Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 30 of 51
Found at i:5990983 original size:7 final size:7
Alignment explanation
Indices: 5990939--5991005 Score: 68
Period size: 7 Copynumber: 9.7 Consensus size: 7
5990929 ATGCTTGAAG
5990939 AAAA-AA
1 AAAAGAA
5990945 AAAAGAA
1 AAAAGAA
*
5990952 GAAA-AA
1 AAAAGAA
*
5990958 AAGAGAGA
1 AAAAGA-A
5990966 AAAAGAGA
1 AAAAGA-A
*
5990974 AAAAGCA
1 AAAAGAA
5990981 AAAA-AA
1 AAAAGAA
5990987 AAAAGAA
1 AAAAGAA
5990994 AAAAGAA
1 AAAAGAA
5991001 AAAAG
1 AAAAG
5991006 GGGTCAAGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
6 13 0.25
7 25 0.49
8 13 0.25
ACGTcount: A:0.82, C:0.01, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:5992277 original size:83 final size:83
Alignment explanation
Indices: 5992137--5992648 Score: 918
Period size: 83 Copynumber: 6.2 Consensus size: 83
5992127 ACATTAACTG
*
5992137 GAAGATGAATGTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 GAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
5992201 GAACCAATCATTGAATTTA
65 GAACCAATCATTGAATTTA
* * *
5992220 AAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCCGATCTGGTTGAACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
5992285 AACCAATCATTGAATTTA
66 AACCAATCATTGAATTTA
5992303 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
5992368 AACCAATCATTGAATTTA
66 AACCAATCATTGAATTTA
5992386 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
5992451 AACCAATCATTGAATTTA
66 AACCAATCATTGAATTTA
* *
5992469 GAAGATGAATTTGACAATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
*
5992534 AACCATTCATTGAATTTA
66 AACCAATCATTGAATTTA
* *
5992552 GAAGATGAATTTGCCAATAGCAACTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG
1 GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
*
5992617 AACCAATCATTGAATTTG
66 AACCAATCATTGAATTTA
5992635 GAAGATGAATTTGC
1 GAAGATGAATTTGC
5992649 TCATAGTAGA
Statistics
Matches: 412, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
82 1 0.00
83 411 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.35
Consensus pattern (83 bp):
GAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAG
AACCAATCATTGAATTTA
Found at i:5993661 original size:113 final size:113
Alignment explanation
Indices: 5993457--5994080 Score: 934
Period size: 113 Copynumber: 5.5 Consensus size: 113
5993447 GAATCCATAA
*
5993457 TGATGGATCAGCTTGTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * *
5993522 GTTCATAATGAAAAGAACTTGTTCAACCTTTTGCCTAAATTCATCACT
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTAAATTCATCACT
**
5993570 TGATAAATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
5993635 ATTCATAATGAGAAGAATTTGTTCAACCTTTT-ACTCAAATCCATCACT
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCT-AAATTCATCACT
*
5993683 TGATGGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AA
1 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
** * *
5993747 AGTTCATAATGAGAAGAGCTTGTTCAACCTTTTG-CTCAAATCCATCATT
66 A-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCCT-AAATTCATCACT
5993796 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
5993861 ATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACT
66 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTAAATTCATCACT
*
5993909 TGATGGATCAGCTTTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA-AA
1 TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
** *
5993973 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAAT
66 A-TTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTAAATTCATCACT
* * * *
5994022 TGATGGATTAACATTGCCAG-GAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 TGATGGATCAGCTTTTCCAGAGAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
5994081 AATTTGTTCA
Statistics
Matches: 469, Mismatches: 32, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
112 11 0.02
113 439 0.94
114 5 0.01
115 1 0.00
116 13 0.03
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTAAATTCATCACT
Found at i:5994121 original size:93 final size:89
Alignment explanation
Indices: 5993984--5994171 Score: 227
Period size: 93 Copynumber: 2.1 Consensus size: 89
5993974 GTTCATAATG
* * * * * *
5993984 AGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCAATTGATGGATTAACATTGCCAG-GAAGAG
1 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCAATCGATGGATCAACATTGACAGAGAA-AG
5994048 TTCATAATG-AGAAGAACTCGTCATCTGA
65 TTCATAA-GAAGAAGAA--C-TCATCTGA
* * *
5994076 AGAAGAATTTGTTCAACCTTTTTGCTCAAATCCATCACTCGATGGATCAACTTTTACAGAGAAAG
1 AGAAGAATTTGTTCAACC-TTTTGCTCAAATCCATCAATCGATGGATCAACATTGACAGAGAAAG
5994141 TTCATAAGAAGAAGAACTCATCTGA
65 TTCATAAGAAGAAGAACTCATCTGA
5994166 AGAAGA
1 AGAAGA
5994172 GGAAGTTCAT
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
90 14 0.17
91 1 0.01
92 19 0.23
93 47 0.56
94 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (89 bp):
AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCAATCGATGGATCAACATTGACAGAGAAAGT
TCATAAGAAGAAGAACTCATCTGA
Found at i:5994453 original size:3 final size:3
Alignment explanation
Indices: 5994445--5994534 Score: 117
Period size: 3 Copynumber: 30.0 Consensus size: 3
5994435 TTTGATTTAT
* * * *
5994445 TTA TTA TTA TTA TTA CTA TAA TTA TTA TTA TTA TTA TTA TAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
5994493 TTA TTA TTA TTA TAA ATA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5994535 AATATATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:5994471 original size:21 final size:21
Alignment explanation
Indices: 5994445--5994534 Score: 135
Period size: 21 Copynumber: 4.3 Consensus size: 21
5994435 TTTGATTTAT
*
5994445 TTATTATTATTATTACTATAA
1 TTATTATTATTATTATTATAA
5994466 TTATTATTATTATTATTATAA
1 TTATTATTATTATTATTATAA
*
5994487 ATATTATTATTATTATTATAA
1 TTATTATTATTATTATTATAA
* * *
5994508 ATATTACTATTATTATTATTA
1 TTATTATTATTATTATTATAA
5994529 TTATTA
1 TTATTA
5994535 AATATATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTATTATTATTATTATAA
Found at i:5998022 original size:23 final size:22
Alignment explanation
Indices: 5997973--5998055 Score: 100
Period size: 23 Copynumber: 3.8 Consensus size: 22
5997963 ATAACCCGTG
*
5997973 GGGGGTATCGATTCCC-TC-AA
1 GGGGGAATCGATTCCCTTCAAA
5997993 GGAGGGAATCGATTCCCATTCAAA
1 GG-GGGAATCGATTCCC-TTCAAA
5998017 GGGGGAATCGATTCCTCTTCAAA
1 GGGGGAATCGATTCC-CTTCAAA
*
5998040 -GGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
5998056 CTGCACTAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
20 2 0.04
21 15 0.27
22 13 0.23
23 21 0.38
24 5 0.09
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTTCAAA
Found at i:6000548 original size:18 final size:18
Alignment explanation
Indices: 6000525--6000561 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6000515 TGAGGGGTTC
6000525 TAGGTGCTGAAAAAAGTA
1 TAGGTGCTGAAAAAAGTA
6000543 TAGGTGCTGAAAAAAGTA
1 TAGGTGCTGAAAAAAGTA
6000561 T
1 T
6000562 GGCTAATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.24
Consensus pattern (18 bp):
TAGGTGCTGAAAAAAGTA
Found at i:6003787 original size:18 final size:18
Alignment explanation
Indices: 6003764--6003815 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
6003754 TATGTGATAT
*
6003764 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGGACATA
* *
6003782 GTGGTCTTTCAGGACATA
1 GTGGTCATTCGGGACATA
6003800 GTGGTCATTCGGGACA
1 GTGGTCATTCGGGACA
6003816 AATTCTTCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.19, C:0.19, G:0.33, T:0.29
Consensus pattern (18 bp):
GTGGTCATTCGGGACATA
Found at i:6004411 original size:2 final size:2
Alignment explanation
Indices: 6004404--6004443 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6004394 AGGTTTTAAA
6004404 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
6004444 GCTCTGATAA
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):
AT
Found at i:6006980 original size:35 final size:35
Alignment explanation
Indices: 6006907--6006981 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
6006897 CGTCACTAAC
**
6006907 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
*
6006942 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
6006977 AGTAA
1 AGTAA
6006982 TCTTCCTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.29, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:6007084 original size:24 final size:24
Alignment explanation
Indices: 6007057--6007139 Score: 116
Period size: 23 Copynumber: 3.5 Consensus size: 24
6007047 CATAATTCAA
6007057 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* * *
6007081 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
6007105 GTCAA-TATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
*
6007128 GTC-AGGATCATA
1 GTCAAGTATCATA
6007140 ATAGAATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.02
23 25 0.49
24 25 0.49
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:6009601 original size:12 final size:13
Alignment explanation
Indices: 6009577--6009650 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
6009567 GTCACGGTCA
6009577 CGGGTCAACGGGT
1 CGGGTCAACGGGT
6009590 CGGGTC-ACGGGT
1 CGGGTCAACGGGT
*
6009602 CGGGTCGGTCAACTGGT
1 C--G--GGTCAACGGGT
* *
6009619 CGGGTAAATGGGT
1 CGGGTCAACGGGT
* *
6009632 CGGGTAAACAGGT
1 CGGGTCAACGGGT
6009645 CGGGTC
1 CGGGTC
6009651 GGTCGGGTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 7 0.14
13 30 0.61
14 1 0.02
15 1 0.02
16 4 0.08
17 6 0.12
ACGTcount: A:0.16, C:0.20, G:0.45, T:0.19
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:6009607 original size:17 final size:17
Alignment explanation
Indices: 6009585--6009623 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6009575 CACGGGTCAA
6009585 CGGGTCGGGTC-ACGGGT
1 CGGGTC-GGTCAACGGGT
*
6009602 CGGGTCGGTCAACTGGT
1 CGGGTCGGTCAACGGGT
6009619 CGGGT
1 CGGGT
6009624 AAATGGGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.08, C:0.23, G:0.49, T:0.21
Consensus pattern (17 bp):
CGGGTCGGTCAACGGGT
Found at i:6011711 original size:35 final size:34
Alignment explanation
Indices: 6011639--6011712 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
6011629 CGTCACTAAC
**
6011639 AGTAAGGCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCTGAGCACACAGCCGAGGAACCGCCA
*
