matches: 390, Mismatches: 64, Indels: 15
0.83 0.14 0.03
Matches are distributed among these distances:
111 14 0.04
112 11 0.03
113 1 0.00
114 172 0.44
115 192 0.49
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (114 bp):
TTTAGCGGTGTTTTTGATAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCGAGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGC
Found at i:41253711 original size:229 final size:227
Alignment explanation
Indices: 41253166--41253734 Score: 601
Period size: 229 Copynumber: 2.5 Consensus size: 227
41253156 GTGCTTTTAT
* * *
41253166 AAAGCGCCAC--AAAAACCTAATCCCAACGACGTCGTTTTCTGAGCTTTCGAGGATTTAGTGGCA
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTCGAGGATTTAGTGGCA
*** * * * * * * * *
41253229 TTTTTCGGGAAGCGACGCCAATACCCAGGGCTTTAGCGGTGTTTTTGCTAAAGCGCCACAAAAAA
66 TTTTT-AATAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGATAAAGCACCACAAAAAA
* * * * * * *
41253294 ATCTAAGCCTAACGACGCCATTTTCTGAGCTTTCGGGGATTTAGCGGCGTTTTTAATTAAGCGCC
130 ACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGAGGATTTACCGGCGTTTTTAAGTAAGAGCC
* *
41253359 GCTAATGCTCAGTGGCTTTAGCGGTGTTTTTGCT
195 GCTAATGCTCAG-GGCTTTAGCGGCGTTTTTGCG
* * * **
41253393 AAAGCGCCACAAAAAAACCTAAGCCCGACGACGCCGTTTT-TTGAGCTTTCGGGGATTTAGCGAT
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTT-AGCTTTCGAGGATTTAGTGGC
* * * * *
41253457 GTTTTTAAGTAAGCTCCGATAATGCTCAAGGTTTTAGCGGCGTTTTTGATAAAGCACCATAAAAA
65 ATTTTTAA-TAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGATAAAGCACCACAAAAA
* *
41253522 AACCTCAGCCCAACGACACCGTTTTCTGAGCTTTCGAGGATTTACCGGCGTTTTTTAAGTAAGAG
129 AACCTAAGCCCAACGACACCATTTTCTGAGCTTTCGAGGATTTACCGGCG-TTTTTAAGTAAGAG
*
41253587 CCGCTAATGCTCA-GGCTTTTAGCGGCGTTTTTGGG
193 CCGCTAATGCTCAGGGC-TTTAGCGGCGTTTTTGCG
* *** * * * *
41253622 AAGGCGCTGTAAAGAAACCTAAGCCCAACGACGCCATTTTCTTAGC-TTCTGTGGTTTTAGTGGC
1 AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTC-GAGGATTTAGTGGC
* *
41253686 ATTTTTAATAAAGCGCCGCTAATGCTC-AGTGCTTTAGTGGCATTTTTGA
65 ATTTTTAAT-AAGCGCCGCTAATGCTCAAG-GCTTTAGCGGCGTTTTTGA
41253735 GGATGCGCCG
Statistics
Matches: 278, Mismatches: 54, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
227 10 0.04
228 10 0.04
229 231 0.83
230 27 0.10
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (227 bp):
AAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCGTTTTCTTAGCTTTCGAGGATTTAGTGGCA
TTTTTAATAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTGATAAAGCACCACAAAAAAA
CCTAAGCCCAACGACACCATTTTCTGAGCTTTCGAGGATTTACCGGCGTTTTTAAGTAAGAGCCG
CTAATGCTCAGGGCTTTAGCGGCGTTTTTGCG
Found at i:41253743 original size:41 final size:41
Alignment explanation
Indices: 41253677--41253755 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
41253667 CTTCTGTGGT
*
41253677 TTTAGTGGCATTTTTAATAAAGCGCCGCTAATGCTCAGTGC
1 TTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGTGC
* * * *
41253718 TTTAGTGGCATTTTTGAGGATGCGCCGCTAATTCTCAG
1 TTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCAG
41253756 GGATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (41 bp):
TTTAGTGGCATTTTTAAGAAAGCGCCGCTAATGCTCAGTGC
Found at i:41254257 original size:20 final size:21
Alignment explanation
Indices: 41254216--41254259 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
41254206 TATCATTATA
*
41254216 GTTTAGGGTTTAATAAATATG
1 GTTTAGGGTATAATAAATATG
*
41254237 GTTTAGGGTAT-ATATATATG
1 GTTTAGGGTATAATAAATATG
41254257 GTT
1 GTT
41254260 AATTTAAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTATAATAAATATG
Found at i:41254382 original size:14 final size:14
Alignment explanation
Indices: 41254363--41254432 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
41254353 TTAATGTGAT
* *
41254363 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
41254377 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
* **
41254391 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
* *
41254405 TTAAGAGTTAGGGC
1 TTAAGGGTTAGGGG
*
41254419 TTTAGGGTTTAGGG
1 TTAAGGG-TTAGGG
41254433 ATTTAGTGTC
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 37 0.86
15 6 0.14
ACGTcount: A:0.21, C:0.01, G:0.41, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:41254558 original size:34 final size:36
Alignment explanation
Indices: 41254519--41254590 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 36
41254509 TATGGATTAT
*
41254519 GGGTTAAGGGTTAGGGATTT-AGGATT-GGGTTTAG
1 GGGTTAAGGATTAGGGATTTGAGGATTAGGGTTTAG
* *
41254553 GGGTTAAGGATTTGGGATTTGAGGTTTAGGGTTTAG
1 GGGTTAAGGATTAGGGATTTGAGGATTAGGGTTTAG
41254589 GG
1 GG
41254591 TTTCAACGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 18 0.55
35 5 0.15
36 10 0.30
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.36
Consensus pattern (36 bp):
GGGTTAAGGATTAGGGATTTGAGGATTAGGGTTTAG
Found at i:41254563 original size:27 final size:28
Alignment explanation
Indices: 41254512--41254583 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
41254502 TAGGGGTTAT
* *
41254512 GGATTATGGG-TTAAGGGTTAGGGATTTA
1 GGATT-TGGGTTTAGGGGTTAAGGATTTA
*
41254540 GGA-TTGGGTTTAGGGGTTAAGGATTTG
1 GGATTTGGGTTTAGGGGTTAAGGATTTA
41254567 GGATTTGAGGTTTAGGG
1 GGATTTG-GGTTTAGGG
41254584 TTTAGGGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 4 0.11
27 19 0.50
28 6 0.16
29 9 0.24
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (28 bp):
GGATTTGGGTTTAGGGGTTAAGGATTTA
Found at i:41254999 original size:28 final size:28
Alignment explanation
Indices: 41254968--41255051 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 28
41254958 ATTAATAAAC
41254968 AAATAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
* *** *
41254996 AAATTAATTTTTAGGTAATTAATT-GTT
1 AAATAAATAAATAGGTAATTAATTATTT
41255023 ---TAAATAAATAGGTAATTAATTATTT
1 AAATAAATAAATAGGTAATTAATTATTT
41255048 AAAT
1 AAAT
41255052 GAATGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
24 17 0.40
25 2 0.05
27 2 0.05
28 21 0.50
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (28 bp):
AAATAAATAAATAGGTAATTAATTATTT
Found at i:41255034 original size:24 final size:24
