Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 54 of 62
Found at i:12906053 original size:16 final size:16
Alignment explanation
Indices: 12906032--12906068 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
12906022 GTATTATAGT
12906032 ATAAAACAT-TATTAAA
1 ATAAAACATGTA-TAAA
12906048 ATAAAACATGTATAAA
1 ATAAAACATGTATAAA
12906064 ATAAA
1 ATAAA
12906069 GGTATTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.27
Consensus pattern (16 bp):
ATAAAACATGTATAAA
Found at i:12909523 original size:16 final size:16
Alignment explanation
Indices: 12909502--12909552 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
12909492 AATTGAACCA
12909502 AAATCAACCCAAATCG
1 AAATCAACCCAAATCG
12909518 AAATCAA-CCAGAA-CTG
1 AAATCAACCCA-AATC-G
* *
12909534 AAGTCAACCCGAATCG
1 AAATCAACCCAAATCG
12909550 AAA
1 AAA
12909553 ATAGCCCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
15 4 0.14
16 21 0.75
17 3 0.11
ACGTcount: A:0.49, C:0.27, G:0.12, T:0.12
Consensus pattern (16 bp):
AAATCAACCCAAATCG
Found at i:12910713 original size:22 final size:23
Alignment explanation
Indices: 12910659--12910734 Score: 93
Period size: 22 Copynumber: 3.3 Consensus size: 23
12910649 AATCTCCCTT
* **
12910659 ACAAAACATCCTGAAACACTCCAA
1 ACAAAACATCCT-AAACCCAACAA
12910683 ACAAAACAT-CTAAAACCCAACAA
1 ACAAAACATCCT-AAACCCAACAA
12910706 A-AAAACATCCTAAACCCAACAA
1 ACAAAACATCCTAAACCCAACAA
12910728 ACAAAAC
1 ACAAAAC
12910735 TACCAAATAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 19 0.41
23 18 0.39
24 9 0.20
ACGTcount: A:0.58, C:0.32, G:0.01, T:0.09
Consensus pattern (23 bp):
ACAAAACATCCTAAACCCAACAA
Found at i:12920596 original size:23 final size:23
Alignment explanation
Indices: 12920570--12920616 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12920560 AATACCCAAG
*
12920570 ATAAA-TATAAATCCACCATTAAA
1 ATAAAGTATAAA-CAACCATTAAA
*
12920593 ATAAAGTTTAAACAACCATTAAA
1 ATAAAGTATAAACAACCATTAAA
12920616 A
1 A
12920617 CAACCACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAAGTATAAACAACCATTAAA
Found at i:12922477 original size:16 final size:16
Alignment explanation
Indices: 12922453--12922489 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
12922443 TCCTCGTCTA
*
12922453 GTGCGCTTGTGTAGTG
1 GTGCTCTTGTGTAGTG
12922469 GTGCTCTTGTGTAGTG
1 GTGCTCTTGTGTAGTG
12922485 GTGCT
1 GTGCT
12922490 TGGTTGGACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.14, G:0.41, T:0.41
Consensus pattern (16 bp):
GTGCTCTTGTGTAGTG
Found at i:12923925 original size:26 final size:27
Alignment explanation
Indices: 12923896--12923948 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
12923886 GAAATGAGAG
*
12923896 AGAAAAAGTT-AAGAATGAAAGAGAAA
1 AGAAAAAGTTAAAAAATGAAAGAGAAA
*
12923922 AGAAAAAGTTAAAAAATGAAAGGGAAA
1 AGAAAAAGTTAAAAAATGAAAGAGAAA
12923949 TAGTGATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (27 bp):
AGAAAAAGTTAAAAAATGAAAGAGAAA
Found at i:12924260 original size:17 final size:18
Alignment explanation
Indices: 12924216--12924252 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
12924206 ATTTATTTAC
12924216 AAAA-TAAAATAAGAATA
1 AAAATTAAAATAAGAATA
12924233 AAAATTAAAATAA-AATA
1 AAAATTAAAATAAGAATA
12924250 AAA
1 AAA
12924253 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAATTAAAATAAGAATA
Found at i:12930781 original size:23 final size:23
Alignment explanation
Indices: 12930755--12930804 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
12930745 AATACCCAAT
*
12930755 ATAAA-CATAAATCCACCATTAAA
1 ATAAAGCATAAAT-AACCATTAAA
**
12930778 ATAAAGTTTAAATAACCATTAAA
1 ATAAAGCATAAATAACCATTAAA
12930801 ATAA
1 ATAA
12930805 CCACCACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAAAGCATAAATAACCATTAAA
Found at i:12933286 original size:16 final size:16
Alignment explanation
Indices: 12933265--12933299 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12933255 TCGTAATATA
12933265 AAAACAT-TATTAAAAT
1 AAAACATGTA-TAAAAT
12933281 AAAACATGTATAAAAT
1 AAAACATGTATAAAAT
12933297 AAA
1 AAA
12933300 GGTATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAACATGTATAAAAT
Found at i:12937429 original size:13 final size:13
Alignment explanation
Indices: 12937411--12937435 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12937401 ATTTTATATA
12937411 TTTTAATTTTATC
1 TTTTAATTTTATC
12937424 TTTTAATTTTAT
1 TTTTAATTTTAT
12937436 TTACTTATGT
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:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTTAATTTTATC
Found at i:12947040 original size:2 final size:2
Alignment explanation
Indices: 12947033--12947058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
12947023 TTTTTATAAT
12947033 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
12947059 CTCTTGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12951650 original size:36 final size:36
Alignment explanation
Indices: 12951603--12951702 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 36
12951593 TTTTCAAGTC
*
12951603 AATCAAGCCTTCACAAAAGAGTAGTGCAGCGATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCGATGCA
*
12951639 AATCAAGCCTTCACAAAAGAGTATTGAAGCGATGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCGATGCA
*
12951675 TATCCAA-CCTTCACAAAAGAGTAGTGAA
1 AAT-CAAGCCTTCACAAAAGAGTAGTGAA
12951703 TGAGGAACAT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 56 0.95
37 3 0.05
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (36 bp):
AATCAAGCCTTCACAAAAGAGTAGTGAAGCGATGCA
Found at i:12951906 original size:3 final size:3
Alignment explanation
Indices: 12951888--12951940 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
12951878 TCGTTATAAG
* *
12951888 TAT TAT AAT T-T TAT TAT TAT ATAT TAT TAT TAT TA- TAT TAT AAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
12951932 TAAT TAT TA
1 T-AT TAT TA
12951941 CAATTTTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 4 0.10
3 32 0.76
4 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:12951917 original size:24 final size:24
Alignment explanation
Indices: 12951888--12951948 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
12951878 TCGTTATAAG
*
12951888 TATTATAATTTTATTATTA-TATAT
1 TATTATAATTTTATTATAATTA-AT
* *
12951912 TATTATTATTATATTATAATTAAT
1 TATTATAATTTTATTATAATTAAT
*
12951936 TATTACAATTTTA
1 TATTATAATTTTA
12951949 CAGGCCTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
TATTATAATTTTATTATAATTAAT
Found at i:12953086 original size:2 final size:2
Alignment explanation
Indices: 12953079--12953150 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
12953069 TCATTGTCGC
12953079 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
12953121 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
12953151 GTATGTATGT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12953322 original size:25 final size:24
Alignment explanation
Indices: 12953251--12953323 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
12953241 ATTAGTACAT
12953251 TATTTTAATATT-ATT-TTAAATTA
1 TATTTTAATATTAATTATT-AATTA
*
12953274 TGTTAATTAATATTAA-TATT--TTA
1 TATT--TTAATATTAATTATTAATTA
12953297 TATTTTAATCATTAATTATTAATTA
1 TATTTTAAT-ATTAATTATTAATTA
12953322 TA
1 TA
12953324 CTATTTATAC
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
21 5 0.12
22 5 0.12
23 13 0.32
25 14 0.35
26 3 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTTTAATATTAATTATTAATTA
Found at i:12958484 original size:65 final size:64
Alignment explanation
Indices: 12958353--12958505 Score: 193
Period size: 65 Copynumber: 2.4 Consensus size: 64
12958343 CCCTAATTCA
* * * * *
12958353 AATGCATTTTCTGTACCGATGCACAGACATGCATTGATGCACTCTTGATTTTATTGTAACATCG
1 AATGCATTTTATGTACCGATGCACAGACATGCATCGATGCACTCTGGATCTTATTGAAACATCG
*
12958417 AATGCATTTTATGTACCGATGCACAGATCATGCATCGATGCACTCCTGGCTCTT-TTGAAACATC
1 AATGCATTTTATGTACCGATGCACAGA-CATGCATCGATGCACT-CTGGATCTTATTGAAACATC
12958481 G
64 G
* *
12958482 AATGTA-ATTATTGTACCGATGCAC
1 AATGCATTTTA-TGTACCGATGCAC
12958506 CCCAAAGTGT
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 29 0.37
65 43 0.55
66 6 0.08
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (64 bp):
AATGCATTTTATGTACCGATGCACAGACATGCATCGATGCACTCTGGATCTTATTGAAACATCG
Found at i:12963933 original size:20 final size:20
Alignment explanation
Indices: 12963908--12964009 Score: 71
Period size: 20 Copynumber: 4.9 Consensus size: 20
12963898 ATTTTTGTGC
12963908 AAAGTGCATCGATACACTAG
1 AAAGTGCATCGATACACTAG
* * *
12963928 AAAGTGTACCGATACATGCCTTG
1 AAAGTGCATCGATACA---CTAG
* *
12963951 AATGTGCATCGATACACAATG
1 AAAGTGCATCGATACACTA-G
* * *
12963972 AATGTGCATTGATACACTCTG
1 AAAGTGCATCGATACACT-AG
*
12963993 -CAGTGCATCGATACACT
1 AAAGTGCATCGATACACT
12964010 CGTCGGGATT
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
20 29 0.46
21 18 0.29
23 16 0.25
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (20 bp):
AAAGTGCATCGATACACTAG
Found at i:12964010 original size:20 final size:21
Alignment explanation
Indices: 12963949--12964010 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
12963939 ATACATGCCT
**
12963949 TGAATGTGCATCGATACACAA
1 TGAATGTGCATCGATACACTC
*
12963970 TGAATGTGCATTGATACACTC
1 TGAATGTGCATCGATACACTC
*
12963991 TGCA-GTGCATCGATACACTC
1 TGAATGTGCATCGATACACTC
12964011 GTCGGGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (21 bp):
TGAATGTGCATCGATACACTC
Found at i:12964363 original size:13 final size:13
Alignment explanation
Indices: 12964347--12964375 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12964337 CTATATTCCA
12964347 CAACTAATTTCAT
1 CAACTAATTTCAT
12964360 CAACTAATTTCAT
1 CAACTAATTTCAT
12964373 CAA
1 CAA
12964376 AAACACACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.34
Consensus pattern (13 bp):
CAACTAATTTCAT
Found at i:12966349 original size:13 final size:14
Alignment explanation
Indices: 12966319--12966354 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
12966309 AGGGGGAGTA
12966319 ATTTTCAAA-ATTG
1 ATTTTCAAAGATTG
12966332 A-TTTCAAAGATT-
1 ATTTTCAAAGATTG
12966344 ATTTTCAAAGA
1 ATTTTCAAAGA
12966355 AAATCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (14 bp):
ATTTTCAAAGATTG
Found at i:12966651 original size:64 final size:65
Alignment explanation
Indices: 12966583--12966738 Score: 190
Period size: 65 Copynumber: 2.4 Consensus size: 65
12966573 ACACCCTAAT
* * * *
12966583 TCGAATGCATTTTGTGTACCGATGCACAGA-CATGCATTGATGCACTCTTGA-TTTTATTAAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGAAGCACTCCTGACTCTT-TTAAAAC
12966646 A
65 A
* * * *
12966647 TCGAATGCATTTTATGTGCCGATGCACAGACCATGCATCGAAGCACTCCTGACTCTTTTGAAATA
1 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGAAGCACTCCTGACTCTTTTAAAACA
* * *
12966712 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
