Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 14 of 276
Found at i:4171907 original size:19 final size:20
Alignment explanation
Indices: 4171883--4171920 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4171873 GGTACCACCA
4171883 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
4171902 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
4171921 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:4172680 original size:30 final size:30
Alignment explanation
Indices: 4172646--4172706 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
4172636 CATTTAATAC
*
4172646 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTACCCCT
* * *
4172676 AAACTTTTGCATAATTACACTTTTACCCCT
1 AAACTTTGGAAAAATTACACTTTTACCCCT
4172706 A
1 A
4172707 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTACCCCT
Found at i:4179397 original size:19 final size:20
Alignment explanation
Indices: 4179373--4179410 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
4179363 GGTACCACCA
4179373 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
4179392 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
4179411 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:4179750 original size:93 final size:93
Alignment explanation
Indices: 4179640--4179810 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
4179630 GCCCCTAAGT
*
4179640 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
4179705 CGAGTTCGGATGCCTAGTTATATCTCAC
66 CGAGTTCGGATGCCTAGTTATATCTCAC
* * *
4179733 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
4179798 CGAGTTCGGATGC
66 CGAGTTCGGATGC
4179811 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTATATCTCAC
Found at i:4179807 original size:46 final size:46
Alignment explanation
Indices: 4179635--4179807 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
4179625 AACCCGCCCC
* * *
4179635 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * **
4179681 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTATAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
4179729 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
4179774 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
4179808 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:4180264 original size:30 final size:30
Alignment explanation
Indices: 4180230--4180289 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
4180220 ATTTAATACG
4180230 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
4180260 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
4180290 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:4181488 original size:5 final size:5
Alignment explanation
Indices: 4181478--4181509 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
4181468 CCTGTTGTAA
4181478 TATTT TATTT TATTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TATTT TATTT TATTT TA
4181510 AATACTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:4185185 original size:40 final size:40
Alignment explanation
Indices: 4185130--4185227 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
4185120 CGGATGATAA
* * *
4185130 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
4185170 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
*
4185210 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
4185228 TACTTGGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.32
40 36 0.68
ACGTcount: A:0.24, C:0.26, G:0.30, T:0.20
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATAT
Found at i:4185274 original size:29 final size:29
Alignment explanation
Indices: 4185232--4185290 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
4185222 CGAAGGTACT
*
4185232 TGGTTTGGGAATGAGTGATCTTGCTGTAA
1 TGGTTTGGGAATGAGCGATCTTGCTGTAA
4185261 TGGTTTGGGAATGAGCGATCTTGCTGTAA
1 TGGTTTGGGAATGAGCGATCTTGCTGTAA
4185290 T
1 T
4185291 AATTTCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.08, G:0.34, T:0.37
Consensus pattern (29 bp):
TGGTTTGGGAATGAGCGATCTTGCTGTAA
Found at i:4187921 original size:43 final size:44
Alignment explanation
Indices: 4187829--4187925 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
4187819 GATGTGAATA
* *
4187829 CATGTAAGACCATGTCGGGGACATTAGCATTGTATTGAGATTAT
1 CATGTAAGACCATGTCGGGGACATTAGCATTGTAATCAGATTAT
* * * *
4187873 -GTGTAAGACCATGTCTGGGACATTGGCTTTGATAATCA-ATT-T
1 CATGTAAGACCATGTCGGGGACATTAGCATTG-TAATCAGATTAT
4187915 CATGTAAGACC
1 CATGTAAGACC
4187926 CTGATGTGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 1 0.02
43 39 0.89
44 4 0.09
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
CATGTAAGACCATGTCGGGGACATTAGCATTGTAATCAGATTAT
Found at i:4195837 original size:15 final size:15
Alignment explanation
Indices: 4195817--4195845 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4195807 GATGATGAAT
4195817 AGTGAGGGCTTTATA
1 AGTGAGGGCTTTATA
4195832 AGTGAGGGCTTTAT
1 AGTGAGGGCTTTAT
4195846 TTAGATATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.34, T:0.34
Consensus pattern (15 bp):
AGTGAGGGCTTTATA
Found at i:4233051 original size:40 final size:40
Alignment explanation
Indices: 4232960--4233129 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
4232950 TCCTCGTTCA
* * * * *
4232960 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
4232999 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
4233039 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
4233079 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
4233119 AAGGCCTTCGG
1 AATGCCTTCGG
4233130 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:4236803 original size:75 final size:75
Alignment explanation
Indices: 4236680--4236831 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
4236670 GACCTTCTTG
4236680 CATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTAATT
1 CATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTAATT
4236745 CGGGTTGCAC
66 CGGGTTGCAC
*
4236755 CATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTGATT
1 CATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTAATT
4236820 CGGGTTGCAC
66 CGGGTTGCAC
4236830 CA
1 CA
4236832 AAATTGGAGC
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.22
Consensus pattern (75 bp):
CATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAACTCTTTACCTAATT
CGGGTTGCAC
Found at i:4242603 original size:30 final size:30
Alignment explanation
Indices: 4242568--4242625 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
4242558 CAAGAAAACC
*
4242568 GAATAAAGAAATCCAAGATAGAGAAACCTA
1 GAATAAAGAAATCCAAGATAAAGAAACCTA
*
4242598 GAATAAAGAAATCCAGGATAAAGAAACC
1 GAATAAAGAAATCCAAGATAAAGAAACC
4242626 CAAGATACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCTA
Found at i:4242607 original size:15 final size:15
Alignment explanation
Indices: 4242559--4242623 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
4242549 CAAAGATAAC
*
4242559 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
4242573 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
4242588 GAGAAA-CCTAGAATA
1 AAGAAATCC-AGAATA
*
4242603 AAGAAATCCAGGATA
1 AAGAAATCCAGAATA
4242618 AAGAAA
1 AAGAAA
4242624 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 28 0.67
16 3 0.07
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:4242632 original size:15 final size:15
Alignment explanation
Indices: 4242570--4242632 Score: 74
Period size: 15 Copynumber: 4.2 Consensus size: 15
4242560 AGAAAACCGA
4242570 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
4242585 ATAGAGAAA-CCTAG
1 ATAAAGAAATCCAAG
*
4242599 AATAAAGAAATCCAGG
1 -ATAAAGAAATCCAAG
*
4242615 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
4242630 ATA
1 ATA
4242633 CGATACTATG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.10
15 32 0.82
16 3 0.08
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:4245700 original size:93 final size:93
Alignment explanation
Indices: 4245588--4245759 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
4245578 GCCCATAAGT
* *
4245588 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
4245653 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
4245681 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
4245746 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
4245760 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:4245755 original size:46 final size:46
Alignment explanation
Indices: 4245580--4245755 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
4245570 TGTAACCCGC
* *
4245580 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
4245626 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
4245672 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
4245719 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
4245756 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:4247451 original size:16 final size:16
Alignment explanation
Indices: 4247425--4247465 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
4247415 GAGTTGTAAC
*
4247425 ACCCTAAAAATCCTGAA
1 ACCC-AAAAATCCCGAA
4247442 ACCCAAAAATCCCGAA
1 ACCCAAAAATCCCGAA
4247458 ATCCCAAA
1 A-CCCAAA
4247466 CTTTCTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.49, C:0.34, G:0.05, T:0.12
Consensus pattern (16 bp):
ACCCAAAAATCCCGAA
Found at i:4248949 original size:29 final size:28
Alignment explanation
Indices: 4248893--4248950 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
4248883 GTGAGCATGA
*
4248893 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTTGGGCCTAACAGGCC
*
4248921 ATATAAAGGTGATTTGGGCCTAATAGGCC
1 ATAT-AAGGTGATTTGGGCCTAACAGGCC
4248950 A
1 A
4248951 AAAGAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (28 bp):
ATATAAGGTGATTTGGGCCTAACAGGCC
Found at i:4248986 original size:29 final size:29
Alignment explanation
Indices: 4248905--4248986 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
4248895 ATAAGGTGAT
