Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
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: 6561538
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 30
Found at i:6055216 original size:21 final size:21
Alignment explanation
Indices: 6055186--6055225 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6055176 CGGTAAAGTG
*
6055186 TTACCTAAAACATTATTTTTT
1 TTACCAAAAACATTATTTTTT
**
6055207 TTACCAAAAATGTTATTTT
1 TTACCAAAAACATTATTTT
6055226 CACTAACTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (21 bp):
TTACCAAAAACATTATTTTTT
Found at i:6058557 original size:33 final size:33
Alignment explanation
Indices: 6058507--6058574 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
6058497 GTGCTATAAT
*
6058507 TTGTGTTTATTTCAATTTATTCAC-TATTTTTA
1 TTGTGTTTATTTCAATTTAGTCACTTATTTTTA
*
6058539 TTGTGGTTTA-TTCAAATTTAGTCACTTGTTTTTA
1 TTGT-GTTTATTTC-AATTTAGTCACTTATTTTTA
6058573 TT
1 TT
6058575 TTTATTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.23
33 15 0.48
34 9 0.29
ACGTcount: A:0.21, C:0.09, G:0.10, T:0.60
Consensus pattern (33 bp):
TTGTGTTTATTTCAATTTAGTCACTTATTTTTA
Found at i:6058743 original size:14 final size:14
Alignment explanation
Indices: 6058724--6058750 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6058714 TTTCACTTGT
6058724 TATATTCACGATTC
1 TATATTCACGATTC
6058738 TATATTCACGATT
1 TATATTCACGATT
6058751 GTAGTGCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (14 bp):
TATATTCACGATTC
Found at i:6060914 original size:20 final size:22
Alignment explanation
Indices: 6060868--6060926 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 22
6060858 ATGCACTACC
6060868 ATGCATCGATGCACTTGTTAAAGA
1 ATGCATCGATGCAC-TGTT-AAGA
6060892 ATGCATCGATGCACTG-T-AGA
1 ATGCATCGATGCACTGTTAAGA
6060912 ATGCA-CTGATGCACT
1 ATGCATC-GATGCACT
6060927 TCAATGGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.47
22 1 0.03
23 2 0.06
24 14 0.41
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (22 bp):
ATGCATCGATGCACTGTTAAGA
Found at i:6064380 original size:18 final size:18
Alignment explanation
Indices: 6064357--6064403 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
6064347 ACTAAATTTT
**
6064357 GGTATCGATACTTAGTTC
1 GGTATCGATACTTAGGCC
6064375 GGTATCGATACTTAGGCC
1 GGTATCGATACTTAGGCC
6064393 GGTATCGATAC
1 GGTATCGATAC
6064404 CTCAATATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (18 bp):
GGTATCGATACTTAGGCC
Found at i:6064543 original size:20 final size:20
Alignment explanation
Indices: 6064498--6064543 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
6064488 CCAAAATGCG
*
6064498 AGTATCGATACTCAAGGTTC
1 AGTATCGATACTCAAGGGTC
* * *
6064518 AATATCGATAGTGAAGGGTC
1 AGTATCGATACTCAAGGGTC
6064538 AGTATC
1 AGTATC
6064544 AGTACCCATA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:6065777 original size:30 final size:30
Alignment explanation
Indices: 6065741--6065797 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6065731 GTTTTTCAAA
*
6065741 CCGGTTTTGCCAGTTTTCAGCCGGTTCACC
1 CCGGTTTTACCAGTTTTCAGCCGGTTCACC
*
6065771 CCGGTTTTACCGGTTTTCAGCCGGTTC
1 CCGGTTTTACCAGTTTTCAGCCGGTTC
6065798 TATCGGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.09, C:0.32, G:0.25, T:0.35
Consensus pattern (30 bp):
CCGGTTTTACCAGTTTTCAGCCGGTTCACC
Found at i:6065796 original size:20 final size:20
Alignment explanation
Indices: 6065771--6065817 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
6065761 CCGGTTCACC
*
6065771 CCGGTTTTACCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAG
*
6065791 CCGGTTCTATCGGTTTTCAG
1 CCGGTTCTACCGGTTTTCAG
*
6065811 CTGGTTC
1 CCGGTTC
6065818 ATTGCCAGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.09, C:0.26, G:0.26, T:0.40
Consensus pattern (20 bp):
CCGGTTCTACCGGTTTTCAG
Found at i:6066352 original size:20 final size:20
Alignment explanation
Indices: 6066326--6066380 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
6066316 ATTTTTAAGT
6066326 AAAAGTTTCGAAACTTTCATC
1 AAAAGTTTCGAAACTTTC-TC
6066347 -AAAGTTTCGAAACTTTCTC
1 AAAAGTTTCGAAACTTTCTC
*
6066366 AAAAGTTTTGAAACT
1 AAAAGTTTCGAAACT
6066381 CCATGTGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
AAAAGTTTCGAAACTTTCTC
Found at i:6068948 original size:20 final size:20
Alignment explanation
Indices: 6068925--6068974 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6068915 TTTGAGTTGA
*
6068925 TTAAAATATGTTT-AAAGTGT
1 TTAAAATATGTTTAAAACT-T
*
6068945 TTAAAATGTGTTTAAAACTT
1 TTAAAATATGTTTAAAACTT
6068965 TTAAAATATG
1 TTAAAATATG
6068975 AAAAACATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATATGTTTAAAACTT
Found at i:6068955 original size:11 final size:11
Alignment explanation
Indices: 6068925--6068961 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6068915 TTTGAGTTGA
*
6068925 TTAAAATATGT
1 TTAAAATGTGT
6068936 TT-AAA-GTGT
1 TTAAAATGTGT
6068945 TTAAAATGTGT
1 TTAAAATGTGT
6068956 TTAAAA
1 TTAAAA
6068962 CTTTTAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
9 5 0.22
10 6 0.26
11 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (11 bp):
TTAAAATGTGT
Found at i:6069073 original size:19 final size:19
Alignment explanation
Indices: 6069049--6069114 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
6069039 TAGTTTGGAA
6069049 AAACTTTATAAGAGTTTTC
1 AAACTTTATAAGAGTTTTC
6069068 AAACTTTTATTAAGAG-TTTC
1 AAAC-TTTA-TAAGAGTTTTC
* * *
6069088 GAAACTTTACAAAAGTTTTG
1 -AAACTTTATAAGAGTTTTC
6069108 AAACTTT
1 AAACTTT
6069115 GCACCCATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 15 0.38
20 15 0.38
21 10 0.25
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (19 bp):
AAACTTTATAAGAGTTTTC
Found at i:6069087 original size:20 final size:21
Alignment explanation
Indices: 6069049--6069114 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 21
6069039 TAGTTTGGAA
6069049 AAAC-TTTATAAGAGTTTTC-
1 AAACTTTTATAAGAGTTTTCG
6069068 AAACTTTTATTAAGAG-TTTCG
1 AAACTTTTA-TAAGAGTTTTCG
* *
6069089 AAAC-TTTACAAAAGTTTT-G
1 AAACTTTTATAAGAGTTTTCG
6069108 AAACTTT
1 AAACTTT
6069115 GCACCCATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 13 0.32
20 17 0.43
21 10 0.25
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
AAACTTTTATAAGAGTTTTCG
Found at i:6081546 original size:2 final size:2
Alignment explanation
Indices: 6081539--6081571 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6081529 CACGGCACCC
6081539 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6081572 CTTAACAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6085211 original size:2 final size:2
Alignment explanation
Indices: 6085206--6085268 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
6085196 ACACACACAC
6085206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6085248 AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
6085269 TAAATTCCTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6085334 original size:2 final size:2
Alignment explanation
Indices: 6085327--6085374 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
6085317 TAATAAAGGA
6085327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6085369 AT AT AT
1 AT AT AT
6085375 TAACATGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6085430 original size:2 final size:2
Alignment explanation
Indices: 6085425--6085461 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6085415 TCAACACACC
6085425 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6085462 TAAATTCTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6086771 original size:31 final size:31
Alignment explanation
Indices: 6086683--6086789 Score: 169
Period size: 32 Copynumber: 3.4 Consensus size: 31
6086673 CTTTATTTTG
*
6086683 TTCGGGTCGGGTCGAGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCG-GGTTTTTAAGTGTGATA
*
6086715 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGCTA
1 TTCGGGTCGGGTCGGG-TTTTTAAGTGTGATA
*
6086747 TTCGGGTCGGGTCGGGGTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTAAGTGTGATA
6086778 TTCGGGTCGGGT
1 TTCGGGTCGGGT
6086790 TTAGGGTGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
31 26 0.37
32 44 0.63
ACGTcount: A:0.11, C:0.11, G:0.39, T:0.38
Consensus pattern (31 bp):
TTCGGGTCGGGTCGGGTTTTTAAGTGTGATA
Found at i:6089435 original size:13 final size:15
Alignment explanation
Indices: 6089396--6089431 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
6089386 ATCTGAAAAA
6089396 TATATAATTTTACCT
1 TATATAATTTTACCT
6089411 TATATAATTTTACCT
1 TATATAATTTTACCT
6089426 TATATA
1 TATATA
6089432 TTTAAGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.11, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATAATTTTACCT
Found at i:6089897 original size:10 final size:11
Alignment explanation
Indices: 6089869--6089895 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6089859 TATTTATATG