12966739 CCCAAAGTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 28 0.36
65 46 0.60
66 3 0.04
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGAAGCACTCCTGACTCTTTTAAAACA
Found at i:12973483 original size:120 final size:119
Alignment explanation
Indices: 12973327--12973714 Score: 431
Period size: 123 Copynumber: 3.2 Consensus size: 119
12973317 GAGCTATCAT
* * *
12973327 TCAATGACCATTTAATGCACAATGGCATAAACTTTTCAGTGATATATCACTTCAATTTAAAATAT
1 TCAAAGACCATTTAATGCACAATGACATAAACTTTTCAGTGATATATCACTTCAATTT-AAGTAT
* * *
12973392 ATATCAGATCATTCAACGATGTTTTAACCAATTAC-TTAATGAAAAACGTTTTTTC
65 ATATCAGACCATTGAATGATGTTTTAACCAATT-CTTTAATGAAAAACGTTTTTTC
* * * * * * *
12973447 TCAGAGACCATTTAATGCACAATGATATGAATTTTTCAATGGTATATCACTTCAA-TTCAGTGAT
1 TCAAAGACCATTTAATGCACAATGACATAAACTTTTCAGTGATATATCACTTCAATTTAAGT-AT
* * * *
12973511 ATATCAGACCATTGAATGATGCTTTTTGACCTATTCTTTAATGAAAAACATCATTTTTT
65 ATATCAGACCATTGAATGATG--TTTTAACCAATTCTTTAATGAAAAACGT--TTTTTC
* * * *
12973570 TAAAAGACCATTTAATGCATAATGACATAAACTTTTCAGTGATATATCACTTCAATTTAGGGATA
1 TCAAAGACCATTTAATGCACAATGACATAAACTTTTCAGTGATATATCACTTCAATTTAAGTATA
* *
12973635 TATCAGACCATTGAATGATATTGTTGAA-CAATGCTTTAATGAAAAACGTTCTTTTC
66 TATCAGACCATTGAATGATGTT-TT-AACCAATTCTTTAATGAAAAACGTT-TTTTC
* * *
12973691 TCATAGACTATTTAATACACAATG
1 TCAAAGACCATTTAATGCACAATG
12973715 TCAAAAAAAA
Statistics
Matches: 219, Mismatches: 39, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
118 2 0.01
119 22 0.10
120 49 0.22
121 48 0.22
122 20 0.09
123 75 0.34
124 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (119 bp):
TCAAAGACCATTTAATGCACAATGACATAAACTTTTCAGTGATATATCACTTCAATTTAAGTATA
TATCAGACCATTGAATGATGTTTTAACCAATTCTTTAATGAAAAACGTTTTTTC
Found at i:12973756 original size:121 final size:122
Alignment explanation
Indices: 12973332--12973771 Score: 324
Period size: 123 Copynumber: 3.6 Consensus size: 122
12973322 ATCATTCAAT
* * * ** * *
12973332 GACCATTTAATGCACAATGGCATAAACTTTTCAGTGATATATCACTTCAATTTAAAAT-ATATAT
1 GACCATTTAATACACAATGACAAAAAAATTTCAGTGATATATCACTTCAA-TT-CAGTGATATAT
* * * * * * * *
12973396 CAGATCATTCAACGATG-TT-TT-AACCAATTAC-TTAATGAAAAACGT-TTTTTCTCAGA
64 CAGACCATTGAATGATGATTGTTGAA-CAA-TGCTTTAATGAAAAACATCATTTTCTAAAA
* * ** ** * *
12973452 GACCATTTAATGCACAATGATATGAATTTTTCAATGGTATATCACTTCAATTCAGTGATATATCA
1 GACCATTTAATACACAATGACAAAAAAATTTCAGTGATATATCACTTCAATTCAGTGATATATCA
* * * * * *
12973517 GACCATTGAATGATGCTTTTTGACCTATTCTTTAATGAAAAACATCATTTTTTTAAAA
66 GACCATTGAATGATGATTGTTGAACAATGCTTTAATGAAAAACATCA-TTTTCTAAAA
* * * ** * *
12973575 GACCATTTAATGCATAATGACATAAACTTTTCAGTGATATATCACTTCAATTTAGGGATATATCA
1 GACCATTTAATACACAATGACAAAAAAATTTCAGTGATATATCACTTCAATTCAGTGATATATCA
* * *
12973640 GACCATTGAATGAT-ATTGTTGAACAATGCTTTAATGAAAAACGTTC-TTTTCTCATA
66 GACCATTGAATGATGATTGTTGAACAATGCTTTAATGAAAAAC-ATCATTTTCTAAAA
* * * * *
12973696 GACTATTTAATACACAATGTCAAAAAAAATTT-AGTGCTCA-ATCACTTCAATTCAATGATATGT
1 GACCATTTAATACACAATGAC-AAAAAAATTTCAGTGAT-ATATCACTTCAATTCAGTGATATAT
* *
12973759 TAGACAATTGAAT
64 CAGACCATTGAAT
12973772 ATTTTTAACC
Statistics
Matches: 260, Mismatches: 50, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
118 2 0.01
119 22 0.08
120 48 0.18
121 76 0.29
122 32 0.12
123 80 0.31
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.36
Consensus pattern (122 bp):
GACCATTTAATACACAATGACAAAAAAATTTCAGTGATATATCACTTCAATTCAGTGATATATCA
GACCATTGAATGATGATTGTTGAACAATGCTTTAATGAAAAACATCATTTTCTAAAA
Found at i:12974410 original size:31 final size:26
Alignment explanation
Indices: 12974376--12974449 Score: 114
Period size: 26 Copynumber: 2.8 Consensus size: 26
12974366 TATTGTATCG
12974376 TAATGTAATGTA-GAATTTAATGTTTC
1 TAATGTAATGTATG-ATTTAATGTTTC
12974402 TAATGTAATGTATGATTTAATGTTTC
1 TAATGTAATGTATGATTTAATGTTTC
*
12974428 TAATGTAATGTTTGTATTTAAT
1 TAATGTAATGTATG-ATTTAAT
12974450 AAAAATAATC
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 37 0.82
27 8 0.18
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (26 bp):
TAATGTAATGTATGATTTAATGTTTC
Found at i:12974412 original size:14 final size:14
Alignment explanation
Indices: 12974393--12974440 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
12974383 ATGTAGAATT
12974393 TAATGTTTCTAATG
1 TAATGTTTCTAATG
* * *
12974407 TAATG--TATGATT
1 TAATGTTTCTAATG
12974419 TAATGTTTCTAATG
1 TAATGTTTCTAATG
12974433 TAATGTTT
1 TAATGTTT
12974441 GTATTTAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
12 9 0.35
14 17 0.65
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (14 bp):
TAATGTTTCTAATG
Found at i:12976402 original size:3 final size:3
Alignment explanation
Indices: 12976394--12976420 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12976384 ATATAATAGT
12976394 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
12976421 GTGTGTTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12978732 original size:14 final size:13
Alignment explanation
Indices: 12978708--12978748 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
12978698 CAGAAAAAAA
*
12978708 ACCGTTTACTTTG
1 ACCGTTGACTTTG
12978721 ACCCGTTGACTTTG
1 A-CCGTTGACTTTG
*
12978735 ACCATTGACTTTG
1 ACCGTTGACTTTG
12978748 A
1 A
12978749 AAAAAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (13 bp):
ACCGTTGACTTTG
Found at i:12980381 original size:24 final size:24
Alignment explanation
Indices: 12980349--12980394 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
12980339 GATGAGTACA
*
12980349 AGATGAGGTCTTCGGCCTGGCCAC
1 AGATGAGGTCGTCGGCCTGGCCAC
12980373 AGATGAGGTCGTCGGCCTGGCC
1 AGATGAGGTCGTCGGCCTGGCC
12980395 GCAGGCGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.37, T:0.20
Consensus pattern (24 bp):
AGATGAGGTCGTCGGCCTGGCCAC
Found at i:12980404 original size:24 final size:24
Alignment explanation
Indices: 12980353--12980406 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
12980343 AGTACAAGAT
* *
12980353 GAGGTCTTCGGCCTGGCCACAGAT
1 GAGGTCGTCGGCCTGGCCACAGAC
* *
12980377 GAGGTCGTCGGCCTGGCCGCAGGC
1 GAGGTCGTCGGCCTGGCCACAGAC
12980401 GAGGTC
1 GAGGTC
12980407 TAGCTGCTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.30, G:0.41, T:0.17
Consensus pattern (24 bp):
GAGGTCGTCGGCCTGGCCACAGAC
Found at i:12988398 original size:2 final size:2
Alignment explanation
Indices: 12988393--12988442 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
12988383 TAATGTACTG
12988393 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
12988435 AT AT AT AT
1 AT AT AT AT
12988443 TGTATGATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12988881 original size:30 final size:30
Alignment explanation
Indices: 12988845--12988910 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
12988835 TTAAAAATAT
12988845 CCTACCTGAATTACCTGAGATGTTAACCTA
1 CCTACCTGAATTACCTGAGATGTTAACCTA
12988875 CCTACCTGAATTACCTGAGATGTTAACCTA
1 CCTACCTGAATTACCTGAGATGTTAACCTA
*
12988905 TCTACC
1 CCTACC
12988911 CGATATAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (30 bp):
CCTACCTGAATTACCTGAGATGTTAACCTA
Found at i:12989302 original size:14 final size:15
Alignment explanation
Indices: 12989283--12989311 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12989273 ATGTATGATA
12989283 AAATTTTAAG-TTTT
1 AAATTTTAAGCTTTT
12989297 AAATTTTAAGCTTTT
1 AAATTTTAAGCTTTT
12989312 TTTCTACGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (15 bp):
AAATTTTAAGCTTTT
Found at i:12993727 original size:21 final size:21
Alignment explanation
Indices: 12993698--12993990 Score: 119
Period size: 21 Copynumber: 13.9 Consensus size: 21
12993688 ACTTCGACTA
*
12993698 TCGCATTGCTATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
12993719 TCGCGTTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
12993740 TCGCATTGCGA-A-TCTGGAA--
1 TCGCATTGCGATAGTC--CAAGT
* ** *
12993759 ACTAATTTGCGATAGTCGAAGT
1 TCGCA-TTGCGATAGTCCAAGT
* * * *
12993781 TCGCGTTGCGATTTATTACAAAT
1 TCGCATTGCGA--TAGTCCAAGT
*
12993804 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
** * *
12993823 TCGTGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
*
12993846 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* * *
12993865 TCGCGTTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAGT
*
12993888 TCG--TTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
*
12993909 TCGCATTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
*
12993932 TCG--TTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
12993951 TCGCGTTGCGATTTATTCCAAGT
1 TCGCATTGCGA--TAGTCCAAGT
12993974 TCG--TTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
12993991 AATCGCAACG
Statistics
Matches: 215, Mismatches: 34, Indels: 48
0.72 0.11 0.16
Matches are distributed among these distances:
19 41 0.19
20 10 0.05
21 100 0.47
22 3 0.01
23 61 0.28
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:12993824 original size:42 final size:42
Alignment explanation
Indices: 12993765--12993987 Score: 365
Period size: 42 Copynumber: 5.3 Consensus size: 42
12993755 GGAAACTAAT
*
12993765 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
12993807 TTGCGATAGTCGAAGTTCGTGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
12993849 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* * * *
12993891 TTGCGATTTATTCCAAGTTCGCATTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
12993935 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
12993977 TTGCGATAGTC
1 TTGCGATAGTC
12993988 CAAAATCGCA
Statistics
Matches: 169, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
42 131 0.78
44 38 0.22
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:12993955 original size:86 final size:85
Alignment explanation
Indices: 12993765--12993990 Score: 366
Period size: 86 Copynumber: 2.7 Consensus size: 85
12993755 GGAAACTAAT
* * **
12993765 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTACAAATTCGTTGCGA-TAGTCGAAGTTCGTGT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAGTTCGCAT
12993829 TGCGATTTATTCCAAATTCG
66 TGCGATTTATTCCAAATTCG
*
12993849 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAGTTCGCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA-TTAGTCCAAGTTCGCA
*
12993914 TTGCGATTTATTCCAAGTTCG
65 TTGCGATTTATTCCAAATTCG
*
12993935 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA-TAGTCCAA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTAGTCCAA
12993991 AATCGCAACG
Statistics
Matches: 132, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
84 54 0.41
86 78 0.59
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (85 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTAGTCCAAGTTCGCAT
TGCGATTTATTCCAAATTCG
Found at i:12994091 original size:6 final size:6
Alignment explanation
Indices: 12994080--12994116 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