* * ** *
4248905 TTGGGCCTAACGGGCCATATAAAGGTGAT
1 TTGGGCCTAATGGGCCATATGAATATGAA
* * *
4248934 TTGGGCCTAATAGGCCAAAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATATGAA
*
4248963 TTGGGCCTGATGGGCCATATGAAT
1 TTGGGCCTAATGGGCCATATGAAT
4248987 GAGATGGGCC
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATATGAA
Found at i:4255495 original size:26 final size:26
Alignment explanation
Indices: 4255459--4255512 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
4255449 TGGATGAATA
4255459 ATATTTGTCATAGTGTTTTGTGGGGC
1 ATATTTGTCATAGTGTTTTGTGGGGC
4255485 ATATTTGTCATAGTGTTTTGTGGGGC
1 ATATTTGTCATAGTGTTTTGTGGGGC
4255511 AT
1 AT
4255513 TGAAGTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.17, C:0.07, G:0.30, T:0.46
Consensus pattern (26 bp):
ATATTTGTCATAGTGTTTTGTGGGGC
Found at i:4256745 original size:43 final size:44
Alignment explanation
Indices: 4256644--4256745 Score: 113
Period size: 43 Copynumber: 2.4 Consensus size: 44
4256634 TTCTAGACGT
* * * *
4256644 GGTCTTACATGT-TATCAAATATCGGTGCCACTATCCTAGACAG
1 GGTCTTACATGTAAATCAAATATCGATGCCACTATCCCAGACAA
* *
4256687 GGTCTTACACG-AAATCAAATAT-GATGCCGA-TGTCCCAGACAA
1 GGTCTTACATGTAAATCAAATATCGATGCC-ACTATCCCAGACAA
4256729 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
4256746 TCAAACCGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 24 0.49
43 25 0.51
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
GGTCTTACATGTAAATCAAATATCGATGCCACTATCCCAGACAA
Found at i:4268942 original size:54 final size:54
Alignment explanation
Indices: 4268868--4269000 Score: 257
Period size: 54 Copynumber: 2.5 Consensus size: 54
4268858 GTCTCTATAA
4268868 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATATAAAGG
1 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATATAAAGG
4268922 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATATAAAGG
1 GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATATAAAGG
*
4268976 GGGATTTAGCCTGGACTGGTAATCC
1 GGGATTTAGCCTGGACTGGCAATCC
4269001 TGCCATATGA
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGCAATCCCGACATCACCTTATGAGTTCATATAAAGG
Found at i:4288328 original size:10 final size:10
Alignment explanation
Indices: 4288281--4288328 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
4288271 TAATGATTAG
*
4288281 TTAATTATAGT
1 TTAATTA-AGA
4288292 TTAATTAA-A
1 TTAATTAAGA
*
4288301 TTAATTAGGA
1 TTAATTAAGA
*
4288311 TTAATTAAGT
1 TTAATTAAGA
4288321 TTAATTAA
1 TTAATTAA
4288329 AGTATATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 7 0.22
10 18 0.56
11 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:4289370 original size:13 final size:14
Alignment explanation
Indices: 4289354--4289383 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4289344 ATGCTTGATG
4289354 TTAATTGAA-GTAA
1 TTAATTGAATGTAA
4289367 TTAATTGAATGTAA
1 TTAATTGAATGTAA
4289381 TTA
1 TTA
4289384 TTTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TTAATTGAATGTAA
Found at i:4293774 original size:12 final size:12
Alignment explanation
Indices: 4293757--4293794 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
4293747 ATGACAACAC
*
4293757 ATATTCAGAAAA
1 ATATTCAAAAAA
4293769 ATATTCAAAAAA
1 ATATTCAAAAAA
4293781 ATATTCAAAAAA
1 ATATTCAAAAAA
4293793 AT
1 AT
4293795 CTGATATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.63, C:0.08, G:0.03, T:0.26
Consensus pattern (12 bp):
ATATTCAAAAAA
Found at i:4299644 original size:41 final size:41
Alignment explanation
Indices: 4299564--4299676 Score: 104
Period size: 41 Copynumber: 2.8 Consensus size: 41
4299554 GTGATATTGG
* *
4299564 GGCTTTGAGCCTAGCAAGCCTTGTGCTGGTGAATTAAATCT
1 GGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATCT
* * *
4299605 GGCTTT-ATGCCTAGCAGGCCTAT-TGCCGGTGTATAAAATCA
1 GGCTTTGA-GCCTAGCAAGCCT-TGTGCCGGTGAATAAAATCT
* * ** *
4299646 AGCCTTGAGTTTAGCAAGCCTTGTGCTGGTG
1 GGCTTTGAGCCTAGCAAGCCTTGTGCCGGTG
4299677 CGAAATACAG
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
40 2 0.04
41 53 0.93
42 2 0.04
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
GGCTTTGAGCCTAGCAAGCCTTGTGCCGGTGAATAAAATCT
Found at i:4312729 original size:49 final size:50
Alignment explanation
Indices: 4312662--4312908 Score: 275
Period size: 49 Copynumber: 5.0 Consensus size: 50
4312652 AGCTATTGTG
* *
4312662 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
4312712 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * * *
4312762 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
4312812 AGGTCACGTGTGTAGTACTTAGTGCAGCCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTT
* * *
4312862 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
4312909 CTTCGGCTAC
Statistics
Matches: 161, Mismatches: 32, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
49 79 0.49
50 45 0.28
51 37 0.23
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:4315210 original size:28 final size:28
Alignment explanation
Indices: 4315140--4315251 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
4315130 TGGCTTCTAG
* *
4315140 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
* * * * *
4315167 TACAGATAATTATGGCAGGGCCACTAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
4315195 AACAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
4315223 AACAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATATTTGTGGCAGAGCCACCAGA
4315251 A
1 A
4315252 CGCTTCCTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 7 0.10
28 66 0.90
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.19
Consensus pattern (28 bp):
AACAGATATTTGTGGCAGAGCCACCAGA
Found at i:4323134 original size:28 final size:28
Alignment explanation
Indices: 4323090--4323176 Score: 106
Period size: 28 Copynumber: 3.2 Consensus size: 28
4323080 AGCATGGTTG
* *
4323090 CCAGAT-CAGAT-ATTGTGACAGAGTCA
1 CCAGATACAGATAATTGTGGCAGAGCCA
* *
4323116 CCAGATACAGATAATTGTGGGAGGGCCA
1 CCAGATACAGATAATTGTGGCAGAGCCA
* *
4323144 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATAATTGTGGCAGAGCCA
4323172 CCAGA
1 CCAGA
4323177 ACGCTTCCTC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.12
27 5 0.10
28 40 0.78
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATAATTGTGGCAGAGCCA
Found at i:4326738 original size:24 final size:24
Alignment explanation
Indices: 4326711--4326761 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4326701 ATTACTTTTA
*
4326711 TGGCATATTTTGTAAACGCCTTTG
1 TGGCATATTCTGTAAACGCCTTTG
**
4326735 TGGCATATTCTGTAATTGCCTTTG
1 TGGCATATTCTGTAAACGCCTTTG
4326759 TGG
1 TGG
4326762 TGTATTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (24 bp):
TGGCATATTCTGTAAACGCCTTTG
Found at i:4326767 original size:24 final size:23
Alignment explanation
Indices: 4326728--4326814 Score: 70
Period size: 23 Copynumber: 3.7 Consensus size: 23
4326718 TTTTGTAAAC
**
4326728 GCCTTTGTGGCATATTCTGTAATT
1 GCCTTTGTGGTGTATTCTGTAA-T
* *
4326752 GCCTTTGTGGTGTATTCTATGAT
1 GCCTTTGTGGTGTATTCTGTAAT
* *
4326775 GTCTTTATGGTG-A-TCTGTAAAAT
1 GCCTTTGTGGTGTATTCTGT--AAT
*
4326798 GCCTATGTGGTGTATTC
1 GCCTTTGTGGTGTATTC
4326815 AGGGATGCCT
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
21 4 0.08
22 1 0.02
23 22 0.46
24 19 0.40
25 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.24, T:0.45
Consensus pattern (23 bp):
GCCTTTGTGGTGTATTCTGTAAT
Found at i:4328301 original size:15 final size:15
Alignment explanation
Indices: 4328269--4328309 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
4328259 TAAAAAATTA
*
4328269 AATAATACTAATACT
1 AATAATAATAATACT
* *
4328284 AATGATAATAATATT
1 AATAATAATAATACT
4328299 AATAATAATAA
1 AATAATAATAA
4328310 AAATAAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (15 bp):
AATAATAATAATACT
Found at i:4329534 original size:15 final size:15
Alignment explanation
Indices: 4329514--4329545 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4329504 TTAGGCTCAA
4329514 TTGTTTGGGTTTAGT
1 TTGTTTGGGTTTAGT
*
4329529 TTGTTTGGGTTTGGT
1 TTGTTTGGGTTTAGT
4329544 TT
1 TT
4329546 AATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.03, C:0.00, G:0.34, T:0.62
Consensus pattern (15 bp):
TTGTTTGGGTTTAGT
Found at i:4330164 original size:44 final size:44
Alignment explanation
Indices: 4329998--4330157 Score: 196
Period size: 44 Copynumber: 3.6 Consensus size: 44
4329988 CCATCTGCAG
*
4329998 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAA-CTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATC-TCAA
* * * * * * *
4330042 CCTGCTCCACTGCTACTTCGGGGAGATAAGGTTTGTAGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATCTCAA
* * *
4330086 TCTACTCCACTGCAACTTCAAGGAGATAGGATTTGTAATCTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATCTCAA
*
4330130 TCTGCTCTACTGCAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
4330158 CAATTTGCCA
Statistics
Matches: 94, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAATCTCAA
Found at i:4333859 original size:106 final size:106
Alignment explanation
Indices: 4333674--4333910 Score: 465
Period size: 106 Copynumber: 2.2 Consensus size: 106
4333664 AGACCCTAAT
4333674 CGGATTACCCGTCCGGGTTAAATCCATAATGCACACATATTCTTCGGAAGGCTTGATCATTCAAG
1 CGGATTACCCGTCCGGGTTAAATCCATAATGCACACATATTCTTCGGAAGGCTTGATCATTCAAG
4333739 GAACACTCATCCATGCTAGATCCTTTTCGTGCTTGAGATCA
66 GAACACTCATCCATGCTAGATCCTTTTCGTGCTTGAGATCA
4333780 CGGATTACCCGTCCGGGTTAAATCCATAATGCACACATATTCTTCGGAAGGCTTGATCATTCAAG
1 CGGATTACCCGTCCGGGTTAAATCCATAATGCACACATATTCTTCGGAAGGCTTGATCATTCAAG
4333845 GAACACTCATCCATGCTAGATCCTTTTCGTGCTTGAGATCA
66 GAACACTCATCCATGCTAGATCCTTTTCGTGCTTGAGATCA
*
4333886 CGGATTACCCGTCCGGGCTAAATCC
1 CGGATTACCCGTCCGGGTTAAATCC
4333911 TTACTACAAC
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 130 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (106 bp):
CGGATTACCCGTCCGGGTTAAATCCATAATGCACACATATTCTTCGGAAGGCTTGATCATTCAAG