6089869 TTTTTTAGATT
1 TTTTTTAGATT
6089880 TTTTTTAGATT
1 TTTTTTAGATT
6089891 TTTTT
1 TTTTT
6089896 AGTGAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (11 bp):
TTTTTTAGATT
Found at i:6091162 original size:21 final size:21
Alignment explanation
Indices: 6091111--6091183 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
6091101 ATTCTGACTA
* *
6091111 TCGCATTGCGATTTTCCAAAT
1 TCGCAATGCGATTTTCCTAAT
* **
6091132 TCCCGTTGCGATTTTCCTAAT
1 TCGCAATGCGATTTTCCTAAT
* * *
6091153 TCGCAATGCGA-ATTCGTAAA
1 TCGCAATGCGATTTTCCTAAT
6091173 TCGCAATGCGA
1 TCGCAATGCGA
6091184 ATACGTAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 17 0.40
21 26 0.60
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCTAAT
Found at i:6091178 original size:20 final size:20
Alignment explanation
Indices: 6091153--6091265 Score: 142
Period size: 20 Copynumber: 5.7 Consensus size: 20
6091143 TTTTCCTAAT
6091153 TCGCAATGCGAATTCGTAAA
1 TCGCAATGCGAATTCGTAAA
*
6091173 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTCGTAAA
*
6091193 TCGCAATGCGAA-TC-TGACTA
1 TCGCAATGCGAATTCGT-A-AA
*
6091213 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTCGTAAA
6091233 TCGCAATGCGAATAT-GTAAA
1 TCGCAATGCGAAT-TCGTAAA
*
6091253 TCGCAACGCGAAT
1 TCGCAATGCGAAT
6091266 CTGACTATCG
Statistics
Matches: 81, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 75 0.93
21 2 0.02
22 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATTCGTAAA
Found at i:6091199 original size:40 final size:40
Alignment explanation
Indices: 6091153--6091265 Score: 160
Period size: 40 Copynumber: 2.8 Consensus size: 40
6091143 TTTTCCTAAT
6091153 TCGCAATGCGAATTCGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTCGTAAATCGCAATGCGAATACGTAAA
*
6091193 TCGCAATGCGAA-TC-TGACTATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATTCGT-A-AATCGCAATGCGAATACGTAAA
*
6091233 TCGCAATGCGAATAT-GTAAATCGCAACGCGAAT
1 TCGCAATGCGAAT-TCGTAAATCGCAATGCGAAT
6091266 CTGACTATCG
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 58 0.89
41 1 0.02
42 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATTCGTAAATCGCAATGCGAATACGTAAA
Found at i:6091223 original size:60 final size:60
Alignment explanation
Indices: 6091153--6091280 Score: 229
Period size: 60 Copynumber: 2.1 Consensus size: 60
6091143 TTTTCCTAAT
* *
6091153 TCGCAATGCGAATTCGTAAATCGCAATGCGAATACGTAAATCGCAATGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACTA
*
6091213 TCGCAATGCGAATACGTAAATCGCAATGCGAATATGTAAATCGCAACGCGAATCTGACTA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACTA
6091273 TCGCAATG
1 TCGCAATG
6091281 AGATTCTGAC
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 65 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (60 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAACGCGAATCTGACTA
Found at i:6091275 original size:20 final size:20
Alignment explanation
Indices: 6091192--6091319 Score: 136
Period size: 20 Copynumber: 6.4 Consensus size: 20
6091182 GAATACGTAA
6091192 ATCGCAATGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
*
6091212 ATCGCAATGCGAATAC-GTA-A
1 ATCGCAATGCGAAT-CTG-ACT
* *
6091232 ATCGCAATGCGAATATGTA-A
1 ATCGCAATGCGAATCTG-ACT
*
6091252 ATCGCAACGCGAATCTGACT
1 ATCGCAATGCGAATCTGACT
* *
6091272 ATCGCAATGAGATTCTGACT
1 ATCGCAATGCGAATCTGACT
* *
6091292 ATCGCAACGCGATTCTGACT
1 ATCGCAATGCGAATCTGACT
6091312 ATCGCAAT
1 ATCGCAAT
6091320 ACTGAATTTC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.01
20 90 0.97
21 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATCTGACT
Found at i:6091276 original size:40 final size:40
Alignment explanation
Indices: 6091153--6091303 Score: 150
Period size: 40 Copynumber: 3.8 Consensus size: 40
6091143 TTTTCCTAAT
*
6091153 TCGCAATGCGAAT-TCGTA-AATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATCT-G-ACAATCGCAACGCGAATACGTAAA
* *
6091193 TCGCAATGCGAATCTGACTATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATCTGACAATCGCAACGCGAATACGTAAA
* *
6091233 TCGCAATGCGAATATGTA-AATCGCAACGCGAAT-C-TGACTA
1 TCGCAATGCGAATCTG-ACAATCGCAACGCGAATACGT-A-AA
* * *
6091273 TCGCAATGAGATTCTGACTATCGCAACGCGA
1 TCGCAATGCGAATCTGACAATCGCAACGCGA
6091304 TTCTGACTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 89 0.93
41 2 0.02
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (40 bp):
TCGCAATGCGAATCTGACAATCGCAACGCGAATACGTAAA
Found at i:6092210 original size:24 final size:24
Alignment explanation
Indices: 6092157--6092212 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
6092147 CAGTATTCGA
6092157 AATTTT-ATCTTGGTCAATACCCG
1 AATTTTGATCTTGGTCAATACCCG
* *
6092180 AACTTTGATCTTGGTCAATACTCG
1 AATTTTGATCTTGGTCAATACCCG
*
6092204 GATTTTGAT
1 AATTTTGAT
6092213 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (24 bp):
AATTTTGATCTTGGTCAATACCCG
Found at i:6092424 original size:14 final size:14
Alignment explanation
Indices: 6092405--6092434 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6092395 AGAAAAAAAT
6092405 AAATCCCCAAAGAA
1 AAATCCCCAAAGAA
*
6092419 AAATCCCCGAAGAA
1 AAATCCCCAAAGAA
6092433 AA
1 AA
6092435 TACCACAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.27, G:0.10, T:0.07
Consensus pattern (14 bp):
AAATCCCCAAAGAA
Found at i:6094647 original size:20 final size:20
Alignment explanation
Indices: 6094622--6094675 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
6094612 GACATTCATT
6094622 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCAGAA-A
*
6094642 TGACTATCGCAACACAGAAA
1 TGACTATCGCAACGCAGAAA
6094662 TGACTATCGCAACG
1 TGACTATCGCAACG
6094676 AGAGAATCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCAGAAA
Found at i:6094686 original size:14 final size:14
Alignment explanation
Indices: 6094667--6094720 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
6094657 AGAAATGACT
6094667 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
6094681 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
6094700 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
6094714 ATCGCAA
1 ATCGCAA
6094721 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:6094697 original size:33 final size:33
Alignment explanation
Indices: 6094658--6094740 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
6094648 TCGCAACACA
**
6094658 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
6094691 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAATGC
*
6094724 GAAAATGAAAATTGCAA
1 G-AAATGAAAATCGCAA
6094741 TGCGAAACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 32 0.70
34 14 0.30
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAATGC
Found at i:6094836 original size:20 final size:19
Alignment explanation
Indices: 6094802--6094842 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
6094792 GTTGCGATTT
*
6094802 TCATTTCGCATTGCGATAG
1 TCATTTCGCAATGCGATAG
6094821 TCATTTCCGCAATGCGATAG
1 TCATTT-CGCAATGCGATAG
6094841 TC
1 TC
6094843 TGTTTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (19 bp):
TCATTTCGCAATGCGATAG
Found at i:6096972 original size:20 final size:20
Alignment explanation
Indices: 6096949--6097151 Score: 220
Period size: 20 Copynumber: 10.3 Consensus size: 20
6096939 GAAACTTAAA
6096949 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
6096969 ATCGCAACACGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
6096989 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
* *
6097009 ATTGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
*
6097023 ATCGCAATGCGCGAAAATGACC
1 ATCGCAAT--GCGAAAATGACT
* *
6097045 ATCGCAACGCGAAAATAACT
1 ATCGCAATGCGAAAATGACT
**
6097065 ATCGCAACACGAAAATGACT
1 ATCGCAATGCGAAAATGACT
6097085 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
6097105 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
* **
6097125 ATCGCAATGAGAATTTGACT
1 ATCGCAATGCGAAAATGACT
6097145 ATCGCAA
1 ATCGCAA
6097152 CGAGAGAATC
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
14 6 0.04
16 2 0.01
17 1 0.01
18 4 0.03
19 2 0.01
20 132 0.86
22 7 0.05
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:6097084 original size:76 final size:74
Alignment explanation
Indices: 6096948--6097131 Score: 206
Period size: 76 Copynumber: 2.4 Consensus size: 74
6096938 TGAAACTTAA
* * ** ** *
6096948 AATCGCAATGCGAAAATGACTATCGCAACACGAAAATGACTATCGCAATGCGAATTTGACTATTG
1 AATCGCAATGCGAAAATGACCATCGCAACACGAAAATAACTATCGCAACACGAAAATGACTATCG
6097013 CAACGAGAG
66 CAACGAGAG
*
6097022 AATCGCAATGCGCGAAAATGACCATCGCAACGCGAAAATAACTATCGCAACACGAAAATGACTAT
1 AATCGCAAT--GCGAAAATGACCATCGCAACACGAAAATAACTATCGCAACACGAAAATGACTAT
*
6097087 CGCAATGCGAAAATG
64 CGCAA--CG-AGA-G
*
6097102 ACTATCGCAATGCGAAAATGACTATCGCAA
1 A--ATCGCAATGCGAAAATGACCATCGCAA
6097132 TGAGAATTTG
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
74 9 0.10
76 51 0.55
78 2 0.02
79 2 0.02
80 20 0.22
82 8 0.09