12994070 GACACGTATT
12994080 ACCACG ACCACG ACCACG ACCACG ACCAC- ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
12994117 CGAGACGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
4 1 0.03
5 6 0.20
6 23 0.77
ACGTcount: A:0.32, C:0.54, G:0.14, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:12994897 original size:19 final size:20
Alignment explanation
Indices: 12994873--12994959 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 20
12994863 CGTTGCGATT
12994873 TTGGACTATCGCAA-CGAAC
1 TTGGACTATCGCAAGCGAAC
* *
12994892 TTGGACTATCGCAATGCGGAT
1 TTGGACTATCGCAA-GCGAAC
*
12994913 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA-GCGAAC
*
12994936 TTGGACTATCGCAA-CGAAT
1 TTGGACTATCGCAAGCGAAC
12994955 TTGGA
1 TTGGA
12994960 AAATCGCATT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
19 23 0.41
21 16 0.29
23 17 0.30
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
TTGGACTATCGCAAGCGAAC
Found at i:12994948 original size:21 final size:21
Alignment explanation
Indices: 12994873--12994951 Score: 90
Period size: 21 Copynumber: 3.8 Consensus size: 21
12994863 CGTTGCGATT
12994873 TTGGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
* * *
12994892 TTGGACTATCGCAATGCGGAT
1 TTGGACTATCGCAACGCGAAC
*
12994913 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
12994936 TTGGACTATCGCAACG
1 TTGGACTATCGCAACG
12994952 AATTTGGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
19 14 0.29
21 18 0.37
23 17 0.35
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:12994994 original size:21 final size:21
Alignment explanation
Indices: 12994963--12995015 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
12994953 ATTTGGAAAA
* *
12994963 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGACGAAGT
* *
12994984 TCGTGTTGCGATAGACGATGT
1 TCGCGTTGCGATAGACGAAGT
12995005 TCGCGTTGCGA
1 TCGCGTTGCGA
12995016 ATCTGGAAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGACGAAGT
Found at i:12995410 original size:3 final size:3
Alignment explanation
Indices: 12995404--12995436 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
12995394 CGAAAAAAAA
12995404 TAT TAT TAT TAT TAT TAT TAT TAT TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
12995437 CATATCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12995731 original size:19 final size:19
Alignment explanation
Indices: 12995707--12995755 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
12995697 CTAAAGTCAA
12995707 CAGTCGCCGCTGCTAACAC
1 CAGTCGCCGCTGCTAACAC
*
12995726 CAGTCGTCGCTGCTAACAC
1 CAGTCGCCGCTGCTAACAC
12995745 CAGTCGCCGCT
1 CAGTCGCCGCT
12995756 CAAGTCGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.18, C:0.41, G:0.22, T:0.18
Consensus pattern (19 bp):
CAGTCGCCGCTGCTAACAC
Found at i:12996770 original size:81 final size:81
Alignment explanation
Indices: 12996678--12998628 Score: 2710
Period size: 81 Copynumber: 24.1 Consensus size: 81
12996668 AGACATTTAG
* * * * *
12996678 TCTTTTACCCAAAGGTATTTAACCTTTCATCTAACTGTCATGATTGACACCTTTTTGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
** ** **
12996743 ACAGTTAGGCTTTTTG
66 ACAACTAGGCCATTAA
* * * * *
12996759 TCTTTTACCCAAAGGTATTTAACTTTTCATCTAACTGACATGATTGACACCTTTCTGCCAAAGGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* **** **
12996824 ACAATTAGTTTTTTTG
66 ACAACTAGGCCATTAA
* * * * *
12996840 TCTTTTACTCAAAGGTATTTAACCTTCTTATCTAACTGGAATAGTTGACACATTTTTGCCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTT-TCATCTAACTGGCATAATTGACACCTTTCTGCCAAATG
* *
12996905 CACAACCAGGTCATTAA
65 CACAACTAGGCCATTAA
* * *
12996922 TCTTTTACTCAGATGTATTTAACCTTTCATCTAACTGGTATAATTGAAACCTTCACCTTTCTGCC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTG--A----CACCTTTCTGCC
* *
12996987 AAATGCACAGCTAGACCATTAA
60 AAATGCACAACTAGGCCATTAA
* * * * *
12997009 TCTTTTACT-TAAGGTATTTAACCTTTCATCTAACTGGCATAAATGATACATTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
12997073 ACAGCTAGGGCATTAA
66 ACAACTAGGCCATTAA
*
12997089 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12997154 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12997170 TCATTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12997235 ACATCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12997251 TCTTTTTCTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
12997316 ATAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* ** *
12997332 TCTTTTGCTCAAAGGTATTTAACCTTTCATCTAACTCACGTAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12997397 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * *
12997413 TCTTTTACTCAAAGGTATTTAACCTTTCATATGACTGACATAATTGACACATTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12997478 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* * * *
12997494 TCTTTTACTCAAAAGTATTTAACCTTTCATCTAACTGGGATAATTGACACATTTTTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12997559 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12997575 TCTTTTACTCAAAGGTATTTAA-CTTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* * *
12997639 ATAGCTAGACCATTAA
66 ACAACTAGGCCATTAA
* * *
12997655 TCTTTTACTC-AAGGTATTTAACCTTTCATCTAACT-GCATAAATGATACCTTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12997718 ACAACTAGGGCATTAA
66 ACAACTAGGCCATTAA
* *
12997734 TATTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12997799 ACAACTAGGTCATTAA
66 ACAACTAGGCCATTAA
* * *
12997815 TCTTTTACTCAAAGGTATTTAACCTTTCATGTAACTGGCATAATTGAAACCTTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
12997880 ACATCTAGGACATTAA
66 ACAACTAGGCCATTAA
** * * *
12997896 TAATTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACACATTTATGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12997961 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
*
12997977 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12998042 ACAACTAGACCATTAA
66 ACAACTAGGCCATTAA
* * * ** * * *
12998058 TCTTTTACTCAAAGGTATTTAAACTTCCATCTGACTAACATAATTGACACATTTATGCCAAATGA
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12998123 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12998139 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTACCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
* *
12998204 ACAGCTAGGTCATTAA
66 ACAACTAGGCCATTAA
* * * *
12998220 ACTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGTATAATTGACATCTTTCTGCAAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
**
12998285 TTAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12998301 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACCTTTCTGCCAAATAC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12998366 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12998382 TCGTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTTCCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12998447 ACAACTAGGCCATTAA
66 ACAACTAGGCCATTAA
* *
12998463 TCTTTTACTCAAAGGTATTTAACCTTTCATGTAACTGGCATAATTGACACCTTTCTGACAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
12998528 ACAACTAGG-CATTAA
66 ACAACTAGGCCATTAA
* * * **
12998543 TCTTTTACTCAAATGTATTTTACCTTTCATCTAACTGACATAATTG--ACCTTTCTTTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
*
12998606 ACAGCTAGGCCATTAA
66 ACAACTAGGCCATTAA
*
12998622 TATTTTA
1 TCTTTTA
12998629 TTTTTGAACA
Statistics
Matches: 1677, Mismatches: 181, Indels: 26
0.89 0.10 0.01
Matches are distributed among these distances:
78 23 0.01
79 68 0.04
80 185 0.11
81 1267 0.76
82 64 0.04
83 1 0.00
84 1 0.00
86 31 0.02
87 37 0.02
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGC
ACAACTAGGCCATTAA
Found at i:12998833 original size:55 final size:55
Alignment explanation
Indices: 12998774--12998937 Score: 274
Period size: 55 Copynumber: 3.0 Consensus size: 55
12998764 CACTCTACCA
12998774 ATACAAAAATTCATAAACTTATTATGAATTTATTATTTTTGCACACAAAGTGCCC
1 ATACAAAAATTCATAAACTTATTATGAATTTATTATTTTTGCACACAAAGTGCCC
* *
12998829 ATACATAAATTCATAAACTTATTATGAATTTATTATTTTTGCAGACAAAGTGCCC
1 ATACAAAAATTCATAAACTTATTATGAATTTATTATTTTTGCACACAAAGTGCCC
* * * *
12998884 ATACAGAGATTCATAAACTTATTATGAATTTATTAGTTTTGCACACATAGTGCC
1 ATACAAAAATTCATAAACTTATTATGAATTTATTATTTTTGCACACAAAGTGCC
12998938 ATTTGGTAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 102 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (55 bp):
ATACAAAAATTCATAAACTTATTATGAATTTATTATTTTTGCACACAAAGTGCCC
Found at i:13003544 original size:81 final size:81
Alignment explanation
Indices: 13003420--13004179 Score: 841
Period size: 81 Copynumber: 9.4 Consensus size: 81
13003410 TATTAGCATC
* * * * * * *
13003420 TTTCTGCCAAATGCACCGTTAGA-CATTTAGTATTTTACCCAAAGGTATTTAGCTTTTCATCTAA
1 TTTCTGCCAAATGCACAGCTAGACCA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
13003484 CTGACATGATTGACACA
65 CTGACATAATTGACACA
* * * ** **
13003501 TTTCTGTCAAAGGCACAGTTAGACTTTTTTTCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
13003566 TGGCATAATTGACACC
66 TGACATAATTGACACA
* * * *
13003582 TTTCTGGCAAATGCACAGCTAGGCCATTAATATTTTATTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
13003647 TGGA-ATAATTGAAACCA
66 T-GACATAATTGACA-CA
* * ** ** * *
13003664 -TTCTGCCAAATGCATAGTTAGGA-TTTTTGTCTTTTACTCAAAGCTATTTAACCTTTCATCTGA
1 TTTCTGCCAAATGCACAGCTA-GACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
*
13003727 CTGGA-ATAATTGACACC
65 CT-GACATAATTGACACA
* * * *
13003744 TTTCTACCAAATGCACAGCTAGTCCATTAATCTTTTACTAAAATGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
13003809 TGGCATATTTGACACA
66 TGACATAATTGACACA
* * * *
13003825 TTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAATGGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
13003890 TGGCATAATTGACACC
66 TGACATAATTGACACA
* * *
13003906 TTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTTCTCAATGGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
*
13003971 TGACTTAATTGACACA
66 TGACATAATTGACACA
* * * *
13003987 TTTCTTCCAAATGTACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
1 TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
* *
13004052 TGGCGTAATTGACACA
66 TGACATAATTGACACA
* * ** ** *
13004068 TTTCTGCCAAAGGCACAGTTAGGA-TTTTTGTCTTTTACTCAAAGGTATTTAACCTTTCATCTTA
1 TTTCTGCCAAATGCACAGCTA-GACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* *
13004132 CTGACATAATTGGCACC
65 CTGACATAATTGACACA
*
13004149 TTTCTGCCAAATGCACAACTAAGA-CATTAAT
1 TTTCTGCCAAATGCACAGCT-AGACCATTAAT
13004180 GCATAATTGA
Statistics
Matches: 572, Mismatches: 98, Indels: 18
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.01
81 564 0.99
82 5 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (81 bp):
TTTCTGCCAAATGCACAGCTAGACCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAAC
TGACATAATTGACACA
Found at i:13003699 original size:162 final size:162