6011673 AGTAAGGCCCTGAGCACACAGCCGAGGAACCTCCA
1 AGTAAGG-CCTGAGCACACAGCCGAGGAACCGCCA
6011708 AGTAA
1 AGTAA
6011713 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 7 0.19
35 29 0.81
ACGTcount: A:0.34, C:0.28, G:0.28, T:0.09
Consensus pattern (34 bp):
AGTAAGGCCTGAGCACACAGCCGAGGAACCGCCA
Found at i:6011816 original size:24 final size:24
Alignment explanation
Indices: 6011789--6011871 Score: 116
Period size: 23 Copynumber: 3.5 Consensus size: 24
6011779 CATAATTCAA
6011789 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
* * *
6011813 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAG
6011837 GTCAA-TATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAG
*
6011860 GTC-AGGATCATA
1 GTCAAGTATCATA
6011872 ATAGAATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.02
23 25 0.49
24 25 0.49
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAG
Found at i:6014261 original size:13 final size:13
Alignment explanation
Indices: 6014243--6014274 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6014233 TCACGGTCAA
6014243 CGGGTCAACGGGT
1 CGGGTCAACGGGT
6014256 CGGGTCAACGGGT
1 CGGGTCAACGGGT
6014269 CGGGTC
1 CGGGTC
6014275 GGGTCAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:6014381 original size:159 final size:156
Alignment explanation
Indices: 6014128--6014442 Score: 587
Period size: 159 Copynumber: 2.0 Consensus size: 156
6014118 AGCGGAATCG
6014128 AATTTGGAACGTCGAAAATGTCAGGATATACTCGGTCGAAGTCAAAGGTCGTTTAATGCTCGATC
1 AATTTGGAACGTCGAAAATGTCAGGATATACTCGGTCGAAGTCAAAGGTCGTTTAATGCTCGATC
6014193 AAAGCCGGTCAAAGTTTTGGTCAACAGTGGTCAACGTGGGTC-ACGGTCAACGGGTCAACGGGTC
66 AAAGCCGGTCAAAGTTTTGGTCAACAGTGGTCAACGTGGGTCAACGGTCAACGGGTCAACGGGTC
6014257 GGGTCAACGGGTCGGGTCGGGTCAAC
131 GGGTCAACGGGTCGGGTCGGGTCAAC
6014283 AATTTGGAACGTCGAAAATGTCAGGATAGGTATACTCGGTCGAAGTCAAAGGTCGTTTAATGCTC
1 AATTTGGAACGTCGAAAATGTCAGG--A--TATACTCGGTCGAAGTCAAAGGTCGTTTAATGCTC
6014348 GATCAAAGCCGGTCAAAGTTTTGGTCAACAGTGGTCAACGTGGGTCAACGGTCAACGGGTCAACG
62 GATCAAAGCCGGTCAAAGTTTTGGTCAACAGTGGTCAACGTGGGTCAACGGTCAACGGGTCAACG
6014413 GGTCGGGTCAACGGGTCGGGTCGGGTCAAC
127 GGTCGGGTCAACGGGTCGGGTCGGGTCAAC
6014443 TGGTCGGGTA
Statistics
Matches: 155, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
155 25 0.16
157 1 0.01
159 81 0.52
160 48 0.31
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.23
Consensus pattern (156 bp):
AATTTGGAACGTCGAAAATGTCAGGATATACTCGGTCGAAGTCAAAGGTCGTTTAATGCTCGATC
AAAGCCGGTCAAAGTTTTGGTCAACAGTGGTCAACGTGGGTCAACGGTCAACGGGTCAACGGGTC
GGGTCAACGGGTCGGGTCGGGTCAAC
Found at i:6014382 original size:10 final size:9
Alignment explanation
Indices: 6014369--6014416 Score: 50
Period size: 10 Copynumber: 5.6 Consensus size: 9
6014359 GTCAAAGTTT
6014369 TGGTCAACAG
1 TGGTCAAC-G
6014379 TGGTCAACG
1 TGGTCAACG
6014388 TGGGTCAAC-
1 T-GGTCAACG
6014397 -GGTCAACG
1 TGGTCAACG
6014405 -GGTCAACG
1 TGGTCAACG
6014413 -GGTC
1 TGGTC
6014417 GGGTCAACGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 7 0.19
8 12 0.33
9 2 0.06
10 15 0.42
ACGTcount: A:0.23, C:0.23, G:0.35, T:0.19
Consensus pattern (9 bp):
TGGTCAACG
Found at i:6014410 original size:8 final size:8
Alignment explanation
Indices: 6014370--6014429 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
6014360 TCAAAGTTTT
6014370 GGTCAACAG
1 GGTCAAC-G
6014379 TGGTCAACGTG
1 -GGTCAAC--G
6014390 GGTCAAC-
1 GGTCAACG
6014397 GGTCAACG
1 GGTCAACG
6014405 GGTCAACG
1 GGTCAACG
6014413 GGT---CG
1 GGTCAACG
6014418 GGTCAACG
1 GGTCAACG
6014426 GGTC
1 GGTC
6014430 GGGTCGGGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
5 5 0.11
7 7 0.16
8 17 0.39
10 14 0.32
11 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.38, T:0.17
Consensus pattern (8 bp):
GGTCAACG
Found at i:6014421 original size:13 final size:13
Alignment explanation
Indices: 6014403--6014434 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
6014393 CAACGGTCAA
6014403 CGGGTCAACGGGT
1 CGGGTCAACGGGT
6014416 CGGGTCAACGGGT
1 CGGGTCAACGGGT
6014429 CGGGTC
1 CGGGTC
6014435 GGGTCAACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.25, G:0.47, T:0.16
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:6014434 original size:18 final size:18
Alignment explanation
Indices: 6014397--6014451 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
6014387 GTGGGTCAAC
6014397 GGTCAACGGGTCAACGGGTCG
1 GGTCAACGGGT---CGGGTCG
6014418 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
6014436 GGTCAACTGGTCGGGT
1 GGTCAACGGGTCGGGT
6014452 AAATGGGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 22 0.67
21 11 0.33
ACGTcount: A:0.15, C:0.22, G:0.45, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:6014441 original size:31 final size:31
Alignment explanation
Indices: 6014403--6014464 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6014393 CAACGGTCAA
*
6014403 CGGGTCAACGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
* *
6014434 CGGGTCAACTGGTCGGGTAAATGGGTCGGGT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
6014465 AAACAGGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.15, C:0.19, G:0.47, T:0.19
Consensus pattern (31 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGT
Found at i:6014447 original size:13 final size:13
Alignment explanation
Indices: 6014403--6014478 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
6014393 CAACGGTCAA
*
6014403 CGGGTCAACGGGT
1 CGGGTCAACTGGT
6014416 CGGGTCAACGGGTCGGGT
1 CGGGTCAAC---T--GGT
6014434 CGGGTCAACTGGT
1 CGGGTCAACTGGT
*
6014447 CGGGT-AAATGGGT
1 CGGGTCAACT-GGT
* *
6014460 CGGGTAAACAGGT
1 CGGGTCAACTGGT
6014473 CGGGTC
1 CGGGTC
6014479 GGGTCGGGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
12 3 0.06
13 33 0.65
14 2 0.04
15 1 0.02
18 12 0.24
ACGTcount: A:0.17, C:0.20, G:0.45, T:0.18
Consensus pattern (13 bp):
CGGGTCAACTGGT
Found at i:6027066 original size:17 final size:16
Alignment explanation
Indices: 6027044--6027077 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6027034 TAAAAACAGT
6027044 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
6027061 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
6027077 A
1 A
6027078 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:6027596 original size:24 final size:24
Alignment explanation
Indices: 6027552--6027598 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6027542 ATAAAGAACC
*
6027552 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
6027576 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
6027599 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:6030894 original size:19 final size:20
Alignment explanation
Indices: 6030872--6030922 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
6030862 AGAAAGAAAA
*
6030872 AAAGGTAAAAGTTAA-AATG
1 AAAGGTAAAAATTAATAATG
6030891 AAAGAG-AAAAATTAATAATG
1 AAAG-GTAAAAATTAATAATG
*
6030911 AAAGATAAAAAT
1 AAAGGTAAAAAT
6030923 AAAAGTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.20
Consensus pattern (20 bp):
AAAGGTAAAAATTAATAATG
Found at i:6030910 original size:20 final size:19
Alignment explanation
Indices: 6030878--6030926 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
6030868 AAAAAAAGGT
*
6030878 AAAAGTTAAAATGAAAGAG
1 AAAAATTAAAATGAAAGAG
*
6030897 AAAAATTAATAATGAAAGAT
1 AAAAATTAA-AATGAAAGAG
6030917 AAAAA-TAAAA
1 AAAAATTAAAA
6030927 GTTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
20 14 0.52
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.18
Consensus pattern (19 bp):
AAAAATTAAAATGAAAGAG
Found at i:6044797 original size:37 final size:37
Alignment explanation
Indices: 6044724--6044798 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
6044714 GTTGGAAAAT
*
6044724 ATTTATATATTTTCTTTAAAAAAATTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
* *
6044761 ATTTATATAATTTT-TTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAAATT-AAAATCATAAA
6044798 A
1 A
6044799 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 24 0.73
38 9 0.27
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAAATTAAAATCATAAA
Found at i:6049523 original size:31 final size:30
Alignment explanation
Indices: 6049482--6049542 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
6049472 TCTAACTGTC
*
6049482 ATAAACAAAAAAGTTTATATTAATAACATAA
1 ATAAAC-AAAAAGTTTATATTAAAAACATAA
*
6049513 ATAAATAAAAAGTTTATATTAAAAACATAA
1 ATAAACAAAAAGTTTATATTAAAAACATAA
6049543 TATTAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (30 bp):
ATAAACAAAAAGTTTATATTAAAAACATAA
Found at i:6050563 original size:15 final size:15
Alignment explanation
Indices: 6050543--6050573 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6050533 ATCAAAAAAC
6050543 GAATTAACGTCGCAT
1 GAATTAACGTCGCAT
*
6050558 GAATTAACGTTGCAT
1 GAATTAACGTCGCAT
6050573 G
1 G
6050574 GGACATGCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (15 bp):
GAATTAACGTCGCAT
Found at i:6050629 original size:29 final size:29
Alignment explanation
Indices: 6050595--6050670 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 29
6050585 ACCCAAAACA
* * *
6050595 TAGGTCGCCATGCCCTCCGGGCGACCAAGG
1 TAGGTCGCCATGCACGCCAGGCGA-CAAGG
*
6050625 -AGGTCGCCATGCACGCCAGGCGACATGG
1 TAGGTCGCCATGCACGCCAGGCGACAAGG
6050653 TAGGTCGCCATGCACGCC
1 TAGGTCGCCATGCACGCC
6050671 CCGCTGCGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.18, C:0.36, G:0.33, T:0.13
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCAGGCGACAAGG
Found at i:6050699 original size:22 final size:21
Alignment explanation
Indices: 6050681--6050730 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
6050671 CCGCTGCGTG
6050681 CCGCTGCATGCTCGCCTGCTCC
1 CCGCTGCATGCTCGCCTGCT-C
*
6050703 CCACTGCATGCTCGCCTGCTC
1 CCGCTGCATGCTCGCCTGCTC
6050724 CCGCTGC
1 CCGCTGC
6050731 TCCATGCACC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.06, C:0.50, G:0.22, T:0.22
Consensus pattern (21 bp):
CCGCTGCATGCTCGCCTGCTC
Found at i:6051352 original size:15 final size:16
Alignment explanation
Indices: 6051324--6051357 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6051314 GTTTGTTACT
6051324 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
6051340 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
6051355 TTA
1 TTA
