Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_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: 14308945
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 62
Found at i:8082893 original size:23 final size:22
Alignment explanation
Indices: 8082863--8082940 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
8082853 AATGACCTTG
8082863 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* *
8082886 TGCATCGATGCACCTTC-ATGA
1 TGCATCGATGCACATTCAAGGA
* *
8082907 TGTATCGATGCAAATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
8082929 TGCATCGATGCA
1 TGCATCGATGCA
8082941 TTAAGCACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:8090479 original size:3 final size:3
Alignment explanation
Indices: 8090473--8090552 Score: 90
Period size: 3 Copynumber: 26.7 Consensus size: 3
8090463 TATATGTATT
* * * *
8090473 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
8090521 TAA TTA TAA TTA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
8090553 TGGGTAAAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.03
3 58 0.92
4 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:8091014 original size:112 final size:113
Alignment explanation
Indices: 8090858--8091425 Score: 824
Period size: 113 Copynumber: 5.0 Consensus size: 113
8090848 ATCTCCTTCT
* * *
8090858 GTGATAGAATT-ATGCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCATTCTTCA
1 GTGAT-GAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* *
8090922 GATGAGTTCTTCTTATTATGAA-CTTTTCTGGAAATGCTGATCCATCAA
65 GATGAGTTCTTCTCATTATGAACCTTTTCTGGAAATGCTAATCCATCAA
* *
8090970 TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* *
8091035 ATGAGTTCTTCTTATTATGAA-CTTTTCTGGAAATGCTGATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTTTCTGGAAATGCTAATCCATCAA
* *
8091082 TTGATGAATTCATGTAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
* * * *
8091147 ATGAGTTCTTCTCATTATGAACCTTCTCTGGCAAGGCTAATTCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTTTCTGGAAATGCTAATCCATCAA
* * *
8091195 GTGATGGATTTGA-GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 GTGAT-GAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* **
8091259 GATGAGTTCTTCTCATTATGAACCTTCTCTGGTAAA-AATAATCCATCAA
65 GATGAGTTCTTCTCATTATGAACCTTTTCTGG-AAATGCTAATCCATCAA
* *
8091308 GTGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
1 GTGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
**
8091373 ATGAGTTCTTCTCATTATGAACCTTTTCTGGCAAA-AATAATCCATCAA
66 ATGAGTTCTTCTCATTATGAACCTTTTCTGG-AAATGCTAATCCATCAA
*
8091421 ATGAT
1 GTGAT
8091426 AGATTTGAAT
Statistics
Matches: 426, Mismatches: 25, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
111 5 0.01
112 191 0.45
113 223 0.52
114 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (113 bp):
GTGATGAATTCATGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG
ATGAGTTCTTCTCATTATGAACCTTTTCTGGAAATGCTAATCCATCAA
Found at i:8092291 original size:83 final size:83
Alignment explanation
Indices: 8092152--8092627 Score: 846
Period size: 83 Copynumber: 5.7 Consensus size: 83
8092142 GTAGTTCTTA
8092152 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
8092217 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
8092235 CCAAACCATATCAGATAACTCAAAGAACACTTCCATAAGATGTTATTGGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
8092300 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
8092318 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
8092383 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
8092401 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
8092466 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
8092484 TCTAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
8092549 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * *
8092567 TCTAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTT
8092628 CCAGTTAATG
Statistics
Matches: 382, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
82 2 0.01
83 380 0.99
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTTCAA
ATTCAATGATTGGTTCTG
Found at i:8106070 original size:19 final size:19
Alignment explanation
Indices: 8106046--8106082 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8106036 TTGTTTTTTT
8106046 TGTATTTCTCT-TCTCTCTG
1 TGTATTT-TCTGTCTCTCTG
8106065 TGTATTTTCTGTCTCTCT
1 TGTATTTTCTGTCTCTCT
8106083 TTTCTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.05, C:0.24, G:0.11, T:0.59
Consensus pattern (19 bp):
TGTATTTTCTGTCTCTCTG
Found at i:8106513 original size:3 final size:3
Alignment explanation
Indices: 8106507--8106592 Score: 102
Period size: 3 Copynumber: 28.7 Consensus size: 3
8106497 TATATGTATT
* * *
8106507 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
8106555 AAA TAA TAA TTA TAA TTA TAA TAA TAAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA
8106593 TGGGTAAAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 64 0.93
4 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:8107029 original size:20 final size:20
Alignment explanation
Indices: 8107004--8107052 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
8106994 ATTTATTCCA
8107004 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
8107024 TGGTGCATCGATGCATGGAT
1 TGGTGCATCGATGCATGGAT
8107044 TGGTGCATC
1 TGGTGCATC
8107053 AGTGAATCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.16, G:0.35, T:0.31
Consensus pattern (20 bp):
TGGTGCATCGATGCATGGAT
Found at i:8107823 original size:59 final size:58
Alignment explanation
Indices: 8107718--8108046 Score: 464
Period size: 59 Copynumber: 5.6 Consensus size: 58
8107708 GGGTATTACA
* * *
8107718 CATACACTTAGTATGAATTTCATATCTTTTTGCACATAAAGTGCCCAATACTGAAATT
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACATAAAGTGCCCAATACTAAAATT
8107776 CATACACTTAGTATGAATTTCTTAACATTTTTGCACATAAAGTGCCCAATACTAAAATT
1 CATACACTTAGTATGAATTTCTTAAC-TTTTTGCACATAAAGTGCCCAATACTAAAATT
* ** *
8107835 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAACT
1 CATACACTTAGTATGAATTTCTTAAC-TTTTTGCACATAAAGTGCCCAATACTAAAATT
* *
8107894 CATACACTTAGTATGAATTTCTTATCTTTTTGCACATAAAGTGCCCAAAAC-ATAAATT
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACATAAAGTGCCCAATACTA-AAATT
** * ** *
8107952 CATACAAAGT-GTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCTTTACAAAAATT
1 CATAC-ACTTAGTATGAATTTCTTAAC-TTTTTGCACATAAAGTGCCCAATACTAAAATT
8108011 CATACACTTAGTATGAATTTCTTAACTTTTTGCACA
1 CATACACTTAGTATGAATTTCTTAACTTTTTGCACA
8108047 CTTAGTGCTA
Statistics
Matches: 244, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
58 83 0.34
59 160 0.66
60 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (58 bp):
CATACACTTAGTATGAATTTCTTAACTTTTTGCACATAAAGTGCCCAATACTAAAATT
Found at i:8107850 original size:117 final size:117
Alignment explanation
Indices: 8107718--8108046 Score: 493
Period size: 117 Copynumber: 2.8 Consensus size: 117
8107708 GGGTATTACA
* * * *
8107718 CATACACTTAGTATGAATTTCATATC-TTTTTGCACATAAAGTGCCCAATACTGAAATTCATACA
1 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATTCATACA
*
8107782 CTTAGTATGAATTTCTTAACATTTTTGCACATAAAGTGCCCAATAC-TAAAATT
66 CTTAGTATGAATTTCTTAAC-TTTTTGCACATAAAGTGCCCAAAACAT-AAATT
* *
8107835 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAACTCATACA
1 CATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATTCATACA
*
8107900 CTTAGTATGAATTTCTTATCTTTTTGCACATAAAGTGCCCAAAACATAAATT
66 CTTAGTATGAATTTCTTAACTTTTTGCACATAAAGTGCCCAAAACATAAATT
** ** *
8107952 CATACAAAGT-GTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCTTTACAAAAATTCATAC
1 CATAC-ACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATTCATAC
8108016 ACTTAGTATGAATTTCTTAACTTTTTGCACA
65 ACTTAGTATGAATTTCTTAACTTTTTGCACA
8108047 CTTAGTGCTA
Statistics
Matches: 194, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
117 137 0.71
118 57 0.29
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (117 bp):
CATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAGAAATTCATACA
CTTAGTATGAATTTCTTAACTTTTTGCACATAAAGTGCCCAAAACATAAATT
Found at i:8108012 original size:176 final size:175
Alignment explanation
Indices: 8107718--8108047 Score: 547
Period size: 176 Copynumber: 1.9 Consensus size: 175
8107708 GGGTATTACA
* *
8107718 CATACACTTAGTATGAATTTCATATCTTTTTGCACATAAAGTGCCCAATACTGAAATTCATACAC
1 CATACACTTAGTATGAATTTCATATCTTTTTGCACATAAAGTGCCCAAAACTGAAATTCATACAA
* * *
8107783 TTAGTATGAATTTCTTAACATTTTTGCACATAAAGTGCCCAATACTAAAATTCATACACTTAGTA
66 GTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAAAAATTCATACACTTAGTA
8107848 TGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGGAAACT
131 TGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATACGGAAACT
*
8107894 CATACACTTAGTATGAATTTCTTATCTTTTTGCACATAAAGTGCCCAAAACAT-AAATTCATACA
1 CATACACTTAGTATGAATTTCATATCTTTTTGCACATAAAGTGCCCAAAAC-TGAAATTCATAC-
**
8107958 AAGT-GTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCTTTACAAAAATTCATACACTTAG
64 AAGTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAAAAATTCATACACTTAG
8108022 TATGAATTTCTTAACTTTTTGCACAC
129 TATGAATTTCTTAACTTTTTGCACAC
8108048 TTAGTGCTAT
Statistics
Matches: 144, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