Alignment explanation
Indices: 13003419--13004179 Score: 936
Period size: 162 Copynumber: 4.7 Consensus size: 162
13003409 TTATTAGCAT
* * * * * * * *
13003419 CTTTCTGCCAAATGCACCGTTA-GACATTTAGTATTTTACCCAAAGGTATTTAGCTTTTCATCTA
1 CTTTCTGCCAAATGCACAGCTAGGCCA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTA
* * * ** * **
13003483 ACTGACATGATTGACACATTTCTGTCAAAGGCACAGTTA-GACTTTTTTTCTTTTACTCAAAGGT
65 ACTGACATAATTGACACATTTCTGCCAAATGCACAACTAGGAC-ATTAATCTTTTACTCAAAGGT
13003547 ATTTAACCTTTCATCTAACTGGCATAATTGACAC
129 ATTTAACCTTTCATCTAACTGGCATAATTGACAC
* * *
13003581 CTTTCTGGCAAATGCACAGCTAGGCCATTAATATTTTATTCAAAGGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* * ** ** ** *
13003646 CTGGA-ATAATTGAAACCA-TTCTGCCAAATGCATAGTTAGGATTTTTGTCTTTTACTCAAAGCT
66 CT-GACATAATTGACA-CATTTCTGCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGT
* *
13003709 ATTTAACCTTTCATCTGACTGGAATAATTGACAC
129 ATTTAACCTTTCATCTAACTGGCATAATTGACAC
* * * *
13003743 CTTTCTACCAAATGCACAGCTAGTCCATTAATCTTTTACTAAAATGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* * * * *
13003808 CTGGCATATTTGACACATTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAATGGTAT
66 CTGACATAATTGACACATTTCTGCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTAT
13003873 TTAACCTTTCATCTAACTGGCATAATTGACAC
131 TTAACCTTTCATCTAACTGGCATAATTGACAC
* *
13003905 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTTCTCAATGGTATTTAACCTTTCATCTAA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* * * *
13003970 CTGACTTAATTGACACATTTCTTCCAAATGTACAACTAGGCCATTAATCTTTTACTCAAAGGTAT
66 CTGACATAATTGACACATTTCTGCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTAT
*
13004035 TTAACCTTTCATCTAACTGGCGTAATTGACAC
131 TTAACCTTTCATCTAACTGGCATAATTGACAC
* * * *** ** *
13004067 ATTTCTGCCAAAGGCACAGTTAGGATTTTTGTCTTTTACTCAAAGGTATTTAACCTTTCATCTTA
1 CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
* * *
13004132 CTGACATAATTGGCACCTTTCTGCCAAATGCACAACTAAGACATTAAT
66 CTGACATAATTGACACATTTCTGCCAAATGCACAACTAGGACATTAAT
13004180 GCATAATTGA
Statistics
Matches: 520, Mismatches: 73, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
161 3 0.01
162 508 0.98
163 9 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (162 bp):
CTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAA
CTGACATAATTGACACATTTCTGCCAAATGCACAACTAGGACATTAATCTTTTACTCAAAGGTAT
TTAACCTTTCATCTAACTGGCATAATTGACAC
Found at i:13004204 original size:45 final size:45
Alignment explanation
Indices: 13004136--13004224 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
13004126 ATCTTACTGA
*
13004136 CATAATTGGCACCTTTCTGCCAAATGCACAACTAAGA-CATTAATG
1 CATAATTGACACCTTTCTGCCAAATGCACAACT-AGACCATTAATG
*
13004181 CATAATTGACACCTTTCTTCCAAATGCACAACTAGACCATTAAT
1 CATAATTGACACCTTTCTGCCAAATGCACAACTAGACCATTAAT
13004225 CTTTTACTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 3 0.07
45 38 0.93
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (45 bp):
CATAATTGACACCTTTCTGCCAAATGCACAACTAGACCATTAATG
Found at i:13004316 original size:81 final size:81
Alignment explanation
Indices: 13004180--13005120 Score: 1382
Period size: 81 Copynumber: 11.6 Consensus size: 81
13004170 AGACATTAAT
* * *
13004180 GCATAATTGACACCTTTCTTCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
13004245 ACCTTTCATCTAACTG
66 ACCTTTCATCTAACTG
* * * *
13004261 GCATAATTGACACCTTTCTACCAAATGAACAACTAGGCCATTAATCTTTTTCTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
* *
13004326 ACCTTTTATCTAAATG
66 ACCTTTCATCTAACTG
* * *
13004342 GCATAATTGACACCTTTCTGCCAAATGCATAGCCAGGCCATTAATCTTTTACTCGAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
13004407 ACCTTTCATCTAACTG
66 ACCTTTCATCTAACTG
* * * *
13004423 GCATAATTGACACCTTTCTACAAAATGCACAACTTGGCCATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
* *
13004488 ACTTTTCATCTAACTT
66 ACCTTTCATCTAACTG
* *
13004504 GTATAATTGACACATTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
* *
13004569 ATCTTTCATATAACT-
66 ACCTTTCATCTAACTG
* * * *
13004584 ACATAATTGACACCTTTCTGCCAAATGCATAGTTAGGCTATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
* *
13004649 ACATTTCATCTAA-TT
66 ACCTTTCATCTAACTG
* * * *
13004664 GCTATAATTGACAACTTTCTGCCAAATGCACAGTTAGGCCATTAATCGTTTGCTCAAAGGTATTT
1 GC-ATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTT
*
13004729 AATCTTTCATCTAACTG
65 AACCTTTCATCTAACTG
* * *
13004746 GCATAATTGACACTTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
* *
13004811 ACCTTTCATATAGCTG
66 ACCTTTCATCTAACTG
* * *
13004827 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCATTTACTCAAAAGTATTTT
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
13004892 ACCTTTCATCTAACTG
66 ACCTTTCATCTAACTG
* * * *
13004908 GCATAATTGACATCTTTCTTCCAAATGCACAACTAGGCCATTAATCTTTTCCTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
*
13004973 ACCTTTCATCTAACTA
66 ACCTTTCATCTAACTG
13004989 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
**
13005054 AGATTTCATCTAACTG
66 ACCTTTCATCTAACTG
* * * * *
13005070 GCATAATTGATATCTTTATGCCAAATCCACAGCTAGGCTATTAATCTTTTA
1 GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTA
13005121 TTTTAGAACT
Statistics
Matches: 768, Mismatches: 89, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.00
80 70 0.09
81 694 0.90
82 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (81 bp):
GCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAAGGTATTTA
ACCTTTCATCTAACTG
Found at i:13004331 original size:207 final size:207
Alignment explanation
Indices: 13003976--13004370 Score: 601
Period size: 207 Copynumber: 1.9 Consensus size: 207
13003966 CTAACTGACT
* *
13003976 TAATTGACACATTTCTTCCAAATGTACAACTAGGCCATTAATCTTTTACTCAAAGGTATTTAACC
1 TAATTGACACATTTCTTCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACC
* * * ** ** **
13004041 TTTCATCTAACTGGCGTAATTGACACATTTCTGCCAAAGGCACAGTTAGGATTTTTGTCTTTTAC
66 TTTCATCTAACTGGCATAATTGACACATTTCTACCAAAGGAACAACTAGGACATTAATCTTTTAC
* * *
13004106 TCAAAGGTATTTAACCTTTCATCTTACTGACATAATTGGCACCTTTCTGCCAAATGCACAACTAA
131 TCAAAGGTATTTAACCTTTCATCTAAATGACATAATTGACACCTTTCTGCCAAATGCACAACTAA
13004171 GACATTAATGCA
196 GACATTAATGCA
*
13004183 TAATTGACACCTTTCTTCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACC
1 TAATTGACACATTTCTTCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACC
* * * *
13004248 TTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGAACAACTAGGCCATTAATCTTTTTC
66 TTTCATCTAACTGGCATAATTGACACATTTCTACCAAAGGAACAACTAGGACATTAATCTTTTAC
* *
13004313 TCAAAGGTATTTAACCTTTTATCTAAATGGCATAATTGACACCTTTCTGCCAAATGCA
131 TCAAAGGTATTTAACCTTTCATCTAAATGACATAATTGACACCTTTCTGCCAAATGCA
13004371 TAGCCAGGCC
Statistics
Matches: 167, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
207 167 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (207 bp):
TAATTGACACATTTCTTCCAAATGCACAACTAGACCATTAATCTTTTACTCAAAGGTATTTAACC
TTTCATCTAACTGGCATAATTGACACATTTCTACCAAAGGAACAACTAGGACATTAATCTTTTAC
TCAAAGGTATTTAACCTTTCATCTAAATGACATAATTGACACCTTTCTGCCAAATGCACAACTAA
GACATTAATGCA
Found at i:13005314 original size:55 final size:55
Alignment explanation
Indices: 13005251--13005369 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
13005241 TTTACGTGTG
* * *
13005251 TTGCACACACACTG-CCAATACAGAAATTAATAAACTTATTTTGAATTTATTATTT
1 TTGCACACAAACTGACC-ATACAGAAATTAATAAACTTATTATGAATTTATTAGTT
* * * *
13005306 TTGTACACAAAGTGACCATACGGAAATTCATAAACTTATTATGAATTTATTAGTT
1 TTGCACACAAACTGACCATACAGAAATTAATAAACTTATTATGAATTTATTAGTT
13005361 TTGCACACA
1 TTGCACACA
13005370 TAGTGCCATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 53 0.96
56 2 0.04
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (55 bp):
TTGCACACAAACTGACCATACAGAAATTAATAAACTTATTATGAATTTATTAGTT
Found at i:13006852 original size:26 final size:27
Alignment explanation
Indices: 13006801--13006854 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
13006791 GGGGCCTTCG
**
13006801 AGAGAGAAAAAACCAGTGAGAGAGAGA
1 AGAGAGAAAAAACCAAAGAGAGAGAGA
13006828 AGAGA-AAAAAACCAAAGAG-GAAGAGA
1 AGAGAGAAAAAACCAAAGAGAG-AGAGA
13006854 A
1 A
13006855 ATAGAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 18 0.75
27 5 0.21
ACGTcount: A:0.61, C:0.07, G:0.30, T:0.02
Consensus pattern (27 bp):
AGAGAGAAAAAACCAAAGAGAGAGAGA
Found at i:13012207 original size:2 final size:2
Alignment explanation
Indices: 13012200--13012235 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13012190 AGTATACCCA
13012200 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
13012236 GTGTGTGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13012240 original size:2 final size:2
Alignment explanation
Indices: 13012235--13012303 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
13012225 TATATATATA
13012235 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
13012277 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
13012304 ATGTATACAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:13013339 original size:16 final size:16
Alignment explanation
Indices: 13013320--13013353 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13013310 AAAAACATCA
*
13013320 ATCAACACATACATAC
1 ATCAACACAAACATAC
13013336 ATCAACACAAACATAC
1 ATCAACACAAACATAC
13013352 AT
1 AT
13013354 GATACCTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (16 bp):
ATCAACACAAACATAC
Found at i:13013748 original size:38 final size:36
Alignment explanation
Indices: 13013673--13013791 Score: 141
Period size: 36 Copynumber: 3.2 Consensus size: 36
13013663 ATTTCTCTCG
* *
13013673 AAACAAAGTGTCGTCTCGCTAGAGACATTTTTTTCTTAA
1 AAACAAA-TGTTGTCTCGCTTGAGACA-TTTTTTCTT-A
* *
13013712 AAACAAATGTTGTCTAGCTTGAGACGATTTTCTCTTA
1 AAACAAATGTTGTCTCGCTTGAGAC-ATTTTTTCTTA
*
13013749 AAATAAAT-TTGTCTCGCTTGAGACATTTTTTCTTTA
1 AAACAAATGTTGTCTCGCTTGAGACATTTTTTC-TTA
13013785 AAACAAA
1 AAACAAA
13013792 AATTCTAAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
35 7 0.10
36 24 0.34
37 8 0.11
38 23 0.33
39 8 0.11
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (36 bp):
AAACAAATGTTGTCTCGCTTGAGACATTTTTTCTTA
Found at i:13013916 original size:66 final size:66
Alignment explanation
Indices: 13013827--13014088 Score: 285
Period size: 66 Copynumber: 4.0 Consensus size: 66
13013817 CAAAATTTAT
* * * *
13013827 AATCTTTGAGTTTGTTTCTCTTGAAACAAATTTTATCTCCCTTGAGACAGTTTCTCGTGAAACAC
1 AATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCGTGAAACAC
*
13013892 T
66 C
* * * * * *
13013893 AACCTTTAAGATTGTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACCGTTTCTCTTGAAACAC
1 AATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCGTGAAACAC
13013958 C
66 C
* * * * * * *
13013959 AATCTTTGTGATCATTTTCCTTGAAGA-GAATTTTGTCTCTCTTGAGACAGTTTCACTTGAAACA
1 AATCTTTGAGATCGTTTCCCTTGAA-ACAAATTTTGTCTCCCTTGAGACAGTTTCTCGTGAAACA
13014023 CC