6051358 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:6051389 original size:4 final size:4
Alignment explanation
Indices: 6051380--6051406 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
6051370 GGGTTGTAAA
6051380 TTAG TTAG TTAG TTAG TTAG TTAG TTA
1 TTAG TTAG TTAG TTAG TTAG TTAG TTA
6051407 CTTAACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TTAG
Found at i:6051947 original size:29 final size:29
Alignment explanation
Indices: 6051910--6051977 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
6051900 TTAATTAGTT
* *
6051910 TTTAGTAGTGAA-TTATAATTAAAAAATCG
1 TTTATTAGTGAATTTAT-ATTAAAAAATAG
* *
6051939 TTTATTAGTTTAATTTATATTAAAGAATAG
1 TTTATTAG-TGAATTTATATTAAAAAATAG
6051969 TTTATTAGT
1 TTTATTAGT
6051978 TGTTTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.24
30 21 0.64
31 4 0.12
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (29 bp):
TTTATTAGTGAATTTATATTAAAAAATAG
Found at i:6052060 original size:15 final size:16
Alignment explanation
Indices: 6052032--6052065 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6052022 GTTTGTTACT
6052032 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
6052048 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
6052063 TTA
1 TTA
6052066 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:6052303 original size:704 final size:706
Alignment explanation
Indices: 6050745--6052867 Score: 4088
Period size: 704 Copynumber: 3.0 Consensus size: 706
6050735 TGCACCTTTA
*
6050745 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATAATTGCTGCAATCCACGAG
1 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATTATTGCTGCAATCCACGAG
*
6050810 AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATAGGGGGT
66 AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
*
6050875 ATGATATGGGGTTAAGGAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
131 ATGATATGGGGTTAAGAAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
* *
6050940 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGATAAATTTTCATTTTATTTAAT
196 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
*
6051005 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAAGGTAAAAAAT
261 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
6051070 TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
326 TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
6051135 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
391 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAG-
6051200 TTTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTA
455 TTTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTA
6051265 TTAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAA
520 TTAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAA
6051330 GTTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTAGTTA
585 GTTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGT-AA--A-TTAGTTAGTTA
6051395 GTTAGTTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
646 GTTAGTTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
*
6051456 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACATCAATTATTGCTGCAATCCACGAG
1 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATTATTGCTGCAATCCACGAG
*
6051521 AATCAACAGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
66 AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
*
6051586 ATGATATGGGGTTAAGAAAGCATAAAAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
131 ATGATATGGGGTTAAGAAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
6051651 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
196 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
6051716 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
261 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
6051781 TTACTTAATTAGTTAG-TT-TTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
326 TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
6051844 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
391 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
*
6051909 TTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAATTTATATTAAAGAATAGTTTAT
456 TTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTAT
6051974 TAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAAG
521 TAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAAG
6052039 TTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTAGTTAG
586 TTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTAGTTAG
6052104 TTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
651 TTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
6052160 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATTATTGCTGCAATCCACGAG
1 TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATTATTGCTGCAATCCACGAG
6052225 AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
66 AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
6052290 ATGATATGGGGTTAAGAAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
131 ATGATATGGGGTTAAGAAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
6052355 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
196 AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
6052420 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
261 TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
6052485 TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
326 TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
6052550 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
391 TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
6052615 TTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTAT
456 TTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTAT
6052680 TAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAAG
521 TAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAAG
*
6052745 TTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTATTTAG
586 TTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTAGTTAG
6052810 TTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
651 TTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
6052866 TT
1 TT
6052868 TTTACAGATT
Statistics
Matches: 1395, Mismatches: 15, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
704 410 0.29
705 3 0.00
706 361 0.26
707 2 0.00
708 176 0.13
709 109 0.08
710 2 0.00
711 332 0.24
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (706 bp):
TTCGTTGCATTATTGCAGCATAATTTTCGCTGCTTCATACAGCAATTATTGCTGCAATCCACGAG
AATCAACGGCTCGTGATTCTTCAATTATTGGTGCATGGCAGCCGACCCTTTAATATATATGGGGT
ATGATATGGGGTTAAGAAAGCATAAGAAAGAAAGGGAGAAGAGTGTCGAGAGAAAGGAAAGGAAT
AAGAGGAAGAAGAAGAAAGGGAGTCCGGCAAGCAAACATCGAGGTAAATTTTCATTTTATTTTAT
TTAAATTAGTTTATTATTTTAAATTATTAGTTTGTTAGTTTAGGGTTAGGGTTAGGGTAAAAAAT
TTACTTAATTAGTTAGTTTGTTAGTAGTTAGTTATATATAAAAATATGTAATTAGTTTGTGTTAG
TTAAATAGTTAAGTTGCCATATGATTTGTTGAATTTATATTATATAAAAATTTTAGTTAATTAGT
TTTTAGTAGTGAATTATAATTAAAAAATCGTTTATTAGTTTAAGTTATATTAAAGAATAGTTTAT
TAGTTGTTTAAAGAAAATTCACGTTTAAGTTATATTTTAAAAAGTTTAGTTTGTTACTTTATAAG
TTTATTATATTATAAGTTATTATATTAAATTTTTTTGTTGGGTTGTAAATTAGTTAGTTAGTTAG
TTAGTTACTTAACATTAGATTATATTAAATGATTTTTTAAATACTGTTGTTTAATT
Found at i:6052653 original size:29 final size:29
Alignment explanation
Indices: 6052616--6052683 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 29
6052606 TTAATTAGTT
* *
6052616 TTTAGTAGTGAA-TTATAATTAAAAAATCG
1 TTTATTAGTGAAGTTAT-ATTAAAAAATAG
* *
6052645 TTTATTAGTTTAAGTTATATTAAAGAATAG
1 TTTATTAG-TGAAGTTATATTAAAAAATAG
6052675 TTTATTAGT
1 TTTATTAGT
6052684 TGTTTAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 8 0.24
30 21 0.64
31 4 0.12
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.46
Consensus pattern (29 bp):
TTTATTAGTGAAGTTATATTAAAAAATAG
Found at i:6052766 original size:15 final size:16
Alignment explanation
Indices: 6052738--6052771 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
6052728 GTTTGTTACT
6052738 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
6052754 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
6052769 TTA
1 TTA
6052772 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:6054995 original size:10 final size:10
Alignment explanation
Indices: 6054980--6055066 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
6054970 TAATTTCATT
6054980 ATTACTAATC
1 ATTACTAATC
6054990 ATTACTAATC
1 ATTACTAATC
6055000 ATTACTATCAAATC
1 ATTAC--T--AATC
6055014 ATTA--AAT-
1 ATTACTAATC
* *
6055021 ATTAATAATA
1 ATTACTAATC
* *
6055031 ATT--TCATT
1 ATTACTAATC
6055039 ATTACTAATC
1 ATTACTAATC
6055049 ATTACTAAATC
1 ATTACT-AATC
6055060 ATTACTA
1 ATTACTA
6055067 TCAAATCATT
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
7 4 0.06
8 9 0.14
9 3 0.05
10 28 0.44
11 10 0.16
12 1 0.02
14 8 0.13
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:6055046 original size:49 final size:53
Alignment explanation
Indices: 6054900--6055115 Score: 241
Period size: 59 Copynumber: 4.0 Consensus size: 53
6054890 AATCATTACT
*
6054900 AAATCATTAAATATTAATAATAATTT-TA-T-T-ATTACTAAATCATTAATATC
1 AAATCATTAAATATTAATAATAATTTCTACTATCATTACT-AATCATTACTATC
6054950 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAATCATTACTATC
1 AAATCATTAAATATTAATAATAATTTC-----TACT-ATCATTACTAATCATTACTATC
6055009 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATC
1 AAATCATTAAATATTAATAATAATTTC-----TACT-ATCATTACT-AATCATTACTATC
6055069 AAATCATTAAATATTAATAATAATTTC-A-T-T-ATTACTAATCATTACTA
1 AAATCATTAAATATTAATAATAATTTCTACTATCATTACTAATCATTACTA
6055116 AATCATTATT
Statistics
Matches: 154, Mismatches: 1, Indels: 23
0.87 0.01 0.13
Matches are distributed among these distances:
49 11 0.07
50 32 0.21
51 1 0.01
53 1 0.01
54 1 0.01
56 2 0.01
57 1 0.01
59 59 0.38
60 46 0.30
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.43
Consensus pattern (53 bp):
AAATCATTAAATATTAATAATAATTTCTACTATCATTACTAATCATTACTATC
Found at i:6055137 original size:60 final size:60
Alignment explanation
Indices: 6054930--6055123 Score: 372
Period size: 60 Copynumber: 3.2 Consensus size: 60
6054920 TAATTTTATT
*
6054930 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
6054990 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