GAACACTCATCCATGCTAGATCCTTTTCGTGCTTGAGATCA
Found at i:4347109 original size:43 final size:42
Alignment explanation
Indices: 4347060--4347192 Score: 142
Period size: 43 Copynumber: 3.1 Consensus size: 42
4347050 TAGGGTTTCT
*
4347060 GATATGTGTTCTCGTGTAAGACCATGTTTGGGACATTGGAATC
1 GATATGTGTT-TCGTGTAAGACCATGTCTGGGACATTGGAATC
* * ** *
4347103 GATATGTGATTACGTGTAGGACCATGTCTGGGACATCAGCATC
1 GATATGTG-TTTCGTGTAAGACCATGTCTGGGACATTGGAATC
* * * * *
4347146 G-TATTTGATTCATGTAAGACCCTGTCTGGGACAGTGGAATC
1 GATATGTGTTTCGTGTAAGACCATGTCTGGGACATTGGAATC
4347187 GATATG
1 GATATG
4347193 AGATAGCATG
Statistics
Matches: 71, Mismatches: 17, Indels: 5
0.76 0.18 0.05
Matches are distributed among these distances:
41 26 0.37
42 8 0.11
43 35 0.49
44 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (42 bp):
GATATGTGTTTCGTGTAAGACCATGTCTGGGACATTGGAATC
Found at i:4347209 original size:43 final size:41
Alignment explanation
Indices: 4347074--4347219 Score: 141
Period size: 43 Copynumber: 3.5 Consensus size: 41
4347064 TGTGTTCTCG
* *
4347074 TGTAAGACCATGTTTGGGACATTGGAATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACA-TGGAATCGATATGTGA-TACA
* * * * *
4347117 TGTAGGACCATGTCTGGGACATCAGCATCG-TATTTGATTCA
1 TGTAAGACCATGTCTGGGACAT-GGAATCGATATGTGATACA
* *
4347158 TGTAAGACCCTGTCTGGGACAGTGGAATCGATATGAGATAGCA
1 TGTAAGACCATGTCTGGGACA-TGGAATCGATATGTGATA-CA
**
4347201 TGTAAGACCACATCTGGGA
1 TGTAAGACCATGTCTGGGA
4347220 GGTATTTACG
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 26 0.32
42 14 0.17
43 42 0.51
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACATGGAATCGATATGTGATACA
Found at i:4352617 original size:27 final size:28
Alignment explanation
Indices: 4352587--4352654 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
4352577 CTAGCCGATT
* *
4352587 CCCAATATCAGTAA-TAGTTGGGCCT-AG
1 CCCAATAACAG-AATTAGGTGGGCCTAAG
*
4352614 CCCATTAACAGAATTAGGTGGGCCTAAG
1 CCCAATAACAGAATTAGGTGGGCCTAAG
4352642 CCCAAT-ACAGAAT
1 CCCAATAACAGAAT
4352655 CAATATCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 2 0.06
27 26 0.74
28 7 0.20
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (28 bp):
CCCAATAACAGAATTAGGTGGGCCTAAG
Found at i:4353103 original size:27 final size:26
Alignment explanation
Indices: 4353073--4353132 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
4353063 GAGCATAATC
* *
4353073 GTCATTCTACCATACAGGGGTATTATG
1 GTCATTCTACC-TACAGGGGCATTACG
* *
4353100 GTCATTTTTACCTACATGGGCATTACG
1 GTCA-TTCTACCTACAGGGGCATTACG
4353127 GTCATT
1 GTCATT
4353133 TTCCAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.07
27 20 0.71
28 6 0.21
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
GTCATTCTACCTACAGGGGCATTACG
Found at i:4353133 original size:27 final size:28
Alignment explanation
Indices: 4353080--4353134 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
4353070 ATCGTCATTC
* *
4353080 TACCATACAGGGGTATTATGGTCATTTT
1 TACCATACAGGGGCATTACGGTCATTTT
*
4353108 TACC-TACATGGGCATTACGGTCATTTT
1 TACCATACAGGGGCATTACGGTCATTTT
4353135 CCAAACTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (28 bp):
TACCATACAGGGGCATTACGGTCATTTT
Found at i:4366730 original size:29 final size:29
Alignment explanation
Indices: 4366667--4366734 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
4366657 TAATCAACCG
4366667 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
4366696 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
4366725 CGCACACTTA
1 CGCACACTTA
4366735 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:4366846 original size:174 final size:174
Alignment explanation
Indices: 4366556--4366883 Score: 620
Period size: 174 Copynumber: 1.9 Consensus size: 174
4366546 AACTCAAGGT
*
4366556 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
4366621 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
4366686 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
4366730 ACTTACCTTTTCCGCTGTCCAAAATTGACTTGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
4366795 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
4366860 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
4366884 TGTACAATTT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 150 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:4366875 original size:29 final size:30
Alignment explanation
Indices: 4366836--4366914 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
4366826 CTTAATAATC
4366836 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
4366866 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
4366895 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
4366915 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:4369859 original size:25 final size:25
Alignment explanation
Indices: 4369818--4369901 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 25
4369808 CTGGAGGCCT
4369818 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
** *
4369842 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
* * * *
4369868 AACCCTTTTCAATAAACCGGGACAT
1 AGCCCTTTTCAATAAACTGGGGCAA
4369893 AGCCCTTTT
1 AGCCCTTTT
4369902 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
23 5 0.11
24 5 0.11
25 17 0.37
26 19 0.41
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:4369976 original size:20 final size:20
Alignment explanation
Indices: 4369951--4370025 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
4369941 TTATGATAAC
*
4369951 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
4369971 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
4369991 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
4370011 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
4370026 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:4369982 original size:11 final size:11
Alignment explanation
Indices: 4369951--4370006 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
4369941 TTATGATAAC
4369951 ATCATGTGCAT
1 ATCATGTGCAT
* *
4369962 TTCA--TACAT
1 ATCATGTGCAT
4369971 ATCATGTGCAT
1 ATCATGTGCAT
*
4369982 ATCA--TACAT
1 ATCATGTGCAT
4369991 ATCATGTGCAT
1 ATCATGTGCAT
4370002 ATCAT
1 ATCAT
4370007 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:4370023 original size:9 final size:10
Alignment explanation
Indices: 4369968--4370024 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
4369958 GCATTTCATA
4369968 CATATCATGT
1 CATATCATGT
*
4369978 GCATATCAT-A
1 -CATATCATGT
4369988 CATATCATGT
1 CATATCATGT
*
4369998 GCATATCATAT
1 -CATATCATGT
4370009 CA-ATCATGT
1 CATATCATGT
4370018 -ATATCAT
1 CATATCAT
4370025 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:4370742 original size:132 final size:132
Alignment explanation
Indices: 4370505--4370767 Score: 436
Period size: 132 Copynumber: 2.0 Consensus size: 132
4370495 TTGCTCACAA
* *
4370505 GTCCTCGAAATGCCAGAATTTCAGCATTTCGGCTTTTCGACATTTATCGTTTCAAGCTATGAAAA
1 GTCCTCGAAATGCCAGAATTTCAGCATTTCAGCTTTTCGACATTTATCGTTTCAAGCGATGAAAA
* *
4370570 AGGGTTCGTTACACACCTGTTTTGCGATATTCCTTGACGAGATATCCTACACGATTTCTCCCATA
66 AGGGTTCGTTACACACCTGTTTTACGATATTCCTCGACGAGATATCCTACACGATTTCTCCCATA
4370635 AC
131 AC
** * *
4370637 GTCCTCGAAATGCCAGAATTTTGGCATTTCAGCTTTTCGGCATTTATCGTTTTAAGCGATGAAAA
1 GTCCTCGAAATGCCAGAATTTCAGCATTTCAGCTTTTCGACATTTATCGTTTCAAGCGATGAAAA
* *
4370702 AGGGTTCGTTACACACCTGTTTTACGATATTCCTCGACGAGATCTCCTACACGATTTCTCCTATA
66 AGGGTTCGTTACACACCTGTTTTACGATATTCCTCGACGAGATATCCTACACGATTTCTCCCATA
4370767 A
131 A
4370768 TCAACCGTTA
Statistics
Matches: 121, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (132 bp):
GTCCTCGAAATGCCAGAATTTCAGCATTTCAGCTTTTCGACATTTATCGTTTCAAGCGATGAAAA
AGGGTTCGTTACACACCTGTTTTACGATATTCCTCGACGAGATATCCTACACGATTTCTCCCATA
AC
Found at i:4380009 original size:8 final size:8
Alignment explanation
Indices: 4379996--4380023 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4379986 AAATGCCAGA
4379996 ATTTCGGC
1 ATTTCGGC
4380004 ATTTCGGC
1 ATTTCGGC
4380012 ATTTCGGC
1 ATTTCGGC
4380020 ATTT
1 ATTT
4380024 ATCGTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.43
Consensus pattern (8 bp):
ATTTCGGC
Found at i:4381890 original size:13 final size:13
Alignment explanation
Indices: 4381872--4381898 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4381862 GCGTTTTCCC
4381872 TTAAGCACTTCAT
1 TTAAGCACTTCAT
4381885 TTAAGCACTTCAT
1 TTAAGCACTTCAT
4381898 T
1 T
4381899 AAACTATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (13 bp):
TTAAGCACTTCAT
Found at i:4388202 original size:25 final size:25
Alignment explanation
Indices: 4388174--4388225 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4388164 ACCAAGGAAT
4388174 TGTCAATGACTAATGAAAGTATGAG
1 TGTCAATGACTAATGAAAGTATGAG
4388199 TGTCAATGACTAATGAAAGTATGAG
1 TGTCAATGACTAATGAAAGTATGAG
4388224 TG
1 TG
4388226 CACATCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (25 bp):
TGTCAATGACTAATGAAAGTATGAG
Found at i:4393492 original size:38 final size:38
Alignment explanation
Indices: 4393441--4393516 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4393431 GGTGTTTTAG
4393441 ATCGATAGTGAGATGCAGTACGGTGCATTTAGTTTACT
1 ATCGATAGTGAGATGCAGTACGGTGCATTTAGTTTACT
4393479 ATCGATAGTGAGATGCAGTACGGTGCATTTAGTTTACT
1 ATCGATAGTGAGATGCAGTACGGTGCATTTAGTTTACT
4393517 TTTTGTCTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.34
Consensus pattern (38 bp):
ATCGATAGTGAGATGCAGTACGGTGCATTTAGTTTACT
Found at i:4395078 original size:6 final size:6
Alignment explanation
Indices: 4395067--4395094 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
4395057 AAGTAATTTT
4395067 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
4395095 TATGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:4396647 original size:21 final size:21
Alignment explanation
Indices: 4396595--4396655 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
4396585 TTAAAGCTTC
**
4396595 TTTAAACGAATTTATTT-TTTA