65 CC
* ** * *
13014025 CATCTTTGAGATCGTTTCCCTTGAAATGAATTTTTTCTCTCTTGAGACAGTTTCT-GTTGAAACA
1 AATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCG-TGAAACA
13014089 AATCCCTAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
65 1 0.01
66 164 0.99
67 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.40
Consensus pattern (66 bp):
AATCTTTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCGTGAAACAC
C
Found at i:13019087 original size:13 final size:12
Alignment explanation
Indices: 13019064--13019095 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
13019054 AAGAAGGTAG
13019064 TTATAAAGGAAA
1 TTATAAAGGAAA
13019076 TTATAGAAGGAAA
1 TTATA-AAGGAAA
13019089 TTATAAA
1 TTATAAA
13019096 ATGGTTGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TTATAAAGGAAA
Found at i:13026566 original size:134 final size:134
Alignment explanation
Indices: 13026322--13026566 Score: 348
Period size: 134 Copynumber: 1.8 Consensus size: 134
13026312 AGCGATCACA
*
13026322 TCCCTAAAGATGGCCTGTCATCCTCATCACGTAGGAACCGTGCCATCCACAAACCAGACCTCCTC
1 TCCCTAAAGATGGCCTGTCATCCTCATCACGTAAGAACCGTGCCATCCACAAACCAGACCTCCTC
**
13026387 ATCACGAAGGAGCCGTGTCAACCCTAGATAACCAGATGTCCTCATCGCGTAGGAACCGTGTTATT
66 ATCACGAAGGAGCCGTGTCAACCCTAGATAACCAGAACTCCTCATCGCGTAGGAACCGTGTTATT
13026452 ACCC
131 ACCC
* * * * ** *
13026456 TCCCTAAAGATGGCCTGTCGTCCTCATCGCGTAAGAACTGTGTCATCCACCGACCAGATCTCCTC
1 TCCCTAAAGATGGCCTGTCATCCTCATCACGTAAGAACCGTGCCATCCACAAACCAGACCTCCTC
* * * *
13026521 ATCACGTAGGAGTCGTGTC-ACCCTTAGATGACCAGAACTCTTCATC
66 ATCACGAAGGAGCCGTGTCAACCC-TAGATAACCAGAACTCCTCATC
13026567 ACATATGAGC
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
133 4 0.04
134 92 0.96
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (134 bp):
TCCCTAAAGATGGCCTGTCATCCTCATCACGTAAGAACCGTGCCATCCACAAACCAGACCTCCTC
ATCACGAAGGAGCCGTGTCAACCCTAGATAACCAGAACTCCTCATCGCGTAGGAACCGTGTTATT
ACCC
Found at i:13033349 original size:22 final size:22
Alignment explanation
Indices: 13033322--13033373 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
13033312 AACTTTCAAC
*
13033322 CCAAGAGCTCTGCGTCTTTCAT
1 CCAAGAGCTCTGCGGCTTTCAT
13033344 CCAAGAGCTCTGCGGCTTTCAT
1 CCAAGAGCTCTGCGGCTTTCAT
13033366 CCAAGAGC
1 CCAAGAGC
13033374 ATCCCCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.21, C:0.33, G:0.21, T:0.25
Consensus pattern (22 bp):
CCAAGAGCTCTGCGGCTTTCAT
Found at i:13033446 original size:23 final size:23
Alignment explanation
Indices: 13033419--13033465 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
13033409 CTCCTGTAAG
13033419 CCCACGATATTTGACAGCTCTTT
1 CCCACGATATTTGACAGCTCTTT
13033442 CCCACGATATTTGACAGCTCTTT
1 CCCACGATATTTGACAGCTCTTT
13033465 C
1 C
13033466 TCAAGTTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (23 bp):
CCCACGATATTTGACAGCTCTTT
Found at i:13045295 original size:21 final size:23
Alignment explanation
Indices: 13045254--13045320 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 23
13045244 CTCTCATTTT
*
13045254 TTTCTAT-TTTCTTCTTCTTCTTC
1 TTTCTATCTTT-TTCTTTTTCTTC
13045277 -TTCT-TCTTTTTCTTTTTCTTC
1 TTTCTATCTTTTTCTTTTTCTTC
*
13045298 TTTCTATTTTTTTCTTTCTTCTT
1 TTTCTATCTTTTTCTTT-TTCTT
13045321 GTTATTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.32
22 11 0.29
23 10 0.26
24 5 0.13
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTCTATCTTTTTCTTTTTCTTC
Found at i:13045320 original size:3 final size:3
Alignment explanation
Indices: 13045262--13045299 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13045252 TTTTTCTATT
* *
13045262 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTT TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13045300 TCTATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (3 bp):
TTC
Found at i:13045326 original size:21 final size:20
Alignment explanation
Indices: 13045265--13045329 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
13045255 TTCTATTTTC
* *
13045265 TTCTTCTTCTTCTTCTTCTTT
1 TTCTTTTTCTTCTT-TTATTT
13045286 TTCTTTTTCTTCTTTCTATTT
1 TTCTTTTTCTTCTTT-TATTT
13045307 TT-TTCTTTCTTCTTGTTATTT
1 TTCTT-TTTCTTCTT-TTATTT
13045328 TT
1 TT
13045330 ACTCTTATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.08
21 35 0.90
22 1 0.03
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (20 bp):
TTCTTTTTCTTCTTTTATTT
Found at i:13048151 original size:45 final size:45
Alignment explanation
Indices: 13048092--13048266 Score: 239
Period size: 44 Copynumber: 3.9 Consensus size: 45
13048082 AATTTCTTAT
* *
13048092 CAATATATTTACCATTTATCCCATAAGCTCGTAAGCTTATTCTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
* * *
13048137 CAGTATACTTACCATTTATCCCTTAAGCT-GAAAGCTTATTTTAC
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
*
13048181 CAATACACTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTAC
* * *
13048227 CAATATACTTGCCA-TTATTCCATAAGCTTGT-AGCTTATTT
1 CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTT
13048267 GCATGGTTAC
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 9 0.08
44 41 0.36
45 39 0.34
46 26 0.23
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (45 bp):
CAATATACTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTAC
Found at i:13048480 original size:58 final size:57
Alignment explanation
Indices: 13048382--13048500 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 57
13048372 CTAACCCGAG
* * ** *
13048382 TATGACACATAAGGTCATGTCCACCATCTGTACTATGTATCCTTAAGTACAATCCCAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGT-CAATCCCAA
* * * **
13048440 TATGACACATAAGGTCGTGCCCACCGTATACACTAGGTATCCTTTAGTGTATCCCAA
1 TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTCAATCCCAA
13048497 TATG
1 TATG
13048501 CAGCCTACTG
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 11 0.22
58 40 0.78
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (57 bp):
TATGACACATAAGGTCATGCCCACCATATACACTAGGTATCCTTAAGTCAATCCCAA
Found at i:13048831 original size:24 final size:24
Alignment explanation
Indices: 13048785--13048832 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13048775 AGTCTTCATG
*
13048785 ATGATGTAGAAAACATATGTGTAC
1 ATGATGTAGAAAACATATATGTAC
* *
13048809 ATGATGTATAAAACATCTATGTAC
1 ATGATGTAGAAAACATATATGTAC
13048833 TATGTCATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (24 bp):
ATGATGTAGAAAACATATATGTAC
Found at i:13055812 original size:20 final size:20
Alignment explanation
Indices: 13055783--13055821 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13055773 TTTCCACCAC
*
13055783 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
13055803 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
13055822 TATGAGCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:13060460 original size:20 final size:20
Alignment explanation
Indices: 13060408--13060460 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
13060398 ACTGATGTGT
*
13060408 AGGTATCGATACAAAGAGGA
1 AGGTATCGATACCAAGAGGA
13060428 AGGTATCGATACCAAGAGGA
1 AGGTATCGATACCAAGAGGA
*
13060448 AGGTATTGATACC
1 AGGTATCGATACC
13060461 TTAGACGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (20 bp):
AGGTATCGATACCAAGAGGA
Found at i:13061123 original size:23 final size:23
Alignment explanation
Indices: 13061093--13061205 Score: 176
Period size: 23 Copynumber: 5.0 Consensus size: 23
13061083 GTCGAGAGTT
*
13061093 CTATGTGGTCCTTCGGGATAAAC
1 CTATGTGGTCCTTCGGGACAAAC
13061116 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
* *
13061139 CTATGTGGTCCTTCGTGACAAAA
1 CTATGTGGTCCTTCGGGACAAAC
13061162 CT-TGTGGTCCTTCGGGACAAA-
1 CTATGTGGTCCTTCGGGACAAAC
*
13061183 CTATGTGGTCCTTTGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAC
13061206 ATGTGGCACT
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
21 2 0.02
22 36 0.43
23 45 0.54
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAC
Found at i:13061170 original size:22 final size:23
Alignment explanation
Indices: 13061093--13061219 Score: 165
Period size: 23 Copynumber: 5.7 Consensus size: 23
13061083 GTCGAGAGTT
* *
13061093 CTATGTGGTCCTTCGGGATAAAC
1 CTATGTGGTCCTTCGGGACAAAA
*
13061116 CTATGTGGTCCTTCGGGACAAAC
1 CTATGTGGTCCTTCGGGACAAAA
*
13061139 CTATGTGGTCCTTCGTGACAAAA
1 CTATGTGGTCCTTCGGGACAAAA
13061162 CT-TGTGGTCCTTCGGGAC-AAA
1 CTATGTGGTCCTTCGGGACAAAA
*
13061183 CTATGTGGTCCTTTGGGAC-AAA
1 CTATGTGGTCCTTCGGGACAAAA
13061205 C-ATGTGG-CACTTCGG
1 CTATGTGGTC-CTTCGG
13061220 TGTAAATTAT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
20 1 0.01
21 16 0.17
22 34 0.35
23 45 0.47
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (23 bp):
CTATGTGGTCCTTCGGGACAAAA
Found at i:13070790 original size:23 final size:23
Alignment explanation
Indices: 13070764--13070846 Score: 98
Period size: 23 Copynumber: 3.7 Consensus size: 23
13070754 TGCTCCCTCA
*
13070764 GGACAAACCTATGTGGTCTTTCG
1 GGACAAACCTATGTGGTCATTCG
*
13070787 GGACAAACCTATGTGGTCATTCC
1 GGACAAACCTATGTGGTCATTCG
* * * *
13070810 AGACAAAACTATGTGGTCCTTAG
1 GGACAAACCTATGTGGTCATTCG
13070833 GGACAAA--TATGTGG
1 GGACAAACCTATGTGG
13070847 CACTTCGATG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
21 7 0.13
23 45 0.87
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (23 bp):
GGACAAACCTATGTGGTCATTCG
Found at i:13071713 original size:81 final size:78
Alignment explanation
Indices: 13071646--13072116 Score: 457
Period size: 81 Copynumber: 5.9 Consensus size: 78
13071636 TTGTTTACCA
* * * * *
13071646 AAAGGCATTTAACCTTTCATCTAAC-GTGCGTTATTGAAATCTTTCTGTCAAATGCACAGCTAGG
1 AAAGGTATTTAACCTTTCATCTAACTG-GCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG
*
13071710 CATTTAATCTTTAACTC
65 CA-TT-AT-TTTTACTC
* * * * *
13071727 AAAGG---TTAGCCTTTCATCTAACTGGCATAATTGACACATTTCGGTCAAATGCACAACTAGAC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGC
13071789 AATTATTCTTTTACTC
66 -ATTA-T-TTTTACTC
* * * *
13071805 AAAGGTATTTAGCCTTTCATATAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGGT
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG-
13071870 CATTATTCTTTTACTC
65 CATTA-T-TTTTACTC
* *
13071886 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCAGTCAAATGCATAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG-
13071951 CATTAATCTTTTACTC
65 CATT-AT-TTTTACTC
* * * * * **
13071967 AAAGGTATTTAACCTTTCATCTAACTAGAATAATTGACACCTTTATGTCAAGTACACAATTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG-
*
13072032 CATTAATCTTTTACTT
65 CATT-AT-TTTTACTC
* * * * * * * *
13072048 AAATGTATTTATCCTTTCATCTAACTAGCGTAATTGACA-TTTTTTGTCAAATGTATAGCTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGG-
13072112 CATTA
65 CATTA
13072117 ATATTTTATT
Statistics
Matches: 336, Mismatches: 46, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
77 1 0.00
78 62 0.18
79 3 0.01
80 21 0.06
81 247 0.74