175 11 0.08
176 130 0.90
177 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (175 bp):
CATACACTTAGTATGAATTTCATATCTTTTTGCACATAAAGTGCCCAAAACTGAAATTCATACAA
GTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACAAAAATTCATACACTTAGTA
TGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGGAAACT
Found at i:8108525 original size:22 final size:20
Alignment explanation
Indices: 8108480--8108533 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
8108470 ATGTTTCCTA
*
8108480 GTATCGATACCCTTACCATG
1 GTATCGATACCCATACCATG
*
8108500 GTATCGATACTACCATACTATG
1 GTATCGATAC--CCATACCATG
8108522 GTATCGATACCC
1 GTATCGATACCC
8108534 CCATCCGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.40
22 18 0.60
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:8108537 original size:22 final size:21
Alignment explanation
Indices: 8108480--8108551 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 21
8108470 ATGTTTCCTA
*
8108480 GTATCGATA-CCCTTACCATG
1 GTATCGATACCCCATACCATG
* *
8108500 GTATCGATACTACCATACTATG
1 GTATCGATAC-CCCATACCATG
8108522 GTATCGATACCCCCAT-CC--G
1 GTATCGATA-CCCCATACCATG
8108541 GTATCGATACC
1 GTATCGATACC
8108552 AATTTTAGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 2 0.05
19 10 0.23
20 9 0.20
21 1 0.02
22 21 0.48
23 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (21 bp):
GTATCGATACCCCATACCATG
Found at i:8108546 original size:95 final size:95
Alignment explanation
Indices: 8108408--8108608 Score: 260
Period size: 95 Copynumber: 2.1 Consensus size: 95
8108398 TGGTACCGAT
* * * * * *
8108408 ACGATACTTCTATACTATGGTACTGATATCCTCTTCCGGTATCGATACCAATTTTAGATTTGATG
1 ACGATACTACCATACTATGGTACTGATACCCCCATCCGGTATCGATACCAATTTTAGATTCGATG
** *
8108473 TTTCCTAGTATCGATACCCTTACCATGGTA
66 TGGCCTAGTATCGATACCCTTACAATGGTA
*
8108503 TCGATACTACCATACTATGGTA-TCGATACCCCCATCCGGTATCGATACCAATTTTAGATTCGAT
1 ACGATACTACCATACTATGGTACT-GATACCCCCATCCGGTATCGATACCAATTTTAGATTCGAT
* * *
8108567 GTGGCCTGGTATCTATACCCTTACAATTGTA
65 GTGGCCTAGTATCGATACCCTTACAATGGTA
*
8108598 ACGATATTACC
1 ACGATACTACC
8108609 TCGTCGATAT
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
94 1 0.01
95 89 0.99
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (95 bp):
ACGATACTACCATACTATGGTACTGATACCCCCATCCGGTATCGATACCAATTTTAGATTCGATG
TGGCCTAGTATCGATACCCTTACAATGGTA
Found at i:8110400 original size:2 final size:2
Alignment explanation
Indices: 8110393--8110421 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8110383 CTTTCTTCAA
8110393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8110422 ATAATGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8111050 original size:21 final size:21
Alignment explanation
Indices: 8111024--8111103 Score: 117
Period size: 21 Copynumber: 3.7 Consensus size: 21
8111014 AGAGTGCCAT
*
8111024 AGTACACGAAGTACTACTCCA
1 AGTACACAAAGTACTACTCCA
8111045 AGTACACAAAGTACT-CTTACCA
1 AGTACACAAAGTACTAC-T-CCA
8111067 TAGTACACAAAGTACTACTCCA
1 -AGTACACAAAGTACTACTCCA
8111089 AGTACACAAAGTACT
1 AGTACACAAAGTACT
8111104 CTTACAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 8
0.86 0.02 0.13
Matches are distributed among these distances:
20 1 0.02
21 30 0.56
22 6 0.11
23 16 0.30
24 1 0.02
ACGTcount: A:0.41, C:0.26, G:0.11, T:0.21
Consensus pattern (21 bp):
AGTACACAAAGTACTACTCCA
Found at i:8111070 original size:44 final size:44
Alignment explanation
Indices: 8111020--8111108 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
8111010 ACACAGAGTG
*
8111020 CCATAGTACACGAAGTACTACTCCAAGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
8111064 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
8111108 C
1 C
8111109 AAAAATGCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.22
Consensus pattern (44 bp):
CCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTA
Found at i:8112087 original size:30 final size:30
Alignment explanation
Indices: 8112022--8112087 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
8112012 CATTCATAAC
* * * *
8112022 TTTTCCAAAATTTATGAATTGGTCCCCTAA
1 TTTTTCAAAAATTATGAATTGGCCCCCAAA
*
8112052 CTTTTCAAAAATTATAGAA-TGGCCCCCAAA
1 TTTTTCAAAAATTAT-GAATTGGCCCCCAAA
8112082 TTTTTC
1 TTTTTC
8112088 TAAGGCTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (30 bp):
TTTTTCAAAAATTATGAATTGGCCCCCAAA
Found at i:8117321 original size:2 final size:2
Alignment explanation
Indices: 8117314--8117372 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
8117304 CTTCAAATAC
8117314 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
8117356 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
8117373 ATAATGTTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8118048 original size:21 final size:23
Alignment explanation
Indices: 8117995--8118061 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 23
8117985 ACACAAATTG
8117995 CCATAGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTCTTA
8118018 CCATAGTACACAAAGTACTAC-T-
1 CCATAGTACACAAAGTACT-CTTA
8118040 CCA-AGTACACAAAGTACTCTTA
1 CCATAGTACACAAAGTACTCTTA
8118062 TGAAAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.39
22 3 0.07
23 20 0.49
24 1 0.02
ACGTcount: A:0.40, C:0.27, G:0.09, T:0.24
Consensus pattern (23 bp):
CCATAGTACACAAAGTACTCTTA
Found at i:8123178 original size:2 final size:2
Alignment explanation
Indices: 8123171--8123200 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8123161 TTGACCTGTA
8123171 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
8123201 TTCACCTGAT
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:8123362 original size:2 final size:2
Alignment explanation
Indices: 8123355--8123388 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8123345 GCAATTATTC
8123355 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
8123389 GGAAATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8133289 original size:10 final size:10
Alignment explanation
Indices: 8133274--8133298 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8133264 AGAATATCTG
8133274 CTCTCTCGCT
1 CTCTCTCGCT
8133284 CTCTCTCGCT
1 CTCTCTCGCT
8133294 CTCTC
1 CTCTC
8133299 ACTCTCTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.52, G:0.08, T:0.40
Consensus pattern (10 bp):
CTCTCTCGCT
Found at i:8140169 original size:38 final size:38
Alignment explanation
Indices: 8140118--8140272 Score: 230
Period size: 38 Copynumber: 4.2 Consensus size: 38
8140108 TTATGTCTCT
8140118 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
1 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
* * *
8140156 GCTTCGGTCTTTGCAGATCTTATTAAGGCTCTGTCGTC
1 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
*
8140194 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTT---GCA
1 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
*
8140229 G--TCTGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
1 GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
8140265 GCTTCGGT
1 GCTTCGGT
8140273 AATTCTCTTG
Statistics
Matches: 103, Mismatches: 9, Indels: 10
0.84 0.07 0.08
Matches are distributed among these distances:
33 28 0.27
35 2 0.02
36 3 0.03
38 70 0.68
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.39
Consensus pattern (38 bp):
GCTTCGGTCTTTGCAGATCTTATTAAGGCTTTGCCGCC
Found at i:8140227 original size:20 final size:20
Alignment explanation
Indices: 8140202--8140260 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
8140192 TCGCTTCGGT
8140202 CTTTGCAGATCTTATTAAGG
1 CTTTGCAGATCTTATTAAGG
*
8140222 CTTTGCAG-TC----T--GT
1 CTTTGCAGATCTTATTAAGG
8140235 CTTTGCAGATCTTATTAAGG
1 CTTTGCAGATCTTATTAAGG
8140255 CTTTGC
1 CTTTGC
8140261 CGCCGCTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
15 1 0.03
18 1 0.03
19 2 0.07
20 15 0.50
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (20 bp):
CTTTGCAGATCTTATTAAGG
Found at i:8140608 original size:116 final size:116
Alignment explanation
Indices: 8140404--8140635 Score: 421
Period size: 116 Copynumber: 2.0 Consensus size: 116
8140394 GGTCATTCAG
8140404 ATATTATTTTTTAAAATTATCATTAAACTTGTAGACACACGATTTCGTCCTTTCTTATAACTATA
1 ATATTATTTTTTAAAATTATCATTAAACTTGTAGACACACGATTTCGTCCTTTCTTATAACTATA
* *
8140469 TATTATACAGTATGATATATTACGCGTATATTGTATAATATA-TATATACAT
66 TATTATACAGTATGACATATTACGCGTATA-TATATAATATATTATATACAT
8140520 ATATTATTTTTTAAAATTATCATTAAACTTGTAGACACACGATTTCGTCCTTTCTTATAACTATA
1 ATATTATTTTTTAAAATTATCATTAAACTTGTAGACACACGATTTCGTCCTTTCTTATAACTATA
*
8140585 TATTATACAGTATGACATATTACGCGTATATATATTATATATTATATACAT
66 TATTATACAGTATGACATATTACGCGTATATATATAATATATTATATACAT
8140636 TTTTTGTTTT
Statistics
Matches: 112, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
115 9 0.08
116 103 0.92
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (116 bp):
ATATTATTTTTTAAAATTATCATTAAACTTGTAGACACACGATTTCGTCCTTTCTTATAACTATA
TATTATACAGTATGACATATTACGCGTATATATATAATATATTATATACAT
Found at i:8147347 original size:37 final size:37
Alignment explanation
Indices: 8147304--8147449 Score: 195
Period size: 37 Copynumber: 4.0 Consensus size: 37
8147294 CCTTGAAATG
* * *
8147304 AATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
* * **
8147341 AATTTTGTCTCCCTAGATACAGTTTCTCTTGAAA-TG
