Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold269
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: 1389591
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:179769 original size:13 final size:13
Alignment explanation
Indices: 179747--179784 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
179737 CAGCATTCTC
*
179747 TGTATCGATACAT
1 TGTATCGATACAG
*
179760 TGTATAGATACAG
1 TGTATCGATACAG
179773 TGTATCGATACA
1 TGTATCGATACA
179785 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:181674 original size:22 final size:21
Alignment explanation
Indices: 181648--181691 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
181638 CGAAATCGTT
*
181648 AAATTATTTTACTAAGGGGGAG
1 AAATT-TTTGACTAAGGGGGAG
*
181670 AAATTTTTGATTAAGGGGGAG
1 AAATTTTTGACTAAGGGGGAG
181691 A
1 A
181692 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (21 bp):
AAATTTTTGACTAAGGGGGAG
Found at i:182253 original size:13 final size:13
Alignment explanation
Indices: 182235--182259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
182225 AGATTGGACA
182235 GTATCGATACATT
1 GTATCGATACATT
182248 GTATCGATACAT
1 GTATCGATACAT
182260 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:182272 original size:20 final size:21
Alignment explanation
Indices: 182247--182299 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
182237 ATCGATACAT
*
182247 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
182267 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
182288 TGTATCGATACA
1 TGTATCGATACA
182300 GGTCATAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:182377 original size:13 final size:13
Alignment explanation
Indices: 182359--182384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
182349 TACACACAAG
182359 ATGTATCGATACA
1 ATGTATCGATACA
182372 ATGTATCGATACA
1 ATGTATCGATACA
182385 TCCCAAAATG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:182401 original size:33 final size:32
Alignment explanation
Indices: 182341--182404 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
182331 CTTAACAGTT
*
182341 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
182373 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
182405 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:183631 original size:13 final size:13
Alignment explanation
Indices: 183613--183638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
183603 CAATTTTTTG
183613 TGTATCGATACAT
1 TGTATCGATACAT
183626 TGTATCGATACAT
1 TGTATCGATACAT
183639 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:183635 original size:33 final size:33
Alignment explanation
Indices: 183593--183671 Score: 92
Period size: 33 Copynumber: 2.4 Consensus size: 33
183583 TACAAGCTAA
**
183593 TGTATCGATACAATTTTTTG-TGTATCGATACAT-
1 TGTATCGATACAA-TACTTGCTGTATCGATAC-TC
183626 TGTATCGATAC-ATACTTGCTGTATCGATACTGC
1 TGTATCGATACAATACTTGCTGTATCGATACT-C
183659 TGTATCGATACAA
1 TGTATCGATACAA
183672 GTTTGGCTAC
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 5 0.12
32 12 0.30
33 22 0.55
34 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGCTGTATCGATACTC
Found at i:183661 original size:14 final size:15
Alignment explanation
Indices: 183637--183669 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
183627 GTATCGATAC
183637 ATACTTGCTGTATCG
1 ATACTTGCTGTATCG
183652 ATAC-TGCTGTATCG
1 ATACTTGCTGTATCG
183666 ATAC
1 ATAC
183670 AAGTTTGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (15 bp):
ATACTTGCTGTATCG
Found at i:183736 original size:20 final size:20
Alignment explanation
Indices: 183691--183763 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
183681 CTGCCAAGAA
***
183691 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGAATC
183712 ATGTATCGATACATTGCAA-C
1 ATGTATCGATACATTG-AATC
* *
183732 ATGTATCGATACTTTGAATT
1 ATGTATCGATACATTGAATC
183752 ATGTATCGATAC
1 ATGTATCGATAC
183764 TTTTAAGGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.64
21 14 0.31
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTGAATC
Found at i:183764 original size:20 final size:20
Alignment explanation
Indices: 183711--183766 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
183701 ACATCTTTTT
*
183711 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
183731 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
183750 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
183767 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:184399 original size:32 final size:32
Alignment explanation
Indices: 184358--184455 Score: 196
Period size: 32 Copynumber: 3.1 Consensus size: 32
184348 GTTAATCAAG
184358 TAATTCATATCAAAAATTTATTTGCACATATC
1 TAATTCATATCAAAAATTTATTTGCACATATC
184390 TAATTCATATCAAAAATTTATTTGCACATATC
1 TAATTCATATCAAAAATTTATTTGCACATATC
184422 TAATTCATATCAAAAATTTATTTGCACATATC
1 TAATTCATATCAAAAATTTATTTGCACATATC
184454 TA
1 TA
184456 CTTTCTCTCC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (32 bp):
TAATTCATATCAAAAATTTATTTGCACATATC
Found at i:186248 original size:13 final size:13
Alignment explanation
Indices: 186230--186254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
186220 ATAATCACCC
186230 TGTATCGATACAA
1 TGTATCGATACAA
186243 TGTATCGATACA
1 TGTATCGATACA
186255 TTGAATTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:188333 original size:15 final size:15
Alignment explanation
Indices: 188313--188343 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
188303 ATTTCGTTTG
*
188313 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
188328 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
188343 G
1 G
188344 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:190176 original size:21 final size:21
Alignment explanation
Indices: 190147--190191 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
190137 AAGTTTTCAT
*
190147 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
190167 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
190189 TTT
1 TTT
190192 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:194959 original size:21 final size:21
Alignment explanation
Indices: 194935--194978 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
194925 TAATATTCTT
* *
194935 GAAAAGAAATTAAGTAAATTA
1 GAAAAGAAAATAAATAAATTA
*
194956 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATAAATTA
194977 GA
1 GA
194979 GGAGAAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (21 bp):
GAAAAGAAAATAAATAAATTA
Found at i:194984 original size:21 final size:21
Alignment explanation
Indices: 194951--194993 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
194941 AAATTAAGTA
*
194951 AATTAGAAAAGAAAATAAATG
1 AATTAGAAAAGAAAAGAAATG
**
194972 AATTAGAGGAGAAAAGAAATG
1 AATTAGAAAAGAAAAGAAATG
194993 A
1 A
194994 GTTGCAAGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (21 bp):
AATTAGAAAAGAAAAGAAATG
Found at i:198475 original size:13 final size:13
Alignment explanation
Indices: 198457--198481 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
198447 ATTTTGCTTA
198457 GTATCGATACATT
1 GTATCGATACATT
198470 GTATCGATACAT
1 GTATCGATACAT
198482 AAACTGGCAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:198531 original size:10 final size:10
Alignment explanation
Indices: 198509--198554 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
198499 ATCTCATTTT
*
198509 TCACTGTT-T
1 TCACTGTTCA
*
198518 TCACTGTTCC
1 TCACTGTTCA
*
198528 TCACTATTCA
1 TCACTGTTCA
198538 TCACTGTTCA
1 TCACTGTTCA
198548 T-ACTGTT
1 TCACTGTT
198555 TATGTATCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
9 14 0.44
10 18 0.56
ACGTcount: A:0.17, C:0.28, G:0.09, T:0.46
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:198615 original size:17 final size:17
Alignment explanation
Indices: 198590--198660 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
198580 TATCGATATA
*
198590 TCACCGTTCATCACTAT
1 TCACTGTTCATCACTAT
*
198607 TCACTGTTCATCACTGT
1 TCACTGTTCATCACTAT
198624 TCAC-G-TC-TCACTATT
1 TCACTGTTCATCACTA-T
*
198639 CATCACTATTCATCACTAT
1 --TCACTGTTCATCACTAT
198658 TCA
1 TCA
198661 TGTATCGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 5 0.11
15 3 0.07
16 1 0.02
17 26 0.59
19 3 0.07
20 6 0.14
ACGTcount: A:0.24, C:0.32, G:0.06, T:0.38
Consensus pattern (17 bp):
TCACTGTTCATCACTAT
Found at i:198644 original size:10 final size:10
Alignment explanation
Indices: 198631--198661 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
198621 TGTTCACGTC
198631 TCACTATTCA
1 TCACTATTCA
198641 TCACTATTCA
1 TCACTATTCA
198651 TCACTATTCA
1 TCACTATTCA
198661 T
1 T
198662 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:199354 original size:14 final size:14
Alignment explanation
Indices: 199337--199381 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
199327 ATGAACAATG
199337 ATAAATAGTGATAC
1 ATAAATAGTGATAC
*
199351 ATAAACAGTGATAC
1 ATAAATAGTGATAC
* *
199365 ATGAATAGTGATGC
1 ATAAATAGTGATAC
199379 ATA
1 ATA
199382 GTGATGAACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.18, T:0.27
Consensus pattern (14 bp):
ATAAATAGTGATAC
Found at i:206585 original size:166 final size:163
Alignment explanation
Indices: 206138--206850 Score: 461
Period size: 166 Copynumber: 4.4 Consensus size: 163
206128 TTCAAGCATC
* * * * * * *
206138 AAAATTCTTTAAATATCATCATTTAATT-ATTATCAAATCAGTTTTGAAAAATTCTTTTTATTTT
1 AAAATTCATCAAATATTATTATTTAATTCA-TATTAAATCCGTTTTGAAAAATTC-ATTTATTTT
* * * * * * * *
206202 CATGAG-TTATCGATTTTCTT-TTGAAATTTCCCTTATTTTCGAAACACAGAGTTTTCTTCTCCG
64 CATGAGTTTTTC-ATTTTTTTCTTGAAATTT-CTTTGTTTTCGAAAAACTGAGTTTTCTACTCCA
*
206265 TAATTTTTCAGGGGGATTTTCTTCGTTTTTAAATTTT
127 TAATTTTTCAGGGAGATTTTCTTCGTTTTTAAATTTT
* * * * * * * *
206302 AAAATTCATCAAATATTATTATCTAATTCATAATAAATCCATTTTCAAAAATTCACTCATTTCCT
1 AAAATTCATCAAATATTATTATTTAATTCATATTAAATCCGTTTTGAAAAATTCATTTATTTTCA
* * * ** *
206367 TGAGTTTTTGA-TTTTTTCGTTGAAATTTTTTTGTTTT-TAAAATGTAGAGTTTTCTACTCTATA
66 TGAGTTTTTCATTTTTTTC-TTGAAATTTCTTTGTTTTCGAAAAACT-GAGTTTTCTACTCCAT-
* *
206430 AATATTTTCAGGGAGATTTTTCTTGGTTTTTAATTTTT
128 AAT-TTTTCAGGGAGA-TTTTCTTCGTTTTTAAATTTT
* * *
206468 AAAATTTATTAAATATT-TCTATTTAATTCATATTAAATCCGTTTTGAAAAACTCATTTATTTTC
1 AAAATTCATCAAATATTAT-TATTTAATTCATATTAAATCCGTTTTGAAAAATTCATTTATTTTC
* *
206532 ATGAGTTTTTCATTTTTTTCTTGAAATTTCTTTGTTTTCGAAAAACTGAGTTTTTTATTCC-TAA
65 ATGAGTTTTTCATTTTTTTCTTGAAATTTCTTTGTTTTCGAAAAACTGAGTTTTCTACTCCATAA
* * * *
206596 GGTTTTC-GGG-GGTATTT-TTC-----TCAA-TTC
130 -TTTTTCAGGGAGAT-TTTCTTCGTTTTTAAATTTT
** ** * ***
206623 AAAATTTTTCAAAT-TCTCGCTATTTAATTTATATTAAATTATTTTTGAAAAATTCATTTATTTT
1 AAAATTCATCAAATAT-T-ATTATTTAATTCATATTAAATCCGTTTTGAAAAATTCATTTATTTT
* * * * *
206687 CATTAGTTTTTCA-TTTTTTCTTAAAATTT-TTCTATTTTTG-AAAACTCGAGTTTTCTATTCCA
64 CATGAGTTTTTCATTTTTTTCTTGAAATTTCTT-TGTTTTCGAAAAACT-GAGTTTTCTACTCCA
* * *
206749 TAAAGGTTTTT--GGGGGTATTTT-TCTCG-ATTTAAAATTT
127 T-AA--TTTTTCAGGGAG-ATTTTCT-TCGTTTTTAAATTTT
* * * * * *
206787 AGAATTCAT-ATAATATTTTTATTGAATT-ACCATTAAATCCGTTTTGAGAATTTCAATTTATTT
1 AAAATTCATCA-AATATTATTATTTAATTCA-TATTAAATCCGTTTTGAAAAATTC-ATTTATTT
206850 T
63 T
206851 TTTGAGCTTT
Statistics
Matches: 430, Mismatches: 86, Indels: 66
0.74 0.15 0.11
Matches are distributed among these distances:
154 9 0.02
155 49 0.11
156 54 0.13
157 5 0.01
158 10 0.02
159 3 0.01
161 3 0.01
162 13 0.03
163 63 0.15
164 85 0.20
165 15 0.03
166 109 0.25
167 12 0.03
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (163 bp):
AAAATTCATCAAATATTATTATTTAATTCATATTAAATCCGTTTTGAAAAATTCATTTATTTTCA
TGAGTTTTTCATTTTTTTCTTGAAATTTCTTTGTTTTCGAAAAACTGAGTTTTCTACTCCATAAT
TTTTCAGGGAGATTTTCTTCGTTTTTAAATTTT
Found at i:206657 original size:156 final size:157
Alignment explanation
Indices: 206486--206786 Score: 430
Period size: 156 Copynumber: 1.9 Consensus size: 157
206476 TTAAATATTT
*
206486 CTATTTAATTCATATTAAATCCGTTTTGAAAAACTCATTTATTTTCATGAGTTTTTCATTTTTTT
1 CTATTTAATTCATATTAAATCAGTTTTGAAAAACTCATTTATTTTCATGAGTTTTTCA-TTTTTT
* * *
206551 CTTGAAATTTCTT-TGTTTTCGAAAAACT-GAGTTTTTTATTCC-T-AAGGTTTTCGGGGGTATT
65 CTTAAAATTT-TTCTATTTTCG-AAAACTCGAGTTTTCTATTCCATAAAGGTTTTCGGGGGTATT
206612 TTTCTCAATTCAAAATTTTTCAAATTCTCG
128 TTTCTCAATTCAAAATTTTTCAAATTCTCG
* * * * *
206642 CTATTTAATTTATATTAAATTATTTTTGAAAAATTCATTTATTTTCATTAGTTTTTCATTTTTTC
1 CTATTTAATTCATATTAAATCAGTTTTGAAAAACTCATTTATTTTCATGAGTTTTTCATTTTTTC
* *
206707 TTAAAATTTTTCTATTTTTGAAAACTCGAGTTTTCTATTCCATAAAGGTTTTTGGGGGTATTTTT
66 TTAAAATTTTTCTATTTTCGAAAACTCGAGTTTTCTATTCCATAAAGGTTTTCGGGGGTATTTTT
* *
206772 CTCGATTTAAAATTT
131 CTCAATTCAAAATTT
206787 AGAATTCATA
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
154 8 0.06
155 34 0.27
156 53 0.41
157 33 0.26
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.52
Consensus pattern (157 bp):
CTATTTAATTCATATTAAATCAGTTTTGAAAAACTCATTTATTTTCATGAGTTTTTCATTTTTTC
TTAAAATTTTTCTATTTTCGAAAACTCGAGTTTTCTATTCCATAAAGGTTTTCGGGGGTATTTTT
CTCAATTCAAAATTTTTCAAATTCTCG
Found at i:207043 original size:24 final size:22
Alignment explanation
Indices: 207001--207049 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
206991 TCCTAATTTG
207001 TTTTGTAATTTTTGGAATTTTAT
1 TTTTGTAATTTTTGGAA-TTTAT
**
207024 TTTTGTATATTTTTTTAATTTAT
1 TTTTGTA-ATTTTTGGAATTTAT
207047 TTT
1 TTT
207050 GACTAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.71
Consensus pattern (22 bp):
TTTTGTAATTTTTGGAATTTAT
Found at i:207383 original size:10 final size:10
Alignment explanation
Indices: 207366--207402 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
207356 AAAAAGATAG
207366 GAAA-AAAAA
1 GAAAGAAAAA
207375 GAAAGAAAAA
1 GAAAGAAAAA
207385 GAAAG-AAAA
1 GAAAGAAAAA
*
207394 GAGAGAAAA
1 GAAAGAAAA
207403 TATAGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 12 0.48
10 13 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:207388 original size:19 final size:19
Alignment explanation
