Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 105 of 325
Found at i:33710465 original size:17 final size:17
Alignment explanation
Indices: 33710384--33710465 Score: 65
Period size: 17 Copynumber: 4.5 Consensus size: 17
33710374 CTTTAAATAC
*
33710384 ATTACAACATTAATCTA
1 ATTAGAACATTAATCTA
*
33710401 ATTAAATACATTAATCTA
1 ATTAGA-ACATTAATCTA
* *
33710419 ATTGGAACATTAATTAAATA
1 ATTAGAACATTAA-T--CTA
*
33710439 CATTACAACATTAATCTA
1 -ATTAGAACATTAATCTA
*
33710457 ATTGGAACA
1 ATTAGAACA
33710466 AACTTTGCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
17 19 0.37
18 18 0.35
20 3 0.06
21 11 0.22
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (17 bp):
ATTAGAACATTAATCTA
Found at i:33714187 original size:42 final size:43
Alignment explanation
Indices: 33714112--33714236 Score: 122
Period size: 42 Copynumber: 3.1 Consensus size: 43
33714102 GTTTTTTTTT
*
33714112 ATAACTAACAATAAT--TAAG-G-TTTTTTACT---AACAATA
1 ATAACCAACAATAATAATAAGAGATTTTTTACTAACAACAATA
** * *
33714148 ATAACCAACAATCCTAATAATA-ATTTTTTACTAACAACAACA
1 ATAACCAACAATAATAATAAGAGATTTTTTACTAACAACAATA
* * *
33714190 ATAACTAACAATAATAATAAGAGTTTTTTTACTAACAATAATA
1 ATAACCAACAATAATAATAAGAGATTTTTTACTAACAACAATA
33714233 ATAA
1 ATAA
33714237 TATTTTTTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
36 12 0.17
38 3 0.04
39 9 0.13
42 24 0.35
43 21 0.30
ACGTcount: A:0.50, C:0.14, G:0.03, T:0.33
Consensus pattern (43 bp):
ATAACCAACAATAATAATAAGAGATTTTTTACTAACAACAATA
Found at i:33714231 original size:27 final size:26
Alignment explanation
Indices: 33714193--33714260 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
33714183 AACAACAATA
33714193 ACTAACAATAATAATAAGAGTTTTTTT
1 ACTAACAATAATAATAAGA-TTTTTTT
*
33714220 ACTAACAATAATAATAATATTTTTTT
1 ACTAACAATAATAATAAGATTTTTTT
* *
33714246 TCTAATAATAATAAT
1 ACTAACAATAATAAT
33714261 TACTAACAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 20 0.53
27 18 0.47
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
ACTAACAATAATAATAAGATTTTTTT
Found at i:33714323 original size:23 final size:25
Alignment explanation
Indices: 33714275--33714323 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
33714265 AACAACAACA
* *
33714275 AACAATAAAAATCAACAATAATAAT
1 AACAACAAAAATCAACAATAACAAT
33714300 AACAACAAAAA-C-ACAATAACAAT
1 AACAACAAAAATCAACAATAACAAT
33714323 A
1 A
33714324 TAAAATTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 11 0.50
24 1 0.05
25 10 0.45
ACGTcount: A:0.69, C:0.16, G:0.00, T:0.14
Consensus pattern (25 bp):
AACAACAAAAATCAACAATAACAAT
Found at i:33717782 original size:10 final size:11
Alignment explanation
Indices: 33717761--33717806 Score: 60
Period size: 10 Copynumber: 4.3 Consensus size: 11
33717751 AAGTAATACA
33717761 AATATAACATG
1 AATATAACATG
33717772 AATAT-ACATG
1 AATATAACATG
*
33717782 ACATATAATATG
1 A-ATATAACATG
33717794 AA-ATAACATG
1 AATATAACATG
33717804 AAT
1 AAT
33717807 TATTGATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
10 15 0.50
11 10 0.33
12 5 0.17
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (11 bp):
AATATAACATG
Found at i:33717788 original size:22 final size:22
Alignment explanation
Indices: 33717762--33717804 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33717752 AGTAATACAA
33717762 ATATAACATG-AATATACATGAC
1 ATATAACATGAAATA-ACATGAC
*
33717784 ATATAATATGAAATAACATGA
1 ATATAACATGAAATAACATGA
33717805 ATTATTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
ATATAACATGAAATAACATGAC
Found at i:33719139 original size:22 final size:22
Alignment explanation
Indices: 33719096--33719140 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
33719086 TGTAACAAAA
**
33719096 TTTTAATTTAACATGGTTAATT
1 TTTTAATTTAACATGGACAATT
33719118 TTTTAATTTAAC-TGGAACAATT
1 TTTTAATTTAACATGG-ACAATT
33719140 T
1 T
33719141 CACTCAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (22 bp):
TTTTAATTTAACATGGACAATT
Found at i:33729329 original size:17 final size:18
Alignment explanation
Indices: 33729296--33729329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33729286 TAAACACAGA
33729296 AATTAAAATTGAGTAAGC
1 AATTAAAATTGAGTAAGC
*
33729314 AATTAAACTT-AGTAAG
1 AATTAAAATTGAGTAAG
33729330 TTCGTATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (18 bp):
AATTAAAATTGAGTAAGC
Found at i:33732098 original size:25 final size:25
Alignment explanation
Indices: 33732070--33732122 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
33732060 AGTACATAAA
* *
33732070 TAATGATAACAATGGACAATA-ATAG
1 TAATAATAACAA-GAACAATATATAG
*
33732095 TAATAATAATAAGAACAATATATAG
1 TAATAATAACAAGAACAATATATAG
33732120 TAA
1 TAA
33732123 AAAAACATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.57, C:0.06, G:0.11, T:0.26
Consensus pattern (25 bp):
TAATAATAACAAGAACAATATATAG
Found at i:33735079 original size:9 final size:10
Alignment explanation
Indices: 33735056--33735108 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
33735046 CTTTTTTAGC
33735056 ATTTTTATAT
1 ATTTTTATAT
33735066 ATTTTTA-AT
1 ATTTTTATAT
*
33735075 TTTTTTATAT
1 ATTTTTATAT
* *
33735085 CATTATCATAT
1 -ATTTTTATAT
*
33735096 TTTTTTATAT
1 ATTTTTATAT
33735106 ATT
1 ATT
33735109 ATTTCCACTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
9 8 0.24
10 18 0.55
11 7 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:33736946 original size:22 final size:23
Alignment explanation
Indices: 33736904--33736947 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33736894 TAAAAAGTTT
33736904 TGTTTATGAGAGGACTTAAAAGG
1 TGTTTATGAGAGGACTTAAAAGG
* *
33736927 TGTTTATG-GATGCCTTAAAAG
1 TGTTTATGAGAGGACTTAAAAG
33736948 CTTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (23 bp):
TGTTTATGAGAGGACTTAAAAGG
Found at i:33741694 original size:21 final size:21
Alignment explanation
Indices: 33741662--33741701 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
33741652 TTAATATATT
33741662 AATAAATAAATTACTAGAATA
1 AATAAATAAATTACTAGAATA
*
33741683 AATATAAT-AATTATTAGAA
1 AATA-AATAAATTACTAGAA
33741702 ATTGATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
AATAAATAAATTACTAGAATA
Found at i:33741718 original size:7 final size:7
Alignment explanation
Indices: 33741706--33741736 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
33741696 TTAGAAATTG
33741706 ATTTAAA
1 ATTTAAA
33741713 ATTTAAA
1 ATTTAAA
33741720 ATTTAAA
1 ATTTAAA
33741727 ATTTAAA
1 ATTTAAA
33741734 ATT
1 ATT
33741737 ATGCCCATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATTTAAA
Found at i:33748504 original size:26 final size:27
Alignment explanation
Indices: 33748461--33748511 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
33748451 ATATACCAAC
*
33748461 TTTTTAAAAAATATAAAACAATTTAAA
1 TTTTTAAAAAATACAAAACAATTTAAA
*
33748488 TTTTTAAGAAA-ACAAAACAATTTA
1 TTTTTAAAAAATACAAAACAATTTA
33748512 TTTTAAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (27 bp):
TTTTTAAAAAATACAAAACAATTTAAA
Found at i:33750441 original size:15 final size:16
Alignment explanation
Indices: 33750423--33750461 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
33750413 AAGATATTTT
33750423 AACAAATAAAATTAA-
1 AACAAATAAAATTAAC
*
33750438 AACAAATGAAATTAAC
1 AACAAATAAAATTAAC
33750454 AACAAATA
1 AACAAATA
33750462 TAGTGGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (16 bp):
AACAAATAAAATTAAC
Found at i:33753562 original size:2 final size:2
Alignment explanation
Indices: 33753555--33753585 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
33753545 TTTATACATT
33753555 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33753586 GTTTATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33759200 original size:72 final size:74
Alignment explanation
Indices: 33759048--33759193 Score: 165
Period size: 72 Copynumber: 2.0 Consensus size: 74
33759038 TCTTAAATTT
* * *
33759048 AAAATTTAAAATAAATAATACATATTTTATGATAATTTTTAAATTTAATAAAATAATAAAAATGA
1 AAAATTTAAAATAAATAATACATATATAATGATAATTTTTAAA-TAAATAAAATAATAAAAATGA
*
33759113 AATTTTAAGC
65 AATATTAAGC
* ** *
33759123 AAAATTTAAATTAAATAA-A-ATA-ATAATGATAATTTTTAAA-AAATCTAATAATAATAAATTT
1 AAAATTTAAAATAAATAATACATATATAATGATAATTTTTAAATAAATAAAATAATAA-AAA-TG
33759184 AAATATTAAG
64 AAATATTAAG
33759194 ATAAATTGTC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
70 11 0.18
71 3 0.05
72 26 0.43
73 3 0.05
74 1 0.02
75 17 0.28
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (74 bp):
AAAATTTAAAATAAATAATACATATATAATGATAATTTTTAAATAAATAAAATAATAAAAATGAA