Alignment explanation
Indices: 41254971--41255051 Score: 108
Period size: 24 Copynumber: 3.2 Consensus size: 24
41254961 AATAAACAAA
41254971 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
* *
41254995 TAAATTAATTTTTAGGTAATTAATTGTT
1 TAAA-TAA---ATAGGTAATTAATTATT
41255023 TAAATAAATAGGTAATTAATTATT
1 TAAATAAATAGGTAATTAATTATT
41255047 TAAAT
1 TAAAT
41255052 GAATGATACA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
24 24 0.49
25 3 0.06
27 3 0.06
28 19 0.39
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (24 bp):
TAAATAAATAGGTAATTAATTATT
Found at i:41255079 original size:52 final size:52
Alignment explanation
Indices: 41254956--41255082 Score: 130
Period size: 52 Copynumber: 2.4 Consensus size: 52
41254946 ATATAAGAAA
* * * **
41254956 AAATTAATAAACAAATAAATAAATAGGTAATTAATTATTTAAATTAATTTTT
1 AAATAAATAAATAAATAAATAAATAGGTAATTAATTATTTAAATGAATTGAT
** * * ***
41255008 AGGTAATTAATTGTTTAAATAAATAGGTAATTAATTATTTAAATGAA-TGAT
1 AAATAAATAAATAAATAAATAAATAGGTAATTAATTATTTAAATGAATTGAT
41255059 ACAATAAATAAATAAATAAATAAA
1 A-AATAAATAAATAAATAAATAAA
41255083 ATATGTAAGA
Statistics
Matches: 55, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
51 3 0.05
52 52 0.95
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (52 bp):
AAATAAATAAATAAATAAATAAATAGGTAATTAATTATTTAAATGAATTGAT
Found at i:41255788 original size:365 final size:366
Alignment explanation
Indices: 41255101--41255815 Score: 1191
Period size: 365 Copynumber: 2.0 Consensus size: 366
41255091 GATTTTGCGG
*
41255101 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTTGTTTCGGCTTAG
1 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
*
41255166 GGAATAAGTTTTAGTTGTGGCGTTTTTCCGAAAAGAGCCGTAAATAATATTTAAACTTTGCCAAA
66 GGAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGAGCCGTAAATAATATTTAAACTTTGCCAAA
* * * **
41255231 ACAGCGCCGTTTCAGTTGAAGGATTGAATATTTTAGTGGCATTTTATTATAAACGTTGCAAGGAT
131 ACAGCACCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCATTTTATTAAAAACGCCGCAAGGAT
** * *
41255296 GTATAAAATTTTTTGAAAACGGCGCCGGTTCGATAATATATTAATTGTGGCGTTTTTGGGAAAAC
196 GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
41255361 GCCAGAATGTTTCCTTATATTTTTATAAAATGGCACCGTTTCTTTCTGTACTTGAAATTTTAGTG
261 GCCAGAATGTTTCCTTATATTTTTATAAAATGGCACCGTTTCTTTCTGTACTTGAAATTTTAGTG
*
41255426 GCGTTTTTAATTAAAATGCCGTAAAAGGTAGACATTACCGA
326 GCGTTTTTAATTAAAACGCCGTAAAAGGTAGACATTACCGA
* *
41255467 CGTTTTGAT-AAAAAATGCCACAAATATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
1 CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
* * * *
41255531 GGAATAAATTTTAGTTGTGGCGTTTTTCCTAAAA-ACGGCGTAAATAATATTTGAACTTTGCGAA
66 GGAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGA-GCCGTAAATAATATTTAAACTTTGCCAA
* * * *
41255595 AACGGCACCGTTTCAGTTGAAGGATGGAATCTTTTAGTGGCGTTTTATTAAAAATGCCGCAAGGA
130 AACAGCACCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCATTTTATTAAAAACGCCGCAAGGA
41255660 TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
195 TGTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAA
* *
41255725 CGCCAGAATGTTTCCTTATATTTTTATGAAATGGCACTGTTTCTTTCTGTACTTGAAATTTTAGT
260 CGCCAGAATGTTTCCTTATATTTTTATAAAATGGCACCGTTTCTTTCTGTACTTGAAATTTTAGT
41255790 GGCGTTTTTAATTAAAACGCCGTAAA
325 GGCGTTTTTAATTAAAACGCCGTAAA
41255816 TGTCGATACA
Statistics
Matches: 324, Mismatches: 24, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
364 1 0.00
365 314 0.97
366 9 0.03
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (366 bp):
CGTTTTGATAAAAAAACGCCACAAAAATTTATTGCATTTACCGATACGGCGTCGTTTCGGCTTAG
GGAATAAATTTTAGTTGTGGCGTTTTTCCGAAAAGAGCCGTAAATAATATTTAAACTTTGCCAAA
ACAGCACCGTTTCAGTTGAAGGATGGAATATTTTAGTGGCATTTTATTAAAAACGCCGCAAGGAT
GTATAAAATTTACTGAAAACGACGCCGGTTCGATAATATATTAATTGTGGCGTGTTTGGGAAAAC
GCCAGAATGTTTCCTTATATTTTTATAAAATGGCACCGTTTCTTTCTGTACTTGAAATTTTAGTG
GCGTTTTTAATTAAAACGCCGTAAAAGGTAGACATTACCGA
Found at i:41256498 original size:18 final size:18
Alignment explanation
Indices: 41256475--41256512 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
41256465 CGTTTGTTAG
41256475 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
41256493 TTACTTGCAGTGTTAATA
1 TTACTTGCAGTGTTAATA
41256511 TT
1 TT
41256513 TTTGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (18 bp):
TTACTTGCAGTGTTAATA
Found at i:41257586 original size:23 final size:23
Alignment explanation
Indices: 41257558--41257601 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
41257548 CTTATATGTA
*
41257558 AACTTACATAATACATTACTTTT
1 AACTTACATAATACATAACTTTT
41257581 AACTTACATAATACATAACTT
1 AACTTACATAATACATAACTT
41257602 ATAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (23 bp):
AACTTACATAATACATAACTTTT
Found at i:41257741 original size:9 final size:9
Alignment explanation
Indices: 41257729--41258036 Score: 236
Period size: 9 Copynumber: 35.3 Consensus size: 9
41257719 ATACATAGCA
41257729 TACATAACT
1 TACATAACT
41257738 TACATAA--
1 TACATAACT
*
41257745 TACAAAACT
1 TACATAACT
*
41257754 TACGTAACT
1 TACATAACT
* *
41257763 TAAATATCT
1 TACATAACT
*
41257772 TACACAACT
1 TACATAACT
*
41257781 TACATAACC
1 TACATAACT
41257790 TACATAA--
1 TACATAACT
41257797 TACATTTAACT
1 TACA--TAACT
41257808 TACATAACT
1 TACATAACT
41257817 TACATAA--
1 TACATAACT
*
41257824 TACAAAACT
1 TACATAACT
*
41257833 TACATAACC
1 TACATAACT
* *
41257842 TAAATATCT
1 TACATAACT
*
41257851 TACACAACT
1 TACATAACT
*
41257860 TACATAACC
1 TACATAACT
41257869 TACATAA--
1 TACATAACT
41257876 TACATTTAACT
1 TACA--TAACT
41257887 TACATAACT
1 TACATAACT
*
41257896 TACATAATACA
1 TACAT-A-ACT
41257907 TA-ATAACT
1 TACATAACT
41257915 TAC--AACT
1 TACATAACT
*
41257922 TACATAACA
1 TACATAACT
*
41257931 TACATTACT
1 TACATAACT
**
41257940 TTGATAACT
1 TACATAACT
41257949 TACATAACT
1 TACATAACT
41257958 TACATAA--
1 TACATAACT
*
41257965 TACACAACT
1 TACATAACT
*
41257974 TACATAGCT
1 TACATAACT
*
41257983 TACTTAA--
1 TACATAACT
41257990 TACATAACT
1 TACATAACT
41257999 TACATAACT
1 TACATAACT
*
41258008 T--ATACACG
1 TACATA-ACT
41258016 TACATAACT
1 TACATAACT
*
41258025 TACATAATT
