Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 66 of 141
Found at i:19464430 original size:81 final size:78
Alignment explanation
Indices: 19464166--19464772 Score: 552
Period size: 76 Copynumber: 7.8 Consensus size: 78
19464156 GCGACCCAAA
**
19464166 GCTCAACTCACCTCTCG-AATCATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAAGAATACC
1 GCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTTTTGAAAAGTAGAAATTG-AAA-AATACC
*
19464228 TC-AGCATGCGACCCGAG
63 TCGA-CGTG-GACCCGAG
* * * *
19464245 GCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTT-AAAAGCAAAAATTGAAAAATACCTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAGAAATTGAAAAATACCTCG
*
19464309 ACGT-GACTCGAG
66 ACGTGGACCCGAG
* * * *
19464321 ACTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAAAGTAGTAATTGAAAATTACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTGAAAAGTAGAAATTGAAAAATACCT
19464386 CGACGTGCGACCCGAG
64 CGACGTG-GACCCGAG
* * *
19464402 GCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTATTTGAAAAATAGAAATTTAAAAGAAATA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-TTTGAAAAGTAGAAA-TT-GAA-AAATA
* * * *
19464467 CCTTGGCATGTGACTCGAG
61 CCTCGACGTG-GACCCGAG
* * * *
19464486 ACTCAACTCACCTCTCACAATATAAGTTGA-TTTTTTTGAAAAGTAGTAATTGAAAAATACCTCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAGAAATTGAAAAATACCTCG
* *
19464550 ACGT-GACTCAAG
66 ACGTGGACCCGAG
* *
19464562 GCTCAACTTCACCTCTTGCAATATGAGTTGATTTTTTTTGCAGAAATTTA-AAA--G--AAATAC
1 GCTCAAC-TCACCTCTCGCAATATGAGTTGATTTTTTTTG-A-AAA-GTAGAAATTGAAAAATAC
* * *
19464622 CTCGGCATGTAACCCGAG
62 CTCGACGTG-GACCCGAG
* *
19464640 GCTCAACTCACATCTCGCGATATGAGTTGA-TTTTTTTGAAAAGTAGAAATTG-AAAATACCTC-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAGAAATTGAAAAATACCTCG
*
19464702 AGCGT-GACCTGAG
66 A-CGTGGACCCGAG
* * * *
19464715 GCTCAACTCACTTTTCGCATTATGAGTTGA---TTTTTGAAAAATAGAAATTGCAAAAATA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAGAAATTG-AAAAATA
19464773 TAATTCTTGA
Statistics
Matches: 440, Mismatches: 61, Indels: 58
0.79 0.11 0.10
Matches are distributed among these distances:
73 21 0.05
74 6 0.01
75 39 0.09
76 68 0.15
77 51 0.12
78 49 0.11
79 58 0.13
80 28 0.06
81 68 0.15
82 6 0.01
83 2 0.00
84 44 0.10
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (78 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGTAGAAATTGAAAAATACCTCG
ACGTGGACCCGAG
Found at i:19464599 original size:241 final size:234
Alignment explanation
Indices: 19464154--19464749 Score: 681
Period size: 241 Copynumber: 2.5 Consensus size: 234
19464144 ATAGCTTGGT
* * *
19464154 GTGCGACCCAAAGCTCAACTCACCTCTCG-AATCATGAGTTGA-TTTTTTGAAAAACAGAAATTG
1 GTGCGACCCGAGGCTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTTTGAAAAATAGAAATTG
* ** *
19464217 AAAAGAATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTT
65 AAAAGAATACCTCAGCATGCGACCCGAGACTCAACTCACCTCTCACAATATAAGTTGATTTTTTT
* * *
19464282 TAAAAGCAAAAATTGAAAAATACCTTGACGTGACTCGAGACTCAACTCACCTCTTGCAATATGAG
130 GAAAAGCAAAAATTGAAAAATACCTCGACGTGACTCAAGACTCAACTCACCTCTTGCAATATGAG
**
19464347 TTGATTTTTTTTTTG-A-AAAGTAGTAATTGAAAATTACCTCGAC
195 TTGA-TTTTTTTTTGCAGAAA-T-GTAAAAG-AAA-TACCTCGAC
*
19464390 GTGCGACCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTATTTGAAAAATAGAAAT
1 GTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-TTTGAAAAATAGAAAT
* ** * *
19464455 TTAAAAGAAATACCTTGGCATGTGACTCGAGACTCAACTCACCTCTCACAATATAAGTTGATTTT
63 TGAAAAG-AATACCTCAGCATGCGACCCGAGACTCAACTCACCTCTCACAATATAAGTTGATTTT
* ** *
19464520 TTTGAAAAGTAGTAATTGAAAAATACCTCGACGTGACTCAAGGCTCAACTTCACCTCTTGCAATA
127 TTTGAAAAGCAAAAATTGAAAAATACCTCGACGTGACTCAAGACTCAAC-TCACCTCTTGCAATA
* *
19464585 TGAGTTGA-TTTTTTTTGCAGAAATTTAAAAGAAATACCTCGGC
191 TGAGTTGATTTTTTTTTGCAGAAATGTAAAAGAAATACCTCGAC
* ** * * *
19464628 ATGTAACCCGAGGCTCAACTCACATCTCGCGATATGAGTTGATTTTTTTGAAAAGTAGAAATTG-
1 GTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGA
* * * * * * * *
19464692 -AA-AATACCTCAGC--GTGACCTGAGGCTCAACTCACTTTTCGCATTATGAGTTGATTTTT
66 AAAGAATACCTCAGCATGCGACCCGAGACTCAACTCACCTCTCACAATATAAGTTGATTTTT
19464750 GAAAAATAGA
Statistics
Matches: 309, Mismatches: 42, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
229 37 0.12
231 9 0.03
233 2 0.01
235 16 0.05
236 39 0.13
237 3 0.01
238 44 0.14
239 6 0.02
240 34 0.11
241 93 0.30
242 26 0.08
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (234 bp):
GTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTGA
AAAGAATACCTCAGCATGCGACCCGAGACTCAACTCACCTCTCACAATATAAGTTGATTTTTTTG
AAAAGCAAAAATTGAAAAATACCTCGACGTGACTCAAGACTCAACTCACCTCTTGCAATATGAGT
TGATTTTTTTTTGCAGAAATGTAAAAGAAATACCTCGAC
Found at i:19464650 original size:154 final size:152
Alignment explanation
Indices: 19464167--19464749 Score: 624
Period size: 154 Copynumber: 3.7 Consensus size: 152
19464157 CGACCCAAAG
**
19464167 CTCAACTCACCTCTCG-AATCATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAGAATACCTC
1 CTCAACTCACCTCTCGCAAT-ATGAGTTGATTTTTTTGAAAAGTAGAAATTG-AAA-AATACCTC
* * * *
19464230 AGCATGCGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTAAAAGCA-AAAA
63 -G-ACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT----GCAGAAAT
* * *
19464294 TT-GAA-AAATACCTTG-ACGTGACTCGAGA
122 TTAAAAGAAATACCTGGCATGTGACTCGAGA
* * *
19464322 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAAAGTAGTAATTGAAAATTACCTC
1 CTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAAGTAGAAATTGAAAAATACCTC
* *
19464387 GACGTGCGACCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTTATTTGAAAAATAGA
63 GACGT--GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-TTTG-----CAGA
19464452 AATTTAAAAGAAATACCTTGGCATGTGACTCGAGA
119 AATTTAAAAGAAATACC-TGGCATGTGACTCGAGA
* * *
19464487 CTCAACTCACCTCTCACAATATAAGTTGATTTTTTTGAAAAGTAGTAATTGAAAAATACCTCGAC
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGTAGAAATTGAAAAATACCTCGAC
* * *
19464552 GTGACTCAAGGCTCAACTTCACCTCTTGCAATATGAGTTGATTTTTTTTGCAGAAATTTAAAAGA
66 GTGACCCGAGGCTCAAC-TCACCTCTCGCAATATGAGTTGATTTTTTTTGCAGAAATTTAAAAGA
* * *
19464617 AATACCTCGGCATGTAACCCGAGG
130 AATACCT-GGCATGTGACTCGAGA
* *
19464641 CTCAACTCACATCTCGCGATATGAGTTGATTTTTTTGAAAAGTAGAAATTG-AAAATACCTC-AG
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGTAGAAATTGAAAAATACCTCGA-
* * * *
19464704 CGTGACCTGAGGCTCAACTCACTTTTCGCATTATGAGTTGATTTTT
65 CGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
19464750 GAAAAATAGA
Statistics
Matches: 368, Mismatches: 38, Indels: 47
0.81 0.08 0.10
Matches are distributed among these distances:
152 25 0.07
153 26 0.07
154 79 0.21
155 27 0.07
156 4 0.01
157 43 0.12
158 8 0.02
159 25 0.07
160 19 0.05
161 26 0.07
162 39 0.11
163 7 0.02
164 2 0.01
165 38 0.10
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (152 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGTAGAAATTGAAAAATACCTCGAC
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGCAGAAATTTAAAAGAA
ATACCTGGCATGTGACTCGAGA
Found at i:19476704 original size:17 final size:17
Alignment explanation
Indices: 19476631--19476697 Score: 91
Period size: 17 Copynumber: 3.9 Consensus size: 17
19476621 AATAACTCTT
19476631 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
* *
19476649 TTTGTAAAACACGAGAA
1 TTTTTAAAACACGAAAA
19476666 -TTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAAAA
19476683 TTTTTAAAACACGAA
1 TTTTTAAAACACGAA
19476698 TTTTTTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
16 4 0.09
17 30 0.70
18 9 0.21
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:19477230 original size:28 final size:28
Alignment explanation
Indices: 19477192--19477252 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
19477182 ATTTTGGGCA
* *
19477192 TTTTCTCCCTTT-TTCTTTTTTCTTTTTT
1 TTTTCTCCCTTTCTTCCTTTTT-TTTCTT
*
19477220 TTTTCTTCCTTTCTTCCTTTTTTTTCTT
1 TTTTCTCCCTTTCTTCCTTTTTTTTCTT
19477248 TTTTC
1 TTTTC
19477253 GGTTGGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 21 0.72
29 8 0.28
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTTCTCCCTTTCTTCCTTTTTTTTCTT
Found at i:19477539 original size:14 final size:14
Alignment explanation
Indices: 19477516--19477580 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 14
19477506 GATTTTTTAT
19477516 TTTTTC-TCTTTCC
1 TTTTTCTTCTTTCC
19477529 TTTTTCTTCTTT-C
1 TTTTTCTTCTTTCC
*
19477542 ---TTCTTCTTTCT
1 TTTTTCTTCTTTCC
*
19477553 TTCTTTCTT-ATTCC
1 TT-TTTCTTCTTTCC
*
19477567 ATTTTCTTCTTTCC
1 TTTTTCTTCTTTCC
19477581 CGTTCAGCCC
Statistics
Matches: 40, Mismatches: 5, Indels: 13
0.69 0.09 0.22
Matches are distributed among these distances:
10 9 0.22
13 13 0.32
14 13 0.32
15 5 0.12
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTTCTTCTTTCC
Found at i:19477749 original size:26 final size:26
Alignment explanation
Indices: 19477704--19477758 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
19477694 TGCTCTTTCG
19477704 TTTTTTCTCTTTTTTACTT-GTTGTT
1 TTTTTTCTCTTTTTTACTTGGTTGTT
*
19477729 TTTTTTC-CTTTTTGCTTCTTGGTTGTT
1 TTTTTTCTCTTTTT--TACTTGGTTGTT
19477756 TTT
1 TTT
19477759 GCTAGGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 7 0.27
26 4 0.15
27 9 0.35
ACGTcount: A:0.02, C:0.13, G:0.11, T:0.75
Consensus pattern (26 bp):
TTTTTTCTCTTTTTTACTTGGTTGTT
Found at i:19481230 original size:3 final size:3
Alignment explanation
Indices: 19481222--19481263 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
19481212 GCAAATCACT
19481222 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19481264 AAGTTATTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19486283 original size:6 final size:6
Alignment explanation
Indices: 19486266--19486298 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19486256 AAATTATATA
19486266 ATTAAC -TTAAC ATTAAC ATTAAC ATTAAC ATTA
1 ATTAAC ATTAAC ATTAAC ATTAAC ATTAAC ATTA
19486299 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (6 bp):
ATTAAC
Found at i:19488532 original size:27 final size:26
Alignment explanation
Indices: 19488474--19488534 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
19488464 GACATTACGG
* * * *
19488474 TCATTTTACCCTATGGGGTTTTTTGG
1 TCATTTTACCCTAAGGGGTATTATGA
*
19488500 TAATTTTACCCTACAGGGGTATTATGA
1 TCATTTTACCCTA-AGGGGTATTATGA
19488527 TCATTTTA
1 TCATTTTA
19488535 AAAATATTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.21, C:0.15, G:0.18, T:0.46
Consensus pattern (26 bp):
TCATTTTACCCTAAGGGGTATTATGA
Found at i:19491951 original size:16 final size:16
Alignment explanation
Indices: 19491930--19491961 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
19491920 AATTAATTTA
*
19491930 AATTAATTAATTTTCT
1 AATTAAATAATTTTCT
19491946 AATTAAATAATTTTCT
1 AATTAAATAATTTTCT
19491962 CAATCCTATT
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:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAAATAATTTTCT
Found at i:19499485 original size:81 final size:81
Alignment explanation
Indices: 19499347--19499508 Score: 245
Period size: 81 Copynumber: 2.0 Consensus size: 81
19499337 GATTCCGAAG
* * *
19499347 ATAAGGCATCTCCCTAATTAGATCTAATAAATAGCATATTAGTCTTCCAATCAGTTTGATCA-TT
1 ATAAGGCATCTCCCCAATTAGATATAATAAATAGCATATTAGTCCTCCAATCAGTTTGATCATTT
19499411 TCTGATTAGACTAAGGA
66 TC-GATTAGACTAAGGA
* * * *
19499428 ATAAGGCATCTCCCCAATTGGATATGATAAATAGCATATTAGTCCTCCAATCGGTTTGATCGTTT
1 ATAAGGCATCTCCCCAATTAGATATAATAAATAGCATATTAGTCCTCCAATCAGTTTGATCATTT
19499493 TCGATTAGACTAAGGA
66 TCGATTAGACTAAGGA
19499509 CATATTTAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 69 0.95
82 4 0.05
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (81 bp):
ATAAGGCATCTCCCCAATTAGATATAATAAATAGCATATTAGTCCTCCAATCAGTTTGATCATTT
TCGATTAGACTAAGGA
Found at i:19502087 original size:17 final size:17
Alignment explanation
Indices: 19502065--19502103 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19502055 AATGGTGAGA
*
19502065 ATCTTAAATTAGTTTCC
1 ATCTTAAATTAGTTACC
19502082 ATCTT-AATTAGTTACC
1 ATCTTAAATTAGTTACC
19502098 ATCTTA
1 ATCTTA