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (74 bp):
AATCGCAATGCGAAAATGACCATCGCAACACGAAAATAACTATCGCAACACGAAAATGACTATCG
CAACGAGAG
Found at i:6097227 original size:20 final size:20
Alignment explanation
Indices: 6097202--6097244 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6097192 CTTTCGTTGT
6097202 GATAGTCAAATTCGCATTGC
1 GATAGTCAAATTCGCATTGC
** *
6097222 GATAGTCATTTTCGCGTTGC
1 GATAGTCAAATTCGCATTGC
6097242 GAT
1 GAT
6097245 TTTGTTGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (20 bp):
GATAGTCAAATTCGCATTGC
Found at i:6097254 original size:14 final size:14
Alignment explanation
Indices: 6097229--6097272 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
6097219 TGCGATAGTC
*
6097229 ATTTTCGCGTTGCG
1 ATTTTCTCGTTGCG
* *
6097243 ATTTTGTTGTTGCG
1 ATTTTCTCGTTGCG
6097257 ATTTTCTCGTTGCG
1 ATTTTCTCGTTGCG
6097271 AT
1 AT
6097273 AGTCATTTTC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
ATTTTCTCGTTGCG
Found at i:6099032 original size:20 final size:20
Alignment explanation
Indices: 6099011--6099172 Score: 131
Period size: 20 Copynumber: 8.4 Consensus size: 20
6099001 TGAAACTTAA
*
6099011 AATCGCAACACGAAAATGAA
1 AATCGCAACACGAAAATGAC
*
6099031 AATTGCAACACGAAAATGAC
1 AATCGCAACACGAAAATGAC
* *
6099051 TATCGCAACACGAAAAGGAC
1 AATCGCAACACGAAAATGAC
* * **
6099071 TATCGCAACGCGAATTTGAC
1 AATCGCAACACGAAAATGAC
* *
6099091 TATCGC-A-ACG-CAA-G--
1 AATCGCAACACGAAAATGAC
* *
6099105 AATCGCAACGCG-AAATGAA
1 AATCGCAACACGAAAATGAC
6099124 AATCGCAACACGAAAATGAC
1 AATCGCAACACGAAAATGAC
* **
6099144 TATCGCAACACGAATTTGAC
1 AATCGCAACACGAAAATGAC
*
6099164 TATCGCAAC
1 AATCGCAAC
6099173 GCAAGAATCA
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
14 5 0.04
15 1 0.01
16 5 0.04
17 1 0.01
18 2 0.02
19 12 0.10
20 89 0.77
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
AATCGCAACACGAAAATGAC
Found at i:6099158 original size:73 final size:73
Alignment explanation
Indices: 6099052--6099201 Score: 273
Period size: 73 Copynumber: 2.1 Consensus size: 73
6099042 GAAAATGACT
* *
6099052 ATCGCAACACGAAAAGGACTATCGCAACGCGAATTTGACTATCGCAACGCAAGAATCGCAACGCG
1 ATCGCAACACGAAAAGGACTATCGCAACACGAATTTGACTATCGCAACGCAAGAATCACAACGCG
6099117 AAATGAAA
66 AAATGAAA
*
6099125 ATCGCAACACGAAAATGACTATCGCAACACGAATTTGACTATCGCAACGCAAGAATCACAACGCG
1 ATCGCAACACGAAAAGGACTATCGCAACACGAATTTGACTATCGCAACGCAAGAATCACAACGCG
6099190 AAATGAAA
66 AAATGAAA
6099198 ATCG
1 ATCG
6099202 TAATGACATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.15
Consensus pattern (73 bp):
ATCGCAACACGAAAAGGACTATCGCAACACGAATTTGACTATCGCAACGCAAGAATCACAACGCG
AAATGAAA
Found at i:6099604 original size:22 final size:22
Alignment explanation
Indices: 6099542--6099604 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
6099532 TGACCGTGAA
* *
6099542 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
6099564 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
6099586 TGATTTCGTCGGAGATGGG
1 TGATTTCGTCGGAGATGGG
6099605 TATGGATGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.21, C:0.14, G:0.40, T:0.25
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:6099828 original size:20 final size:20
Alignment explanation
Indices: 6099805--6099877 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
6099795 CGATAGTCAG
6099805 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
6099825 ATTCGCATTGCGCTTTACGT
1 ATTCGCATTGCGATTTACGT
6099845 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
6099865 ATTCGCATTGCGA
1 ATTCGCATTGCGA
6099878 ATTAGGAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:6099898 original size:21 final size:21
Alignment explanation
Indices: 6099867--6099940 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
6099857 ATTTACGTAT
* *
6099867 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
6099888 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
6099909 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
6099930 TCGCAATGCGA
1 TCGCAATGCGA
6099941 TAGTCAGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:6101683 original size:17 final size:17
Alignment explanation
Indices: 6101641--6101683 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6101631 TAAAAAAAAA
6101641 TAAAAT-TA-AATAATT
1 TAAAATATATAATAATT
6101656 TAAAATATATAATAATT
1 TAAAATATATAATAATT
* *
6101673 TTAAATTTATA
1 TAAAATATATA
6101684 GAGGACTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.25
16 2 0.08
17 16 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATATATAATAATT
Found at i:6110987 original size:20 final size:20
Alignment explanation
Indices: 6110962--6111074 Score: 174
Period size: 20 Copynumber: 5.6 Consensus size: 20
6110952 TAATGGAAAA
6110962 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
6110982 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
6111002 TCGCGTTGCGATAGTCTACA-G
1 TCGCGTTGCGAT--TTTCCATT
6111023 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
6111043 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
6111063 TCGCGTTGCGAT
1 TCGCGTTGCGAT
6111075 AGTCTACAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.05
20 64 0.76
21 12 0.14
22 4 0.05
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.41
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:6111076 original size:61 final size:61
Alignment explanation
Indices: 6110937--6111095 Score: 255
Period size: 61 Copynumber: 2.6 Consensus size: 61
6110927 ATTCGCGTTG
* ** * *
6110937 CATTTCGCGTTGCGATAATGGAAAATCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
6110998 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
*
6111059 CATTTCGCGTTGCGATAGTCTACAGTTGTCGTTGCGA
1 CATTTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGA
6111096 ATTCGTTGCG
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
61 83 0.91
62 8 0.09
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.38
Consensus pattern (61 bp):
CATTTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCATTTCGCGTTGCGATTTTC
Found at i:6111108 original size:33 final size:33
Alignment explanation
Indices: 6111066--6111128 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
6111056 TTCCATTTCG
6111066 CGTTGCGATAGTCTACAGTTGTCGTTGCGAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGAATT
6111099 CGTTGCGATAGTCTACAGTTGTCGTTGCGA
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGA
6111129 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (33 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGAATT
Found at i:6111240 original size:6 final size:6
Alignment explanation
Indices: 6111229--6111253 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6111219 GACACGTATT
6111229 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
6111254 AATGGATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:6111288 original size:21 final size:21
Alignment explanation
Indices: 6111262--6111376 Score: 99
Period size: 21 Copynumber: 5.6 Consensus size: 21
6111252 GAAATGGATA
6111262 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
6111283 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
6111303 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
6111324 ATCGCAACGTGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
* *
6111344 ACCACAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
6111365 ATCGCAACGCGA
1 ATCGCAACGCGA
6111377 AATGCAACGC
Statistics
Matches: 66, Mismatches: 26, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
20 27 0.41
21 39 0.59
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:6111308 original size:41 final size:41
Alignment explanation
Indices: 6111251--6111380 Score: 224
Period size: 41 Copynumber: 3.2 Consensus size: 41
6111241 ACCACGACCA
*
6111251 CGAAATGGATAATCGCAACGCGATTTTCAACTATCGCAACG
1 CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACG
6111292 CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACG
1 CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACG
* * *
6111333 TGAAATGGAAAACCACAACGCGATTTTCAACTATCGCAACG
1 CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACG
6111374 CGAAATG
1 CGAAATG
6111381 CAACGCGAAT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 84 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
CGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACG
Found at i:6111428 original size:20 final size:20
Alignment explanation
Indices: 6111405--6111468 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
6111395 GATGATGGAG
6111405 ATCGCGTTGCGATTTCAACT
1 ATCGCGTTGCGATTTCAACT
** ** ** *
6111425 ATCGCAATGCGAAATGGA-G
1 ATCGCGTTGCGATTTCAACT
6111444 ATCGCGTTGCGATTTCAACT
1 ATCGCGTTGCGATTTCAACT
6111464 ATCGC
1 ATCGC
6111469 AATGCGAAAT
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (20 bp):
ATCGCGTTGCGATTTCAACT
Found at i:6111474 original size:20 final size:20