1 TTTAAACTCATTT-TTTATTTA
4396616 TTTAAACTCATTTTTTATTTA
1 TTTAAACTCATTTTTTATTTA
* *
4396637 TTTAAATTCATTCTTTATT
1 TTTAAACTCATTTTTTATT
4396656 CTAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 3 0.09
21 32 0.91
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTAAACTCATTTTTTATTTA
Found at i:4397078 original size:14 final size:14
Alignment explanation
Indices: 4397061--4397088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4397051 AATATTTATA
4397061 AATATTAAATAAAT
1 AATATTAAATAAAT
4397075 AATATTAAATAAAT
1 AATATTAAATAAAT
4397089 TTTAGATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATTAAATAAAT
Found at i:4397104 original size:25 final size:25
Alignment explanation
Indices: 4397046--4397105 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
4397036 ATATATGTAT
*
4397046 ATAAA-AATATT-TATAAATATTAA
1 ATAAATAATATTAAATAAATATTAA
* *
4397069 ATAAATAATATTAAATAAATTTTAG
1 ATAAATAATATTAAATAAATATTAA
4397094 ATATAAT-ATATT
1 ATA-AATAATATT
4397106 CATGAGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 5 0.16
24 6 0.19
25 17 0.55
26 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
ATAAATAATATTAAATAAATATTAA
Found at i:4397295 original size:15 final size:16
Alignment explanation
Indices: 4397270--4397300 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4397260 GAGTGAGTTT
4397270 TTTTATTATATTTTAA
1 TTTTATTATATTTTAA
4397286 TTTT-TTATATTTTAA
1 TTTTATTATATTTTAA
4397301 ATGTGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTATATTTTAA
Found at i:4399413 original size:45 final size:45
Alignment explanation
Indices: 4399360--4399490 Score: 126
Period size: 44 Copynumber: 2.9 Consensus size: 45
4399350 CCTGAGCTGA
* * *
4399360 TGAACAGTAAGCTCTA-ATGAGCTAAAAGGGTAAGCTCTATTAAG
1 TGAACAGTAAGCTCTATACGAGCTAAAACGGTAAGCTCTAATAAG
* *
4399404 CTGAACAGTAAG-TC-ATACGAGCTGAAACGGTAAGCTCTAATGAG
1 -TGAACAGTAAGCTCTATACGAGCTAAAACGGTAAGCTCTAATAAG
*
4399448 TGAAAACAGTAAGCTCT-TACGAGCTCATATATCGGTAAGCTCT
1 TG--AACAGTAAGCTCTATACGAGCT-A-A-AACGGTAAGCTCT
4399491 TACGATGAGT
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 20 0.28
46 10 0.14
48 1 0.01
49 12 0.17
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATACGAGCTAAAACGGTAAGCTCTAATAAG
Found at i:4399459 original size:23 final size:23
Alignment explanation
Indices: 4399352--4399464 Score: 99
Period size: 23 Copynumber: 4.9 Consensus size: 23
4399342 AAGCTCCTCC
4399352 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA--AACAGTAAGCTCTAA
* ** *
4399377 TGAGCTAAAAGGGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAA
*
4399400 TAAGCTG-AACAGTAAG-TC-ATA
1 TGAGCTGAAACAGTAAGCTCTA-A
* *
4399421 CGAGCTGAAACGGTAAGCTCTAA
1 TGAGCTGAAACAGTAAGCTCTAA
4399444 TGAG-TGAAAACAGTAAGCTCT
1 TGAGCTG-AAACAGTAAGCTCT
4399465 TACGAGCTCA
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 7 0.10
22 17 0.25
23 36 0.52
24 1 0.01
25 7 0.10
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAA
Found at i:4406401 original size:16 final size:17
Alignment explanation
Indices: 4406380--4406414 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
4406370 TATATAGGTC
4406380 AAATATAGATAT-TAAT
1 AAATATAGATATATAAT
*
4406396 AAATATATATATATAAT
1 AAATATAGATATATAAT
4406413 AA
1 AA
4406415 TAATTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATATAGATATATAAT
Found at i:4407803 original size:18 final size:18
Alignment explanation
Indices: 4407780--4407820 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4407770 GTCTGGGTTA
*
4407780 TTGGGTTAAGATATTAGT
1 TTGGGTTAAGACATTAGT
* *
4407798 TTGGGTTAGGGCATTAGT
1 TTGGGTTAAGACATTAGT
4407816 TTGGG
1 TTGGG
4407821 CTTTGATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (18 bp):
TTGGGTTAAGACATTAGT
Found at i:4408020 original size:44 final size:44
Alignment explanation
Indices: 4407952--4408041 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
4407942 TTGCTCATTA
4407952 TCGTGTAACGAGAATAGAGCAAAGACTATAAATGGGCCAATTTT
1 TCGTGTAACGAGAATAGAGCAAAGACTATAAATGGGCCAATTTT
* *
4407996 TCGTGTAACGAGAATAGAGTAAAGACTATAAATGGGCCATTTTT
1 TCGTGTAACGAGAATAGAGCAAAGACTATAAATGGGCCAATTTT
4408040 TC
1 TC
4408042 CAAGACTTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (44 bp):
TCGTGTAACGAGAATAGAGCAAAGACTATAAATGGGCCAATTTT
Found at i:4408488 original size:133 final size:133
Alignment explanation
Indices: 4408249--4408523 Score: 417
Period size: 133 Copynumber: 2.1 Consensus size: 133
4408239 TCCACTGAAG
* * *
4408249 ACAAGATCTGCAATCTTCAGCCTACTCCATTACAACTTTAGGGAGCTAAGATGGTGGCTTAAATC
1 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAAGATGGTGGCTTAAATC
* * *
4408314 TACTTCACTGCAACTTTAGGAAGACAGGATTCTCTGACTTCGATCTGCTCCACCGCAACTTCAGG
66 TACTTCACTGCAACTTCAGGAAGACAGGATTCGCCGACTTCGATCTGCTCCACCGCAACTTCAGG
4408379 GAA
131 GAA
* *
4408382 ACAAGATCTACAATCTTCAGCCTACTCCACTACAATTTTAGAGAGCTAGGATGGTGGCTTAAATC
1 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAAGATGGTGGCTTAAATC
* * * *
4408447 TGCTTCACTGTAACTTCAGGAAGACTA-GATTCGCCGTCTTCGATCTGCTCCACTGCAACTTCAG
66 TACTTCACTGCAACTTCAGGAAGAC-AGGATTCGCCGACTTCGATCTGCTCCACCGCAACTTCAG
4408511 GGAA
130 GGAA
*
4408515 ATAAGATCT
1 ACAAGATCT
4408524 GTAGAATTCA
Statistics
Matches: 128, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
133 127 0.99
134 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGAGAGCTAAGATGGTGGCTTAAATC
TACTTCACTGCAACTTCAGGAAGACAGGATTCGCCGACTTCGATCTGCTCCACCGCAACTTCAGG
GAA
Found at i:4413985 original size:30 final size:31
Alignment explanation
Indices: 4413917--4413985 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 31
4413907 AAATGAGTAC
*
4413917 ATTTGTATTATTTATATATAATTAGTAAAAAAAT
1 ATTT-TATTATTTATATATAATTAGT--AAAAAG
4413951 ATTTTATTATTTAT-TATTAATTAGT-AAAAG
1 ATTTTATTATTTATATA-TAATTAGTAAAAAG
4413981 ATTTT
1 ATTTT
4413986 TATATGATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 9 0.27
32 2 0.06
33 18 0.55
34 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTTTATTATTTATATATAATTAGTAAAAAG
Found at i:4414707 original size:12 final size:11
Alignment explanation
Indices: 4414687--4414738 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
4414677 GTTAAGATTA
*
4414687 AAATTGAAATT
1 AAATAGAAATT
4414698 AAAGTAGAAATT
1 AAA-TAGAAATT
*
4414710 GAATAGAAATT
1 AAATAGAAATT
*
4414721 GAATAAGAAATTT
1 AAAT-AGAAA-TT
4414734 AAATA
1 AAATA
4414739 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:4414718 original size:11 final size:11
Alignment explanation
Indices: 4414692--4414732 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
4414682 GATTAAAATT
*
4414692 GAAATTAAAGTA
1 GAAATTGAA-TA
4414704 GAAATTGAATA
1 GAAATTGAATA
4414715 GAAATTGAATAA
1 GAAATTGAAT-A
4414727 GAAATT
1 GAAATT
4414733 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:4427801 original size:39 final size:38
Alignment explanation
Indices: 4427715--4427808 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 38
4427705 ACCATCTCCG
* *
4427715 TCCACCCCTACACACCACGTGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
* *
4427753 CCCAGCCCTACACACCAAGTATGGGGAT-AAATCAACCCA
1 TCCAACCCTACACACCAAG--TGGGGATAAAATCAACCCA
4427792 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
4427809 TAAGGTACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
38 16 0.33
39 26 0.53
40 7 0.14
ACGTcount: A:0.35, C:0.40, G:0.12, T:0.13
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTGGGGATAAAATCAACCCA
Found at i:4429982 original size:55 final size:56
Alignment explanation
Indices: 4429917--4430031 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
4429907 AGCATGGCTG
* *
4429917 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
4429973 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
4430028 CCAG
1 CCAG
4430032 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:4429994 original size:27 final size:27
Alignment explanation
Indices: 4429942--4430031 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
4429932 GTGACAGAGT
4429942 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
4429971 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
4429998 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
4430026 CACCAG
1 CACCAG
4430032 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:4430184 original size:28 final size:28
Alignment explanation
Indices: 4430137--4430201 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
4430127 AAATTAACCC
*
4430137 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
4430165 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
4430193 TAGGGGTAT
1 TAGGGGTAT
4430202 TCTAGTACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:4440461 original size:55 final size:56
Alignment explanation
Indices: 4440396--4440510 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
4440386 AGCATGGCTG
* *
4440396 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
4440452 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
4440507 CCAG
1 CCAG
4440511 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:4440473 original size:27 final size:27
Alignment explanation
Indices: 4440421--4440510 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
4440411 GTGACAGAGT
4440421 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
4440450 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
4440477 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
4440505 CACCAG
1 CACCAG
4440511 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:4440658 original size:28 final size:28
Alignment explanation
Indices: 4440615--4440679 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
4440605 AAATTAACCC
4440615 TAGGGGTATAACGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
*
4440643 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAACGGTAATTTTGCATACA
4440671 TAGGGGTAT
1 TAGGGGTAT