Indices: 207366--207402 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
207356 AAAAAGATAG
207366 GAAAAAAAAGAAAGAAAAA
1 GAAAAAAAAGAAAGAAAAA
* *
207385 GAAAGAAAAGAGAGAAAA
1 GAAAAAAAAGAAAGAAAA
207403 TATAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAGAAAGAAAAA
Found at i:209086 original size:154 final size:155
Alignment explanation
Indices: 208732--209071 Score: 357
Period size: 155 Copynumber: 2.2 Consensus size: 155
208722 TTTCTTTAAT
* * * * * * ** ** * *
208732 TTTTTGAGTCCTTTAGGGGTATCAGGTACTTTTACATCGAAAGTATCC-CCTAAAAGTTTTTTTG
1 TTTTTAAGTCCTTTAAGGGTACCGGGTACTTCTACATCGAAGGTATCCTCC-AAGGGCATCTTCG
* *** *
208796 TAATTTTTCAAAACCAAATCCTAAGTTGTCACCCAGTTTGCTTTTATGCTGAAGGTGGATATTTA
65 TAATTTTCCAAAACCAAATCCTAAGTTGTCACCCAGTCCACTTTTATGCTCAAGGTGGATATTTA
* *
208861 GGATAGGTTCATCCTTTTTAAAATCC
130 GGATAGGTTCATCCTATCTAAAATCC
* *
208887 TTTTTAAGTTCTTTAAGGGTATCGGGTACTTCTACATCGAAGGTATCCTCCAAGGGCATCTTCGT
1 TTTTTAAGTCCTTTAAGGGTACCGGGTACTTCTACATCGAAGGTATCCTCCAAGGGCATCTTCGT
* * ** * *
208952 AATTTTCCAAAACCAACTCCTAGGTTGTCACCGGGTCCATTTTTATG-TCAAGGTGGGTATTTAG
66 AATTTTCCAAAACCAAATCCTAAGTTGTCACCCAGTCCACTTTTATGCTCAAGGTGGATATTTAG
*
209016 GATAGGTTCAT-CTCATCTATAAT-C
131 GATAGGTTCATCCT-ATCTAAAATCC
209040 TTTTTAAGTCCTTT-AGGGTTACCGGGATACTT
1 TTTTTAAGTCCTTTAAGGG-TACCGGG-TACTT
209072 TCATGTTGAA
Statistics
Matches: 153, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
152 4 0.03
153 22 0.14
154 37 0.24
155 88 0.58
156 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.39
Consensus pattern (155 bp):
TTTTTAAGTCCTTTAAGGGTACCGGGTACTTCTACATCGAAGGTATCCTCCAAGGGCATCTTCGT
AATTTTCCAAAACCAAATCCTAAGTTGTCACCCAGTCCACTTTTATGCTCAAGGTGGATATTTAG
GATAGGTTCATCCTATCTAAAATCC
Found at i:209552 original size:32 final size:33
Alignment explanation
Indices: 209492--209554 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
209482 GACCCAGAAG
*
209492 TATCGATACATATTGCTTTGTATCGATACACTA
1 TATCGATACATATTGCTTGGTATCGATACACTA
209525 TATCGATACATGA-T-CTTGGTATCGATACAC
1 TATCGATACAT-ATTGCTTGGTATCGATACAC
209555 AATGAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTGCTTGGTATCGATACACTA
Found at i:211703 original size:15 final size:15
Alignment explanation
Indices: 211669--211710 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
211659 GAACAAATCA
211669 AAAATTGTTGAAAATG
1 AAAATTGTTG-AAATG
*
211685 -AAATTCTTGAAATG
1 AAAATTGTTGAAATG
211699 AAAATTGTTGAA
1 AAAATTGTTGAA
211711 CTAGAAAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (15 bp):
AAAATTGTTGAAATG
Found at i:217786 original size:21 final size:22
Alignment explanation
Indices: 217743--217787 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
217733 ACAAGGGAAG
217743 AAATTTTATTAAGGGGAGAGAA
1 AAATTTTATTAAGGGGAGAGAA
217765 AAATTTTATTAAGGGG-GAGAA
1 AAATTTTATTAAGGGGAGAGAA
217786 AA
1 AA
217788 TTTGTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (22 bp):
AAATTTTATTAAGGGGAGAGAA
Found at i:218415 original size:21 final size:21
Alignment explanation
Indices: 218386--218427 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
218376 AAAGGTCAAA
218386 ACCCTAGAAAGTATCGATACAT
1 ACCCTAG-AAGTATCGATACAT
218408 ACCC-AGAAGTATCGATACAT
1 ACCCTAGAAGTATCGATACAT
218428 GATCTTGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 14 0.70
21 2 0.10
22 4 0.20
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.21
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAT
Found at i:220511 original size:20 final size:20
Alignment explanation
Indices: 220488--220529 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
220478 CATTTCAAAC
* *
220488 ATGTATCTATGCATTCACTT
1 ATGTATCGATACATTCACTT
*
220508 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTCACTT
220528 AT
1 AT
220530 CATATCAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:222179 original size:29 final size:29
Alignment explanation
Indices: 222133--222188 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
222123 GCTTTTCTGG
222133 CTTTAGAATGATTCGACAAGGGATTCACC
1 CTTTAGAATGATTCGACAAGGGATTCACC
*
222162 CTTTAGAATGATTTGACAAGGGATTCA
1 CTTTAGAATGATTCGACAAGGGATTCA
222189 TAGCTACGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (29 bp):
CTTTAGAATGATTCGACAAGGGATTCACC
Found at i:226258 original size:13 final size:13
Alignment explanation
Indices: 226240--226265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
226230 CAATTTTTTG
226240 TGTATCGATACAT
1 TGTATCGATACAT
226253 TGTATCGATACAT
1 TGTATCGATACAT
226266 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:226277 original size:32 final size:33
Alignment explanation
Indices: 226220--226283 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
226210 TACAAGCCAA
**
226220 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
226253 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
226284 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:228865 original size:14 final size:14
Alignment explanation
Indices: 228835--228874 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
228825 ATAATCCCCC
228835 TGTATCGATAC-AG
1 TGTATCGATACAAG
228848 TGTATCGATACAAG
1 TGTATCGATACAAG
228862 TGTATCGATACAA
1 TGTATCGATACAA
228875 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (14 bp):
TGTATCGATACAAG
Found at i:230923 original size:15 final size:15
Alignment explanation
Indices: 230903--230933 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
230893 ATTTCGTTTG
*
230903 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
230918 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
230933 G
1 G
230934 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:235128 original size:20 final size:21
Alignment explanation
Indices: 235074--235130 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
235064 TACATCTTTT
*
235074 TTATGTATCGATACATTGCAA
1 TTATGTATCGATACTTTGCAA
*
235095 -CATGTATCGATACTTTG-AA
1 TTATGTATCGATACTTTGCAA
235114 TTATGTATCGATACTTT
1 TTATGTATCGATACTTT
235131 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (21 bp):
TTATGTATCGATACTTTGCAA
Found at i:238704 original size:15 final size:14
Alignment explanation
Indices: 238652--238702 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
238642 TTTGCTAGCT
238652 TTTTCTTTTCTCTC
1 TTTTCTTTTCTCTC
* *
238666 ATTTTCTTTTTTTTC
1 -TTTTCTTTTCTCTC
238681 TTTT-TTTCTCTCTC
1 TTTTCTTT-TCTCTC
238695 TTTTCTTT
1 TTTTCTTT
238703 CTATGGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 12 0.40
15 15 0.50
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTCTCTC
Found at i:240243 original size:96 final size:99
Alignment explanation
Indices: 240088--240276 Score: 330
Period size: 96 Copynumber: 1.9 Consensus size: 99
240078 TTTTGGCAAT
* *
240088 AAACTATACAAGTATCGGTAAAGAATATATGACAGCCAGTTTTTTGAGTTTTTTAGAAAAACCCC
1 AAACTATACAAGTATCAGTAAAGAATATATAACAGCCA-TTTTTTGAGTTTTTTAGAAAAACCCC
240153 AAAAAATTTTTAAAAATAAAAAATTCGATGGCATA
65 AAAAAATTTTTAAAAATAAAAAATTCGATGGCATA
240188 AAACTATACAAGTATCAGT-AAGAATATA-AACAGCC-TTTTTTGAGTTTTTTAGAAAAACCCCA
1 AAACTATACAAGTATCAGTAAAGAATATATAACAGCCATTTTTTGAGTTTTTTAGAAAAACCCCA
240250 AAAAATTTTTAAAAATAAAAAATTCGA
66 AAAAATTTTTAAAAATAAAAAATTCGA
240277 CCTTGATACC
Statistics
Matches: 87, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
96 54 0.62
98 6 0.07
99 9 0.10
100 18 0.21
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (99 bp):
AAACTATACAAGTATCAGTAAAGAATATATAACAGCCATTTTTTGAGTTTTTTAGAAAAACCCCA
AAAAATTTTTAAAAATAAAAAATTCGATGGCATA
Found at i:241621 original size:20 final size:20
Alignment explanation
Indices: 241593--241661 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
241583 TGGTATTTGC
*
241593 AAAAAAAATTCAAAACTCAT
1 AAAATAAATTCAAAACTCAT
* * **
241613 AAAATAAATTGATATTTACA-
1 AAAATAAATTCAAAACT-CAT
241633 AAAA-AAATTCAAAACTCAT
1 AAAATAAATTCAAAACTCAT
241652 AAAATAAATT
1 AAAATAAATT
241662 GAATTCTCTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.05
19 12 0.32
20 21 0.57
21 2 0.05
ACGTcount: A:0.62, C:0.10, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAATAAATTCAAAACTCAT
Found at i:241629 original size:39 final size:39
Alignment explanation
Indices: 241579--241663 Score: 152
Period size: 39 Copynumber: 2.2 Consensus size: 39
241569 TTTTGGAGGA
* *
241579 AAATTGGTATTTGCAAAAAAAATTCAAAACTCATAAAAT
1 AAATTGATATTTACAAAAAAAATTCAAAACTCATAAAAT
241618 AAATTGATATTTACAAAAAAAATTCAAAACTCATAAAAT
1 AAATTGATATTTACAAAAAAAATTCAAAACTCATAAAAT
241657 AAATTGA
1 AAATTGA
241664 ATTCTCTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.28
Consensus pattern (39 bp):
AAATTGATATTTACAAAAAAAATTCAAAACTCATAAAAT
Found at i:241673 original size:19 final size:19
Alignment explanation
Indices: 241612--241675 Score: 51
Period size: 19 Copynumber: 3.3 Consensus size: 19
241602 TCAAAACTCA
241612 TAAAATAAATTGATATT-TAC
1 TAAAATAAATTGA-ATTCT-C
* * **
241632 -AAAAAAAATTCAAAACTC
1 TAAAATAAATTGAATTCTC
241650 ATAAAATAAATTGAATTCTC
1 -TAAAATAAATTGAATTCTC
241670 TAAAAT
1 TAAAAT
241676 TGATTTAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 7
0.69 0.17 0.15
Matches are distributed among these distances:
18 2 0.06
19 17 0.52
20 14 0.42
ACGTcount: A:0.56, C:0.09, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAATAAATTGAATTCTC
Found at i:241791 original size:153 final size:154
Alignment explanation
Indices: 241634--241972 Score: 366
Period size: 153 Copynumber: 2.2 Consensus size: 154
241624 ATATTTACAA
* * *
241634 AAAAAATTC-AAAACTCATAAAATAAATTGAATTCTCT-AAAATTGATTTAATATGAATTTAATA
1 AAAAAATTCTAAAACTCATAAAATAAATTGAATTATCTGAAAATTGATTTAATATGAATTGAACA
* * **
241697 AAAATATTTCATGAATTTTAAAAATT-TGAACTAAAGAAAAATCCAACCAAAAAAATTTACAAAA
66 AAAATATTTCAAGAATTATAAAAATTACAAACT-AAGAAAAATCCAACCAAAAAAATTTACAAAA
* *
241761 TAGAAAATC-CCATATTTTGGAAATAG
130 T-GAAAAACTCCATATCTTGGAAAT-G
* ** * *
241787 AAAAAATTCTAAAACTTATAAAA-AAA-TGAAAAATTTGAAAATTGATTTATTATGAATTGAACA
1 AAAAAATTCTAAAACTCATAAAATAAATTGAATTATCTGAAAATTGATTTAATATGAATTGAACA
* * * * * * * *** *
241850 ATAATATTTGAAGAATTATGAAAATTACAAACTTAGAAAAATCCTACCGAAGAAATTTATGGAGT
66 AAAATATTTCAAGAATTATAAAAATTACAAACTAAGAAAAATCCAACCAAAAAAATTTACAAAAT
*
241915 GAAAAACTCCATATCTTGGTAATG
131 GAAAAACTCCATATCTTGGAAATG
*
241939 AAAAAATTCTAAAGCTCATAAAATAAATTGAATT
1 AAAAAATTCTAAAACTCATAAAATAAATTGAATT
241973 TTTTAAAACT
Statistics
Matches: 150, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
152 34 0.23
153 96 0.64
154 20 0.13
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (154 bp):
AAAAAATTCTAAAACTCATAAAATAAATTGAATTATCTGAAAATTGATTTAATATGAATTGAACA
AAAATATTTCAAGAATTATAAAAATTACAAACTAAGAAAAATCCAACCAAAAAAATTTACAAAAT
GAAAAACTCCATATCTTGGAAATG
Found at i:258489 original size:52 final size:49
Alignment explanation
Indices: 258320--258962 Score: 321
Period size: 52 Copynumber: 13.0 Consensus size: 49
258310 ATGAGAAGAG
* * *
258320 TGATAAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTAAAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTT--AAA
** * * * * * *
258372 TG-CGAAGAATGTCAATATGCTGATTCACGACCAGCGACATTAGACTTGAA
1 TGATAAAG-GTGCCAATATGCTGATTCAAG-GCAGCGACATTGGACTTAAA
* * *
258422 -GATAAGAAGAATGCCAATGTGTTGATTCAAGGACAGCGACATTAGG-CTTAGGAA
1 TGAT-A-AAG-GTGCCAATATGCTGATTCAAGG-CAGCGACATT-GGACTTA--AA
* ** * *
258476 TGTTAAAGGTGCCAATATAATGATTCAAGGCTAGCGATATCGGACTTAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGGC-AGCGACATTGGACTTAAA
* * * *
258526 -GATGAAGGTGCCAATGTGCTGATTTAAGGCCAGTGACATTGGACTTAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* *
258575 -GATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGAC-T---
1 TGAT---AAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* * * * *
258623 T--TAAAGGTGCCAATCTGCTAATTGAAGGCCAGAGAAATTGGACTTAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* * * * *
258671 GGTGACAAGGGTGCCAATATGCTGATTCAAGGCCAGCAATATTCGACTT-AA
1 --TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* * ** * *
258722 -GATGAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGTCTTCAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* * *
258771 -GATGAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTAGG-C-----
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATT-GGACTTAAA
* * * *
258815 T--T----GTGCCAATGTGCTAATTTAAGGCCAGCGACATTGGTCTTAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
* * *
258859 AGATGACAAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGA
1 TGAT-A-AA-GGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAA-A
* * * *
258913 TGATAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACCTAAA
1 TGATAAAGGTGCCAATATGCTGATTCAAGG-CAGCGACATTGGACTTAAA
258963 AGGAGATGCC
Statistics
Matches: 463, Mismatches: 84, Indels: 90
0.73 0.13 0.14
Matches are distributed among these distances:
38 2 0.00
39 29 0.06
43 1 0.00
44 36 0.08
45 1 0.00
46 1 0.00
47 1 0.00
48 36 0.08
49 82 0.18
50 9 0.02
51 47 0.10
52 169 0.37
53 40 0.09
54 7 0.02
55 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (49 bp):
TGATAAAGGTGCCAATATGCTGATTCAAGGCAGCGACATTGGACTTAAA
Found at i:258651 original size:44 final size:43
Alignment explanation
Indices: 258581--258674 Score: 134
Period size: 44 Copynumber: 2.2 Consensus size: 43
258571 TAAAGATGGA
* * *
258581 AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGAGAAATTGGAC-TT
* *
258625 AAAGGTGCCAATCTGCTAATTGAAGGCCAGAGAAATTGGACTT
1 AAAGGTGCCAATATGCTAATTCAAGGCCAGAGAAATTGGACTT
258668 AAAGGTG
1 AAAGGTG
258675 ACAAGGGTGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
43 9 0.20
44 36 0.80
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTAATTCAAGGCCAGAGAAATTGGACTT
Found at i:258684 original size:96 final size:94
Alignment explanation
Indices: 258483--258908 Score: 436
Period size: 96 Copynumber: 4.4 Consensus size: 94
258473 GAATGTTAAA
** * * *
258483 GGTGCCAATATAATGATTCAAGGCTAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----T-AAGGTGCCAATGTGCTAA
* *