Alignment explanation
Indices: 6111412--6111475 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
6111402 GAGATCGCGT
6111412 TGCGATTTCAACTATCGCAA
1 TGCGATTTCAACTATCGCAA
** ** * **
6111432 TGCGAAATGGA-GATCGCGT
1 TGCGATTTCAACTATCGCAA
6111451 TGCGATTTCAACTATCGCAA
1 TGCGATTTCAACTATCGCAA
6111471 TGCGA
1 TGCGA
6111476 AATGGAAAAT
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (20 bp):
TGCGATTTCAACTATCGCAA
Found at i:6111487 original size:20 final size:20
Alignment explanation
Indices: 6111464--6111536 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
6111454 GATTTCAACT
*
6111464 ATCGCAATGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
6111484 ATCGCAACGCGATCTCCAACT
1 ATCGCAACGCGAAATGGAA-A
6111505 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
6111525 AACGCAACGCGA
1 ATCGCAACGCGA
6111537 TTTTCAACTA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 25 0.62
21 15 0.38
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.12
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:6111517 original size:41 final size:40
Alignment explanation
Indices: 6111413--6111561 Score: 210
Period size: 41 Copynumber: 3.7 Consensus size: 40
6111403 AGATCGCGTT
* ***
6111413 GCGATTTCAACTATCGCAATGCGAAATGG-AGATCGCGTT
1 GCGATTTCAACTATCGCAATGCGAAATGGAAAATCGCAAC
6111452 GCGATTTCAACTATCGCAATGCGAAATGGAAAATCGCAAC
1 GCGATTTCAACTATCGCAATGCGAAATGGAAAATCGCAAC
* * *
6111492 GCGATCTCCAACTATCGCAACGCGAAATGGAAAAACGCAAC
1 GCGAT-TTCAACTATCGCAATGCGAAATGGAAAATCGCAAC
6111533 GCGATTTTCAACTATCGCAATGCGAAATG
1 GCGA-TTTCAACTATCGCAATGCGAAATG
6111562 CAACGTGAAT
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.30
40 11 0.11
41 57 0.58
42 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (40 bp):
GCGATTTCAACTATCGCAATGCGAAATGGAAAATCGCAAC
Found at i:6111578 original size:41 final size:40
Alignment explanation
Indices: 6111411--6111578 Score: 125
Period size: 41 Copynumber: 4.2 Consensus size: 40
6111401 GGAGATCGCG
*
6111411 TTGCGA-TTTCAACTATCGCAATGCGAAATGGAGATCGCG--
1 TTGCGATTTTCAACTATCGCAATGCGAAATGGA-A-CGTGAA
**
6111450 TTGCGA-TTTCAACTATCGCAATGCGAAATGGAAAATCGCAA
1 TTGCGATTTTCAACTATCGCAATGCGAAATGGAACGT-G-AA
* * * * *
6111491 -CGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACG-CAA
1 TTGCGATTTTCAACTATCGCAATGCGAAATGG---AACGTGAA
* *
6111532 -CGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAA
1 TTGCGATTTTCAACTATCGCAATGCGAAATGGAACGTGAA
6111571 TTTGCGAT
1 -TTGCGAT
6111579 AGTGGAGATC
Statistics
Matches: 102, Mismatches: 16, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
38 6 0.06
39 34 0.33
40 4 0.04
41 56 0.55
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (40 bp):
TTGCGATTTTCAACTATCGCAATGCGAAATGGAACGTGAA
Found at i:6111959 original size:20 final size:20
Alignment explanation
Indices: 6111936--6111982 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
6111926 GAACACCAAT
6111936 TTCGCAACACAGTTTTCAAA
1 TTCGCAACACAGTTTTCAAA
* * *
6111956 TTCGTAACGCGGTTTTCAAA
1 TTCGCAACACAGTTTTCAAA
6111976 TTCGCAA
1 TTCGCAA
6111983 TGCAAATTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (20 bp):
TTCGCAACACAGTTTTCAAA
Found at i:6112361 original size:21 final size:21
Alignment explanation
Indices: 6112330--6112392 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
6112320 TTGTGAAATC
* * *
6112330 GAAATTCGCGTTGCGAATTTT
1 GAAAATCGCGTTACGAATTTG
*
6112351 GAGAATCGCGTTACGAATTTG
1 GAAAATCGCGTTACGAATTTG
*
6112372 GAAAATCGCGTTATGAATTTG
1 GAAAATCGCGTTACGAATTTG
6112393 AATGCAAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (21 bp):
GAAAATCGCGTTACGAATTTG
Found at i:6119029 original size:24 final size:24
Alignment explanation
Indices: 6118984--6119029 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
6118974 AAATATTTAA
**
6118984 TAAATATTTATATTTTTTTAAATT
1 TAAATATTTATATTTTCATAAATT
6119008 TAAATATTTAT-TTTTACATAAA
1 TAAATATTTATATTTT-CATAAA
6119030 CCAAAATACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TAAATATTTATATTTTCATAAATT
Found at i:6119490 original size:40 final size:39
Alignment explanation
Indices: 6119396--6119491 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 39
6119386 TGCATAAGGA
*
6119396 CTTTAGGCTAATTGATATACTTTCAAAGTTGAAGCATAAC
1 CTTTAGGC-AATTAATATACTTTCAAAGTTGAAGCATAAC
*** * * *
6119436 CTTTTCTTCTATTAATATACTTTCAAAGTTGAAGCATCAT
1 C-TTTAGGCAATTAATATACTTTCAAAGTTGAAGCATAAC
6119476 CTTTAGGCAAATTAAT
1 CTTTAGGC-AATTAAT
6119492 GAGTTGGAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
39 4 0.09
40 35 0.81
41 4 0.09
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (39 bp):
CTTTAGGCAATTAATATACTTTCAAAGTTGAAGCATAAC
Found at i:6120415 original size:60 final size:59
Alignment explanation
Indices: 6120351--6120533 Score: 224
Period size: 60 Copynumber: 3.1 Consensus size: 59
6120341 TTACATATTT
* * * * *
6120351 GGATGAAATTGAAAGATCTAAAATTTTAGGGACCAATTTAGAATGAGATTCATAGTTTGG
1 GGATGAAATT-AAAGATCTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAG
* *
6120411 GGATGAAATTCAAATGATC-AAAAGTTTAAGGACTAATTTAGAATGAGAGTCATGGTTTAA
1 GGATGAAATT-AAA-GATCTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAG
* * * *
6120471 GGATGAAATTAGAATATTTAAAAGTTTAAGGACTAATTTAAAATAAGAGTCATAGTTTAG
1 GGATGAAATTA-AAGATCTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAG
6120531 GGA
1 GGA
6120534 CATATGATTC
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 3 0.03
60 99 0.93
61 4 0.04
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATGAAATTAAAGATCTAAAAGTTTAAGGACTAATTTAGAATGAGAGTCATAGTTTAG
Found at i:6120455 original size:29 final size:30
Alignment explanation
Indices: 6120423--6120510 Score: 76
Period size: 31 Copynumber: 3.0 Consensus size: 30
6120413 ATGAAATTCA
6120423 AATGA-TCAAAAGTTTAAGGACTAATTTAG
1 AATGAGTCAAAAGTTTAAGGACTAATTTAG
** *
6120452 AATGAGAGTC-ATGGTTTAAGGA-TGAAATTAG
1 AAT--GAGTCAAAAGTTTAAGGACT-AATTTAG
* *
6120483 AAT-ATTTAAAAGTTTAAGGACTAATTTA
1 AATGAGTCAAAAGTTTAAGGACTAATTTA
6120511 AAATAAGAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
28 2 0.04
29 18 0.40
30 2 0.04
31 21 0.47
32 2 0.04
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (30 bp):
AATGAGTCAAAAGTTTAAGGACTAATTTAG
Found at i:6120469 original size:31 final size:30
Alignment explanation
Indices: 6120433--6120534 Score: 91
Period size: 31 Copynumber: 3.4 Consensus size: 30
6120423 AATGATCAAA
6120433 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AGTTTAAGGACTAATTTAGAAT-AGAGTCAT
* * ** * *
6120464 GGTTTAAGGA-TGAAATTAGAATA-TTTAAA
1 AGTTTAAGGACT-AATTTAGAATAGAGTCAT
*
6120493 AGTTTAAGGACTAATTTAAAATAAGAGTCAT
1 AGTTTAAGGACTAATTTAGAAT-AGAGTCAT
*
6120524 AGTTTAGGGAC
1 AGTTTAAGGAC
6120535 ATATGATTCA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
29 19 0.36
30 4 0.08
31 30 0.57
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (30 bp):
AGTTTAAGGACTAATTTAGAATAGAGTCAT
Found at i:6120797 original size:20 final size:21
Alignment explanation
Indices: 6120774--6120819 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
6120764 TTATCAATAA
6120774 TATAATAA-TATAATATCATT
1 TATAATAATTATAATATCATT
6120794 TATAA-AATTATAATATCATT
1 TATAATAATTATAATATCATT
*
6120814 CATAAT
1 TATAAT
6120820 TGTGTCTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATAATTATAATATCATT
Found at i:6123369 original size:41 final size:41
Alignment explanation
Indices: 6123304--6123620 Score: 291
Period size: 41 Copynumber: 7.7 Consensus size: 41
6123294 TATGCATAGC
* * * *
6123304 GGCGTTTTAAGTAAAAATGCCGCTAAAGACTCGTACTATCGT
1 GGCGTTTTTA-TACAAACGCCGCTAAAGACTCGTACTTTCGT
* * *
6123346 GGCGTTTATATACAAATGTCGCTAAAGACTCGTACTTTCGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTCGT
* *
6123387 GGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTCGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTCGT
* * * * * *
6123428 GGCATTTTTATACAAATGTCGCTATAA-ACTAGTACTGTAGT
1 GGCGTTTTTATACAAACGCCGCTA-AAGACTCGTACTTTCGT
* * * * *
6123469 GGCGTTTTGATACAAACGCCGCTAAAGATTCTTACTTTAGC
1 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTCGT
* * * * *
6123510 GGTGTTTATAAACACAAATGCCGCTATAA-ACTCGTACTTTGGT
1 GGCGTTT-T-TATACAAACGCCGCTA-AAGACTCGTACTTTCGT
* * * *
6123553 AGCGTTTTTATACAAACGCCGCTATAA-AGTAGTACTTTGGT
1 GGCGTTTTTATACAAACGCCGCTA-AAGACTCGTACTTTCGT
6123594 GGC-TTTTTATACAAACGCCGCTAAAGA
1 GGCGTTTTTATACAAACGCCGCTAAAGA
6123621 TTTATACTTT
Statistics
Matches: 228, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.01
40 23 0.10
41 161 0.71
42 12 0.05
43 28 0.12
44 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTCGT
Found at i:6123577 original size:125 final size:124
Alignment explanation
Indices: 6123398--6123632 Score: 330
Period size: 125 Copynumber: 1.9 Consensus size: 124
6123388 GCATTTTTAT
* * *
6123398 ACAAACGCCGCTAAAGACTCATACTTTCGTGGCATTTTTATACAAATGTCGCTATAAACTAGTAC