4440680 TCTAGTACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAACGGTAATTTTGCATACA
Found at i:4445885 original size:29 final size:28
Alignment explanation
Indices: 4445828--4445911 Score: 80
Period size: 32 Copynumber: 2.8 Consensus size: 28
4445818 TTTATTTTTA
** *
4445828 TGATTATTTAATTATAAAATATATTATTAT
1 TGATTATTTAATTATATTATAAATTA--AT
4445858 TGTTATTATTTAATTATATTATAAATTAAAT
1 TG--ATTATTTAATTATATTATAAATT-AAT
4445889 TGATTATATT-ATTATATTATAAA
1 TGATTAT-TTAATTATATTATAAA
4445912 ATAAATTATG
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 18 0.38
30 4 0.09
31 4 0.09
32 20 0.43
33 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
TGATTATTTAATTATATTATAAATTAAT
Found at i:4445916 original size:29 final size:29
Alignment explanation
Indices: 4445862--4445918 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
4445852 TATTATTGTT
*
4445862 ATTATTTAATTATATTATAAATTAAATTG
1 ATTATTTAATTATATTATAAAATAAATTG
4445891 ATTATATT-ATTATATTATAAAATAAATT
1 ATTAT-TTAATTATATTATAAAATAAATT
4445919 ATGAAAAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
ATTATTTAATTATATTATAAAATAAATTG
Found at i:4446021 original size:33 final size:32
Alignment explanation
Indices: 4445979--4446050 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
4445969 AAATGAGTAC
4445979 ATTTGTATTATTTA-TATATAATTAGTAAAAAGAT
1 ATTT-TATTATTTATTAT-TAATTAGT-AAAAGAT
4446013 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
4446045 -TTTTAT
1 ATTTTAT
4446051 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 7 0.19
33 17 0.46
34 7 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:4446159 original size:18 final size:18
Alignment explanation
Indices: 4446136--4446206 Score: 72
Period size: 18 Copynumber: 3.7 Consensus size: 18
4446126 TGTAATATTT
4446136 ATATTTATTATTAAATAG
1 ATATTTATTATTAAATAG
4446154 ATATTTATTATTATAATA-
1 ATATTTATTATTA-AATAG
* *
4446172 ATTATTATTATTATTTAATTG
1 A-TA-T-TTATTATTAAATAG
4446193 ATATTATATTATTA
1 ATATT-TATTATTA
4446207 GATCAATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 15 0.34
19 14 0.32
20 6 0.14
21 9 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATATTTATTATTAAATAG
Found at i:4446771 original size:12 final size:11
Alignment explanation
Indices: 4446751--4446802 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
4446741 ATTAAGATTA
*
4446751 AAATTGAAATT
1 AAATAGAAATT
4446762 AAAGTAGAAATT
1 AAA-TAGAAATT
*
4446774 GAATAGAAATT
1 AAATAGAAATT
*
4446785 GAATAAGAAATTT
1 AAAT-AGAAA-TT
4446798 AAATA
1 AAATA
4446803 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:4446782 original size:11 final size:11
Alignment explanation
Indices: 4446756--4446796 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
4446746 GATTAAAATT
*
4446756 GAAATTAAAGTA
1 GAAATTGAA-TA
4446768 GAAATTGAATA
1 GAAATTGAATA
4446779 GAAATTGAATAA
1 GAAATTGAAT-A
4446791 GAAATT
1 GAAATT
4446797 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:4447510 original size:44 final size:44
Alignment explanation
Indices: 4447461--4447552 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
4447451 TGTTCAGGGA
* *
4447461 TACTTCGACCTT-GAGCCGATGAGGCACTATAAGTGTCGTACTGT
1 TACTTCGA-CTTCGAGCCGATGAGGCACCATAAGTGTCGTACTGC
* * *
4447505 TACTTCGACTTCGAGTCGATGAGGCACCATATGTGTTGTACTGC
1 TACTTCGACTTCGAGCCGATGAGGCACCATAAGTGTCGTACTGC
4447549 TACT
1 TACT
4447553 GTTACACCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 3 0.07
44 39 0.93
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (44 bp):
TACTTCGACTTCGAGCCGATGAGGCACCATAAGTGTCGTACTGC
Found at i:4449287 original size:22 final size:22
Alignment explanation
Indices: 4449248--4449335 Score: 90
Period size: 22 Copynumber: 3.9 Consensus size: 22
4449238 TTGATCTAAT
*
4449248 GAGCTGAAACGGTAAGCTCTATC
1 GAGCTG-AACAGTAAGCTCTATC
*
4449271 GAGCTGAACAGTAAGCTCTATT
1 GAGCTGAACAGTAAGCTCTATC
* *
4449293 GAGCTGAAAAATAAGCTC-ATAC
1 GAGCTGAACAGTAAGCTCTAT-C
4449315 GAGCTGAA-ATGGTAAGCTCTA
1 GAGCTGAACA--GTAAGCTCTA
4449336 ATGAGCTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 3 0.05
22 38 0.69
23 13 0.24
24 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (22 bp):
GAGCTGAACAGTAAGCTCTATC
Found at i:4449330 original size:45 final size:45
Alignment explanation
Indices: 4449242--4449383 Score: 146
Period size: 45 Copynumber: 3.0 Consensus size: 45
4449232 CCTGAGTTGA
**
4449242 TCTAATGAGCTGAAACGGTAAGCTCTATCGAGCTGAACA--GTAAGC
1 TCTAATGAGCTGAAA-AATAAGCTCTA-CGAGCTGAACATGGTAAGC
*
4449287 TCTATTGAGCTGAAAAATAAGCTCATACGAGCTGAA-ATGGTAAGC
1 TCTAATGAGCTGAAAAATAAGCTC-TACGAGCTGAACATGGTAAGC
* *
4449332 TCTAATGAGCTAAAAATAGTAAGCTCTTACGAGCTGATATATCGGTAAGC
1 TCTAATGAGCTGAAAA-A-TAAGCTC-TACGAGCTGA-ACAT-GGTAAGC
4449382 TC
1 TC
4449384 ATACGATGAG
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
43 1 0.01
44 16 0.19
45 36 0.43
46 1 0.01
47 17 0.20
48 1 0.01
49 2 0.02
50 9 0.11
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (45 bp):
TCTAATGAGCTGAAAAATAAGCTCTACGAGCTGAACATGGTAAGC
Found at i:4449928 original size:30 final size:27
Alignment explanation
Indices: 4449894--4449954 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 27
4449884 TCTTTCATTA
* *
4449894 TTTCACACTTTTAACCACATAATTTTACAT
1 TTTCACA-ATTTAACC-C-TAATTTGACAT
*
4449924 TTTCACAATTTAATCCTAATTTGACAT
1 TTTCACAATTTAACCCTAATTTGACAT
4449951 TTTC
1 TTTC
4449955 GTCAAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.50
28 1 0.04
29 6 0.21
30 7 0.25
ACGTcount: A:0.31, C:0.21, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTCACAATTTAACCCTAATTTGACAT
Found at i:4454940 original size:13 final size:13
Alignment explanation
Indices: 4454918--4454957 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
4454908 CCAAATGGGT
4454918 AATTGAACTTGAA
1 AATTGAACTTGAA
*
4454931 AATTGGACTTGAA
1 AATTGAACTTGAA
4454944 AATTGAACTTGAA
1 AATTGAACTTGAA
4454957 A
1 A
4454958 TCGAAAATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.17, T:0.30
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:4455265 original size:20 final size:20
Alignment explanation
Indices: 4455240--4455280 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4455230 CTGAGACTGT
4455240 ACTAGATAATTTGATTTTAG
1 ACTAGATAATTTGATTTTAG
4455260 ACTAGATAATTTGATTTTAG
1 ACTAGATAATTTGATTTTAG
4455280 A
1 A
4455281 TTAACTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (20 bp):
ACTAGATAATTTGATTTTAG
Found at i:4455380 original size:25 final size:25
Alignment explanation
Indices: 4455352--4455399 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4455342 ATCTTAATAG
*
4455352 TATTTTATTAAT-TTAATATTAAAAT
1 TATTATATTAATATTAA-ATTAAAAT
*
4455377 TATTATCTTAATATTAAATTAAA
1 TATTATATTAATATTAAATTAAA
4455400 TTAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATATTAATATTAAATTAAAAT
Found at i:4455393 original size:68 final size:72
Alignment explanation
Indices: 4455316--4455448 Score: 193
Period size: 74 Copynumber: 1.9 Consensus size: 72
4455306 TTTAATAGTT
*
4455316 TTAATATTAAATTAAA-T-T-TAATACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAAT
1 TTAATATTAAATTAAATTATATAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAAT
4455377 TATTATC
66 TATTATC
* *
4455384 TTAATATTAAATTAAATTAAATATAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAA
1 TTAATATTAAATTAAATT--ATATAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAA
4455449 GTGAATAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
68 16 0.29
69 1 0.02
72 1 0.02
73 14 0.25
74 24 0.43
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTAAATTATATAATACTTATCTTAATAAGTATTATATTAATTTAATATTAAAAT
TATTATC
Found at i:4458955 original size:627 final size:627
Alignment explanation
Indices: 4457762--4459015 Score: 2400
Period size: 627 Copynumber: 2.0 Consensus size: 627
4457752 TAAAATCATA
4457762 GGTCATAGCCTACTTAAATTAAAACAATTTTCATGGTCGTATACAAAGAGATAAACATATTTTTA
1 GGTCATAGCCTACTTAAATTAAAACAATTTTCATGGTCGTATACAAAGAGATAAACATATTTTTA
4457827 CATGCCTTTACTGGGTAAATCAAATGACACATATAACAAAATACTCAAAAATACTATACATGCCA
66 CATGCCTTTACTGGGTAAATCAAATGACACATATAACAAAATACTCAAAAATACTATACATGCCA
*
4457892 TTGAACAAAATAAACTGAGTTTTTATACCAAAGCTTATTTAGTTGATAGTGTGTTCACTCCCCAA
131 TTGAACAAAATAAACTGAGTCTTTATACCAAAGCTTATTTAGTTGATAGTGTGTTCACTCCCCAA
* * *
4457957 TTGTCTTCCAATCCTTATGAGTCCTTGAGCTCTGTGAGACAGGGAAAAAGAGAGGGGTAAGCATT
196 TTGCCTTCCAATCCTTATGAGTCCTTGAACTCTATGAGACAGGGAAAAAGAGAGGGGTAAGCATT
*
4458022 TTCATGCTTAGTAAGCTCGAATAACCGGAAAGTAAACTTACCGAGTAATTAGCAAACATTCATAC
261 TTCATGCTTAGTAAGCTCGAATAACCAGAAAGTAAACTTACCGAGTAATTAGCAAACATTCATAC
4458087 TTATTTCATGAAATCATCCATTATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGT
326 TTATTTCATGAAATCATCCATTATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGT
4458152 CCCATAATCATGTATTATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATATATG
391 CCCATAATCATGTATTATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATATATG
4458217 TATATCCCATGTTAATCTCGTTGAGTTTCTAGGAAACCTCGATGGAATACCCATTATCCGTCAAT
456 TATATCCCATGTTAATCTCGTTGAGTTTCTAGGAAACCTCGATGGAATACCCATTATCCGTCAAT
4458282 TCATACGAATGATTATTCTATCTATGCACTCCCGTGAACCTCACATCATATAACAGGATTACCAG
521 TCATACGAATGATTATTCTATCTATGCACTCCCGTGAACCTCACATCATATAACAGGATTACCAG
4458347 TCCAGGCTAAATCCCCCATTATATGAACTCATAAGGTGATGT
586 TCCAGGCTAAATCCCCCATTATATGAACTCATAAGGTGATGT
4458389 GGTCATAGCCTACTTAAATTAAAACAATTTTCATGGTCGTATACAAAGAGATAAACATATTTTTA
1 GGTCATAGCCTACTTAAATTAAAACAATTTTCATGGTCGTATACAAAGAGATAAACATATTTTTA
4458454 CATGCCTTTACTGGGTAAATCAAATGACACATATAACAAAATACTCAAAAATACTATACATGCCA
66 CATGCCTTTACTGGGTAAATCAAATGACACATATAACAAAATACTCAAAAATACTATACATGCCA
* *
4458519 TTGAACAAAATAAACTGAGTCTTTATACCAAAGCTTGTTTAGTTGATAGTGTGTTCACTCCCTAA
131 TTGAACAAAATAAACTGAGTCTTTATACCAAAGCTTATTTAGTTGATAGTGTGTTCACTCCCCAA
* *
4458584 TTGCCTTCCAATCCTTATGAGTCTTTGAACTCTATGAGACAGGGAAAAAGAGAGGGGTAAGTATT