19502104 GTTGCACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.18, G:0.05, T:0.46
Consensus pattern (17 bp):
ATCTTAAATTAGTTACC
Found at i:19511353 original size:30 final size:30
Alignment explanation
Indices: 19511317--19511378 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
19511307 CTCCATCTAA
19511317 ACTCAATCCCATCGAATCCAAGAATTTACG
1 ACTCAATCCCATCGAATCCAAGAATTTACG
19511347 ACTCAATCCCATCGAATCCAAGAATTTACG
1 ACTCAATCCCATCGAATCCAAGAATTTACG
19511377 AC
1 AC
19511379 GCCGTTCCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (30 bp):
ACTCAATCCCATCGAATCCAAGAATTTACG
Found at i:19512191 original size:2 final size:2
Alignment explanation
Indices: 19512184--19512214 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
19512174 GCATTTTGAA
19512184 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
19512215 CCTTGGGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:19523953 original size:24 final size:24
Alignment explanation
Indices: 19523924--19523972 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
19523914 TAGCTAAAGG
19523924 ACAAATGTGACAATAGGAAATACA
1 ACAAATGTGACAATAGGAAATACA
*
19523948 ACAAATGTGACAATGGGAAATACA
1 ACAAATGTGACAATAGGAAATACA
19523972 A
1 A
19523973 TCATTGTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.16
Consensus pattern (24 bp):
ACAAATGTGACAATAGGAAATACA
Found at i:19527836 original size:13 final size:13
Alignment explanation
Indices: 19527818--19527843 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19527808 TAATTTTTAA
19527818 AAAATTGATTTTT
1 AAAATTGATTTTT
19527831 AAAATTGATTTTT
1 AAAATTGATTTTT
19527844 CTTTCAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAAATTGATTTTT
Found at i:19528238 original size:27 final size:27
Alignment explanation
Indices: 19528175--19528238 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
19528165 AATTGTAATG
*
19528175 AATAAAAATATATTAAATTATTAAATT
1 AATAAAAATATATTAAATTATTAAAAT
*
19528202 AA-AAACAATATATTATATTATTAAAAT
1 AATAAA-AATATATTAAATTATTAAAAT
*
19528229 AATAATAATA
1 AATAAAAATA
19528239 GAAGAAGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 27 0.84
28 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AATAAAAATATATTAAATTATTAAAAT
Found at i:19534675 original size:30 final size:30
Alignment explanation
Indices: 19534639--19534695 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
19534629 NNNNNNNNNN
*
19534639 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAAT-TTTTTTATAATC
19534669 TATATATATGTATATAATTTTTTTATA
1 TATATATATGTATATAATTTTTTTATA
19534696 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATAATTTTTTTATAATC
Found at i:19538102 original size:20 final size:19
Alignment explanation
Indices: 19538066--19538108 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
19538056 CCATATTTGT
*
19538066 ATTATTTTCTCAAAATTTTA
1 ATTATTTTCT-AAAAATTTA
19538086 ATTATTTT-TAAATAATTTA
1 ATTATTTTCTAAA-AATTTA
19538105 ATTA
1 ATTA
19538109 AAAGTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTATTTTCTAAAAATTTA
Found at i:19542722 original size:104 final size:107
Alignment explanation
Indices: 19542542--19542974 Score: 586
Period size: 117 Copynumber: 3.9 Consensus size: 107
19542532 TTGGGACACC
*
19542542 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATGTTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
19542607 GCTAGACAGGTCATAACAACCACAACATGAAACGT-TT-A-T
66 GCTAGACAGGTCATAACAACCACAACATGAAACGTCTTAACT
19542646 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
*
19542711 GCTAGACAGGTCATAACAACCACAACATGATACGTTTATACTCCTTAACCTT
66 GCTAGACAGGTCATAACAACCACAACATGAAACG-------T-CTTAA-C-T
19542763 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
*
19542828 GCTAGACAGGTCATAACAACGACAACATGATACATTTATAC-TCCTTAACCTT
66 GCTAGACAGGTCATAACAACCACAACATG----A---A-ACGT-CTTAA-C-T
* * *
19542880 AATAGAAGAAGAAAGGGTTAATTATAAGATTGATATTTCCATTAGACTAACCCTCGACTCCACTA
1 AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
*
19542945 GCTAGACAGATCATAACAACCACAACATGA
66 GCTAGACAGGTCATAACAACCACAACATGA
19542975 TACATTTATA
Statistics
Matches: 299, Mismatches: 9, Indels: 33
0.88 0.03 0.10
Matches are distributed among these distances:
104 97 0.32
111 1 0.00
113 3 0.01
114 1 0.00
117 194 0.65
121 1 0.00
125 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (107 bp):
AATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACTA
GCTAGACAGGTCATAACAACCACAACATGAAACGTCTTAACT
Found at i:19542853 original size:117 final size:117
Alignment explanation
Indices: 19542645--19543000 Score: 649
Period size: 117 Copynumber: 3.0 Consensus size: 117
19542635 GAAACGTTTA
19542645 TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
1 TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
*
19542710 AGCTAGACAGGTCATAACAACCACAACATGATACGTTTATACTCCTTAACCT
66 AGCTAGACAGGTCATAACAACCACAACATGATACATTTATACTCCTTAACCT
19542762 TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
1 TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
*
19542827 AGCTAGACAGGTCATAACAACGACAACATGATACATTTATACTCCTTAACCT
66 AGCTAGACAGGTCATAACAACCACAACATGATACATTTATACTCCTTAACCT
* * *
19542879 TAATAGAAGAAGAAAGGGTTAATTATAAGATTGATATTTCCATTAGACTAACCCTCGACTCCACT
1 TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
* *
19542944 AGCTAGACAGATCATAACAACCACAACATGATACATTTATACTTCTTAACCT
66 AGCTAGACAGGTCATAACAACCACAACATGATACATTTATACTCCTTAACCT
19542996 TAATA
1 TAATA
19543001 AGATAAATCT
Statistics
Matches: 231, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 231 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (117 bp):
TAATAGAAGAAGAAAAGGTTAATTATAAGGTTGATATTTCCATTGGACTAACCCTCGACTCCACT
AGCTAGACAGGTCATAACAACCACAACATGATACATTTATACTCCTTAACCT
Found at i:19543778 original size:6 final size:6
Alignment explanation
Indices: 19543767--19543798 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
19543757 CTTTTTCAGA
19543767 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
19543799 CAATCACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:19544793 original size:10 final size:9
Alignment explanation
Indices: 19544771--19544841 Score: 81
Period size: 9 Copynumber: 7.7 Consensus size: 9
19544761 AAAATTTATT
19544771 TTAAAAA-A
1 TTAAAAATA
19544779 TTAAAAATCA
1 TTAAAAAT-A
19544789 TTAAAAATA
1 TTAAAAATA
19544798 TTAAAAATA
1 TTAAAAATA
19544807 TATAAAAATTA
1 T-TAAAAA-TA
*
19544818 TTGAAAATA
1 TTAAAAATA
* *
19544827 GTGAAAATA
1 TTAAAAATA
19544836 TTAAAA
1 TTAAAA
19544842 TTTTAATCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 7 0.13
9 25 0.45
10 20 0.36
11 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:19544800 original size:19 final size:18
Alignment explanation
Indices: 19544771--19544841 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 18
19544761 AAAATTTATT
19544771 TTAAAAA-ATTAAAAATCA
1 TTAAAAATATTAAAAAT-A
19544789 TTAAAAATATTAAAAATA
1 TTAAAAATATTAAAAATA
*
19544807 TATAAAAATTATTGAAAATA
1 T-TAAAAA-TATTAAAAATA
* *
19544827 GTGAAAATATTAAAA
1 TTAAAAATATTAAAA
19544842 TTTTAATCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 16 0.35
19 20 0.43
20 10 0.22
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (18 bp):
TTAAAAATATTAAAAATA
Found at i:19544833 original size:29 final size:28
Alignment explanation
Indices: 19544772--19544841 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
19544762 AAATTTATTT
*
19544772 TAAAAA-ATTAAAAATCATTAAAAATAT
1 TAAAAATATTAAAAATCATTAAAAATAG
* *
19544799 TAAAAATATATAAAAATTATTGAAAATAG
1 TAAAAATAT-TAAAAATCATTAAAAATAG
*
19544828 TGAAAATATTAAAA
1 TAAAAATATTAAAA
19544842 TTTTAATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 6 0.16
28 7 0.19
29 24 0.65
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (28 bp):
TAAAAATATTAAAAATCATTAAAAATAG
Found at i:19545702 original size:40 final size:40
Alignment explanation
Indices: 19545645--19545748 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
19545635 ATACGCATCA
* *
19545645 TGTTAGCACTACGGTGCTCCTGATAGTACT-TTTGTACTCC
1 TGTTAGCACTACAGTGCTCCTGATAGCA-TATTTGTACTCC
*
19545685 TGTTAGCATTACAGTGCTCCTGATAGCATATTTGTACTCC
1 TGTTAGCACTACAGTGCTCCTGATAGCATATTTGTACTCC
* * *
19545725 TGTTTGCACTAGAGTGCCCCTGAT
1 TGTTAGCACTACAGTGCTCCTGAT
19545749 TGCACATATG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.02
40 55 0.98
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (40 bp):
TGTTAGCACTACAGTGCTCCTGATAGCATATTTGTACTCC
Found at i:19545724 original size:20 final size:19
Alignment explanation
Indices: 19545661--19545726 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
19545651 CACTACGGTG
*
19545661 CTCCTGATAGTACTTTTGTA
1 CTCCTGATAGCA-TTTTGTA
* ** *
19545681 CTCCTGTTAGCATTACAGTG
1 CTCCTGATAGCATT-TTGTA
19545701 CTCCTGATAGCATATTTGTA
1 CTCCTGATAGCAT-TTTGTA
19545721 CTCCTG
1 CTCCTG
19545727 TTTGCACTAG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 2 0.06
20 32 0.91
21 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (19 bp):
CTCCTGATAGCATTTTGTA
Found at i:19552082 original size:5 final size:5
Alignment explanation
Indices: 19552074--19552102 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19552064 TATTTTTATT
19552074 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
19552103 TACTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:19557953 original size:52 final size:52
Alignment explanation
Indices: 19557875--19557979 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
19557865 GTAGACTCTT
19557875 TCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
1 TCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
*
19557927 TCCCAAGGCGACTTCTCGAGTCCGAGTATCCTGAAATTTCTTTTCCCATTGA
1 TCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
19557979 T
1 T
19557980 TAGCTTTCGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (52 bp):
TCCCAAGGCGACTTCTCGAGCCCGAGTATCCTGAAATTTCTTTTCCCATTGA
Found at i:19558797 original size:19 final size:19
Alignment explanation
Indices: 19558773--19558810 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19558763 AGACCTTTTC
19558773 GACTTTCCAGAAGTGGCTA
1 GACTTTCCAGAAGTGGCTA
19558792 GACTTTCCAGAAGTGGCTA
1 GACTTTCCAGAAGTGGCTA
19558811 CGGAACCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (19 bp):
GACTTTCCAGAAGTGGCTA
Found at i:19562775 original size:20 final size:21
Alignment explanation
Indices: 19562747--19562788 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
19562737 CAAAAGTAAA
*
19562747 TAAATAATTTTATAA-ATTTT
1 TAAAGAATTTTATAATATTTT
*
19562767 TAAAGAATTTTTTAATATTTT
1 TAAAGAATTTTATAATATTTT
19562788 T
1 T
19562789 TTTAGAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TAAAGAATTTTATAATATTTT
Found at i:19565832 original size:8 final size:8
Alignment explanation
Indices: 19565819--19565843 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19565809 AAATTTATGT
19565819 TCAATTTC
1 TCAATTTC
19565827 TCAATTTC
1 TCAATTTC
19565835 TCAATTTC
1 TCAATTTC
19565843 T
1 T
19565844 TCCGCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCAATTTC
Found at i:19568016 original size:20 final size:20
Alignment explanation
Indices: 19567988--19568055 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
19567978 ATATATGTGT
* *
19567988 ATATATATATAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
19568008 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
* *
19568028 ATATATACACGAAAGTATAAT
1 ATATATATA-GAAAGTATAAA
19568049 ATATATA
1 ATATATA
19568056 CACGTACATA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 23 0.56
21 18 0.44
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.35
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:19568069 original size:23 final size:21
Alignment explanation
Indices: 19568017--19568059 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
19568007 AATATGTATA
19568017 GAAAGTATAATATATATACAC
1 GAAAGTATAATATATATACAC
19568038 GAAAGTATAATATATATACAC
1 GAAAGTATAATATATATACAC
19568059 G
1 G