ATATTAAGC
Found at i:33759262 original size:21 final size:21
Alignment explanation
Indices: 33759216--33759267 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
33759206 TAAATAATAT
* *
33759216 TTATATTTATGACAATATTAC
1 TTATTTTTATGACAATATTAA
*
33759237 TTATTTTTATGATAAT-TTAA
1 TTATTTTTATGACAATATTAA
33759257 TATATTTTTAT
1 T-TATTTTTAT
33759268 TTTCTTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (21 bp):
TTATTTTTATGACAATATTAA
Found at i:33759302 original size:20 final size:20
Alignment explanation
Indices: 33759279--33759321 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
33759269 TTCTTACATA
33759279 AAAAATTATATAAAATTTTC
1 AAAAATTATATAAAATTTTC
* * **
33759299 AAAATTTATCTAACCTTTTC
1 AAAAATTATATAAAATTTTC
33759319 AAA
1 AAA
33759322 TTTTAGATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTATATAAAATTTTC
Found at i:33761389 original size:28 final size:28
Alignment explanation
Indices: 33761336--33761389 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
33761326 ATGAAGAGAT
* *
33761336 AGTTTAAATACCAAATTAAGATAAAAAA
1 AGTTTAAATACAAAATTAAGAAAAAAAA
33761364 AGTTTAAATATCAAAATTAA-AAAAAA
1 AGTTTAAATA-CAAAATTAAGAAAAAA
33761390 TGGTATTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (28 bp):
AGTTTAAATACAAAATTAAGAAAAAAAA
Found at i:33764277 original size:20 final size:20
Alignment explanation
Indices: 33764252--33764297 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33764242 ATTAGGCCTT
33764252 GCCCATATT-AACACAGTTGG
1 GCCCATATTCAACACAGTT-G
*
33764272 GCCCAT-TTCAATACAGTTG
1 GCCCATATTCAACACAGTTG
33764291 GCCCATA
1 GCCCATA
33764298 ACAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
GCCCATATTCAACACAGTTG
Found at i:33770130 original size:22 final size:23
Alignment explanation
Indices: 33770105--33770163 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 23
33770095 ATTTAATTAT
*
33770105 TTATATTTAATCA-TATAATTTA
1 TTATATTTAATAAGTATAATTTA
*
33770127 TTATTAATATAATAAGTATAATTTA
1 TTA-T-ATTTAATAAGTATAATTTA
33770152 TTAT-TTTAATAA
1 TTATATTTAATAA
33770164 ATTATTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 10 0.32
23 1 0.03
24 8 0.26
25 12 0.39
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATATTTAATAAGTATAATTTA
Found at i:33770225 original size:16 final size:17
Alignment explanation
Indices: 33770189--33770225 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
33770179 AATTTTATTT
33770189 TAATAATAAATTTTAAA
1 TAATAATAAATTTTAAA
33770206 -AATAATAAA-TTTAAA
1 TAATAATAAATTTTAAA
33770221 TAATA
1 TAATA
33770226 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATAATAAATTTTAAA
Found at i:33770278 original size:15 final size:15
Alignment explanation
Indices: 33770258--33770314 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
33770248 ATTCAACATT
33770258 AATATTTTAATAATA
1 AATATTTTAATAATA
*
33770273 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
33770292 AATATATTAATAATA
1 AATATTTTAATAATA
*
33770307 AATGTTTT
1 AATATTTT
33770315 GTAGTATAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:33770482 original size:38 final size:39
Alignment explanation
Indices: 33770424--33770500 Score: 138
Period size: 38 Copynumber: 2.0 Consensus size: 39
33770414 GTTGACATCG
33770424 TTAATTTTTTTTATCAATTTTGTTGATGTCATATTTTTA
1 TTAATTTTTTTTATCAATTTTGTTGATGTCATATTTTTA
*
33770463 TTAATTTTTTTT-TCGATTTTGTTGATGTCATATTTTTA
1 TTAATTTTTTTTATCAATTTTGTTGATGTCATATTTTTA
33770501 AATAAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 25 0.68
39 12 0.32
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (39 bp):
TTAATTTTTTTTATCAATTTTGTTGATGTCATATTTTTA
Found at i:33772924 original size:39 final size:39
Alignment explanation
Indices: 33772868--33772949 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
33772858 ATGTGTTAGC
* *
33772868 TTTTAGTCTAACGTGGTATTGTATTTGATAAAATATATA
1 TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
*
33772907 TTTTAGTCTAACATGGTATTGTATTTAATAAAATGTATA
1 TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
33772946 TTTT
1 TTTT
33772950 TTAATATCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (39 bp):
TTTTAGTCTAACATGGTATTGTATTTAATAAAATATATA
Found at i:33777641 original size:15 final size:16
Alignment explanation
Indices: 33777615--33777645 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
33777605 TATTCTTTTA
33777615 ATTAATTTAAATTATT
1 ATTAATTTAAATTATT
33777631 ATTAA-TTAAATTATT
1 ATTAATTTAAATTATT
33777646 TAATATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTAATTTAAATTATT
Found at i:33777806 original size:15 final size:17
Alignment explanation
Indices: 33777782--33777822 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
33777772 TATCATTGTG
33777782 TAATAATAA-TAAA-AT
1 TAATAATAATTAAATAT
*
33777797 TAATATTAATTAAATAT
1 TAATAATAATTAAATAT
33777814 TAATTAATA
1 TAA-TAATA
33777823 TGATAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 4 0.19
17 5 0.24
18 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATAATAATTAAATAT
Found at i:33781691 original size:10 final size:10
Alignment explanation
Indices: 33781676--33781725 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
33781666 TAATTTTAGG
33781676 ATTTAT-TTT
1 ATTTATCTTT
33781685 CATTTATCTTT
1 -ATTTATCTTT
*
33781696 AATTATCTTT
1 ATTTATCTTT
33781706 ATTTAT-TTGT
1 ATTTATCTT-T
33781716 ATTTATCTTT
1 ATTTATCTTT
33781726 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:33790749 original size:27 final size:27
Alignment explanation
Indices: 33790719--33790874 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
33790709 TGCTATTCAC
* *
33790719 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
33790746 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
33790773 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
33790801 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
33790828 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
33790855 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
33790875 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:33790790 original size:55 final size:55
Alignment explanation
Indices: 33790724--33790875 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
33790714 TTCACTCAAC
* *
33790724 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
33790779 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
33790833 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
33790876 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:33807062 original size:27 final size:27
Alignment explanation
Indices: 33807027--33807080 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33807017 GATAAATGTT
*
33807027 TATTTATCAAGTATACTTATGTAATTA
1 TATTTATCAAGCATACTTATGTAATTA
33807054 TATTTATCAAGCATACTTATGTAATTA
1 TATTTATCAAGCATACTTATGTAATTA
33807081 AATAATCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.46
Consensus pattern (27 bp):
TATTTATCAAGCATACTTATGTAATTA
Found at i:33820232 original size:128 final size:126
Alignment explanation
Indices: 33819725--33820233 Score: 658
Period size: 128 Copynumber: 4.0 Consensus size: 126
33819715 GGTCAATCAT
* * * *
33819725 GAACTACTGTAGAAAAAGAGAATCCACGTGGGAGCTTTTTTCAGAAATTTTGCTGACATTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * * * * *
33819790 CAGCTTGAAGAGTTTTTGACATTATTTGTTTAGAAACATCTTATCAAAATTATTTTTTCTG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* ** * *
33819851 GAATTACTGTAGAAAAAGAGTGTCGACGTGGGAGCTTTTTTCTGTAATTTTGCTAACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
* * * * * * *
33819916 CTGTTTGAAGCATTTTTTACACTATTTGTTTAGAAACGTCTTCTCAAAATTAGTTTTTCAT
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * *
33819977 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAACTTTTTTATTTTTATTTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC-TTTTT-TCTGTAATTTTGCTGACAGTGCA
* *
33820042 TCCTACTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATGTTTTCAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
* * *
33820105 GAACTACTATAGAAAAAGAGCATCCACGTGGGAGCTTTTTTTTTTGTATTTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGC--TTTTTTCTGTAATTTTGCTGACAGTGCA
* *
33820170 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAATGTCATCTCAAAATTATTTTTTCAG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
33820233 G
1 G
33820234 GTACAAAATA
Statistics
Matches: 336, Mismatches: 44, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
126 138 0.41
127 5 0.01