1 TACATAACT
41258034 TAC
1 TAC
41258037 TTATCTATGA
Statistics
Matches: 234, Mismatches: 41, Indels: 48
0.72 0.13 0.15
Matches are distributed among these distances:
7 42 0.18
8 7 0.03
9 167 0.71
10 6 0.03
11 12 0.05
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
TACATAACT
Found at i:41257812 original size:79 final size:79
Alignment explanation
Indices: 41257729--41258006 Score: 346
Period size: 79 Copynumber: 3.4 Consensus size: 79
41257719 ATACATAGCA
* *
41257729 TACATAACTTACATAATACAAAACTTACGTAACTTAAATATCTTACACAACTTACATAACCTACA
1 TACATAACTTACATAATACAAAACTTACATAACCTAAATATCTTACACAACTTACATAACCTACA
41257794 TAATACATTTAACT
66 TAATACATTTAACT
41257808 TACATAACTTACATAATACAAAACTTACATAACCTAAATATCTTACACAACTTACATAACCTACA
1 TACATAACTTACATAATACAAAACTTACATAACCTAAATATCTTACACAACTTACATAACCTACA
41257873 TAATACATTTAACT
66 TAATACATTTAACT
* * *
41257887 TACATAACTTACATAATACATAATAACTTACAACTTACATAACATA-CATTACTTTGATAACTTA
1 TACATAACTTACATAATAC--AA-AACTTAC-A-TAACCTAA-ATATC-TTAC----ACAACTTA
* *
41257951 CATAACTTACATAATACA--CAACT
55 CATAACCTACATAATACATTTAACT
* * *
41257974 TACATAGCTTACTTAATACATAACTTACATAAC
1 TACATAACTTACATAATACAAAACTTACATAAC
41258007 TTATACACGT
Statistics
Matches: 177, Mismatches: 11, Indels: 19
0.86 0.05 0.09
Matches are distributed among these distances:
79 96 0.54
81 2 0.01
82 10 0.06
83 2 0.01
84 14 0.08
85 8 0.05
87 21 0.12
89 24 0.14
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.32
Consensus pattern (79 bp):
TACATAACTTACATAATACAAAACTTACATAACCTAAATATCTTACACAACTTACATAACCTACA
TAATACATTTAACT
Found at i:41257832 original size:16 final size:16
Alignment explanation
Indices: 41257808--41257839 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
41257798 ACATTTAACT
*
41257808 TACATAACTTACATAA
1 TACAAAACTTACATAA
41257824 TACAAAACTTACATAA
1 TACAAAACTTACATAA
41257840 CCTAAATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (16 bp):
TACAAAACTTACATAA
Found at i:41257984 original size:25 final size:25
Alignment explanation
Indices: 41257963--41258036 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
41257953 TAACTTACAT
* *
41257963 AATACACAACTTACATAGCTTACTT
1 AATACACAACTTACATAACTTACAT
* * *
41257988 AATACATAACTTACATAACTTATAC
1 AATACACAACTTACATAACTTACAT
* * *
41258013 ACGTACATAACTTACATAATTTAC
1 A-ATACACAACTTACATAACTTAC
41258037 TTATCTATGA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.43, C:0.22, G:0.03, T:0.32
Consensus pattern (25 bp):
AATACACAACTTACATAACTTACAT
Found at i:41260596 original size:21 final size:21
Alignment explanation
Indices: 41260572--41260633 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
41260562 AGGTGGCAAT
*
41260572 GAGGGAAGCAAAGGCTGCAGC
1 GAGGGAAGCAGAGGCTGCAGC
* *
41260593 GAGGGAAGTAGAGGCTACAGC
1 GAGGGAAGCAGAGGCTGCAGC
*
41260614 GAGAGAAGCAGAGGCTGCAG
1 GAGGGAAGCAGAGGCTGCAG
41260634 GGCGAGAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.16, G:0.44, T:0.06
Consensus pattern (21 bp):
GAGGGAAGCAGAGGCTGCAGC
Found at i:41260640 original size:21 final size:21
Alignment explanation
Indices: 41260576--41260645 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
41260566 GGCAATGAGG
* *
41260576 GAAGCAAAGGCTGCAGCGAGG
1 GAAGCAGAGGCTGCAGCGAGA
* *
41260597 GAAGTAGAGGCTACAGCGAGA
1 GAAGCAGAGGCTGCAGCGAGA
* *
41260618 GAAGCAGAGGCTGCAGGGCGA
1 GAAGCAGAGGCTGCAGCGAGA
41260639 GAAGCAG
1 GAAGCAG
41260646 CGAGAGAAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.43, T:0.06
Consensus pattern (21 bp):
GAAGCAGAGGCTGCAGCGAGA
Found at i:41261153 original size:42 final size:42
Alignment explanation
Indices: 41261028--41261255 Score: 179
Period size: 43 Copynumber: 5.4 Consensus size: 42
41261018 AATCCCAAAA
* * * *
41261028 TTAGTGGCGTTTTTTACAATAGCGCCACTAAAGAACATTA-CTT
1 TTAGCGGCGTTTTTTACCA-AGCGCCGCTAAAGAACATGATC-T
* * * * **
41261071 TTCGTGGCGTTTGTGATGAAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTA-CCAAGCGCCGCTAAAGAACATGATCT
* * * **
41261114 ATAGAGGCGTTTTTTACCAAGTGCCGCTAAAGAGTATGATCT
1 TTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATCT
* * *
41261156 TTAGCGGCCTTTTTTTCGAAGCGCCGCTAAAGAACATGATCT
1 TTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATCT
* * * * * * *
41261198 TTAGCGACGTTTTTTTTCGAAGTGCCGTTAAAAAACATGACCT
1 TTAGCGGCG-TTTTTTACCAAGCGCCGCTAAAGAACATGATCT
*
41261241 TTAGCGGCATTTTTT
1 TTAGCGGCGTTTTTT
41261256 CTGTAAACGC
Statistics
Matches: 150, Mismatches: 32, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
42 68 0.45
43 79 0.53
44 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTACCAAGCGCCGCTAAAGAACATGATCT
Found at i:41261185 original size:84 final size:85
Alignment explanation
Indices: 41261090--41261255 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
41261080 TTTGTGATGA
* * ** *
41261090 AAGCGCCGCTAAAGAACATGATCTATAGAGGCG-TTTTTTACCAAGTGCCGCTAAAGAGTATGAT
1 AAGCGCCGCTAAAGAACATGATCTATAGAGACGTTTTTTTACCAAGTGCCGCTAAAAAACATGAC
*
41261154 CTTTAGCGGCCTTTTTTTCG
66 CTTTAGCGGCATTTTTTTCG
* * * * *
41261174 AAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTTTCGAAGTGCCGTTAAAAAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTATAGAGACGTTTTTTTACCAAGTGCCGCTAAAAAACATGAC
41261239 CTTTAGCGGCATTTTTT
66 CTTTAGCGGCATTTTTT
41261256 CTGTAAACGC
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 30 0.43
85 40 0.57
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTATAGAGACGTTTTTTTACCAAGTGCCGCTAAAAAACATGAC
CTTTAGCGGCATTTTTTTCG
Found at i:41261212 original size:43 final size:43
Alignment explanation
Indices: 41261090--41261255 Score: 192
Period size: 42 Copynumber: 3.9 Consensus size: 43
41261080 TTTGTGATGA
* * * *
41261090 AAGCGCCGCTAAAGAACATGATCTATAGAGGCG-TTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCG
* ** *
41261132 AAGTGCCGCTAAAGAGTATGATCTTTAGCGGC-CTTTTTTTCG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCG
*
41261174 AAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTTTCG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCG
* * * * *