1 ACAAACGCCGCTAAAGACTCATACTTTCGTAGCATTTTTATACAAACGCCGCTATAAACTAGTAC
6123463 TGTAGTGGCGTTTTGATACAAACGCCGCTAAAGATTCT-TACTTTAGCGGTGTTTATAAAC
66 TGTAGTGGC-TTTTGATACAAACGCCGCTAAAGATT-TATACTTTAGCGGTGTTTATAAAC
* * * * *
6123523 ACAAATGCCGCTATAA-ACTCGTACTTTGGTAGCGTTTTTATACAAACGCCGCTATAAAGTAGTA
1 ACAAACGCCGCTA-AAGACTCATACTTTCGTAGCATTTTTATACAAACGCCGCTATAAACTAGTA
* * *
6123587 CTTTGGTGGCTTTTTATACAAACGCCGCTAAAGATTTATACTTTAG
65 CTGTAGTGGCTTTTGATACAAACGCCGCTAAAGATTTATACTTTAG
6123633 GAGCGTTCGT
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
123 1 0.01
124 33 0.34
125 61 0.63
126 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (124 bp):
ACAAACGCCGCTAAAGACTCATACTTTCGTAGCATTTTTATACAAACGCCGCTATAAACTAGTAC
TGTAGTGGCTTTTGATACAAACGCCGCTAAAGATTTATACTTTAGCGGTGTTTATAAAC
Found at i:6124312 original size:24 final size:24
Alignment explanation
Indices: 6124285--6124338 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
6124275 CGTTCGTGAA
*
6124285 CGTTCGGATATGTTCGTTTATATG
1 CGTTCAGATATGTTCGTTTATATG
* * *
6124309 CGTTTAGTTATGTTCGTTTATGTG
1 CGTTCAGATATGTTCGTTTATATG
6124333 CGTTCA
1 CGTTCA
6124339 TTTATGTTTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.13, G:0.24, T:0.48
Consensus pattern (24 bp):
CGTTCAGATATGTTCGTTTATATG
Found at i:6124343 original size:24 final size:24
Alignment explanation
Indices: 6124293--6124346 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6124283 AACGTTCGGA
*
6124293 TATGTTCGTTTATATGCGTTTAGT
1 TATGTTCGTTTATATGCGTTCAGT
* *
6124317 TATGTTCGTTTATGTGCGTTCATT
1 TATGTTCGTTTATATGCGTTCAGT
6124341 TATGTT
1 TATGTT
6124347 TAACCTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.09, G:0.20, T:0.56
Consensus pattern (24 bp):
TATGTTCGTTTATATGCGTTCAGT
Found at i:6125872 original size:10 final size:10
Alignment explanation
Indices: 6125857--6125931 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
6125847 GGGTTTCCAA
6125857 CGTTTATGTT
1 CGTTTATGTT
6125867 CGTTTATGTT
1 CGTTTATGTT
6125877 CG----TGTT
1 CGTTTATGTT
*
6125883 CATTTATGTT
1 CGTTTATGTT
*
6125893 CGTGTT-CGTTT
1 CGT-TTATG-TT
* *
6125904 ATGTTTGTGTT
1 -CGTTTATGTT
6125915 CGTTTATGTT
1 CGTTTATGTT
6125925 CGTTTAT
1 CGTTTAT
6125932 TTATTAAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 5 0.10
10 34 0.68
11 8 0.16
12 3 0.06
ACGTcount: A:0.09, C:0.11, G:0.21, T:0.59
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:6125888 original size:16 final size:16
Alignment explanation
Indices: 6125863--6125927 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
6125853 CCAACGTTTA
6125863 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
6125879 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
6125895 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
6125911 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
6125927 T
1 T
6125928 TTATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.08, C:0.11, G:0.23, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:6126022 original size:16 final size:16
Alignment explanation
Indices: 6125997--6126028 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6125987 AAAAATTTTT
6125997 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
6126013 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
6126029 CTTATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.12, G:0.22, T:0.56
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:6126267 original size:43 final size:44
Alignment explanation
Indices: 6126213--6126296 Score: 143
Period size: 43 Copynumber: 1.9 Consensus size: 44
6126203 AGCTTTCACT
6126213 TTTTTTCCTGGGATTTATTTAATTTTTCTTCGGGGTTGTTTTTA
1 TTTTTTCCTGGGATTTATTTAATTTTTCTTCGGGGTTGTTTTTA
**
6126257 TTTTTT-CTGGGATTTATTTTGTTTTTCTTCGGGGTTGTTT
1 TTTTTTCCTGGGATTTATTTAATTTTTCTTCGGGGTTGTTT
6126297 AACCGGGACT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 32 0.84
44 6 0.16
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.63
Consensus pattern (44 bp):
TTTTTTCCTGGGATTTATTTAATTTTTCTTCGGGGTTGTTTTTA
Found at i:6126276 original size:21 final size:21
Alignment explanation
Indices: 6126213--6126282 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
6126203 AGCTTTCACT
6126213 TTTTTTCCTGGGATTTA-TTTA
1 TTTTTT-CTGGGATTTATTTTA
* *
6126234 ATTTTTCTTCGGGGTTGT-TTTTA
1 TTTTTTC-T-GGGATT-TATTTTA
*
6126257 TTTTTTCTGGGATTTATTTTG
1 TTTTTTCTGGGATTTATTTTA
6126278 TTTTT
1 TTTTT
6126283 CTTCGGGGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 2 0.05
21 20 0.51
22 6 0.15
23 11 0.28
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.66
Consensus pattern (21 bp):
TTTTTTCTGGGATTTATTTTA
Found at i:6128291 original size:21 final size:21
Alignment explanation
Indices: 6128241--6128293 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
6128231 TAAACTTTGA
* *
6128241 TTTATTATTATATATTTCAAG
1 TTTATTGTTATAAATTTCAAG
6128262 TTTATTGTTATAAATTTCAAG
1 TTTATTGTTATAAATTTCAAG
6128283 TTTGA-TGTTAT
1 TTT-ATTGTTAT
6128294 GGATGTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (21 bp):
TTTATTGTTATAAATTTCAAG
Found at i:6128529 original size:86 final size:85
Alignment explanation
Indices: 6128386--6128740 Score: 369
Period size: 85 Copynumber: 4.2 Consensus size: 85
6128376 GTAGTTTTAA
* * * * *
6128386 TTTGCGGCGTTTGTAT-AAAAAACGCTA-TATATATCTGAACTTTTGCGGTGTTTGTATCCAAAA
1 TTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGT-TCCAAAA
* *
6128449 ATGCCGCTACAGATATGACAT
65 ACGCCGCTATAGATATGACAT
*
6128470 TTTGCGGCGTTTGTATCTAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGTATCC-AAA
1 TTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGT-TCCAAAA
* *
6128534 ACGCCGCTATAGATCTGACCT
65 ACGCCGCTATAGATATGACAT
* * * * * *
6128555 TTTGCGGCGTTTGTATCAAAAAAAG-CAGTGATAGATCTGACCTTTTGCGGCATTTATTCTAAAA
1 TTTGCGGCGTTTGTATCAAAAAACGCCACT-ATAGATATGACCTTTTGCGGCGTTTGTTCCAAAA
*
6128619 ACGCCGCTATAGATCTTGACAT
65 ACGCCGCTATAGAT-ATGACAT
* * * * * * * *
6128641 TTTGCGGCATTTGT-TCAGAAAACGCCGCAATAGAAATCGACCTTTCGCGGTGTTTGTTCAAAAA
1 TTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAA
* * *
6128705 ATGTCGCTATAGATATCGACCT
65 ACGCCGCTATAGATAT-GACAT
6128727 TTTGCGGCGTTTGT
1 TTTGCGGCGTTTGT
6128741 TCTCAAACCA
Statistics
Matches: 226, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
84 21 0.09
85 108 0.48
86 97 0.43
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (85 bp):
TTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAA
CGCCGCTATAGATATGACAT
Found at i:6128654 original size:128 final size:128
Alignment explanation
Indices: 6128386--6128734 Score: 370
Period size: 128 Copynumber: 2.7 Consensus size: 128
6128376 GTAGTTTTAA
* ** * * *
6128386 TTTGCGGCGTTTGTATAAAAAACG-CTATATATATCTGAACTTTTGCGGTGTTTGTATCCAAAAA
1 TTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTATCAAAAAA
* * * * *
6128450 TGCCGCTACAGATATGACATTTTGCGGCGTTTGTATCTAAAAACGCCACTATAGATATGACCT
66 AGCAGCTACAGATATGACATTTTGCGGCATTTATATCTAAAAACGCCACTATAGATATGACAT
* *
6128513 TTTGCGGCGTTTGTATCCAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTATCAAAAAA
1 TTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTATCAAAAAA
* * * * *
6128578 AGCAG-TGATAGATCTGACCTTTTGCGGCATTTAT-TCTAAAAACGCCGCTATAGATCTTGACAT
66 AGCAGCT-ACAGATATGACATTTTGCGGCATTTATATCTAAAAACGCCACTATAGAT-ATGACAT
* * *
6128641 TTTGCGGCATTTGT-TCAGAAAACGCCGCAATAGAAATC-GACCTTTCGCGGTGTTTGT-TCAAA
1 TTTGCGGCGTTTGTATCA-AAAACGCCGCTATAG--ATCTGACCTTTTGCGGTGTTTGTATCAAA
* * *
6128703 AAATGTC-GCTATAGATATCGACCTTTTGCGGC
63 AAAAG-CAGCTACAGATAT-GACATTTTGCGGC
6128735 GTTTGTTCTC
Statistics
Matches: 188, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
127 45 0.24
128 108 0.57
129 32 0.17
130 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (128 bp):
TTTGCGGCGTTTGTATCAAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTATCAAAAAA
AGCAGCTACAGATATGACATTTTGCGGCATTTATATCTAAAAACGCCACTATAGATATGACAT
Found at i:6128742 original size:43 final size:43
Alignment explanation
Indices: 6128386--6128740 Score: 355
Period size: 43 Copynumber: 8.3 Consensus size: 43
6128376 GTAGTTTTAA
** * * *
6128386 TTTGCGGCGTTTGTAT-AAAAAACG-CTATATATATCTGAACT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCT
* * * * *
6128427 TTTGCGGTGTTTGTATCCAAAAATGCCGCTACAGATATGACAT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCT
* *
6128470 TTTGCGGCGTTTGTATCTAAAAACGCCACTATAGATATGACCT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCT
* *
6128513 TTTGCGGCGTTTGTATC-CAAAACGCCGCTATAGATCTGACCT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCT
* * *
6128555 TTTGCGGCGTTTGTATCAAAAAAAGCAG-TGATAGATCTGACCT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCT-ATAGATATGACCT
* * * * *
6128598 TTTGCGGCATTTAT-TCTAAAAACGCCGCTATAGATCTTGACAT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGAT-ATGACCT
* * * *