128 187 0.56
129 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCTGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:33820347 original size:29 final size:29
Alignment explanation
Indices: 33820290--33820632 Score: 159
Period size: 29 Copynumber: 11.8 Consensus size: 29
33820280 TTTAAAAAAA
*
33820290 CTAAACCCTAATTTAATTAAAATTT--AACC
1 CTAAACCCTAATTTAATT--TATTTAAAACC
33820319 CTAAACCCTAATTTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
** * * *
33820348 CT--A-GTTTACTTAATTTATTGAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
**
33820374 CTAGAATTCTAATTTACTTAATTTATTTAAAACC
1 CTA-AACCCTAA--T--TTAATTTATTTAAAACC
* * *
33820408 ATAAAACCTAATTTAATTTATTTAAGACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
* * *
33820437 CTAATA--CTTACTTAACTTATTTAAAAACC
1 CTAA-ACCCTAATTTAATTTATTT-AAAACC
* *
33820466 ATAAACCCTAAATTT-ATTTATTTAATACC
1 CTAAACCCT-AATTTAATTTATTTAAAACC
* * *
33820495 ATAAATCC-----TAATTTATTTAAAACT
1 CTAAACCCTAATTTAATTTATTTAAAACC
33820519 CTAAAACCCTAATTTATTTAATTTATTTAAAAACC
1 CT-AAACCCT-A---ATTTAATTTATTT-AAAACC
* *
33820554 CTAAATCCTAAATCCTAATTTATTTAAAACC
1 CTAAACCCT-AAT-TTAATTTATTTAAAACC
33820585 CT-AA--C----TTAATTTATTTAAAACC
1 CTAAACCCTAATTTAATTTATTTAAAACC
* *
33820607 CTAAAACCCCTAATTTACTTAATTTA
1 CT-AAA-CCCTAATTTAATTTATTTA
33820633 TTTAAAAATC
Statistics
Matches: 241, Mismatches: 36, Indels: 72
0.69 0.10 0.21
Matches are distributed among these distances:
22 18 0.07
23 1 0.00
24 15 0.06
25 5 0.02
26 20 0.08
27 6 0.02
28 15 0.06
29 64 0.27
30 14 0.06
31 24 0.10
32 10 0.04
33 6 0.02
34 36 0.15
35 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.01, T:0.39
Consensus pattern (29 bp):
CTAAACCCTAATTTAATTTATTTAAAACC
Found at i:33820348 original size:22 final size:22
Alignment explanation
Indices: 33820321--33820364 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33820311 ATTTAACCCT
*
33820321 AAACCCTAATTTAATTTATTTA
1 AAACCCTAATTTAATTAATTTA
* *
33820343 AAACCCTAGTTTACTTAATTTA
1 AAACCCTAATTTAATTAATTTA
33820365 TTGAAAACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
AAACCCTAATTTAATTAATTTA
Found at i:33820431 original size:33 final size:33
Alignment explanation
Indices: 33820341--33820431 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 33
33820331 TTAATTTATT
* *
33820341 TAAAACCCTAGTTTACTTAATTTATTGAAAACCC
1 TAAAA-CCTAATTTACTTAATTTATTGAAAACCA
** *
33820375 TAGAATTCTAATTTACTTAATTTATTTAAAACCA
1 TA-AAACCTAATTTACTTAATTTATTGAAAACCA
* *
33820409 TAAAACCTAATTTAATTTATTTA
1 TAAAACCTAATTTACTTAATTTA
33820432 AGACCCTAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
33 17 0.36
34 28 0.60
35 2 0.04
ACGTcount: A:0.41, C:0.14, G:0.03, T:0.42
Consensus pattern (33 bp):
TAAAACCTAATTTACTTAATTTATTGAAAACCA
Found at i:33820511 original size:24 final size:25
Alignment explanation
Indices: 33820481--33820540 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
33820471 CCCTAAATTT
*
33820481 ATTTATTTAATAC-C-ATAAATCCTA
1 ATTTATTTAATACTCTA-AAACCCTA
*
33820505 ATTTATTTAAAACTCTAAAACCCTA
1 ATTTATTTAATACTCTAAAACCCTA
33820530 ATTTATTTAAT
1 ATTTATTTAAT
33820541 TTATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.39
25 18 0.58
26 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTATTTAATACTCTAAAACCCTA
Found at i:33820564 original size:34 final size:32
Alignment explanation
Indices: 33820503--33820602 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 32
33820493 CCATAAATCC
*
33820503 TAATTTATTTAAAACTCTAAAACCCTAATTTATT
1 TAATTTATTTAAAACCCT-AAA-CCTAATTTATT
*
33820537 TAATTTATTTAAAAACCCTAAATCCTAA---ATCC
1 TAATTTATTT-AAAACCCTAAA-CCTAATTTAT-T
*
33820569 TAATTTATTTAAAACCCT-AACTTAATTTATT
1 TAATTTATTTAAAACCCTAAACCTAATTTATT
33820600 TAA
1 TAA
33820603 AACCCTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
29 4 0.07
30 2 0.04
31 13 0.23
32 12 0.21
34 18 0.32
35 7 0.12
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (32 bp):
TAATTTATTTAAAACCCTAAACCTAATTTATT
Found at i:33820595 original size:22 final size:22
Alignment explanation
Indices: 33820569--33820610 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
33820559 TCCTAAATCC
33820569 TAATTTATTTAAAACCCTAACT
1 TAATTTATTTAAAACCCTAACT
33820591 TAATTTATTTAAAACCCTAA
1 TAATTTATTTAAAACCCTAA
33820611 AACCCCTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTTATTTAAAACCCTAACT
Found at i:33820595 original size:88 final size:88
Alignment explanation
Indices: 33820341--33820647 Score: 322
Period size: 88 Copynumber: 3.4 Consensus size: 88
33820331 TTAATTTATT
* * * *
33820341 TAAAACCCTAGTTTACTTAATTTA-TTGAAAACCCTAGAATTCTAATTTACTTAATTTATTTAAA
1 TAAAACCCTAATTTACTTAATTTATTTAAAAACCCTA-AATCCTAA-AT-C-TAATTTATTTAAA
*
33820405 ACCATAAAACCTAATTTAATTT---A-TT
62 ACCAT-AAACCTAATTT-ATTTAAAACTC
* * * * * *
33820430 TAAGACCCTAATACTTACTTAACTTATTTAAAAACCATAAACCCTAAAT-TTATTTATTTAATAC
1 TAAAACCCTAAT--TTACTTAATTTATTTAAAAACCCTAAATCCTAAATCTAATTTATTTAAAAC
33820494 CATAAATCCTAATTTATTTAAAACTC
64 CATAAA-CCTAATTTATTTAAAACTC
*
33820520 TAAAACCCTAATTTATTTAATTTATTTAAAAACCCTAAATCCTAAATCCTAATTTATTTAAAACC
1 TAAAACCCTAATTTACTTAATTTATTTAAAAACCCTAAATCCTAAAT-CTAATTTATTTAAAACC
* * *
33820585 CT-AACTTAATTTATTTAAAACCC
65 ATAAACCTAATTTATTTAAAACTC
*
33820608 TAAAACCCCTAATTTACTTAATTTATTTAAAAATCCTAAA
1 TAAAA-CCCTAATTTACTTAATTTATTTAAAAACCCTAAA
33820648 ACTTAATTTA
Statistics
Matches: 184, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
86 7 0.04
87 24 0.13
88 53 0.29
89 45 0.24
90 28 0.15
91 17 0.09
92 10 0.05
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.39
Consensus pattern (88 bp):
TAAAACCCTAATTTACTTAATTTATTTAAAAACCCTAAATCCTAAATCTAATTTATTTAAAACCA
TAAACCTAATTTATTTAAAACTC
Found at i:33820664 original size:34 final size:35
Alignment explanation
Indices: 33820591--33820673 Score: 91
Period size: 34 Copynumber: 2.4 Consensus size: 35
33820581 AACCCTAACT
**
33820591 TAATTTATTT-AAAACCCTAAAACCCCTAATTTACT
1 TAATTTATTTAAAAACCCTAAAA-CCCTAATTTAAA
* *
33820626 TAATTTATTTAAAAATCCTAAAA-CTTAATTTAAA
1 TAATTTATTTAAAAACCCTAAAACCCTAATTTAAA
33820660 TAATTT-TTATAAAA
1 TAATTTATT-TAAAA
33820674 CAACACTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 2 0.05
34 19 0.45
35 10 0.24
36 11 0.26
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (35 bp):
TAATTTATTTAAAAACCCTAAAACCCTAATTTAAA
Found at i:33822376 original size:21 final size:21
Alignment explanation
Indices: 33822350--33822397 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
33822340 TATTTAAATA
* * *
33822350 TATATTATTTATATTTATAAG
1 TATATTAATTAAACTTATAAG
*
33822371 TATATTAATTAAACTTATAAT
1 TATATTAATTAAACTTATAAG
33822392 TATATT
1 TATATT
33822398 TTTTTGATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
TATATTAATTAAACTTATAAG
Found at i:33822960 original size:26 final size:26
Alignment explanation
Indices: 33822931--33822980 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
33822921 TTTATTTAAG
*
33822931 TTTTATGTAT-TACAAAATTATATTAT
1 TTTTATGAATATACAAAA-TATATTAT
*
33822957 TTTTATGAATATATAAAATATATT
1 TTTTATGAATATACAAAATATATT
33822981 TAAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (26 bp):
TTTTATGAATATACAAAATATATTAT
Found at i:33827379 original size:16 final size:16
Alignment explanation
Indices: 33827346--33827378 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
33827336 TATATATATG
*
33827346 TTAAGTATGGATTGTT
1 TTAAGCATGGATTGTT
33827362 TTAAGCATGGATT-TT
1 TTAAGCATGGATTGTT
33827377 TT
1 TT
33827379 TTCTGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (16 bp):
TTAAGCATGGATTGTT
Found at i:33828648 original size:20 final size:20
Alignment explanation
Indices: 33828625--33828681 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
33828615 TTCGGAAAAA
33828625 AAATATTTAAATTAATATTT
1 AAATATTTAAATTAATATTT
33828645 AAAT-TGTTAAA-TAA-A-TT
1 AAATAT-TTAAATTAATATTT
*
33828662 AATATATTTTAATT-ATATTT
1 AA-ATATTTAAATTAATATTT
33828682 CATAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 12
0.70 0.02 0.28
Matches are distributed among these distances:
17 4 0.13
18 8 0.27
19 7 0.23
20 11 0.37
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATATTTAAATTAATATTT
Found at i:33846534 original size:17 final size:17
Alignment explanation
Indices: 33846512--33846551 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
33846502 CATATTTAAT
33846512 TATTTATTGAATAAACA
1 TATTTATTGAATAAACA
33846529 TATTTATTGAATAAACA
1 TATTTATTGAATAAACA
33846546 TATTTA
1 TATTTA