19568060 TACATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (21 bp):
GAAAGTATAATATATATACAC
Found at i:19573016 original size:23 final size:23
Alignment explanation
Indices: 19572986--19573186 Score: 275
Period size: 23 Copynumber: 8.8 Consensus size: 23
19572976 CTACCCTGTT
*
19572986 TTGGACAGCTTTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
* *
19573009 TTGGACAGCATTTATATACCAAA
1 TTGGACAGCATTTATACATCAAA
*
19573032 TTGGACAGCATTTATACTTCAAA
1 TTGGACAGCATTTATACATCAAA
*
19573055 TTGGGCAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
*
19573078 TTAGG-CAGCA--TATACACCAAA
1 TT-GGACAGCATTTATACATCAAA
19573099 TTGGACAAG-ATTTATACATCAAA
1 TTGGAC-AGCATTTATACATCAAA
*
19573122 TTAGACAGCATTTATACATCAAA
1 TTGGACAGCATTTATACATCAAA
* *
19573145 TTGGACAACATTTATACATTAAA
1 TTGGACAGCATTTATACATCAAA
19573168 TTGGACAGCATTTATACAT
1 TTGGACAGCATTTATACAT
19573187 GTAAAAACAA
Statistics
Matches: 157, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
20 2 0.01
21 14 0.09
22 4 0.03
23 135 0.86
24 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (23 bp):
TTGGACAGCATTTATACATCAAA
Found at i:19573115 original size:67 final size:68
Alignment explanation
Indices: 19572986--19573186 Score: 273
Period size: 67 Copynumber: 2.9 Consensus size: 68
19572976 CTACCCTGTT
* * *
19572986 TTGGACAGCTTTTATACATCAAATTGGACAGCATTTATATACCAAATTGGACAGCATTTATACTT
1 TTGGACAGCATTTATACATCAAATTGGACAGCA-TTATACACCAAATTGGACAGCATTTATACAT
19573051 CAAA
65 CAAA
*
19573055 TTGGGCAGCATTTATACATCAAATTAGG-CAGCA-TATACACCAAATTGGACAAG-ATTTATACA
1 TTGGACAGCATTTATACATCAAATT-GGACAGCATTATACACCAAATTGGAC-AGCATTTATACA
19573117 TCAAA
64 TCAAA
* * **
19573122 TTAGACAGCATTTATACATCAAATTGGACAACATTTATACATTAAATTGGACAGCATTTATACAT
1 TTGGACAGCATTTATACATCAAATTGGACAGCA-TTATACACCAAATTGGACAGCATTTATACAT
19573187 GTAAAAACAA
Statistics
Matches: 117, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
66 2 0.02
67 56 0.48
68 4 0.03
69 53 0.45
70 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (68 bp):
TTGGACAGCATTTATACATCAAATTGGACAGCATTATACACCAAATTGGACAGCATTTATACATC
AAA
Found at i:19573157 original size:90 final size:90
Alignment explanation
Indices: 19572998--19573178 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 90
19572988 GGACAGCTTT
* * * * * *
19572998 TATACATCAAATTGGACAGCATTTATATACCAAATTGGACAGCATTTATACTTCAAATTGGGCAG
1 TATACACCAAATTGGACAGCATTTATACACCAAATTAGACAGCATTTATACATCAAATTGGACAA
19573063 CATTTATACATCAAATTAGG-CAGCA
66 CATTTATACATCAAATT-GGACAGCA
*
19573088 TATACACCAAATTGGACAAG-ATTTATACATCAAATTAGACAGCATTTATACATCAAATTGGACA
1 TATACACCAAATTGGAC-AGCATTTATACACCAAATTAGACAGCATTTATACATCAAATTGGACA
*
19573152 ACATTTATACATTAAATTGGACAGCA
65 ACATTTATACATCAAATTGGACAGCA
19573178 T
1 T
19573179 TTATACATGT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
89 2 0.02
90 77 0.95
91 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (90 bp):
TATACACCAAATTGGACAGCATTTATACACCAAATTAGACAGCATTTATACATCAAATTGGACAA
CATTTATACATCAAATTGGACAGCA
Found at i:19574055 original size:40 final size:40
Alignment explanation
Indices: 19573968--19574059 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
19573958 CTTAGTTTCG
* *
19573968 CACACTAAGTGCCATATATAGCCGAAGCTATTCCCAATCG
1 CACACTAAGTGCCATAAATAGCCGAAGCTATTCCCAATCA
*
19574008 CACACTAAGTGCCATAAATAGCCGAAGCTA-TCTCGAATCA
1 CACACTAAGTGCCATAAATAGCCGAAGCTATTC-CCAATCA
*
19574048 CATACTAAGTGC
1 CACACTAAGTGC
19574060 TAAACATAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
39 2 0.04
40 45 0.96
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (40 bp):
CACACTAAGTGCCATAAATAGCCGAAGCTATTCCCAATCA
Found at i:19577349 original size:40 final size:40
Alignment explanation
Indices: 19577305--19577611 Score: 573
Period size: 40 Copynumber: 7.7 Consensus size: 40
19577295 ATTTTTGAGG
19577305 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577345 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577385 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577425 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577465 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577505 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
** *
19577545 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19577585 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19577612 TTAGAATATA
Statistics
Matches: 264, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
38 23 0.09
40 241 0.91
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:19578971 original size:98 final size:98
Alignment explanation
Indices: 19578853--19579049 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
19578843 TTAAAAATAA
* * *
19578853 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCTTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
19578918 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
*
19578951 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGGTTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
19579016 TTAAATCTTGGATGAGTGGATATTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
19579049 T
1 T
19579050 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATATTCTTTTAAAG
Found at i:19583772 original size:20 final size:20
Alignment explanation
Indices: 19583747--19583788 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
19583737 AAAAAAAGGA
*
19583747 GAAAAAAGAAAAGGAAAAAG
1 GAAAAAAGAAAAAGAAAAAG
*
19583767 GAAAAAAGAAAAAGTAAAAG
1 GAAAAAAGAAAAAGAAAAAG
19583787 GA
1 GA
19583789 GAGGACAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAAAAGAAAAAG
Found at i:19585052 original size:44 final size:44
Alignment explanation
Indices: 19585003--19585561 Score: 190
Period size: 44 Copynumber: 12.7 Consensus size: 44
19584993 AAAATTGTAG
* * *
19585003 ATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
* * * * *
19585047 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAAATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACCGCGA
* * * * * ** *
19585090 AGCCTTGTCTCCCTAAGCAGCAGTGGAGAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
* *
19585134 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
* * * *
19585179 ATCTTATCTTTCC-AAG-A-TAGTGAGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGTG-G-AGCAGATTGAAGACCGCGA
* * * * ** *
19585222 AGCCTTGTCTCCCTAAGCAGCAGTGGA-CAAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGC-AGATTGAAGACCGCGA
* *
19585266 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
* * * * *
19585311 ATCTTATATTTCC-AAG-A-TAGTGGAAAGCAGATTTAAG-CCACCA
1 ATCTTAT-CTCCCTAAGCAGTAGTGG--AGCAGATTGAAGACCGCGA
* * * * * * * ** *
19585354 AGTCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAAATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
* * *
19585398 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGA-CGACAA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCG-CGA
* * * *
19585443 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACCGCGA
* * * * * * * * ** *
19585486 AGTCTTGTTTCACTGAGCAGGAGCGGAGTAGGTTGAAGATTG-TA
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
19585530 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 -ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
19585562 CAAGACGACA
Statistics
Matches: 360, Mismatches: 112, Indels: 86
0.65 0.20 0.15
Matches are distributed among these distances:
42 19 0.05
43 37 0.10
44 262 0.73
45 29 0.08
46 13 0.04
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACCGCGA
Found at i:19585233 original size:132 final size:131
Alignment explanation
Indices: 19584991--19585605 Score: 973
Period size: 132 Copynumber: 4.7 Consensus size: 131
19584981 AACAGATCAG
* *
19584991 TGAAAATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCT
* *
19585056 TTCCAAGATAGTGGGAAGCAAATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGAGAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAG
19585121 GT
130 GT
19585123 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCGAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCT
* * *
19585188 TTCCAAGATAGTGAGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGTGGACAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAG
19585253 GT
130 GT
*
19585255 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATAT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCT
* * *
19585320 TTCCAAGATAGTGGAAAGCAGATTTAAGCCACCAAGTCTTGTCTCCCTGAGCAGCAGCGGAGAAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAG
19585385 GT
130 GT
* * *
19585387 TGAAAATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-CGAATCTTATCT
* * * * * *
19585452 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGTCTTGTTTCACTGAGCAGGAGCGGAGTAG
65 TTCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAG
19585517 GT
130 GT
* *
19585519 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C-AAGACGACAAATCATATCT
1 TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-CGAATCTTATCT
19585582 TTCCAAGATAGTGGGAAGCAGATT
65 TTCCAAGATAGTGGGAAGCAGATT
19585606 AAAGTCGACA
Statistics
Matches: 456, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
130 42 0.09
131 2 0.00
132 412 0.90
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (131 bp):
TGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGCGAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGG
T
Found at i:19585650 original size:44 final size:44
Alignment explanation
Indices: 19585598--19586473 Score: 414
Period size: 44 Copynumber: 20.2 Consensus size: 44
19585588 GATAGTGGGA
*
19585598 AGCAGATTAAAGTCGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
19585642 AGCGGATTAAAATC-ACAGATCTTATC-CCTCTGAAGTTACAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCC-CTGAAGTTGCAGTGG
*** * *
19585685 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* ** * * *
19585726 AGCAGACT-AAGTAAACAAGTCTTATC-CTTCTAAAGTTACAGT-G
1 AGCAGATTAAAGTCGACAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
19585769 AGGCAGACTGAAGAT-GGCAAATCTTATCTTCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
19585815 AGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * ** *
19585859 AGCAAATTAAAAT-TACAGATCTTATCTCTCTGAAGTTATAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
*** * * * *
19585902 AGCAGATCGCA-TC--TAGTCTTATCTCTCTGAAGTTGCGGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * *
19585943 A-CAAGACTAAA-T-AAGCAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * * *
19585986 AGGCAGACTGAAGAT-GACAAATCTTATCTTCCTAAAGTTACAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
* *
19586032 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * * * *
19586076 AGCGGATTAAAAT-TACAGATCTTATCTCTCTGAAGTTACAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
*** * *
19586119 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGC-GATGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAG-TGG
* * *
19586160 A-CAAGACT-AAGT-AAGCAAGTCTTATC-CTCCTGAAGTTACAGT-G
1 AGC-AGATTAAAGTCGA-CAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* *
19586203 AGGCAGACTAAAGAT-GACAAATCTTATCTGCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGAC-AATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
19586249 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * * *
19586293 AGCGGATTAAAATC-ACAGATCTTATCTCTCTGAAGTTGCAG-AG
1 AGCAGATTAAAGTCGACA-ATCTTATCTCCCTGAAGTTGCAGTGG
*** * *
19586336 AGCAGATCGCA-TC--TAGTCTTATCTCCCTGAAGTTGCAGTGG
1 AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
* * **
19586377 AGCAGACTAAGGAAG-CAAGTCTTATC-CTCCTGAAGTTGCAGT-G
1 AGCAGATTAAAGTCGACAA-TCTTATCTC-CCTGAAGTTGCAGTGG
* * * *
19586420 AGGCAAACTGAAGAT-GGCAAGTCTTATCTCCCTGAAGTTGCAGTGG
1 A-GCAGATTAAAG-TCGACAA-TCTTATCTCCCTGAAGTTGCAGTGG
*
19586466 AGTAGATT
1 AGCAGATT
19586474 GAAGCACTAA
Statistics
Matches: 629, Mismatches: 139, Indels: 127
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 80 0.13
41 34 0.05
42 6 0.01
43 61 0.10
44 294 0.47
45 133 0.21