6128641 TTTGCGGCATTTGT-TCAGAAAACGCCGCAATAGAAATCGACCT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATAT-GACCT
* * * *
6128684 TTCGCGGTGTTTGT-TCAAAAAATGTCGCTATAGATATCGACCT
1 TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATAT-GACCT
6128727 TTTGCGGCGTTTGT
1 TTTGCGGCGTTTGT
6128741 TCTCAAACCA
Statistics
Matches: 261, Mismatches: 46, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
41 15 0.06
42 63 0.24
43 183 0.70
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (43 bp):
TTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCT
Found at i:6131588 original size:60 final size:61
Alignment explanation
Indices: 6131521--6131641 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 61
6131511 TAAGTACGTG
6131521 CCGTGATAATTGAACAAGTCATAATAGCCC-CTCGGATTGCAGAGTTTCGAATAATTGAGT
1 CCGTGATAATTGAACAAGTCATAATAGCCCTCTCGGATTGCAGAGTTTCGAATAATTGAGT
6131581 CCGTGATAATTGAACAAGTCATAATAGCCCTCTCGGATTGCAGAGTTTCGAATAATTGAGT
1 CCGTGATAATTGAACAAGTCATAATAGCCCTCTCGGATTGCAGAGTTTCGAATAATTGAGT
6131642 TCGTTCATCG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
60 30 0.50
61 30 0.50
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (61 bp):
CCGTGATAATTGAACAAGTCATAATAGCCCTCTCGGATTGCAGAGTTTCGAATAATTGAGT
Found at i:6132579 original size:21 final size:21
Alignment explanation
Indices: 6132555--6132599 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
6132545 AGCCAACCTC
*
6132555 AAACTTTAATTCATAAACCCT
1 AAACTCTAATTCATAAACCCT
* *
6132576 AAACTCTACTTCATAAACTCT
1 AAACTCTAATTCATAAACCCT
6132597 AAA
1 AAA
6132600 GCTTAAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.31
Consensus pattern (21 bp):
AAACTCTAATTCATAAACCCT
Found at i:6132920 original size:27 final size:26
Alignment explanation
Indices: 6132863--6132912 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6132853 CATAATTCAT
6132863 AAATAAATATCTTTTAACTCACAATA
1 AAATAAATATCTTTTAACTCACAATA
*
6132889 AAATAATATAT-TTTTTA-TCACAAT
1 AAATAA-ATATCTTTTAACTCACAAT
6132913 CTAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 11 0.50
27 4 0.18
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATAAATATCTTTTAACTCACAATA
Found at i:6134189 original size:20 final size:20
Alignment explanation
Indices: 6134164--6134201 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6134154 GTTGAAGTTG
6134164 TTCACATAATTTATATTGCC
1 TTCACATAATTTATATTGCC
* *
6134184 TTCACATTATTTTTATTG
1 TTCACATAATTTATATTG
6134202 GAAATAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (20 bp):
TTCACATAATTTATATTGCC
Found at i:6137286 original size:20 final size:20
Alignment explanation
Indices: 6137261--6137299 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6137251 TTTATCTTAC
6137261 TTATAATAAAAATATTAGAT
1 TTATAATAAAAATATTAGAT
6137281 TTATAATAAAAATATTAGA
1 TTATAATAAAAATATTAGA
6137300 AAACAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TTATAATAAAAATATTAGAT
Found at i:6137456 original size:12 final size:12
Alignment explanation
Indices: 6137439--6137463 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6137429 TATAATTGGA
6137439 AATAAAAAATTT
1 AATAAAAAATTT
6137451 AATAAAAAATTT
1 AATAAAAAATTT
6137463 A
1 A
6137464 TTTCTTTATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AATAAAAAATTT
Found at i:6137868 original size:32 final size:32
Alignment explanation
Indices: 6137779--6137868 Score: 87
Period size: 32 Copynumber: 2.8 Consensus size: 32
6137769 AACCAATCCA
*
6137779 ATATTAACTCGACCCG--AAATCTAACCGATATG
1 ATATTAACCCGA-CCGAAAAATC-AACCGATATG
* *
6137811 ATATTAACCCGACCTAAAAATCAACCGATTTG
1 ATATTAACCCGACCGAAAAATCAACCGATATG
* *
6137843 ATATTCATCCGAACCGAAAAA-CAACC
1 ATATTAACCCG-ACCGAAAAATCAACC
6137869 AATCCGATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.04
32 34 0.69
33 13 0.27
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (32 bp):
ATATTAACCCGACCGAAAAATCAACCGATATG
Found at i:6138963 original size:32 final size:30
Alignment explanation
Indices: 6138927--6139006 Score: 99
Period size: 30 Copynumber: 2.6 Consensus size: 30
6138917 ATTTAGGTAG
*
6138927 TAAAATGAAACAAAAAGTTAA-CAGTGGGATAC
1 TAAAATGAAACAAAAAGTTAATCACT--G-TAC
* *
6138959 TAAAATAAAACAAAAAGTTAATGACTGTAC
1 TAAAATGAAACAAAAAGTTAATCACTGTAC
6138989 TAAAATGAAACAAAAAGT
1 TAAAATGAAACAAAAAGT
6139007 AAAATTTAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
30 20 0.47
31 1 0.02
32 20 0.47
33 2 0.05
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (30 bp):
TAAAATGAAACAAAAAGTTAATCACTGTAC
Found at i:6141166 original size:18 final size:16
Alignment explanation
Indices: 6141132--6141164 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6141122 AATCCTACCG
*
6141132 TAAATAATATATTTAT
1 TAAAAAATATATTTAT
6141148 TAAAAAATATA-TTAT
1 TAAAAAATATATTTAT
6141163 TA
1 TA
6141165 TTTTTCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAAAATATATTTAT
Found at i:6141178 original size:24 final size:24
Alignment explanation
Indices: 6141150--6141204 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
6141140 ATATTTATTA
*
6141150 AAAAATATATTATTATTT-TTCAAT
1 AAAAATATATTATT-TTTATTAAAT
*
6141174 AAAAAAATATTATTTTTATTAAAT
1 AAAAATATATTATTTTTATTAAAT
6141198 AAAAATA
1 AAAAATA
6141205 GAAATTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AAAAATATATTATTTTTATTAAAT
Found at i:6141201 original size:21 final size:20
Alignment explanation
Indices: 6141160--6141201 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6141150 AAAAATATAT
*
6141160 TATTATTTTTCAATAAAAAAA
1 TATTATTTTT-ATTAAAAAAA
6141181 TATTATTTTTATTAAATAAAA
1 TATTATTTTTATTAAA-AAAA
6141202 ATAGAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATTATTTTTATTAAAAAAA
Found at i:6146360 original size:16 final size:17
Alignment explanation
Indices: 6146335--6146368 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6146325 CCGAGGTGTC
6146335 ACATTAACTTTT-CAAA
1 ACATTAACTTTTACAAA
*
6146351 ACATTGACTTTTACAAA
1 ACATTAACTTTTACAAA
6146368 A
1 A
6146369 TAATGAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.35
Consensus pattern (17 bp):
ACATTAACTTTTACAAA
Found at i:6147014 original size:23 final size:23
Alignment explanation
Indices: 6146984--6147056 Score: 105
Period size: 23 Copynumber: 3.3 Consensus size: 23
6146974 CCACTAGGGG
*
6146984 CACATAGAAATGTCCCGAAGGAC
1 CACATAGAAATGTCCCGAATGAC
* *
6147007 CGCGTAGAAATGTCCCGAATGAC
1 CACATAGAAATGTCCCGAATGAC
6147030 CACATAG--ATGTCCCGAATGAC
1 CACATAGAAATGTCCCGAATGAC
6147051 CACATA
1 CACATA
6147057 TAACACATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
21 20 0.44
23 25 0.56
ACGTcount: A:0.36, C:0.27, G:0.21, T:0.16
Consensus pattern (23 bp):
CACATAGAAATGTCCCGAATGAC
Found at i:6147152 original size:21 final size:21
Alignment explanation
Indices: 6147126--6147175 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6147116 AATAAGTGTA
* *
6147126 CCAAAGTATCGCATATATGTT
1 CCAAAGAATCACATATATGTT
* *
6147147 CCAAAGAATTACATATATGTC
1 CCAAAGAATCACATATATGTT
6147168 CCGAAAGA
1 CC-AAAGA
6147176 CCATGTAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.26
Consensus pattern (21 bp):
CCAAAGAATCACATATATGTT
Found at i:6147914 original size:19 final size:19
Alignment explanation
Indices: 6147887--6147936 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
6147877 CATACTTGTA
*
6147887 GTATTGATACCCTTATACG
1 GTATCGATACCCTTATACG
6147906 GTATCGATACCCTTATACG
1 GTATCGATACCCTTATACG
6147925 GTATCGATACCC
1 GTATCGATACCC
6147937 ATTTTCGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (19 bp):
GTATCGATACCCTTATACG
Found at i:6148032 original size:35 final size:35
Alignment explanation
Indices: 6147966--6148035 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
6147956 CATCTCAAGA
* ** *
6147966 ATGGTACCGATACTTCTCTTTTGGTATCGATACCC
1 ATGGTACCGATACTTCACTTTCAGTAACGATACCC
6148001 ATGGTACCGATACTATCAC-TTCAGTAACGATACCC
1 ATGGTACCGATACT-TCACTTTCAGTAACGATACCC
6148036 CATGAAGATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 27 0.90
36 3 0.10
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (35 bp):
ATGGTACCGATACTTCACTTTCAGTAACGATACCC
Found at i:6150421 original size:18 final size:18
Alignment explanation
Indices: 6150366--6150440 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
6150356 ATCAGAACCA
*
6150366 AAGAGGTGGACGAGGTGC
1 AAGAGGTGGACAAGGTGC
*
6150384 AGGAGGTGGACAAGGTGC
1 AAGAGGTGGACAAGGTGC
6150402 AAGAGGTGGACAAGGTGC
1 AAGAGGTGGACAAGGTGC
* *
6150420 AAG-GGTTGGGCGAGGTGC
1 AAGAGG-TGGACAAGGTGC
6150438 AAG
1 AAG
6150441 GGTTGGCGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 2 0.04
18 49 0.96
ACGTcount: A:0.28, C:0.11, G:0.49, T:0.12
Consensus pattern (18 bp):
AAGAGGTGGACAAGGTGC
Found at i:6150831 original size:25 final size:25
Alignment explanation
Indices: 6150800--6150902 Score: 170
Period size: 25 Copynumber: 4.1 Consensus size: 25
6150790 CTTTACCATT
*
6150800 GGAGTTTGTTTTGTGTGCATAGTTG