33846552 ATTAGGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (17 bp):
TATTTATTGAATAAACA
Found at i:33853527 original size:24 final size:23
Alignment explanation
Indices: 33853494--33853556 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
33853484 TATTTATACT
*
33853494 TAATACTTAAGT-ATATAATATAA
1 TAATACTTAA-TAAAATAATATAA
33853517 TAATACATTAATAAAATAATATAA
1 TAATAC-TTAATAAAATAATATAA
* *
33853541 -AA-AATAAATAAAATAA
1 TAATACTTAATAAAATAA
33853557 AGAAACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 11 0.31
22 1 0.03
23 9 0.26
24 14 0.40
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (23 bp):
TAATACTTAATAAAATAATATAA
Found at i:33853540 original size:21 final size:21
Alignment explanation
Indices: 33853508--33853556 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
33853498 ACTTAAGTAT
*
33853508 ATAATATAATAATACATTAATAAA
1 ATAATATAA-AA-A-ATAAATAAA
33853532 ATAATATAAAAAATAAATAAA
1 ATAATATAAAAAATAAATAAA
33853553 ATAA
1 ATAA
33853557 AGAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 12 0.50
22 1 0.04
23 2 0.08
24 9 0.38
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAATATAAAAAATAAATAAA
Found at i:33853573 original size:29 final size:29
Alignment explanation
Indices: 33853540--33853632 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 29
33853530 AAATAATATA
* *
33853540 AAAAATAAATAAAATAAAGAAAC-AAAAAG
1 AAAAAGAAAT-AAAGAAAGAAACGAAAAAG
*
33853569 AAAAAGAAATAGAGAAAGAAACGAAAAAG
1 AAAAAGAAATAAAGAAAGAAACGAAAAAG
** * *
33853598 --AGGGAAAGAAAGAAGGAAA-GAAAAAG
1 AAAAAGAAATAAAGAAAGAAACGAAAAAG
33853624 AAAAAGAAA
1 AAAAAGAAA
33853633 ATTTAGGGTT
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
26 7 0.14
27 14 0.27
28 15 0.29
29 15 0.29
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.04
Consensus pattern (29 bp):
AAAAAGAAATAAAGAAAGAAACGAAAAAG
Found at i:33853633 original size:5 final size:6
Alignment explanation
Indices: 33853563--33853633 Score: 56
Period size: 6 Copynumber: 11.7 Consensus size: 6
33853553 ATAAAGAAAC
* * * *
33853563 AAAAAG AAAAAG AAATAG AGAAAG -AAACG AAAAAG AGGGAAAG AAAGAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A--AAAAG AAA-AAG
*
33853613 -GAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
33853634 TTTAGGGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
5 6 0.12
6 36 0.72
7 3 0.06
8 5 0.10
ACGTcount: A:0.73, C:0.01, G:0.24, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:33860819 original size:50 final size:50
Alignment explanation
Indices: 33860695--33860943 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
33860685 GATAATAACA
* * ** * *
33860695 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
33860746 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
33860796 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
33860846 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
33860901 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
33860944 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:33860873 original size:100 final size:104
Alignment explanation
Indices: 33860694--33860943 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
33860684 TGATAATAAC
**
33860694 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
33860759 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
33860796 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
33860859 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
33860901 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33860944 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:33861059 original size:13 final size:13
Alignment explanation
Indices: 33861038--33861069 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33861028 GCTTGGATCA
*
33861038 TCATCAAATAAAT
1 TCATAAAATAAAT
33861051 TCATAAAATAAAT
1 TCATAAAATAAAT
33861064 TCATAA
1 TCATAA
33861070 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:33861317 original size:30 final size:30
Alignment explanation
Indices: 33861281--33861338 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
33861271 CCTCAACTCT
*
33861281 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* * *
33861311 AACTTTTACATAATTACATTTTTTCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
33861339 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:33864066 original size:13 final size:13
Alignment explanation
Indices: 33864048--33864075 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33864038 GATAAAAGAG
33864048 CATATAGAATACC
1 CATATAGAATACC
33864061 CATATAGAATACC
1 CATATAGAATACC
33864074 CA
1 CA
33864076 GAAGAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:33866638 original size:50 final size:50
Alignment explanation
Indices: 33866514--33866761 Score: 268
Period size: 50 Copynumber: 4.8 Consensus size: 50
33866504 GATAATAACA
* ** * *
33866514 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCAT-CTCGG
* * * *
33866565 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
33866615 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
33866665 TGCCCATGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATGATCTTAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
33866719 ATGCCAATC-CCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAA-CGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33866762 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
49 11 0.07
50 82 0.49
51 33 0.20
52 2 0.01
53 1 0.01
54 2 0.01
55 29 0.17
56 8 0.05
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:33866692 original size:100 final size:103
Alignment explanation
Indices: 33866513--33866761 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 103
33866503 TGATAATAAC
* **
33866513 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
33866578 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACA-GGGACCTCTCAATCTTAAGG
*
33866615 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
33866678 TCCCAGACATGGTCTTACAGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGACCTCTCA--ATCTTAAGG
*
33866719 ATGCCAATC-CCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAA-CGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33866762 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 7, Indels: 13
0.87 0.05 0.09
Matches are distributed among these distances:
99 11 0.08
100 39 0.30
101 36 0.27
102 3 0.02
103 1 0.01
104 2 0.02
105 39 0.30
106 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (103 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGACCTCTCAATCTTAAGG
Found at i:33866877 original size:13 final size:13
Alignment explanation
Indices: 33866856--33866887 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
33866846 GCTTGGATCA
*
33866856 TCATCAAATAAAT
1 TCATAAAATAAAT
33866869 TCATAAAATAAAT
1 TCATAAAATAAAT
33866882 TCATAA
1 TCATAA
33866888 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:33874711 original size:18 final size:19
Alignment explanation
Indices: 33874688--33874732 Score: 83
Period size: 18 Copynumber: 2.4 Consensus size: 19
33874678 AATTGACTGT
33874688 AGGAAAGGGAGCCTGA-CA
1 AGGAAAGGGAGCCTGAGCA
33874706 AGGAAAGGGAGCCTGAGCA
1 AGGAAAGGGAGCCTGAGCA
33874725 AGGAAAGG
1 AGGAAAGG
33874733 TTTGGGAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.40, C:0.13, G:0.42, T:0.04
Consensus pattern (19 bp):
AGGAAAGGGAGCCTGAGCA
Found at i:33878020 original size:46 final size:47
Alignment explanation
Indices: 33877947--33878040 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
33877937 GGGCCAATCT
*
33877947 CCAAAAGCTTCTAATGGACACCGGTTCATTTTTGTGGTTATTGATTA
1 CCAAAAGCTTCTAACGGACACCGGTTCATTTTTGTGGTTATTGATTA
33877994 CCAAAAGCTTCT-ACGGACACCGGTTCATTTTTGTGGTTATTGATTA
1 CCAAAAGCTTCTAACGGACACCGGTTCATTTTTGTGGTTATTGATTA
33878040 C
1 C
33878041 TATCACAAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 34 0.74
47 12 0.26
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (47 bp):
CCAAAAGCTTCTAACGGACACCGGTTCATTTTTGTGGTTATTGATTA
Found at i:33879793 original size:16 final size:16
Alignment explanation
Indices: 33879772--33879802 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33879762 CTGAGGTAAT
*
33879772 TTCAATTTCTGTTTTC
1 TTCAATTTATGTTTTC
33879788 TTCAATTTATGTTTT
1 TTCAATTTATGTTTT
33879803 TCAAAAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (16 bp):
TTCAATTTATGTTTTC
Found at i:33879864 original size:89 final size:86
Alignment explanation
Indices: 33879703--33880120 Score: 437