82 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (78 bp):
AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAGGC
ATTATTTTTACTC
Found at i:13071969 original size:162 final size:161
Alignment explanation
Indices: 13071646--13072124 Score: 572
Period size: 162 Copynumber: 3.0 Consensus size: 161
13071636 TTGTTTACCA
* * * * * *
13071646 AAAGGCATTTAACCTTTCATCTAAC-GTGCGTTATTGAAATCTTTCTGTCAAATGCACAGCTAGG
1 AAAGGTATTTAACCTTTCATCTAACTG-GCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG
* * *
13071710 CATTTAATCTTTAACTCAAAGG---TTAGCCTTTCATCTAACTGGCATAATTGACACATTTCGGT
65 CA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAGT
* * * * *
13071772 CAAATGCACAACTAGACAATTATTCTTTTACTC
129 CAAATGCATAGCTAGGCCATTAATCTTTTACTC
* * *
13071805 AAAGGTATTTAGCCTTTCATATAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGGT
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG-
* *
13071870 CATTATTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCAGTC
65 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAGTC
13071935 AAATGCATAGCTAGGCCATTAATCTTTTACTC
130 AAATGCATAGCTAGGCCATTAATCTTTTACTC
* * * * * *
13071967 AAAGGTATTTAACCTTTCATCTAACTAGAATAATTGACACCTTTATGTCAAGTACACAATTAGGC
1 AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGG-
* * * * * * **
13072032 CATTAATCTTTTACTTAAATGTATTTATCCTTTCATCTAACTAGCGTAATTGACA-TTTTTTGTC
65 CATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAGTC
* *
13072096 AAATGTATAGCTAGGCCATTAATATTTTA
130 AAATGCATAGCTAGGCCATTAATCTTTTA
13072125 TTTAAAACAG
Statistics
Matches: 275, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
159 70 0.25
160 3 0.01
161 33 0.12
162 169 0.61
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (161 bp):
AAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTAGGC
ATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCAGTCA
AATGCATAGCTAGGCCATTAATCTTTTACTC
Found at i:13078805 original size:81 final size:81
Alignment explanation
Indices: 13078678--13079169 Score: 578
Period size: 81 Copynumber: 6.1 Consensus size: 81
13078668 AAACATTTAG
* * * * * *
13078678 TCTTTTACCCAAA-GTCATTTAGCCTTTCATCTAACTTGCATTATTGACACATTTCTACCAAATG
1 TCTTTTACTCAAAGGT-ATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATG
*
13078742 CACAGTTA-GACATTTAA
65 CACAGCTAGGACA-TTAA
* ** * * * *
13078759 TCTTTAACTCAAAGACATCTAGCCTTTCATCTAAATGGCATAATTGACATCTTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* *
13078824 ACAACTAGG-CAATTAT
66 ACAGCTAGGAC-ATTAA
* * *
13078840 TCTTTTACTCAAAGGTATTTAACCTTTAATCTAACTGGCATAATTTACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* * *
13078905 ACAGATAGGTCATTAT
66 ACAGCTAGGACATTAA
* * *
13078921 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACACCTTTATGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* *
13078986 ACAACTAGGCCATTAA
66 ACAGCTAGGACATTAA
* * * *
13079002 TCTTTTACTTAAAGGTATTTAATCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* *
13079067 ATAGCTAGGCCATTAA
66 ACAGCTAGGACATTAA
* ** *
13079083 TCTTTTACTCAAATGTATTTAACCTTTCATCT-ACTGTAATAATTGACACCGTTCTATCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
* *
13079147 ACAACTAGGCCATTAA
66 ACAGCTAGGACATTAA
13079163 TCTTTTA
1 TCTTTTA
13079170 TTTAAAACAG
Statistics
Matches: 356, Mismatches: 51, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
80 48 0.13
81 305 0.86
82 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTATCAAATGC
ACAGCTAGGACATTAA
Found at i:13078949 original size:162 final size:162
Alignment explanation
Indices: 13078678--13079169 Score: 650
Period size: 162 Copynumber: 3.0 Consensus size: 162
13078668 AAACATTTAG
* * * * **
13078678 TCTTTTACCCAAA-GTCATTTAGCCTTTCATCTAACTTGCATTATTGACACATTTCTACCAAATG
1 TCTTTTACTCAAAGGT-ATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATG
* * ** * * * *
13078742 CACAGTTA-GACATTTAATCTTTAACTCAAAGACATCTAGCCTTTCATCTAAATGGCATAATTGA
65 CACAGATAGGACA-TTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGA
* * *
13078806 CATCTTTCTATCAAATGCACAACTAGGCAATTAT
129 CACCTTTCTATCAAATGCACAACTAGGCCATTAA
* * *
13078840 TCTTTTACTCAAAGGTATTTAACCTTTAATCTAACTGGCATAATTTACACCTTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
13078905 ACAGATAGGTCATTATTCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACA
66 ACAGATAGGACATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACA
* *
13078970 CCTTTATGTCAAATGCACAACTAGGCCATTAA
131 CCTTTCTATCAAATGCACAACTAGGCCATTAA
* *
13079002 TCTTTTACTTAAAGGTATTTAATCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
* * * *
13079067 ATAGCTAGGCCATTAATCTTTTACTCAAATGTATTTAACCTTTCATCT-ACTGTA-ATAATTGAC
66 ACAGATAGGACATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTG-ACATAATTGAC
*
13079130 ACCGTTCTATCAAATGCACAACTAGGCCATTAA
130 ACCTTTCTATCAAATGCACAACTAGGCCATTAA
13079163 TCTTTTA
1 TCTTTTA
13079170 TTTAAAACAG
Statistics
Matches: 290, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
161 50 0.17
162 235 0.81
163 5 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (162 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGC
ACAGATAGGACATTAATCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGACATAATTGACA
CCTTTCTATCAAATGCACAACTAGGCCATTAA
Found at i:13079469 original size:19 final size:19
Alignment explanation
Indices: 13079445--13079492 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
13079435 CTATACTATG
*
13079445 GTATCGATACTCTATTTCA
1 GTATCGATACTCCATTTCA
*
13079464 GTATCGATACTCCATTTCT
1 GTATCGATACTCCATTTCA
13079483 GTATCGATAC
1 GTATCGATAC
13079493 CATTTTGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (19 bp):
GTATCGATACTCCATTTCA
Found at i:13082461 original size:30 final size:30
Alignment explanation
Indices: 13082425--13082484 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13082415 TATCATACAG
13082425 ATGAAAATTGTAGGAACATCCATCACATGT
1 ATGAAAATTGTAGGAACATCCATCACATGT
13082455 ATGAAAATTGTAGGAACATCCATCACATGT
1 ATGAAAATTGTAGGAACATCCATCACATGT
13082485 TCATAAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (30 bp):
ATGAAAATTGTAGGAACATCCATCACATGT
Found at i:13084043 original size:11 final size:11
Alignment explanation
Indices: 13084027--13084051 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13084017 CACAATAGAA
13084027 TCCGGTCCTCC
1 TCCGGTCCTCC
13084038 TCCGGTCCTCC
1 TCCGGTCCTCC
13084049 TCC
1 TCC
13084052 TGGTTTCACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.56, G:0.16, T:0.28
Consensus pattern (11 bp):
TCCGGTCCTCC
Found at i:13091053 original size:15 final size:15
Alignment explanation
Indices: 13091007--13091055 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
13090997 AGAATAAATG
*
13091007 AAAAAATGAAAAAGTA
1 AAAAAATG-AAAAGAA
*
13091023 AAAAAGT-AAAATGAA
1 AAAAAATGAAAA-GAA
13091038 AAAAAATGAAAAGAA
1 AAAAAATGAAAAGAA
13091053 AAA
1 AAA
13091056 TAAGGGTTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 4 0.14
15 14 0.50
16 10 0.36
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAAAAATGAAAAGAA
Found at i:13092215 original size:101 final size:101
Alignment explanation
Indices: 13091978--13092242 Score: 379
Period size: 101 Copynumber: 2.6 Consensus size: 101
13091968 CAACAACTAT
** *
13091978 AATTCACCCCAAAATTAGGTGAATCAACATTTCCATAAGAGTTCATAATGAGAAGAACTCATCCT
1 AATTCACCCCAAAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAA--C-TCCT
* * **
13092043 ACGGAGAAGGTTCGTAATGAGAAGAGTTTGTTCCTTTCA
63 AAGGAGAAAGTTCGTAATGAGAAGAGCATGTTCCTTTCA
* * *
13092082 AATTCTCCCCATAAGGAGGTGAATCAAAATTTCCAGAAGAGTTCATAATGAGAAGAACTCCTAAA
1 AATTCACCCCAAAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCCT-AA
*
13092147 GGAGAAAGTTTGTAATGAGAAGAGCATGTTCCTTTC-
65 GGAGAAAGTTCGTAATGAGAAGAGCATGTTCCTTTCA
*
13092183 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
1 AATTCACCCCAAAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTC
13092243 ATTCGACAAA
Statistics
Matches: 146, Mismatches: 14, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
101 61 0.42
102 34 0.23
104 51 0.35
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (101 bp):
AATTCACCCCAAAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCCTAAG
GAGAAAGTTCGTAATGAGAAGAGCATGTTCCTTTCA
Found at i:13093404 original size:7 final size:7
Alignment explanation
Indices: 13093392--13093426 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
13093382 AAATATGGGA
13093392 ATATTTT
1 ATATTTT
13093399 ATATTTT
1 ATATTTT
13093406 ATATTTT
1 ATATTTT
13093413 ATATTTT
1 ATATTTT
13093420 ATATTTT
1 ATATTTT
13093427 TCCTTAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATATTTT
Found at i:13096259 original size:64 final size:65
Alignment explanation
Indices: 13096183--13096304 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 65
13096173 GAAGAGCTAG
* * * * *
13096183 GTCGTATCTGTAGAAGTGAACTATTATGTAA-TGAAACTTTTTGTTTTAATGGAAGTTAAACTAA
1 GTCGTATATGTAGAAATGAAATATTATGTAATTAAAACTTTTTGTTATAATGGAAGTTAAACTAA
13096247 GTCGTATATGTAGAAATGAAATATTATGTAATTAAAACTTTTTGTTATAATGGAAGTT
1 GTCGTATATGTAGAAATGAAATATTATGTAATTAAAACTTTTTGTTATAATGGAAGTT
13096305 GTTCTATGAC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
64 28 0.54
65 24 0.46
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (65 bp):
GTCGTATATGTAGAAATGAAATATTATGTAATTAAAACTTTTTGTTATAATGGAAGTTAAACTAA
Found at i:13101992 original size:7 final size:7
Alignment explanation
Indices: 13101982--13102098 Score: 96
Period size: 7 Copynumber: 16.1 Consensus size: 7
13101972 AAGAAAAAAG
13101982 AATGAAA
1 AATGAAA
13101989 AATGAAA
1 AATGAAA
13101996 AATGAAA
1 AATGAAA
13102003 AATGAAA
1 AATGAAA
13102010 AATGAAA
1 AATGAAA
*
13102017 AAAGAAAA
1 AATG-AAA
*
13102025 AAAGAAAAA
1 AATG--AAA
13102034 AATGAAA
1 AATGAAA
13102041 AA-G-AA
1 AATGAAA
13102046 AATGAAAA
1 AATG-AAA
*
13102054 AAAGAAA
1 AATGAAA
*
13102061 AATAAAGA
1 AATGAA-A
*
13102069 AATAAAGA
1 AATGAA-A
*
13102077 AATAAAGA
1 AATGAA-A
13102085 AAT-AAA
1 AATGAAA
13102091 AATGAAA
1 AATGAAA
13102098 A
1 A
13102099 GAAAAAGGAG
Statistics
Matches: 98, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
5 4 0.04
6 6 0.06
7 49 0.50
8 32 0.33
9 7 0.07
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (7 bp):
AATGAAA
Found at i:13102081 original size:16 final size:16
Alignment explanation
Indices: 13102060--13102090 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13102050 AAAAAAAGAA
13102060 AAATAAAGAAATAAAG
1 AAATAAAGAAATAAAG
13102076 AAATAAAGAAATAAA
1 AAATAAAGAAATAAA
13102091 AATGAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (16 bp):
AAATAAAGAAATAAAG
Found at i:13102099 original size:16 final size:15
Alignment explanation
Indices: 13102016--13102102 Score: 54
Period size: 16 Copynumber: 5.5 Consensus size: 15
13102006 GAAAAATGAA
* *
13102016 AAAAGAAAAAAAGAAA
1 AAAAGAAATAAA-AAT
*