196 TTGCCTTCCAATCCTTATGAGTCCTTGAACTCTATGAGACAGGGAAAAAGAGAGGGGTAAGCATT
*
4458649 TTCATGCTTAGTAAGCTCGAATAACTAGAAAGTAAACTTACCGAGTAATTAGCAAACATTCATAC
261 TTCATGCTTAGTAAGCTCGAATAACCAGAAAGTAAACTTACCGAGTAATTAGCAAACATTCATAC
4458714 TTATTTCATGAAATCATCCATTATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGT
326 TTATTTCATGAAATCATCCATTATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGT
*
4458779 CCCATAATCATGTATTATGTAATTTAACTATATGAGCTCATCATTCAACATTTCATTCATATATG
391 CCCATAATCATGTATTATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATATATG
*
4458844 TATATCCCATGTTAATCTCGTTGAGTTTCTAGGAAACCTCGATGGAATACCCATTATCCGTTAAT
456 TATATCCCATGTTAATCTCGTTGAGTTTCTAGGAAACCTCGATGGAATACCCATTATCCGTCAAT
4458909 TCATACGAATGATTATTCTATCTATGCACTCCCGTGAACCTCACATCATATAACAGGATTACCAG
521 TCATACGAATGATTATTCTATCTATGCACTCCCGTGAACCTCACATCATATAACAGGATTACCAG
4458974 TCCAGGCTAAATCCCCCATTATATGAACTCATAAGGTGATGT
586 TCCAGGCTAAATCCCCCATTATATGAACTCATAAGGTGATGT
4459016 CGGGATTACC
Statistics
Matches: 615, Mismatches: 12, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
627 615 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (627 bp):
GGTCATAGCCTACTTAAATTAAAACAATTTTCATGGTCGTATACAAAGAGATAAACATATTTTTA
CATGCCTTTACTGGGTAAATCAAATGACACATATAACAAAATACTCAAAAATACTATACATGCCA
TTGAACAAAATAAACTGAGTCTTTATACCAAAGCTTATTTAGTTGATAGTGTGTTCACTCCCCAA
TTGCCTTCCAATCCTTATGAGTCCTTGAACTCTATGAGACAGGGAAAAAGAGAGGGGTAAGCATT
TTCATGCTTAGTAAGCTCGAATAACCAGAAAGTAAACTTACCGAGTAATTAGCAAACATTCATAC
TTATTTCATGAAATCATCCATTATGAAATGATTTCCTATCACATGCACTCAATCAATGAGTTAGT
CCCATAATCATGTATTATGTAATTTAACTAGATGAGCTCATCATTCAACATTTCATTCATATATG
TATATCCCATGTTAATCTCGTTGAGTTTCTAGGAAACCTCGATGGAATACCCATTATCCGTCAAT
TCATACGAATGATTATTCTATCTATGCACTCCCGTGAACCTCACATCATATAACAGGATTACCAG
TCCAGGCTAAATCCCCCATTATATGAACTCATAAGGTGATGT
Found at i:4463472 original size:819 final size:819
Alignment explanation
Indices: 4461896--4464432 Score: 3759
Period size: 819 Copynumber: 3.0 Consensus size: 819
4461886 GCTGAGTATC
4461896 ATAAATTTCTTGCAGAAATGTTGGCCTAGCCTCCAGCTCGGCCAAAACTGAACCATCATCAAGCA
1 ATAAATTTCTTGCAGAAATGTTGGCCTAGCCTCCAGCTCGGCCAAAACTGAACCATCATCAAGCA
4461961 ATGTCAAACGAGTATCCATGGCTCTCAGGGCATACAGGGATTTTCTACTCAATGCATCTGCGACC
66 ATGTCAAACGAGTATCCATGGCTCTCAGGGCATACAGGGATTTTCTACTCAATGCATCTGCGACC
4462026 ACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCTAACCATCT
131 ACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCTAACCATCT
4462091 TCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTCCGTGAATA
196 TCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTCCGTGAATA
4462156 TATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGGCAGCAAGC
261 TATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGGCAGCAAGC
4462221 TCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAGGCTATCAC
326 TCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAGGCTATCAC
4462286 CTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCACAAACT
391 CTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCACAAACT
4462351 CTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAA
456 CTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAA
4462416 CTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGT
521 CTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGT
4462481 CACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAA
586 CACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAA
4462546 CCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGG
651 CCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGG
4462611 ATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCT
716 ATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCT
4462676 AAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
781 AAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
4462715 ATAAATTTCTTGCAGAAATGTTGGCCTAGCCTCCAGCTCGGCCAAAACTGAACCATCATCAAGCA
1 ATAAATTTCTTGCAGAAATGTTGGCCTAGCCTCCAGCTCGGCCAAAACTGAACCATCATCAAGCA
4462780 ATGTCAAACGAGTATCCATGGCTCTCAGGGCATACAGGGATTTTCTACTCAATGCATCTGCGACC
66 ATGTCAAACGAGTATCCATGGCTCTCAGGGCATACAGGGATTTTCTACTCAATGCATCTGCGACC
4462845 ACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCTAACCATCT
131 ACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCTAACCATCT
4462910 TCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTCCGTGAATA
196 TCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTCCGTGAATA
* * *
4462975 TATGACAAGTCTCGCCATACAAATAATGCCTCCAAATTTTTAAGGCGAAAACAATAGCGGCAAGC
261 TATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGGCAGCAAGC
* * *
4463040 TCTAGGTCATGGGTTGGATAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAGGTTATCAC
326 TCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAGGCTATCAC
4463105 CTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCACAAACT
391 CTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCACAAACT
4463170 CTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAA
456 CTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAA
4463235 CTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGT
521 CTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGT
4463300 CACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAA
586 CACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAA
4463365 CCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGG
651 CCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGG
4463430 ATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCT
716 ATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCT
4463495 AAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
781 AAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
* * * * * **
4463534 ATCAA-TT-TT-CAG--GTGCTTCGCGTGCTCT-GTCTCATCTTTAGAGTAGATCAAAATGTCGT
1 ATAAATTTCTTGCAGAAATG-TT---G-GC-CTAG-C-C-TC--CAG-CTCGGCCAAAA---C-T
* ** * * * **
4463593 TAATAAACA-CAACGACAAACTTATCCAAATATGGCTGAAAG-ATCCTAT---TCATTAGATCCA
50 GAACCATCATCAA-G-C-AA--TGT-C-AA-A---C-G--AGTATCC-ATGGCTC-TCAG-GGCA
* * * * ** * * * * * *
4463653 TAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATAATGGCCATACCTC
98 T--ACA-GG--GAT--TTTC-T-A-CTC-AATG-CAT--C-TGCGA-CCACATTCGCCTTTCCT-
** * * *** * ** * * *
4463718 GTTCTGAAAGCTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATC-T-
146 G-GGTGATAG-T-CGA-TA-A-T--CAAAT-C------ATAATCTTTAATTAATTC-TAACCATC
* * *
4463781 TTAATTAATTCTAACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAA
195 TTCACT--GTC-----------------TCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAA
4463846 ACTCTTGTGGTCCGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGG
241 ACTCTTGTGGTCCGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGG
4463911 CGAAAACAATGGCAGCAAGCTCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGC
306 CGAAAACAATGGCAGCAAGCTCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGC
4463976 CGTGAAGCATAGGCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGC
371 CGTGAAGCATAGGCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGC
*
4464041 ATCACTGTAGACCACAAACTCTTTTCCCGGTTCAGATAGTACTAAAACAGGAGCTTCGGTCAACA
436 ATCACTGTAGACCACAAACTCTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACA
4464106 GTGTCTTTAACTTTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGT
501 GTGTCTTTAACTTTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGT
4464171 AGCAGCTTTGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGC
566 AGCAGCTTTGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGC
4464236 TAACCACAAAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAA
631 TAACCACAAAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAA
4464301 TCTTACTTGGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAG
696 TCTTACTTGGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAG
4464366 AGCCAAAACTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
761 AGCCAAAACTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
*
4464425 ATCAATTT
1 ATAAATTT
4464433 TCAGGTGCTT
Statistics
Matches: 1576, Mismatches: 56, Indels: 99
0.91 0.03 0.06
Matches are distributed among these distances:
814 2 0.00
815 2 0.00
816 3 0.00
817 2 0.00
818 3 0.00
819 820 0.52
820 3 0.00
821 1 0.00
822 2 0.00
824 2 0.00
825 7 0.00
828 4 0.00
829 7 0.00
830 1 0.00
831 2 0.00
833 2 0.00
834 1 0.00
835 2 0.00
836 1 0.00
839 3 0.00
840 4 0.00
841 7 0.00
842 4 0.00
843 3 0.00
844 2 0.00
846 3 0.00
848 3 0.00
849 1 0.00
850 1 0.00
851 2 0.00
852 3 0.00
853 3 0.00
855 1 0.00
856 2 0.00
857 11 0.01
858 1 0.00
859 5 0.00
860 1 0.00
861 3 0.00
862 1 0.00
863 1 0.00
864 1 0.00
866 2 0.00
867 1 0.00
872 4 0.00
873 14 0.01
874 6 0.00
891 614 0.39
892 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (819 bp):
ATAAATTTCTTGCAGAAATGTTGGCCTAGCCTCCAGCTCGGCCAAAACTGAACCATCATCAAGCA
ATGTCAAACGAGTATCCATGGCTCTCAGGGCATACAGGGATTTTCTACTCAATGCATCTGCGACC
ACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCTAACCATCT
TCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTCCGTGAATA
TATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGGCAGCAAGC
TCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAGGCTATCAC
CTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCACAAACT
CTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAA
CTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGT
CACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAA
CCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGG
ATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCT
AAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAA
Found at i:4464558 original size:891 final size:891
Alignment explanation
Indices: 4462837--4465503 Score: 3780
Period size: 891 Copynumber: 3.0 Consensus size: 891
4462827 CTCAATGCAT
4462837 CTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCT
1 CTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCT
4462902 AACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTC
66 AACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTC
* *
4462967 CGTGAATATATGACAAGTCTCGCCATACAAATAATGCCTCCAAATTTTTAAGGCGAAAACAATAG
131 CGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGG
* *
4463032 CGGCAAGCTCTAGGTCATGGGTTGGATAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAG
196 CAGCAAGCTCTAGGTCATGGGTTGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAG
*
4463097 GTTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGAC
261 GCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGAC
4463162 CACAAACTCTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACT
326 CACAAACTCTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACT
4463227 TTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTC
391 TTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTC
4463292 ATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAA
456 ATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAA
4463357 GCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGAT
521 GCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGAT
4463422 CAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCA
586 CAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCA
4463487 CTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTT
651 CTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTT
4463552 CGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTAT
716 CGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTAT
4463617 CCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCA
781 CCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCA
4463682 AACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAG
846 AACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAG
4463728 CTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCT
1 CTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCT
4463793 AACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTC
66 AACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTC
4463858 CGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGG
131 CGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGG
*
4463923 CAGCAAGCTCTAGGTCATGGGTCGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAG
196 CAGCAAGCTCTAGGTCATGGGTTGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAG
4463988 GCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGAC
261 GCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGAC
*
4464053 CACAAACTCTTTTCCCGGTTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACT
326 CACAAACTCTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACT
4464118 TTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTC
391 TTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTC
4464183 ATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAA
456 ATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAA
4464248 GCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGAT
521 GCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGAT
4464313 CAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCA
586 CAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCA
4464378 CTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTT
651 CTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTT
4464443 CGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTAT
716 CGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTAT
4464508 CCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCA
781 CCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCA
4464573 AACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAG
846 AACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAG
* *** * * * * * * * * *
4464619 TTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTC-T-ATCT
1 CTG-C--GACCACATTC--GCCTTT--C-C-TGGGTGATAGT--CGATA-ATCAAATCATAATCT
** * * ** * * * ** * * * *
4464682 TGGA-GAATACGGTGGCTCCTC-TCAAT-TGGTCAAA-CAAATCATCGATCCT-TGTCA--AAGG
54 TTAATTAATTC--TAAC-CATCTTCACTGT-CTCAAATTTAAT--TC-TTTCTGAGTCATCAAGT
* ** * * * * * * * * *
4464740 A-TACTTATTCTTGATAGTCACCTTG-TTCAGT-TGCCGA-TAAT--CAATACATAACCTCA-TC
112 ATTTCAAACTCTTG-TGGT--CCGTGAAT-A-TATGACAAGT-CTCGCCATACA-AA--TAATTC
** **** ** * * ** *** * * *
4464798 GAC-CCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCCTTGCG-
168 --CTCCAAATTT-TT-AAGGCGAA-AACA--ATGGCA--GCAAGCTCTAGGTCATGG-GTTGGGT
* * * * * * * * *
4464861 AATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAA-C-T---CTTTCAAC-T--CA-GTTG-
223 AATTC-TTCTC-GTGAG-GCTT-CAA-T-TGCCGTGAAGCATAGGCTATCACCTTGCCATCTTGC
* * * * * *** * * ** *
4464916 ----GT------GCC-ATTC-TGTACGGA-GCA--A---TAGA-AATGGGAGTC--GT-CAAACT
282 ATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGACCA-CAAACTCTTTTCCCGATT
*
4464959 C-TATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACAC
346 CAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACAC
4465023 TTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGA
411 TTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGA
4465088 AAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACAT
476 AAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACAT
4465153 TCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCC
541 TCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCC
4465218 GAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATA
606 GAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATA
4465283 TAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTT
671 TAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTT
4465348 TAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATC
736 TAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATC
4465413 CTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTC
801 CTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTC
4465478 ATAATGGCCATACCTCGTTCTGAAAG
866 ATAATGGCCATACCTCGTTCTGAAAG
4465504 TTGTCTTGGG
Statistics
Matches: 1641, Mismatches: 90, Indels: 96
0.90 0.05 0.05
Matches are distributed among these distances:
885 543 0.33
886 3 0.00
887 1 0.00
888 1 0.00
889 7 0.00
891 886 0.54
892 2 0.00
894 9 0.01
895 6 0.00
896 8 0.00
897 2 0.00
898 1 0.00
899 1 0.00
900 20 0.01
901 23 0.01
902 19 0.01
903 29 0.02
904 12 0.01
905 3 0.00
906 4 0.00
907 4 0.00
908 3 0.00
909 6 0.00
911 15 0.01
912 13 0.01
913 4 0.00
914 3 0.00
915 4 0.00
916 2 0.00
917 7 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (891 bp):
CTGCGACCACATTCGCCTTTCCTGGGTGATAGTCGATAATCAAATCATAATCTTTAATTAATTCT
AACCATCTTCACTGTCTCAAATTTAATTCTTTCTGAGTCATCAAGTATTTCAAACTCTTGTGGTC
CGTGAATATATGACAAGTCTCGCCATACAAATAATTCCTCCAAATTTTTAAGGCGAAAACAATGG
CAGCAAGCTCTAGGTCATGGGTTGGGTAATTCTTCTCGTGAGGCTTCAATTGCCGTGAAGCATAG
GCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAGAC
CACAAACTCTTTTCCCGATTCAGATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACT
TTTCAAAACTTTACTGACACTTCTCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTC
ATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAA
GCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGAT
CAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCA
CTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTT
CGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTAT
CCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCA
AACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAG
Found at i:4465508 original size:885 final size:885
Alignment explanation
Indices: 4463185--4465847 Score: 3805
Period size: 885 Copynumber: 3.0 Consensus size: 885
4463175 CCCGATTCAG
4463185 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
1 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
4463250 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
66 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
4463315 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
131 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
4463380 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
196 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
4463445 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
261 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
4463510 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
326 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
4463575 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
391 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
4463640 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
456 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
* *** * * * * *
4463705 ATGGCCATACCTCGTTCTGAAAGCTG-C--GACCACATTC--GCCTTT--C-C-TGGGTGATAGT
521 ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
* * * * ** * * ** * * * **
4463761 --CGATA-ATCAAATCATAATCTTTAATTAATTC--TAAC-CATCTTC-ACTGTCTCAAATTTAA
586 AGCCAGACCTCAAGTC-T-ATCTTGGA-GAATACGGTGGCTCCTC-TCAATTG-GTCAAA-CAAA
* * * * * ** * * * * * *
4463819 T--TC-TTTCTGAGTCATCAAGTATTTCAAACTCTTG-TGGT--CCGTGAAT-A-TATGACAAGT
645 TCATCGATCCT-TGTCA--AAGGA-TACTTATTCTTGATAGTCACCTTG-TTCAGT-TGCCGA-T
* * * ** **** ** *
4463876 -CTCGCCATACA-AA--TAATTC--CTCCAAATTT-TT-AAGGCGAA-AACA--ATGGCA--GCA
703 AAT--CAATACATAACCTCA-TCGAC-CCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCA
* ** *** * * * * * * * * * *
4463928 AGCTCTAGGTCATGG-GTCGGGTAATTC-TTCTC-GTGAG-GCTT-CAA-T-TGCCGTGAAGCAT
764 AGGTGAAAAACTTGGCCTTGCG-AATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAA-C-T
* * * * * * *
4463986 AGGCTATCACCTTGCCATCTTGCATAAGTACACAACCCAATCCATTTAAGGATGCATCACTGTAG
826 ---CTTTCAAC-T--CA-GTTG-----GT------GCC-ATTC-TGTACGGA-GCA--A---TAG
* *** * * **** *
4464051 ACCA-CAAACTCTTTTCCCGGTTCAG
865 A-AATGGGAGTC--GT-CAAACTC-T
4464076 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