46 20 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGCAGATTAAAGTCGACAATCTTATCTCCCTGAAGTTGCAGTGG
Found at i:19585712 original size:84 final size:85
Alignment explanation
Indices: 19585615--19586259 Score: 251
Period size: 84 Copynumber: 7.4 Consensus size: 85
19585605 TAAAGTCGAC
* * * *
19585615 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCCCTCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACA-AG-TCTTATCCCTCTAAAGTTA
*
19585680 CAGAGA-GCAGA-TCG-CAT-CT
64 CAGAGAGGCAGACT-GACATGCA
* * *
19585699 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATCCTTCTAAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AAACAAGTCTTATCCCTCTAAAGTTA
* *
19585764 CAGTGAGGCAGACTGAAGATGGCA
64 CAGAGAGGCAGACTG-ACAT-GCA
* ** * *
19585788 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCC-CTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAAC-A-AGTCTTATC-CCTCTAAAGTT
* * * * * * *
19585852 GCAGTG-GAGCAAATTAAAATTACA
63 ACAGAGAG-GCAGACTGACA-TGCA
* * ** * *** * * * * *
19585876 GATCTTATCTCTCTGAAGTTATAG-AGAGCAGA-TCGCATCTAGTCTTATCTCTCTGAAGTTGC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAGTCTTATCCCTCTAAAGTTACA
* *
19585938 G-GTGGACAAGACT-AAATAAGCA
66 GAGAGG-C-AGACTGACAT--GCA
* * * * * *
19585960 AGTCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGACAAATCTTAT-CTTCCTAAA
1 AATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-AACAAGTCTTATCCCT-CTAAA
* * *
19586022 GTTACAGTG-GAGCAGA-TTA-AAGCCGA
60 GTTACAGAGAG-GCAGACTGACATG-C-A
* * * *
19586048 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTAC-AGATCTTATCTCTCTGAAGT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA--ACAAG-TCTTATCCCTCTAAAGT
*
19586112 TACAGAGA-GCAGA-TCG-CAT-CT
62 TACAGAGAGGCAGACT-GACATGCA
* * * *
19586133 AGTCTTATCTCCCTGAAGTTGC-GATGGA-CAAGACTAAGTAAGCAAGTCTTAT-CCTCCTGAAG
1 AATCTTATCTCCCTGAAGTTGCAG-TGGAGC-AGATTAA--AAACAAGTCTTATCCCT-CTAAAG
* * *
19586195 TTACAGTGAGGCAGACTAAAGATGACA
61 TTACAGAGAGGCAGACT-GACATG-CA
*
19586222 AATCTTATCTGCCTGAAGTTGCAGTGGAGCAGATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
19586260 GCCGATAATC
Statistics
Matches: 417, Mismatches: 88, Indels: 109
0.68 0.14 0.18
Matches are distributed among these distances:
82 3 0.01
83 12 0.03
84 146 0.35
85 20 0.05
86 12 0.03
87 23 0.06
88 53 0.13
89 137 0.33
90 9 0.02
91 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (85 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAACAAGTCTTATCCCTCTAAAGTTACA
GAGAGGCAGACTGACATGCA
Found at i:19585812 original size:89 final size:87
Alignment explanation
Indices: 19585701--19586465 Score: 355
Period size: 89 Copynumber: 8.8 Consensus size: 87
19585691 TCGCATCTAG
19585701 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAACAAGTCTTATC-CTTCTAAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAACAAGTCTTATCTC-TCTAAAGTTAC
* *
19585765 AGTGAGGCAGACTGAAGATGGCAAA
64 AGTG-GGCAGACTAAAGATGACAAA
* * ** * * * *
19585790 TCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCGATAATCCTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A-AGTCTTATCTCTCTAAAGTTAC
* * * *
19585854 AGTGGAGCAAATTAAA-ATTACAGA
64 AGTGG-GCAGACTAAAGATGACAAA
* ** * * * * * * * *
19585878 TCTTATCTCTCTGAAGTTATAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCTCTGAAGTTGCGG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACAAGTCTTATCTCTCTAAAGTTACAG
* * * *
19585940 TGGACAAGACTAAATAAG-CAAG
66 TGGGC-AGACTAAAGATGACAAA
* * *
19585962 TCTTATC-CTCCTGAAGTTACAGT-GAGGCAGACTGAAGATGACAAATCTTATCT-TCCTAAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACAAGTCTTATCTCT-CTAAAGT
* **
19586024 TACAGTGGAGCAGATTAAAGCCGAC-AA
61 TACAGTGG-GCAGACTAAAGATGACAAA
* * * *
19586051 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AATTAC-AGATCTTATCTCTCTGAAGTTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAA--ACAAG-TCTTATCTCTCTAAAGTTA
* * * * *
19586114 CAGAGAGCAGA-T--CGCAT--CTAG
63 CAGTGGGCAGACTAAAG-ATGACAAA
* *
19586135 TCTTATCTCCCTGAAGTTGC-GATGGA-CAAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAG-TGGAGC-AGACTAAG-AAACAAGTCTTATCTCT-CTAAAGTT
19586197 ACAGTGAGGCAGACTAAAGATGACAAA
62 ACAGTG-GGCAGACTAAAGATGACAAA
* * ** * * * * *
19586224 TCTTATCTGCCTGAAGTTGCAGTGGAGCAGATTAA-AGCCGATAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAC-A-AGTCTTATCTCTCTAAAGTTAC
* * * * *
19586288 AGTAGAGCGGATTAAA-ATCACAGA
64 AGT-GGGCAGACTAAAGATGACAAA
* * * * * * * * *
19586312 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACAAGTCTTATCTCTCTAAAGTTACAG
* * *
19586374 TGGAGCAGACTAAGGAAG-CAAG
66 TGG-GCAGACTAAAGATGACAAA
* ** * *
19586396 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATGGCAAGTCTTATCTCCCTGAAGTT
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA-AACAAGTCTTATCTCTCTAAAGTT
*
19586459 GCAGTGG
62 ACAGTGG
19586466 AGTAGATTGA
Statistics
Matches: 510, Mismatches: 113, Indels: 106
0.70 0.16 0.15
Matches are distributed among these distances:
83 9 0.02
84 154 0.30
85 18 0.04
86 10 0.02
87 27 0.05
88 80 0.16
89 202 0.40
90 10 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAACAAGTCTTATCTCTCTAAAGTTACAG
TGGGCAGACTAAAGATGACAAA
Found at i:19585844 original size:217 final size:217
Alignment explanation
Indices: 19585598--19586478 Score: 1435
Period size: 217 Copynumber: 4.1 Consensus size: 217
19585588 GATAGTGGGA
*
19585598 AGCAGATTAAAGTCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
*
19585663 TTATCCCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA-
* * * *
19585728 C-AGACTAAGTAAACAAGTCTTATCCTTCTAAAGTTACAGTGAGGCAGACTGAAGATGGCAAATC
130 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATC
19585792 TTATCTTCCTGAAGTTGCAGTGG
195 TTATCTTCCTGAAGTTGCAGTGG
* * ** *
19585815 AGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGTGGAGCAAATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
* * *
19585880 TTATCTCTCTGAAGTTATAGAGAGCAGATCGCATCTAGTCTTATCTCTCTGAAGTTGCGGTGGAC
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAC
*
19585945 AAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATCT
131 AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATCT
* *
19586010 TATCTTCCTAAAGTTACAGTGG
196 TATCTTCCTGAAGTTGCAGTGG
*
19586032 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATTACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
19586097 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGC-GATGGA
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAG-TGGA
*
19586161 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTAAAGATGACAAATC
130 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATC
*
19586226 TTATCTGCCTGAAGTTGCAGTGG
195 TTATCTTCCTGAAGTTGCAGTGG
* *
19586249 AGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTAAAATCACAGATC
1 AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
*
19586314 TTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGA-
* * * * *
19586379 C-AGACTAAGGAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATGGCAAGTC
130 CAAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATC
*
19586443 TTATCTCCCTGAAGTTGCAGTGG
195 TTATCTTCCTGAAGTTGCAGTGG
* *
19586466 AGTAGATTGAAGC
1 AGCAGATTAAAGC
19586479 ACTAATTCCT
Statistics
Matches: 619, Mismatches: 41, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
216 2 0.00
217 615 0.99
218 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (217 bp):
AGCAGATTAAAGCCGACAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCACAGATC
TTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAC
AAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGACAAATCT
TATCTTCCTGAAGTTGCAGTGG
Found at i:19586705 original size:19 final size:19
Alignment explanation
Indices: 19586681--19586831 Score: 164
Period size: 19 Copynumber: 7.8 Consensus size: 19
19586671 AATTTTTGAG
19586681 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19586700 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
19586719 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
19586740 GATATGCAATCTTAGAGAT
1 GATATGCAATCTTAGATAT
**
19586759 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19586778 GATATGCAATCTTAGA-AT
1 GATATGCAATCTTAGATAT
* * *
19586796 -ATATG-ATTTTGTAATCATAT
1 GATATGCAATCT-T-A-GATAT
19586816 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19586832 ATATATGATT
Statistics
Matches: 108, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
16 3 0.03
17 6 0.06
18 3 0.03
19 67 0.62
20 3 0.03
21 23 0.21
22 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19586726 original size:40 final size:40
Alignment explanation
Indices: 19586682--19586788 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
19586672 ATTTTTGAGG
*
19586682 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
**
19586722 ATATGCAATCTTAGATATGATATGCAATCTTAGAGATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
19586762 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19586789 TTAGAATATA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 23 0.36
40 41 0.64
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGAGATGAT
Found at i:19586816 original size:38 final size:38
Alignment explanation
Indices: 19586774--19586849 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
19586764 ATAATCTTAG
19586774 ATATGATATGCAATCTTAGAATATATGATTTTGTAATC
1 ATATGATATGCAATCTTAGAATATATGATTTTGTAATC
19586812 ATATGATATGCAATCTTAGAATATATGATTTTGTAATC
1 ATATGATATGCAATCTTAGAATATATGATTTTGTAATC
19586850 TTAGAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (38 bp):
ATATGATATGCAATCTTAGAATATATGATTTTGTAATC
Found at i:19587858 original size:134 final size:134
Alignment explanation
Indices: 19587688--19587955 Score: 509
Period size: 134 Copynumber: 2.0 Consensus size: 134
19587678 GGAAATATTC
* *
19587688 CGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATG
1 CGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATG
19587753 AGTGGATGTTCTTTTAAAGTTTTATTGTACAAGTATTTTGGCCCAATTCATTTTGGGGAAAATTA
66 AGTGGATGTTCTTTTAAAGTTTTATTGTACAAGTATTTTGGCCCAATTCATTTTGGGGAAAATTA
19587818 GAAT
131 GAAT
*
19587822 CGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATG
1 CGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATG
19587887 AGTGGATGTTCTTTTAAAGTTTTATTGTACAAGTATTTTGGCCCAATTCATTTTGGGGAAAATTA
66 AGTGGATGTTCTTTTAAAGTTTTATTGTACAAGTATTTTGGCCCAATTCATTTTGGGGAAAATTA
19587952 GAAT
131 GAAT
19587956 GCTGTGCCCT
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (134 bp):
CGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTTAAATCTTGGATG
AGTGGATGTTCTTTTAAAGTTTTATTGTACAAGTATTTTGGCCCAATTCATTTTGGGGAAAATTA
GAAT
Found at i:19594281 original size:21 final size:22
Alignment explanation
Indices: 19594252--19594298 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
19594242 CAGAAGGAGT
*
19594252 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19594274 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
19594295 GAGT
1 GAGT
19594299 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:19600074 original size:18 final size:19
Alignment explanation
Indices: 19600032--19600075 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19600022 CTATAATAAT
19600032 AATATATTTTAATTTTAGGA
1 AATATATTTTAATTTTA-GA
* *
19600052 CATATATTTTATTTTTA-A
1 AATATATTTTAATTTTAGA
19600070 AATATA
1 AATATA
19600076 ATTATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
AATATATTTTAATTTTAGA
Found at i:19605128 original size:38 final size:38
Alignment explanation
Indices: 19605086--19605162 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
19605076 AAAAAAATAT
19605086 TTTTAAACAGTTACGATTTGACAA-AATTAGAATCTAGC
1 TTTTAAACAGTTACGATTTGA-AAGAATTAGAATCTAGC
*
19605124 TTTTAAACGGTTACGATTTGAAAGAATTAGAATCTAGC
1 TTTTAAACAGTTACGATTTGAAAGAATTAGAATCTAGC
19605162 T
1 T
19605163 ATTGAGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 2 0.05
38 35 0.95
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (38 bp):
TTTTAAACAGTTACGATTTGAAAGAATTAGAATCTAGC
Found at i:19609151 original size:27 final size:26