258548 TTTAAGGCCAGTGACATTGGACTTAAAGATGGAAAA
60 TTTAAGGCCAGAGACATTGGACTTAAAGAT-GAAAG
* * *
258584 GGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTTAAAGGTGCCAATCTGCTAATTGAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTT-AAGGTGCCAATGTGCTAATTTAA
* *
258649 GGCCAGAGAAATTGGACTTAAAGGTGACAAG
65 GGCCAGAGACATTGGACTTAAAGATGA-AAG
* * *
258680 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTCGACTTAAGATGAAGGTGCCAATGTGCTGAT
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----T-AAGGTGCCAATGTGCTAAT
* * *
258745 TCAAGGCCA-ATGACATTGGTCTTCAAGATG-AA-
61 TTAAGGCCAGA-GACATTGGACTTAAAGATGAAAG
*
258777 GGTGCCAATATGCTGATTCAAGGCCAGTGATATTAGG-C-TT---GTGCCAATGTGCTAATTTAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTTAAGGTGCCAATGTGCTAATTTAA
* *
258837 GGCCAGCGACATTGGTCTTAAAAGATGACAAG
65 GGCCAGAGACATTGGACTT-AAAGATGA-AAG
*
258869 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
258909 AAGATGATAA
Statistics
Matches: 278, Mismatches: 33, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
88 35 0.13
89 6 0.02
91 3 0.01
92 35 0.13
93 1 0.00
95 2 0.01
96 83 0.30
97 33 0.12
98 3 0.01
99 1 0.00
100 41 0.15
101 35 0.13
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (94 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTTAAGGTGCCAATGTGCTAATTTAAG
GCCAGAGACATTGGACTTAAAGATGAAAG
Found at i:258901 original size:92 final size:88
Alignment explanation
Indices: 258729--258904 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 88
258719 TAAGATGAAG
* * *
258729 GTGCCAATGTGCTGATTCAAGGCCAATGACATTGGTCTTCAAGATGAAGGTGCCAATATGCTGAT
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
*
258794 TCAAGGCCAGTGATATTAGGCTT
66 TCAAGGCCAGCGATATTAGGCTT
* *
258817 GTGCCAATGTGCTAATTTAAGGCCAGCGACATTGGTCTTAAAAGATGACAAGGGTGCCAATATGC
1 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTT-AAAGATG--AA-GGTGCCAATATGC
258882 TGATTCAAGGCCAGCGATATTAG
62 TGATTCAAGGCCAGCGATATTAG
258905 ACTTAAGATG
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
88 35 0.45
89 6 0.08
91 2 0.03
92 35 0.45
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
GTGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCCAGCGATATTAGGCTT
Found at i:258934 original size:51 final size:52
Alignment explanation
Indices: 258818--258962 Score: 184
Period size: 51 Copynumber: 2.8 Consensus size: 52
258808 ATTAGGCTTG
* * * * * *
258818 TGCCAATGTGCTAATTTAAGGCCAGCGACATTGGTCTTAAAAGATGACAAGGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTT-AAAGATGACAAAGA
* * *
258871 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTT-AAGATGATAAAGA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGA
*
258922 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACCTAAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAA
258963 AGGAGATGCC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
51 45 0.57
52 2 0.03
53 32 0.41
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGA
Found at i:259068 original size:27 final size:27
Alignment explanation
Indices: 259031--259336 Score: 118
Period size: 27 Copynumber: 10.3 Consensus size: 27
259021 TTTGAAAAGA
259031 AAAAGG-TGCCACAGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
* *
259057 AAAAGGATGCCACAGAATTGTGGGCTTGT
1 AAAAGGATGCCACAGAGTTGTGGAC-T-T
** * *
259086 GGAAAGAAAAAAGTGCCACGGATTTGTGGACTT
1 ----A-AAAGGA-TGCCACAGAGTTGTGGACTT
259119 AAAAAGG-TGCCACAGAGTTGTGGACTT
1 -AAAAGGATGCCACAGAGTTGTGGACTT
* *
259146 AAAAGGAAAAAGATGCCACAAAGTTATGGACTT
1 AAAA-G-----GATGCCACAGAGTTGTGGACTT
*
259179 CAAGGGAAAAGG-TGCCACGGAGTTGTGGACTT
1 ------AAAAGGATGCCACAGAGTTGTGGACTT
* **
259211 AAAAGGATGCTATGGAGTTGTGGACTT
1 AAAAGGATGCCACAGAGTTGTGGACTT
* *
259238 AAAAGGAAAAAGGTGCGA-TGAAGTTGTGGACTT
1 AAAAGG----A--TGCCACAG-AGTTGTGGACTT
* *
259271 AAAACGG-TGCCATAAAGTTGTGGACTT
1 AAAA-GGATGCCACAGAGTTGTGGACTT
*
259298 AAAAGGAAAAATGGCCACAGAGTTATGGACTT
1 AAAAGG----AT-GCCACAGAGTTGTGGACTT
259330 AAAAGGA
1 AAAAGGA
259337 AAAAGGGTGC
Statistics
Matches: 216, Mismatches: 26, Indels: 74
0.68 0.08 0.23
Matches are distributed among these distances:
26 18 0.08
27 79 0.37
28 2 0.01
29 4 0.02
30 2 0.01
31 2 0.01
32 41 0.19
33 41 0.19
34 7 0.03
35 15 0.07
38 1 0.00
39 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.22
Consensus pattern (27 bp):
AAAAGGATGCCACAGAGTTGTGGACTT
Found at i:259096 original size:62 final size:61
Alignment explanation
Indices: 259014--259178 Score: 201
Period size: 62 Copynumber: 2.7 Consensus size: 61
259004 CACTGACTTA
*
259014 TGTGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT-AAAAGGATGCCACAGAAT
1 TGTGGGCTTTGAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAAAGG-TGCCACAGAAT
* * * *
259075 TGTGGGCTTGTGGAAAGAAAAAAGTGCCACGGATTTGTGGACTTAAAAAGGTGCCACAGAGT
1 TGTGGGCTT-TGAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAAT
* * * *
259137 TGTGGAC-TT-AAAAGGAAAAAGATGCCACAAAGTTATGGACTT
1 TGTGGGCTTTGAAAAGAAAAAAG-TGCCACAGAGTTGTGGACTT
259179 CAAGGGAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
59 10 0.11
60 17 0.19
61 10 0.11
62 46 0.52
63 6 0.07
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (61 bp):
TGTGGGCTTTGAAAAGAAAAAAGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCACAGAAT
Found at i:259195 original size:32 final size:33
Alignment explanation
Indices: 259119--259355 Score: 198
Period size: 32 Copynumber: 7.6 Consensus size: 33
259109 TTGTGGACTT
259119 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * * *
259152 AAAAAGATGCCACAAAGTTATGGACTT-CAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* *
259184 GAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* **
259217 ----A--TGCTATGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* *
259244 AAAAAGGTGCGA-TGAAGTTGTGGACTT------
1 AAAAAGGTGCCACAG-AGTTGTGGACTTAAAAGG
* * *
259271 AAAACGGTGCCATAAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* *
259304 AAAAATG-GCCACAGAGTTATGGACTTAAAAGG
1 AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
*
259336 AAAAAGGGTGCCACGGAGTT
1 AAAAA-GGTGCCACAGAGTT
259356 CTGAATACTC
Statistics
Matches: 162, Mismatches: 25, Indels: 33
0.74 0.11 0.15
Matches are distributed among these distances:
27 46 0.28
29 1 0.01
31 1 0.01
32 54 0.33
33 50 0.31
34 10 0.06
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.21
Consensus pattern (33 bp):
AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:259269 original size:60 final size:60
Alignment explanation
Indices: 259159--259333 Score: 196
Period size: 60 Copynumber: 3.0 Consensus size: 60
259149 AGGAAAAAGA
* * * * *
259159 TGCCACAAAGTTATGGACTT-CAAGGGAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
1 TGCCATAAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAACGG
* ** * *
259217 ATGCTATGGAGTTGTGGACTTAAAAGGAAAAAGGTGCGATGAAGTTGTGGACTTAAAACGG
1 -TGCCATAAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAACGG
* *
259278 TGCCATAAAGTTGTGGACTTAAAAGGAAAAATG-GCCAC-AGAGTTATGGACTTAAAA
1 TGCCATAAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAA
259334 GGAAAAAGGG
Statistics
Matches: 96, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
58 1 0.01
59 33 0.34
60 60 0.62
61 2 0.02
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (60 bp):
TGCCATAAAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGAAGTTGTGGACTTAAAACGG
Found at i:259321 original size:92 final size:89
Alignment explanation
Indices: 259109--259349 Score: 254
Period size: 92 Copynumber: 2.6 Consensus size: 89
259099 TGCCACGGAT
*
259109 TTGTGGACTTAAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAAAGTTAT
1 TTGTGGACTT-AAAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAAAGTTAT
**
259173 GGACTTCAAGGGAAAAGGTGCCACGGAG
65 GGACTT-AA--GAAAAGGTGCCACAAAG
* ** * ** *
259201 TTGTGGACTTAAAAGGATGCTATGGAGTTGTGGACTTAAAAGGAAAAAGGTGCGATGAAGTTGTG
1 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAAAGTTATG
* *
259266 GACTT-A-AAACGGTGCCATAAAG
66 GACTTAAGAAAAGGTGCCACAAAG
*
259288 TTGTGGACTTAAAAGGAAAAATGGCCACAGAGTTATGGACTTAAAAGGAAAAAGGGTGCCAC
1 TTGTGGACTTAAAAGG----AT-GCCACAGAGTTGTGGACTTAAAAGGAAAAA-GGTGCCAC
259350 GGAGTTCTGA
Statistics
Matches: 124, Mismatches: 18, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
87 28 0.23
90 1 0.01
91 8 0.06
92 81 0.65
93 6 0.05
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (89 bp):
TTGTGGACTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAAAGTTATG
GACTTAAGAAAAGGTGCCACAAAG
Found at i:259712 original size:7 final size:8
Alignment explanation
Indices: 259690--259715 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
259680 AGGCCTAAAA
259690 TGATTTTT
1 TGATTTTT
259698 TGATTTTT
1 TGATTTTT
259706 TGATTTTT
1 TGATTTTT
259714 TG
1 TG
259716 CAATTTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (8 bp):
TGATTTTT
Found at i:262550 original size:79 final size:79
Alignment explanation
Indices: 262277--262599 Score: 337
Period size: 79 Copynumber: 4.1 Consensus size: 79
262267 AATGGGGTCG
* * * *
262277 GAGTATCTCCTCAGAAATAACGAGGTTGGAGTAT-CCCGATTGTGAAAAATCGGTGTTTTGGAAA
1 GAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAA
**
262341 TAAAACCAAGGTT-
66 TAAAACCGGGGTTA
* * * * * ** *
262354 GAAGTATCTCCTTAGAAATTACAAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAA
1 G-AGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAA
*
262419 ATAAAACCGGAGTTA
65 ATAAAACCGGGGTTA
* * *
262434 GAGTATCCCC-TCGAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAA
1 GAGTATCCCCTTAG-AAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAA
262498 ATAAAACCGGGGTTA
65 ATAAAACCGGGGTTA
* * * * * ** * *
262513 GAGTGTCCCCTTAGAAATAATGGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAAAAA
1 GAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAA
* * *
262578 TAAAACTGGGATTG
66 TAAAACCGGGGTTA
262592 GAGTATCC
1 GAGTATCC
262600 TCGATGGTGG
Statistics
Matches: 208, Mismatches: 33, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
77 1 0.00
78 32 0.15
79 172 0.83
80 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
GAGTATCCCCTTAGAAATAACGAGGTTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTTAGAAA
TAAAACCGGGGTTA
Found at i:262685 original size:79 final size:79
Alignment explanation
Indices: 262589--262870 Score: 316
Period size: 79 Copynumber: 3.6 Consensus size: 79
262579 AAAACTGGGA
* * * * *
262589 TTGGAGTATCCTCGATGGTGGAAAATCAACGTTTTAGAAATAAAA-CTGGGGTTAGAGTATCCCC
1 TTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCCC
*
262653 TTGAAAATAACGAGG
65 TTAAAAATAACGAGG
* * * *
262668 ATGGAGTATCCCCGATGGTAGAAAATTGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
* *
262733 CAAAAGTAAC-AGGG
66 TAAAAATAACGA-GG
* * ** ***
262747 TTGGAGTATCCCCGATGGTGGAAAATCGATGTTTTGGAAATAAAATCAAGGTTGGAGTATTTTCT
1 TTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
* * *
262812 CAAAAATAAAGGGG
66 TAAAAATAACGAGG
* *
262826 TTGGAGTATCCCCGATGGTAGAAAATCGGTATTTTAGAAATAAAA
1 TTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAA
262871 CTGAAATTTT
Statistics
Matches: 172, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
78 1 0.01
79 170 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCGATGGTAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
TAAAAATAACGAGG
Found at i:262693 original size:130 final size:130
Alignment explanation
Indices: 262459--262731 Score: 334
Period size: 130 Copynumber: 2.1 Consensus size: 130
262449 AATAATGAGG
**** *
262459 TTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTAGAGTGTCCCCT
1 TTGGAGTATCCCCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
* * *
262524 TAGAAATAATGGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAAAAATAAAA-CTGGG
66 TAGAAATAACGAGGATAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAAAAATAAAATC-GGG
262588 A
130 A
* * *
262589 TTGGAGTATCCTCGATGGTGGAAAATCAACGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCCT
1 TTGGAGTATCCCCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
* * * * * ***
262654 T-GAAAATAACGAGGATGGAGTATCCCCGATGGTAGAAAATTGGTGTTTTGGAAATAAAATCGGG
66 TAG-AAATAACGAGGATAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAAAAATAAAATCGGG
*
262718 G
130 A
262719 TTGGAGTATCCCC
1 TTGGAGTATCCCC
262732 TCAAAAGTAA
Statistics
Matches: 120, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
129 1 0.01
130 118 0.98
131 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (130 bp):
TTGGAGTATCCCCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCT
TAGAAATAACGAGGATAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAAAAATAAAATCGGGA
Found at i:262756 original size:209 final size:209
Alignment explanation
Indices: 262380--262764 Score: 558
Period size: 209 Copynumber: 1.8 Consensus size: 209
262370 AATTACAAGG
* * ** *
262380 TTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGTTAGAGTATCCCCT
1 TTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCT
* *
262445 CGAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGG
66 CGAAAATAACGAGGATGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGG
* * **
262510 TTAGAGTGTCCCCTTAGAAATAATGGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAA
131 TTAGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAA
262575 AAATAAAACTGGGA
196 AAATAAAACTGGGA
* * *
262589 TTGGAGTATCCTCGATGGTGGAAAATCAACGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCCT
1 TTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCT
* * *
262654 TGAAAATAACGAGGATGGAGTATCCCCGATGGT-AGAAAATTGGTGTTTTGGAAATAAAATCGGG
66 CGAAAATAACGAGGATGGAGTATCCCCGATGGTGA-AAAATTGGTGTTTTAGAAATAAAACCGGG
* * *
262718 GTTGGAGTATCCCCTCA-AAAGTAACAGGGTTGGAGTATCCCCGATGG
130 GTTAGAGTATCCCCTCAGAAA-TAACAGGGTTAGAGTATCCCCAATGG
262765 TGGAAAATCG
Statistics
Matches: 154, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
208 4 0.03
209 150 0.97
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (209 bp):
TTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGTATCCCCT
CGAAAATAACGAGGATGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAACCGGGG
TTAGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTGTTTCAA
AAATAAAACTGGGA
Found at i:262804 original size:209 final size:208
Alignment explanation
Indices: 262374--262806 Score: 555
Period size: 209 Copynumber: 2.1 Consensus size: 208
262364 CTTAGAAATT
* * ** *
262374 ACAAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGTTAGAGTA
1 ACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGTA
* *
262439 TCCCCTCGAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAA
66 TCCCCTCGAAAATAACGAGGATGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAA
* * ** *
262504 CCGGGGTTAGAGTGTCCCCTTAGAAATAATGGGGTTAGAGTATCCCCAATGGCAAAAAATCGGTG
131 CCGGGGTTAGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATGGCAAAAAATCGATG
262569 TTTCAAAAATAAA
196 TTTCAAAAATAAA
** * * *
262582 ACTGGGATTGGAGTATCCTCGATGGTGGAAAATCAACGTTTTAGAAATAAAACTGGGGTTAGAGT
1 ACAAGG-TTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGT
* *
262647 ATCCCCTTGAAAATAACGAGGATGGAGTATCCCCGATGGT-AGAAAATTGGTGTTTTGGAAATAA
65 ATCCCCTCGAAAATAACGAGGATGGAGTATCCCCGATGGTGA-AAAATTGGTGTTTTAGAAATAA
* * * * ***
262711 AATCGGGGTTGGAGTATCCCCTCA-AAAGTAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCG
129 AACCGGGGTTAGAGTATCCCCTCAGAAA-TAACAGGGTTAGAGTATCCCCAATGGCAAAAAATCG
***
262775 ATGTTTTGGAAATAAA
193 ATGTTTCAAAAATAAA
262791 ATCAAGGTTGGAGTAT
1 A-CAAGGTTGGAGTAT
262807 TTTCTCAAAA
Statistics
Matches: 190, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
208 8 0.04
209 179 0.94
210 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (208 bp):
ACAAGGTTGGAGTATCCTCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCGGAGTTAGAGTA
TCCCCTCGAAAATAACGAGGATGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGAAATAAAA
CCGGGGTTAGAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATGGCAAAAAATCGATG
TTTCAAAAATAAA
Found at i:262853 original size:288 final size:287
Alignment explanation
Indices: 262302--262873 Score: 677
Period size: 288 Copynumber: 2.0 Consensus size: 287
262292 AATAACGAGG
* *** * *
262302 TTGGAGTATCCCGATTGTGAAAAATCGGTGTTTTGGAAATAAAACCAAGGTTGAAGTATCTCCTT
1 TTGGAGTATCCCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCAAGGTTGAAGTATCCCCTT
* * * *
262367 AGAAATTACAAGGTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGT
66 AGAAATAACAAGGATGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGT
* * *
262432 TAGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCCCGATGGTGAAAAATTGGTGTTTTAGA
131 TAGAGTATCCCCTCGAAAATAAAGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGA
** * * * *
262497 AATAAAACCGGGGTTAGAGTGTCCCCTTAGAAATAATGGGGTTAGAGTATCCCCAATGGCAAAAA
196 AATAAAACCAAGGTTAGAGTATCCCCTCAAAAATAAAGGGGTTAGAGTATCCCCAATGGCAAAAA
*
262562 ATCGGTGTTTCAAAAATAAAACTGGGA
261 ATCGGTATTTCAAAAATAAAACTGGGA
* ***
262589 TTGGAGTATCCTCGATGGTGGAAAATCAACGTTTTAGAAATAAAACTGGGGTT-AGAGTATCCCC
1 TTGGAGTATCC-CGATGGTGAAAAATCAACGTTTTAGAAATAAAACCAAGGTTGA-AGTATCCCC
* * *
262653 TT-GAAAATAACGAGGATGGAGTATCCCCGATGGT-AGAAAATTGGTGTTTTGGAAATAAAATCG
64 TTAG-AAATAACAAGGATGGAGTATCCCCGATGGTGA-AAAATTAGTGTTTTGGAAATAAAACCG
* * *
262716 GGGTTGGAGTATCCCCTC-AAAAGTAACAG-GGTTGGAGTATCCCCGATGGTGGAAAATCGATGT
127 GAGTTAGAGTATCCCCTCGAAAA-TAA-AGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGT
* * * *** * *
262779 TTTGGAAATAAAATCAAGGTTGGAGTATTTTCTCAAAAATAAAGGGGTTGGAGTATCCCCGATGG
190 TTTAGAAATAAAACCAAGGTTAGAGTATCCCCTCAAAAATAAAGGGGTTAGAGTATCCCCAATGG
* * * *
262844 TAGAAAATCGGTATTTTAGAAATAAAACTG
255 CAAAAAATCGGTATTTCAAAAATAAAACTG
262874 AAATTTTTTA
Statistics
Matches: 237, Mismatches: 42, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
287 18 0.08
288 218 0.92
289 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (287 bp):
TTGGAGTATCCCGATGGTGAAAAATCAACGTTTTAGAAATAAAACCAAGGTTGAAGTATCCCCTT
AGAAATAACAAGGATGGAGTATCCCCGATGGTGAAAAATTAGTGTTTTGGAAATAAAACCGGAGT
TAGAGTATCCCCTCGAAAATAAAGAGGTTGGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGA
AATAAAACCAAGGTTAGAGTATCCCCTCAAAAATAAAGGGGTTAGAGTATCCCCAATGGCAAAAA
ATCGGTATTTCAAAAATAAAACTGGGA
Found at i:276347 original size:18 final size:18
Alignment explanation
Indices: 276324--276380 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
276314 TTACAAAATT
276324 TATTTTAAAGTATAAAAA
1 TATTTTAAAGTATAAAAA
276342 TATTTT-AA--AT---AA
1 TATTTTAAAGTATAAAAA
276354 TATTTTAAAGTATAAAAA
1 TATTTTAAAGTATAAAAA
276372 TATTTTAAA
1 TATTTTAAA
276381 TAAAATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.24
13 2 0.06
15 4 0.12
17 2 0.06
18 17 0.52
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TATTTTAAAGTATAAAAA
Found at i:276357 original size:12 final size:11
Alignment explanation
Indices: 276336--276397 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 11
276326 TTTTAAAGTA
276336 TAAAAATATTT
1 TAAAAATATTT
276347 TAAATAATATTT
1 TAAA-AATATTT
*
276359 T-AAAGTA---
1 TAAAAATATTT
276366 TAAAAATATTT
1 TAAAAATATTT
*
276377 TAAATAAAATTT
1 TAAA-AATATTT
276389 TAAAAATAT
1 TAAAAATAT
276398 ATAAAAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
10 3 0.07
11 14 0.34
12 18 0.44
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:276360 original size:30 final size:30
Alignment explanation
Indices: 276324--276392 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
276314 TTACAAAATT
276324 TATTTTAAAGTATAAAAATATTTTAAATAA
1 TATTTTAAAGTATAAAAATATTTTAAATAA
276354 TATTTTAAAGTATAAAAATATTTTAAATAA
1 TATTTTAAAGTATAAAAATATTTTAAATAA
*
276384 AATTTTAAA
1 TATTTTAAA
276393 AATATATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (30 bp):
TATTTTAAAGTATAAAAATATTTTAAATAA
Found at i:277197 original size:21 final size:22
Alignment explanation
Indices: 277173--277215 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
277163 CCTAATTAAT
277173 AATAATTTAT-CATATTTTTTA
1 AATAATTTATACATATTTTTTA
* *
277194 AATATTTTATACTTATTTTTTA
1 AATAATTTATACATATTTTTTA
277216 TTTGACGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
AATAATTTATACATATTTTTTA
Found at i:277265 original size:15 final size:15
Alignment explanation
Indices: 277223--277266 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
277213 TTATTTGACG
* *
277223 TTTAAAGTTTAAAAT
1 TTTAAAATTTATAAT
277238 TTTAAATATTTATAAT
1 TTTAAA-ATTTATAAT
277254 TTTAAAATTTATA
1 TTTAAAATTTATA
277267 TTTATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TTTAAAATTTATAAT
Found at i:277281 original size:19 final size:19
Alignment explanation
Indices: 277257--277307 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
277247 TTATAATTTT
*
277257 AAAATTTATATTTATATAA
1 AAAATTTATATTTACATAA
277276 AAAATTTATATTTACATAA
1 AAAATTTATATTTACATAA
*
277295 AAAATATATATTT
1 AAAATTTATATTT
277308 GCAAACGCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATTTATATTTACATAA
Found at i:278558 original size:18 final size:18
Alignment explanation
Indices: 278527--278562 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
278517 TAATGTTATA
278527 AAATAAAAATTATAAAAT
1 AAATAAAAATTATAAAAT
278545 AAATATAAAA-TATAAAAT
1 AAATA-AAAATTATAAAAT
278563 GTAAGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATAAAAATTATAAAAT
Found at i:278649 original size:20 final size:20
Alignment explanation
Indices: 278601--278650 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
278591 AGCTCCAAAA
*
278601 AGAATGAGAAAAAAAATAAC
1 AGAATGAGTAAAAAAATAAC
278621 AGAATGAGTAAAAAAATAAC
1 AGAATGAGTAAAAAAATAAC
278641 AGAATGAGTA
1 AGAATGAGTA
278651 TAAATTGACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.64, C:0.04, G:0.18, T:0.14
Consensus pattern (20 bp):
AGAATGAGTAAAAAAATAAC
Found at i:279165 original size:17 final size:17
Alignment explanation
Indices: 279134--279166 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
279124 GAAATTTTTG
279134 AATATCAAATTTATAAA
1 AATATCAAATTTATAAA
279151 AATAT-AAATTATATAA
1 AATATCAAATT-TATAA
279167 TTGATATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
AATATCAAATTTATAAA
Found at i:279954 original size:54 final size:54
Alignment explanation
Indices: 279883--280010 Score: 229
Period size: 54 Copynumber: 2.4 Consensus size: 54
279873 GCTTGTAACC
* *
279883 AGATTTTAGCTAAAATAAATTGAAAATTTTAGCTTGTAGCCAGATTTTAGGTTT
1 AGATTTTAGCTAAAATAAATTGAAAATTTTAGCTTGTAACCAGATTTTAGATTT
279937 AGATTTTAGCTAAAATAAATTGAAAATTTTAGCTTGTAACCAGATTTTAGATTT
1 AGATTTTAGCTAAAATAAATTGAAAATTTTAGCTTGTAACCAGATTTTAGATTT
*
279991 AAATTTTAGCTAAAATAAAT
1 AGATTTTAGCTAAAATAAAT
280011 GGGTTTCGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (54 bp):
AGATTTTAGCTAAAATAAATTGAAAATTTTAGCTTGTAACCAGATTTTAGATTT
Found at i:287115 original size:96 final size:95
Alignment explanation
Indices: 286975--287159 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 95
286965 ATCCCCGACG
* * * * * *
286975 ATGATAATTTTGGTAAATAAGATTTAAAGCTTGGCAAGTTTAAAAACTAGGTTAGAGTATCCCTT
1 ATGATAATTTAGGAAAACAAGATTTAAAGCTTGACAAGTTTAAAAACGAGATTAGAGTATCCCTT
287040 CAAAAGAATGGGGTTAGAATATCCCTGATA
66 CAAAAGAATGGGGTTAGAATATCCCTGATA
* *
287070 ATGATAATTTAGGAAAAACAAGATTTAAATCTTGACAAGTTTAAAAACGAGATTGGAGTATCCCT
1 ATGATAATTTAGG-AAAACAAGATTTAAAGCTTGACAAGTTTAAAAACGAGATTAGAGTATCCCT
*** * *
287135 TTGGAAGAATGGGGTTGGAGTATCC
65 TCAAAAGAATGGGGTTAGAATATCC
287160 ACGATTAATA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
95 12 0.16
96 64 0.84
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (95 bp):
ATGATAATTTAGGAAAACAAGATTTAAAGCTTGACAAGTTTAAAAACGAGATTAGAGTATCCCTT
CAAAAGAATGGGGTTAGAATATCCCTGATA
Found at i:291400 original size:28 final size:29
Alignment explanation
Indices: 291311--292730 Score: 1464
Period size: 28 Copynumber: 49.6 Consensus size: 29
291301 CACTAACTTG
* *
291311 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
*
291341 CGTGTGGGCTTTGAAAA-GAGTGCCACTAACT
1 --TGTGGGCTTTGAAAAGGA-TGCCACTGACT
*
291372 TGTGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * * *
291400 TGTGAGCTTTG-AAAGGATGCCATTAATT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
291428 TGTGGGCTTTGAAAAGAATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291457 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291485 TGTGGGCTTTGAAAAGAGTTG-CACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
** *
291514 CATGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
291542 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291570 TGTGGGCTTTG-AAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291598 TTTGGGCTTTGAAAA-GAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGACT
* * *
291627 TGTGGGCTTTG-AAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291655 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* * * **
291685 TGTGGGATTTGAAAAGAGTTACCACCAACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* *
291715 CGTGGGCTTTG-AAAGGATACCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
291743 TGTGGGCTTTGGAAA-GAGTGCCACT-ATCT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGA-CT
* *
291772 TGTGGGATTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
291800 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
291828 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
*
291858 CGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291886 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* *
291916 CGTGAGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291944 TGTGGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
291972 TGTGGGCTTTG-AAAGGGTGCCCCTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
292000 TATGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
** *
292030 CATGAGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
292058 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
292086 TGTGGGCTTT-AAAAAGAGTGCCACTAAAT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGACT
* * *
292115 TGTGGGCTTTG-AAAGGGTGCCATTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
** * **
292143 TGTTTGCTTTGAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
*
292173 TGTGGGCTTTG-AAAGGATGCCATTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
292201 TGTGGGATTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
* *
292231 CGTGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
292259 TATGGGCTTTG-AAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* ***
292287 TGTGGGCTTTGAAGA-GAGTGCCACTCTTT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGACT
* * *
292316 TGTAGGCTTTG-AAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
292344 TGTGGGCTTTGAAAAGAGTTGCCACTAACT
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
*
292374 CGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* *
292402 TGTGGGCTTTGAAAAGAGTTGCCACCGA-T
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
292431 TCGTGGGCTTTG-AAAGGATGCCACTGACT
1 T-GTGGGCTTTGAAAAGGATGCCACTGACT
* *
292460 TGTGGGCTTTGAAAAGAGTTGCCACCGA-T
1 TGTGGGCTTTGAAAAG-GATGCCACTGACT
*
292489 TCGTGAGCTTTG-AAAGGATGCCACTGACT
1 T-GTGGGCTTTGAAAAGGATGCCACTGACT
* *
292518 TGTGGGTTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
292546 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
*
292574 TGTGGGCTTTGAAAA-GAGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGA-TGCCACTGACT
*
292603 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
292631 TGTGGGCTTT-AAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
292659 TGTGGGCTTT-AAAAGGGTGCTACTAACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
* * *
292687 TGTAGGCTTTG-AAAGGATGCCATTGAGT
1 TGTGGGCTTTGAAAAGGATGCCACTGACT
292715 TGTGGGCTTT-AAAAGG
1 TGTGGGCTTTGAAAAGG
292731 GATGAACGTT
Statistics
Matches: 1182, Mismatches: 157, Indels: 102
0.82 0.11 0.07
Matches are distributed among these distances:
27 8 0.01
28 689 0.58
29 252 0.21
30 209 0.18