Period size: 89 Copynumber: 5.0 Consensus size: 86
33879693 CTGATGTTTT
*
33879703 ATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
1 ATTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
33879768 TAATTTCAATTTCTGTTTTCTTC
65 TAATTTCAATTTCTG-TTTCTTC
* *
33879791 AATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 -ATTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
33879856 GTATTTTCAATTTCTG---CTTC
64 GTAATTTCAATTTCTGTTTCTTC
*
33879876 ----TGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
33879937 GTAATTTCAATTTATGTTT-GTC
64 GTAATTTCAATTTCTGTTTCTTC
* * *
33879959 A----------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA-GACTAAGG
1 ATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG-CTGAGG
* *
33880013 TATTTTCGATTTCTGCTTTC--C
65 TAATTTCAATTTCTG-TTTCTTC
** *
33880034 AATTTCTGCTTTTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCT
1 -ATTT-TG-TTTT--TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
33880099 GAGGTAATTTCAATTTCTGTTT
61 GAGGTAATTTCAATTTCTGTTT
33880121 GTCAAAAATA
Statistics
Matches: 282, Mismatches: 22, Indels: 50
0.80 0.06 0.14
Matches are distributed among these distances:
74 1 0.00
75 61 0.22
76 4 0.01
79 7 0.02
81 63 0.22
83 2 0.01
85 4 0.01
89 78 0.28
90 61 0.22
91 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (86 bp):
ATTTTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT
AATTTCAATTTCTGTTTCTTC
Found at i:33879987 original size:75 final size:75
Alignment explanation
Indices: 33879788--33880001 Score: 315
Period size: 81 Copynumber: 2.8 Consensus size: 75
33879778 TTCTGTTTTC
* * *
33879788 TTCAATTTATGTTTTTC--AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
*
33879851 CTGAGGTATT
66 CTGAGGTAAT
*
33879861 TTCAATTTCTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTCAATTTATG-TT-TG----TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
33879926 GACACGCTGAGGTAAT
60 GACACGCTGAGGTAAT
33879942 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
1 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
33880002 GCAGACTAAG
Statistics
Matches: 127, Mismatches: 6, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
73 10 0.08
74 2 0.02
75 46 0.36
79 4 0.03
80 2 0.02
81 63 0.50
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (75 bp):
TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTAAT
Found at i:33880014 original size:75 final size:75
Alignment explanation
Indices: 33879788--33880024 Score: 327
Period size: 75 Copynumber: 3.1 Consensus size: 75
33879778 TTCTGTTTTC
* *
33879788 TTCAATTTATGTTTTTC--AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
33879851 CTGAGGTATT
66 CTGAGGTATT
*
33879861 TTCAATTTCTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
1 TTCAATTTATG-TT-TG----TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* *
33879926 GACACGCTGAGGTAAT
60 GGCACGCTGAGGTATT
33879942 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA-G
1 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
33880006 ACTAAGGTATT
66 -CTGAGGTATT
*
33880017 TTCGATTT
1 TTCAATTT
33880025 CTGCTTTCCA
Statistics
Matches: 145, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
73 10 0.07
74 3 0.02
75 63 0.43
79 4 0.03
80 2 0.01
81 63 0.43
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (75 bp):
TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
CTGAGGTATT
Found at i:33880112 original size:165 final size:154
Alignment explanation
Indices: 33879788--33880266 Score: 563
Period size: 165 Copynumber: 3.1 Consensus size: 154
33879778 TTCTGTTTTC
* *
33879788 TTCAATTTATGTTTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
* *
33879853 GAGGTATTTTCAATTTCTGCTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
66 AAGGTATTTTCAATTTCTGCTTCTGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
33879918 AGCCTCAGGACACGCTGAGGTAAT
131 AGCCTCAGGACACGCTGAGGTAAT
33879942 TTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA-G
1 TTCAATTTATGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
*
33880006 ACTAAGGTATTTTCGATTTCTGCTTTCCAATTTCTGCTTTTAAAAAAAAATCAACTCATATTGCG
64 -CTAAGGTATTTTCAATTTCTG-----C---TTCTGCTTTT-AAAAAAAATCAACTCATATTGCG
*
33880071 AGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAAT
119 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * *
33880107 TTCAATTTCTGTTTGTCAAAAATAAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACAT
1 TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-GCAC--
* * * *
33880171 GCTGAGGTCTTTTCAATTTCTG-TTC-G----T----CAAATCAACTCATATTGCAAGAGGTGAG
63 GCTAAGGTATTTTCAATTTCTGCTTCTGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAG
*
33880226 TTGAGCCTTGAGG-CACGCTGAGGT-AT
128 TTGAGCC-TCAGGACACGCTGAGGTAAT
*
33880252 TCTCAATTAATGTTT
1 T-TCAATTTATGTTT
33880267 TTTCAATTTA
Statistics
Matches: 288, Mismatches: 19, Indels: 44
0.82 0.05 0.13
Matches are distributed among these distances:
145 3 0.01
146 54 0.19
147 4 0.01
151 1 0.00
154 16 0.06
155 2 0.01
156 65 0.23
161 1 0.00
162 2 0.01
163 38 0.13
164 10 0.03
165 91 0.32
166 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (154 bp):
TTCAATTTATGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
AAGGTATTTTCAATTTCTGCTTCTGCTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
AGCCTCAGGACACGCTGAGGTAAT
Found at i:33880193 original size:75 final size:73
Alignment explanation
Indices: 33880051--33880259 Score: 257
Period size: 73 Copynumber: 2.9 Consensus size: 73
33880041 GCTTTTAAAA
33880051 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
*
33880116 TGTTTGTC
66 TGTTCGTC
* * * **
33880124 AAAAATAAACTCATATCGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAT-AC--GCTGAGGTAATTTCAAT
33880188 TTCTGTTCGTC
63 TTCTGTTCGTC
* * *
33880199 --AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGG-CACGCTGAGGT-ATTCTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGATACGCTGAGGTAATT-TCAATT
33880260 AATGTTTTTT
Statistics
Matches: 118, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
70 2 0.02
71 14 0.12
72 3 0.03
73 71 0.60
74 1 0.01
75 27 0.23
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTAATTTCAATTTC
TGTTCGTC
Found at i:33880394 original size:87 final size:89
Alignment explanation
Indices: 33880199--33880437 Score: 249
Period size: 87 Copynumber: 2.7 Consensus size: 89
33880189 TCTGTTCGTC
* * *
33880199 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTGAGG-CAC--GCTGAGGTATTCTCAATTA
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCAGGTCACATGCTGAGGTATTTTCAATT-
**
33880261 ATGTTTTTTCAATTTATACTTTTCAA
64 ATGTTTTAGCAATTTATACTTTTCAA
* * * *
33880287 GAATCAACTCATATTACGAGAGGTGAGTTGAACCTCAGGTCACATGCCGAGGTATTTTCAAATT-
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTC-AATTA
*
33880351 TG-TTTAGCAAATTT-T-GTTTTCAA
65 TGTTTTAGC-AATTTATACTTTTCAA
* ** * *
33880374 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTTGCTCACATGCTGAGCTATTTTTCAATT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTA-TTTTCAATT
33880438 TCTGCTTTTA
Statistics
Matches: 126, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 60 0.48
88 43 0.34
89 7 0.06
90 12 0.10
91 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (89 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTCAATTAT
GTTTTAGCAATTTATACTTTTCAA
Found at i:33881643 original size:11 final size:11
Alignment explanation
Indices: 33881627--33881661 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
33881617 CTCTTCCCCC
33881627 CTCCCTTCTCT
1 CTCCCTTCTCT
33881638 CTCCCTTCTCT
1 CTCCCTTCTCT
33881649 CTTCCC-TCTCT
1 C-TCCCTTCTCT
33881660 CT
1 CT
33881662 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:33882641 original size:24 final size:24
Alignment explanation
Indices: 33882605--33882662 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
33882595 CTAGTTATAT
*
33882605 ATATTTCTTATA-CATTTTCATGTAC
1 ATATTT-TTATACCATCTT-ATGTAC
*
33882630 ATATTTTTATACCATCTTATGTAT
1 ATATTTTTATACCATCTTATGTAC
33882654 ATATTTTTA
1 ATATTTTTA
33882663 AATACTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.55
Consensus pattern (24 bp):
ATATTTTTATACCATCTTATGTAC
Found at i:33884242 original size:13 final size:15
Alignment explanation
Indices: 33884218--33884249 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33884208 ATTTAAAAGT
33884218 AAAAAAGAAAAGAA-
1 AAAAAAGAAAAGAAG
33884232 AAAAAAG-AAAGAAG
1 AAAAAAGAAAAGAAG
33884246 AAAA
1 AAAA