41261217 AAGTGCCGTTAAAAAACATGACCTTTAGCGGCATTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
41261256 CTGTAAACGC
Statistics
Matches: 104, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
42 62 0.60
43 42 0.40
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTCG
Found at i:41261256 original size:84 final size:84
Alignment explanation
Indices: 41261090--41261256 Score: 219
Period size: 84 Copynumber: 2.0 Consensus size: 84
41261080 TTTGTGATGA
* * ** *
41261090 AAGCGCCGCTAAAGAACATGATCTATAGAGGCGTTTTTTACCAAGTGCCGCTAAAGAGTATGATC
1 AAGCGCCGCTAAAGAACATGATCTATAGAGACGTTTTTTACCAAGTGCCGCTAAAAAACATGACC
*
41261155 TTTAGCGGCCTTTTTTTCG
66 TTTAGCGGCCATTTTTTCG
* * * * *
41261174 AAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTTTCGAAGTGCCGTTAAAAAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTATAGAGACG-TTTTTTACCAAGTGCCGCTAAAAAACATGAC
41261239 CTTTAGCGG-CATTTTTTC
65 CTTTAGCGGCCATTTTTTC
41261257 TGTAAACGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
84 38 0.54
85 33 0.46
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (84 bp):
AAGCGCCGCTAAAGAACATGATCTATAGAGACGTTTTTTACCAAGTGCCGCTAAAAAACATGACC
TTTAGCGGCCATTTTTTCG
Found at i:41263483 original size:20 final size:19
Alignment explanation
Indices: 41263444--41263505 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
41263434 GATTATACTA
*
41263444 TTGATATTTGTTTTTCTATT
1 TTGATATTTGATTTT-TATT
41263464 TTGATATTTGACTTTTTATT
1 TTGATATTTGA-TTTTTATT
41263484 TT-AT-TTT-A-TTTTATT
1 TTGATATTTGATTTTTATT
41263499 TTGATAT
1 TTGATAT
41263506 CTAGAATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 9 0.24
16 2 0.05
17 2 0.05
18 3 0.08
19 2 0.05
20 16 0.42
21 4 0.11
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
TTGATATTTGATTTTTATT
Found at i:41276915 original size:24 final size:24
Alignment explanation
Indices: 41276888--41276947 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
41276878 TATCATATTC
*
41276888 AAGCTATCACAAAACATACCACAT
1 AAGCTATCACAAAACATACAACAT
* *
41276912 AAGCCATTC-CAAAACATGCAACAT
1 AAGCTA-TCACAAAACATACAACAT
* *
41276936 AAGATAGCACAA
1 AAGCTATCACAA
41276948 TGACATAAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.50, C:0.27, G:0.08, T:0.15
Consensus pattern (24 bp):
AAGCTATCACAAAACATACAACAT
Found at i:41278986 original size:43 final size:43
Alignment explanation
Indices: 41278925--41279013 Score: 124
Period size: 43 Copynumber: 2.1 Consensus size: 43
41278915 CAGGCTATTA
* * *
41278925 CATCATTAGACAAACCGGAGCAAGTACACTAGCACACATAGTG
1 CATCATCAGACAAACCGGAGCAAATACACTAACACACATAGTG
* * *
41278968 CATCATCAGACTAACCGGAGCAAATATACTAACACATATAGTG
1 CATCATCAGACAAACCGGAGCAAATACACTAACACACATAGTG
41279011 CAT
1 CAT
41279014 ATTGACACAC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (43 bp):
CATCATCAGACAAACCGGAGCAAATACACTAACACACATAGTG
Found at i:41281125 original size:18 final size:18
Alignment explanation
Indices: 41281102--41281139 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
41281092 ACCTAAGCCC
41281102 GCCCGTTTGCCAGCTCTA
1 GCCCGTTTGCCAGCTCTA
41281120 GCCCGTTTGCCAGCTCTA
1 GCCCGTTTGCCAGCTCTA
41281138 GC
1 GC
41281140 TGTTATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.39, G:0.24, T:0.26
Consensus pattern (18 bp):
GCCCGTTTGCCAGCTCTA
Found at i:41286780 original size:13 final size:13
Alignment explanation
Indices: 41286764--41286788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41286754 GATGAAGTTT
41286764 CCTGATTCAGAAA
1 CCTGATTCAGAAA
41286777 CCTGATTCAGAA
1 CCTGATTCAGAA
41286789 TGCGCTACCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
CCTGATTCAGAAA
Found at i:41289080 original size:27 final size:27
Alignment explanation
Indices: 41289049--41289262 Score: 242
Period size: 27 Copynumber: 8.0 Consensus size: 27
41289039 GGCAAATAAC
41289049 TGAAATACCCTCGAAGGGTAAAATGAA
1 TGAAATACCCTCGAAGGGTAAAATGAA
*
41289076 TGAAATACCCTCGAAGGGTAAAATGAC
1 TGAAATACCCTCGAAGGGTAAAATGAA
*
41289103 TGAAATACCCTTGAAGGGTAAAATG-A
1 TGAAATACCCTCGAAGGGTAAAATGAA
41289129 TCGAAATACCCTCGAAGGGTAAAATG-A
1 T-GAAATACCCTCGAAGGGTAAAATGAA
*
41289156 TCGAAATACCCTCAAAGGGTAAAAT-AA
1 T-GAAATACCCTCGAAGGGTAAAATGAA
** *
41289183 CCAAAATACCCTCGAAAGGGT-AAATGAC
1 -TGAAATACCCTCG-AAGGGTAAAATGAA
* * * *
41289211 CGAAATACCCTCAAAGGATAAAATGAC
1 TGAAATACCCTCGAAGGGTAAAATGAA
*
41289238 CGAAATACCC-C-ATAGGGTAAAATGA
1 TGAAATACCCTCGA-AGGGTAAAATGA
41289263 CTATTATACC
Statistics
Matches: 167, Mismatches: 13, Indels: 15
0.86 0.07 0.08
Matches are distributed among these distances:
25 1 0.01
26 18 0.11
27 141 0.84
28 7 0.04
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
TGAAATACCCTCGAAGGGTAAAATGAA
Found at i:41289110 original size:54 final size:54
Alignment explanation
Indices: 41289042--41289264 Score: 285
Period size: 54 Copynumber: 4.1 Consensus size: 54
41289032 GAGTCGTGGC
* * *
41289042 AAATAACTGAAATACCCTCGAAGGGTAAAATGAATGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCAAAGGGTAAAATGAACGAAATACCCTCGAAGGGTA
** *
41289096 AAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACTGAAATACCCTCAAAGGGTAAAATGAACGAAATACCCTCGAAGGGTA
*
41289150 AAATGA-TCGAAATACCCTCAAAGGGTAAAAT-AACCAAAATACCCTCGAAAGGGT-
1 AAATGACT-GAAATACCCTCAAAGGGTAAAATGAA-CGAAATACCCTCG-AAGGGTA
* * *
41289204 AAATGACCGAAATACCCTCAAAGGATAAAATGACCGAAATACCC-C-ATAGGGTA
1 AAATGACTGAAATACCCTCAAAGGGTAAAATGAACGAAATACCCTCGA-AGGGTA
41289257 AAATGACT
1 AAATGACT
41289265 ATTATACCCT
Statistics
Matches: 149, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
51 1 0.01
52 5 0.03
53 10 0.07
54 126 0.85
55 7 0.05
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (54 bp):
AAATGACTGAAATACCCTCAAAGGGTAAAATGAACGAAATACCCTCGAAGGGTA
Found at i:41289149 original size:81 final size:80
Alignment explanation
Indices: 41289050--41289274 Score: 285
Period size: 81 Copynumber: 2.8 Consensus size: 80
41289040 GCAAATAACT
* *
41289050 GAAATACCCTCGAAGGGTAAAATGAATGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCTT
1 GAAATACCCTCGAAGGGTAAAATGAATGAAATACCCTC-AAGGGTAAAATGACTAAAATACCCTC
*
41289115 G-AAGGGTAAAATGATC