13102032 AAAATGAAAAAGAAAAT
1 AAAA-GAAATA-AAAAT
*
13102049 GAAAA-AAAGAAAAAT
1 -AAAAGAAATAAAAAT
13102064 -AAAGAAATAAAGAA-
1 AAAAGAAATAAA-AAT
13102078 ATAAAGAAATAAAAAT
1 A-AAAGAAATAAAAAT
13102094 GAAAAGAAA
1 -AAAAGAAA
13102103 AAGGAGGGTT
Statistics
Matches: 59, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
13 3 0.05
14 6 0.10
15 9 0.15
16 26 0.44
17 9 0.15
18 6 0.10
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (15 bp):
AAAAGAAATAAAAAT
Found at i:13103260 original size:105 final size:102
Alignment explanation
Indices: 13103027--13103295 Score: 340
Period size: 105 Copynumber: 2.6 Consensus size: 102
13103017 CAACAACTAT
* * * *
13103027 AATTCACCCTAGAAGTAGGTGAATCAACATTTCCAGAAGAGTTAATAATGAGAAGAACTTGTCCT
1 AATTCACCCCAGAAG-AGGTGAATCAACATTT-CAAAAGAGTTCATAATGAGAAGAACTCGTCCT
* **
13103092 AAAGATAAGGTTAGTAATGAAAAGAGCTTGTTCCTTTCA
64 AAAGAGAAGGTTAGTAATGAAAAGAGAATGTTCCTTTCA
* * ** *
13103131 AATTCACTCCATAAGGAGGTGAATCATTATTTCTGAAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAA-GAGGTGAATCAACATTTC-AAAAGAGTTCATAATGAGAAGAACTCGTCCT
* *
13103196 AAAGGAGAAGGTTCGTAATGAGAAGAGAATGTTCCTTTCA
64 AAA-GAGAAGGTTAGTAATGAAAAGAGAATGTTCCTTTCA
*
13103236 AATTCACCCCAGAATGAGGTGAATCAACATTTCCAAAAGAGTTCATAATAAGAAGAACTC
1 AATTCACCCCAGAA-GAGGTGAATCAACATTT-CAAAAGAGTTCATAATGAGAAGAACTC
13103296 ATCCGAAAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
103 1 0.01
104 55 0.39
105 83 0.59
106 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (102 bp):
AATTCACCCCAGAAGAGGTGAATCAACATTTCAAAAGAGTTCATAATGAGAAGAACTCGTCCTAA
AGAGAAGGTTAGTAATGAAAAGAGAATGTTCCTTTCA
Found at i:13107385 original size:20 final size:20
Alignment explanation
Indices: 13107292--13107375 Score: 123
Period size: 20 Copynumber: 4.2 Consensus size: 20
13107282 GAATATGTAA
* * *
13107292 ATCGCAATGCGAGTATGACT
1 ATCGCAACGCGATTCTGACT
13107312 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
13107332 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
13107352 GTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
13107372 ATCG
1 ATCG
13107376 AAATGTGATT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:13107586 original size:22 final size:22
Alignment explanation
Indices: 13107561--13107602 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
13107551 GCGACATCCG
13107561 TCCCCATCTCCAACGAAATCAA
1 TCCCCATCTCCAACGAAATCAA
**
13107583 TCCCCATCTCCGGCGAAATC
1 TCCCCATCTCCAACGAAATC
13107603 CGTCTATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.43, G:0.10, T:0.19
Consensus pattern (22 bp):
TCCCCATCTCCAACGAAATCAA
Found at i:13108061 original size:20 final size:20
Alignment explanation
Indices: 13107988--13108061 Score: 80
Period size: 19 Copynumber: 3.8 Consensus size: 20
13107978 AGAATCGCAA
*
13107988 TGCGATTTT-AGTTTCACGT
1 TGCGATTTTCAGTTTCGCGT
13108007 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCAGTTTCGCGT
** * *
13108026 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCAGTTTCGCGT
*
13108046 TGCGATTTTAAGTTTC
1 TGCGATTTTCAGTTTC
13108062 AGAAACTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
19 25 0.56
20 20 0.44
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
TGCGATTTTCAGTTTCGCGT
Found at i:13109438 original size:18 final size:18
Alignment explanation
Indices: 13109389--13109438 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
13109379 CTCCACTTCG
*
13109389 AGAGCCATCACCTCACCC
1 AGAGCCATCACCTGACCC
13109407 AGAGCCATCACCTGACCC
1 AGAGCCATCACCTGACCC
13109425 AGAGCCATCACCTG
1 AGAGCCATCACCTG
13109439 TTCGCCCGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.44, G:0.16, T:0.12
Consensus pattern (18 bp):
AGAGCCATCACCTGACCC
Found at i:13109832 original size:18 final size:18
Alignment explanation
Indices: 13109806--13109855 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
13109796 TTTACTCGTA
13109806 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
*
13109824 ATTTTACTTAGATTAACC
1 ATTTCACTTAGATTAACC
13109842 ATTTCACTTAGATT
1 ATTTCACTTAGATT
13109856 GCTTAGTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:13110028 original size:20 final size:20
Alignment explanation
Indices: 13110003--13110070 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
13109993 TAGTTTACTT
13110003 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* *
13110023 TCGCAACGCGAAAATAACTA
1 TCGCAACACGAAAATGACTA
* **
13110043 TCGCAACGCGAATTTGACTA
1 TCGCAACACGAAAATGACTA
*
13110063 TCGTAACA
1 TCGCAACA
13110071 AAAGAATCGC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:13110144 original size:20 final size:20
Alignment explanation
Indices: 13110118--13110219 Score: 111
Period size: 20 Copynumber: 5.2 Consensus size: 20
13110108 TCTCTTGTTA
*
13110118 CGATAGTCAAATTCGCGTTG
1 CGATAGTCAATTTCGCGTTG
* *
13110138 TGATAGTCATTTTCGCGTTG
1 CGATAGTCAATTTCGCGTTG
* * *
13110158 CGATAGTTATTTTCACGTTG
1 CGATAGTCAATTTCGCGTTG
13110178 CGATAGTC-ATTTCCGCGTTG
1 CGATAGTCAATTT-CGCGTTG
*
13110198 CGATAGTC-A-TTCGTGTTG
1 CGATAGTCAATTTCGCGTTG
13110216 CGAT
1 CGAT
13110220 TTTAAGTTTC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
18 10 0.14
19 5 0.07
20 56 0.79
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
CGATAGTCAATTTCGCGTTG
Found at i:13111213 original size:14 final size:14
Alignment explanation
Indices: 13111179--13111240 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
13111169 TTGCTTGTTT
*
13111179 AATTGATTTATAAA
1 AATTGATTTGTAAA
*
13111193 AACTGATTTGTAAA
1 AATTGATTTGTAAA
* *
13111207 AGTTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
13111222 TATTGATGTGTAAA
1 AATTGATTTGTAAA
13111236 TAATT
1 -AATT
13111241 CTTATTTGTG
Statistics
Matches: 36, Mismatches: 10, Indels: 3
0.73 0.20 0.06
Matches are distributed among these distances:
14 23 0.64
15 13 0.36
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:13111443 original size:20 final size:20
Alignment explanation
Indices: 13111415--13111672 Score: 131
Period size: 20 Copynumber: 13.8 Consensus size: 20
13111405 GCAATTTTCT
* *
13111415 CGTTACGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCC
* *
13111435 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCC
* *
13111455 CGTTGCGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
*
13111475 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCC
**
13111489 CGTTGCGATAGTCAAATAGC
1 CGTTGCGATAGTCAAATTCC
*
13111509 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCC
* * *
13111529 CGTTGTGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCC
* *
13111549 TGTTGCGAT--T----TT-G
1 CGTTGCGATAGTCAAATTCC
* *
13111562 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCC
* *
13111582 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
**
13111602 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCC
* * *
13111616 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCC
* *
13111636 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCC
* *
13111656 CGTTGCAATATTCAAAT
1 CGTTGCGATAGTCAAAT
13111673 GAATGTGTAA
Statistics
Matches: 189, Mismatches: 30, Indels: 38
0.74 0.12 0.15
Matches are distributed among these distances:
13 9 0.05
14 25 0.13
15 1 0.01
16 2 0.01
18 2 0.01
19 2 0.01
20 148 0.78
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCC
Found at i:13111498 original size:74 final size:74
Alignment explanation
Indices: 13111366--13111610 Score: 314
Period size: 74 Copynumber: 3.3 Consensus size: 74
13111356 AAATCGCAAC
* * * * * *
13111366 GCGAAAGTC-AATTCGCGTTGCGATAGTCTAATACGCTTTGCAATTTTCTCGTTACGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
13111430 ATACCCGTT
66 ATACCCGTT
* *
13111439 GCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
*
13111504 ATAGCCGTT
66 ATACCCGTT
* * * * * *
13111513 GCGATAGTCAAATTCACGTTGTGATAGACAAATTCGTGTTGCGATTTT-GCGTTGCGATAGTCAT
1 GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
* **
13111577 ATTCGTGTT
66 ATACCCGTT
13111586 GCGATAGTCAAATTCGCGTTGCGAT
1 GCGATAGTCAAATTCGCGTTGCGAT
13111611 TTTTGAGTTG
Statistics
Matches: 148, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
73 49 0.33
74 99 0.67
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.33
Consensus pattern (74 bp):
GCGATAGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAA
ATACCCGTT
Found at i:13111574 original size:53 final size:54
Alignment explanation
Indices: 13111509--13111661 Score: 227
Period size: 54 Copynumber: 2.9 Consensus size: 54
13111499 GTCAAATAGC
** * * *
13111509 CGTTGCGATAGTCAAATTCACGTTGTGATAGACAAATTCGTGTTGCGA-TTTTG
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
*
13111562 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
* *
13111616 AGTTGCGATAATCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGC
1 CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGC
13111662 AATATTCAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 42 0.47
54 48 0.53
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (54 bp):
CGTTGCGATAGTCAAATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
Found at i:13111672 original size:127 final size:127
Alignment explanation
Indices: 13111435--13111665 Score: 331
Period size: 127 Copynumber: 1.8 Consensus size: 127
13111425 GTCAAATACC
* *
13111435 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAG
1 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCTAGTTGCGATAA
**
13111500 TCAAATAGCCGTTGCGATAGTCAAATTCACGTTGTGATAGACAAATTCGTGTTGCGATTTTG
66 TCAAATAGCCGTTGCGATAGTCAAATTCACGTTGCAATAGACAAATTCGTGTTGCGATTTTG
* * * *
13111562 CGTTGCGATAGTCATATTCGTGTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATA
1 CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCT-AGTTGCGATA
* * *
13111626 ATCAAAT-TCGTGTTGCGATAGTCAAATTCGCGTTGCAATA
65 ATCAAATAGC-CGTTGCGATAGTCAAATTCACGTTGCAATA
13111666 TTCAAATGAA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
126 2 0.02
127 89 0.98
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (127 bp):
CGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCGCGTTGCGATTTTCTAGTTGCGATAA
TCAAATAGCCGTTGCGATAGTCAAATTCACGTTGCAATAGACAAATTCGTGTTGCGATTTTG
Found at i:13111895 original size:140 final size:140
Alignment explanation
Indices: 13111643--13111912 Score: 486
Period size: 140 Copynumber: 1.9 Consensus size: 140
13111633 TCGTGTTGCG
*
13111643 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
*
13111708 TAGCAATGTTCAAACTCAAGTTACTAATATATCCCTAACTAAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATCCCTAACTAAAAATGTTAAAAGTTTACACATAA
13111773 AATACACATA
131 AATACACATA
* *
13111783 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAGAACTGAACAGATCA
1 ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* *
13111848 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATCCCTAACTAAAAATGTTAAAAGTTTACACATAA