33884250 TACCAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAGAAG
Found at i:33887111 original size:26 final size:26
Alignment explanation
Indices: 33887075--33887124 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33887065 GAGAATTGTT
33887075 TTTTAAAAAATACTTTAGAAAAGTGA
1 TTTTAAAAAATACTTTAGAAAAGTGA
* * *
33887101 TTTTCAAAAATATTTTTGAAAAGT
1 TTTTAAAAAATACTTTAGAAAAGT
33887125 TTGGTTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (26 bp):
TTTTAAAAAATACTTTAGAAAAGTGA
Found at i:33888724 original size:12 final size:12
Alignment explanation
Indices: 33888707--33888731 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33888697 AGGCAGATAT
33888707 TCGTGTTTAAAC
1 TCGTGTTTAAAC
33888719 TCGTGTTTAAAC
1 TCGTGTTTAAAC
33888731 T
1 T
33888732 TTTAGGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TCGTGTTTAAAC
Found at i:33904040 original size:5 final size:5
Alignment explanation
Indices: 33904030--33904068 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
33904020 AATATATTTT
33904030 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
33904069 TCATATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:33905984 original size:6 final size:6
Alignment explanation
Indices: 33905973--33906006 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
33905963 CATTTGCTAA
*
33905973 GAAAAT GAAAAT GAAAAT GAAAAT AAAAAT -AAAA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAAAAT GAAAA
33906007 ACAAAAACGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:33906007 original size:12 final size:12
Alignment explanation
Indices: 33905974--33906018 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
33905964 ATTTGCTAAG
*
33905974 AAAATGAAAATG
1 AAAATGAAAATA
33905986 AAAATGAAAATA
1 AAAATGAAAATA
* *
33905998 AAAATAAAAACA
1 AAAATGAAAATA
*
33906010 AAAACGAAA
1 AAAATGAAA
33906019 CATCTTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.76, C:0.04, G:0.09, T:0.11
Consensus pattern (12 bp):
AAAATGAAAATA
Found at i:33909049 original size:24 final size:26
Alignment explanation
Indices: 33909004--33909051 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
33908994 TTAATACATG
33909004 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
33909030 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
33909052 CGTATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:33909129 original size:21 final size:20
Alignment explanation
Indices: 33909095--33909133 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
33909085 TTTTGTACTA
*
33909095 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
33909115 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
33909134 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:33910923 original size:24 final size:24
Alignment explanation
Indices: 33910891--33910945 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
33910881 TGGTAGGATT
33910891 TGTGTCTAAAACTATTTCAAAATC
1 TGTGTCTAAAACTATTTCAAAATC
33910915 TGTGTCTAAAACTATTTCAAAATC
1 TGTGTCTAAAACTATTTCAAAATC
*
33910939 TATGTCT
1 TGTGTCT
33910946 GCATTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (24 bp):
TGTGTCTAAAACTATTTCAAAATC
Found at i:33923582 original size:23 final size:23
Alignment explanation
Indices: 33923556--33923602 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33923546 TACCGTTAGA
33923556 CAACTAATCTCAAATAGAGTTAT
1 CAACTAATCTCAAATAGAGTTAT
33923579 CAACTAATCTCAAATAGAGTTAT
1 CAACTAATCTCAAATAGAGTTAT
33923602 C
1 C
33923603 TCAATTGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (23 bp):
CAACTAATCTCAAATAGAGTTAT
Found at i:33926035 original size:28 final size:28
Alignment explanation
Indices: 33926004--33926075 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
33925994 TCGATATTTT
**
33926004 GCACACTAAGTTTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
33926032 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* *
33926060 GTACACTGAGTGCCAT
1 GCACACTAAGTGCCAT
33926076 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:33929171 original size:18 final size:18
Alignment explanation
Indices: 33929148--33929211 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
33929138 TTTAGATTTA
*
33929148 TGGGCCCACATGCCCATG
1 TGGGCCCACATACCCATG
33929166 TGGGCCCACATACCCATG
1 TGGGCCCACATACCCATG
* * *
33929184 TAGGCCCACGTACCCGTG
1 TGGGCCCACATACCCATG
33929202 TGGGCCCACA
1 TGGGCCCACA
33929212 CGCCTAGATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.19, C:0.39, G:0.27, T:0.16
Consensus pattern (18 bp):
TGGGCCCACATACCCATG
Found at i:33934226 original size:31 final size:30
Alignment explanation
Indices: 33934179--33934239 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
33934169 TATTTTATTA
*
33934179 TTAATTTTCTTATTATTTTA-AAGGCATTTG
1 TTAATTTTATTATTATTTTAGAA-GCATTTG
33934209 TTAATTTTTATTATTATTTTAGAAGCATTTG
1 TTAA-TTTTATTATTATTTTAGAAGCATTTG
33934240 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 4 0.14
31 22 0.79
32 2 0.07
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.57
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAGAAGCATTTG
Found at i:33934651 original size:12 final size:13
Alignment explanation
Indices: 33934623--33934664 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
33934613 ATATCATGTA
33934623 ATATTAT-ATCTT
1 ATATTATAATCTT
*
33934635 TTATTATAATC-T
1 ATATTATAATCTT
33934647 ATATTATAATACTT
1 ATATTATAAT-CTT
33934661 ATAT
1 ATAT
33934665 ATGAATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 16 0.64
13 4 0.16
14 5 0.20
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTATAATCTT
Found at i:33937864 original size:11 final size:11
Alignment explanation
Indices: 33937848--33937877 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
33937838 TGGTTAAGCA
33937848 TCTGTCTGTAT
1 TCTGTCTGTAT
33937859 TCTGTCTGTAT
1 TCTGTCTGTAT
*
33937870 TCTATCTG
1 TCTGTCTG
33937878 GTCCCGAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.20, G:0.17, T:0.53
Consensus pattern (11 bp):
TCTGTCTGTAT
Found at i:33938050 original size:18 final size:20
Alignment explanation
Indices: 33938010--33938057 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
33938000 AAGTTTTAAT
33938010 TTTCC-TTTTCTTTTCTATC
1 TTTCCTTTTTCTTTTCTATC
* *
33938029 TTTCTTTTTTC-TTT-TATT
1 TTTCCTTTTTCTTTTCTATC
33938047 TTTCCTTTTTC
1 TTTCCTTTTTC
33938058 GAGATTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 13 0.52
19 7 0.28
20 5 0.20
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTCCTTTTTCTTTTCTATC
Found at i:33938054 original size:19 final size:18
Alignment explanation
Indices: 33938003--33938056 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
33937993 TCTCACTAAG
*
33938003 TTTTAATTTTCCTTTTCTT
1 TTTTATTTTTCCTTTT-TT
* *
33938022 TTCTATCTTT-CTTTTTT
1 TTTTATTTTTCCTTTTTT
33938039 CTTTTATTTTTCCTTTTT
1 -TTTTATTTTTCCTTTTT
33938057 CGAGATTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 2 0.07
18 13 0.46
19 13 0.46
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTATTTTTCCTTTTTT
Found at i:33942300 original size:40 final size:40
Alignment explanation
Indices: 33942254--33942329 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
33942244 ACACACCATG
* *
33942254 TGGGGATAAAATCGACCCACCCATCCCTGCACACCAATTA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCAATTA
* * *
33942294 TGGGGATACAATCGATCCATCCAACCCTACACACCA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCA
33942330 TAAAGTACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCAATTA
Found at i:33952010 original size:17 final size:17
Alignment explanation
Indices: 33951990--33952024 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33951980 TAGTGTATTA
33951990 TTATAA-TTATTATTAAT
1 TTATAATTTA-TATTAAT
33952007 TTATAATTTATATTAAT
1 TTATAATTTATATTAAT
33952024 T
1 T
33952025 ATATTATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATTTATATTAAT
Found at i:33952232 original size:31 final size:31
Alignment explanation
Indices: 33952169--33952232 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
33952159 TGGAAAATAT
* * *
33952169 ATATTAATTAATTATTATTATTAAGTTAAAG
1 ATATTAATTAATTATAATAATTAAATTAAAG
*
33952200 ATATTTATTAATTA-AATAATTAAATTATAAG
1 ATATTAATTAATTATAATAATTAAATTA-AAG
33952231 AT
1 AT
33952233 TTTTGTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (31 bp):
ATATTAATTAATTATAATAATTAAATTAAAG
Found at i:33953355 original size:23 final size:22
Alignment explanation