1 GGAGTTTGTTTTGTGTGCTTAGTTG
* *
6150825 GGAGTTTGATTTGTGTGCTTTGTTG
1 GGAGTTTGTTTTGTGTGCTTAGTTG
*
6150850 GGAGTTTGTTTTGTGTGCTTTGTTG
1 GGAGTTTGTTTTGTGTGCTTAGTTG
6150875 GGAGTTTGTTTTGTGTGCTTAGTTG
1 GGAGTTTGTTTTGTGTGCTTAGTTG
6150900 GGA
1 GGA
6150903 CTGTTGTCTC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 73 1.00
ACGTcount: A:0.09, C:0.04, G:0.37, T:0.50
Consensus pattern (25 bp):
GGAGTTTGTTTTGTGTGCTTAGTTG
Found at i:6151115 original size:34 final size:34
Alignment explanation
Indices: 6150978--6151117 Score: 244
Period size: 34 Copynumber: 4.1 Consensus size: 34
6150968 TAACGAGACC
*
6150978 CCTATAATGTGTGTATCTCTATATGTATTAATTT
1 CCTATAATGTGTGTATCTCTATCTGTATTAATTT
*
6151012 CTTATAATGTGTGTATCTCTATCTGTATTAATTT
1 CCTATAATGTGTGTATCTCTATCTGTATTAATTT
*
6151046 CTTATAATGTGTGTATCTCTATCTGTATTAATTT
1 CCTATAATGTGTGTATCTCTATCTGTATTAATTT
*
6151080 CCAATAATGTGTGTATCTCTATCTGTATTAATTT
1 CCTATAATGTGTGTATCTCTATCTGTATTAATTT
6151114 CCTA
1 CCTA
6151118 ATTTTATAAA
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 101 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (34 bp):
CCTATAATGTGTGTATCTCTATCTGTATTAATTT
Found at i:6151643 original size:30 final size:30
Alignment explanation
Indices: 6151582--6151643 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
6151572 TATTTTTTTG
* **
6151582 CTCAACTCGATTCGTAGTTCGTTAAGTTTA
1 CTCAACTCGATTCGTAATTCGTTAAACTTA
6151612 CTCAACTCGATTCGTAATTCGTTAAACTTA
1 CTCAACTCGATTCGTAATTCGTTAAACTTA
6151642 CT
1 CT
6151644 GAAATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (30 bp):
CTCAACTCGATTCGTAATTCGTTAAACTTA
Found at i:6154131 original size:15 final size:15
Alignment explanation
Indices: 6154113--6154146 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
6154103 GTGAAATTCT
6154113 AATTATTTAAATAAA
1 AATTATTTAAATAAA
*
6154128 AATTATTTATATAAA
1 AATTATTTAAATAAA
6154143 AATT
1 AATT
6154147 CATCGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTATTTAAATAAA
Found at i:6154163 original size:42 final size:42
Alignment explanation
Indices: 6154112--6154203 Score: 159
Period size: 42 Copynumber: 2.2 Consensus size: 42
6154102 AGTGAAATTC
*
6154112 TAAT-TATTTAAATAAAAATTATTTATATAAAAATTCATCGT
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
*
6154153 TAATATATTTAAATAAAAATTATTTATATAAAATTTCATCGA
1 TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
6154195 TAATATATT
1 TAATATATT
6154204 ATTTTATTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 4 0.08
42 44 0.92
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (42 bp):
TAATATATTTAAATAAAAATTATTTATATAAAAATTCATCGA
Found at i:6158085 original size:39 final size:38
Alignment explanation
Indices: 6158019--6158119 Score: 103
Period size: 39 Copynumber: 2.6 Consensus size: 38
6158009 CGTAAGGATT
* * *
6158019 TCAGGAGTGCACGATGTTTTCAAACTAACGAATAAGAC
1 TCAGGAGTGCACGACGTCTTCAGACTAACGAATAAGAC
* * *
6158057 TACAGGAGTGCACGGCGTCTTCAGACTAATGGATAAGAC
1 T-CAGGAGTGCACGACGTCTTCAGACTAACGAATAAGAC
* * *
6158096 TCTAAGAGTGCACGTCTTCTTCAG
1 TC-AGGAGTGCACGACGTCTTCAG
6158120 GCCATGCATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.04
39 50 0.96
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (38 bp):
TCAGGAGTGCACGACGTCTTCAGACTAACGAATAAGAC
Found at i:6158487 original size:28 final size:28
Alignment explanation
Indices: 6158401--6158487 Score: 129
Period size: 28 Copynumber: 3.1 Consensus size: 28
6158391 TTCTTTCAAT
*
6158401 ATTTAATTTGTAAGTATTATTCGAATAAA
1 ATTTTATTTG-AAGTATTATTCGAATAAA
* *
6158430 AATTTATTTAAAGTATTATTCGAATAAA
1 ATTTTATTTGAAGTATTATTCGAATAAA
*
6158458 ATTTTATTTGAAGTATTATTCAAATAAA
1 ATTTTATTTGAAGTATTATTCGAATAAA
6158486 AT
1 AT
6158488 ATCTCTATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 45 0.87
29 7 0.13
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (28 bp):
ATTTTATTTGAAGTATTATTCGAATAAA
Found at i:6158837 original size:21 final size:21
Alignment explanation
Indices: 6158813--6158865 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 21
6158803 TAGAAATGTT
6158813 AAAAAATATA-ATTATAATGA
1 AAAAAATATATATTATAATGA
6158833 CAAAAAATAATATTTATTATAATGA
1 -AAAAAAT-ATA--TATTATAATGA
6158858 AAAAAATA
1 AAAAAATA
6158866 ATAACATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 1 0.04
24 7 0.25
25 10 0.36
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (21 bp):
AAAAAATATATATTATAATGA
Found at i:6158926 original size:16 final size:17
Alignment explanation
Indices: 6158905--6158936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6158895 TAAAGTTTTA
6158905 ATTAT-ATTTAATCATT
1 ATTATAATTTAATCATT
6158921 ATTATAATTTAATCAT
1 ATTATAATTTAATCAT
6158937 AAGTAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATAATTTAATCATT
Found at i:6159115 original size:47 final size:47
Alignment explanation
Indices: 6159059--6159211 Score: 204
Period size: 47 Copynumber: 3.3 Consensus size: 47
6159049 TTACGAATCA
* *
6159059 TTAATATAATTTGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
1 TTAAAATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
6159106 TTAAAATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
1 TTAAAATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
* * * *
6159153 TTAAAA-ATATTAAAAT-AATA-TTGATTTAGTATTTGTAGTAAAAATA
1 TTAAAATA-ATT-AGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
6159199 TTAAAAATAATTA
1 TT-AAAATAATTA
6159212 TTTTAATTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 9
0.86 0.05 0.08
Matches are distributed among these distances:
46 28 0.29
47 64 0.67
48 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (47 bp):
TTAAAATAATTAGATCAACATTTGATTTAGTATTTCTAGTAAAAATG
Found at i:6163995 original size:13 final size:13
Alignment explanation
Indices: 6163977--6164003 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6163967 TTGACTTTTT
6163977 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
6163990 GGTCAAAGTCAAC
1 GGTCAAAGTCAAC
6164003 G
1 G
6164004 AGTTGACTCA
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:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (13 bp):
GGTCAAAGTCAAC
Found at i:6166833 original size:19 final size:19
Alignment explanation
Indices: 6166783--6166834 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
6166773 GAATGCCATT
*
6166783 AGTGCATCGATGAATAAGG
1 AGTGCATCGATGCATAAGG
*
6166802 AGTGCATTGATGCATAAGG
1 AGTGCATCGATGCATAAGG
6166821 AGTGCATCGATGCA
1 AGTGCATCGATGCA
6166835 CCTGCTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:6170803 original size:230 final size:231
Alignment explanation
Indices: 6170400--6170857 Score: 861
Period size: 230 Copynumber: 2.0 Consensus size: 231
6170390 ATGTGGTCTC
6170400 ACGGTTTGGGATGCGTGTTAATGCAAGAAGGCAAAGTAGTGGCCTATGCTTCGAGGCAACTAAAA
1 ACGGTTTGGGATGCGTGTTAATGCAAGAAGGCAAAGTAGTGGCCTATGCTTCGAGGCAACTAAAA
6170465 CCACATGAAAAGAATTATCCTACACACGATCTGGAGATGGCGGCCGTAGTATTTGCTCTTAAGAT
66 CCACATGAAAAGAATTATCCTACACACGATCTGGAGATGGCGGCCGTAGTATTTGCTCTTAAGAT
6170530 TTGGCATCACTATTTGTATGGTGAAAAATGCTACTTGTATAGGAGGAATCATAA-AG-TT-AAGT
131 TTGGCATCACTATTTGTATGGTGAAAAATGCTACTTGTAT---AGGAATCATAAGAGTTTAAAGT
6170592 ACTTGATGACTCAG-AAGAGTTGAATTTAAGACATACAA
193 ACTTGATGACTCAGAAAGAGTTGAATTTAAGACATACAA
6170630 ACGGTTTGGGATGCGTGTTAATGCAAGAAGGCAAAGTAGTGGCCTATGCTTCGAGGCAACTAAAA
1 ACGGTTTGGGATGCGTGTTAATGCAAGAAGGCAAAGTAGTGGCCTATGCTTCGAGGCAACTAAAA
6170695 CCACATGAAAAGAATTATCCTACACACGATCTGGAGATGGCGGCCGTAGTATTTGCTCTTAAGAT
66 CCACATGAAAAGAATTATCCTACACACGATCTGGAGATGGCGGCCGTAGTATTTGCTCTTAAGAT
6170760 TTGGCATCACTATTTGTATGGTGAAAAATGCTACTTGTATAGGAATCATAAGAGTTTAAAGTACT
131 TTGGCATCACTATTTGTATGGTGAAAAATGCTACTTGTATAGGAATCATAAGAGTTTAAAGTACT
6170825 TGATGACTCAGAAAGAGTTGAATTTAAGACATA
196 TGATGACTCAGAAAGAGTTGAATTTAAGACATA
6170858 GAAGATGGGT
Statistics
Matches: 224, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
227 11 0.05
228 2 0.01
229 2 0.01
230 188 0.84
231 21 0.09
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (231 bp):
ACGGTTTGGGATGCGTGTTAATGCAAGAAGGCAAAGTAGTGGCCTATGCTTCGAGGCAACTAAAA
CCACATGAAAAGAATTATCCTACACACGATCTGGAGATGGCGGCCGTAGTATTTGCTCTTAAGAT
TTGGCATCACTATTTGTATGGTGAAAAATGCTACTTGTATAGGAATCATAAGAGTTTAAAGTACT
TGATGACTCAGAAAGAGTTGAATTTAAGACATACAA
Found at i:6173840 original size:22 final size:22
Alignment explanation
Indices: 6173810--6173880 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
6173800 TTAGTCCTTT
*
6173810 GGGATGTATCCAGTGGTCATTC
1 GGGACGTATCCAGTGGTCATTC
6173832 GGGACGTATCCAGTGGTCATTC
1 GGGACGTATCCAGTGGTCATTC
** *
6173854 GGGATATATCCAGTGGTCCTTC
1 GGGACGTATCCAGTGGTCATTC
6173876 GGGAC
1 GGGAC
6173881 ATAGTGGTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.28
Consensus pattern (22 bp):
GGGACGTATCCAGTGGTCATTC
Found at i:6173888 original size:18 final size:18
Alignment explanation