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
* * *
8147377 AATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
8147414 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
8147450 TAAACATTGA
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
36 29 0.32
37 62 0.68
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
Found at i:8147414 original size:73 final size:73
Alignment explanation
Indices: 8147290--8147447 Score: 280
Period size: 73 Copynumber: 2.2 Consensus size: 73
8147280 ATTGAAAACA
*
8147290 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATTTTGTCTCCCT
1 TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATTTTGTCTCCCT
*
8147355 AGATACAG
66 AGAGACAG
*
8147363 TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATTTTGTCTCCCT
*
8147428 TGAGACAG
66 AGAGACAG
8147436 TTTCTCTTGAAA
1 TTTCTCTTGAAA
8147448 CATAAACATT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (73 bp):
TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATTTTGTCTCCCT
AGAGACAG
Found at i:8147541 original size:204 final size:198
Alignment explanation
Indices: 8147290--8148171 Score: 522
Period size: 204 Copynumber: 4.3 Consensus size: 198
8147280 ATTGAAAACA
** * *
8147290 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCACTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTG-------
* *
8147355 AGATACAGTTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTT
59 A-AAACA-TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC-AAATTTT
8147420 GTCTCCCTTGAGACAG-TTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA-T-
121 GTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTC
8147482 T-T-TTGAGATAG
186 TCTCTTGAGATAG
* **
8147493 TTTCCCTTGAAACAAAATTTTGTCTCACTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA-AAATTTTGAAAAC
* * * *
8147558 ATTTCCCTTGAAATGAGTTTTGTCTCTATTGAGATAGTTTCCCTTGAGAC--A-GTT-TCT--CT
64 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCT
* *** * *** * ** * *
8147617 TGAAAC-GTGAGC-ATTGAAAACATTTCCCTTGAAATGA-AT---TT----TG---TCTCTCTGG
129 TGAGACAGTTTTCTCTTG-AAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCTCTCTTG
*
8147669 AGACAG
193 AGATAG
* * * *
8147675 TTTCCCTTGAAACAAA----ATCT-T-TT-A-ATCTGTTT-TCCTTTAAACAAATTTCGTCTCTC
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCT-CTTGAAACAAA----AT-T-T-
* * * * * **
8147731 TCG-AGACAGTTTCTCTT-AAA-AAATTTTGTCTCCCTTGAGATGGTTTCTTTTGAAACACAAAA
57 T-GAAAACA-TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTG-AA-AC-AAA
8147793 TCTTTGAATTTACTTCCCTTGAAACAAATTGTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATA
117 T-TTTG----T-C-T-CC------C----T-TG---------AGACAGTTTTCTCTTGAAACATA
8147858 AACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
154 AACATTGAAAACATTTCCCTTGAAATGAA---T-TCTCTCTTGAGATAG
* **
8147907 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACA-AAATTTTGAAAAC
*
8147972 ATTTCCCTTGAAATGAATTTTGTCTCACTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCT
64 ATTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCT
*
8148037 TGAGACAGTTTTCTCTTGAAACATAAACATTGAAAATATTTCCCTTGAAATGAATTTTGTCTCTC
129 TGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA---T-TCTCTC
8148102 TTGAGATAG
190 TTGAGATAG
*
8148111 TTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAA
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAT-TTTGAA
8148172 TATGTTTTAC
Statistics
Matches: 514, Mismatches: 78, Indels: 174
0.67 0.10 0.23
Matches are distributed among these distances:
173 4 0.01
174 14 0.03
175 2 0.00
177 3 0.01
179 27 0.05
180 10 0.02
181 16 0.03
182 20 0.04
184 1 0.00
185 2 0.00
186 2 0.00
188 5 0.01
189 22 0.04
191 4 0.01
192 3 0.01
193 2 0.00
196 45 0.09
197 4 0.01
198 1 0.00
202 4 0.01
203 31 0.06
204 138 0.27
205 6 0.01
206 1 0.00
207 2 0.00
213 2 0.00
214 1 0.00
216 3 0.01
217 17 0.03
218 5 0.01
221 2 0.00
224 2 0.00
225 3 0.01
226 1 0.00
227 1 0.00
231 4 0.01
232 33 0.06
233 10 0.02
234 10 0.02
235 28 0.05
236 3 0.01
238 2 0.00
239 3 0.01
240 12 0.02
241 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (198 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATTTTGAAAACAT
TTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCCCTTG
AGACAGTTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTCTCTCTTGAGA
TAG
Found at i:8147605 original size:80 final size:80
Alignment explanation
Indices: 8147520--8147684 Score: 267
Period size: 80 Copynumber: 2.1 Consensus size: 80
8147510 TTTTGTCTCA
*
8147520 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTCTCT
1 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCT
* *
8147585 ATTGAGATAGTTTCC
66 ATGGAGACAGTTTCC
* * *
8147600 CTTGAGACAGTTTCTCTTGAAACGTGAGCATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCT
1 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCT
*
8147665 CTGGAGACAGTTTCC
66 ATGGAGACAGTTTCC
8147680 CTTGA
1 CTTGA
8147685 AACAAAATCT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (80 bp):
CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTGTCTCT
ATGGAGACAGTTTCC
Found at i:8147606 original size:15 final size:15
Alignment explanation
Indices: 8147586--8147619 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8147576 TTTGTCTCTA
*
8147586 TTGAGATAGTTTCCC
1 TTGAGACAGTTTCCC
*
8147601 TTGAGACAGTTTCTC
1 TTGAGACAGTTTCCC
8147616 TTGA
1 TTGA
8147620 AACGTGAGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (15 bp):
TTGAGACAGTTTCCC
Found at i:8147894 original size:66 final size:66
Alignment explanation
Indices: 8147751--8147920 Score: 173
Period size: 66 Copynumber: 2.5 Consensus size: 66
8147741 TTCTCTTAAA
* * * ***
8147751 AAATTTTGTCTCCCTTGAGATGGTTTCTTTTGAAACACAAAATCTTTGAATTTACTTCCCTTGAA
1 AAATTTTGTCTCCCTTGAGA-AGTTTCTCTTGAAACACAAAATCATTGAAAACACTTCCCTTGAA
8147816 AC
65 AC
* * *
8147818 AAATTGTGTCTCCCTTGAGACAGTTTTCTCTTGAAACA-TAAA-CATTGAAAACATTTCCCTTGA
1 AAATTTTGTCTCCCTTGAGA-AG-TTTCTCTTGAAACACAAAATCATTGAAAACACTTCCCTTGA
*
8147881 AAT
64 AAC
* * *
8147884 GAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
1 AAATTTTGTCTCCCTTGAGA-AGTTTCTCTTGAAACA
8147921 AATTTTGTCT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
65 13 0.15
66 37 0.43
67 23 0.27
68 13 0.15
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (66 bp):
AAATTTTGTCTCCCTTGAGAAGTTTCTCTTGAAACACAAAATCATTGAAAACACTTCCCTTGAAA
C
Found at i:8147918 original size:36 final size:37
Alignment explanation
Indices: 8147871--8147957 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 37
8147861 ATTGAAAACA
** * *
8147871 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG-
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
8147907 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
1 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
*
8147944 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
8147958 TAAACATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 32 0.71
37 13 0.29
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGT
Found at i:8147923 original size:102 final size:102
Alignment explanation
Indices: 8147806--8148160 Score: 658
Period size: 102 Copynumber: 3.5 Consensus size: 102
8147796 TTGAATTTAC
*
8147806 TTCCCTTGAAACAAATTGTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
8147871 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
66 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
8147908 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
1 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
*
8147973 TTTCCCTTGAAATGAATTTTGTCTCACTTGAGATAGT
66 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
*
8148010 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAATA
1 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
8148075 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
66 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
* *
8148112 TTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACA
1 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACA
8148161 AAATCTTTGA
Statistics
Matches: 247, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
101 14 0.06
102 233 0.94
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (102 bp):
TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTTCTCTTGAAACATAAACATTGAAAACA
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGT
Found at i:8148020 original size:36 final size:36
Alignment explanation
Indices: 8147973--8148162 Score: 164
Period size: 36 Copynumber: 5.4 Consensus size: 36
8147963 ATTGAAAACA
**
8147973 TTTCCCTTGAAATGAATTTTGTCTCACTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGATAG
* *
8148009 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGATAG
* * *
8148045 TTTTCTCTTGAAACATAA-------ACA-TTGAAAATA-
1 -TTTCCCTTGAAACA-AATTTTGTCTCACTTG-AGATAG
** *
8148075 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGATAG
* * *
8148111 TTTCCCTTTAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCACTTGAGATAG
*
8148147 TTTCTCTTGAAACAAA
1 TTTCCCTTGAAACAAA
8148163 ATCTTTGAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
28 2 0.02
29 11 0.09
30 3 0.02
31 4 0.03
35 5 0.04
36 81 0.67
37 13 0.11