Indices: 33953317--33953389 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 22
33953307 GCTTTGCCGA
* *
33953317 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACCTCATGTGTC-TATT
*
33953340 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTC-TATT
* *
33953361 TCAAGCATCTCATGTGTC-ATT
1 TCAGGCACCTCATGTGTCTATT
33953382 TCAGGCAC
1 TCAGGCAC
33953390 TTATGTGCCA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.03
21 21 0.54
23 17 0.44
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (22 bp):
TCAGGCACCTCATGTGTCTATT
Found at i:33954213 original size:22 final size:21
Alignment explanation
Indices: 33954188--33954235 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
33954178 TTGAGTATAT
33954188 AAATGCATTGGTTGAAATATTG
1 AAATGCATTGGTTGAAAT-TTG
** *
33954210 AAATTGGTTTGGTTGTAATTTG
1 AAA-TGCATTGGTTGAAATTTG
33954232 AAAT
1 AAAT
33954236 TTGCAGGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 9 0.41
23 12 0.55
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.42
Consensus pattern (21 bp):
AAATGCATTGGTTGAAATTTG
Found at i:33966656 original size:24 final size:23
Alignment explanation
Indices: 33966604--33966656 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
33966594 AACAAATTAA
* *
33966604 ATAATGACAATTGTAATAAAATT
1 ATAATGACAAATGTAAAAAAATT
33966627 ATTAAT-ACAAATGTAAAATAAATAT
1 A-TAATGACAAATGTAAAA-AAAT-T
33966652 ATAAT
1 ATAAT
33966657 TACTTATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 11 0.44
24 12 0.48
25 2 0.08
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
ATAATGACAAATGTAAAAAAATT
Found at i:33967245 original size:21 final size:21
Alignment explanation
Indices: 33967205--33967246 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33967195 GTATTTCGAC
**
33967205 CACCTCGTGTGTTGTATCAGG
1 CACCTCGTGTGTCATATCAGG
*
33967226 CACCTCGTGTGTCATTTCAGG
1 CACCTCGTGTGTCATATCAGG
33967247 AACTTATGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.33
Consensus pattern (21 bp):
CACCTCGTGTGTCATATCAGG
Found at i:33968616 original size:24 final size:24
Alignment explanation
Indices: 33968589--33968640 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
33968579 TATTTTTTAT
33968589 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAA-ATAA
* * *
33968613 TAAATCAAATACATTTAAAAATAT
1 TAAATAAAAAACATTTAAAAATAA
33968637 TAAA
1 TAAA
33968641 ACAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAATAAAAAACATTTAAAAATAA
Found at i:33968645 original size:24 final size:25
Alignment explanation
Indices: 33968601--33968647 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
33968591 AATAAAAAAC
*
33968601 TTTAAAATATAATAAATCAAATACA
1 TTTAAAATATAATAAAACAAATACA
*
33968626 TTTAAAA-ATATTAAAACAAATA
1 TTTAAAATATAATAAAACAAATA
33968648 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (25 bp):
TTTAAAATATAATAAAACAAATACA
Found at i:33968646 original size:12 final size:12
Alignment explanation
Indices: 33968631--33968657 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
33968621 ATACATTTAA
33968631 AAATATTAAAAC
1 AAATATTAAAAC
33968643 AAATATTAAAAC
1 AAATATTAAAAC
33968655 AAA
1 AAA
33968658 AAATAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:33971024 original size:21 final size:20
Alignment explanation
Indices: 33970996--33971035 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
33970986 CAAAACTTGT
*
33970996 ATAACTATCATCAAACATTC
1 ATAACTATCACCAAACATTC
*
33971016 ATAATCTATCACCAATCATT
1 ATAA-CTATCACCAAACATT
33971036 AAACTACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCACCAAACATTC
Found at i:33974870 original size:41 final size:42
Alignment explanation
Indices: 33974825--33974973 Score: 137
Period size: 41 Copynumber: 3.6 Consensus size: 42
33974815 CAACTTACCT
* * * *
33974825 GATACAATACACCGGCACAAAGCCTACTAGGCTC-AAGGCTA
1 GATACAACACACCGACACAAAGCCTGCTAGGCTCAAAGCCTA
* *
33974866 GATACAACAC-GCTAGCACAAAGCCTGCTAGG-TACAAAGCCT-
1 GATACAACACACCGA-CACAAAGCCTGCTAGGCT-CAAAGCCTA
* * * * *
33974907 GATATAATACATCGATACCAAGCCTGCTAGGCTCAAAGCCTA
1 GATACAACACACCGACACAAAGCCTGCTAGGCTCAAAGCCTA
*
33974949 -ATACAACACACCGACACGAAGCCTG
1 GATACAACACACCGACACAAAGCCTG
33974974 ATATAATACA
Statistics
Matches: 85, Mismatches: 17, Indels: 12
0.75 0.15 0.11
Matches are distributed among these distances:
40 2 0.02
41 75 0.88
42 8 0.09
ACGTcount: A:0.37, C:0.30, G:0.18, T:0.15
Consensus pattern (42 bp):
GATACAACACACCGACACAAAGCCTGCTAGGCTCAAAGCCTA
Found at i:33974983 original size:66 final size:66
Alignment explanation
Indices: 33974901--33975036 Score: 191
Period size: 66 Copynumber: 2.1 Consensus size: 66
33974891 GCTAGGTACA
* * * * * *
33974901 AAGCCTGATATAATACATCGATACCAAGCCTGCTAGGCTCAAAGCCTAATACAACACACCGACAC
1 AAGCCTGATATAATACACCGACACAAAGCCTGCGAGGCTAAAAGCCTAATAAAACACACCGACAC
33974966 G
66 G
* * *
33974967 AAGCCTGATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCTGATAAAACACACCGGCAC
1 AAGCCTGATATAATACACCGACACAAAGCCTGCGAGGCTAAAAGCCTAATAAAACACACCGACAC
33975032 G
66 G
33975033 AAGC
1 AAGC
33975037 TTGCTAGGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.14
Consensus pattern (66 bp):
AAGCCTGATATAATACACCGACACAAAGCCTGCGAGGCTAAAAGCCTAATAAAACACACCGACAC
G
Found at i:33974998 original size:25 final size:25
Alignment explanation
Indices: 33974940--33974998 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
33974930 CTGCTAGGCT
*
33974940 CAAAGCCTAATACAACACACCGACA
1 CAAAGCCTGATACAACACACCGACA
* * * *
33974965 CGAAGCCTGATATAATACACCGGCA
1 CAAAGCCTGATACAACACACCGACA
33974990 CAAAGCCTG
1 CAAAGCCTG
33974999 CGAGGCTAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.41, C:0.32, G:0.15, T:0.12
Consensus pattern (25 bp):
CAAAGCCTGATACAACACACCGACA
Found at i:33975076 original size:82 final size:82
Alignment explanation
Indices: 33974967--33975123 Score: 251
Period size: 82 Copynumber: 1.9 Consensus size: 82
33974957 CACCGACACG
*
33974967 AAGCCTGATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCTGATAAAACACACCGGCAC
1 AAGCCTAATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCTGATAAAACACACCGGCAC
33975032 GAAGCTTGCTAGGCACA
66 GAAGCTTGCTAGGCACA
* * * * * *
33975049 AAGCCTAATATAATACACTGGCTCAAAGCCTGCTAGGCTCAAAGCCTGATATAATACACCGGCAC
1 AAGCCTAATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCTGATAAAACACACCGGCAC
33975114 GAAGCTTGCT
66 GAAGCTTGCT
33975124 GGACTCAAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.17
Consensus pattern (82 bp):
AAGCCTAATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCTGATAAAACACACCGGCAC
GAAGCTTGCTAGGCACA
Found at i:33975090 original size:148 final size:148
Alignment explanation
Indices: 33974822--33975118 Score: 382
Period size: 148 Copynumber: 2.0 Consensus size: 148
33974812 GTACAACTTA
* * * * * *
33974822 CCTGATACAATACACCGGCACAAAGCCTACTAGGCTCAAGGCTAGATACAACACGCTAGCACAAA
1 CCTGATACAATACACCGGCACAAAGCCTACGAGGCTAAAGCCTAGATAAAACACACCAGCACAAA
* * *
33974887 GCCTGCTAGGTACAAAGCCTGATATAATACATCGATACCAAGCCTGCTAGGCTCAAAGCCTAATA
66 GCCTGCTAGGCACAAAGCCTAATATAATACATCGATACAAAGCCTGCTAGGCTCAAAGCCTAATA
33974952 CAACACACCGACACGAAG
131 CAACACACCGACACGAAG
* * * *
33974970 CCTGATATAATACACCGGCACAAAGCCTGCGAGGCTAAAAGCCT-GATAAAACACACCGGCACGA
1 CCTGATACAATACACCGGCACAAAGCCTACGAGGCT-AAAGCCTAGATAAAACACACCAGCACAA
* * * *
33975034 AGCTTGCTAGGCACAAAGCCTAATATAATACACTGGCT-CAAAGCCTGCTAGGCTCAAAGCCTGA
65 AGCCTGCTAGGCACAAAGCCTAATATAATACA-TCGATACAAAGCCTGCTAGGCTCAAAGCCTAA
* * *
33975098 TATAATACACCGGCACGAAG
129 TACAACACACCGACACGAAG
33975118 C
1 C
33975119 TTGCTGGACT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
148 119 0.94
149 8 0.06
ACGTcount: A:0.36, C:0.29, G:0.19, T:0.16
Consensus pattern (148 bp):
CCTGATACAATACACCGGCACAAAGCCTACGAGGCTAAAGCCTAGATAAAACACACCAGCACAAA
GCCTGCTAGGCACAAAGCCTAATATAATACATCGATACAAAGCCTGCTAGGCTCAAAGCCTAATA
CAACACACCGACACGAAG
Found at i:33975131 original size:41 final size:41
Alignment explanation
Indices: 33974967--33975140 Score: 206
Period size: 41 Copynumber: 4.2 Consensus size: 41
33974957 CACCGACACG
* *
33974967 AAGCCTGATATAATACACCGGCACAAAGCCTGCGAGGCTAA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCTCA
* * * * *
33975008 AAGCCTGATAAAACACACCGGCACGAAGCTTGCTAGGCACA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCTCA
* * *
33975049 AAGCCTAATATAATACACTGGCTCAAAGCCTGCTAGGCTCA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCTCA
* *
33975090 AAGCCTGATATAATACACCGGCACGAAGCTTGCT-GGACTCA
1 AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGG-CTCA