13111913 TACAACGTTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCAATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATCCCTAACTAAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:13111995 original size:18 final size:18
Alignment explanation
Indices: 13111972--13112006 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13111962 AAGCCGGTTG
*
13111972 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
13111990 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
13112007 GCCTTTTTCT
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:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:13114061 original size:14 final size:14
Alignment explanation
Indices: 13114042--13114078 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13114032 TCCCGTGGCA
13114042 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
13114056 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
13114070 TTCTTCTTC
1 TT-TTCTTC
13114079 TTTTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:13114295 original size:24 final size:24
Alignment explanation
Indices: 13114268--13114321 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
13114258 TTGAAACATC
13114268 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
13114292 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
13114316 ATCAAA
1 ATCAAA
13114322 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:13115166 original size:20 final size:20
Alignment explanation
Indices: 13115141--13115275 Score: 121
Period size: 20 Copynumber: 6.8 Consensus size: 20
13115131 AAATTCAGTG
* * *
13115141 TTGCGACAGTCAGAATTGCT
1 TTGCGATAGTCAGAATCGCA
13115161 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
*
13115181 TTGCGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
* *
13115201 TTGTGATAGTCATAATCGCA
1 TTGCGATAGTCAGAATCGCA
* * *
13115221 TTGCGAT-TTACATATTCGCA
1 TTGCGATAGT-CAGAATCGCA
* * * *
13115241 TTGCGAT-TTACATATTCGGA
1 TTGCGATAGT-CAGAATCGCA
13115261 TTGCGATAGTCAGAA
1 TTGCGATAGTCAGAA
13115276 AATCGCAACC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
19 1 0.01
20 99 0.98
21 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:13115599 original size:10 final size:10
Alignment explanation
Indices: 13115584--13115613 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
13115574 ATATGAGAAA
13115584 AAATTAATTT
1 AAATTAATTT
13115594 AAATTAATTT
1 AAATTAATTT
*
13115604 AATTTAATTT
1 AAATTAATTT
13115614 TTAAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTAATTT
Found at i:13119806 original size:2 final size:2
Alignment explanation
Indices: 13119801--13119840 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13119791 AATGTATTGT
13119801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13119841 ACAATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13122924 original size:23 final size:23
Alignment explanation
Indices: 13122898--13122959 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
13122888 TGGGTTAACT
13122898 AGTTTACATATTATATAGTTTAA
1 AGTTTACATATTATATAGTTTAA
13122921 AGTTTACATATTATATAGTTTAA
1 AGTTTACATATTATATAGTTTAA
*
13122944 AGTTTATATACTTATA
1 AGTTTACATA-TTATA
13122960 CTCATACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
23 32 0.86
24 5 0.14
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (23 bp):
AGTTTACATATTATATAGTTTAA
Found at i:13129321 original size:15 final size:14
Alignment explanation
Indices: 13129292--13129330 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
13129282 ATGTAAATGA
13129292 ATAAAATATTTTAT
1 ATAAAATATTTTAT
13129306 ATAAAATATATTTAT
1 ATAAAATAT-TTTAT
13129321 A-AAAATATTT
1 ATAAAATATTT
13129331 AATAATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 2 0.08
14 16 0.67
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATAAAATATTTTAT
Found at i:13129335 original size:13 final size:13
Alignment explanation
Indices: 13129294--13129335 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 13
13129284 GTAAATGAAT
13129294 AAAATATTTTATATA
1 AAAATA-TTTA-ATA
13129309 AAATATATTT-ATA
1 AAA-ATATTTAATA
13129322 AAAATATTTAATA
1 AAAATATTTAATA
13129335 A
1 A
13129336 TTAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 10 0.40
15 6 0.24
16 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATATTTAATA
Found at i:13130132 original size:20 final size:21
Alignment explanation
Indices: 13130102--13130146 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
13130092 TTTATAGCAT
13130102 TATACCCTTTATATAAATACA
1 TATACCCTTTATATAAATACA
* *
13130123 TATA-CCTTTATATATATACT
1 TATACCCTTTATATAAATACA
13130143 TATA
1 TATA
13130147 TATATATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (21 bp):
TATACCCTTTATATAAATACA
Found at i:13130138 original size:2 final size:2
Alignment explanation
Indices: 13130131--13130273 Score: 102
Period size: 2 Copynumber: 71.5 Consensus size: 2
13130121 CATATACCTT
* * **
13130131 TA TA TA TA TA CT- TA TA TA TA TA TA CA CT- TT TA TA TA TA TA CC
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * * *
13130173 TT TA TA TA T- TA TA -A TA TA TA TA CA TG CA T- TA TA T- TA TCA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A
13130212 TGA TA T- TCA TCA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 T-A TA TA T-A T-A T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13130255 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
13130274 GTTTCAATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
1 7 0.06
2 96 0.83
3 12 0.10
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13130141 original size:14 final size:14
Alignment explanation
Indices: 13130122--13130181 Score: 86
Period size: 14 Copynumber: 4.1 Consensus size: 14
13130112 ATATAAATAC
13130122 ATATACCTTTATAT
1 ATATACCTTTATAT
13130136 ATATA-CTTATATAT
1 ATATACCTT-TATAT
13130150 ATATACACTTTTATAT
1 ATATAC-C-TTTATAT
13130166 ATATACCTTTATAT
1 ATATACCTTTATAT
13130180 AT
1 AT
13130182 TATAATATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.07
14 24 0.57
15 1 0.02
16 12 0.29
17 2 0.05
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATACCTTTATAT
Found at i:13131755 original size:19 final size:19
Alignment explanation
Indices: 13131726--13131793 Score: 100
Period size: 19 Copynumber: 3.6 Consensus size: 19
13131716 GCAATAAGTT
*
13131726 TATCGATACACAGGCAGTG
1 TATCAATACACAGGCAGTG
*
13131745 TATTAATACACAGGCAGTG
1 TATCAATACACAGGCAGTG
*
13131764 TATCGATACACAGGCAGTG
1 TATCAATACACAGGCAGTG
*
13131783 TATCGATACAC
1 TATCAATACAC
13131794 CAGTGAAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (19 bp):
TATCAATACACAGGCAGTG
Found at i:13132389 original size:31 final size:31
Alignment explanation
Indices: 13132347--13132469 Score: 174
Period size: 31 Copynumber: 4.0 Consensus size: 31
13132337 GAGTCGAGGG
*
13132347 TTACCTATGTTCTTCGGGACGTATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
13132378 TTATCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
*
13132409 TTACCTATGTTCTTTGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGA
* * ** *
13132440 TTACCTAGGTTTTTATGGACCTATGGACTG
1 TTACCTATGTTCTTCGGGACATATGGACTG
13132470 GTCCTTCGGG
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 83 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGA
Found at i:13133029 original size:21 final size:21
Alignment explanation
Indices: 13133003--13133046 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13132993 GGTTGAAATT
*
13133003 ACTGTAGCAGTGCATCGGTAC
1 ACTGTAGCAGTGCATCGATAC
*
13133024 ACTGTAGTAGTGCATCGATAC
1 ACTGTAGCAGTGCATCGATAC
13133045 AC
1 AC
13133047 ATTTTAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (21 bp):
ACTGTAGCAGTGCATCGATAC
Found at i:13133137 original size:19 final size:20
Alignment explanation
Indices: 13133090--13133139 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13133080 CTGTTCACGG
* * *
13133090 TACTATTTAAACAGTATCGA
1 TACTATTCATACAGTATCAA
*
13133110 TATTATTCATACAGTA-CAA
1 TACTATTCATACAGTATCAA
13133129 TACTATTCATA
1 TACTATTCATA
13133140 AAAACATCTG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.38
Consensus pattern (20 bp):
TACTATTCATACAGTATCAA
Found at i:13133657 original size:19 final size:19
Alignment explanation
Indices: 13133633--13133671 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
13133623 ACATCGAATG
*
13133633 CATTTCATGCATCGATGCA
1 CATTTCATGCACCGATGCA
13133652 CATTTCATGCACCGATGCA
1 CATTTCATGCACCGATGCA
13133671 C
1 C
13133672 TGAGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (19 bp):
CATTTCATGCACCGATGCA
Found at i:13133691 original size:65 final size:64
Alignment explanation
Indices: 13133622--13133802 Score: 199
Period size: 65 Copynumber: 2.8 Consensus size: 64
13133612 AATTAAATTG
* *
13133622 AACATCGAATGCATTTCATGCATCGATGCACATTTCATGCACCGATGCACTGAGG-ATTTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATTTCATGCACCGATGCACTCAGGCATTTT-TG-
13133686 A
64 A
** ** *
13133687 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATTGATGCACTCTGGCTATTTTTG
1 AACATCGAATGCATTTGATGCATCGATGCA-CATTTCATGCACCGATGCACTCAGGC-ATTTTTG
13133751 A
64 A
* *
13133752 AACATTGAATGCACTTGATGCATCGATGCAC-TCTT-AGTGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACAT-TTCA-TGCACCGATGCACT
13133803 AAGGGTCCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
64 2 0.02
65 86 0.89
66 4 0.04
67 5 0.05
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATTTCATGCACCGATGCACTCAGGCATTTTTGA
Found at i:13133782 original size:17 final size:19
Alignment explanation
Indices: 13133760--13133802 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
13133750 GAAACATTGA
*
13133760 ATGCACT-TGA-TGCATCG
1 ATGCACTCTGAGTGCACCG
*
13133777 ATGCACTCTTAGTGCACCG
1 ATGCACTCTGAGTGCACCG
13133796 ATGCACT
1 ATGCACT
13133803 AAGGGTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 2 0.09
19 13 0.59
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (19 bp):
ATGCACTCTGAGTGCACCG
Found at i:13135745 original size:22 final size:21
Alignment explanation
Indices: 13135721--13135760 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13135711 GAGAAATTAT
13135721 TTTTAAAATAT-AAAAATGTTG
1 TTTTAAAAT-TGAAAAATGTTG
13135742 TTTTAAAATTGAAAAATGT
1 TTTTAAAATTGAAAAATGT
13135761 AAATAAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGTTG
Found at i:13141922 original size:19 final size:19
Alignment explanation
Indices: 13141895--13141933 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13141885 ACATAGAATG
* *
13141895 CATTTCATGCATCGATGCA
1 CATTCCATGCACCGATGCA
13141914 CATTCCATGCACCGATGCA
1 CATTCCATGCACCGATGCA
13141933 C
1 C
13141934 TGAGGATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (19 bp):
CATTCCATGCACCGATGCA
Done.