Indices: 6173865--6173899 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6173855 GGATATATCC
6173865 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
6173883 AGTGGTCTTTCGGGACA
1 AGTGGTCCTTCGGGACA
6173900 AATACTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:6178103 original size:15 final size:15
Alignment explanation
Indices: 6178017--6178059 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
6178007 CATTTCTTTC
*
6178017 CATTTCCTTCCTTAT
1 CATTTCCTTTCTTAT
6178032 CATTTCCTTTCTTAT
1 CATTTCCTTTCTTAT
6178047 CATTTCCTTTCTT
1 CATTTCCTTTCTT
6178060 CTTTCATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (15 bp):
CATTTCCTTTCTTAT
Found at i:6183973 original size:21 final size:21
Alignment explanation
Indices: 6183931--6183973 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6183921 TTTTCGGGTT
* * *
6183931 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
6183952 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
6183973 A
1 A
6183974 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:6184683 original size:23 final size:23
Alignment explanation
Indices: 6184639--6184683 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6184629 ATCATTATAT
*
6184639 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
6184662 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6184684 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:6185765 original size:112 final size:112
Alignment explanation
Indices: 6185568--6185792 Score: 432
Period size: 112 Copynumber: 2.0 Consensus size: 112
6185558 ACGCTATTCT
6185568 GACGCGTCTTCAACCTCCTGCTCCACTAACTCAAAGAATTAATGTAGCAAAAGAGTTGAGAAGTT
1 GACGCGTCTTCAACCTCCTGCTCCACTAACTCAAAGAATTAATGTAGCAAAAGAGTTGAGAAGTT
6185633 TAGCAGCTCCCGAATTTAAGGGAGAAGCTGAGGAAGGTCCAGTGTCA
66 TAGCAGCTCCCGAATTTAAGGGAGAAGCTGAGGAAGGTCCAGTGTCA
6185680 GACGCGTCTTCAACCTCCTGCTCCACTAACTCAAAGAATTAATGTAGCAAAAGAGTTGAGAAGTT
1 GACGCGTCTTCAACCTCCTGCTCCACTAACTCAAAGAATTAATGTAGCAAAAGAGTTGAGAAGTT
* *
6185745 TAGGAGCTCCCGAATTTAAGGGAGAAGCTGAGGAATGTCCAGTGTCA
66 TAGCAGCTCCCGAATTTAAGGGAGAAGCTGAGGAAGGTCCAGTGTCA
6185792 G
1 G
6185793 CGGATCTTTG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 111 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (112 bp):
GACGCGTCTTCAACCTCCTGCTCCACTAACTCAAAGAATTAATGTAGCAAAAGAGTTGAGAAGTT
TAGCAGCTCCCGAATTTAAGGGAGAAGCTGAGGAAGGTCCAGTGTCA
Found at i:6188150 original size:243 final size:239
Alignment explanation
Indices: 6187705--6188188 Score: 932
Period size: 243 Copynumber: 2.0 Consensus size: 239
6187695 GAAGCACCTG
6187705 CTGCTTTTATGGATCTCATGACAGGATTTTTCAGCCCTATCTGGACCAGTTTGTTGTTGTCTTTA
1 CTGCTTTTATGGATCTCATGACAGGATTTTTCAGCCCTATCTGGACCAGTTTGTTGTTGTCTTTA
6187770 TTGATGACATACTGTGTACTCGAAATCCCATGAAGAGCACGGCACACATTGAGGCTAGTGTGCAA
66 TTGATGACATACTGTGTACTCGAAATCCCATGAAGAGCACGGCACACATTGAGGCTAGTGTGCAA
6187835 ATTCTCAGGAATAAAAATCTCTATGCGAAATTGTCCAAATGTGAGTTCTGGTTAAAGGAAGTAAT
131 ATTCTCAGGAATAAAAATCTCTATGCGAAATTGTCCAAATGTGAGTTCTGGTTAAAGGAAGTAAT
6187900 TTTCTTGGGGCATGTGATCTCGGCAGTTGGGATTAGAGTAGACC
196 TTTCTTGGGGCATGTGATCTCGGCAGTTGGGATTAGAGTAGACC
6187944 CTGCTTTTATGGATCTCATGAACAGGATTTTTCAGCCCTATCTGGACCAGTTTGTTGTTGTCTTT
1 CTGCTTTTATGGATCTCATG-ACAGGATTTTTCAGCCCTATCTGGACCAGTTTGTTGTTGTCTTT
6188009 ATTGATGACATACTGGTGTACTCGAAATCCCATGAAGAGCACGGCACACATTTGAGGCTAGTGTT
65 ATTGATGACATACT-GTGTACTCGAAATCCCATGAAGAGCACGGCACACA-TTGAGGCTAGTG-T
6188074 GCAAATTCTCAGGAATAAAAATCTCTATGCGAAATTGTCCAAATGTGAGTTCTGGTTAAAGGAAG
127 GCAAATTCTCAGGAATAAAAATCTCTATGCGAAATTGTCCAAATGTGAGTTCTGGTTAAAGGAAG
6188139 TAATTTTCTTGGGGCATGTGATCTCGGCAGTTGGGATTAGAGTAGACC
192 TAATTTTCTTGGGGCATGTGATCTCGGCAGTTGGGATTAGAGTAGACC
6188187 CT
1 CT
6188189 CAGAAGGTTA
Statistics
Matches: 241, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
239 20 0.08
240 58 0.24
241 35 0.15
242 12 0.05
243 116 0.48
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (239 bp):
CTGCTTTTATGGATCTCATGACAGGATTTTTCAGCCCTATCTGGACCAGTTTGTTGTTGTCTTTA
TTGATGACATACTGTGTACTCGAAATCCCATGAAGAGCACGGCACACATTGAGGCTAGTGTGCAA
ATTCTCAGGAATAAAAATCTCTATGCGAAATTGTCCAAATGTGAGTTCTGGTTAAAGGAAGTAAT
TTTCTTGGGGCATGTGATCTCGGCAGTTGGGATTAGAGTAGACC
Found at i:6190997 original size:21 final size:21
Alignment explanation
Indices: 6190955--6190997 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6190945 TTTTCGGGTT
* * *
6190955 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
6190976 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
6190997 A
1 A
6190998 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:6191712 original size:22 final size:22
Alignment explanation
Indices: 6191669--6191712 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6191659 ATCATTATAT
*
6191669 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTATACG
* *
6191691 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
6191713 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
GGCACTACGGTGCAATTATACG
Found at i:6198357 original size:29 final size:29
Alignment explanation
Indices: 6198314--6198398 Score: 145
Period size: 29 Copynumber: 2.9 Consensus size: 29
6198304 AGTGGCCTTG
6198314 GAGGTCGCCATGGCATCCGGGCGACCTCCA
1 GAGGTCGCCATGGCATCCGGGCGACCT-CA
*
6198344 -AGGTCGCCATGGCATCCGGGCGACCTTA
1 GAGGTCGCCATGGCATCCGGGCGACCTCA
6198372 GAGGTCGCCATGGCATCCGGGCGACCT
1 GAGGTCGCCATGGCATCCGGGCGACCT
6198399 GTGTGTATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
28 1 0.02
29 52 0.98
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.15
Consensus pattern (29 bp):
GAGGTCGCCATGGCATCCGGGCGACCTCA
Found at i:6198472 original size:16 final size:16
Alignment explanation
Indices: 6198447--6198555 Score: 110
Period size: 16 Copynumber: 6.7 Consensus size: 16
6198437 CATGGGACGT
6198447 GGGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
* * *
6198463 GGGGATGCATGGGACGT
1 GGGAATGCATGGG-GGA
6198480 GGGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
* * * *
6198496 GGGGATGCGTGGGACGT
1 GGGAATGCATGGG-GGA
*
6198513 GGGAATGCATGGGGGT
1 GGGAATGCATGGGGGA
*
6198529 GAGAATGCATGGGGGA
1 GGGAATGCATGGGGGA
*
6198545 GGGGATGCATG
1 GGGAATGCATG
6198556 CTGTGCATTG
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
16 49 0.66
17 25 0.34
ACGTcount: A:0.21, C:0.08, G:0.55, T:0.16
Consensus pattern (16 bp):
GGGAATGCATGGGGGA
Found at i:6198474 original size:33 final size:33
Alignment explanation
Indices: 6198437--6198541 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
6198427 ATGCAATCAA
6198437 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
6198470 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
* * * *
6198503 CGTGGGACGTGGGAATGCATGGGGGTGAGAATG
1 CATGGGACGTGGGAATGCATGGGGGAGGGGATG
6198536 CATGGG
1 CATGGG
6198542 GGAGGGGATG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 67 1.00
ACGTcount: A:0.21, C:0.10, G:0.53, T:0.16
Consensus pattern (33 bp):
CATGGGACGTGGGAATGCATGGGGGAGGGGATG
Found at i:6199041 original size:21 final size:21
Alignment explanation
Indices: 6199016--6199059 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6199006 AATCTAGTTA
6199016 ATTAGATTGTTAGTATAAATT
1 ATTAGATTGTTAGTATAAATT
* * *
6199037 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGATTGTTAGTATAAATT
6199058 AT
1 AT
6199060 ATATTAGTTT
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (21 bp):
ATTAGATTGTTAGTATAAATT
Found at i:6199068 original size:25 final size:25
Alignment explanation
Indices: 6199036--6199090 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
6199026 TAGTATAAAT
*
6199036 TATTAGTTTGTTAGTTTAAGTTATA
1 TATTAGTTTATTAGTTTAAGTTATA
6199061 TATTAGTTTATTAGTTTAAGTTATA
1 TATTAGTTTATTAGTTTAAGTTATA
6199086 TATTA
1 TATTA
6199091 TATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (25 bp):
TATTAGTTTATTAGTTTAAGTTATA
Found at i:6199122 original size:47 final size:45
Alignment explanation
Indices: 6199062--6199153 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 45
6199052 TAAGTTATAT
*
6199062 ATTAGTTTATTAGTTTAAGTTATATATTATATATAAAAA-ATTAGTTA
1 ATTAGTTTATTAGTTTAAGTTAT-TA-AATATA-AAAAATATTAGTTA
*
6199109 ATTAGTTTCTTAGTTTAAGTTATTAAATATAAAAAATATTAGTTA
1 ATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAATATTAGTTA
6199154 GTGTCTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 5 0.12
45 13 0.31
46 2 0.05
47 22 0.52
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.48
Consensus pattern (45 bp):
ATTAGTTTATTAGTTTAAGTTATTAAATATAAAAAATATTAGTTA
Found at i:6199627 original size:20 final size:21
Alignment explanation
Indices: 6199583--6199627 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6199573 AAATATTGTG
**
6199583 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
6199604 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
6199624 TTTA
1 TTTA
6199628 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Done.