Alignment explanation
Indices: 19609120--19609297 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
19609110 TAAATTGTAC
*
19609120 AGCACTAAGGGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
19609147 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
19609173 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
19609201 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
19609229 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
19609256 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
19609283 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
19609298 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:19609235 original size:82 final size:81
Alignment explanation
Indices: 19609121--19609276 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
19609111 AAATTGTACA
* *
19609121 GCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
19609185 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* * ** *
19609202 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
19609267 TGCGAGTTGA
65 TGCGAATTGA
19609277 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:19609288 original size:82 final size:81
Alignment explanation
Indices: 19609117--19609297 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
19609107 GATTAAATTG
* * *
19609117 TACAGCACTAAGGGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
19609182 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
19609198 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
19609262 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
19609280 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
19609298 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:19609308 original size:27 final size:27
Alignment explanation
Indices: 19609202--19609308 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
19609192 TGACCATGCG
* * * *
19609202 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
19609230 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
19609257 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
19609284 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
19609309 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:19614660 original size:24 final size:24
Alignment explanation
Indices: 19614598--19614649 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
19614588 TTTCTAGAAG
* *
19614598 ATTTAGTATTTATGAGA-ATAATAT
1 ATTTAGCATTTATTA-ACATAATAT
19614622 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATTAACATAATAT
19614646 ATTT
1 ATTT
19614650 GACTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 24 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:19615901 original size:43 final size:43
Alignment explanation
Indices: 19615837--19615958 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 43
19615827 TTATATAAAA
*
19615837 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGC-TTTACCCAC
1 AAACGCCGCCAAAGAACATGATCTTTAGCGGCGCTTTTA-CCAC
* * * *
19615880 AAACGCCGCCAATGAATATGATCTTTTGCGGCGCTTTTATCAC
1 AAACGCCGCCAAAGAACATGATCTTTAGCGGCGCTTTTACCAC
* * * *
19615923 AAACGCCGCTAAAAGTACA-GTTCTTTAGCGGGGCTT
1 AAACGCCGC-CAAAGAACATGATCTTTAGCGGCGCTT
19615959 ATGAAAAAGC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 56 0.86
44 9 0.14
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
AAACGCCGCCAAAGAACATGATCTTTAGCGGCGCTTTTACCAC
Found at i:19617992 original size:21 final size:21
Alignment explanation
Indices: 19617968--19618011 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
19617958 AAGTTATATA
19617968 TAAGTT-TATATATAAGTCATG
1 TAAGTTAT-TATATAAGTCATG
* *
19617989 TAAGTTATTATGTAAGTTATG
1 TAAGTTATTATATAAGTCATG
19618010 TA
1 TA
19618012 TTGTGCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.45
Consensus pattern (21 bp):
TAAGTTATTATATAAGTCATG
Found at i:19618049 original size:59 final size:60
Alignment explanation
Indices: 19617955--19618068 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 60
19617945 ATGAAAGTTA
* *
19617955 TGCAAGTTATATATAAGTTTATATATAAGTCATGTAAG-TTATTATGTAAGTTATGTATTG
1 TGCAAGTTATATATAAATTTATATATAAGTCATGTAAGTTTA-TATATAAGTTATGTATTG
* *
19618015 TGCAAGTTTATATATAAATTT-TATTTATGT-ATGTAAGTTTATATATAAGTTATG
1 TGCAAG-TTATATATAAATTTATATATAAGTCATGTAAGTTTATATATAAGTTATG
19618069 ATATGATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 19 0.40
60 16 0.33
61 13 0.27
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (60 bp):
TGCAAGTTATATATAAATTTATATATAAGTCATGTAAGTTTATATATAAGTTATGTATTG
Found at i:19618140 original size:15 final size:15
Alignment explanation
Indices: 19618120--19618149 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19618110 TGATAAATTT
19618120 TTAAAAAAATATATA
1 TTAAAAAAATATATA
*
19618135 TTAAAAAAGTATATA
1 TTAAAAAAATATATA
19618150 AATATTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
TTAAAAAAATATATA
Found at i:19618189 original size:24 final size:22
Alignment explanation
Indices: 19618151--19618196 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
19618141 AAGTATATAA
*
19618151 ATATTAATAAGTTATGTAAGTTAT
1 ATATTAAAAAGTTA--TAAGTTAT
*
19618175 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
19618197 GTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:19619966 original size:240 final size:239
Alignment explanation
Indices: 19619544--19619979 Score: 732
Period size: 240 Copynumber: 1.8 Consensus size: 239
19619534 TGATAGAACC
*
19619544 CATGCATATCCACATACAAATTTAGGCATTTTAAAACAGTTAAGCAAAAAGGAAAAAAAAAAGAA
1 CATGCATATCCACATACAAATTTAGGCATTTTAAAAAAGTTAAGCAAAAAGGAAAAAAAAAAGAA
* * *
19619609 TAACCATCGAAAAAATCCCAAATTTGATAGAAACAAAACCGTAAATGTAGATCGACAATCGATAA
66 TAACCATCGAAAAAATCCCAAATTTGACAGAAACAAAACCCTAAATGTAGATCAACAATCGATAA
* *
19619674 AAAAAGGCTTATCTGGGATACAAATTTTCCAGCTTTGAATGCTCGATTCAACCCTTGCTTCGGTT
131 AAAAAGGCTTACCTGGGATACAAATTTTCCAGCTTTGAATGATCGATTCAACCCTTGCTTCGGTT
19619739 CAGTTGATTTCTGAGTTCTCCTATGTTTCTTTTTCTTTGTATTT
196 CAGTTGATTTCTGAGTTCTCCTATGTTTCTTTTTCTTTGTATTT
* *
19619783 CATGCATATCCACATACAAATTTAGGCATTTTAAAAAAGTTAAGTAAAAAGGAAAAAAAGAAGAA
1 CATGCATATCCACATACAAATTTAGGCATTTTAAAAAAGTTAAGCAAAAAGGAAAAAAAAAAGAA
*
19619848 TAACGATCGAAAAAAATCCCAAATTTGACAGAAACAAAACCCTAAATGTAGATCAACAATCGATA
66 TAACCATCG-AAAAAATCCCAAATTTGACAGAAACAAAACCCTAAATGTAGATCAACAATCGATA
* *
19619913 GAAAAAGGCTTACCTGGGATACAAA-TTTCGCAGCTTTG-GTAGATCGATTCAACCCTTGCTTCG
130 AAAAAAGGCTTACCTGGGATACAAATTTTC-CAGCTTTGAAT-GATCGATTCAACCCTTGCTTCG
19619976 GTTC
193 GTTC
19619980 TGAGTTCTCC
Statistics
Matches: 183, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
239 75 0.41
240 108 0.59
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.28
Consensus pattern (239 bp):
CATGCATATCCACATACAAATTTAGGCATTTTAAAAAAGTTAAGCAAAAAGGAAAAAAAAAAGAA
TAACCATCGAAAAAATCCCAAATTTGACAGAAACAAAACCCTAAATGTAGATCAACAATCGATAA
AAAAAGGCTTACCTGGGATACAAATTTTCCAGCTTTGAATGATCGATTCAACCCTTGCTTCGGTT
CAGTTGATTTCTGAGTTCTCCTATGTTTCTTTTTCTTTGTATTT
Found at i:19620674 original size:19 final size:20
Alignment explanation
Indices: 19620638--19620676 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19620628 CTAACCCCTA
*
19620638 ACCCCTAAACCTTAAATCCC
1 ACCCCTAAACCATAAATCCC
*
19620658 ACCCTTAAACCAT-AATCCC
1 ACCCCTAAACCATAAATCCC
19620677 TAAACCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (20 bp):
ACCCCTAAACCATAAATCCC
Found at i:19621143 original size:41 final size:39
Alignment explanation
Indices: 19621086--19621286 Score: 179
Period size: 41 Copynumber: 4.9 Consensus size: 39
19621076 CGGCACTGAG
* *
19621086 CATTAGCGGCACTTTTTCAAAAATGCCGCTAAAGCCCCAAA
1 CATTAGCGGCGCTTTTT-AAAAACGCCGCTAAA-CCCCAAA
*
19621127 CATTAGCGGCGCTTTTTAAAAATCGCCGCTAAA-ACCAAGA
1 CATTAGCGGCGCTTTTTAAAAA-CGCCGCTAAACCCCAA-A
* * *
19621167 GCATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAACCCAGAG
1 -CATTAGCGGCGCTTTTT-AAAAACGCCGCTAAACCCCA-AA
* * * * * *
19621209 CATTAGCGACGCTTTTTCAAAACCGCCTCTAAAACACCGAG
1 CATTAGCGGCGCTTTTT-AAAAACGCCGCT-AAACCCCAAA
* *
19621250 CATTAGCGGCACTTTTTTAAAACGCCGCTAAAGCCCC
1 CATTAGCGGCGCTTTTTAAAAACGCCGCTAAA-CCCC
19621287 GATAGGTAAG
Statistics
Matches: 132, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
39 7 0.05
40 18 0.14
41 93 0.70
42 13 0.10
43 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (39 bp):
CATTAGCGGCGCTTTTTAAAAACGCCGCTAAACCCCAAA
Found at i:19621222 original size:82 final size:81
Alignment explanation
Indices: 19621083--19621282 Score: 251
Period size: 82 Copynumber: 2.4 Consensus size: 81
19621073 TCACGGCACT
* * *
19621083 GAGCATTAGCGGCACTTTTTCAAAAATGCCGCTAAAGCCCCAAACATTAGCGGCGCTTTTTAAAA
1 GAGCATTAGCGGCACTTTTT-AAAAACGCCGCTAAAGACCCAAACATTAGCGACGCTTTTTAAAA
*
19621148 ATCGCCGCTAAAAC-CAA
65 ACCGCCGCTAAAACAC-A
* * * *
19621165 GAGCATTAGTGGCGCTTTTTAAAAAACGCCGCTAAA-ACCCAGAGCATTAGCGACGCTTTTTCAA
1 GAGCATTAGCGGCACTTTTT-AAAAACGCCGCTAAAGACCCA-AACATTAGCGACGCTTTTTAAA
* *
19621229 AACCGCCTCTAAAACACC
64 AACCGCCGCTAAAACACA
*
19621247 GAGCATTAGCGGCACTTTTTTAAAACGCCGCTAAAG
1 GAGCATTAGCGGCACTTTTTAAAAACGCCGCTAAAG
19621283 CCCCGATAGG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
81 18 0.18
82 82 0.81
83 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (81 bp):
GAGCATTAGCGGCACTTTTTAAAAACGCCGCTAAAGACCCAAACATTAGCGACGCTTTTTAAAAA
CCGCCGCTAAAACACA
Found at i:19625151 original size:31 final size:31
Alignment explanation
Indices: 19625116--19625177 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
19625106 TGAAAAATTA
*
19625116 CAAGAGTAATTGAATTCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
19625147 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
19625178 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:19635811 original size:42 final size:42
Alignment explanation
Indices: 19635760--19636028 Score: 520
Period size: 42 Copynumber: 6.4 Consensus size: 42
19635750 GTTTACAAAC
* *
19635760 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19635802 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19635844 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19635886 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19635928 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19635970 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
19636012 AAAAACGCCGCTAAAGA
1 AAAAACGCCGCTAAAGA
19636029 NNNNNNNNNN
Statistics
Matches: 225, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 225 1.00
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:19641101 original size:19 final size:19
Alignment explanation
Indices: 19641077--19641129 Score: 106
Period size: 19 Copynumber: 2.8 Consensus size: 19
19641067 GGTGTAGTGC
19641077 TCCAATAATTCATTTTTGG
1 TCCAATAATTCATTTTTGG
19641096 TCCAATAATTCATTTTTGG
1 TCCAATAATTCATTTTTGG
19641115 TCCAATAATTCATTT
1 TCCAATAATTCATTT
19641130 ACATTATCGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.47
Consensus pattern (19 bp):
TCCAATAATTCATTTTTGG
Found at i:19641972 original size:20 final size:21
Alignment explanation
Indices: 19641940--19642004 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
19641930 CTCGAGTATT
*
19641940 AAAAAT-TAGGAGAGAATATC
1 AAAAATATATGAGAGAATATC
*
19641960 AAAAA-GTATGAGA-AAGTATC
1 AAAAATATATGAGAGAA-TATC
*
19641980 AAAAAATATATAAGAGAATATC
1 -AAAAATATATGAGAGAATATC
19642002 AAA
1 AAA
19642005 TATTAATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.05
20 15 0.41
21 8 0.22
22 10 0.27
23 2 0.05
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AAAAATATATGAGAGAATATC
Found at i:19642001 original size:22 final size:21
Alignment explanation
Indices: 19641950--19642004 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
19641940 AAAAATTAGG
* *
19641950 AGAGAATATC-AAAAAGTATG
1 AGAGAATATCAAAAAAATATA
19641970 AGA-AAGTATCAAAAAATATATA
1 AGAGAA-TATCAAAAAA-ATATA
19641992 AGAGAATATCAAA
1 AGAGAATATCAAA
19642005 TATTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 7 0.24
21 5 0.17
22 13 0.45
23 2 0.07