38 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCACTTGAGATAG
Found at i:8148362 original size:29 final size:29
Alignment explanation
Indices: 8148293--8148387 Score: 102
Period size: 34 Copynumber: 3.1 Consensus size: 29
8148283 TGGAACACAC
*
8148293 AAAAAAAACCTCTGAAATTGTTTCTCTTG
1 AAAAAAAACCTTTGAAATTGTTTCTCTTG
**
8148322 AAAGATAAAAAAGGTCTTGAAATTGTTTCTCTTG
1 --A-A-AAAAAACCT-TTGAAATTGTTTCTCTTG
*
8148356 AAAAAAAACCTTTGAAAATGTTTCTCTT-
1 AAAAAAAACCTTTGAAATTGTTTCTCTTG
8148384 AAAA
1 AAAA
8148388 CACCAAACCT
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
28 4 0.07
29 16 0.29
30 7 0.13
31 2 0.04
32 2 0.04
33 7 0.13
34 17 0.31
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.34
Consensus pattern (29 bp):
AAAAAAAACCTTTGAAATTGTTTCTCTTG
Found at i:8148991 original size:2 final size:2
Alignment explanation
Indices: 8148980--8149036 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
8148970 GTGTATATTG
8148980 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8149021 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
8149037 CACGTTTCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8150397 original size:42 final size:42
Alignment explanation
Indices: 8150338--8150426 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
8150328 ACTCCCGAAC
8150338 CCGACACGTTTCTGGAACAACGCAGATCAGATAAGATGGTGT
1 CCGACACGTTTCTGGAACAACGCAGATCAGATAAGATGGTGT
8150380 CCGACACGTTTCTGGAACAACGCAGATCAGATAAGATGGTGT
1 CCGACACGTTTCTGGAACAACGCAGATCAGATAAGATGGTGT
*
8150422 TCGAC
1 CCGAC
8150427 CCAGCTAAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.21
Consensus pattern (42 bp):
CCGACACGTTTCTGGAACAACGCAGATCAGATAAGATGGTGT
Found at i:8154399 original size:24 final size:24
Alignment explanation
Indices: 8154367--8154454 Score: 97
Period size: 24 Copynumber: 3.7 Consensus size: 24
8154357 GATATCAGAA
*
8154367 ATCAAAACAGAATTCAGATAAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* * * *
8154391 ATCAGAACAGAATCCGGATCAGAA
1 ATCAGAACAGAATTCAGATAAGAT
* *
8154415 ATCAGAACAAAATTCAGGTAATG-T
1 ATCAGAACAGAATTCAGATAA-GAT
8154439 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
8154455 AGTCAGAAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAAGAT
Found at i:8154431 original size:48 final size:48
Alignment explanation
Indices: 8154360--8154451 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
8154350 AAACGTAGAT
*
8154360 ATCAGAAATCAAAACAGAATTCAGATAA-GATATCAGAACAGAATCCGG
1 ATCAGAAATCAAAACAAAATTCAGATAATG-TATCAGAACAGAATCCGG
* *
8154408 ATCAGAAATCAGAACAAAATTCAGGTAATGTATCAGAACAGAAT
1 ATCAGAAATCAAAACAAAATTCAGATAATGTATCAGAACAGAAT
8154452 TCAAGTCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.18
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGATAATGTATCAGAACAGAATCCGG
Found at i:8154461 original size:48 final size:48
Alignment explanation
Indices: 8154360--8154464 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 48
8154350 AAACGTAGAT
* **
8154360 ATCAGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCCGG
1 ATCAGAAATCAAAACAAAATTCAGATAAGATATCAGAACAGAATCAAG
* *
8154408 ATCAGAAATCAGAACAAAATTCAGGTAATG-TATCAGAACAGAATTCAAG
1 ATCAGAAATCAAAACAAAATTCAGATAA-GATATCAGAACAGAA-TCAAG
8154457 -TCAGAAAT
1 ATCAGAAAT
8154465 TAGATAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 46 0.92
49 4 0.08
ACGTcount: A:0.50, C:0.15, G:0.16, T:0.19
Consensus pattern (48 bp):
ATCAGAAATCAAAACAAAATTCAGATAAGATATCAGAACAGAATCAAG
Found at i:8159002 original size:24 final size:24
Alignment explanation
Indices: 8158952--8159015 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
8158942 AAACGGAGAT
**
8158952 ATCATAAATCAAAACAGAATTTAG
1 ATCATAAATCAAAACAGAATCCAG
* * *
8158976 ATCATATATCATAACAGAATCCGG
1 ATCATAAATCAAAACAGAATCCAG
* *
8159000 ATCAAAAATCAGAACA
1 ATCATAAATCAAAACA
8159016 TAATTCTGGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (24 bp):
ATCATAAATCAAAACAGAATCCAG
Found at i:8168725 original size:21 final size:21
Alignment explanation
Indices: 8168701--8168773 Score: 128
Period size: 21 Copynumber: 3.5 Consensus size: 21
8168691 TGTTGAACAT
8168701 TATCGATACTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
8168722 TATCGATACTGATGCAATTAG
1 TATCGATACTGATGCAATTAG
* *
8168743 TATCAATACTAATGCAATTAG
1 TATCGATACTGATGCAATTAG
8168764 TATCGATACT
1 TATCGATACT
8168774 AATGTGGGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
TATCGATACTGATGCAATTAG
Found at i:8171218 original size:2 final size:2
Alignment explanation
Indices: 8171211--8171282 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
8171201 TTTTAGTCTA
8171211 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
8171253 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
8171283 GGGGTATGAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8171967 original size:3 final size:3
Alignment explanation
Indices: 8171959--8171984 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8171949 ACTTTTATGC
8171959 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
8171985 ATTGTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8174982 original size:54 final size:54
Alignment explanation
Indices: 8174918--8175096 Score: 169
Period size: 54 Copynumber: 3.1 Consensus size: 54
8174908 TTGGTGCTAT
* **
8174918 GTTGCTTCGAGTCTAGAAGAAGTTATCATGAATTCGGTTTTACGGGGTGTACCA
1 GTTGCTTCGAGTCTAGAAGAAGTTAACATGAATTCGGTTTTATAGGGTGTACCA
* *
8174972 GTTGCTTCGAGTCTAGATCTTACCTCTAGAAGTTAACTTGAATTCGGTTTTATAGGGTATACCA
1 GTTGCTTCGAGTCTAG-----A-----AGAAGTTAACATGAATTCGGTTTTATAGGGTGTACCA
* * * * * *
8175036 GTTGTTTCTAGTGTAGACGAAGTTAACCTGAATTTGGTTTTATAGGGTGTACCA
1 GTTGCTTCGAGTCTAGAAGAAGTTAACATGAATTCGGTTTTATAGGGTGTACCA
8175090 GTTGCTT
1 GTTGCTT
8175097 GGTGAATCGG
Statistics
Matches: 102, Mismatches: 13, Indels: 20
0.76 0.10 0.15
Matches are distributed among these distances:
54 55 0.54
59 2 0.02
64 45 0.44
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (54 bp):
GTTGCTTCGAGTCTAGAAGAAGTTAACATGAATTCGGTTTTATAGGGTGTACCA
Found at i:8178355 original size:7 final size:7
Alignment explanation
Indices: 8178343--8178372 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
8178333 GTTTTGGATT
8178343 GGAAATG
1 GGAAATG
8178350 GGAAATG
1 GGAAATG
8178357 GGAAATG
1 GGAAATG
8178364 GGAAATG
1 GGAAATG
8178371 GG
1 GG
8178373 CGAAATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.47, T:0.13
Consensus pattern (7 bp):
GGAAATG
Found at i:8178821 original size:18 final size:17
Alignment explanation
Indices: 8178793--8178857 Score: 67
Period size: 18 Copynumber: 3.5 Consensus size: 17
8178783 TAAATTTTAA
8178793 AAAAGAAAAATATAAAAT
1 AAAA-AAAAATATAAAAT
*
8178811 ATAAAAAAAATATAAAAAG
1 A-AAAAAAAATAT-AAAAT
*
8178830 AAAAAATAAAAATAAAAT
1 AAAAAA-AAATATAAAAT
8178848 AAAATAAAAA
1 AAAA-AAAAA
8178858 AGAAGTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 25 0.62
19 15 0.38
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AAAAAAAAATATAAAAT
Found at i:8178822 original size:11 final size:10
Alignment explanation
Indices: 8178806--8178900 Score: 57
Period size: 11 Copynumber: 8.8 Consensus size: 10
8178796 AGAAAAATAT
*
8178806 AAAATATAAA
1 AAAAAATAAA
8178816 AAAAATATAAA
1 AAAAA-ATAAA
*
8178827 AAGAAA-AAA
1 AAAAAATAAA
*
8178836 TAAAAATAAA
1 AAAAAATAAA
*
8178846 ATAAAATAAA
1 AAAAAATAAA
*
8178856 AAAGAAGTCAAAA
1 AAA-AAAT--AAA
8178869 AATAAAGATAAA
1 AA-AAA-ATAAA
*
8178881 ATAAAATTAAA
1 A-AAAAATAAA
8178892 AAAGAAATA
1 AAA-AAATA
8178901 TTAAATTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
9 7 0.11
10 20 0.31
11 21 0.32
12 7 0.11
13 8 0.12
14 2 0.03
ACGTcount: A:0.78, C:0.01, G:0.05, T:0.16
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:8178869 original size:35 final size:33
Alignment explanation
Indices: 8178791--8178897 Score: 123
Period size: 35 Copynumber: 3.2 Consensus size: 33
8178781 ATTAAATTTT
8178791 AAAA-AAGAAAAATATAAAATATAAAA-AAAAT-A
1 AAAAGAAGAAAAA-ATAAAA-ATAAAATAAAATAA
*
8178823 TAAA-AAGAAAAAATAAAAATAAAATAAAATAA
1 AAAAGAAGAAAAAATAAAAATAAAATAAAATAA
*
8178855 AAAAGAAGTCAAAAAATAAAGATAAAATAAAATTAA
1 AAAAGAAG--AAAAAATAAAAATAAAATAAAA-TAA
8178891 AAAAGAA
1 AAAAGAA
8178898 ATATTAAATT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
30 6 0.09
31 11 0.17
32 15 0.23
33 3 0.05
35 21 0.32
36 10 0.15
ACGTcount: A:0.79, C:0.01, G:0.06, T:0.15
Consensus pattern (33 bp):
AAAAGAAGAAAAAATAAAAATAAAATAAAATAA
Found at i:8178881 original size:13 final size:12
Alignment explanation
Indices: 8178750--8178894 Score: 61
Period size: 12 Copynumber: 12.0 Consensus size: 12
8178740 TAAAACATGT
*
8178750 TAAAAGAAAAAA
1 TAAAATAAAAAA
*
8178762 TAAAATAAATAA
1 TAAAATAAAAAA
**
8178774 TAAAAGTATTAAATTT
1 TAAAA-TA--AAA-AA
*
8178790 TAAAA-AAGAAA
1 TAAAATAAAAAA
* *
8178801 -AATATAAAATA
1 TAAAATAAAAAA
*
8178812 TAAAA-AAAATA
1 TAAAATAAAAAA
*
8178823 TAAAAAGAAAAAA
1 T-AAAATAAAAAA
*
8178836 TAAAA-ATAAAA
1 TAAAATAAAAAA
8178847 TAAAATAAAAAA
1 TAAAATAAAAAA
* *
8178859 -GAAGTCAAAAAA
1 TAAAAT-AAAAAA
8178871 TAAAGAT--AAAA
1 TAAA-ATAAAAAA
8178882 TAAAATTAAAAAA
1 TAAAA-TAAAAAA
8178895 GAAATATTAA
Statistics
Matches: 99, Mismatches: 19, Indels: 29
0.67 0.13 0.20
Matches are distributed among these distances:
10 4 0.04
11 33 0.33
12 39 0.39
13 14 0.14
14 2 0.02
15 2 0.02
16 5 0.05
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:8178984 original size:24 final size:24
Alignment explanation
Indices: 8178799--8178985 Score: 61
Period size: 23 Copynumber: 7.9 Consensus size: 24
8178789 TTAAAAAAGA
* *
8178799 AAAATATAAAAT-ATAAAAAAAATAT
1 AAAAGATAAAATAAT-AAATAAA-AT
*
8178824 AAAAAGAAAAAATAA-AAATAAAAT
1 -AAAAGATAAAATAATAAATAAAAT
* * * *
8178848 AAAATAAAAAAGAAGTCAA-AAAAT
1 AAAAGATAAAATAA-TAAATAAAAT
* *
8178872 -AAAGATAAAATAA-AATTAAAAA
1 AAAAGATAAAATAATAAATAAAAT
* * ** *
8178894 AGAAATATTAAATTTTAAAGAAAAT
1 A-AAAGATAAAATAATAAATAAAAT
* * **
8178919 ACAAGA-AAAGA-AAAAAATTAAGGT
1 AAAAGATAAA-ATAATAAA-TAAAAT
*
8178943 -AAA-ATAAAAT-GTATAATAAAAT
1 AAAAGATAAAATAATA-AATAAAAT
8178965 AAAAGATAAAATAATAAATAA
1 AAAAGATAAAATAATAAATAA
8178986 TAGTACTAAA
Statistics
Matches: 112, Mismatches: 34, Indels: 32
0.63 0.19 0.18
Matches are distributed among these distances:
21 1 0.01
22 11 0.10
23 37 0.33
24 35 0.31
25 17 0.15
26 10 0.09
27 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (24 bp):
AAAAGATAAAATAATAAATAAAAT
Found at i:8179050 original size:19 final size:18
Alignment explanation
Indices: 8179025--8179068 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
8179015 ATTATTTTTA
*
8179025 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
8179043 ACAATAAAAGAAAATAATT
1 A-AATAAAAGAAAAGAATT
8179062 AAATAAA
1 AAATAAA
8179069 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:8180623 original size:32 final size:32
Alignment explanation
Indices: 8180587--8180666 Score: 151
Period size: 32 Copynumber: 2.5 Consensus size: 32
8180577 ATTAATATAT
*
8180587 TTCGCTGTGAAGTTGAAATTGTTAATGGCTCA
1 TTCGCTGTGAAGTTGAAATTGTGAATGGCTCA
8180619 TTCGCTGTGAAGTTGAAATTGTGAATGGCTCA
1 TTCGCTGTGAAGTTGAAATTGTGAATGGCTCA
8180651 TTCGCTGTGAAGTTGA
1 TTCGCTGTGAAGTTGA
8180667 GCTTTGAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (32 bp):
TTCGCTGTGAAGTTGAAATTGTGAATGGCTCA
Found at i:8198950 original size:21 final size:20
Alignment explanation
Indices: 8198925--8198963 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
8198915 CATCAAGGTT
8198925 TTTGTTGAGGCCATGAAATCG
1 TTTGTTGAGGCCAT-AAATCG
8198946 TTTGTTGAGGCCATAAAT
1 TTTGTTGAGGCCATAAAT
8198964 TCCTGCAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (20 bp):
TTTGTTGAGGCCATAAATCG
Found at i:8202331 original size:21 final size:21
Alignment explanation
Indices: 8202307--8202369 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
8202297 AGTCGAGGGT
*
8202307 TATATGAGGTCCTTCGGGATA
1 TATATGAGGTCCTTCGGGACA
*
8202328 TATATGAGGTTCTTCGGGACA
1 TATATGAGGTCCTTCGGGACA
*
8202349 TACATGAGGTCCTTCGGGACA
1 TATATGAGGTCCTTCGGGACA
8202370 AATTTTATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (21 bp):
TATATGAGGTCCTTCGGGACA
Found at i:8205124 original size:50 final size:50
Alignment explanation
Indices: 8205009--8205124 Score: 116
Period size: 50 Copynumber: 2.3 Consensus size: 50
8204999 ATTAAATCTA
* *
8205009 AAAAAATAAATCAAAA--AAGAAAATATTAAACTTTAAAAAATGTTAAAAG
1 AAAAAATAAA-AAAAATGAAGAAAATATTAAACTTTAAAAAATGTAAAAAG
* * *
8205058 AAAAAATAAAATAAATGAAGAAAATATTAAA-TTTCAGAAAA-G-AAAAAT
1 AAAAAATAAAAAAAATGAAGAAAATATTAAACTTT-AAAAAATGTAAAAAG
8205106 AATAAAATATAAAAAAATG
1 AA-AAAATA-AAAAAAATG
8205125 TTACAAAAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
48 9 0.16
49 20 0.36
50 27 0.48
ACGTcount: A:0.69, C:0.03, G:0.07, T:0.22
Consensus pattern (50 bp):
AAAAAATAAAAAAAATGAAGAAAATATTAAACTTTAAAAAATGTAAAAAG
Found at i:8205187 original size:34 final size:33
Alignment explanation
Indices: 8205141--8205204 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
8205131 AAGAAAAAGA
*
8205141 AAAAGAAAATAAAATAAA-ATAAAAAGAAGTGAG
1 AAAAGAAAATAAAA-AAATAAAAAAAGAAGTGAG
*
8205174 AAAATAAAGATAAAAAAATAAAAAAAGAAGT
1 AAAAGAAA-ATAAAAAAATAAAAAAAGAAGT
8205205 TTTAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (33 bp):
AAAAGAAAATAAAAAAATAAAAAAAGAAGTGAG
Found at i:8205253 original size:29 final size:28
Alignment explanation
Indices: 8205215--8205283 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
8205205 TTTAAATTTT
*
8205215 AAAG-AAAATACAAGGAAAGAAAAAAATA
1 AAAGTAAAATAAAAGG-AAGAAAAAAATA
* * *
8205243 AAAGTAAAATAAAAGGTATAATAAAATA
1 AAAGTAAAATAAAAGGAAGAAAAAAATA
8205271 AAAGATAAAATAA
1 AAAG-TAAAATAA
8205284 TAAAATAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.49
29 18 0.51
ACGTcount: A:0.72, C:0.01, G:0.12, T:0.14
Consensus pattern (28 bp):
AAAGTAAAATAAAAGGAAGAAAAAAATA
Found at i:8205291 original size:28 final size:27
Alignment explanation
Indices: 8205237--8205303 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
8205227 AGGAAAGAAA
*
8205237 AAAATAAAAGTAAAATAAAAGGTATAAT
1 AAAATAAAAGTAAAATAAAA-GAATAAT
8205265 AAAATAAAAGATAAAATAATAA-AATAAT
1 AAAATAAAAG-TAAAATAA-AAGAATAAT
*
8205293 -AAATAATAGTA
1 AAAATAAAAGTA
8205304 TTAAAGATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.06
27 8 0.23
28 15 0.43
29 8 0.23
30 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (27 bp):
AAAATAAAAGTAAAATAAAAGAATAAT
Found at i:8206276 original size:2 final size:2
Alignment explanation
Indices: 8206269--8206309 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
8206259 TCATCTAAAC
8206269 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
8206310 GTGGCTTGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8210227 original size:36 final size:37
Alignment explanation
Indices: 8210180--8210256 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
8210170 TGAAATCAGG
*
8210180 GCAATTACAATTCAG-AAACTGATACAGAGAGCAGAA
1 GCAATTACAATTAAGAAAACTGATACAGAGAGCAGAA
* * * *
8210216 GCAATTTCAATTAAGAAAATTGATACAGGGAGTAGAA
1 GCAATTACAATTAAGAAAACTGATACAGAGAGCAGAA
8210253 GCAA
1 GCAA
8210257 CTGCAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
GCAATTACAATTAAGAAAACTGATACAGAGAGCAGAA
Found at i:8211822 original size:24 final size:24
Alignment explanation
Indices: 8211794--8211841 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8211784 ACATCGTACA
8211794 ATGAGCTACCACATTTGTTACAAG
1 ATGAGCTACCACATTTGTTACAAG
*
8211818 ATGAGCTACTACATTTGTTACAAG
1 ATGAGCTACCACATTTGTTACAAG
8211842 CAATGAAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (24 bp):
ATGAGCTACCACATTTGTTACAAG
Found at i:8213345 original size:34 final size:36
Alignment explanation
Indices: 8213307--8213375 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
8213297 TAATTTTTTT
8213307 ATAATAATTAAC-TTGA-TTTTATAATAATTTATGC
1 ATAATAATTAACTTTGATTTTTATAATAATTTATGC
* *
8213341 ATAATAATTAACTTTTATTTTTTTAATAATTTATG
1 ATAATAATTAACTTTGATTTTTATAATAATTTATG
8213376 TAATTTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 12 0.39
35 3 0.10
36 16 0.52
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (36 bp):
ATAATAATTAACTTTGATTTTTATAATAATTTATGC
Found at i:8213399 original size:20 final size:20
Alignment explanation
Indices: 8213303--8213400 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 20
8213293 TATTTAATTT
*
8213303 TTTTATAATAATTAACTTGA
1 TTTTATAATAATTAACTTAA
8213323 TTTTATAATAA-T---TT-A
1 TTTTATAATAATTAACTTAA
** *
8213338 -TGCATAATAATTAACTTTTAT
1 TTTTATAATAATTAAC--TTAA
* *
8213359 TTTTTTAATAATTTA-TGTAA
1 TTTTATAATAATTAACT-TAA
8213379 TTTTATAATAATTAACTTAA
1 TTTTATAATAATTAACTTAA
8213399 TT
1 TT
8213401 AACTTGATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 20
0.66 0.11 0.23
Matches are distributed among these distances:
14 8 0.14
15 2 0.03
16 2 0.03
19 2 0.03
20 33 0.57
21 1 0.02
22 10 0.17
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTTATAATAATTAACTTAA
Found at i:8213459 original size:46 final size:45
Alignment explanation
Indices: 8213322--8213456 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 45
8213312 AATTAACTTG
8213322 ATTTTATAATAATTTATGCATAATAATTAACTTTTATTTTTTTAAT
1 ATTTTATAATAATTTATGCATAATAATTAAC-TTTATTTTTTTAAT
* * * *** *
8213368 AATTTAT-GTAATTT-T--ATAATAATTAACTTAATTAACTT--G
1 ATTTTATAATAATTTATGCATAATAATTAACTTTATTTTTTTAAT
*
8213407 ATTTTATAATAATTTATGCAAAATAATTAACTTTATTTTTTTAAT
1 ATTTTATAATAATTTATGCATAATAATTAACTTTATTTTTTTAAT
8213452 ATTTT
1 ATTTT
8213457 TATCTTAAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 13
0.71 0.16 0.14
Matches are distributed among these distances:
39 6 0.09
40 6 0.09
41 8 0.12
42 12 0.18
43 18 0.26
44 1 0.01
45 11 0.16
46 6 0.09
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (45 bp):
ATTTTATAATAATTTATGCATAATAATTAACTTTATTTTTTTAAT
Found at i:8214686 original size:13 final size:13
Alignment explanation
Indices: 8214670--8214695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8214660 AAAATTATAA
8214670 ATAAAAAATAAAT
1 ATAAAAAATAAAT
8214683 ATAAAAAATAAAT
1 ATAAAAAATAAAT
8214696 GAAGTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
ATAAAAAATAAAT
Found at i:8214722 original size:19 final size:18
Alignment explanation
Indices: 8214667--8214731 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
8214657 TATAAAATTA
8214667 TAAATAAA-AAA-TAAAT
1 TAAATAAATAAATTAAAT
* *
8214683 ATAAA-AAATAAATGAAGT
1 -TAAATAAATAAATTAAAT