* *
33975131 AGGCCCGATA
1 AAGCCTGATA
33975141 CACTATATCC
Statistics
Matches: 110, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
40 2 0.02
41 108 0.98
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (41 bp):
AAGCCTGATATAATACACCGGCACAAAGCCTGCTAGGCTCA
Found at i:33998108 original size:16 final size:16
Alignment explanation
Indices: 33998089--33998135 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33998079 AAATAAGATA
*
33998089 TAATTTAATAATATTT
1 TAATTTAATTATATTT
*
33998105 TAATATAATTAT-TTT
1 TAATTTAATTATATTT
*
33998120 TATATTAAATTATATT
1 TA-ATTTAATTATATT
33998136 AAAATATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
15 5 0.20
16 18 0.72
17 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TAATTTAATTATATTT
Found at i:33998110 original size:21 final size:21
Alignment explanation
Indices: 33998035--33998114 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 21
33998025 ACTTGAATAA
33998035 TTAATCATAATTTAGTATAATTATT
1 TTAAT-ATAATTTA--ATAA-TATT
**
33998060 ATTAAATATAATTTAATAA-AAA
1 -TT-AATATAATTTAATAATATT
*
33998082 TAAGATATAATTTAATAATATT
1 TTA-ATATAATTTAATAATATT
33998104 TTAATATAATT
1 TTAATATAATT
33998115 ATTTTTATAT
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
20 1 0.02
21 23 0.51
22 4 0.09
24 4 0.09
26 10 0.22
27 3 0.07
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (21 bp):
TTAATATAATTTAATAATATT
Found at i:33998134 original size:10 final size:10
Alignment explanation
Indices: 33998119--33998182 Score: 68
Period size: 10 Copynumber: 7.0 Consensus size: 10
33998109 ATAATTATTT
33998119 TTATATTAAA
1 TTATATTAAA
33998129 TTATATTAAA
1 TTATATTAAA
33998139 --ATATT---
1 TTATATTAAA
*
33998144 TTATTTTAAA
1 TTATATTAAA
33998154 TTATATTAAA
1 TTATATTAAA
33998164 TTATATTAAA
1 TTATATTAAA
*
33998174 ATAT-TTAAA
1 TTATATTAAA
33998183 ATATTTTATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 4 0.09
8 5 0.11
9 5 0.11
10 32 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TTATATTAAA
Found at i:33998140 original size:58 final size:57
Alignment explanation
Indices: 33998031--33998141 Score: 134
Period size: 58 Copynumber: 1.9 Consensus size: 57
33998021 AGGTACTTGA
* * *
33998031 ATAATTAATCATAATTTAGTATAATTATTATTAAATATAATTTAATAAAAATAAGAT
1 ATAATTAATAATAATTTAATATAATTATTATTAAATATAAATTAATAAAAATAAGAT
* * * *
33998088 ATAATTTAATAATATTTTAATATAATTATTTTTATAT-TAAATTATATTAAAATA
1 ATAA-TTAATAATAATTTAATATAATTATTATTAAATATAAATTA-ATAAAAATA
33998142 TTTTATTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
57 10 0.22
58 35 0.78
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.47
Consensus pattern (57 bp):
ATAATTAATAATAATTTAATATAATTATTATTAAATATAAATTAATAAAAATAAGAT
Found at i:33998195 original size:44 final size:45
Alignment explanation
Indices: 33998119--33998204 Score: 156
Period size: 44 Copynumber: 1.9 Consensus size: 45
33998109 ATAATTATTT
*
33998119 TTATATTAAATTATATTAAAATATTTTATTTTAAATTATATTAAA
1 TTATATTAAAATATATTAAAATATTTTATTTTAAATTATATTAAA
33998164 TTATATTAAAATAT-TTAAAATATTTTATTTTAAATTATATT
1 TTATATTAAAATATATTAAAATATTTTATTTTAAATTATATT
33998205 TTGAAATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
44 27 0.68
45 13 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (45 bp):
TTATATTAAAATATATTAAAATATTTTATTTTAAATTATATTAAA
Found at i:33998201 original size:10 final size:10
Alignment explanation
Indices: 33998144--33998190 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
33998134 TTAAAATATT
33998144 TTATTTTAAA
1 TTATTTTAAA
*
33998154 TTATATTAAA
1 TTATTTTAAA
*
33998164 TTATATTAAA
1 TTATTTTAAA
*
33998174 ATA-TTTAAA
1 TTATTTTAAA
*
33998183 ATATTTTA
1 TTATTTTA
33998191 TTTTAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 8 0.24
10 25 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TTATTTTAAA
Found at i:33998213 original size:13 final size:12
Alignment explanation
Indices: 33998124--33998213 Score: 57
Period size: 12 Copynumber: 7.7 Consensus size: 12
33998114 TATTTTTATA
33998124 TTAAATTATATT
1 TTAAATTATATT
** *
33998136 AAAATATTTTATT
1 TTAA-ATTATATT
33998149 TTAAATTATA--
1 TTAAATTATATT
33998159 TTAAATTATA--
1 TTAAATTATATT
33998169 TTAAA--ATATT
1 TTAAATTATATT
* *
33998179 TAAAATATTTTATT
1 T-TAA-ATTATATT
33998193 TTAAATTATATT
1 TTAAATTATATT
33998205 TTGAAATTA
1 TT-AAATTA
33998214 AATATTTTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
8 3 0.05
10 16 0.27
11 2 0.03
12 17 0.28
13 17 0.28
14 5 0.08
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (12 bp):
TTAAATTATATT
Found at i:34002353 original size:25 final size:25
Alignment explanation
Indices: 34002325--34002372 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
34002315 CAATATGCAA
* *
34002325 TTCAATTCCACAATCCAATTTCACT
1 TTCAATTCAAAAATCCAATTTCACT
* *
34002350 TTCACTTCAAAAATCCACTTTCA
1 TTCAATTCAAAAATCCAATTTCA
34002373 AAATCAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (25 bp):
TTCAATTCAAAAATCCAATTTCACT
Found at i:34002755 original size:11 final size:12
Alignment explanation
Indices: 34002741--34002772 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
34002731 TTAGTTTCTC
34002741 CTTT-TTCTTTT
1 CTTTCTTCTTTT
34002752 CTTTCTTC-TTT
1 CTTTCTTCTTTT
34002763 CTTTCTTCTT
1 CTTTCTTCTT
34002773 ATTTCCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:34005929 original size:6 final size:6
Alignment explanation
Indices: 34005920--34005960 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
34005910 TTTAAATTTT
*
34005920 ATATTA ATATTA ATATTA ATATTA A-ATT- ATATTC ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
34005961 ATAAAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 1 0.03
5 6 0.19
6 25 0.78
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:34005957 original size:16 final size:17
Alignment explanation
Indices: 34005920--34005962 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
34005910 TTTAAATTTT
34005920 ATATTAATATTAATATTA
1 ATATTAA-ATTAATATTA
*
34005938 ATATTAAATT-ATATTC
1 ATATTAAATTAATATTA
34005954 ATATTAAAT
1 ATATTAAAT
34005963 AAAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.58
17 3 0.12
18 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATTAAATTAATATTA
Found at i:34006655 original size:25 final size:24
Alignment explanation
Indices: 34006623--34006671 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
34006613 CGGAGGATTT
34006623 TTATTTTATTTAATATTAATATAA
1 TTATTTTATTTAATATTAATATAA
34006647 TTATATTTATTTAATATTAATATAA
1 TTAT-TTTATTTAATATTAATATAA
34006672 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTATTTTATTTAATATTAATATAA
Found at i:34006685 original size:21 final size:20
Alignment explanation
Indices: 34006661--34006699 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34006651 ATTTATTTAA
34006661 TATTAATATAAATTTTAAATT
1 TATTAATAT-AATTTTAAATT
* *
34006682 TATTATTATATTTTTAAA
1 TATTAATATAATTTTAAA
34006700 AAAATATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTAATATAATTTTAAATT
Found at i:34011055 original size:3 final size:3
Alignment explanation
Indices: 34011040--34011083 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
34011030 ATGATAGTAC
* * * *
34011040 AAT AAT GAT AAT AAT AAT ATT AAT AGT AAT AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34011084 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34012243 original size:19 final size:19
Alignment explanation
Indices: 34012219--34012256 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34012209 GAAATGAATA
*
34012219 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
34012238 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
34012257 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:34013453 original size:12 final size:13
Alignment explanation
Indices: 34013438--34013466 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
34013428 TTCTTCATTT
34013438 TTTTA-TTTTTTA
1 TTTTATTTTTTTA
34013450 TTTTATTTTTTTA
1 TTTTATTTTTTTA
34013463 TTTT
1 TTTT
34013467 GGGTTGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:34013476 original size:20 final size:20
Alignment explanation
Indices: 34013434--34013477 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
34013424 CTTTTTCTTC
** *
34013434 ATTTTTTTATTTTTTATTTT
1 ATTTTTTTATTTTGGATTGT
*
34013454 ATTTTTTTATTTTGGGTTGT
1 ATTTTTTTATTTTGGATTGT
34013474 ATTT
1 ATTT
34013478 GGGCTTGCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (20 bp):
ATTTTTTTATTTTGGATTGT
Done.