31 9 0.01
32 15 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACT
Found at i:291743 original size:58 final size:56
Alignment explanation
Indices: 291300--292730 Score: 1497
Period size: 58 Copynumber: 24.9 Consensus size: 56
291290 AAAAAAGGTA
* * *
291300 CCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTG
1 CCACTAAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAGGA-TG
* *
291363 CCACTAACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGAGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
291419 CCATTAATTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * **
291476 CCACTAACTTGTGGGCTTTGAAAAGAGTTG-CACCGACTCATGGGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
*
291533 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * * * *
291589 TCACTGACTTTTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * * * *
291646 CCATTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTTGTGGGATTTGAAAAGAGTTA
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTG-AAAG-GATG
* * *
291706 CCACCAACTCGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCTTTGGAAA-GAGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAGGA-TG
* * * *
291763 CCACTATCTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * *
291819 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * * *
291877 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
291935 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * * ** *
291991 CCCCTGACTTATGGGCTTTGAAAAGAGTTGCCACTGACTCATGAGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
292049 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAAGAGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TG
* * * * ** *
292106 CCACTAAATTGTGGGCTTTGAAAGGGTGCCATTAACTTGTTTGCTTTGAAAAGAGTTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATG
* * * *
292164 CCACCAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGATTTGAAAAGAGTTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATG
** * * * *
292222 CCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * *** * *
292278 TCACTGACTTGTGGGCTTTG-AAGAGAGTGCCACTCTTTTGTAGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAG-GA-TGCCACTGACTTGTGGGCTTTGAAAGGATG
* * *
292335 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTAACTCGTGGGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * *
292393 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGA-TTCGTGGGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTT-GTGGGCTTTGAAAGGATG
* * * *
292451 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGA-TTCGTGAGCTTTGAAAGGATG
1 CCACTAACTTGTGGGCTTTG-AAAG-GATGCCACTGACTT-GTGGGCTTTGAAAGGATG
* * * *
292509 CCACTGACTTGTGGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
292565 CCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * *
292622 CCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGGTG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
* * * * *
292678 CTACTAACTTGTAGGCTTTGAAAGGATGCCATTGAGTTGTGGGCTTTAAAAGG
1 CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
292731 GATGAACGTT
Statistics
Matches: 1194, Mismatches: 149, Indels: 57
0.85 0.11 0.04
Matches are distributed among these distances:
55 6 0.01
56 311 0.26
57 362 0.30
58 445 0.37
59 25 0.02
60 20 0.02
61 16 0.01
62 1 0.00
63 8 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (56 bp):
CCACTAACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:291834 original size:201 final size:200
Alignment explanation
Indices: 291343--292700 Score: 1657
Period size: 201 Copynumber: 6.8 Consensus size: 200
291333 CACCGACTCG
* * * *
291343 TGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGAGCT
1 TGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* * * * *
291408 TTG-AAAGGATGCCATTAATTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAG
66 TTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* *
291472 GGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTG-CACCGACTCATGGGCTTTGAAAGGATGCCA
130 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCA
291536 CTAACT
195 CTAACT
* * *
291542 TGTGGGCTTT-GAAAG-GATGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTTTGGGC
1 TGTGGGCTTTGGAAAGAG-TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
291605 TTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCATTAACTTGTGGGCTTTGAAAA
65 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAA
* * * * * *
291670 GAGTTGCCACCGACTTGTGGGATTTGAAAAGAGTTACCACCAACTCGTGGGCTTTGAAAGGATAC
129 G-GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGC
*
291735 CACTGACT
193 CACTAACT
* *
291743 TGTGGGCTTTGGAAAGAGTGCCACTATCTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* *
291808 TTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAA
66 TTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAA
* *
291872 GGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCC
129 GGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCC
*
291937 ACTGACT
194 ACTAACT
* * *
291944 TGTGGGCTTT-GAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCCCTGACTTATGGGCT
1 TGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* ** *
292008 TTGAAAAGAGTTGCCACTGACTCATGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
66 TTGAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* ** * * *
292073 GGTGCCACTGACTTGTGGGCTTTAAAAAGAG-TGCCACTAAATTGTGGGCTTTGAAAGGGTGCCA
130 GGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCA
*
292137 TTAACT
195 CTAACT
** * * * * *
292143 TGTTTGCTTTGAAAAGAGTTGCCACCAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGA
1 TGTGGGCTTTGGAAAGAG-TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
292208 TTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTTGAAA
65 TTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA
* * ** * * *
292273 GGGTGTCACTGACTTGTGGGCTTTGAAGAGAG-TGCCACTC-TTTTGTAGGCTTTGAAAGGGTGC
129 GGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCAC-CGACTCGTGGGCTTTGAAAGGATGC
292336 CACTAACT
193 CACTAACT
* * *
292344 TGTGGGCTTTGAAAAGAGTTGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGGAAAGAG-TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* *
292409 TTTGAAAAGAGTTGCCACCGA-TTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAA
65 TTTGAAAAG-GGTGCCACTGACTT-GTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-A
* * * * * * * *
292473 AAGAGTTGCCACCGA-TTCGTGAGCTTTG-AAAG-GATGCCACTGACTTGTGGGTTTTGAAAGGG
127 AAG-GGTGCCACTGACTT-GTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGA
*
292535 TGCCACTGACT
190 TGCCACTAACT
* * * *
292546 TGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGC
1 TGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
* *
292610 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAG
65 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * *
292674 GGTGCTACTAACTTGTAGGCTTTGAAA
130 GGTGCCACTGACTTGTGGGCTTTGAAA
292701 GGATGCCATT
Statistics
Matches: 1012, Mismatches: 123, Indels: 49
0.85 0.10 0.04
Matches are distributed among these distances:
197 16 0.02
198 80 0.08
199 122 0.12
200 168 0.17
201 459 0.45
202 129 0.13
203 38 0.04
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (200 bp):
TGTGGGCTTTGGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
TTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGG
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCAC
TAACT
Found at i:292326 original size:516 final size:515
Alignment explanation
Indices: 291300--292729 Score: 2011
Period size: 516 Copynumber: 2.8 Consensus size: 515
291290 AAAAAAGGTA
* *
291300 CCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
1 CCACTAAC-T-TGTGGGCTTTGAAAAGAGTTGCCACTGACTC--GTGGGCTTTGAAAGGA-TGCC
* ** * * * *
291365 ACTAACTTGTGGGCTTTGAAAAG-G-TGCCACTAACTTGTGAGCTTTGAAAGGATGCCATTAATT
61 ACTGACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCCACTGACT
* *
291428 TGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCT
126 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCT
* *
291493 TTGAAAAGAGTTG-CACCGACTCATGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAG
191 TTGAAAAGAGTTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
* * * *
291557 GATGCCACTGACTTGTGGGCTTTGAAAGGGTGTCACTGACTTTTGGGCTTTGAAAAGAGTGCCAC
256 GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
* * **
291622 TAACTTGTGGGCTTTG-AAAGGGTGCCATTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTT
320 TAACTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTG-AAAG-GATGCCATTGACTT
* *
291686 GTGGGATTTGAAAAGAGTTACCACCAACTCGTGGGCTTTGAAAGGATACCACTGACTTGTGGGCT
383 GTGGGATTTGAAAAGAGTTACCACCAACTCGTGGGCTTTGAAAGGATACCACTAACTTATGGGCT
* * *
291751 TTGGAAAGAGTGCCACTATCTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG
448 TTGGAAAGAGTGCCACTATCTTGTGGGATTTGAAAGAGTGCCACTCACTTGTAGGCTTTGAAAGG
291816 GTG
513 GTG
*
291819 CCACTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGA
1 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGA
291884 CTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCCACTGACTTGTGG
66 CTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCCACTGACTTGTGG
* * * *
291949 GCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCCCTGACTTATGGGCTTTGAA
131 GCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
*
292013 AAGAGTTGCCACTGACTCATGAGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
196 AAGAGTTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* * * * *
292078 CACTGACTTGTGGGCTTTAAAAAGAGTGCCACTAAATTGTGGGCTTTGAAAGGGTGCCATTAACT
261 CACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
** * *
292143 TGTTTGCTTTGAAAAGAGTTGCCACCAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGA
325 TGTGGGCTTTGAAAAG-GGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGA
* * *
292208 TTTGAAAAGAGTTGCCACCGACTCGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTT-GAA
389 TTTGAAAAGAGTTACCACCAACTCGTGGGCTTTGAAAGGATACCACTAACTTATGGGCTTTGGAA
* * * **
292272 AGGGTGTCACTGA-CTTGTGGGCTTTGAAGAGAGTGCCACTCTTTTGTAGGCTTTGAAAGGGTG
454 AGAGTGCCACT-ATCTTGTGGGATTTGAA-AGAGTGCCACTCACTTGTAGGCTTTGAAAGGGTG
*
292335 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGA
1 CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGA
* *
292400 CTTGTGGGCTTTGAAAAGAGTTGCCACCGATTCGTGGGCTTTGAAAGGATGCCACTGACTTGTGG
66 CTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCCACTGACTTGTGG
* * * * *
292465 GCTTTGAAAAGAGTTGCCACCGA-TTCGTGAGCTTTGAAAGGATGCCACTGACTTGTGGGTTTTG
131 GCTTTGAAAAG-GATGCCACTGACTT-GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG
* ** * *
292529 -AAAG-GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAG
194 AAAAGAGTTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGG
* * * *
292592 TGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGA
258 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAA
* * *
292657 CTTGTGGGCTTT-AAAAGGGTGCTACTAACTTGTAGGCTTTGAAAGGATGCCATTGAGTTGTGGG
323 CTTGTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGG
*
292721 CTTT-AAAAG
388 ATTTGAAAAG
292730 GGATGAACGT
Statistics
Matches: 815, Mismatches: 84, Indels: 30
0.88 0.09 0.03
Matches are distributed among these distances:
513 5 0.01
514 71 0.09
515 107 0.13
516 466 0.57
517 96 0.12
518 63 0.08
519 7 0.01
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (515 bp):
CCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTCGTGGGCTTTGAAAGGATGCCACTGA
CTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGAGCTTTGAAAGGATGCCACTGACTTGTGG
GCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
AAGAGTTGCCACTGACTCATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTT
GTGGGCTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGATGCCATTGACTTGTGGGATT
TGAAAAGAGTTACCACCAACTCGTGGGCTTTGAAAGGATACCACTAACTTATGGGCTTTGGAAAG
AGTGCCACTATCTTGTGGGATTTGAAAGAGTGCCACTCACTTGTAGGCTTTGAAAGGGTG
Found at i:293972 original size:14 final size:12
Alignment explanation
Indices: 293949--294036 Score: 64
Period size: 12 Copynumber: 7.5 Consensus size: 12
293939 CCGTTTTCTG
293949 TTTTTTTTGGTT
1 TTTTTTTTGGTT
293961 ATTTTTTCTTGGTT
1 -TTTTTT-TTGGTT
*
293975 TTTTTGTTT-TTT
1 TTTTT-TTTGGTT
293987 TGTTTTTTTGG-T
1 T-TTTTTTTGGTT
*
293999 TTTTTTCT-G--
1 TTTTTTTTGGTT
294008 TTTTTTTT-GTT
1 TTTTTTTTGGTT
294019 TTTCTTTTT-GTT
1 TTT-TTTTTGGTT
294031 TTTTTT
1 TTTTTT
294037 AGGTATGAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
9 8 0.12
10 1 0.02
11 12 0.19
12 19 0.30
13 17 0.27
14 7 0.11
ACGTcount: A:0.01, C:0.03, G:0.12, T:0.83
Consensus pattern (12 bp):
TTTTTTTTGGTT
Found at i:294004 original size:9 final size:8
Alignment explanation
Indices: 293950--294035 Score: 70
Period size: 8 Copynumber: 10.9 Consensus size: 8
293940 CGTTTTCTGT
293950 TTTTTTTG
1 TTTTTTTG
* *
293958 GTTATTT-
1 TTTTTTTG
* *
293965 TTTCTTGG
1 TTTTTTTG
293973 TTTTTTTG
1 TTTTTTTG
293981 TTTTTTTG
1 TTTTTTTG
293989 TTTTTTTGG
1 TTTTTTT-G
*
293998 TTTTTTTC
1 TTTTTTTG
294006 TGTTTTTT-
1 T-TTTTTTG
*
294014 TTGTTTT-
1 TTTTTTTG
*
294021 TCTTTTTG
1 TTTTTTTG
294029 TTTTTTT
1 TTTTTTT
294036 TAGGTATGAA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
7 14 0.23
8 34 0.55
9 14 0.23
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:294022 original size:17 final size:17
Alignment explanation
Indices: 293963--294036 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
293953 TTTTGGTTAT
*
293963 TTTTTCTTGGTTTTTTTG
1 TTTTTC-TGTTTTTTTTG
* *
293981 TTTTTTTGTTTTTTTGGTT
1 TTTTTCTGTTTTTTT--TG
294000 TTTTTCTGTTTTTTTTG
1 TTTTTCTGTTTTTTTTG
294017 TTTTTCT-TTTTGTTTT-
1 TTTTTCTGTTTT-TTTTG
294033 TTTT
1 TTTT
294037 AGGTATGAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
16 8 0.17
17 20 0.42
18 5 0.10
19 15 0.31
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (17 bp):
TTTTTCTGTTTTTTTTG
Found at i:294036 original size:9 final size:9