6055049 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
6055109 ATTACTAAATCATTA
1 ATTACTAAATCATTA
6055124 TTATAATTTC
Statistics
Matches: 132, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
59 58 0.44
60 74 0.56
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
Found at i:6055216 original size:14 final size:14
Alignment explanation
Indices: 6055197--6055244 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
6055187 TTCAAGTCGT
6055197 AAATCATTACTATC
1 AAATCATTACTATC
6055211 AAATCATTAC--T-
1 AAATCATTACTATC
*
6055222 AAATCATTAATATC
1 AAATCATTACTATC
6055236 AAATCATTA
1 AAATCATTA
6055245 AATATTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 9 0.30
12 1 0.03
13 1 0.03
14 19 0.63
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:6055224 original size:25 final size:25
Alignment explanation
Indices: 6055196--6055244 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
6055186 GTTCAAGTCG
*
6055196 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTAATATCAAATCATTAC
6055221 TAAATCATTAATATCAAATCATTA
1 TAAATCATTAATATCAAATCATTA
6055245 AATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTAATATCAAATCATTAC
Found at i:6055260 original size:21 final size:22
Alignment explanation
Indices: 6055196--6055254 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 22
6055186 GTTCAAGTCG
*
6055196 TAAATCATTACTATCAAATCATT
1 TAAATCATTAATATCAAATCA-T
6055219 ACTAAATCATTAATATCAAATCAT
1 --TAAATCATTAATATCAAATCAT
6055243 TAAAT-ATTAATA
1 TAAATCATTAATA
6055255 ATAAATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 7 0.21
22 5 0.15
24 1 0.03
25 20 0.61
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATATCAAATCAT
Found at i:6055280 original size:10 final size:10
Alignment explanation
Indices: 6055265--6055291 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
6055255 ATAAATTATT
6055265 ATTACTAATC
1 ATTACTAATC
6055275 ATTACTAATC
1 ATTACTAATC
6055285 ATTACTA
1 ATTACTA
6055292 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:6055285 original size:58 final size:60
Alignment explanation
Indices: 6055212--6055598 Score: 633
Period size: 58 Copynumber: 6.5 Consensus size: 60
6055202 ATTACTATCA
*
6055212 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
*
6055271 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
** * * *
6055330 AATCATTGTTAAATTATTAGTATTAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
6055389 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
* *
6055447 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
* *
6055506 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
6055566 AATCATTACTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATTA
6055599 TTATTAAATT
Statistics
Matches: 306, Mismatches: 18, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
58 129 0.42
59 63 0.21
60 114 0.37
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.42
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTCATTATTACT
Found at i:6055334 original size:118 final size:118
Alignment explanation
Indices: 6055212--6055598 Score: 652
Period size: 118 Copynumber: 3.3 Consensus size: 118
6055202 ATTACTATCA
*
6055212 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
6055277 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
66 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
** * * *
6055330 AATCATTGTTAAATTATTAGTATTAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
*
6055395 TACTAATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACT
66 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
* *
6055447 AATCATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCA
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATTATTACTAATCA
*
6055511 TTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
65 TTACT-AATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
6055566 AATCATTACTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATTA
6055599 TTATTAAATT
Statistics
Matches: 250, Mismatches: 15, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
116 34 0.14
117 36 0.14
118 139 0.56
119 19 0.08
120 22 0.09
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.42
Consensus pattern (118 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
Found at i:6055398 original size:10 final size:10
Alignment explanation
Indices: 6055383--6055467 Score: 58
Period size: 10 Copynumber: 8.7 Consensus size: 10
6055373 ATAAATTATT
6055383 ATTACTAATC
1 ATTACTAATC
6055393 ATTACTAATC
1 ATTACTAATC
6055403 ATTACTATCAAATC
1 ATTAC--T--AATC
6055417 ATTA--AAT-
1 ATTACTAATC
* *
6055424 ATTAATAATAA
1 ATTACTAAT-C
6055435 ATTA-T--T-
1 ATTACTAATC
6055441 ATTACTAATC
1 ATTACTAATC
6055451 ATTACTAATC
1 ATTACTAATC
6055461 ATTACTA
1 ATTACTA
6055468 TCAAATCATT
Statistics
Matches: 63, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
6 4 0.06
7 5 0.08
8 4 0.06
9 4 0.06
10 33 0.52
11 4 0.06
12 1 0.02
14 8 0.13
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:6055417 original size:176 final size:178
Alignment explanation
Indices: 6055212--6055598 Score: 688
Period size: 176 Copynumber: 2.2 Consensus size: 178
6055202 ATTACTATCA
*
6055212 AATCATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
* **
6055277 TACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTGTTAA
66 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
* * *
6055342 ATTATTAGTATTAAATCATTAAATATTAATAATAAATT-ATTATTACT
131 ATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACT
6055389 AATCATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
6055453 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
66 TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
*
6055518 ATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACT
131 ATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACT
6055566 AATCATTACTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCATTA
6055599 TTATTAAATT
Statistics
Matches: 200, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
176 149 0.75
177 29 0.14
178 22 0.11
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.42
Consensus pattern (178 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATTATTACTAATCAT
TACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAA
ATCATTAATATCAAATCATTAAATATTAATAATAAATTCATTATTACT
Found at i:6055524 original size:21 final size:21
Alignment explanation
Indices: 6055500--6055587 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
6055490 TAATTTCATT
6055500 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
6055521 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
6055542 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
6055560 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
6055581 ATTACTA
1 ATTACTA
6055588 TCAAATCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
20 6 0.12
21 20 0.40
22 10 0.20
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:6055595 original size:14 final size:13
Alignment explanation
Indices: 6055555--6055788 Score: 146
Period size: 14 Copynumber: 17.5 Consensus size: 13
6055545 AATAATAATT
6055555 TCATTATTACT-AA
1 TCATTATTA-TAAA
*
6055568 TCATTA--CTAAA
1 TCATTATTATAAA
*
6055579 TCATTACTATCAAA
1 TCATTATTAT-AAA
6055593 TCATTATTATTAAA
1 TCATTATTA-TAAA
*
6055607 TTATTATTAT-AA
1 TCATTATTATAAA
*
6055619 TGATTATTATTAAA
1 TCATTATTA-TAAA
6055633 TCATTATTAT-AA
1 TCATTATTATAAA
*
6055645 TGATTATTATCAAA
1 TCATTATTAT-AAA
6055659 TCATTACTAAATCATCAAA
1 TCATTA-T---T-AT-AAA
*
6055678 TCATTAAATATTTAAA
1 TCATT--AT-TATAAA
6055694 TCATTA-T-TAAA
1 TCATTATTATAAA
*
6055705 TTATTATTAT-AA
1 TCATTATTATAAA
*
6055717 TGATTATTACTAAA
1 TCATTATTA-TAAA
6055731 TCATTATTAT-AA
1 TCATTATTATAAA
*
6055743 TGATTATTATCAAA
1 TCATTATTAT-AAA
6055757 TCATTATTAT-AA
1 TCATTATTATAAA
* *
6055769 TGATTATTATCATA
1 TCATTATTAT-AAA
6055783 TCATTA
1 TCATTA
6055789 CTAAATCATC
Statistics
Matches: 180, Mismatches: 17, Indels: 47
0.74 0.07 0.19
Matches are distributed among these distances:
10 1 0.01
11 17 0.09
12 55 0.31
13 13 0.07
14 67 0.37
15 2 0.01
16 8 0.04
17 1 0.01
18 3 0.02
19 11 0.06
20 1 0.01
21 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (13 bp):
TCATTATTATAAA
Found at i:6055629 original size:26 final size:26
Alignment explanation
Indices: 6055570--6055788 Score: 211
Period size: 26 Copynumber: 8.6 Consensus size: 26
6055560 ATTACTAATC
* * *
6055570 ATTACTAAATCATTACTATCAAATCATT
1 ATTATTAAATCATTATTAT--AATGATT
*
6055598 ATTATTAAATTATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
6055624 ATTATTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* * * *
6055650 ATTATCAAATCATTACTA-AATCATCAA
1 ATTATTAAATCATTATTATAATGAT--T
* *
6055677 ATCATT-AA--A-TATT-TAA--ATC
1 ATTATTAAATCATTATTATAATGATT
*
6055696 ATTATTAAATTATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
6055722 ATTACTAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
*
6055748 ATTATCAAATCATTATTATAATGATT
1 ATTATTAAATCATTATTATAATGATT
* *
6055774 ATTATCATATCATTA
1 ATTATTAAATCATTA
6055789 CTAAATCATC
Statistics
Matches: 161, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
19 5 0.03
20 2 0.01
21 2 0.01
22 1 0.01
23 9 0.06
24 4 0.02
25 5 0.03
26 113 0.70
27 4 0.02
28 16 0.10
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (26 bp):
ATTATTAAATCATTATTATAATGATT
Found at i:6055822 original size:124 final size:124
Alignment explanation
Indices: 6055566--6055847 Score: 442
Period size: 124 Copynumber: 2.3 Consensus size: 124
6055556 CATTATTACT
* * * * * *
6055566 AATCATTACTAAATCATTACTATCAAATCATTATTATTAAATTATTATTATAATGATTATTATTA
1 AATCATTATTAAATTATTATTAT--AATCATTATTACTAAATCATTATTATAATGATTATTATCA
6055631 AATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
64 AATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
*
6055692 AATCATTATTAAATTATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAA
1 AATCATTATTAAATTATTATTATAATCATTATTACTAAATCATTATTATAATGATTATTATCAAA
*
6055757 TCATTATTATAATGATTATTATCATATCATTACTAAATCATCAAATCATTAAATA-TTA
66 TCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
6055815 AATTCATTATTAAATTTATTATTA-AATCATTAT
1 AA-TCATTATTAAA-TTATTATTATAATCATTAT
6055848 AATGATTATT