8214701 TAAATAAATTAAATTAAAT
1 TAAATAAA-TAAATTAAAT
8214720 TAAATAATATAA
1 TAAATAA-ATAA
8214732 TTATTATATT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 3 0.08
17 11 0.28
18 6 0.15
19 18 0.46
20 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAATAAATAAATTAAAT
Found at i:8214737 original size:26 final size:26
Alignment explanation
Indices: 8214708--8214757 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
8214698 AGTTAAATAA
8214708 ATTAAATTAAATTAAATAATATAATT
1 ATTAAATTAAATTAAATAATATAATT
* * * *
8214734 ATTATATTATATTACATATTATAA
1 ATTAAATTAAATTAAATAATATAA
8214758 AATATACCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAAATTAAATTAAATAATATAATT
Found at i:8215608 original size:21 final size:20
Alignment explanation
Indices: 8215564--8215608 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
8215554 ATTAATATTT
*
8215564 ATAATATTTAATAAAAAATT
1 ATAATATTTAATAAAAAATA
* *
8215584 ATAATATTTTATTAAATAATA
1 ATAATA-TTTAATAAAAAATA
8215605 ATAA
1 ATAA
8215609 CATCATCGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATATTTAATAAAAAATA
Found at i:8215922 original size:17 final size:18
Alignment explanation
Indices: 8215890--8215928 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
8215880 GAATTCAATT
*
8215890 TAAAGATTACATTTAATA
1 TAAACATTACATTTAATA
*
8215908 TAAACATTA-ATTTAATC
1 TAAACATTACATTTAATA
8215925 TAAA
1 TAAA
8215929 AATAATATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAACATTACATTTAATA
Found at i:8216346 original size:2 final size:2
Alignment explanation
Indices: 8216339--8216385 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8216329 CCTACACCTC
8216339 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
8216381 AT AT A
1 AT AT A
8216386 ATAATTTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8219822 original size:19 final size:19
Alignment explanation
Indices: 8219800--8219839 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
8219790 TTTTTTTCAT
*
8219800 ATCTCATTTACTTTTCTAC
1 ATCTCATTTACTTTTCCAC
8219819 ATCTCATTTACTTTTCCAC
1 ATCTCATTTACTTTTCCAC
8219838 AT
1 AT
8219840 AATTTTCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (19 bp):
ATCTCATTTACTTTTCCAC
Found at i:8230931 original size:20 final size:19
Alignment explanation
Indices: 8230902--8230952 Score: 79
Period size: 18 Copynumber: 2.7 Consensus size: 19
8230892 CTTCTTCTTC
8230902 TTCT-TCTTTCTCTTTTTTT
1 TTCTCTCTTTCTC-TTTTTT
8230921 TTCTCTCTTTCTC-TTTTT
1 TTCTCTCTTTCTCTTTTTT
8230939 TTCTCTCTTTCTCT
1 TTCTCTCTTTCTCT
8230953 CTCTTCAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 18 0.60
19 4 0.13
20 8 0.27
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTCTCTCTTTCTCTTTTTT
Found at i:8233711 original size:38 final size:38
Alignment explanation
Indices: 8233669--8233761 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 38
8233659 TACTTCATGT
8233669 ATAGGGGAAAACTTTACAGTCTT-CTCCTTGCTTCGTGC
1 ATAGGGGAAAACTTTACAGT-TTGCTCCTTGCTTCGTGC
** *
8233707 ATAGGGGAAAACTTTATTGTTTGTTCCTTGCTTCGTGC
1 ATAGGGGAAAACTTTACAGTTTGCTCCTTGCTTCGTGC
*
8233745 ATAGGGGAAAACGTTAC
1 ATAGGGGAAAACTTTAC
8233762 CGTATGGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
37 2 0.04
38 47 0.96
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (38 bp):
ATAGGGGAAAACTTTACAGTTTGCTCCTTGCTTCGTGC
Found at i:8233788 original size:39 final size:38
Alignment explanation
Indices: 8233695--8233793 Score: 117
Period size: 38 Copynumber: 2.6 Consensus size: 38
8233685 CAGTCTTCTC
* ** * *
8233695 CTTGCTTCGTGCATAGGGGAAAACTTTATTGTTTGTTC
1 CTTGCTTCGTGCATAGGGGAAAACGTTACCGTTGGTTA
8233733 CTTGCTTCGTGCATAGGGGAAAACGTTACCGTATGGTTA
1 CTTGCTTCGTGCATAGGGGAAAACGTTACCGT-TGGTTA
* * *
8233772 TTTGCTTTGTGCATAGGAGAAA
1 CTTGCTTCGTGCATAGGGGAAA
8233794 TCTATCTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
38 29 0.56
39 23 0.44
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.36
Consensus pattern (38 bp):
CTTGCTTCGTGCATAGGGGAAAACGTTACCGTTGGTTA
Found at i:8235202 original size:18 final size:19
Alignment explanation
Indices: 8235132--8235202 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 19
8235122 ATGCCCAACC
8235132 ATATATTATTTTTCAATTAA
1 ATATATTATTTTTCAA-TAA
*
8235152 ATATCCATT-TTTATTGAATAA
1 ATAT--ATTATTT-TTCAATAA
*
8235173 A-AT-TATATTTTTTAATAA
1 ATATAT-TATTTTTCAATAA
8235191 ATATATTATTTT
1 ATATATTATTTT
8235203 GGGTCGAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
17 1 0.02
18 9 0.21
19 11 0.26
20 7 0.17
21 7 0.17
22 7 0.17
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (19 bp):
ATATATTATTTTTCAATAA
Found at i:8235504 original size:22 final size:22
Alignment explanation
Indices: 8235462--8235504 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
8235452 ATTTACACAT
* * *
8235462 TTTAATTTTATTTTTTCTTTAA
1 TTTAATTTAATTTCTTATTTAA
8235484 TTTAATTTAATTTCTTATTTA
1 TTTAATTTAATTTCTTATTTA
8235505 TGTTGTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTAATTTAATTTCTTATTTAA
Found at i:8235783 original size:12 final size:12
Alignment explanation
Indices: 8235753--8235801 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
8235743 ATAATCAATT
*
8235753 ATATTATAATAAT
1 ATATT-TAATAAA
*
8235766 ATATTTATTAAA
1 ATATTTAATAAA
8235778 ATATTTAATAAA
1 ATATTTAATAAA
*
8235790 TTA-TTAATAAA
1 ATATTTAATAAA
8235801 A
1 A
8235802 GTAAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 8 0.26
12 18 0.58
13 5 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATTTAATAAA
Found at i:8235896 original size:24 final size:24
Alignment explanation
Indices: 8235864--8235916 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
8235854 ATAGTCCATT
8235864 AATAT-TTTAATAAAAATAGTTAA
1 AATATATTTAATAAAAATAGTTAA
* * **
8235887 AATATATTTATTAATAATTTTTAA
1 AATATATTTAATAAAAATAGTTAA
8235911 AATATA
1 AATATA
8235917 AATATTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AATATATTTAATAAAAATAGTTAA
Found at i:8235994 original size:30 final size:31
Alignment explanation
Indices: 8235917--8236038 Score: 92
Period size: 30 Copynumber: 4.0 Consensus size: 31
8235907 TTAAAATATA
* *
8235917 AATATTTTAATATTATAA-TAATATTATTTT
1 AATATTTTAATAATATAATTAATAATATTTT
** * *
8235947 AATAAGTTATTAGTATAATTAATAATA-TTT
1 AATATTTTAATAATATAATTAATAATATTTT
* *
8235977 ATTATTTTAATAATATAA-T-ATACTTATTTT
1 AATATTTTAATAATATAATTAATA-ATATTTT
** *
8236007 AATA-AATAATTAATATAATTTATAATATTTT
1 AATATTTTAA-TAATATAATTAATAATATTTT
8236038 A
1 A
8236039 TTTCAATAGA
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
28 3 0.04
29 6 0.08
30 44 0.62
31 15 0.21
32 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.52
Consensus pattern (31 bp):
AATATTTTAATAATATAATTAATAATATTTT
Found at i:8235994 original size:60 final size:60
Alignment explanation
Indices: 8235919--8236036 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
8235909 AAAATATAAA
* * * *
8235919 TATTTTAATATTATAATAATA-TTATTTTAATAAGTTATTAGTATAATTAATAATATTTAT
1 TATTTTAATAATATAAT-ATACTTATTTTAATAAATAATTAATATAATTAATAATATTTAT
*
8235979 TATTTTAATAATATAATATACTTATTTTAATAAATAATTAATATAATTTATAATATTT
1 TATTTTAATAATATAATATACTTATTTTAATAAATAATTAATATAATTAATAATATTT
8236037 TATTTCAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 3 0.06
60 49 0.94
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.53
Consensus pattern (60 bp):
TATTTTAATAATATAATATACTTATTTTAATAAATAATTAATATAATTAATAATATTTAT
Found at i:8236027 original size:22 final size:22
Alignment explanation
Indices: 8235919--8236033 Score: 77
Period size: 22 Copynumber: 5.5 Consensus size: 22
8235909 AAAATATAAA
*
8235919 TATTTTAATATTATAA-TAATAT
1 TATTTTAATA-AATAATTAATAT
* * *
8235941 TATTTTAATAAGTTATTAGTA-
1 TATTTTAATAAATAATTAATAT
*
8235962 TA-ATTAAT-AAT-ATT--TAT
1 TATTTTAATAAATAATTAATAT
8235979 TATTTTAATAATATAA-T-ATACT
1 TATTTTAATAA-ATAATTAATA-T
8236001 TATTTTAATAAATAATTAATAT
1 TATTTTAATAAATAATTAATAT
*
8236023 AATTTATAATA
1 TATTT-TAATA
8236034 TTTTATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 8 0.11
19 3 0.04
20 8 0.11
21 11 0.15
22 32 0.43
23 8 0.11
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (22 bp):
TATTTTAATAAATAATTAATAT
Found at i:8237209 original size:31 final size:31
Alignment explanation
Indices: 8237171--8237242 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
8237161 ATCCAATGCT
8237171 TCAAGCAAAGACGAGTAATGGCGCGAACGAG
1 TCAAGCAAAGACGAGTAATGGCGCGAACGAG
8237202 TCAAGCAAAGACGAGTAATGGCGCGAACGAG
1 TCAAGCAAAGACGAGTAATGGCGCGAACGAG
* *
8237233 TGAAGAAAAG
1 TCAAGCAAAG
8237243 CTAGGGATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.42, C:0.17, G:0.32, T:0.10
Consensus pattern (31 bp):
TCAAGCAAAGACGAGTAATGGCGCGAACGAG
Found at i:8249700 original size:21 final size:20
Alignment explanation
Indices: 8249676--8249715 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
8249666 GAATCAAGGT
*
8249676 TTTTGTTGAAGCCATGAAATC
1 TTTTGTAGAAGCCAT-AAATC
*
8249697 TTTTGTAGAGGCCATAAAT
1 TTTTGTAGAAGCCATAAAT
8249716 TCCTACAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (20 bp):
TTTTGTAGAAGCCATAAATC
Found at i:8255528 original size:17 final size:18
Alignment explanation
Indices: 8255508--8255553 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8255498 CTTGCAAAAA