Alignment explanation
Indices: 293962--294036 Score: 80
Period size: 9 Copynumber: 7.9 Consensus size: 9
293952 TTTTTGGTTA
293962 TTTTTTCTTG
1 TTTTTT-TTG
*
293972 GTTTTTTTG
1 TTTTTTTTG
293981 -TTTTTTTG
1 TTTTTTTTG
*
293989 TTTTTTTGG
1 TTTTTTTTG
293998 TTTTTTTCTG
1 TTTTTTT-TG
294008 TTTTTTTTG
1 TTTTTTTTG
294017 TTTTTCTTTTTG
1 --TTT-TTTTTG
294029 TTTTTTTT
1 TTTTTTTT
294037 AGGTATGAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
8 8 0.14
9 24 0.42
10 16 0.28
11 3 0.05
12 6 0.11
ACGTcount: A:0.00, C:0.04, G:0.12, T:0.84
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:306099 original size:51 final size:51
Alignment explanation
Indices: 305991--306110 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
305981 GTGAAAATAA
*
305991 TAGGGTTAGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAGGC
1 TAGGGTTAGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGC
** * ** *
306042 CGGGGTTAAAGTATCCCTGATTGTGAGAAATTAATATTTT-GAAAATAAAGC
1 TAGGGTTAGAGTATCCCCAATTATGAGAAATTAATATTTTAG-AAATAAAGC
*
306093 TAGGGTTGGAGTATCCCC
1 TAGGGTTAGAGTATCCCC
306111 TTGGAAATAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 1 0.02
51 55 0.98
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (51 bp):
TAGGGTTAGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAGC
Found at i:306105 original size:130 final size:128
Alignment explanation
Indices: 305805--306137 Score: 316
Period size: 130 Copynumber: 2.5 Consensus size: 128
305795 ATCTCCCTAC
* *
305805 GAGAAATTTAATATTTTAGAGATAAT-AAC-AGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
1 GAGAAA-TTAATATTTT-GA-A-AATAAACTAGGGTTGGAGTATCCCCTTGAAAATAA-TGGGTT
** * * * * *
305868 GGAGTATCCCTGATTGTGAAAAATTGATGATTTAGAAATAAGGCAAGGGTTGACGTGTCCCCGAT
61 GGAGTATCCCCAATTATGAAAAATTAATGATTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGAT
305933 TAT
126 TAT
* * * * * * * *
305936 -AGAAAATAGATGTTTTAAAAATAAAATCGAGATTTGAGTAT-CCCTGTGAAAATAATAGGGTTA
1 GAGAAATTA-ATATTTTGAAAATAAACTAG-GGTTGGAGTATCCCCT-TGAAAATAAT-GGGTTG
* ** *
305999 GAGTATCCCCAATTATGAGAAATTAAT-ATTTTAGAAATAAGGCCGGGGTTAAAGTATCCCTGAT
62 GAGTATCCCCAATTATGAAAAATTAATGA-TTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGAT
*
306063 TGT
126 TAT
*
306066 GAGAAATTAATATTTTGAAAATAAAGCTAGGGTTGGAGTATCCCCTTGGAAATAACTGGGTTGGA
1 GAGAAATTAATATTTTGAAAATAAA-CTAGGGTTGGAGTATCCCCTTGAAAATAA-TGGGTTGGA
306131 GTATCCC
64 GTATCCC
306138 TGATGAAATA
Statistics
Matches: 160, Mismatches: 31, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
127 3 0.02
128 3 0.02
129 9 0.06
130 131 0.82
131 14 0.09
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (128 bp):
GAGAAATTAATATTTTGAAAATAAACTAGGGTTGGAGTATCCCCTTGAAAATAATGGGTTGGAGT
ATCCCCAATTATGAAAAATTAATGATTTAGAAATAAGGCAAGGGTTAAAGTATCCCCGATTAT
Found at i:306128 original size:28 final size:27
Alignment explanation
Indices: 306095--306166 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 27
306085 AATAAAGCTA
306095 GGGTTGGAGTATCCCCTTG-GAAATAAC
1 GGGTTGGAGTATCCCC-TGAGAAATAAC
306122 TGGGTTGGAGTAT-CCCTGATGAAATAAC
1 -GGGTTGGAGTATCCCCTGA-GAAATAAC
306150 GAGGTTGGAGTATCCCC
1 G-GGTTGGAGTATCCCC
306167 GATTGTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 31 0.77
29 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTGAGAAATAAC
Found at i:306222 original size:51 final size:49
Alignment explanation
Indices: 306152--306319 Score: 210
Period size: 51 Copynumber: 3.3 Consensus size: 49
306142 GAAATAACGA
* *
306152 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGAAATAAAACCG
* * * * *
306202 GAGTTGGAATATCCCTGATTGTGGAGAATTGGTGTTGTAGAAATAAAACCGG
1 G-GTTGGAGTATCCCCGATTGTGAAAAATT-GTGTTTTAGAAATAAAACC-G
*
306254 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTG-TGTTTTAGAAATAAAACCG
306304 GGATTGGAGTATCCCC
1 GG-TTGGAGTATCCCC
306320 TCAAAAATAA
Statistics
Matches: 100, Mismatches: 14, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
50 5 0.05
51 93 0.93
52 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGTGTTTTAGAAATAAAACCG
Found at i:306342 original size:79 final size:79
Alignment explanation
Indices: 306252--306473 Score: 301
Period size: 76 Copynumber: 2.8 Consensus size: 79
306242 AAATAAAACC
306252 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTATC
306317 CCCTCAAAAATAAA
66 CCCTCAAAAATAAA
* *
306331 GGGGTTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTATC
* *
306393 CCCTCAGAAATAAC
66 CCCTCAAAAATAAA
* * * * * *
306407 GGGGTTGGAGTATCCACGATTGTG-AAAAGTCAGTGTTTTGGAAATAAAATC-GGAGTTGGAGTA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCGGGA-TTGGAGTA
306470 TCCC
64 TCCC
306474 AGATTATGGA
Statistics
Matches: 126, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
76 71 0.56
78 8 0.06
79 47 0.37
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGATTGGAGTATC
CCCTCAAAAATAAA
Found at i:306465 original size:51 final size:49
Alignment explanation
Indices: 306410--306589 Score: 175
Period size: 51 Copynumber: 3.5 Consensus size: 49
306400 AAATAACGGG
* *
306410 GTTGGAGTATCCACGATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCC-CGATTATGAAAAAT-AGTGTTTTGGAAATAAAATCGGA
* * *
306461 GTTGGAGTATCCCAGATTATGGAAAAATGGGTGTTTTAGAAATAAAATTGGA
1 GTTGGAGTATCCC-GATTAT-GAAAAAT-AGTGTTTTGGAAATAAAATCGGA
* * * *
306513 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTAT-CCCGATTATGAAAAATAG-TGTTTTGGAAATAAAATCGGA
*
306563 GATTGGAGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTAT-CCCGATTATGAAAAAT
306590 CTAGAAATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
50 11 0.10
51 55 0.50
52 41 0.37
53 3 0.03
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (49 bp):
GTTGGAGTATCCCGATTATGAAAAATAGTGTTTTGGAAATAAAATCGGA
Found at i:306497 original size:52 final size:51
Alignment explanation
Indices: 306439--306576 Score: 179
Period size: 52 Copynumber: 2.7 Consensus size: 51
306429 TGAAAAGTCA
*
306439 GTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCAGATTATGGAAAAATGG
1 GTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCAGATTA-AGAAAAATGG
* * * *
306491 GTGTTTTAGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAGAAAAATTG
1 GTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCAGATTAAGAAAAATGG
* * *
306542 ATGTTTTGGAAATGAAACCGG-GATTGGAGTATCCC
1 GTGTTTTGGAAATAAAATCGGAG-TTGGAGTATCCC
306577 CGAGATGAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 1 0.01
51 36 0.48
52 38 0.51
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (51 bp):
GTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCAGATTAAGAAAAATGG
Found at i:308898 original size:20 final size:19
Alignment explanation
Indices: 308873--308946 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
308863 AAAATGCCTG
*
308873 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
308893 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
308913 AATGTATTGATACAATGCAA
1 AATGTATCGATACAATG-AA
308933 AATGTATCGATACA
1 AATGTATCGATACA
308947 TCTGGGTAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:312429 original size:20 final size:20
Alignment explanation
Indices: 312404--312528 Score: 74
Period size: 20 Copynumber: 5.7 Consensus size: 20
312394 TTTTAACTAG
312404 ATGTATCGATACATTGGAAA
1 ATGTATCGATACATTGGAAA
312424 ATGTATCGATACATCTGGGTAAAAAGACAGA
1 ATGTATCGATACAT-T--G------GA-A-A
312455 ATGTATCGATACATT-GAAGA
1 ATGTATCGATACATTGGAA-A
** * *
312475 ATGTATTAATACATT-CATAC
1 ATGTATCGATACATTGGA-AA
*
312495 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGGAAA
312515 ATGTATCGATACAT
1 ATGTATCGATACAT
312529 CTGGGTACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 26
0.71 0.07 0.22
Matches are distributed among these distances:
20 59 0.70
21 5 0.06
23 1 0.01
29 2 0.02
30 2 0.02
31 15 0.18
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACATTGGAAA
Found at i:315177 original size:21 final size:21
Alignment explanation
Indices: 315148--315189 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
315138 ATTGGGACCT
*
315148 TGTATCGATACATAAAAGGCA
1 TGTAGCGATACATAAAAGGCA
*
315169 TGTAGCGATACATGAAAGGCA
1 TGTAGCGATACATAAAAGGCA
315190 AAAATGTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (21 bp):
TGTAGCGATACATAAAAGGCA
Found at i:319133 original size:75 final size:75
Alignment explanation
Indices: 318981--319137 Score: 174
Period size: 75 Copynumber: 2.1 Consensus size: 75
318971 ATCAAGTCTT
* * * **
318981 TTTAGGATCATATTAGACCTTTGTGTCAAAACTTGTCCATTAAAGGTATTTAGGTAATATTACTT
1 TTTAGGATCATATTAGACCTTTGTGTCAAAACATATCCATTAAAGGTATTTAGGTAATAATACCC
* **
319046 TAAAGTTGAG
66 TAAAATCAAG
* * * *
319056 TTTAGGATCAT-TTAAGAACCTTTTTGTCGAAACATATCTATT-AAGGTATTTTGGTAATAATAC
1 TTTAGGATCATATT-AG-ACCTTTGTGTCAAAACATATCCATTAAAGGTATTTAGGTAATAATAC
319119 CCTAAAATCAAG
64 CCTAAAATCAAG
319131 TTTAGGA
1 TTTAGGA
319138 GTTTGTGAGA
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 2 0.03
75 46 0.68
76 20 0.29
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (75 bp):
TTTAGGATCATATTAGACCTTTGTGTCAAAACATATCCATTAAAGGTATTTAGGTAATAATACCC
TAAAATCAAG
Found at i:320927 original size:22 final size:22
Alignment explanation
Indices: 320888--320930 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
320878 AAATAAAAAA
* **
320888 TAAAAAATTAAATGGAAAAAGT
1 TAAAAAATAAAAAAGAAAAAGT
320910 TAAAAAATAAAAAAGAAAAAG
1 TAAAAAATAAAAAAGAAAAAG
320931 GAAAACTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (22 bp):
TAAAAAATAAAAAAGAAAAAGT
Found at i:320943 original size:29 final size:29
Alignment explanation
Indices: 320881--320953 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 29
320871 TTGGGAGAAA
** * *
320881 TAAAAAATAAAAAATTAAATGGAAAAAGT
1 TAAAAAATAAAAAAGAAAAAGGAAAAACT
320910 TAAAAAATAAAAAAGAAAAAGG-AAAACT
1 TAAAAAATAAAAAAGAAAAAGGAAAAACT
*
320938 TCAAAACAAGAAAAAA
1 T-AAAA-AATAAAAAA
320954 ATTGAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.16
29 23 0.62
30 8 0.22
ACGTcount: A:0.73, C:0.04, G:0.10, T:0.14
Consensus pattern (29 bp):
TAAAAAATAAAAAAGAAAAAGGAAAAACT
Found at i:321999 original size:23 final size:23
Alignment explanation
Indices: 321973--322025 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
321963 TACATTTTTT
321973 TGAAAAACAAAAAACCAAAAAT-A
1 TGAAAAACAAAAAACC-AAAATGA
*
321996 TGAAAAACCAAAAACCAAAATGA
1 TGAAAAACAAAAAACCAAAATGA
322019 TGAAAAA
1 TGAAAAA
322026 ACTTTTGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.70, C:0.13, G:0.08, T:0.09
Consensus pattern (23 bp):
TGAAAAACAAAAAACCAAAATGA
Found at i:326511 original size:13 final size:14
Alignment explanation
Indices: 326485--326517 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
326475 TAATCATAGC
326485 TTGA-ATTTGAATA
1 TTGACATTTGAATA
326498 TTGACATTTG-ATA
1 TTGACATTTGAATA
326511 TTGACAT
1 TTGACAT
326518 AAATTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (14 bp):
TTGACATTTGAATA
Found at i:327877 original size:81 final size:81
Alignment explanation
Indices: 327791--328230 Score: 335
Period size: 79 Copynumber: 5.5 Consensus size: 81
327781 ACGGGGTTAA
*
327791 AGTATCCCCTTAGAAATGATGAGGTTAGAGCATCCCCAAGATGAAGAAATTCAATGTTTTAGAAG
1 AGTATCCCCTTAGAAATGATGAGGTTAGAGTATCCCCAAGATGAAGAAATTCAATGTTTTAGAAG
327856 TAAAAAAT-GGGTTTGG
66 TAAAAAATAGGG-TTGG
* * * *
327872 AGTATCCTCTTAGAAATGATG-GGTTAGAGTATCCCCCAAAATGAAGAAATTCAATTTTTTAAAA
1 AGTATCCCCTTAGAAATGATGAGGTTAGAGTAT-CCCCAAGATGAAGAAATTCAATGTTTTAGAA
327936 GTAAAAAAAATAGGGTTGG
65 GT--AAAAAATAGGGTTGG
* * * * * * * * *
327955 AGTATCCCC-TCGAAAATGGTGGGGTTGGAGTATTCTCAAGATG-ATAAATTTAATGTTTTGGAA
1 AGTATCCCCTTAG-AAATGATGAGGTTAGAGTATCCCCAAGATGAAGAAATTCAATGTTTTAGAA
328018 GT-AAAAATAGGGTTGG
65 GTAAAAAATAGGGTTGG
* * * ** * * *
328034 AGTA-CCCCTTCAGAAATAATGAGGTCAGAATATCCCTGAGATGAA-AAATTTAATATTTTGGAA
1 AGTATCCCCTT-AGAAATGATGAGGTTAGAGTATCCCCAAGATGAAGAAATTCAATGTTTTAGAA
* * *
328097 G-CAAAAATGGGGTTGC
65 GTAAAAAATAGGGTTGG
* * * * * * * * * *
328113 AGTATCTCC-TCGAAGATGGTGGGGTTGGAGTATTCCCGAAAATGAA-ATATTCGATGTTTTTGA
1 AGTATCCCCTTAGAA-ATGATGAGGTTAGAGTA-TCCCCAAGATGAAGAAATTCAATGTTTTAG-
**
328176 AAGTAAAAACGA-GGTTGG
63 AAGTAAAAAATAGGGTTGG
* * *** *
328194 AGTATCCCCTCAGAGATGGCAAGCTTAGAGTATCCCC
1 AGTATCCCCTTAGAAATGATGAGGTTAGAGTATCCCC
328231 TTTTAATGTT
Statistics
Matches: 281, Mismatches: 62, Indels: 33
0.75 0.16 0.09
Matches are distributed among these distances:
78 7 0.02
79 85 0.30
80 40 0.14
81 78 0.28
82 25 0.09
83 33 0.12
84 13 0.05
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (81 bp):
AGTATCCCCTTAGAAATGATGAGGTTAGAGTATCCCCAAGATGAAGAAATTCAATGTTTTAGAAG
TAAAAAATAGGGTTGG
Found at i:328024 original size:163 final size:159
Alignment explanation
Indices: 327827--328207 Score: 380
Period size: 158 Copynumber: 2.4 Consensus size: 159
327817 AGAGCATCCC
* *
327827 CAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAA-ATGGGTTTGGAGTATCCTCTT-AGAAATG
1 CAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAATA-GGG-TTGGAGTA-CCCCTTCAGAAATA
* * *
327890 ATG-GGTTAGAGTATCCCCCAAAATGAAGAAATTCAATTTTTTAAAAGTAAAAAAAATAGGGTTG
63 ATGAGGTCAGAATAT-CCCCAAAATGAA-AAATTCAATATTTTAAAAG---AAAAAATAGGGTTG
*
327954 GAGTATCCCCTCGAAAATGGTGGGGTTGGAGTATTCT
123 CAGTATCCCCTCGAAAATGGTGGGGTTGGAGTATTCT
* * *
327991 CAAGATG-ATAAATTTAATGTTTTGGAAGTAAAAATAGGGTTGGAGTACCCCTTCAGAAATAATG
1 CAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAATAGGGTTGGAGTACCCCTTCAGAAATAATG
** * * ** * * *
328055 AGGTCAGAATATCCCTGAGATGAAAAATTTAATATTTTGGAAGCAAAAATGGGGTTGCAGTATCT
66 AGGTCAGAATATCCCCAAAATGAAAAATTCAATATTTTAAAAGAAAAAATAGGGTTGCAGTATCC
* *
328120 CCTCGAAGATGGTGGGGTTGGAGTATTCC
131 CCTCGAAAATGGTGGGGTTGGAGTATTCT
* * * * *
328149 CGAAAATGAA-ATATTCGATGTTTTTGAAAGTAAAAA-CGAGGTTGGAGTATCCCC-TCAGA
1 C-AAGATGAAGAAATTCAATGTTTTAG-AAGTAAAAATAG-GGTTGGAGTA-CCCCTTCAGA
328208 GATGGCAAGC
Statistics
Matches: 183, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
158 46 0.25
159 18 0.10