Statistics
Matches: 145, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
123 5 0.03
124 111 0.77
125 9 0.06
126 20 0.14
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (124 bp):
AATCATTATTAAATTATTATTATAATCATTATTACTAAATCATTATTATAATGATTATTATCAAA
TCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTTA
Found at i:6055827 original size:12 final size:12
Alignment explanation
Indices: 6055810--6055847 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
6055800 AATCATTAAA
6055810 TATTAAATTCAT
1 TATTAAATTCAT
*
6055822 TATTAAATTTAT
1 TATTAAATTCAT
6055834 TATTAAA-TCAT
1 TATTAAATTCAT
6055845 TAT
1 TAT
6055848 AATGATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 6 0.25
12 18 0.75
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (12 bp):
TATTAAATTCAT
Found at i:6056063 original size:17 final size:18
Alignment explanation
Indices: 6056043--6056077 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6056033 TATTAGTAAA
6056043 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
6056060 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
6056078 ACTAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:6059227 original size:65 final size:62
Alignment explanation
Indices: 6059091--6059230 Score: 156
Period size: 65 Copynumber: 2.2 Consensus size: 62
6059081 TGATTACTAA
** * *
6059091 TATTACTAATAATGATTTAATATTTGATATTTAATGATTTAATAATAATATGATTTAGTCAT
1 TATTACTAATAATGATTTAATATTAAATATTTAATGATTTAATAATAATATCATTTAGTAAT
* * * * *
6059153 GATTACTAATAATTATTTATTA-TAAATATTTAATGATTTATATTTGATACTAATCATTTAGTAA
1 TATTACTAATAATGATTTAATATTAAATATTTAATGATTTA-A--TAATAAT-ATCATTTAGTAA
6059217 T
62 T
6059218 TATTACTAATAAT
1 TATTACTAATAAT
6059231 AATGATTAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
61 16 0.25
62 20 0.31
64 5 0.08
65 23 0.36
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (62 bp):
TATTACTAATAATGATTTAATATTAAATATTTAATGATTTAATAATAATATCATTTAGTAAT
Found at i:6059774 original size:28 final size:30
Alignment explanation
Indices: 6059733--6059794 Score: 110
Period size: 28 Copynumber: 2.1 Consensus size: 30
6059723 ATTTTTTATA
6059733 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
6059763 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
6059791 TAAT
1 TAAT
6059795 TAACTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:6060250 original size:23 final size:23
Alignment explanation
Indices: 6060220--6060263 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
6060210 GCTTGGCTAC
6060220 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
6060243 AATCTCCCAGCTATGGATGCA
1 AATCTCCCAGCTATGGATGCA
6060264 ACCCATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAGG
Found at i:6060307 original size:22 final size:22
Alignment explanation
Indices: 6060279--6060321 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6060269 TGCACGATGG
*
6060279 AGCAGGGTTAAGTTTGGTCGCC
1 AGCAGGGATAAGTTTGGTCGCC
6060301 AGCAGGGATAAGTTTGGTCGC
1 AGCAGGGATAAGTTTGGTCGC
6060322 GAGCGACCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.37, T:0.26
Consensus pattern (22 bp):
AGCAGGGATAAGTTTGGTCGCC
Found at i:6060392 original size:90 final size:90
Alignment explanation
Indices: 6060239--6060411 Score: 321
Period size: 90 Copynumber: 1.9 Consensus size: 90
6060229 GCTATGGATG
*
6060239 CAGGAATCTCCCAGCTATGGATGCAACCCATGCACGATGGAGCAGGGTTAAGTTTGGTCGCCAGC
1 CAGGAATCTCCCAGCTATGGATGCAACCCATGCACGAGGGAGCAGGGTTAAGTTTGGTCGCCAGC
6060304 AGGGATAAGTTTGGTCGCGAGCGAC
66 AGGGATAAGTTTGGTCGCGAGCGAC
6060329 CAGGAATCTCCCAGCTATGGATGCAACCCATGCACGAGGGAGCAGGGTTAAAG-TTGGTCGCCAG
1 CAGGAATCTCCCAGCTATGGATGCAACCCATGCACGAGGGAGCAGGGTT-AAGTTTGGTCGCCAG
6060393 CAGGGATAAGTTTGGTCGC
65 CAGGGATAAGTTTGGTCGC
6060412 CAGAGCTTGG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
90 78 0.96
91 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (90 bp):
CAGGAATCTCCCAGCTATGGATGCAACCCATGCACGAGGGAGCAGGGTTAAGTTTGGTCGCCAGC
AGGGATAAGTTTGGTCGCGAGCGAC
Found at i:6060397 original size:22 final size:22
Alignment explanation
Indices: 6060369--6060414 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6060359 TGCACGAGGG
*
6060369 AGCAGGGTTAAAG-TTGGTCGCC
1 AGCAGGGAT-AAGTTTGGTCGCC
6060391 AGCAGGGATAAGTTTGGTCGCC
1 AGCAGGGATAAGTTTGGTCGCC
6060413 AG
1 AG
6060415 AGCTTGGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (22 bp):
AGCAGGGATAAGTTTGGTCGCC
Found at i:6060469 original size:29 final size:29
Alignment explanation
Indices: 6060427--6060502 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
6060417 CTTGGTTGCC
* *
6060427 GGGATTGCTTGGCGACCTACAAGGTCGCT
1 GGGAGTGCATGGCGACCTACAAGGTCGCT
***
6060456 GGGAGTGCATGGCGACCTTGTAGGTCGCT
1 GGGAGTGCATGGCGACCTACAAGGTCGCT
6060485 GGGAGTGCATGGCGACCT
1 GGGAGTGCATGGCGACCT
6060503 GTGTTGGGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.16, C:0.22, G:0.39, T:0.22
Consensus pattern (29 bp):
GGGAGTGCATGGCGACCTACAAGGTCGCT
Found at i:6066991 original size:16 final size:16
Alignment explanation
Indices: 6066970--6067073 Score: 59
Period size: 16 Copynumber: 6.1 Consensus size: 16
6066960 GCTTGACTCG
6066970 TTGCTCGTTAAGCTCA
1 TTGCTCGTTAAGCTCA
*
6066986 TTGCTCATTAAGCTCGA
1 TTGCTCGTTAAGCTC-A
**
6067003 -TGCTCGTTGTTTGCCTCA
1 TTGCTCG-T-TAAG-CTCA
*
6067021 TTGCTCGTTAAGCCCGA
1 TTGCTCGTTAAGCTC-A
** *
6067038 -TGCTCGTTGTTTGCCTCG
1 TTGCTCG-T-TAAG-CTCA
6067056 TTGCTCGTTAAGCTCA
1 TTGCTCGTTAAGCTCA
6067072 TT
1 TT
6067074 AAAATTTTTA
Statistics
Matches: 64, Mismatches: 14, Indels: 20
0.65 0.14 0.20
Matches are distributed among these distances:
16 32 0.50
17 8 0.12
18 7 0.11
19 17 0.27
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.39
Consensus pattern (16 bp):
TTGCTCGTTAAGCTCA
Found at i:6067024 original size:35 final size:35
Alignment explanation
Indices: 6066982--6067070 Score: 151
Period size: 35 Copynumber: 2.5 Consensus size: 35
6066972 GCTCGTTAAG
*
6066982 CTCATTGCTCATTAAGCTCGATGCTCGTTGTTTGC
1 CTCATTGCTCGTTAAGCTCGATGCTCGTTGTTTGC
*
6067017 CTCATTGCTCGTTAAGCCCGATGCTCGTTGTTTGC
1 CTCATTGCTCGTTAAGCTCGATGCTCGTTGTTTGC
*
6067052 CTCGTTGCTCGTTAAGCTC
1 CTCATTGCTCGTTAAGCTC
6067071 ATTAAAATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 50 1.00
ACGTcount: A:0.12, C:0.28, G:0.21, T:0.38
Consensus pattern (35 bp):
CTCATTGCTCGTTAAGCTCGATGCTCGTTGTTTGC
Found at i:6067027 original size:19 final size:19
Alignment explanation
Indices: 6067003--6067064 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
6066993 TTAAGCTCGA
6067003 TGCTCGTTGTTTGCCTCAT
1 TGCTCGTTGTTTGCCTCAT
**
6067022 TGCTCG-T-TAAGCC-CGA-
1 TGCTCGTTGTTTGCCTC-AT
*
6067038 TGCTCGTTGTTTGCCTCGT
1 TGCTCGTTGTTTGCCTCAT
6067057 TGCTCGTT
1 TGCTCGTT
6067065 AAGCTCATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 10
0.69 0.10 0.21
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 5 0.15
19 15 0.45
ACGTcount: A:0.06, C:0.27, G:0.24, T:0.42
Consensus pattern (19 bp):
TGCTCGTTGTTTGCCTCAT
Found at i:6070734 original size:19 final size:20
Alignment explanation
Indices: 6070674--6070727 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
6070664 TAAATGACTA
6070674 GGGGTATCGGTACCTCCAAG
1 GGGGTATCGGTACCTCCAAG
6070694 GGGGTATCGGTACCTCCAAG
1 GGGGTATCGGTACCTCCAAG
*
6070714 GGGGTATCAGTACC
1 GGGGTATCGGTACC
6070728 CATAGGGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGGTATCGGTACCTCCAAG
Found at i:6072926 original size:21 final size:20
Alignment explanation
Indices: 6072871--6072927 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6072861 TATGTAGTTT
*
6072871 TCAAAACAACATA-ATTAAA
1 TCAAAACAACATATTTTAAA
6072890 TCAAAGACAACA-ATTTTAAAA
1 TCAAA-ACAACATATTTT-AAA
*
6072911 TCAAAACAAAATATTTT
1 TCAAAACAACATATTTT
6072928 TTTATTTCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 6 0.19
20 13 0.41
21 13 0.41
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (20 bp):
TCAAAACAACATATTTTAAA
Found at i:6073385 original size:21 final size:22
Alignment explanation
Indices: 6073339--6073395 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
6073329 CCCTCATATG
*
6073339 GGGGTATCAATACACATTCAAA
1 GGGGTATCGATACACATTCAAA
* *
6073361 GGGGTATCGATACACGTT-GAA
1 GGGGTATCGATACACATTCAAA
6073382 GGGGTATCGATACA
1 GGGGTATCGATACA
6073396 TAGTGCACAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 16 0.50
22 16 0.50
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (22 bp):
GGGGTATCGATACACATTCAAA
Found at i:6084560 original size:2 final size:2
Alignment explanation
Indices: 6084553--6084614 Score: 106
Period size: 2 Copynumber: 31.0 Consensus size: 2
6084543 ATAGATCTTT
* *
6084553 TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TC 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 TA
6084595 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
6084615 ACAAACTTTC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6087229 original size:2 final size:2
Alignment explanation
Indices: 6087222--6087271 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
6087212 ATTTAGACCT
6087222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6087263 TA TA TA TA T
1 TA TA TA TA T
6087272 CGATTCTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6088576 original size:14 final size:14
Alignment explanation
Indices: 6088547--6088634 Score: 112
Period size: 14 Copynumber: 6.5 Consensus size: 14
6088537 TGTGGGGCTA
*
6088547 AGTCAACTCG-TTG
1 AGTCAACACGATTG
*
6088560 AGTCAACACAATTG
1 AGTCAACACGATTG
*
6088574 AGTCAACCCG-TTG
1 AGTCAACACGATTG
6088587 AGTCAACACGATTG
1 AGTCAACACGATTG
6088601 AGTCAAC-CTG-TTG
1 AGTCAACAC-GATTG
6088614 AGTCAACACGATTG
1 AGTCAACACGATTG
6088628 AGTCAAC
1 AGTCAAC
6088635 CCGTTGACTT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
13 32 0.49
14 33 0.51
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (14 bp):
AGTCAACACGATTG
Found at i:6088585 original size:27 final size:27
Alignment explanation
Indices: 6088547--6088641 Score: 163
Period size: 27 Copynumber: 3.5 Consensus size: 27
6088537 TGTGGGGCTA
* *
6088547 AGTCAACTCGTTGAGTCAACACAATTG
1 AGTCAACCCGTTGAGTCAACACGATTG
6088574 AGTCAACCCGTTGAGTCAACACGATTG
1 AGTCAACCCGTTGAGTCAACACGATTG
*
6088601 AGTCAACCTGTTGAGTCAACACGATTG