65 GAAAGGGT-AAATGACC
* *
41289131 GAAATACCCTCGAAGGGTAAAATG-ATCGAAATACCCTCAAAGGGTAAAATAACCAAAATACCCT
1 GAAATACCCTCGAAGGGTAAAATGAAT-GAAATACCCTC-AAGGGTAAAATGACTAAAATACCCT
41289195 CGAAAGGGTAAATGACC
64 CGAAAGGGTAAATGACC
* * ** **
41289212 GAAATACCCTCAAAGGATAAAATGACCGAAATACCC-CATAGGGTAAAATGACTATTATACCCT
1 GAAATACCCTCGAAGGGTAAAATGAATGAAATACCCTCA-AGGGTAAAATGACTAAAATACCCT
41289275 TAGGAGTCGG
Statistics
Matches: 126, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 23 0.18
81 96 0.76
82 6 0.05
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.19
Consensus pattern (80 bp):
GAAATACCCTCGAAGGGTAAAATGAATGAAATACCCTCAAGGGTAAAATGACTAAAATACCCTCG
AAAGGGTAAATGACC
Found at i:41291434 original size:13 final size:13
Alignment explanation
Indices: 41291418--41291470 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
41291408 TTTAAACCAA
*
41291418 ACTTTTGAAAAGC
1 ACTTTTCAAAAGC
*
41291431 ACTTTTGAAAAGC
1 ACTTTTCAAAAGC
* * *
41291444 ATTTTTCCACAGC
1 ACTTTTCAAAAGC
41291457 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
41291470 A
1 A
41291471 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:41295101 original size:14 final size:14
Alignment explanation
Indices: 41295082--41295109 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41295072 TATGCAAGAA
41295082 AACTTAAATAGCAT
1 AACTTAAATAGCAT
41295096 AACTTAAATAGCAT
1 AACTTAAATAGCAT
41295110 GAAACCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
AACTTAAATAGCAT
Found at i:41296812 original size:40 final size:40
Alignment explanation
Indices: 41296762--41297197 Score: 453
Period size: 40 Copynumber: 10.9 Consensus size: 40
41296752 TACTCTGTAG
* *
41296762 TTGGTGTGTTTTGGTTGGACCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* ** * *
41296802 TTGGCGTGTTTCT-GTTGAATCAAATCTTACGAGCTTCTAT
1 TTGGCGTGTTT-TGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * *
41296842 TTTGTGTGTTTCGGTTGGATCAACTCTTATGAGCATCTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * * * *
41296882 CTAGCGTGTTTTAGG-AGGACCAGTTCTAATGAGCTTTTGT
1 TTGGCGTGTTTT-GGTTGGATCAGCTCTTATGAGCTTCTGT
* *
41296922 TTGGTGTGTTTTGGTTGGATCAGCTCTTATGAGCTTTTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* *
41296962 TTGGCGTGTTTCGGGTGGATCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
*
41297002 TTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * *
41297042 TTCGCATGTTTTGGGTGGATCAACTCTTATGAGCTTTTGT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * *
41297082 TTGGCATGTTTCGGTTGGATCAGCTCTTATAAGCTTCTAT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * *
41297122 TTGGCATGTTTTGATTAGATCAGCTCTTATGAGCTTTTGC
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
* * * * *
41297162 TCGGCGTGTTTCGGTTGGATTAGCTGTTACGAGCTT
1 TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTT
41297198 TTATCTGGTG
Statistics
Matches: 326, Mismatches: 66, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.01
40 321 0.98
41 3 0.01
ACGTcount: A:0.14, C:0.16, G:0.27, T:0.43
Consensus pattern (40 bp):
TTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTGT
Found at i:41297843 original size:30 final size:30
Alignment explanation
Indices: 41297807--41297904 Score: 139
Period size: 30 Copynumber: 3.3 Consensus size: 30
41297797 AGAATACTAT
*
41297807 TTACATTTTGGCCCCTCAATTTTTCTAAAA
1 TTACATTTTGGCCCCTCATTTTTTCTAAAA
41297837 TTACATTTTGGCCCC-CATTTTTTTCTGAAAA
1 TTACATTTTGGCCCCTCA-TTTTTTCT-AAAA
*
41297868 -TACATTTTGGCCCCT-TTTTTTTCTAAAA
1 TTACATTTTGGCCCCTCATTTTTTCTAAAA
41297896 TTACATTTT
1 TTACATTTT
41297905 AACCCTTGGA
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
28 4 0.06
29 18 0.29
30 36 0.58
31 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.48
Consensus pattern (30 bp):
TTACATTTTGGCCCCTCATTTTTTCTAAAA
Found at i:41298916 original size:10 final size:10
Alignment explanation
Indices: 41298898--41298958 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
41298888 GGAAAGAGAT
41298898 AAAG-AAGAA
1 AAAGAAAGAA
*
41298907 AAAGGAAGAA
1 AAAGAAAGAA
* *
41298917 AATAAAAAAAA
1 AA-AGAAAGAA
41298928 AGAAGAAAGAAA
1 A-AAGAAAG-AA
41298940 AAAGAAAGAA
1 AAAGAAAGAA
*
41298950 AAAGGAAGA
1 AAAGAAAGA
41298959 GAAATAATCG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
9 4 0.10
10 17 0.40
11 17 0.40
12 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:41298932 original size:18 final size:18
Alignment explanation
Indices: 41298905--41298953 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
41298895 GATAAAGAAG
*
41298905 AAAAAGGAAGAAA-ATAAA
1 AAAAAAGAAGAAAGA-AAA
41298923 AAAAAAGAAGAAAGAAAA
1 AAAAAAGAAGAAAGAAAA
*
41298941 AAGAAAGAA-AAAG
1 AAAAAAGAAGAAAG
41298954 GAAGAGAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 23 0.82
19 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAGAAGAAAGAAAA
Found at i:41298946 original size:11 final size:11
Alignment explanation
Indices: 41298905--41298962 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
41298895 GATAAAGAAG
*
41298905 AAAAAGGAAGA
1 AAAAAGAAAGA
41298916 AAATAA-AAA-A
1 AAA-AAGAAAGA
41298926 AAAGAAGAAAGA
1 AAA-AAGAAAGA
41298938 AAAAAGAAAGA
1 AAAAAGAAAGA
*
41298949 AAAAGGAAGAGA
1 AAAAAGAA-AGA
41298961 AA
1 AA
41298963 TAATCGGGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 6 0.15
11 23 0.57
12 11 0.28
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:41298951 original size:28 final size:28
Alignment explanation
Indices: 41298898--41298952 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
41298888 GGAAAGAGAT
** *
41298898 AAAGAAGAAAAAGGAAGAAAATAAAAAA
1 AAAGAAGAAAAAAAAAGAAAAGAAAAAA
41298926 AAAGAAGAAAGAAAAAAG-AAAGAAAAA
1 AAAGAAGAAA-AAAAAAGAAAAGAAAAA
41298953 GGAAGAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (28 bp):
AAAGAAGAAAAAAAAAGAAAAGAAAAAA
Found at i:41305716 original size:16 final size:16
Alignment explanation
Indices: 41305680--41305726 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
41305670 ATAAAGAAGA
*
41305680 AAAAAGAAGAAAATAAG
1 AAAAAGAAGAAGA-AAG
41305697 -AAAAGAAGAAGAAAG