160 25 0.14
161 24 0.13
162 26 0.14
163 36 0.20
164 8 0.04
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (159 bp):
CAAGATGAAGAAATTCAATGTTTTAGAAGTAAAAATAGGGTTGGAGTACCCCTTCAGAAATAATG
AGGTCAGAATATCCCCAAAATGAAAAATTCAATATTTTAAAAGAAAAAATAGGGTTGCAGTATCC
CCTCGAAAATGGTGGGGTTGGAGTATTCT
Found at i:332065 original size:13 final size:13
Alignment explanation
Indices: 332047--332073 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
332037 ACATATTGCT
332047 TTGTATCGATACA
1 TTGTATCGATACA
332060 TTGTATCGATACA
1 TTGTATCGATACA
332073 T
1 T
332074 GAAGAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:332168 original size:33 final size:33
Alignment explanation
Indices: 332123--332202 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
332113 CTACCACTAT
* * * * *
332123 TTGTATCGATACATGGGACATTGTATTGATACA
1 TTGTATCAATACATAGGAAAATGTATCGATACA
*
332156 TTGTATCAATACATAGTAAAATGTATCGATACA
1 TTGTATCAATACATAGGAAAATGTATCGATACA
*
332189 TTGTATCATTACAT
1 TTGTATCAATACAT
332203 TGTGCTTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (33 bp):
TTGTATCAATACATAGGAAAATGTATCGATACA
Found at i:332615 original size:23 final size:23
Alignment explanation
Indices: 332572--332615 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
332562 GCATTTAATC
*
332572 TTGGGTCATAATCTTTTAAGAAT
1 TTGGGTCATAATCTTTGAAGAAT
*
332595 TTGGGTTATAAT-TCTTGAAGA
1 TTGGGTCATAATCT-TTGAAGA
332616 GATTGAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.06
23 17 0.94
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (23 bp):
TTGGGTCATAATCTTTGAAGAAT
Found at i:336637 original size:21 final size:20
Alignment explanation
Indices: 336600--336638 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
336590 TTTTTAGAGA
*
336600 AAAATTTTATTATGGGGAAG
1 AAAATTTTATTAGGGGGAAG
336620 AAAATTTTATTAAGGGGGA
1 AAAATTTTATT-AGGGGGA
336639 GTTTTATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (20 bp):
AAAATTTTATTAGGGGGAAG
Found at i:340638 original size:69 final size:70
Alignment explanation
Indices: 340553--340697 Score: 195
Period size: 69 Copynumber: 2.1 Consensus size: 70
340543 TAATCGAAAG
* * * * *
340553 AATGGGGTTGGTGTATCCCCGAA-AATAATAATTTAGGCAGAA-TAAAATTTAAATCTTGAGAAG
1 AATGGGGTCGGAGTATCCCC-AATAATAATAATTTAAGCAAAAGTAAAATTTAAATCTTGACAAG
340616 TTTAAA
65 TTTAAA
* * *
340622 AATGGGGTCGGAGTATCCCCAATGATGATAATTTAAGCAAAAGTAAGATTTAAATCTTGACAAGT
1 AATGGGGTCGGAGTATCCCCAATAATAATAATTTAAGCAAAAGTAAAATTTAAATCTTGACAAGT
340687 TTAAA
66 TTAAA
340692 AATGGG
1 AATGGG
340698 ATTAAAGTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
68 2 0.03
69 33 0.50
70 31 0.47
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (70 bp):
AATGGGGTCGGAGTATCCCCAATAATAATAATTTAAGCAAAAGTAAAATTTAAATCTTGACAAGT
TTAAA
Found at i:340707 original size:70 final size:69
Alignment explanation
Indices: 340580--340710 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 69
340570 CCCGAAAATA
* * * * **
340580 ATAATTTAGGCAGAATAAAATTTAAATCTTGAGAAGTTTAAAAATGGGGTCGGAGTATCCCCAAT
1 ATAATTTAAGCAAAATAAAATTTAAATCTTGACAAGTTTAAAAATGGGATCAAAGTATCCCCAAT
340645 GATG
66 GATG
* *
340649 ATAATTTAAGCAAAAGTAAGATTTAAATCTTGACAAGTTTAAAAATGGGATTAAAGTATCCC
1 ATAATTTAAGCAAAA-TAAAATTTAAATCTTGACAAGTTTAAAAATGGGATCAAAGTATCCC
340711 TTCGAAAGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
69 13 0.25
70 40 0.75
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (69 bp):
ATAATTTAAGCAAAATAAAATTTAAATCTTGACAAGTTTAAAAATGGGATCAAAGTATCCCCAAT
GATG
Found at i:343571 original size:32 final size:31
Alignment explanation
Indices: 343521--343580 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
343511 CTTGTGTGGA
* *
343521 CTTTTAAAAAAAGGTGCCACTAACTTGTAGG
1 CTTTGAAAAAAAGGTGCCACCAACTTGTAGG
*
343552 CTTTGAAAAAAGAGTTGCCACCAACTTGT
1 CTTTGAAAAAA-AGGTGCCACCAACTTGT
343581 GTGGGCTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (31 bp):
CTTTGAAAAAAAGGTGCCACCAACTTGTAGG
Found at i:343617 original size:28 final size:28
Alignment explanation
Indices: 343580--343969 Score: 424
Period size: 28 Copynumber: 13.8 Consensus size: 28
343570 CACCAACTTG
* *
343580 TGTGGGCTTTGAAAGGATGTCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
343608 TGTGGGCTTTAGAAAGGATGCCACTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
**
343637 TGTGGGCTTTGAAAATATGCCACT-ATCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
* * *
343665 TGTGGGCTTTGAAAAGCTTCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
343693 TGTGGGCTTTAAAAGCGTATGCCACTGACT
1 TGTGGGCTTTGAAAG-G-ATGCCACTGACT
* *
343723 TGTGGACTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
343751 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
343779 TGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* *
343809 TGTGGGCTTTCAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
343837 TGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* ***
343865 TGTGGGCTTTGAAATGATGCCAGAAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
343893 TGTGGGCTTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
343921 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
343948 TGTGGACTTTAAAAGGGTGCCA
1 TGTGGGCTTTGAAAGGATGCCA
343970 TGGAGTTGTG
Statistics
Matches: 312, Mismatches: 42, Indels: 16
0.84 0.11 0.04
Matches are distributed among these distances:
27 27 0.09
28 210 0.67
29 28 0.09
30 47 0.15
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:343744 original size:86 final size:85
Alignment explanation
Indices: 343580--343963 Score: 440
Period size: 86 Copynumber: 4.5 Consensus size: 85
343570 CACCAACTTG
* * * *
343580 TGTGGGCTTTGAAAGGATGTCATTGACTTGTGGGCTTTAGAAAGG-ATGCCACTAACTTGTGGGC
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTA-AAAGGTATGCCACTGACTTGTGGGC
343644 TTTGAAAAT-ATGCCACT-ATCT
65 TTTG-AAATGATGCCACTGA-CT
* * *
343665 TGTGGGCTTTGAAAA-GCTTCCACTGACTTGTGGGCTTTAAAAGCGTATGCCACTGACTTGTGGA
1 TGTGGGCTTT-AAAAGGATGCCACTGACTTGTGGGCTTTAAAAG-GTATGCCACTGACTTGTGGG
343729 CTTTGAAATGATGCCACTGACT
64 CTTTGAAATGATGCCACTGACT
* *
343751 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGT-TGCCACCGACTTGTGGG
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTT-AAA-AGGTATGCCACTGACTTGTGGG
*
343815 CTTTCAAATGATGCCACTGACT
64 CTTTGAAATGATGCCACTGACT
* * ***
343837 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAATG-ATGCCAGAAACTTGTGGGCT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGTATGCCACTGACTTGTGGGCT
* * * * *
343901 TTAAAAGGGTGCCACGGAGT
66 TTGAAATGATGCCACTGACT
* * * *
343921 TGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGG
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAGG
343964 GTGCCATGGA
Statistics
Matches: 260, Mismatches: 30, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
83 31 0.12
84 42 0.16
85 41 0.16
86 139 0.53
87 6 0.02
88 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (85 bp):
TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTAAAAGGTATGCCACTGACTTGTGGGCT
TTGAAATGATGCCACTGACT
Found at i:343771 original size:114 final size:111
Alignment explanation
Indices: 343529--343997 Score: 464
Period size: 114 Copynumber: 4.1 Consensus size: 111
343519 GACTTTTAAA
* * *
343529 AAAAGG-TGCCACTAACTTGTAGGCTTTGAAAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAA
1 AAAAGGATGCCACT-ACTTGTGGGCTTTG--AAAAG-GTT-CCACCGAC-T-TGTGGGCTTTAAA
* * * *
343593 AGGATGTCATTGACTTGTGGGCTTTAGAAAGGATGCCACTAACTTGTGGGCTTT
59 AGGATGCCACTGACTTGTGGACTTTA-AAAGGATGCCACTGACTTGTGGGCTTT
* * *
343647 GAAAA-TATGCCACTATCTTGTGGGCTTTGAAAAGCTTCCACTGACTTGTGGGCTTTAAAAGCGT
1 -AAAAGGATGCCACTA-CTTGTGGGCTTTGAAAAGGTTCCACCGACTTGTGGGCTTTAAAAG-G-
* *
343711 ATGCCACTGACTTGTGGACTTTGAAATGATGCCACTGACTTGTGGGCTTT
62 ATGCCACTGACTTGTGGACTTTAAAAGGATGCCACTGACTTGTGGGCTTT
* * *
343761 AAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGGGCTTTCAAATGA
1 AAAAGGATGCCACT-ACTTGTGGGCTTTGAAA-AGGTT-CCACCGACTTGTGGGCTTTAAAAGGA
*
343826 TGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTT
63 TGCCACTGACTTGTGGACTTTAAAAGGATGCCACTGACTTGTGGGCTTT
* * ** * * * *
343875 GAAATGATGCCAGAAACTTGTGGGCTTT-AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAT
1 AAAAGGATGCCA-CTACTTGTGGGCTTTGAAAA-GGTTCCACCGACTTGTGGGCTTTAAAAGGAT
* * * * *
343938 GCCACGGAGTTGTGGACTTTAAAAGGGTGCCA-TGGAGTTGTGGAC-TT
64 GCCACTGACTTGTGGACTTTAAAAGGATGCCACT-GACTTGTGGGCTTT
*
343985 AAAAGGTTGCCAC
1 AAAAGGATGCCAC
343998 AGAGTTGTGA
Statistics
Matches: 297, Mismatches: 42, Indels: 32
0.80 0.11 0.09
Matches are distributed among these distances:
110 12 0.04
111 45 0.15
112 13 0.04
113 24 0.08
114 121 0.41
115 30 0.10
116 23 0.08
117 5 0.02
118 1 0.00
119 23 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (111 bp):
AAAAGGATGCCACTACTTGTGGGCTTTGAAAAGGTTCCACCGACTTGTGGGCTTTAAAAGGATGC
CACTGACTTGTGGACTTTAAAAGGATGCCACTGACTTGTGGGCTTT
Found at i:343964 original size:55 final size:56
Alignment explanation
Indices: 343580--344127 Score: 387
Period size: 56 Copynumber: 9.8 Consensus size: 56
343570 CACCAACTTG
* * * ** * * ** *
343580 TGTGGGCTTTGAAAGGATGTCATTGACTTGTGGGCTTTAGAAAGGATGCCACTAACT
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTA-AAAGGGTGCCACGGAGT
* * * * * * * *
343637 TGTGGGCTTTGAAAA-TATGCCAC-TATCTTGTGGGCTTTGAAAA-GCTTCCACTGACT
1 TGTGGACTTT-AAAAGGATGCCACGGA-CTTGTGGACTTT-AAAAGGGTGCCACGGAGT
* * * * * * *
343693 TGTGGGCTTTAAAAGCGTATGCCACTGACTTGTGGACTTTGAAATGATGCCACTGACT
1 TGTGGACTTTAAAAG-G-ATGCCACGGACTTGTGGACTTTAAAAGGGTGCCACGGAGT
* * * * * *
343751 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCGACT
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTT-AAAAGGG-TGCCACGGAGT
* * * * * * * *
343809 TGTGGGCTTTCAAATGATGCCACTGACTTGTGGGCTTTAAAAGGATGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTAAAAGGGTGCCACGGAGT
* * * * *
343865 TGTGGGCTTTGAAATGATGCCA-GAAACTTGTGGGCTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACG-GACTTGTGGACTTTAAAAGGGTGCCACGGAGT
* *
343921 TGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTAAAAGGGTGCCACGGAGT
* * * * *
343976 TGTGGAC-TTAAAAGGTTGCCACAGAGTTGTGAACTTTAAAAGGGTGCGACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTAAAAGGGTGCCACGGAGT
* * ** *
344031 TATGGACTTTAAAAGGTTGCCACGGAGC-TGCAGAC-TTAAAAGTGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGA-CTTGTGGACTTTAAAAGGGTGCCACGGAGT
* * * * *
344086 TGTAGAC-TTAAAAGGGTGCCATGGAGTTGTGGA-ATTAAAAGG
1 TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTAAAAGG
344128 AATACCACAG
Statistics
Matches: 416, Mismatches: 59, Indels: 35
0.82 0.12 0.07
Matches are distributed among these distances:
54 27 0.06
55 123 0.30
56 129 0.31
57 42 0.10
58 94 0.23
59 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (56 bp):
TGTGGACTTTAAAAGGATGCCACGGACTTGTGGACTTTAAAAGGGTGCCACGGAGT
Found at i:343974 original size:28 final size:28
Alignment explanation
Indices: 343692--344157 Score: 361
Period size: 28 Copynumber: 16.6 Consensus size: 28
343682 TTCCACTGAC
* * *
343692 TTGTGGGCTTTAAAAGCGTATGCCACTGAC
1 TTGTGGACTTTAAAAG-G-ATGCCACGGAG
* * * *
343722 TTGTGGACTTTGAAATGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * *
343750 TTGTGGGCTTTAAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * * *
343778 TTGTGGGCTTTGAAATGGGTTGCCACCGAC
1 TTGTGGACTTT-AAA-AGGATGCCACGGAG
* * * * *
343808 TTGTGGGCTTTCAAATGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * *
343836 TTGTGGGCTTTAAAAGGATGCCACTGAC
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * * *
343864 TTGTGGGCTTTGAAATGATGCCA-GAAAC
1 TTGTGGACTTTAAAAGGATGCCACG-GAG
* *
343892 TTGTGGGCTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
343920 TTGTGGAC-TTAAAAGGATGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
343947 TTGTGGACTTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
343975 TTGTGGAC-TTAAAAGGTTGCCACAGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * *
344002 TTGTGAACTTTAAAAGGGTGCGACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* *
344030 TTATGGACTTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* **
344058 CTGCAGAC-TTAAAAGTG-TGCCACGGAG
1 TTGTGGACTTTAAAAG-GATGCCACGGAG
* * *
344085 TTGTAGAC-TTAAAAGGGTGCCATGGAG
1 TTGTGGACTTTAAAAGGATGCCACGGAG
* * * *
344112 TTGTGGA-ATTAAAAGGAATACCACAGAA
1 TTGTGGACTTTAAAAGG-ATGCCACGGAG
*
344140 TCGTGGACTTTGAAAAGG
1 TTGTGGACTTT-AAAAGG
344158 TTACACTACT
Statistics
Matches: 369, Mismatches: 55, Indels: 24
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.00
27 102 0.28
28 216 0.59
29 9 0.02
30 41 0.11
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGATGCCACGGAG
Found at i:344037 original size:110 final size:110
Alignment explanation
Indices: 343899--344116 Score: 312
Period size: 110 Copynumber: 2.0 Consensus size: 110
343889 AACTTGTGGG
* * **
343899 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
1 CTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGATGCCACGGAGCTGCAGAC-TTAAAAG
* * *
343963 GGTGCCATGGAGTTGTGGACTTAAAAGGTTGCCACAGAGTTGTGAA
65 GGTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTGAA
* * *
344009 CTTTAAAAGGGTGCGACGGAGTTATGGACTTTAAAAGGTTGCCACGGAGCTGCAGACTTAAAAGT
1 CTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGATGCCACGGAGCTGCAGACTTAAAAGG
**
344074 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCATGGAGTTGTG
66 GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTG
344117 GAATTAAAAG
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 72 0.76
111 23 0.24
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (110 bp):
CTTTAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGATGCCACGGAGCTGCAGACTTAAAAGG
GTGCCACGGAGTTGTAGACTTAAAAGGGTGCCACAGAGTTGTGAA
Found at i:350916 original size:12 final size:12
Alignment explanation
Indices: 350899--350927 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
350889 TTTTTAAAAT
350899 ATATATATATAC
1 ATATATATATAC
350911 ATATATATATAC
1 ATATATATATAC
350923 ATATA
1 ATATA