1 AGTCAACCCGTTGAGTCAACACGATTG
6088628 AGTCAACCCGTTGA
1 AGTCAACCCGTTGA
6088642 CTTTGACCCA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (27 bp):
AGTCAACCCGTTGAGTCAACACGATTG
Found at i:6090513 original size:18 final size:18
Alignment explanation
Indices: 6090490--6090583 Score: 89
Period size: 18 Copynumber: 4.8 Consensus size: 18
6090480 GAGGGTTTAT
*
6090490 GTGGTCCTTCGAGACATA
1 GTGGTCCTTCGGGACATA
6090508 GTGGTCCTTCGGGACATATGTGATA
1 GTGGTCCTTCGGGAC-------ATA
6090533 TGTGGTCCTTCGGGACATA
1 -GTGGTCCTTCGGGACATA
6090552 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
6090570 GTAGTCCTACGGGA
1 GTGGTCCTTCGGGA
6090584 TAAATTCTAC
Statistics
Matches: 65, Mismatches: 3, Indels: 16
0.77 0.04 0.19
Matches are distributed among these distances:
18 44 0.68
19 3 0.05
25 3 0.05
26 15 0.23
ACGTcount: A:0.19, C:0.20, G:0.32, T:0.29
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:6092315 original size:156 final size:156
Alignment explanation
Indices: 6092021--6092332 Score: 599
Period size: 156 Copynumber: 2.0 Consensus size: 156
6092011 ATTAAGATAA
6092021 TGCTAGAAGGTGTTCATTTCTCCAAAGTGGAGAAATTAAATTGAGAAGTTCGTTATTTCGTGGAT
1 TGCTAGAAGGTGTTCATTTCTCCAAAGTGGAGAAATTAAATTGAGAAGTTCGTTATTTCGTGGAT
*
6092086 AATATAGAATACGGTGAACAAATCTCACCATAAGAACGTTAAAAGATCAAGTGATGTGGTTATAT
66 AATATAGAATACGGTGAACAAATCTCACCATAAGAACGTTAAAAGATCAAGTGATGTGGTTAAAT
6092151 TTGAAAAAAAGATTCAAGAATAAGTG
131 TTGAAAAAAAGATTCAAGAATAAGTG
6092177 TGCTAGAAGGTGTTCATTTCTCCAAAGTGGAGAAATTAAATTGAGAAGTTCGTTATTTCGTGGAT
1 TGCTAGAAGGTGTTCATTTCTCCAAAGTGGAGAAATTAAATTGAGAAGTTCGTTATTTCGTGGAT
6092242 AATATAGAATACGGTGAACAAATCTCACCATAAGAACGTTAAAAGATCAAGTGATGTGGTTAGAA
66 AATATAGAATACGGTGAACAAATCTCACCATAAGAACGTTAAAAGATCAAGTGATGTGGTTA-AA
6092307 TTTG-AAAAAAGATTCAAGAATAAGTG
130 TTTGAAAAAAAGATTCAAGAATAAGTG
6092333 CATCGGTGAT
Statistics
Matches: 154, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
156 149 0.97
157 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (156 bp):
TGCTAGAAGGTGTTCATTTCTCCAAAGTGGAGAAATTAAATTGAGAAGTTCGTTATTTCGTGGAT
AATATAGAATACGGTGAACAAATCTCACCATAAGAACGTTAAAAGATCAAGTGATGTGGTTAAAT
TTGAAAAAAAGATTCAAGAATAAGTG
Found at i:6093738 original size:18 final size:18
Alignment explanation
Indices: 6093695--6093731 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6093685 CATTTGAGTT
6093695 GAATTAAATGGATTTTCG
1 GAATTAAATGGATTTTCG
6093713 GAATTAAATGGATTTTCG
1 GAATTAAATGGATTTTCG
6093731 G
1 G
6093732 GCTTAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.38
Consensus pattern (18 bp):
GAATTAAATGGATTTTCG
Found at i:6094887 original size:13 final size:13
Alignment explanation
Indices: 6094865--6094931 Score: 84
Period size: 13 Copynumber: 5.1 Consensus size: 13
6094855 ATATCTATAA
6094865 TATATGATATATG
1 TATATGATATATG
*
6094878 TATGTGATATATG
1 TATATGATATATG
6094891 TATATGATATATG
1 TATATGATATATG
6094904 TATATGA-AT-TG
1 TATATGATATATG
6094915 CATGATATGATATATG
1 --T-ATATGATATATG
6094931 T
1 T
6094932 TTGATATGGG
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
11 2 0.04
12 2 0.04
13 32 0.68
14 7 0.15
15 2 0.04
16 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.18, T:0.45
Consensus pattern (13 bp):
TATATGATATATG
Found at i:6094894 original size:26 final size:25
Alignment explanation
Indices: 6094864--6094938 Score: 84
Period size: 26 Copynumber: 2.9 Consensus size: 25
6094854 CATATCTATA
6094864 ATATATGATATATGTATGTGATATATG
1 ATATATGATATATGTAT-TGATAT-TG
6094891 -TATATGATATATGTATATGA-ATTG
1 ATATATGATATATGTAT-TGATATTG
6094915 CATGATATGATATATGT-TTGATAT
1 -AT-ATATGATATATGTATTGATAT
6094939 GGGTTATTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
24 2 0.05
25 5 0.12
26 23 0.53
27 13 0.30
ACGTcount: A:0.36, C:0.01, G:0.17, T:0.45
Consensus pattern (25 bp):
ATATATGATATATGTATTGATATTG
Found at i:6097456 original size:32 final size:31
Alignment explanation
Indices: 6097420--6097509 Score: 126
Period size: 32 Copynumber: 2.8 Consensus size: 31
6097410 CCACTGGTGA
*
6097420 CCTTGGGTAGGCTCTAAGGCCCCAAGGTACTT
1 CCTTGGGTAGGCTCTTAGGCCCCAAGGTAC-T
*
6097452 CCTTGGGTAGGCTCTTAGGCCCTAAGGTACT
1 CCTTGGGTAGGCTCTTAGGCCCCAAGGTACT
* *
6097483 CCGTTGGGTAGACTTTTAGGCCCCAAG
1 CC-TTGGGTAGGCTCTTAGGCCCCAAG
6097510 ATATTCTCTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
31 3 0.06
32 49 0.94
ACGTcount: A:0.18, C:0.27, G:0.29, T:0.27
Consensus pattern (31 bp):
CCTTGGGTAGGCTCTTAGGCCCCAAGGTACT
Found at i:6097904 original size:14 final size:14
Alignment explanation
Indices: 6097885--6097911 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6097875 TAATTATTAT
6097885 TAATAATAATAATC
1 TAATAATAATAATC
6097899 TAATAATAATAAT
1 TAATAATAATAAT
6097912 AATATTACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
TAATAATAATAATC
Found at i:6097945 original size:10 final size:10
Alignment explanation
Indices: 6097842--6098177 Score: 131
Period size: 10 Copynumber: 32.6 Consensus size: 10
6097832 ATATATATTG
*
6097842 AAATAGTAAT
1 AAATAATAAT
*
6097852 AAATAGTAAT
1 AAATAATAAT
*
6097862 AAA-AATGAT
1 AAATAATAAT
6097871 AAAATAATTATTAT
1 -AAATAA-TA--AT
*
6097885 TAATAATAAT
1 AAATAATAAT
*
6097895 AATCTAATAAT
1 AA-ATAATAAT
6097906 -AATAATAAT
1 AAATAATAAT
* *
6097915 -ATTACGATAGT
1 AAATA--ATAAT
6097926 AAAATAATAAT
1 -AAATAATAAT
*
6097937 AAATGATAA-
1 AAATAATAAT
* *
6097946 ATATAACAAT
1 AAATAATAAT
6097956 -AATAATAAT
1 AAATAATAAT
*
6097965 AAATAACAAT
1 AAATAATAAT
*
6097975 AAGATAATGAT
1 AA-ATAATAAT
6097986 AAACTAATAAT
1 AAA-TAATAAT
*
6097997 AATACTAATAAAG
1 AA-A-TAAT-AAT
*
6098010 ATAATAATACT
1 A-AATAATAAT
6098021 GAAATAATAAT
1 -AAATAATAAT
*
6098032 AAATAGTAAT
1 AAATAATAAT
*
6098042 AGA-AATAAT
1 AAATAATAAT
*
6098051 -AATAATGAT
1 AAATAATAAT
6098060 AAATTAATAAT
1 AAA-TAATAAT
6098071 ATTGAAGTAATAAT
1 A---AA-TAATAAT
6098085 AAAATAA-ATAT
1 -AAATAATA-AT
*
6098096 AAATACTAAT
1 AAATAATAAT
6098106 AAA-AA-AA-
1 AAATAATAAT
*
6098113 CAATAAATAAT
1 AAAT-AATAAT
**
6098124 ATCT-ATAAT
1 AAATAATAAT
*
6098133 AAATGATAAT
1 AAATAATAAT
* * *
6098143 GATTAGTAAT
1 AAATAATAAT
* *
6098153 -AATGACAAT
1 AAATAATAAT
6098162 AAATAATAAT
1 AAATAATAAT
6098172 AAATAA
1 AAATAA
6098178 GAAGAAGGGT
Statistics
Matches: 243, Mismatches: 50, Indels: 66
0.68 0.14 0.18
Matches are distributed among these distances:
7 2 0.01
8 3 0.01
9 52 0.21
10 89 0.37
11 56 0.23
12 16 0.07
13 12 0.05
14 12 0.05
15 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (10 bp):
AAATAATAAT
Found at i:6097970 original size:25 final size:23
Alignment explanation
Indices: 6097885--6098107 Score: 97
Period size: 25 Copynumber: 9.4 Consensus size: 23
6097875 TAATTATTAT
*
6097885 TAATAATAAT-AATCTAATAATAA
1 TAATAATAATAAATATAA-AATAA
* *
6097908 TAATAATATTACGATAGTAAAATAA
1 TAATAATAATA-AATA-TAAAATAA
*
6097933 TAATAAATGATAAATATAACAATAA
1 TAAT-AATAATAAATATAA-AATAA
*
6097958 TAATAATAAATAACA-ATAAGATAA
1 TAATAAT-AATAA-ATATAAAATAA
* * *
6097982 TGATAAACTAAT-AATA-ATACTAA
1 TAAT-AA-TAATAAATATAAAATAA
*
6098005 TAA-AGATAAT-AATACTGAAATAA
1 TAATA-ATAATAAATA-TAAAATAA
* *
6098028 TAATAAATAGT-AATA-GAAATAA
1 TAAT-AATAATAAATATAAAATAA
* *
6098050 TAATAATGATAAAT-TAATAATAT
1 TAATAATAATAAATATAA-AATAA
6098073 TGAAGTAATAATAAA-ATAAATATAAA
1 T-AA-TAATAATAAATATAAA-AT-AA
*
6098099 TACTAATAA
1 TAATAATAA
6098108 AAAAACAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 45
0.69 0.11 0.20
Matches are distributed among these distances:
21 13 0.08
22 16 0.10
23 28 0.18
24 32 0.21
25 52 0.34
26 12 0.08
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.30
Consensus pattern (23 bp):
TAATAATAATAAATATAAAATAA
Found at i:6098029 original size:14 final size:13
Alignment explanation
Indices: 6098010--6098085 Score: 52
Period size: 14 Copynumber: 5.7 Consensus size: 13
6098000 ACTAATAAAG
6098010 ATAATAATACTGAA
1 ATAATAATA-TGAA
6098024 ATAAT-A-AT-AA
1 ATAATAATATGAA
*
6098034 ATAGTAATA-GAA
1 ATAATAATATGAA
6098046 ATAATAATAATGATAA
1 ATAATAAT-ATG--AA
6098062 ATTAATAATATTGAA
1 A-TAATAATA-TGAA
*
6098077 GTAATAATA
1 ATAATAATA
6098086 AAATAAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 18
0.70 0.04 0.25
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 11 0.22
13 2 0.04
14 14 0.28
15 2 0.04
16 4 0.08
17 9 0.18
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (13 bp):
ATAATAATATGAA
Found at i:6098118 original size:21 final size:21
Alignment explanation
Indices: 6098081--6098121 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6098071 ATTGAAGTAA
*
6098081 TAATAAAATAAATATAAATAC
1 TAATAAAATAAAAATAAATAC
6098102 TAATAAAA-AAACAATAAATA
1 TAATAAAATAAA-AATAAATA
6098122 ATATCTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
TAATAAAATAAAAATAAATAC
Found at i:6098122 original size:53 final size:52
Alignment explanation
Indices: 6098012--6098125 Score: 122
Period size: 53 Copynumber: 2.2 Consensus size: 52
6098002 TAATAAAGAT
* ** * *
6098012 AATAATACTGAAATAATAATAAATAGTAATAGAAATAATAATAATGATAAATT
1 AATAATATTGAAATAATAATAAATAG-AATAGAAATAATAATAAAAAAAAATA
* * *
6098065 AATAATATTGAAGTAATAATAAAATA-AATATAAATACTAATAAAAAAACAATA
1 AATAATATTGAAATAATAAT-AAATAGAATAGAAATAATAATAAAAAAA-AATA
6098118 AATAATAT
1 AATAATAT
6098126 CTATAATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
52 17 0.33
53 29 0.57
54 5 0.10
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (52 bp):
AATAATATTGAAATAATAATAAATAGAATAGAAATAATAATAAAAAAAAATA
Found at i:6098124 original size:3 final size:3
Alignment explanation
Indices: 6097843--6098091 Score: 115
Period size: 3 Copynumber: 82.7 Consensus size: 3
6097833 TATATATTGA
* * * * * *
6097843 AAT AGT AAT AAAT AGT AAT AAA AAT GAT AA- AAT AATT ATT ATT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT
* * *
6097889 AAT AAT AAT -CT AAT AAT AAT AAT AAT ATT ACGAT AGT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT
* * * *
6097934 AAT AAAT GAT AA- ATAT AAC AAT AAT AAT AAT AAAT AAC AAT AA- GAT
1 AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * * *
6097980 AAT GAT AA- ACT AAT AAT AAT ACT AAT AA- AGAT AAT AAT ACT GA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
6098023 AAT AAT AAT AAAT AGT AAT AGA- AAT AAT AAT AAT GAT AA- ATT AAT
1 AAT AAT AAT -AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