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (21 bp):
AGAGAATATCAAAAAAATATA
Found at i:19642095 original size:21 final size:22
Alignment explanation
Indices: 19642066--19642106 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
19642056 ATTATTTGTA
* *
19642066 TATATAAAAA-ATTTTTATTAG
1 TATACAAAAATATTTATATTAG
19642087 TATACAAAAATATTTATATT
1 TATACAAAAATATTTATATT
19642107 TATATTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATACAAAAATATTTATATTAG
Found at i:19642096 original size:22 final size:22
Alignment explanation
Indices: 19642057--19642128 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 22
19642047 ATTTTAAATA
* *
19642057 TTATTTGTATATATAAAAAATTT
1 TTATTAGTATA-AAAAAAAATTT
* *
19642080 TTATTAGTATACAAAAATATTT
1 TTATTAGTATAAAAAAAAATTT
*
19642102 ATATTTA-TATTAAAAAATAAATTT
1 TTA-TTAGTA-TAAAAAA-AAATTT
19642126 TTA
1 TTA
19642129 AATCAAAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
22 12 0.32
23 19 0.50
24 7 0.18
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (22 bp):
TTATTAGTATAAAAAAAAATTT
Found at i:19642110 original size:20 final size:18
Alignment explanation
Indices: 19642043--19642110 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
19642033 ATTTTTTATT
* *
19642043 TTTTATTT-TAAATATTA
1 TTTTATTTATAAAAAATA
*
19642060 TTTGTATATATAAAAAAT-
1 TTT-TATTTATAAAAAATA
19642078 TTTTATTAGTATACAAAAATA
1 TTTTATT--TATA-AAAAATA
19642099 TTTATATTTATA
1 TTT-TATTTATA
19642111 TTAAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.15
18 7 0.17
19 10 0.25
20 10 0.25
21 3 0.08
22 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTATTTATAAAAAATA
Found at i:19642209 original size:19 final size:19
Alignment explanation
Indices: 19642183--19642228 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
19642173 GAGAATACTA
19642183 AAAATTAT-AAGCATAACC
1 AAAATTATAAAGCATAACC
*
19642201 AATAATTATGAAAGCATACCC
1 AA-AATTAT-AAAGCATAACC
19642222 AAAATTA
1 AAAATTA
19642229 GGAAGGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 5 0.21
21 11 0.46
ACGTcount: A:0.54, C:0.15, G:0.07, T:0.24
Consensus pattern (19 bp):
AAAATTATAAAGCATAACC
Found at i:19642611 original size:20 final size:18
Alignment explanation
Indices: 19642588--19642632 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
19642578 TTAAAATGTT
19642588 ATAAAAACTAATAAAAATTC
1 ATAAAAA-TAATAAAAA-TC
* *
19642608 ATAAAAATTATTAAAATC
1 ATAAAAATAATAAAAATC
19642626 ATAAAAA
1 ATAAAAA
19642633 ATTATAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 9 0.39
19 7 0.30
20 7 0.30
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (18 bp):
ATAAAAATAATAAAAATC
Found at i:19642615 original size:10 final size:9
Alignment explanation
Indices: 19642546--19642659 Score: 70
Period size: 10 Copynumber: 12.0 Consensus size: 9
19642536 ATATTTTTTT
19642546 TTAT-AAAA
1 TTATAAAAA
19642554 TTAATAAAAA
1 TT-ATAAAAA
*
19642564 TATATTTAAAA
1 T-TA-TAAAAA
* *
19642575 TGTTTAAAATG
1 T-TATAAAA-A
19642586 TTATAAAAA
1 TTATAAAAA
*
19642595 CTAATAAAAA
1 -TTATAAAAA
19642605 TTCATAAAAA
1 TT-ATAAAAA
*
19642615 TTATTAAAA
1 TTATAAAAA
*
19642624 TCATAAAAAA
1 TTAT-AAAAA
*
19642634 TTATAACAA
1 TTATAAAAA
*
19642643 TTATTAAAA
1 TTATAAAAA
19642652 TT-TAAAAA
1 TTATAAAAA
19642660 AGAAAAAAGA
Statistics
Matches: 81, Mismatches: 17, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
8 7 0.09
9 25 0.31
10 40 0.49
11 9 0.11
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:19642615 original size:40 final size:40
Alignment explanation
Indices: 19642546--19642624 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
19642536 ATATTTTTTT
* *
19642546 TTATAAAATTAATAAAAATATATTTAAAATGT-TTAAAATG
1 TTATAAAACTAATAAAAATATATTAAAAAT-TATTAAAATG
19642586 TTATAAAAACTAATAAAAAT-TCA-TAAAAATTATTAAAAT
1 TTAT-AAAACTAATAAAAATAT-ATTAAAAATTATTAAAAT
19642625 CATAAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 1 0.03
40 18 0.53
41 15 0.44
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (40 bp):
TTATAAAACTAATAAAAATATATTAAAAATTATTAAAATG
Found at i:19642623 original size:19 final size:19
Alignment explanation
Indices: 19642578--19642637 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
19642568 TTTAAAATGT
* *
19642578 TTAAAATGTTATAAAAACTAA
1 TTAAAAT-TCATAAAAA-TTA
*
19642599 TAAAAATTCATAAAAATTA
1 TTAAAATTCATAAAAATTA
19642618 TTAAAA-TCATAAAAAATTA
1 TTAAAATTCAT-AAAAATTA
19642637 T
1 T
19642638 AACAATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.12
19 16 0.47
20 8 0.24
21 6 0.18
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (19 bp):
TTAAAATTCATAAAAATTA
Found at i:19642639 original size:28 final size:28
Alignment explanation
Indices: 19642600--19642660 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
19642590 AAAAACTAAT
19642600 AAAAATTCATAAAAATTATTAAAATCATA
1 AAAAATTCATAAAAATTATTAAAAT-ATA
* *
19642629 AAAAATT-ATAACAATTATTAAAATTTA
1 AAAAATTCATAAAAATTATTAAAATATA
19642656 AAAAA
1 AAAAA
19642661 GAAAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 7 0.23
28 16 0.53
29 7 0.23
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (28 bp):
AAAAATTCATAAAAATTATTAAAATATA
Found at i:19642651 original size:19 final size:19
Alignment explanation
Indices: 19642609--19642651 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19642599 TAAAAATTCA
19642609 TAAAAATTATTAAAATCAT
1 TAAAAATTATTAAAATCAT
* *
19642628 AAAAAATTA-TAACAATTAT
1 TAAAAATTATTAA-AATCAT
19642647 TAAAA
1 TAAAA
19642652 TTTAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATTATTAAAATCAT
Found at i:19646404 original size:3 final size:3
Alignment explanation
Indices: 19646396--19646461 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
19646386 GCTTCTTAAC
19646396 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19646444 AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
19646462 TGTAACACCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19650758 original size:27 final size:26
Alignment explanation
Indices: 19650722--19650997 Score: 291
Period size: 27 Copynumber: 10.2 Consensus size: 26
19650712 GGAGGTCGAT
*
19650722 AAATGATCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* *
19650749 AAATGATCGAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
19650776 AAATGACCGAAATACACTCATAGGGTA
1 AAATGACCGAAATAC-CCCATAGGGTA
* *
19650803 GAATGACCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* *
19650830 AAATGACCAAAATAGCCCTATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
* * *
19650857 AAATAACCAAAATACCCCATTAGGATA
1 AAATGACCGAAATACCCCA-TAGGGTA
*
19650884 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* * *
19650911 GAATGAACGAAATACCTCCATTGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* * *
19650938 AAATAACTGAAATACCCCCTTAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
19650965 AAATGACCGAAATACCCCCATAAGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
19650992 AAATGA
1 AAATGA
19650998 TTTTTATACC
Statistics
Matches: 211, Mismatches: 30, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.03
27 194 0.92
28 10 0.05
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:19651411 original size:28 final size:28
Alignment explanation
Indices: 19651371--19651476 Score: 135
Period size: 28 Copynumber: 3.8 Consensus size: 28
19651361 CATTGTTACA
*
19651371 GTATTGGGCTAAGGCCTACACTAATTCT
1 GTATTGGGCTAAGGCCCACACTAATTCT
*
19651399 GTATTGGGCTAAGGCCCACACTGATTCT
1 GTATTGGGCTAAGGCCCACACTAATTCT
* *
19651427 GTATTGGGCTAA-GCCTACACT-GTTACT
1 GTATTGGGCTAAGGCCCACACTAATT-CT
* *
19651454 GTAATGGGCCAAGGCCCACACTA
1 GTATTGGGCTAAGGCCCACACTA
19651477 TATTGATACT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 2 0.03
27 20 0.29
28 46 0.68
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (28 bp):
GTATTGGGCTAAGGCCCACACTAATTCT
Found at i:19651456 original size:55 final size:56
Alignment explanation
Indices: 19651371--19651475 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 56
19651361 CATTGTTACA
* *
19651371 GTATTGGGCTAAGGCCTACACTAATTCTGTATTGGGCTAAGGCCCACACTGATTCT
1 GTATTGGGCTAAGGCCTACACTAATTCTGTAATGGGCCAAGGCCCACACTGATTCT
*
19651427 GTATTGGGCTAA-GCCTACACT-GTTACTGTAATGGGCCAAGGCCCACACT
1 GTATTGGGCTAAGGCCTACACTAATT-CTGTAATGGGCCAAGGCCCACACT
19651476 ATATTGATAC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
54 2 0.04
55 31 0.69
56 12 0.27
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.28
Consensus pattern (56 bp):
GTATTGGGCTAAGGCCTACACTAATTCTGTAATGGGCCAAGGCCCACACTGATTCT
Found at i:19651526 original size:79 final size:78
Alignment explanation
Indices: 19651421--19651578 Score: 307
Period size: 79 Copynumber: 2.0 Consensus size: 78
19651411 GGCCCACACT
19651421 GATTCTGTATTGGGCTAAGCCTACACTGTTACTGTAATGGGCCAAGGCCCACACTATATTGATAC
1 GATTCTGTATTGGGCTAAGCCTACACTGTTACTGTAATGGGCCAAGGCCCACACTATATTGATAC
19651486 TATATAGGGCTCA
66 TATATAGGGCTCA
19651499 GATTACTGTATTGGGCTAAGCCTACACTGTTACTGTAATGGGCCAAGGCCCACACTATATTGATA
1 GATT-CTGTATTGGGCTAAGCCTACACTGTTACTGTAATGGGCCAAGGCCCACACTATATTGATA
19651564 CTATATAGGGCTCA
65 CTATATAGGGCTCA
19651578 G
1 G
19651579 GCCCAAATTG
Statistics
Matches: 79, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 4 0.05
79 75 0.95
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (78 bp):
GATTCTGTATTGGGCTAAGCCTACACTGTTACTGTAATGGGCCAAGGCCCACACTATATTGATAC
TATATAGGGCTCA
Found at i:19658786 original size:17 final size:17
Alignment explanation
Indices: 19658764--19658796 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
19658754 TTATTTTCTA
19658764 TATAAGTTTTCTAAATT
1 TATAAGTTTTCTAAATT
*
19658781 TATAAGTTTTGTAAAT
1 TATAAGTTTTCTAAAT
19658797 AATTATTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.52
Consensus pattern (17 bp):
TATAAGTTTTCTAAATT
Found at i:19658842 original size:15 final size:16
Alignment explanation
Indices: 19658805--19658843 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
19658795 ATAATTATTC
*
19658805 TAAATTTATTAGTATA
1 TAAATTTAGTAGTATA
*
19658821 AAAATTTAGTAGTAT-
1 TAAATTTAGTAGTATA
19658836 TAAATTTA
1 TAAATTTA
19658844 TAAGTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (16 bp):
TAAATTTAGTAGTATA
Found at i:19658844 original size:61 final size:61
Alignment explanation
Indices: 19658775--19658924 Score: 178
Period size: 61 Copynumber: 2.5 Consensus size: 61
19658765 ATAAGTTTTC
19658775 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGT-ATAAAAATTTAGT-AGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAAT-AAAATTTA-TAAGTAT
* * * * * *
19658836 TAAATTTATAAGTTTTCTAAAAAAGTGTTCTAGATTTATTATTAATAAAATTTATAAGTAT
1 TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
* * * *
19658897 CAATTTTACACGTTTTGTAAATAATTAT
1 TAAATTTATAAGTTTTGTAAATAATTAT
19658925 ATATTTTTTT
Statistics
Matches: 73, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
60 1 0.01
61 70 0.96
62 2 0.03
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (61 bp):
TAAATTTATAAGTTTTGTAAATAATTATTCTAAATTTATTAGTAATAAAATTTATAAGTAT
Found at i:19659160 original size:8 final size:7
Alignment explanation
Indices: 19659147--19659192 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
19659137 TAACGTATAT
19659147 ATAATAAC
1 ATAAT-AC
19659155 ATAATA-
1 ATAATAC
*
19659161 A-ATTAC
1 ATAATAC
19659167 ATAATAC
1 ATAATAC
19659174 ATAATAAC
1 ATAAT-AC
19659182 ATAATAC
1 ATAATAC
19659189 ATAA
1 ATAA
19659193 CTTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 16 0.48
8 12 0.36
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (7 bp):
ATAATAC
Found at i:19659180 original size:95 final size:95
Alignment explanation
Indices: 19659068--19659272 Score: 295
Period size: 95 Copynumber: 2.2 Consensus size: 95
19659058 AATCATTTGC
* * *
19659068 TTACTTAATACATAATAACACAATACATAA-TTGGTATATAAGCTTGCATAACTTACATAATAAC
1 TTACATAATACATAATAACACAATACATAACTT-ATATATAAGCCTGCATAACTTACATAATAAC
19659132 TTCCATAACGTATATATAATAACATAATAAA
65 TTCCATAACGTATATATAATAACATAATAAA
* *