1 AAAAAGAAGAAGAAAG
41305712 AAAAAGGAA-AAGAAA
1 AAAAA-GAAGAAGAAA
41305727 TAGTCGGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (16 bp):
AAAAAGAAGAAGAAAG
Found at i:41310932 original size:14 final size:14
Alignment explanation
Indices: 41310913--41310947 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
41310903 AAAAATTAAA
41310913 ATAAAATTAACAAC
1 ATAAAATTAACAAC
41310927 ATAAAATTAACAAC
1 ATAAAATTAACAAC
*
41310941 TTAAAAT
1 ATAAAAT
41310948 CAAATCAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAAATTAACAAC
Found at i:41313022 original size:23 final size:23
Alignment explanation
Indices: 41312996--41313071 Score: 100
Period size: 23 Copynumber: 3.3 Consensus size: 23
41312986 ATGAGTGCCA
41312996 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
41313019 CACTGATACGTAGCC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* **
41313042 CACTGAAATGTAGTTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
41313065 CACTGAT
1 CACTGAT
41313072 CAATAACACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 1 0.02
23 43 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:41315258 original size:16 final size:17
Alignment explanation
Indices: 41315237--41315268 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
41315227 AATAAATGAC
41315237 TAAATTG-AAAGAAAAA
1 TAAATTGAAAAGAAAAA
41315253 TAAATTGAAAAGAAAA
1 TAAATTGAAAAGAAAA
41315269 TCCAAAAATC
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:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (17 bp):
TAAATTGAAAAGAAAAA
Found at i:41321562 original size:29 final size:29
Alignment explanation
Indices: 41321520--41321578 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
41321510 AACTTGTACC
41321520 GACCGGTGAGATAGAAAGAGTATCCATAT
1 GACCGGTGAGATAGAAAGAGTATCCATAT
41321549 GACCGGTGAGATAGAAAGAGTATCCATAT
1 GACCGGTGAGATAGAAAGAGTATCCATAT
41321578 G
1 G
41321579 CCTAGGAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (29 bp):
GACCGGTGAGATAGAAAGAGTATCCATAT
Found at i:41329046 original size:215 final size:215
Alignment explanation
Indices: 41328675--41329103 Score: 804
Period size: 215 Copynumber: 2.0 Consensus size: 215
41328665 ACAAACTTTG
41328675 AAGCTAGGATCAATGAGGCTCACTTCTATTAACACATCGGAGGAGCTACCACCTATGAGAGAGGT
1 AAGCTAGGATCAATGAGGCTCACTTCTATTAACACATCGGAGGAGCTACCACCTATGAGAGAGGT
* * *
41328740 GGGTTGTGCATCAAACTTCAGGAAAGTGGTGATGTAAGTTGGACAGTTGACCTGAGTAAATGTTG
66 GGGTTGTGCATCAAACTCCAAGAAAGTGGTAATGTAAGTTGGACAGTTGACCTGAGTAAATGTTG
*
41328805 CGATAAAGGTACATTCTGAACACTTTGGTAGTGTTTTGCATCCTATTTAGCTTGGCAAGAATGTA
131 CGATAAAGGTACATTCTGAACACTTTGGTAGTGTTTTGCATCCTATTTAGCTTGACAAGAATGTA
41328870 GAGGCCCTTTTAAAGTTTTT
196 GAGGCCCTTTTAAAGTTTTT
* *
41328890 AAGCTAGGATCAATTAGGCTCACTTCTATTAACACATCGGAGGAGCTACCACCTATGGGAGAGGT
1 AAGCTAGGATCAATGAGGCTCACTTCTATTAACACATCGGAGGAGCTACCACCTATGAGAGAGGT
41328955 GGGTTGTGCATCAAACTCCAAGAAAGTGGTAATGTAAGTTGGACAGTTGACCTGAGTAAATGTTG
66 GGGTTGTGCATCAAACTCCAAGAAAGTGGTAATGTAAGTTGGACAGTTGACCTGAGTAAATGTTG
41329020 CGATAAAGGTACATTCTGAACACTTTGGTAGTGTTTTGCATCCTATTTAGCTTGACAAGAATGTA
131 CGATAAAGGTACATTCTGAACACTTTGGTAGTGTTTTGCATCCTATTTAGCTTGACAAGAATGTA
41329085 GAGGCCCTTTTAAAGTTTT
196 GAGGCCCTTTTAAAGTTTT
41329104 GAAGAAAGGA
Statistics
Matches: 208, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
215 208 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (215 bp):
AAGCTAGGATCAATGAGGCTCACTTCTATTAACACATCGGAGGAGCTACCACCTATGAGAGAGGT
GGGTTGTGCATCAAACTCCAAGAAAGTGGTAATGTAAGTTGGACAGTTGACCTGAGTAAATGTTG
CGATAAAGGTACATTCTGAACACTTTGGTAGTGTTTTGCATCCTATTTAGCTTGACAAGAATGTA
GAGGCCCTTTTAAAGTTTTT
Found at i:41329631 original size:13 final size:13
Alignment explanation
Indices: 41329613--41329637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
41329603 TAGATTGAAT
41329613 TTGATTATGTAAA
1 TTGATTATGTAAA
41329626 TTGATTATGTAA
1 TTGATTATGTAA
41329638 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:41345450 original size:31 final size:31
Alignment explanation
Indices: 41345389--41345461 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
41345379 TTTAAATATA
* * *
41345389 TACAATAGAATTAAAATCAAAATTTTATGTT
1 TACAATTGAACTATAATCAAAATTTTATGTT
*
41345420 TACATTTGAACTATAATC-AAATTTTCATGTT
1 TACAATTGAACTATAATCAAAATTTT-ATGTT
*
41345451 TATAATTGAAC
1 TACAATTGAAC
41345462 AAAATTAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 7 0.20
31 28 0.80
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
TACAATTGAACTATAATCAAAATTTTATGTT
Found at i:41345650 original size:8 final size:8
Alignment explanation
Indices: 41345637--41345663 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
41345627 CCACCATCTT
41345637 ATATTAAA
1 ATATTAAA
41345645 ATATTAAA
1 ATATTAAA
41345653 ATATTAAA
1 ATATTAAA
41345661 ATA
1 ATA
41345664 CTCGAACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATTAAA
Found at i:41346888 original size:44 final size:44
Alignment explanation
Indices: 41346825--41346911 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
41346815 AATTGTATTT
* * * *
41346825 TAAATTATATTTATTTTTAAATTTGTAATTATCATAACTTCTAC
1 TAAATTATAGTTATTTTTAAATGTATAATTATCACAACTTCTAC
41346869 TAAATTATAGTTATTTTTAAATGTATAATTATCACAACTTCTA
1 TAAATTATAGTTATTTTTAAATGTATAATTATCACAACTTCTA
41346912 TTTTAGTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.49
Consensus pattern (44 bp):
TAAATTATAGTTATTTTTAAATGTATAATTATCACAACTTCTAC
Found at i:41352625 original size:27 final size:27
Alignment explanation
Indices: 41352571--41352664 Score: 97
Period size: 27 Copynumber: 3.6 Consensus size: 27
41352561 GTGCGTCTCC
* **
41352571 TATTTTTCAGATTTTATGGTTTTACCCT
1 TATTTTTCAGATTTTCTAATTTT-CCCT
*
41352599 TATTTTTTAGATTTTCTAATTTTCCCT
1 TATTTTTCAGATTTTCTAATTTTCCCT
*
41352626 TATTTTTCAAATTTTAC-AATTTTCCC-
1 TATTTTTCAGATTTT-CTAATTTTCCCT
41352652 T-TTTTT-AGATTTT
1 TATTTTTCAGATTTT
41352665 ATAGTTTTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
24 6 0.10
25 5 0.09
26 1 0.02
27 26 0.45
28 20 0.34