6098068 AAT ATT GAAGT AAT AAT AA- AAT AA
1 AAT AAT -AA-T AAT AAT AAT AAT AA
6098092 ATATAAATAC
Statistics
Matches: 181, Mismatches: 42, Indels: 46
0.67 0.16 0.17
Matches are distributed among these distances:
2 14 0.08
3 144 0.80
4 20 0.11
5 3 0.02
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6099122 original size:16 final size:16
Alignment explanation
Indices: 6099101--6099146 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
6099091 TTTATCTTTT
* *
6099101 TGGTCAAAGTTAACGC
1 TGGTCAAAGTCAACGA
*
6099117 TGGTCAAAGTCAACTA
1 TGGTCAAAGTCAACGA
6099133 TGGTCAAAGTCAAC
1 TGGTCAAAGTCAAC
6099147 AGGTTGACTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (16 bp):
TGGTCAAAGTCAACGA
Found at i:6102645 original size:65 final size:64
Alignment explanation
Indices: 6102572--6102699 Score: 148
Period size: 65 Copynumber: 2.0 Consensus size: 64
6102562 ATTGAATTTC
* * * * * * * *
6102572 GAATGCATTTAGTGCACCAAGGCACAAGTCATTCATCGATGTACCCCTAAATATTTTTAAACATT
1 GAATGCATTCAGTGAACCAAGACACAAGACATGCATCGATGCA-ACCTAAATATTTTGAAACATT
* * *
6102637 GAATGCATTCAGTGAACCGATACACAAGACATGCATCGATGCAACCTAACTATTTTGAAACAT
1 GAATGCATTCAGTGAACCAAGACACAAGACATGCATCGATGCAACCTAAATATTTTGAAACAT
6102700 CGAAGTAGAT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
64 17 0.33
65 35 0.67
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (64 bp):
GAATGCATTCAGTGAACCAAGACACAAGACATGCATCGATGCAACCTAAATATTTTGAAACATT
Found at i:6104659 original size:21 final size:21
Alignment explanation
Indices: 6104635--6104674 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6104625 AAGACTTTAT
6104635 TTTCAAAATAT-AAAAATGATA
1 TTTCAAAAT-TGAAAAATGATA
6104656 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
6104675 AAATAGTCTT
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:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATA
Found at i:6108500 original size:21 final size:22
Alignment explanation
Indices: 6108456--6108533 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 22
6108446 CTACCTATTT
*
6108456 CATCGATGCATCCCTTGAATGTG
1 CATCGATGCA-CCCATGAATGTG
* *
6108479 CATCGATTCA-CCATGAAGGTG
1 CATCGATGCACCCATGAATGTG
* *
6108500 CACCGATGCACGCCATAAATGTG
1 CATCGATGCAC-CCATGAATGTG
6108523 CATCGATGCAC
1 CATCGATGCAC
6108534 TCTGCTTTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.38
23 28 0.62
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (22 bp):
CATCGATGCACCCATGAATGTG
Found at i:6110266 original size:22 final size:20
Alignment explanation
Indices: 6110221--6110282 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
6110211 CCGTTAGACA
*
6110221 GGGGGGAATCGGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
6110241 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCTGTACCCCCT
*
6110261 GGGGGGGGAATATGTACCCCCT
1 --GGGGGGAATCTGTACCCCCT
6110283 AGACAATCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.50
22 19 0.50
ACGTcount: A:0.16, C:0.27, G:0.39, T:0.18
Consensus pattern (20 bp):
GGGGGGAATCTGTACCCCCT
Found at i:6111830 original size:14 final size:13
Alignment explanation
Indices: 6111794--6111822 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6111784 ATAGGGAGTA
6111794 ATTTCAAAAATTG
1 ATTTCAAAAATTG
6111807 ATTTCAAAAATT-
1 ATTTCAAAAATTG
6111819 ATTT
1 ATTT
6111823 TCATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCAAAAATTG
Found at i:6112163 original size:20 final size:20
Alignment explanation
Indices: 6112130--6112171 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6112120 AAAGGAATAA
* *
6112130 ATCGATGCACTAGTTCATGC
1 ATCGAAGCAATAGTTCATGC
6112150 ATCGAAGCAATAGTTCATGC
1 ATCGAAGCAATAGTTCATGC
6112170 AT
1 AT
6112172 TGATGTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (20 bp):
ATCGAAGCAATAGTTCATGC
Found at i:6112304 original size:19 final size:19
Alignment explanation
Indices: 6112277--6112327 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
6112267 ATGCATTCAG
*
6112277 TGCACCGATGCACAAGACA
1 TGCATCGATGCACAAGACA
6112296 TGCATCGATGCACAAGACA
1 TGCATCGATGCACAAGACA
6112315 TGCATCGATGCAC
1 TGCATCGATGCAC
6112328 TTTGGCTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (19 bp):
TGCATCGATGCACAAGACA
Found at i:6116130 original size:15 final size:15
Alignment explanation
Indices: 6116107--6116136 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6116097 TCTTAAAATC
6116107 TATTATTATTTTATA
1 TATTATTATTTTATA
*
6116122 TATTTTTATTTTATA
1 TATTATTATTTTATA
6116137 AATTGAGTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTATTTTATA
Found at i:6117714 original size:221 final size:222
Alignment explanation
Indices: 6117249--6117801 Score: 810
Period size: 221 Copynumber: 2.5 Consensus size: 222
6117239 CCGGAAATAT
* * *
6117249 AAAATAAGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTTGCCAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTTAAGGTTGCTAATAATGTAA
* * * * *
6117314 ACGGTAAAAAAATATGAGCTACCTATTACATTAAACTATCTACC-AGTTTTTTTAAGGTTGCTAA
66 ATGGTAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCGAGTTTTTTGAAGGTTGCTAA
** * **
6117378 TAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTATATTAAAATATTTACCGGTTTGTTTAAA
131 TAATGTAAACAATAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAA
*
6117443 GATTACTAATAATGTAAACGGTAAAAT
196 GATTACTAATAATGTAAACGGTAAAAA
*
6117470 AAAACAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTCTTTTAAGGTTGCTAATAATGTA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTT-TTTTAAGGTTGCTAATAATGTA
* * *
6117535 AATGGTAAAAAAATAGGCCCTACCTATTACATTAAAATACCTACCGA-TTTTTTGAAGGTTGTTA
65 AATGGTAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCGAGTTTTTTGAAGGTTGCTA
* *
6117599 ATAATGTAAACAATAAAAAAAATAGTCGCTACCTATTACATTAAAATACCTACCGGTTT-TTTGA
130 ATAATGTAAACAATAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAA
*
6117663 AGATTGCTAATAATGTAAACGGTAAAAA
195 AGATTACTAATAATGTAAACGGTAAAAA
* * *
6117691 AAAATAGGCGTTATCTATTACATTAAAATACCTA-TCGGTTTTTTTGAAGGTTGCTAATAATGT-
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACT-GGTTTTTTTTAAGGTTGCTAATAATGTA
*
6117754 AATAGGTAAAAATACTAGGCGCTACCTATTACATTAAACTACCTACCG
65 AAT-GGTAAAAA-AATAGGCGCTACCTATTACATTAAACTACCTACCG
6117802 GATATGTTAA
Statistics
Matches: 299, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
219 3 0.01
220 29 0.10
221 138 0.46
222 128 0.43
223 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (222 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTTTTTAAGGTTGCTAATAATGTAA
ATGGTAAAAAAATAGGCGCTACCTATTACATTAAACTACCTACCGAGTTTTTTGAAGGTTGCTAA
TAATGTAAACAATAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAA
GATTACTAATAATGTAAACGGTAAAAA
Found at i:6117789 original size:295 final size:295
Alignment explanation
Indices: 6117249--6117799 Score: 788
Period size: 295 Copynumber: 1.9 Consensus size: 295
6117239 CCGGAAATAT
* * *
6117249 AAAATAAGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTTGCCAATAATGTAA
1 AAAATAAGCCCTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGTTGCCAATAATGTAA
** * * * *
6117314 ACGGTAAAAAAATATGAGCTACCTATTACATTAAACTATCTACCAGTTTTTTTAAGGTTGCTAAT
66 ACAATAAAAAAATATGAGCTACCTATTACATTAAAATACCTACCAGTTTTTTGAAGATTGCTAAT
* **
6117379 AATGTAAACGGTAAAAAAAATAGGCGCTACCTATTATATTAAAATATTTACCGGTTTGTTTAAAG
131 AATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAAG
6117444 ATTACTAATAATGTAAACGGTAAAATAAAACAGGCGCTACCTATTACATTAAAATACCTACTGGT
196 ATTACTAATAATGTAAACGGTAAAATAAAACAGGCGCTACCTATTACATTAAAATACCTACTGGT
6117509 TTTCTTTTAAGGTTGCTAATAATGTAAATGGTAAA
261 TTTCTTTTAAGGTTGCTAATAATGTAAATGGTAAA
* **
6117544 AAAATAGGCCCTACCTATTACATTAAAATACCTACC-GATTTTTTGAAGGTTGTTAATAATGTAA
1 AAAATAAGCCCTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGTTGCCAATAATGTAA
* *
6117608 ACAATAAAAAAA-ATAGTCGCTACCTATTACATTAAAATACCTACCGGTTTTTTGAAGATTGCTA
66 ACAATAAAAAAATAT-G-AGCTACCTATTACATTAAAATACCTACCAGTTTTTTGAAGATTGCTA
* * * * *
6117672 ATAATGTAAACGGTAAAAAAAAATAGGCGTTATCTATTACATTAAAATACCTATCGGTTTTTTTG
129 ATAATGTAAACGGT-AAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTA
* * * *
6117737 AAGGTTGCTAATAATGTAATA-GGT-AAA-AATACTAGGCGCTACCTATTACATTAAACTACCTA
193 AAGATTACTAATAATGTAA-ACGGTAAAATAAAAC-AGGCGCTACCTATTACATTAAAATACCTA
6117799 C
256 C
6117800 CGGATATGTT
Statistics
Matches: 225, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
293 2 0.01
294 39 0.17
295 121 0.54
296 62 0.28
297 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (295 bp):
AAAATAAGCCCTACCTATTACATTAAAATACCTACCGGATTTTTTGAAGGTTGCCAATAATGTAA
ACAATAAAAAAATATGAGCTACCTATTACATTAAAATACCTACCAGTTTTTTGAAGATTGCTAAT
AATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTGTTTAAAG
ATTACTAATAATGTAAACGGTAAAATAAAACAGGCGCTACCTATTACATTAAAATACCTACTGGT
TTTCTTTTAAGGTTGCTAATAATGTAAATGGTAAA
Found at i:6117797 original size:74 final size:74
Alignment explanation
Indices: 6117249--6117802 Score: 742
Period size: 73 Copynumber: 7.5 Consensus size: 74
6117239 CCGGAAATAT
* * *
6117249 AAAATAAGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTTAAGGTTGCCAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
6117314 ACGGT-AAA
66 ACGGTAAAA
* * * * *
6117322 AAAATATGAGCTACCTATTACATTAAACTATCTACCAGTTTTTTT-AAGGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
6117386 ACGGTAAAA
66 ACGGTAAAA
* ** * * * *
6117395 AAAATAGGCGCTACCTATTATATTAAAATATTTACCGGTTTGTTTAAAGATTACTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
6117460 ACGGTAAAA
66 ACGGTAAAA
* * *
6117469 TAAAACAGGCGCTACCTATTACATTAAAATACCTACTGGTTTTCTTTTAAGGTTGCTAATAATGT
1 -AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTT-TTTGAAGGTTGCTAATAATGT
*
6117534 AAATGGT-AAA
64 AAACGGTAAAA
* * *
6117544 AAAATAGGCCCTACCTATTACATTAAAATACCTACC-GATTTTTTGAAGGTTGTTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
**
6117608 ACAATAAAA
66 ACGGTAAAA
* *
6117617 AAAATAGTCGCTACCTATTACATTAAAATACCTACCGG-TTTTTTGAAGATTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
6117681 ACGGTAAAAA
66 ACGGT-AAAA
* * *
6117691 AAAATAGGCGTTATCTATTACATTAAAATACCTATCGGTTTTTTTGAAGGTTGCTAATAATGTAA
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
6117756 TA-GGTAAAA
66 -ACGGTAAAA
* * *
6117765 ATACTAGGCGCTACCTATTACATTAAACTACCTACCGG