350928 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:351312 original size:9 final size:9
Alignment explanation
Indices: 351298--351327 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
351288 CCATCTCATA
351298 TTTTTTTCT
1 TTTTTTTCT
351307 TTTTTTTCT
1 TTTTTTTCT
351316 TTTTCTTTCT
1 TTTT-TTTCT
351326 TT
1 TT
351328 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:352651 original size:32 final size:32
Alignment explanation
Indices: 352602--352969 Score: 603
Period size: 32 Copynumber: 11.5 Consensus size: 32
352592 AAAATGGTAA
* * **
352602 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352634 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352666 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352698 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352730 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352762 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
352794 TTTGGAATGGGTTTCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
352826 TTTGGAATGGGTTGCCACCGACTTGTGTGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
352858 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
352890 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
352922 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
352954 TTTGAAATGGG-TGCCA
1 TTTGAAATGGGTTGCCA
352970 TAGAGTTGTG
Statistics
Matches: 314, Mismatches: 22, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
31 5 0.02
32 309 0.98
ACGTcount: A:0.16, C:0.18, G:0.33, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:352996 original size:27 final size:27
Alignment explanation
Indices: 352962--354702 Score: 2761
Period size: 27 Copynumber: 64.0 Consensus size: 27
352952 GCTTTGAAAT
** *
352962 GGGTGCCATAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
352989 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353016 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353043 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353070 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
353098 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353125 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353152 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
353179 GAATGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353206 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353233 GGGATGCCACAGAGTTGTGGATTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
353261 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353288 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353315 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353342 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
353370 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
353397 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
353425 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353452 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353479 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353506 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353533 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
353561 GGGTGCCACAGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353587 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
353615 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353642 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353669 GGAATGCCACGGAGTTGTGGACTTAAAA
1 GG-GTGCCACGGAGTTGTGGACTTAAAA
353697 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353724 GGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353750 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353777 GGGTGCCACGGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353804 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
353832 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353859 GAGATGCCA-GGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
353886 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
353913 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353940 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
353967 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
353994 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
354022 GGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354048 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354075 AGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
354102 GAATGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354129 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354156 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
354184 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354211 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
354238 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354265 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
354293 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* * *
354320 GAGATGCCATGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
354348 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354375 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354402 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
354429 GGGTGCCACAGAGTTGTGGACTAAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354456 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
354484 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
354511 GAGATGCCACGGAGTTATGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
354539 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354566 GGGTGCCACGGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
354593 GGAATGCCACGGAGTTGTGGACTTAAAA
1 GG-GTGCCACGGAGTTGTGGACTTAAAA
354621 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354648 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
354676 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354703 AGATTTGGTA
Statistics
Matches: 1579, Mismatches: 114, Indels: 42
0.91 0.07 0.02
Matches are distributed among these distances:
26 60 0.04
27 1139 0.72
28 380 0.24
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:353096 original size:82 final size:81
Alignment explanation
Indices: 352962--354702 Score: 2761
Period size: 82 Copynumber: 21.3 Consensus size: 81
352952 GCTTTGAAAT
** * *
352962 GGGTGCCATAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
353027 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
353043 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
353108 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* ** *
353125 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
353190 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
353206 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACAGAGTTGTGGATTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
353271 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
353288 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
353353 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * * * *
353370 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
353435 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
353452 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
353517 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
* *
353533 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTT-AAAGAGATGCCAC
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
353597 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
353615 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGAATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-GTGCCACG
353680 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
353697 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
353761 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
* *
353777 GGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
353842 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
353859 GAGATGCCA-GGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
353923 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
* *
353940 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
354005 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
354022 GGGTGCCACGGAGTTGTGGACTT-AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
354086 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
** * * *
354102 GAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
354167 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
354184 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
354249 AGTTGTGGACTAAAAA
66 AGTTGTGGACTTAAAA
* * *
354265 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAT
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
*
354330 GGAGTTATGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* *
354348 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
354413 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
354429 GGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
354494 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
354511 GAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
354576 GAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAA
*
354593 GGAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
354658 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
*
354676 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
354703 AGATTTGGTA
Statistics
Matches: 1542, Mismatches: 97, Indels: 41
0.92 0.06 0.02
Matches are distributed among these distances:
80 119 0.08
81 506 0.33
82 778 0.50
83 139 0.09
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:353157 original size:109 final size:108
Alignment explanation
Indices: 352962--354702 Score: 2761
Period size: 109 Copynumber: 16.0 Consensus size: 108
352952 GCTTTGAAAT
** * *
352962 GGGTGCCATAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
* *
353027 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
353070 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
353135 GAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
353179 GAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGATGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
*
353244 GAGTTGTGGATTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
353288 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
353353 AGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
66 AGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
353397 GAGATGCCATGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
353462 GAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
353506 GGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
* *
353571 GAGTTGTGGACTT-AAAGAGATGCCACGGAGTTATGGACTTAAAA
65 GAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAA
* *
353615 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGAATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG-GTGCCACG
353680 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
353724 GGGTGCCACGGAGTTGTGGACTT-AAAGGGTGCCACAGAGTTGTGGACTAAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
353788 AGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * * *
353832 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCA-GGAGTTATGGACTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
353896 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
353940 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACG
354005 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* ** *
354048 GGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAATGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
354113 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
354156 GGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
* *
354221 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTAAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
354265 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCAT
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCAC
* *
354330 GGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
354375 GGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
354440 AGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
354484 GGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
354549 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
354593 GGAATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GG-GTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
354658 GAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
65 GAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
354703 AGATTTGGTA
Statistics
Matches: 1504, Mismatches: 108, Indels: 40
0.91 0.07 0.02
Matches are distributed among these distances:
107 95 0.06
108 351 0.23
109 786 0.52
110 272 0.18
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:361944 original size:2 final size:2
Alignment explanation
Indices: 361937--361971 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
361927 GATTTTTAAA
* *
361937 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
361972 AATAAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:361958 original size:16 final size:16
Alignment explanation
Indices: 361937--361971 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
361927 GATTTTTAAA
361937 ATATATATATATACAT
1 ATATATATATATACAT
361953 ATATATATATATACAT
1 ATATATATATATACAT
361969 ATA
1 ATA
361972 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATATATATACAT
Found at i:362354 original size:9 final size:9
Alignment explanation
Indices: 362340--362369 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
362330 CCATTTCATA
362340 TTTTTTTCT
1 TTTTTTTCT
362349 TTTTTTTCT
1 TTTTTTTCT
362358 TTTTCTTTCT
1 TTTT-TTTCT
362368 TT
1 TT
362370 CTTCTTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Done.