8255508 TAGAATACTTTAA-AGTT
1 TAGAATACTTTAAGAGTT
*
8255525 TAGAATATTTTTAAGAGTT
1 TAGAATA-CTTTAAGAGTT
*
8255544 TTGAA-ACTTT
1 TAGAATACTTT
8255554 CTTAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 10 0.42
18 6 0.25
19 8 0.33
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (18 bp):
TAGAATACTTTAAGAGTT
Found at i:8259819 original size:23 final size:23
Alignment explanation
Indices: 8259786--8259876 Score: 101
Period size: 23 Copynumber: 4.0 Consensus size: 23
8259776 GACATTATAT
8259786 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* * * * *
8259809 GGTACTGCGGTGTAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
*
8259832 GGCACTACGGTGCATTTCTATGC
1 GGCACTACGGTGCATTTCTACGC
* * *
8259855 GACACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
8259877 AGCTGTGGTA
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.19, C:0.24, G:0.26, T:0.31
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:8266648 original size:21 final size:21
Alignment explanation
Indices: 8266619--8266668 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
8266609 CATAAGTATA
*
8266619 TTCACATTCACTAGTTCAAAG
1 TTCATATTCACTAGTTCAAAG
* *
8266640 TTCATATTCACTTGTTCAAGG
1 TTCATATTCACTAGTTCAAAG
8266661 TTCATATT
1 TTCATATT
8266669 TTCATAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (21 bp):
TTCATATTCACTAGTTCAAAG
Found at i:8266688 original size:13 final size:13
Alignment explanation
Indices: 8266670--8266696 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8266660 GTTCATATTT
8266670 TCATAACACATAG
1 TCATAACACATAG
8266683 TCATAACACATAG
1 TCATAACACATAG
8266696 T
1 T
8266697 TTGTAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (13 bp):
TCATAACACATAG
Found at i:8267156 original size:54 final size:53
Alignment explanation
Indices: 8267052--8267170 Score: 175
Period size: 54 Copynumber: 2.2 Consensus size: 53
8267042 TGCTACCCCC
* * *
8267052 TTCAAGGGAATCGATACCTCCACATGTACCGATACTGAAATTACGTTCGATGT
1 TTCAAGGGTATCGATACCTCCACATGTACCGATACCGAAATTACCTTCGATGT
* *
8267105 TTCAAGGGTATCGATACCTCCTCATGGTATCGATACCGAAATTACCTTCGATGT
1 TTCAAGGGTATCGATACCTCCACAT-GTACCGATACCGAAATTACCTTCGATGT
*
8267159 TTTAAGGGTATC
1 TTCAAGGGTATC
8267171 AACACCATCC
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 23 0.39
54 36 0.61
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (53 bp):
TTCAAGGGTATCGATACCTCCACATGTACCGATACCGAAATTACCTTCGATGT
Found at i:8274017 original size:20 final size:20
Alignment explanation
Indices: 8273974--8274025 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
8273964 ATGTTTTAAG
*
8273974 GGTATCGATACCATCCTTCA
1 GGTATCGATACCATCCCTCA
*
8273994 GGTATCGATACCA-CCCTGA
1 GGTATCGATACCATCCCTCA
*
8274013 TGGTATTGATACC
1 -GGTATCGATACC
8274026 TATATCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (20 bp):
GGTATCGATACCATCCCTCA
Found at i:8277282 original size:24 final size:24
Alignment explanation
Indices: 8277250--8277298 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
8277240 TTGGCACTGC
*
8277250 TCCTAGAAACCACATTCTTTTTCT
1 TCCTAGAAACCACATTATTTTTCT
8277274 TCCTAGAAACCACATTATTTTTCT
1 TCCTAGAAACCACATTATTTTTCT
8277298 T
1 T
8277299 ACTTCTCCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.43
Consensus pattern (24 bp):
TCCTAGAAACCACATTATTTTTCT
Found at i:8278802 original size:18 final size:18
Alignment explanation
Indices: 8278779--8278815 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8278769 TATGTGGTAA
8278779 AGGAGAAAT-AACATGAGT
1 AGGAG-AATGAACATGAGT
8278797 AGGAGAATGAACATGAGT
1 AGGAGAATGAACATGAGT
8278815 A
1 A
8278816 TGTTTAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.49, C:0.05, G:0.30, T:0.16
Consensus pattern (18 bp):
AGGAGAATGAACATGAGT
Found at i:8282087 original size:17 final size:17
Alignment explanation
Indices: 8282067--8282104 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
8282057 ATTTGAATAT
8282067 TTTTGGATATTATTG-CA
1 TTTTGGATATT-TTGACA
*
8282084 TTTTGGATGTTTTGACA
1 TTTTGGATATTTTGACA
8282101 TTTT
1 TTTT
8282105 TTTAGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.18, C:0.05, G:0.18, T:0.58
Consensus pattern (17 bp):
TTTTGGATATTTTGACA
Found at i:8282144 original size:13 final size:13
Alignment explanation
Indices: 8282100--8282147 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
8282090 ATGTTTTGAC
*
8282100 ATTT-TTTTAGAT
1 ATTTATTTTGGAT
*
8282112 ATTTATGTTGGAT
1 ATTTATTTTGGAT
*
8282125 ACTTATTTTGGAT
1 ATTTATTTTGGAT
8282138 ATTTATTTTG
1 ATTTATTTTG
8282148 AGTACACTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 4 0.13
13 26 0.87
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (13 bp):
ATTTATTTTGGAT
Found at i:8289586 original size:13 final size:14
Alignment explanation
Indices: 8289568--8289619 Score: 56
Period size: 13 Copynumber: 3.9 Consensus size: 14
8289558 TCGTTTAGAT
8289568 TGAAGAG-AGAAAA
1 TGAAGAGAAGAAAA
8289581 TGAAGAGAAGAAAGA
1 TGAAGAGAAGAAA-A
*
8289596 AGAA-AGAAGAAAA
1 TGAAGAGAAGAAAA
*
8289609 AGAAGA-AAGAA
1 TGAAGAGAAGAA
8289620 GAAAGAGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
13 17 0.49
14 14 0.40
15 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
TGAAGAGAAGAAAA
Found at i:8289598 original size:7 final size:7
Alignment explanation
Indices: 8289586--8289625 Score: 62
Period size: 7 Copynumber: 5.4 Consensus size: 7
8289576 GAAAATGAAG
8289586 AGAAGAA
1 AGAAGAA
8289593 AGAAGAA
1 AGAAGAA
8289600 AGAAGAAAA
1 AGAAG--AA
8289609 AGAAGAA
1 AGAAGAA
8289616 AGAAGAA
1 AGAAGAA
8289623 AGA
1 AGA
8289626 GAATAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 24 0.77
9 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:8289610 original size:16 final size:16
Alignment explanation
Indices: 8289586--8289636 Score: 75
Period size: 16 Copynumber: 3.1 Consensus size: 16
8289576 GAAAATGAAG
8289586 AGAAGAAAGAAGAAAGA
1 AGAA-AAAGAAGAAAGA
8289603 AGAAAAAGAAGAAAGA
1 AGAAAAAGAAGAAAGA
* *
8289619 AGAAAGAGAATAAAGA
1 AGAAAAAGAAGAAAGA
8289635 AG
1 AG
8289637 GAAATATTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 28 0.88
17 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (16 bp):
AGAAAAAGAAGAAAGA
Found at i:8289616 original size:23 final size:23
Alignment explanation
Indices: 8289586--8289636 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
8289576 GAAAATGAAG
8289586 AGAAGAAAGAAGAAAGAAGAA-AA
1 AGAAGAAAGAAGAAAG-AGAATAA
8289609 AGAAGAAAGAAGAAAGAGAATAA
1 AGAAGAAAGAAGAAAGAGAATAA
8289632 AGAAG
1 AGAAG
8289637 GAAATATTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (23 bp):
AGAAGAAAGAAGAAAGAGAATAA
Found at i:8290042 original size:27 final size:25
Alignment explanation
Indices: 8289965--8290043 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 25
8289955 TCAAAACAAA
* *
8289965 GAAAAAA-TAAGAAGAATTAAGAAG
1 GAAAAAAGGAAGAAGAATAAAGAAG
*
8289989 GAAAAAAGGAA-AATGAAAAAAATGAAG
1 GAAAAAAGGAAGAA-G-AATAAA-GAAG
8290016 GAAAAATAGCGAAGAAGAATAAAGAAG
1 GAAAAA-AG-GAAGAAGAATAAAGAAG
8290043 G
1 G
8290044 GAAATGAGAA
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
24 9 0.20
25 3 0.07
26 4 0.09
27 15 0.34
28 7 0.16
29 4 0.09
30 2 0.05
ACGTcount: A:0.66, C:0.01, G:0.24, T:0.09
Consensus pattern (25 bp):
GAAAAAAGGAAGAAGAATAAAGAAG
Found at i:8293242 original size:20 final size:20
Alignment explanation
Indices: 8293217--8293266 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
8293207 TTAGGTTAAG
8293217 GTATCGGTACTAGAGGAACA
1 GTATCGGTACTAGAGGAACA
8293237 GTATCGGTACTAGAGGAACA
1 GTATCGGTACTAGAGGAACA
8293257 GTATCGGTAC
1 GTATCGGTAC
8293267 CATATGGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (20 bp):
GTATCGGTACTAGAGGAACA
Found at i:8294087 original size:23 final size:23
Alignment explanation
Indices: 8294019--8294087 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
8294009 GAGTCGAGGG
* * *
8294019 TTCTATGCGGTCCTTCGGGATAA
1 TTCTATGCGGTCCTTTGGGACAT
* *
8294042 TTCTACGTGGTCCTTTGGGACAT
1 TTCTATGCGGTCCTTTGGGACAT
8294065 TTCTATGCGGTCCTTTGGGACAT
1 TTCTATGCGGTCCTTTGGGACAT
8294088 ATATGTGGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.14, C:0.22, G:0.26, T:0.38
Consensus pattern (23 bp):
TTCTATGCGGTCCTTTGGGACAT
Found at i:8294097 original size:21 final size:22
Alignment explanation
Indices: 8294048--8294109 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
8294038 ATAATTCTAC
*
8294048 GTGGTCCTTTGGGACATTTCTAT
1 GTGGTCCTTTGGGACA-TTATAT
*
8294071 GCGGTCCTTTGGGACA-TATAT
1 GTGGTCCTTTGGGACATTATAT
* *
8294092 GTGGTCCTTCGGGTCATT
1 GTGGTCCTTTGGGACATT
8294110 CTGTGTGGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 17 0.52
22 1 0.03
23 15 0.45
ACGTcount: A:0.13, C:0.19, G:0.29, T:0.39
Consensus pattern (22 bp):
GTGGTCCTTTGGGACATTATAT
Found at i:8294161 original size:24 final size:23
Alignment explanation
Indices: 8294117--8294161 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8294107 ATTCTGTGTG
* *
8294117 GCACTTCGGTGTATTTCTACGCA
1 GCACTTCGGTGAATTTATACGCA
8294140 GCACTTCGGTGCAATTTATACG
1 GCACTTCGGTG-AATTTATACG
8294162 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (23 bp):
GCACTTCGGTGAATTTATACGCA
Found at i:8295735 original size:18 final size:18