1 AAAATAGGCGCTACCTATTACATTAAAATACCTACCGG
6117803 ATATGTTAAA
Statistics
Matches: 421, Mismatches: 51, Indels: 17
0.86 0.10 0.03
Matches are distributed among these distances:
72 46 0.11
73 149 0.35
74 134 0.32
75 67 0.16
76 25 0.06
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.33
Consensus pattern (74 bp):
AAAATAGGCGCTACCTATTACATTAAAATACCTACCGGTTTTTTTGAAGGTTGCTAATAATGTAA
ACGGTAAAA
Found at i:6118075 original size:20 final size:20
Alignment explanation
Indices: 6118050--6118101 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
6118040 CAGGTAAAAA
6118050 TATGACAAAATCAATTTCAT
1 TATGACAAAATCAATTTCAT
* *
6118070 TATGACAAAACCAGTTTCAT
1 TATGACAAAATCAATTTCAT
*
6118090 TATGAAAAAATC
1 TATGACAAAATC
6118102 GGTAAAGAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (20 bp):
TATGACAAAATCAATTTCAT
Found at i:6120076 original size:21 final size:21
Alignment explanation
Indices: 6120033--6120081 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6120023 TATATATATA
*
6120033 ATTTGTTAGTAATTTAATTTTT
1 ATTT-TTAGTAATTTAATATTT
* *
6120055 ATTTTTAGTATTTTTATATTT
1 ATTTTTAGTAATTTAATATTT
*
6120076 AATTTT
1 ATTTTT
6120082 GTCTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (21 bp):
ATTTTTAGTAATTTAATATTT
Found at i:6122438 original size:22 final size:22
Alignment explanation
Indices: 6122410--6122456 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
6122400 TATTCATCAT
*
6122410 ATTATTCATCTTGGTTGATAAG
1 ATTATTCATCTTGATTGATAAG
6122432 ATTATTCATCTTGATTGATAAG
1 ATTATTCATCTTGATTGATAAG
6122454 ATT
1 ATT
6122457 TTCGTCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.47
Consensus pattern (22 bp):
ATTATTCATCTTGATTGATAAG
Found at i:6122532 original size:19 final size:19
Alignment explanation
Indices: 6122508--6122554 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
6122498 TTTTCTTCTT
6122508 TGCTTCATCTCCGGTGTTC
1 TGCTTCATCTCCGGTGTTC
6122527 TGCTTCATCTCCGGTGTTC
1 TGCTTCATCTCCGGTGTTC
*
6122546 TCCTTCATC
1 TGCTTCATC
6122555 ACATTCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.06, C:0.34, G:0.17, T:0.43
Consensus pattern (19 bp):
TGCTTCATCTCCGGTGTTC
Found at i:6123252 original size:2 final size:2
Alignment explanation
Indices: 6123245--6123274 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6123235 ATTATTAATA
6123245 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6123275 CAAACATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6130891 original size:19 final size:19
Alignment explanation
Indices: 6130867--6130903 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
6130857 GTAATATTAT
6130867 TATATTGTA-TTGTCGATTG
1 TATATTG-ACTTGTCGATTG
6130886 TATATTGACTTGTCGATT
1 TATATTGACTTGTCGATT
6130904 ACAGATAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (19 bp):
TATATTGACTTGTCGATTG
Found at i:6131885 original size:59 final size:60
Alignment explanation
Indices: 6131788--6131924 Score: 181
Period size: 59 Copynumber: 2.3 Consensus size: 60
6131778 GGAAGATTTT
* *
6131788 GGACCAATTTAGAATGAGGGTTATAGTTTAGGGATGAAATCAG-AATATTC-AAAGTTTAA
1 GGACCAATTTAGAATGAGAGTCATAGTTTAGGGATGAAAT-AGAAATATTCAAAAGTTTAA
* * *
6131847 GGACTAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATTGAAATATTCAAAATTTTAA
1 GGACCAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATAGAAATATTCAAAAGTTTAA
*
6131907 GGAACAATTTTA-AATGAG
1 GGACCAA-TTTAGAATGAG
6131925 GGTTATAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
58 1 0.01
59 44 0.65
60 19 0.28
61 4 0.06
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (60 bp):
GGACCAATTTAGAATGAGAGTCATAGTTTAGGGATGAAATAGAAATATTCAAAAGTTTAA
Found at i:6132494 original size:59 final size:59
Alignment explanation
Indices: 6132371--6132519 Score: 196
Period size: 59 Copynumber: 2.5 Consensus size: 59
6132361 GCATCATATG
* *
6132371 TCCCCAAATTATAACTCTCATT-TAAACTTGTTCCTTAAACTTTTGAATATTTCAATTTCA
1 TCCCTAAACTATAACTCTCATTCTAAA-TTG-TCCTTAAACTTTTGAATATTTCAATTTCA
* *
6132431 TCCCTAAACTATGACTCTCATTCTAAATTAGTCCTTAAAC-TTTGAATA-TTCTGATTTCA
1 TCCCTAAACTATAACTCTCATTCTAAATT-GTCCTTAAACTTTTGAATATTTC-AATTTCA
*
6132490 TCCCTAAACTATAACCCTCATTCTAAATTG
1 TCCCTAAACTATAACTCTCATTCTAAATTG
6132520 GTCCAAAATC
Statistics
Matches: 80, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
58 4 0.05
59 41 0.51
60 30 0.38
61 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (59 bp):
TCCCTAAACTATAACTCTCATTCTAAATTGTCCTTAAACTTTTGAATATTTCAATTTCA
Found at i:6135800 original size:58 final size:58
Alignment explanation
Indices: 6135725--6135840 Score: 196
Period size: 58 Copynumber: 2.0 Consensus size: 58
6135715 CCAATAAATG
* *
6135725 TACATTTTCCCTCTTGTTCATTAAGCTTCTTTCTTGTCTGCTCAGAAATGTGGGCATA
1 TACATTTTCCCTCTTGTTCATCAAGCTTCTTTCTTGTCTGCTCAGAAATGTGAGCATA
* *
6135783 TACATTTTTCCTTTTGTTCATCAAGCTTCTTTCTTGTCTGCTCAGAAATGTGAGCATA
1 TACATTTTCCCTCTTGTTCATCAAGCTTCTTTCTTGTCTGCTCAGAAATGTGAGCATA
6135841 CACGATGCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (58 bp):
TACATTTTCCCTCTTGTTCATCAAGCTTCTTTCTTGTCTGCTCAGAAATGTGAGCATA
Found at i:6136429 original size:12 final size:11
Alignment explanation
Indices: 6136390--6136428 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
6136380 AATTAAAGAG
6136390 TTATTATTATT
1 TTATTATTATT
*
6136401 ATTATTATTAAT
1 -TTATTATTATT
6136413 TTATATATTATT
1 TTAT-TATTATT
6136425 TTAT
1 TTAT
6136429 AGACACCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 20 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTATT
Found at i:6137846 original size:2 final size:2
Alignment explanation
Indices: 6137839--6137868 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6137829 TTTATATCAA
6137839 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
6137869 TGTTTAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6137997 original size:21 final size:21
Alignment explanation
Indices: 6137973--6138012 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6137963 AAAGGTAATT
6137973 AATTCGAATTTAAATTTTTTA
1 AATTCGAATTTAAATTTTTTA
** *
6137994 AATTTTAATTTACATTTTT
1 AATTCGAATTTAAATTTTT
6138013 AATTTTCGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (21 bp):
AATTCGAATTTAAATTTTTTA
Found at i:6141854 original size:20 final size:21
Alignment explanation
Indices: 6141829--6141880 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
6141819 GGGTCAGACT
*
6141829 GGTTCGAGTTGAA-TTAGGTC
1 GGTTCGAGTTGAACTGAGGTC
*
6141849 GGTTCGAGTT-AACTGAGTTC
1 GGTTCGAGTTGAACTGAGGTC
6141869 GGTTCGAGTTGA
1 GGTTCGAGTTGA
6141881 CTCAAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.19, C:0.12, G:0.35, T:0.35
Consensus pattern (21 bp):
GGTTCGAGTTGAACTGAGGTC
Found at i:6146340 original size:2 final size:2
Alignment explanation
Indices: 6146333--6146417 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
6146323 ATTCTAGCTC
6146333 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
6146375 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
6146417 A
1 A
6146418 AGATTAAGAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6150962 original size:3 final size:3
Alignment explanation
Indices: 6150954--6150978 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6150944 TTTGGTTAAC
6150954 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6150979 GGTCATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6151678 original size:22 final size:22
Alignment explanation
Indices: 6151632--6151684 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
6151622 ATATGTGTGC
* * *
6151632 CCACCCTGAAATTTTATTATGT
1 CCACCCTAAAATTTTATCATAT
*
6151654 CCACCCTAAAATTTTATCGTAT
1 CCACCCTAAAATTTTATCATAT
6151676 CCA-CCTAAA
1 CCACCCTAAA
6151685 TATAAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (22 bp):
CCACCCTAAAATTTTATCATAT
Found at i:6153255 original size:16 final size:16
Alignment explanation
Indices: 6153210--6153255 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
6153200 GAAAATGTGA
*
6153210 TGTAAG-CTATATGAC
1 TGTAAGTCTATATGAT
* *
6153225 TATAA-TCTATGTGAT
1 TGTAAGTCTATATGAT
6153240 TGTAAGTCTATATGAT
1 TGTAAGTCTATATGAT
6153256 ACAAGCTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (16 bp):
TGTAAGTCTATATGAT
Found at i:6153265 original size:30 final size:29
Alignment explanation
Indices: 6153204--6153265 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
6153194 TTACATGAAA
* *
6153204 ATGTGATGTAAGCTATATGACTATAATCT
1 ATGTGATGTAAGCTATATGACTACAAGCT
6153233 ATGTGATTGTAAGTCTATATGA-TACAAGCT
1 ATGTGA-TGTAAG-CTATATGACTACAAGCT
6153263 ATG
1 ATG
6153266 AGAAATGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 6 0.21
30 15 0.52
31 8 0.28
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (29 bp):
ATGTGATGTAAGCTATATGACTACAAGCT
Found at i:6153437 original size:23 final size:23
Alignment explanation
Indices: 6153344--6153440 Score: 122
Period size: 23 Copynumber: 4.2 Consensus size: 23
6153334 GAGTCAAGGG
* *
6153344 TTCTATGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGGGACAT
* * *
6153367 TTATACGTGGTCATTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
*
6153390 TTCTACGAGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCGGGACAT
* *
6153413 TTCTACGCGGTTCTTCGGGATAT
1 TTCTACGCGGTCCTTCGGGACAT
6153436 TTCTA
1 TTCTA
6153441 TGTGGCACTT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGGGACAT
Found at i:6155232 original size:15 final size:15
Alignment explanation
Indices: 6155190--6155232 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6155180 CCAGATGTTA
*
6155190 CGGGTACTCGATAAT
1 CGGGTACTCGGTAAT
*
6155205 CGGGTAC-CTGGTAGT
1 CGGGTACTC-GGTAAT
6155220 CGGGTACTCGGTA
1 CGGGTACTCGGTA
6155233 CCCAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.35, T:0.26
Consensus pattern (15 bp):
CGGGTACTCGGTAAT
Found at i:6155394 original size:5 final size:5
Alignment explanation
Indices: 6155386--6155487 Score: 204
Period size: 5 Copynumber: 20.4 Consensus size: 5
6155376 TAAATAATTC
6155386 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6155436 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6155486 AT
1 AT
6155488 AAAAACTAAT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 97 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Done.