19659163 TTACATAATACATAATAACATAATACATAACTTATATATAAGCCTGTATAACTTACATAATAACT
1 TTACATAATACATAATAACACAATACATAACTTATATATAAGCCTGCATAACTTACATAATAACT
* * *** *
19659228 TTCATAACTTATATATAATCTGATAATACA
66 TCCATAACGTATATATAATAACATAATAAA
19659258 TTACATAATACATAA
1 TTACATAATACATAA
19659273 CTTATATTAT
Statistics
Matches: 98, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
95 96 0.98
96 2 0.02
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (95 bp):
TTACATAATACATAATAACACAATACATAACTTATATATAAGCCTGCATAACTTACATAATAACT
TCCATAACGTATATATAATAACATAATAAA
Found at i:19659185 original size:15 final size:15
Alignment explanation
Indices: 19659147--19659192 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
19659137 TAACGTATAT
19659147 ATAATAACATAAT--
1 ATAATAACATAATAC
*
19659160 A-AATTACATAATAC
1 ATAATAACATAATAC
19659174 ATAATAACATAATAC
1 ATAATAACATAATAC
19659189 ATAA
1 ATAA
19659193 CTTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 1 0.04
15 16 0.57
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAACATAATAC
Found at i:19659214 original size:21 final size:20
Alignment explanation
Indices: 19659188--19659245 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
19659178 TAACATAATA
19659188 CATAACTTATATATAAGCCTGT
1 CATAACTTATATATAA--CTGT
* *
19659210 -ATAACTTACATAATAACTTT
1 CATAACTTATAT-ATAACTGT
19659230 CATAACTTATATATAA
1 CATAACTTATATATAA
19659246 TCTGATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 7 0.23
21 20 0.65
22 4 0.13
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAACTTATATATAACTGT
Found at i:19659303 original size:38 final size:35
Alignment explanation
Indices: 19659180--19659305 Score: 117
Period size: 38 Copynumber: 3.2 Consensus size: 35
19659170 ATACATAATA
*
19659180 ACATAATACATAACTTATATATAAGCCTGTATAACTT
1 ACATAATACATAACTTATATATAA-TCTG-ATAACTT
19659217 ACATAATAACTTTCATAACTTATATATAATCTGATAATACATT
1 ACATAAT-A----CATAACTTATATATAATCTGAT-A-AC-TT
19659260 ACATAATACATAACTTATATTATAATCTTGCATAACTT
1 ACATAATACATAACTTATA-TATAATC-TG-ATAACTT
*
19659298 GCATAATA
1 ACATAATA
19659306 ACTTCCATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
37 7 0.09
38 21 0.28
39 9 0.12
40 5 0.07
41 6 0.08
42 19 0.25
43 9 0.12
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (35 bp):
ACATAATACATAACTTATATATAATCTGATAACTT
Found at i:19659420 original size:9 final size:9
Alignment explanation
Indices: 19659406--19659941 Score: 345
Period size: 9 Copynumber: 60.4 Consensus size: 9
19659396 CATACATTAA
19659406 ATAACTTAC
1 ATAACTTAC
19659415 ATAACTTAC
1 ATAACTTAC
* *
19659424 ATAAATTAA
1 ATAACTTAC
19659433 ATAACTTAC
1 ATAACTTAC
*
19659442 ATAACCTAC
1 ATAACTTAC
* *
19659451 ATAAATTAA
1 ATAACTTAC
19659460 ATAACTTAC
1 ATAACTTAC
* *
19659469 ATAAATTAA
1 ATAACTTAC
19659478 ATAACTTAC
1 ATAACTTAC
19659487 ATAACTTAC
1 ATAACTTAC
* *
19659496 ATAAATTCC
1 ATAACTTAC
* *
19659505 GTGGACTTAC
1 AT-AACTTAC
*
19659515 ATAACCTAC
1 ATAACTTAC
* * *
19659524 ACAAATTAA
1 ATAACTTAC
19659533 ATAACTTAC
1 ATAACTTAC
19659542 ATAACTTAC
1 ATAACTTAC
19659551 ATAACTTAC
1 ATAACTTAC
19659560 ATAACTTAC
1 ATAACTTAC
* *
19659569 ATAA-ATAGTT
1 ATAACTTA--C
* *
19659579 ATAAATTAG
1 ATAACTTAC
19659588 ATAACTTAC
1 ATAACTTAC
19659597 ATAACTTAC
1 ATAACTTAC
*
19659606 AT-ACATTAA
1 ATAAC-TTAC
* *
19659615 ATTACTTAT
1 ATAACTTAC
19659624 ATAACTTAC
1 ATAACTTAC
*
19659633 ATTA--TAC
1 ATAACTTAC
19659640 ATAACTTAC
1 ATAACTTAC
* *
19659649 ATAAATTAA
1 ATAACTTAC
19659658 ATAACTTAC
1 ATAACTTAC
19659667 ATAACTTAC
1 ATAACTTAC
* *
19659676 ATAAATTCC
1 ATAACTTAC
* ***
19659685 GTGGGTTTAC
1 AT-AACTTAC
*
19659695 ATAACCTAC
1 ATAACTTAC
* * *
19659704 ACAAATTAA
1 ATAACTTAC
19659713 ATAACTTAC
1 ATAACTTAC
19659722 ATAACTTAC
1 ATAACTTAC
19659731 ATAACTTAC
1 ATAACTTAC
* *
19659740 ATAA-ATAGTT
1 ATAACTTA--C
* *
19659750 ATAAATTAA
1 ATAACTTAC
19659759 ATAACTTAC
1 ATAACTTAC
*
19659768 ATAACGTAC
1 ATAACTTAC
*
19659777 AT-ACATTAA
1 ATAAC-TTAC
*
19659786 ATTACTTAC
1 ATAACTTAC
19659795 ATAACTTAC
1 ATAACTTAC
*
19659804 ATAA-ATA-
1 ATAACTTAC
*
19659811 GTAACCTT-C
1 ATAA-CTTAC
*
19659820 TTAACTTAC
1 ATAACTTAC
*
19659829 ATTA--TAC
1 ATAACTTAC
** *
19659836 ACGACTCAC
1 ATAACTTAC
19659845 ATAA-TTA-
1 ATAACTTAC
*
19659852 AT-ATTATAC
1 ATAACT-TAC
*
19659861 ACAACTTAC
1 ATAACTTAC
*
19659870 ATAA-TAAC
1 ATAACTTAC
**
19659878 -TTTCTTAC
1 ATAACTTAC
19659886 ATAACTTAC
1 ATAACTTAC
*
19659895 ATTACTTAC
1 ATAACTTAC
19659904 AGT-ACTTAC
1 A-TAACTTAC
19659913 ATAA--TAC
1 ATAACTTAC
19659920 ATAACTTAC
1 ATAACTTAC
19659929 ATAACTTAC
1 ATAACTTAC
19659938 ATAA
1 ATAA
19659942 TACATAAAAA
Statistics
Matches: 399, Mismatches: 98, Indels: 60
0.72 0.18 0.11
Matches are distributed among these distances:
6 1 0.00
7 25 0.06
8 24 0.06
9 321 0.80
10 24 0.06
11 4 0.01
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19659533 original size:55 final size:54
Alignment explanation
Indices: 19659406--19659809 Score: 267
Period size: 55 Copynumber: 7.3 Consensus size: 54
19659396 CATACATTAA
* * * * * ** * *
19659406 ATAACTTACATAACTTACATAAATTAAATAACTTACATAACCTACATAAATTAA
1 ATAACATACATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
* * * *
19659460 ATAACTTACATAAATTAAATAACTTACATAACTTACATAAATTCCGTGGACTTAC
1 ATAACATACATAAATTAAATAACTTACATAACTTACATAAATTACAT-AACTTAC
* * *
19659515 ATAACCTACACAAATTAAATAACTTACATAACTTACATAACTTACATAACTTAC
1 ATAACATACATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
* * * * * *
19659569 ATAA-ATAGTTATAAATTAGATAACTTACATAACTTACATACATTAAATTACTTAT
1 ATAACATA--CATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
* * * * * *
19659624 ATAACTTACAT-TA-TACATAACTTACATAAATTAAATAACTTACATAACTTAC
1 ATAACATACATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
* ** * * * * *
19659676 ATAAATTCCGTGGGTTTACATAACCTACACAAATTAAATAACTTACATAACTTACATAACTTAC
1 AT-AA---C------ATACATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
* * * * *
19659740 ATAA-ATAGTTATAAATTAAATAACTTACATAACGTACATACATTAAATTACTTAC
1 ATAACATA--CATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
*
19659795 ATAACTTACATAAAT
1 ATAACATACATAAAT
19659810 AGTAACCTTC
Statistics
Matches: 272, Mismatches: 59, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
52 33 0.12
53 7 0.03
54 57 0.21
55 126 0.46
56 5 0.02
62 6 0.02
63 2 0.01
64 36 0.13
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (54 bp):
ATAACATACATAAATTAAATAACTTACATAACTTACATAAATTACATAACTTAC
Found at i:19659642 original size:43 final size:43
Alignment explanation
Indices: 19659512--19659677 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 43
19659502 TCCGTGGACT
* * *
19659512 TACATAACCTACACAAATTAAATAACTTACATAACTTACATAA
1 TACATAACTTACATAAATTAAATAACTTACATAACTTACATTA
* * *
19659555 CTTACATAACTTACATAAA-TAGTTATAAATTAGAT-A---AC--T-
1 --TACATAACTTACATAAATTA--AATAACTTACATAACTTACATTA
* * *
19659594 TACATAACTTACATACATTAAATTACTTATATAACTTACATTA
1 TACATAACTTACATAAATTAAATAACTTACATAACTTACATTA
19659637 TACATAACTTACATAAATTAAATAACTTACATAACTTACAT
1 TACATAACTTACATAAATTAAATAACTTACATAACTTACAT
19659678 AAATTCCGTG
Statistics
Matches: 97, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
36 8 0.08
37 17 0.18
38 2 0.02
40 2 0.02
42 3 0.03
43 38 0.39
44 2 0.02
45 16 0.16
46 9 0.09
ACGTcount: A:0.48, C:0.17, G:0.01, T:0.34
Consensus pattern (43 bp):
TACATAACTTACATAAATTAAATAACTTACATAACTTACATTA
Found at i:19659948 original size:16 final size:16
Alignment explanation
Indices: 19659883--19659932 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 16
19659873 ATAACTTTCT
*
19659883 TACATAACTTACATTACT
1 TACATAACTTACA-TA-A
19659901 TACAGT-ACTTACATAA
1 TACA-TAACTTACATAA
19659917 TACATAACTTACATAA
1 TACATAACTTACATAA
19659933 CTTACATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
15 1 0.03
16 14 0.48
17 2 0.07
18 11 0.38
19 1 0.03
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:19665889 original size:42 final size:42
Alignment explanation
Indices: 19665843--19666172 Score: 536
Period size: 42 Copynumber: 7.8 Consensus size: 42
19665833 GCGTTTTTGT
** *
19665843 AAAAAAACGCTACTAAAGAACATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
19665885 AAAAAAA-GCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT-AG
* * *
19665927 AAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
19665969 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
19666011 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT-AG
* * *
19666054 AAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
*
19666096 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
19666138 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
1 AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGG
19666173 TGTTTTTTCT
Statistics
Matches: 266, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
41 29 0.11
42 169 0.64
43 68 0.26
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAG
Found at i:19666053 original size:127 final size:127
Alignment explanation
Indices: 19665843--19666172 Score: 635
Period size: 127 Copynumber: 2.6 Consensus size: 127
19665833 GCGTTTTTGT
* *
19665843 AAAAAAACGCTACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAA-GCCGCTAAAGACCAT
1 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
19665907 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
66 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
19665969 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
1 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
19666034 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
66 GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
19666096 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
1 AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
19666161 GTTCTTTAGCGG
66 GTTCTTTAGCGG
19666173 TGTTTTTTCT
Statistics
Matches: 201, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
126 47 0.23
127 154 0.77
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (127 bp):
AAAAAAACGCTGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGACCAT
GTTCTTTAGCGGCGCTTAAGAAAAAAACGCCACTAAAGAACATGTTCTTTAGAGGCGCTTAG
Found at i:19667685 original size:43 final size:43
Alignment explanation
Indices: 19667400--19667708 Score: 200
Period size: 42 Copynumber: 7.2 Consensus size: 43
19667390 TTCTCAAAAT
* *
19667400 GCCGCTAAAGACCCTGATCTATAGCGGCACTTCTAG--CACAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTT-T-GTCCACAAAC
* *** * ** *
19667443 GCCGCTGAAGACTAAGACCTTTAGCGGCGCTTTAGT--GGAAGC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTT-GTCCACAAAC
* **** * * * *
19667485 GCCGCTATAGATTAGGGTCTTTAGCGGCG-TTTTTTCTCAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGTCCACAAAC
* * *
19667527 GCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGGCCACAAAAC
1 GCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGTCCAC-AAAC
* * * * ***
19667571 GCCACTAAAGAACCTAATCTTTAGCGGCACTTCCCCCA-AAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGTCCACAAAC
* * *
19667613 GCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGTCCACAAAC
* * *
19667656 GCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAAC
1 GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGTCCACAAAC
*
19667699 GCCACTAAAG
1 GCCGCTAAAG
19667709 GCCAACACCT
Statistics
Matches: 203, Mismatches: 55, Indels: 16
0.74 0.20 0.06
Matches are distributed among these distances:
40 1 0.00
41 4 0.02
42 85 0.42
43 79 0.39
44 32 0.16
45 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGTCCACAAAC
Found at i:19667698 original size:86 final size:86
Alignment explanation
Indices: 19667523--19667750 Score: 219
Period size: 86 Copynumber: 2.7 Consensus size: 86
19667513 GTTTTTTCTC
* * * ***
19667523 AAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGGCCACAAAACGCCACTAAAGAACCTA
1 AAACGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTA
* *
19667587 ATCTTTAGCGGCACTTCCCCCA
65 ATCTTTAGCGGCACTTCACCAA
* * *
19667609 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCAC-AAACGCCGCTAAAGACCCTTA