ACGTcount: A:0.20, C:0.14, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTTCAGATTTTCTAATTTTCCCT
Found at i:41352976 original size:34 final size:35
Alignment explanation
Indices: 41352921--41352997 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 35
41352911 ATGACTTTTG
* *
41352921 GCTACTG-AGTTGATCTGTTATAAGCATATT-ATTT
1 GCTACTGTAGTTGAACTATTATAAGCATATTGA-TT
41352955 GCTACTGTA-TTGAACTATTATAAGCATATTGATT
1 GCTACTGTAGTTGAACTATTATAAGCATATTGATT
*
41352989 GCTATTGTA
1 GCTACTGTA
41352998 CTGTTCTGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 36 0.95
35 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (35 bp):
GCTACTGTAGTTGAACTATTATAAGCATATTGATT
Found at i:41353014 original size:34 final size:33
Alignment explanation
Indices: 41352934--41353051 Score: 101
Period size: 34 Copynumber: 3.5 Consensus size: 33
41352924 ACTGAGTTGA
* * *
41352934 TCTGTTATAAGCATATTATTTGCTACTGTATTGA
1 TCTGTTAAAAGCATATTA-TTGCTATTGTATTGT
* * * *
41352968 ACTATTATAAGCATATTGATTGCTATTGTACTGT
1 TCTGTTAAAAGCATATT-ATTGCTATTGTATTGT
* * **
41353002 TCTGTTAAAAGCATAATTAAATGATATCATATTGT
1 TCTGTTAAAAGCAT-ATT-ATTGCTATTGTATTGT
41353037 TCTGTTAAAAGCATA
1 TCTGTTAAAAGCATA
41353052 ATTAAATGCT
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
34 39 0.57
35 29 0.43
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (33 bp):
TCTGTTAAAAGCATATTATTGCTATTGTATTGT
Found at i:41353070 original size:35 final size:35
Alignment explanation
Indices: 41352999--41353070 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
41352989 GCTATTGTAC
*
41352999 TGTTCTGTTAAAAGCATAATTAAATGATATCATAT
1 TGTTCTGTTAAAAGCATAATTAAATGATACCATAT
* *
41353034 TGTTCTGTTAAAAGCATAATTAAATGCTACCGTAT
1 TGTTCTGTTAAAAGCATAATTAAATGATACCATAT
41353069 TG
1 TG
41353071 ACCTATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (35 bp):
TGTTCTGTTAAAAGCATAATTAAATGATACCATAT
Found at i:41353265 original size:18 final size:18
Alignment explanation
Indices: 41353242--41353299 Score: 71
Period size: 18 Copynumber: 3.0 Consensus size: 18
41353232 TTTTATTACT
41353242 AGTGGTTTATCCACAATG
1 AGTGGTTTATCCACAATG
*
41353260 AGTGGTTCATCCACAACGATG
1 AGTGGTTTATCCAC-A--ATG
41353281 AGTGGTTTTATCCACAATG
1 AGTGG-TTTATCCACAATG
41353300 TGGTGTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 13 0.38
19 4 0.12
21 9 0.26
22 8 0.24
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (18 bp):
AGTGGTTTATCCACAATG
Found at i:41354243 original size:26 final size:25
Alignment explanation
Indices: 41354214--41354262 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
41354204 ATATTAATAT
* *
41354214 AATTATATTTATTATATATTTTTTAA
1 AATTATATATAGTAT-TATTTTTTAA
*
41354240 AATTTTATATAGTATTATTTTTT
1 AATTATATATAGTATTATTTTTT
41354263 TGTCAATAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
AATTATATATAGTATTATTTTTTAA
Found at i:41355757 original size:18 final size:18
Alignment explanation
Indices: 41355731--41355791 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
41355721 GAAGTAAAAG
*
41355731 AAAATAGAAAATAAAGAA
1 AAAAAAGAAAATAAAGAA
* *
41355749 AAAAAAGAAAAGGAAAGTGA
1 AAAAAAGAAAA-TAAAG-AA
*
41355769 AAAAAA-AACATAAAGGAA
1 AAAAAAGAAAATAAA-GAA
41355787 AAAAA
1 AAAAA
41355792 TTAAATTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 19 0.56
19 8 0.24
20 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.07
Consensus pattern (18 bp):
AAAAAAGAAAATAAAGAA
Found at i:41360479 original size:2 final size:2
Alignment explanation
Indices: 41360472--41360510 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
41360462 TATGTTATTA
* *
41360472 TG TG TG TG TG TG TG TA TG TG TA TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
41360511 TTATTGTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.05, C:0.00, G:0.44, T:0.51
Consensus pattern (2 bp):
TG
Found at i:41361475 original size:21 final size:21
Alignment explanation
Indices: 41361449--41361488 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
41361439 TTAATAAAAA
* *
41361449 ATTAAATTAATATATAAAACT
1 ATTAAAATAATATAAAAAACT
41361470 ATTAAAATAATATAAAAAA
1 ATTAAAATAATATAAAAAA
41361489 ATTGAAACTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAAAATAATATAAAAAACT
Found at i:41366046 original size:20 final size:20
Alignment explanation
Indices: 41366021--41366060 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
41366011 ATCGGGAATG
41366021 AAATCATCTATGGGAAGCTA
1 AAATCATCTATGGGAAGCTA
41366041 AAATCATCTATGGGAAGCTA
1 AAATCATCTATGGGAAGCTA
41366061 TCTCCCAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (20 bp):
AAATCATCTATGGGAAGCTA
Found at i:41386401 original size:27 final size:27
Alignment explanation
Indices: 41386371--41386459 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
41386361 TTTATTTCAA
41386371 TATTTTACAAACCATAAAAATACTTAT
1 TATTTTACAAACCATAAAAATACTTAT
* * **
41386398 TATTTTAC--TCTCGTAATATAATTGTTCAT
1 TATTTTACAAAC-CATAA-A-AATACTT-AT
41386427 TATTTTACAAACCATAAAAATACTTAT
1 TATTTTACAAACCATAAAAATACTTAT
*
41386454 TGTTTT
1 TATTTT
41386460 CCTCTCGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 16 0.34
28 10 0.21
29 11 0.23
30 4 0.09
31 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.45
Consensus pattern (27 bp):
TATTTTACAAACCATAAAAATACTTAT
Found at i:41386438 original size:56 final size:56
Alignment explanation
Indices: 41386366--41386477 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
41386356 GATATTTTAT
41386366 TTCAATATTTTACAAACCATAAAAATACTTATTATTTTACTCTCGTAATATAATTG
1 TTCAATATTTTACAAACCATAAAAATACTTATTATTTTACTCTCGTAATATAATTG
* * *
41386422 TTCATTATTTTACAAACCATAAAAATACTTATTGTTTTCCTCTCGTAATATAATTG
1 TTCAATATTTTACAAACCATAAAAATACTTATTATTTTACTCTCGTAATATAATTG
41386478 ACTTAAAGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (56 bp):
TTCAATATTTTACAAACCATAAAAATACTTATTATTTTACTCTCGTAATATAATTG
Found at i:41416711 original size:107 final size:106
Alignment explanation
Indices: 41416521--41416734 Score: 333
Period size: 107 Copynumber: 2.0 Consensus size: 106
41416511 CCAAAACCCA
* *
41416521 TACTTTGAAACTTTAAGAGGGTATTTGACTATTTGGCTAAACGAGAAATCGAAACTCAGCACATT