Alignment explanation
Indices: 8295712--8295746 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8295702 CTAGGAGATT
8295712 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
8295730 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
8295747 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:8296806 original size:147 final size:145
Alignment explanation
Indices: 8296624--8296921 Score: 526
Period size: 148 Copynumber: 2.0 Consensus size: 145
8296614 GAGTCGAGGG
*
8296624 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAA-AGACATA
1 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAGACACATA
* * *
8296688 CTTGATCCCTAGCATATGTATATGATTCTTACAGAATTCTATGTGGTCCTTATGGACATTATTAT
66 CTTGAACCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGAC---ATCAT
8296753 ATGGCACTACGGTGCAAT
128 ATGGCACTACGGTGCAAT
8296771 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAGACACATA
1 TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAGACACATA
8296836 CTTGAACCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATATG
66 CTTGAACCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATATG
8296901 GCACTACGGTGCAAT
131 GCACTACGGTGCAAT
8296916 TCTACG
1 TCTACG
8296922 GGGCACTTCG
Statistics
Matches: 146, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
145 28 0.19
147 57 0.39
148 61 0.42
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (145 bp):
TCTACGCGGTTCTTAGGGACATATGTATATTCTTTGGAACCTGTGTGAAGTCTGGAAGACACATA
CTTGAACCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATATG
GCACTACGGTGCAAT
Found at i:8296944 original size:23 final size:23
Alignment explanation
Indices: 8296900--8296944 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8296890 GACATCATAT
*
8296900 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
8296923 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8296945 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:8304167 original size:19 final size:19
Alignment explanation
Indices: 8304143--8304183 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8304133 ATGTCTATTT
8304143 ATAATAATAATACTAATTC
1 ATAATAATAATACTAATTC
8304162 ATAATAATAATACTAATTC
1 ATAATAATAATACTAATTC
8304181 ATA
1 ATA
8304184 TTATCCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.37
Consensus pattern (19 bp):
ATAATAATAATACTAATTC
Found at i:8304611 original size:11 final size:12
Alignment explanation
Indices: 8304592--8304627 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
8304582 GCCCAAAATT
8304592 ATAAATATAATC
1 ATAAATATAATC
8304604 AT-AATATAAT-
1 ATAAATATAATC
8304614 ATAAATATAATC
1 ATAAATATAATC
8304626 AT
1 AT
8304628 TTTTACCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 2 0.09
11 16 0.73
12 4 0.18
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (12 bp):
ATAAATATAATC
Found at i:8308331 original size:22 final size:23
Alignment explanation
Indices: 8308301--8308356 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
8308291 GATTTTTTTA
*
8308301 TGAATAGTGATGAACAGTA-CCG
1 TGAACAGTGATGAACAGTACCCG
*
8308323 TGAACAGTGATTAACAGTACCCCG
1 TGAACAGTGATGAACAGTA-CCCG
8308347 TGAACAGTGA
1 TGAACAGTGA
8308357 ACAGTGCATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 17 0.57
24 13 0.43
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (23 bp):
TGAACAGTGATGAACAGTACCCG
Found at i:8308832 original size:47 final size:45
Alignment explanation
Indices: 8308757--8308881 Score: 173
Period size: 47 Copynumber: 2.8 Consensus size: 45
8308747 TATAAAATCT
*
8308757 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
8308802 CTTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
*
8308849 CTTGCCA-TTATT-CATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
8308882 GCATACTTAC
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 20 0.28
44 3 0.04
45 10 0.14
46 2 0.03
47 37 0.51
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:8313083 original size:27 final size:27
Alignment explanation
Indices: 8313051--8313123 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
8313041 ATCAATATCC
8313051 ATCACATTCATTCAAATATTGATATTA
1 ATCACATTCATTCAAATATTGATATTA
* *
8313078 ATCACATTAATTCAAATATTGGTATTA
1 ATCACATTCATTCAAATATTGATATTA
*
8313105 ATCACATTCATTAAAATAT
1 ATCACATTCATTCAAATAT
8313124 AGAGTCAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (27 bp):
ATCACATTCATTCAAATATTGATATTA
Found at i:8316225 original size:32 final size:32
Alignment explanation
Indices: 8316188--8316250 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
8316178 TTAAAGTTTC
*
8316188 AAAAATGTAAATATATTAACAATATTTTTTAT
1 AAAAATGTAAATACATTAACAATATTTTTTAT
*
8316220 AAAAATGTTAATACATTAACAATATTTTTTA
1 AAAAATGTAAATACATTAACAATATTTTTTA
8316251 ATATTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (32 bp):
AAAAATGTAAATACATTAACAATATTTTTTAT
Found at i:8316298 original size:47 final size:46
Alignment explanation
Indices: 8316246--8316339 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
8316236 TAACAATATT
* * *
8316246 TTTTAATATTTTTACTAGAAACACTAAATCAAATGTTATTCTAATTA
1 TTTTAACATTTTTACTAGAAACACTAAATC-AATCTTATTCAAATTA
* *
8316293 TTTTAACATTTTTACTATAAATACTAAATCAATCTTATTCAAATTA
1 TTTTAACATTTTTACTAGAAACACTAAATCAATCTTATTCAAATTA
8316339 T
1 T
8316340 ACTAATGATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 15 0.36
47 27 0.64
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.46
Consensus pattern (46 bp):
TTTTAACATTTTTACTAGAAACACTAAATCAATCTTATTCAAATTA
Found at i:8316761 original size:22 final size:21
Alignment explanation
Indices: 8316736--8316788 Score: 52
Period size: 25 Copynumber: 2.3 Consensus size: 21
8316726 ATTGTGCCAT
8316736 TATTTTTCGCCATTATAATAAA
1 TATTTTTCGCCATTATAAT-AA
* *
8316758 TATTATTCTTCGTCATTATAATTA
1 TA-T-TT-TTCGCCATTATAATAA
8316782 TATTTTT
1 TATTTTT
8316789 TAACATTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 2 0.08
22 4 0.15
23 2 0.08
24 5 0.19
25 13 0.50
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (21 bp):
TATTTTTCGCCATTATAATAA
Found at i:8318476 original size:14 final size:14
Alignment explanation
Indices: 8318457--8318483 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8318447 TTGAATACCA
8318457 ATGACAATTAACAT
1 ATGACAATTAACAT
8318471 ATGACAATTAACA
1 ATGACAATTAACA
8318484 CAATAAACTA
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:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (14 bp):
ATGACAATTAACAT
Found at i:8318607 original size:8 final size:8
Alignment explanation
Indices: 8318596--8318636 Score: 66
Period size: 8 Copynumber: 5.1 Consensus size: 8
8318586 ACACAGTAAT
8318596 ACCAATAA
1 ACCAATAA
8318604 ACCAATAA
1 ACCAATAA
8318612 ACCAAT-A
1 ACCAATAA
8318619 ACCAATAA
1 ACCAATAA
8318627 TACCAATAA
1 -ACCAATAA
8318636 A
1 A
8318637 TTAGTAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.23
8 16 0.52
9 8 0.26
ACGTcount: A:0.61, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
ACCAATAA
Found at i:8318617 original size:16 final size:17
Alignment explanation
Indices: 8318592--8318636 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
8318582 AGTTACACAG
8318592 TAATACCAATAAACCAA
1 TAATACCAATAAACCAA
8318609 TAA-ACCAAT-AACCAA
1 TAATACCAATAAACCAA
8318624 TAATACCAATAAA
1 TAATACCAATAAA
8318637 TTAGTAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.60, C:0.22, G:0.00, T:0.18
Consensus pattern (17 bp):
TAATACCAATAAACCAA
Found at i:8318672 original size:23 final size:23
Alignment explanation
Indices: 8318641--8318692 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8318631 AATAAATTAG
8318641 TAAACATTAAAAACAACTAACGC
1 TAAACATTAAAAACAACTAACGC
* *
8318664 TAAATATTAAAAACAGCTAACAG-
1 TAAACATTAAAAACAACTAAC-GC
8318687 TAAACA
1 TAAACA
8318693 CAATAATAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 24 0.96
24 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (23 bp):
TAAACATTAAAAACAACTAACGC
Found at i:8318812 original size:22 final size:21
Alignment explanation
Indices: 8318761--8318813 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
8318751 TAAACATTAG
*
8318761 AAACAGTAAACACAAACCAAT
1 AAACAGTAAACACAAAACAAT
*
8318782 AAACTAGTAAACATTAAAACAACT
1 AAAC-AGTAAACA-CAAAACAA-T
8318806 -AACAGTAA
1 AAACAGTAA
8318814 TACCAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 13 0.48
23 9 0.33
24 1 0.04
ACGTcount: A:0.60, C:0.19, G:0.06, T:0.15
Consensus pattern (21 bp):
AAACAGTAAACACAAAACAAT
Found at i:8318856 original size:37 final size:37
Alignment explanation
Indices: 8318776--8318898 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 37
8318766 GTAAACACAA
*
8318776 ACCAATAAACTAGTAAACATTAAAACAACTAACAGTAAT
1 ACCAATAAACTAGTAAACATT-AAA-AACCAACAGTAAT
8318815 ACCAATAAACTAGTAAACATTAAAAACCAACAGTAAT
1 ACCAATAAACTAGTAAACATTAAAAACCAACAGTAAT
* *
8318852 ACCAATAAACCAATAAACAACATTAAAAACCAACAGTAAT
1 ACCAATAAACTAGT--A-AACATTAAAAACCAACAGTAAT
8318892 ACCAATA
1 ACCAATA
8318899 CAGTAATACC
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
37 24 0.31
38 3 0.04
39 22 0.28
40 29 0.37
ACGTcount: A:0.58, C:0.20, G:0.04, T:0.18
Consensus pattern (37 bp):
ACCAATAAACTAGTAAACATTAAAAACCAACAGTAAT
Done.