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAA
* *
19667673 TCTTTAGCGGCGCTTTGACCAA
66 TCTTTAGCGGCAC-TTCACCAA
* * ** * * ** *
19667695 AAACGCCACTAAAGGCCAACACCTTTAGTGGCGTTTTTTTTA-AAAATGCCACTAAA
1 AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAA
19667751 TTTGGCAGAT
Statistics
Matches: 116, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
85 30 0.26
86 84 0.72
87 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAAACGCCACTAAAGAACCTAA
TCTTTAGCGGCACTTCACCAA
Found at i:19667721 original size:43 final size:42
Alignment explanation
Indices: 19667543--19667727 Score: 138
Period size: 43 Copynumber: 4.3 Consensus size: 42
19667533 ATAGACCCTG
* * * *
19667543 ATCTATAGCGGCGCTTCGGCCACAAAACGCCACTAAAGAACCTA
1 ATCTTTAGCGGCGCTTTGACCA-AAAACGCCACTAAAG-ACCAA
* ** * * *
19667587 ATCTTTAGCGGCAC-TTCCCCCAAAACGCCGCTAAAGACCATG
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCA-A
* ** * * **
19667629 ATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGA-CCAA
*
19667672 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGGCCAA
1 ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
* *
19667714 CACCTTTAGTGGCG
1 -ATCTTTAGCGGCG
19667728 TTTTTTTTAA
Statistics
Matches: 110, Mismatches: 27, Indels: 9
0.75 0.18 0.06
Matches are distributed among these distances:
41 3 0.03
42 28 0.25
43 65 0.59
44 14 0.13
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (42 bp):
ATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACCAA
Found at i:19668148 original size:21 final size:21
Alignment explanation
Indices: 19668053--19668145 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
19668043 TTTGACGCTG
19668053 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
19668074 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
19668095 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
19668116 CTGTACTTCTCTAGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
19668137 CTCTGCTTC
1 CTCTGCTTC
19668146 TCTTACTGCC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.05, C:0.44, G:0.17, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:19668154 original size:21 final size:21
Alignment explanation
Indices: 19668093--19668165 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
19668083 CCTCGCTTTA
* ** *
19668093 GCCTCTGCTTCCCTCGCTGCA
1 GCCTCTGCTTCTCTTACTGCC
* *
19668114 GCCTGTACTTCTC-TAGCTGCC
1 GCCTCTGCTTCTCTTA-CTGCC
19668135 GCCTCTGCTTCTCTTACTGCC
1 GCCTCTGCTTCTCTTACTGCC
*
19668156 GCATCTGCTT
1 GCCTCTGCTT
19668166 TAAGCTGCTG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 39 0.95
22 2 0.05
ACGTcount: A:0.07, C:0.41, G:0.18, T:0.34
Consensus pattern (21 bp):
GCCTCTGCTTCTCTTACTGCC
Found at i:19668282 original size:66 final size:66
Alignment explanation
Indices: 19668136--19668282 Score: 183
Period size: 66 Copynumber: 2.2 Consensus size: 66
19668126 CTAGCTGCCG
* **
19668136 CCTCTGCTTCTCTTACTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
19668201 A
66 A
* * * *
19668202 CCTCAACTTCTCTCGCTGCTGCATCTGCTTTCAA-TTG-TAGCTGGAGTTCTTCATATCTTT-TT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTT-AAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGT
19668264 TGAA
63 TGAA
19668268 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
19668283 ATGTTGCCTC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
65 1 0.01
66 63 0.90
67 6 0.09
ACGTcount: A:0.14, C:0.29, G:0.16, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGA
A
Found at i:19668298 original size:66 final size:66
Alignment explanation
Indices: 19668175--19668298 Score: 178
Period size: 66 Copynumber: 1.9 Consensus size: 66
19668165 TTAAGCTGCT
* *
19668175 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGCTGCTGCATCTGCTTTCAATTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGATGCTGCATCCGCTTTCAATTGT
19668240 A
66 A
* * * *
19668241 GCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTT
1 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAACTTCTCTCGATGCTGCATCCGCTTT
19668299 AAGTTGTGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
66 47 0.92
67 4 0.08
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAACTTCTCTCGATGCTGCATCCGCTTTCAATTGT
A
Found at i:19673721 original size:9 final size:9
Alignment explanation
Indices: 19673707--19673906 Score: 121
Period size: 9 Copynumber: 23.9 Consensus size: 9
19673697 AAATTGCACG
19673707 TGTAAGTTA
1 TGTAAGTTA
*
19673716 TGTAAGTTG
1 TGTAAGTTA
19673725 TGT-A-TTA
1 TGTAAGTTA
19673732 TGTAAGTTA
1 TGTAAGTTA
19673741 T-T-A-TTA
1 TGTAAGTTA
19673747 TGTAAGTTA
1 TGTAAGTTA
*
19673756 TGTAAGTAA
1 TGTAAGTTA
19673765 TGT-A-TTA
1 TGTAAGTTA
*
19673772 TGTAAGTTG
1 TGTAAGTTA
*
19673781 TGT-A-TAA
1 TGTAAGTTA
*
19673788 TGTTAGTTA
1 TGTAAGTTA
**
19673797 TCAAAGTTA
1 TGTAAGTTA
*
19673806 ---CAG-TA
1 TGTAAGTTA
19673811 TGTAAGTTA
1 TGTAAGTTA
*
19673820 TTTAAGTTA
1 TGTAAGTTA
*
19673829 TGTAAGTTG
1 TGTAAGTTA
19673838 TGT-A-TTA
1 TGTAAGTTA
19673845 TGTAAGTTA
1 TGTAAGTTA
*
19673854 TGTAGGTTA
1 TGTAAGTTA
*
19673863 TGT-A-TAA
1 TGTAAGTTA
19673870 TGTAAGTTA
1 TGTAAGTTA
*
19673879 T-TATGTTATTA
1 TGTAAG---TTA
19673890 TGTAAGTTA
1 TGTAAGTTA
*
19673899 TGCAAGTT
1 TGTAAGTT
19673907 TATATATAAG
Statistics
Matches: 146, Mismatches: 24, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
5 2 0.01
6 6 0.04
7 26 0.18
8 16 0.11
9 89 0.61
11 4 0.03
12 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (9 bp):
TGTAAGTTA
Found at i:19673747 original size:15 final size:16
Alignment explanation
Indices: 19673713--19673857 Score: 90
Period size: 16 Copynumber: 9.0 Consensus size: 16
19673703 CACGTGTAAG
*
19673713 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
19673729 TTATGTAAGTTAT-TA
1 TTATGTAAGTTATGTA
19673744 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
19673760 --A-GT-A---ATGTA
1 TTATGTAAGTTATGTA
*
19673769 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
19673785 TAATGTTAGTTATCAAAGTTACA
1 TTATGTAAGTTAT----G-T--A
* *
19673808 GTATGTAAGTTATTTAA
1 TTATGTAAGTTATGT-A
*
19673825 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
19673842 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
19673858 GGTTATGTAT
Statistics
Matches: 99, Mismatches: 14, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
9 5 0.05
11 1 0.01
12 3 0.03
13 3 0.03
14 1 0.01
15 15 0.15
16 43 0.43
17 2 0.02
18 13 0.13
20 1 0.01
21 1 0.01
23 11 0.11
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:19673776 original size:25 final size:25
Alignment explanation
Indices: 19673729--19673879 Score: 125
Period size: 25 Copynumber: 6.2 Consensus size: 25
19673719 AAGTTGTGTA
*
19673729 TTATGTAAGTTAT-TATTATGTAAG
1 TTATGTAAGTAATGTATTATGTAAG
19673753 TTATGTAAGTAATGTATTATGTAAG
1 TTATGTAAGTAATGTATTATGTAAG
* **
19673778 TTGTGT-A-TAATGTTAGTTATCAAAG
1 TTATGTAAGTAATG-TA-TTATGTAAG
* * *
19673803 TTACAGTATGTAA-G--TTATTTAAG
1 TTA-TGTAAGTAATGTATTATGTAAG
**
19673826 TTATGTAAGTTGTGTATTATGTAAG
1 TTATGTAAGTAATGTATTATGTAAG
* * *
19673851 TTATGTAGGTTATGTATAATGTAAG
1 TTATGTAAGTAATGTATTATGTAAG
19673876 TTAT
1 TTAT
19673880 TATGTTATTA
Statistics
Matches: 101, Mismatches: 17, Indels: 17
0.75 0.13 0.13
Matches are distributed among these distances:
22 5 0.05
23 16 0.16
24 15 0.15
25 59 0.58
26 2 0.02
27 1 0.01
28 3 0.03
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTAATGTATTATGTAAG
Found at i:19673894 original size:20 final size:21
Alignment explanation
Indices: 19673840--19673900 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 21
19673830 GTAAGTTGTG
19673840 TATTATGTAAGTTATGTAGGT
1 TATTATGTAAGTTATGTAGGT
*
19673861 TATGTATAATGTAAGTTAT-TATGT
1 TA--T-T-ATGTAAGTTATGTAGGT
19673885 TATTATGTAAGTTATG
1 TATTATGTAAGTTATG
19673901 CAAGTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
20 11 0.32
21 3 0.09
22 1 0.03
23 1 0.03
24 7 0.21
25 11 0.32
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (21 bp):
TATTATGTAAGTTATGTAGGT
Found at i:19674213 original size:43 final size:43
Alignment explanation
Indices: 19674111--19674199 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
19674101 ATTTATTGAC
*
19674111 AATAAAATTGTAATATAGGTTATATATCCATACCATATATATA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
19674154 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
1 AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
19674197 AAT
1 AAT
19674200 TTTAAATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (43 bp):
AATAAAATTGAAATATAGGTTATATATCCATACCATATATATA
Found at i:19674239 original size:23 final size:23
Alignment explanation
Indices: 19674190--19674302 Score: 77
Period size: 23 Copynumber: 5.3 Consensus size: 23
19674180 TCCATACCAT
* *
19674190 ATATATAAATTTTAAAT-ATATA
1 ATATATAAATTTTAAGTAATGTA
19674212 TATATATAAATTTTAAGTAATGT-
1 -ATATATAAATTTTAAGTAATGTA
19674235 A-ATAT--A-TTTAAGTAATGTA
1 ATATATAAATTTTAAGTAATGTA
* *
19674254 AGT-TAAAAATTTT-TGTAA-GTA
1 A-TATATAAATTTTAAGTAATGTA
*
19674275 ATGTA-ATAATTTTAAGTAA-GTA
1 ATATATA-AATTTTAAGTAATGTA
19674297 ATATAT
1 ATATAT
19674303 TTAAGTAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 22
0.72 0.06 0.22
Matches are distributed among these distances:
18 12 0.16
19 2 0.03
20 4 0.05
21 16 0.22
22 17 0.23
23 19 0.26
24 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (23 bp):
ATATATAAATTTTAAGTAATGTA
Found at i:19674246 original size:18 final size:18
Alignment explanation
Indices: 19674223--19674310 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 18
19674213 ATATATAAAT
19674223 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
19674241 TTTAAGTAATGTAAGTTAAAAATTT
1 TTTAAGTAATGTAA--T----A-TA
19674266 TTGTAAGTAATGTAATA-A
1 TT-TAAGTAATGTAATATA
19674284 TTTTAAGTAA-GTAATATA
1 -TTTAAGTAATGTAATATA
19674302 TTTAAGTAA
1 TTTAAGTAA
19674311 ATTTTAGTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
17 15 0.26
18 22 0.38
19 2 0.03
20 2 0.03
24 2 0.03
25 3 0.05
26 12 0.21
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:19674275 original size:44 final size:43
Alignment explanation
Indices: 19674222--19674354 Score: 132
Period size: 44 Copynumber: 3.0 Consensus size: 43
19674212 TATATATAAA
19674222 TTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATT
1 TTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATT
* *
19674265 TTTGTAAGTAATGTAATA-ATTTTAAGTAAGTAATATATTTAAGTAAA--
1 TTT-TAAGTAATGTAATATA-TTTAAGTAA-T-GTA-AGTTAA--AAATT
* *
19674312 TTTT-AGTAAT-TAATATATTTACGTAATGTAAGTTATAAATT
1 TTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATT
19674353 TT
1 TT
19674355 AAAAATATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 22
0.73 0.06 0.22
Matches are distributed among these distances:
39 3 0.04
41 6 0.08
42 2 0.03
43 5 0.07
44 36 0.49
45 8 0.11
46 3 0.04
47 8 0.11
49 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (43 bp):
TTTTAAGTAATGTAATATATTTAAGTAATGTAAGTTAAAAATT
Found at i:19674296 original size:22 final size:22
Alignment explanation
Indices: 19674225--19674298 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
19674215 ATATAAATTT
19674225 TAAGTAATGTAAT-ATATTTAAG
1 TAAGTAATGTAATAAT-TTTAAG
* *
19674247 TAATGTAA-GTTAAAAATTTT-TG
1 TAA-GTAATG-TAATAATTTTAAG
19674269 TAAGTAATGTAATAATTTTAAG
1 TAAGTAATGTAATAATTTTAAG
19674291 TAAGTAAT
1 TAAGTAAT
19674299 ATATTTAAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 13 0.30
22 18 0.42
23 10 0.23
24 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAGTAATGTAATAATTTTAAG
Found at i:19674299 original size:17 final size:18
Alignment explanation
Indices: 19674269--19674310 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
19674259 AAAATTTTTG
19674269 TAAGTAATGTAATA-ATTT
1 TAAGTAATGTAATATA-TT
19674287 TAAGTAA-GTAATATATT
1 TAAGTAATGTAATATATT
19674304 TAAGTAA
1 TAAGTAA
19674311 ATTTTAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (18 bp):
TAAGTAATGTAATATATT
Done.