1 TACTTTGAAACTTTAAAAGGATATTTGACTATTTGGCTAAACGAGAAATCGAAACTCAGCACATT
41416586 AGGGCACGCTTTCTCGAATTTCCAAATGCAAAATATTGCCT
66 AGGGCACGCTTTCTCGAATTTCCAAATGCAAAATATTGCCT
* *
41416627 TACTTTGAAATTTTAAAAGGATATTTGACTATTTGG-TCGAACGAAGAAATCGAAAC-CTAGCAC
1 TACTTTGAAACTTTAAAAGGATATTTGACTATTTGGCT-AAACG-AGAAATCGAAACTC-AGCAC
* *
41416690 ATTAGGGCTCGTTTTCTCGAATTTCCAAATGCAAAATATTGCCT
63 ATTAGGGCACGCTTTCTCGAATTTCCAAATGCAAAATATTGCCT
41416734 T
1 T
41416735 TATTATTTTT
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
105 1 0.01
106 38 0.38
107 60 0.61
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (106 bp):
TACTTTGAAACTTTAAAAGGATATTTGACTATTTGGCTAAACGAGAAATCGAAACTCAGCACATT
AGGGCACGCTTTCTCGAATTTCCAAATGCAAAATATTGCCT
Found at i:41417344 original size:3 final size:3
Alignment explanation
Indices: 41417338--41417385 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
41417328 AAAAAGTATT
* * **
41417338 TAA TAA TAT TAA TAA TGA TGC TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
41417386 ATGATAGCAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:41418548 original size:19 final size:19
Alignment explanation
Indices: 41418524--41418572 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
41418514 TTGTTTTTGT
* *
41418524 AATTGGGCCCTTGGTCAAA
1 AATTGGACCCTGGGTCAAA
41418543 AATTGGACCCTGGGTCAAA
1 AATTGGACCCTGGGTCAAA
41418562 AATTGGACCCT
1 AATTGGACCCT
41418573 ACATTGACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (19 bp):
AATTGGACCCTGGGTCAAA
Found at i:41425870 original size:24 final size:26
Alignment explanation
Indices: 41425843--41425901 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 26
41425833 TAAATGTGTA
41425843 AGCTAATAAAT-AATATATA-AGTTG
1 AGCTAATAAATAAATATATACAGTTG
**
41425867 AGCT-CGAAATAAATATATACAGTTG
1 AGCTAATAAATAAATATATACAGTTG
41425892 AG-TAACTAAA
1 AGCTAA-TAAA
41425902 ATAAGGAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 7 0.26
26 3 0.11
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (26 bp):
AGCTAATAAATAAATATATACAGTTG
Found at i:41429009 original size:18 final size:18
Alignment explanation
Indices: 41428986--41429026 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
41428976 ATTAGCACCG
41428986 ATTGCGACACTAAACAAT
1 ATTGCGACACTAAACAAT
*
41429004 ATTGCGGCACTAAACAAT
1 ATTGCGACACTAAACAAT
41429022 ATTGC
1 ATTGC
41429027 AGCACAACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (18 bp):
ATTGCGACACTAAACAAT
Found at i:41429031 original size:18 final size:18
Alignment explanation
Indices: 41428993--41429031 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
41428983 CCGATTGCGA
*
41428993 CACTAAACAATATTGCGG
1 CACTAAACAATATTGCAG
41429011 CACTAAACAATATTGCAG
1 CACTAAACAATATTGCAG
41429029 CAC
1 CAC
41429032 AACTGCTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.21
Consensus pattern (18 bp):
CACTAAACAATATTGCAG
Found at i:41429301 original size:27 final size:27
Alignment explanation
Indices: 41429283--41429587 Score: 371
Period size: 27 Copynumber: 11.3 Consensus size: 27
41429273 GGTATAACAC
* *
41429283 TCATTTTACCCTATGGGGGCATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
41429310 TCATTTTACCCTATAGGGGTATTTC-G
1 TCATTTTACCCTATGGGGGTATTTCAG
**
41429336 ATCATTTTACCCTATAAGGGTATTTC-G
1 -TCATTTTACCCTATGGGGGTATTTCAG
** **
41429363 ATCATTTTACATTATGGGGGTATTTTGG
1 -TCATTTTACCCTATGGGGGTATTTCAG
* *
41429391 TCATTTTACCCTATGGGAGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
41429418 TCATTTTACGCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
* * * *
41429445 TTATTTTACCCTCTAGGGGTATTTTAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
41429472 TCATTTTACCCTATGGAGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
41429499 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCAG
*
41429526 TCATTTTACCATATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
* *
41429553 TCATTTTACCTTATGAGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAG
41429580 TCATTTTA
1 TCATTTTA
41429588 TCATATAGGG
Statistics
Matches: 243, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 1 0.00
27 241 0.99
28 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCAG
Found at i:41430914 original size:28 final size:28
Alignment explanation
Indices: 41430870--41430942 Score: 137
Period size: 28 Copynumber: 2.6 Consensus size: 28
41430860 GGCTAGGTTA
*
41430870 GTTGGGCCGTGTGGGCCACACAGGATGT
1 GTTGGGCCGTGTTGGCCACACAGGATGT
41430898 GTTGGGCCGTGTTGGCCACACAGGATGT
1 GTTGGGCCGTGTTGGCCACACAGGATGT
41430926 GTTGGGCCGTGTTGGCC
1 GTTGGGCCGTGTTGGCC
41430943 CATTTTCTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.11, C:0.22, G:0.42, T:0.25
Consensus pattern (28 bp):
GTTGGGCCGTGTTGGCCACACAGGATGT
Found at i:41431784 original size:15 final size:15
Alignment explanation
Indices: 41431764--41431793 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
41431754 ATTTTCTTTA
41431764 ATTATTGTTTATTTT
1 ATTATTGTTTATTTT
41431779 ATTATTGTTTATTTT
1 ATTATTGTTTATTTT
41431794 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (15 bp):
ATTATTGTTTATTTT
Found at i:41432909 original size:20 final size:22
Alignment explanation
Indices: 41432870--41432910 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
41432860 GTGGTTGGAT
41432870 TCAAATTCTAATACTAGATTGTA
1 TCAAATTC-AATACTAGATTGTA
41432893 TCAAATTC-ATA-TAGATTG
1 TCAAATTCAATACTAGATTG
41432911 ATACATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 3 0.17
23 8 0.44
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (22 bp):
TCAAATTCAATACTAGATTGTA
Found at i:41436554 original size:31 final size:32
Alignment explanation
Indices: 41436519--41436581 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
41436509 CACTTTCATG
41436519 TTGGAAGTGGGTAA-TTTTAATCTTTCTTTTT
1 TTGGAAGTGGGTAATTTTTAATCTTTCTTTTT
41436550 TTGGAAGTGGGTAATTTTTAATCTTTCTTTTT
1 TTGGAAGTGGGTAATTTTTAATCTTTCTTTTT
41436582 GCTATCTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (32 bp):
TTGGAAGTGGGTAATTTTTAATCTTTCTTTTT
Done.