1 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
4464141 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
66 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
4464206 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
131 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
4464271 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
196 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
4464336 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
261 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
4464401 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
326 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
4464466 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
391 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
4464531 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
456 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
4464596 ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
521 ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
4464661 AGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCTCCTCTCAATTGGTCAAACAAATCATCG
586 AGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCTCCTCTCAATTGGTCAAACAAATCATCG
4464726 ATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTTGTTCAGTTGCCGATAATCAATACATAA
651 ATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTTGTTCAGTTGCCGATAATCAATACATAA
4464791 CCTCATCGACCCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCC
716 CCTCATCGACCCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCC
4464856 TTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAACTCTTTCAACTCAGTTGGTGCC
781 TTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAACTCTTTCAACTCAGTTGGTGCC
4464921 ATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACTCT
846 ATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACTCT
4464961 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
1 ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
4465026 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
66 TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
4465091 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
131 TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
4465156 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
196 TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
4465221 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
261 ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
4465286 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
326 TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
4465351 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
391 AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
4465416 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
456 TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
4465481 ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
521 ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
4465546 AGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCTCCTCTCAATTGGTCAAACAAATCATCG
586 AGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCTCCTCTCAATTGGTCAAACAAATCATCG
4465611 ATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTTGTTCAGTTGCCGATAATCAATACATAA
651 ATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTTGTTCAGTTGCCGATAATCAATACATAA
4465676 CCTCATCGACCCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCC
716 CCTCATCGACCCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCC
4465741 TTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAACTCTTTCAACTCAGTTGGTGCC
781 TTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAACTCTTTCAACTCAGTTGGTGCC
4465806 ATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACTCT
846 ATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACTCT
4465846 AT
1 AT
4465848 CTCCCTTTCA
Statistics
Matches: 1644, Mismatches: 83, Indels: 96
0.90 0.05 0.05
Matches are distributed among these distances:
885 887 0.54
886 3 0.00
887 1 0.00
888 1 0.00
889 7 0.00
891 545 0.33
892 2 0.00
894 9 0.01
895 6 0.00
896 8 0.00
897 2 0.00
898 1 0.00
899 1 0.00
900 20 0.01
901 22 0.01
902 17 0.01
903 32 0.02
904 12 0.01
905 3 0.00
906 4 0.00
907 4 0.00
908 3 0.00
909 6 0.00
911 15 0.01
912 13 0.01
913 4 0.00
914 3 0.00
915 4 0.00
916 2 0.00
917 7 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (885 bp):
ATAGTACTAAAACAGGAGCTTCGGTCAACAGTGTCTTTAACTTTTCAAAACTTTACTGACACTTC
TCCGTCCATTCAAACTTAACGTCTTTCTGTAGCAGCTTTGTCATCGGAGTCACTATCATAGAAAA
TCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACAAAAAGCTTCTAACCTCGGTTACATTCT
TAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTTGGATCAACTCGGATGCCTTGACCCGAA
ACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAACTCACTCTTGCTAAATTTAGCATATAG
TTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGTGCTTCGCGTGCTCTGTCTCATCTTTAG
AGTAGATCAAAATGTCGTTAATAAACACAACGACAAACTTATCCAAATATGGCTGAAAGATCCTA
TTCATTAGATCCATAAACACGGTCGATGCATTCATCAGCCCAAACGACATGACAAGAAATTCATA
ATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACATCCAAGTCTTTAACTCGTAGCTGATAAT
AGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCTCCTCTCAATTGGTCAAACAAATCATCG
ATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTTGTTCAGTTGCCGATAATCAATACATAA
CCTCATCGACCCATCTTTCTTCTTCACGAACAACACGGGGGCACCCCAAGGTGAAAAACTTGGCC
TTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCCTTCAACTCTTTCAACTCAGTTGGTGCC
ATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACTCT
Found at i:4466983 original size:990 final size:990
Alignment explanation
Indices: 4465064--4467043 Score: 3960
Period size: 990 Copynumber: 2.0 Consensus size: 990
4465054 GTAGCAGCTT
4465064 TGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACA
1 TGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACA
4465129 AAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTT
66 AAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTT
4465194 GGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAA
131 GGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAA
4465259 CTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGT
196 CTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGT
4465324 GCTTCGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAAC
261 GCTTCGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAAC
4465389 TTATCCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAG
326 TTATCCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAG
4465454 CCCAAACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACAT
391 CCCAAACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACAT
4465519 CCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCT
456 CCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCT
4465584 CCTCTCAATTGGTCAAACAAATCATCGATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTT
521 CCTCTCAATTGGTCAAACAAATCATCGATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTT
4465649 GTTCAGTTGCCGATAATCAATACATAACCTCATCGACCCATCTTTCTTCTTCACGAACAACACGG
586 GTTCAGTTGCCGATAATCAATACATAACCTCATCGACCCATCTTTCTTCTTCACGAACAACACGG
4465714 GGGCACCCCAAGGTGAAAAACTTGGCCTTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCC
651 GGGCACCCCAAGGTGAAAAACTTGGCCTTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCC
4465779 TTCAACTCTTTCAACTCAGTTGGTGCCATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACT
716 TTCAACTCTTTCAACTCAGTTGGTGCCATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACT
4465844 CTATCTCCCTTTCAGGAGGTAGTCTGGGTAATTCTTCTGGAAACACATCTGGATACTCACATACT
781 CTATCTCCCTTTCAGGAGGTAGTCTGGGTAATTCTTCTGGAAACACATCTGGATACTCACATACT
4465909 ATCGACACAGACTCAATCTTTAATGCAATTTCATTAGTGTTCATCACAAATGCAAGGTAGGCTTC
846 ATCGACACAGACTCAATCTTTAATGCAATTTCATTAGTGTTCATCACAAATGCAAGGTAGGCTTC
4465974 GTATCCTTTCCTCATATATCTCTAGGCAACCATTGATGTGATTACAATCGGAGGTGGACCTAATT
911 GTATCCTTTCCTCATATATCTCTAGGCAACCATTGATGTGATTACAATCGGAGGTGGACCTAATT
4466039 CTCTTTATTCAACTC
976 CTCTTTATTCAACTC
4466054 TGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACA
1 TGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACA
4466119 AAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTT
66 AAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTT
4466184 GGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAA
131 GGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAA
4466249 CTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGT
196 CTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGT
4466314 GCTTCGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAAC
261 GCTTCGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAAC
4466379 TTATCCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAG
326 TTATCCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAG
4466444 CCCAAACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACAT
391 CCCAAACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACAT
4466509 CCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCT
456 CCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCT
4466574 CCTCTCAATTGGTCAAACAAATCATCGATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTT
521 CCTCTCAATTGGTCAAACAAATCATCGATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTT
4466639 GTTCAGTTGCCGATAATCAATACATAACCTCATCGACCCATCTTTCTTCTTCACGAACAACACGG
586 GTTCAGTTGCCGATAATCAATACATAACCTCATCGACCCATCTTTCTTCTTCACGAACAACACGG
4466704 GGGCACCCCAAGGTGAAAAACTTGGCCTTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCC
651 GGGCACCCCAAGGTGAAAAACTTGGCCTTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCC
4466769 TTCAACTCTTTCAACTCAGTTGGTGCCATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACT
716 TTCAACTCTTTCAACTCAGTTGGTGCCATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACT
4466834 CTATCTCCCTTTCAGGAGGTAGTCTGGGTAATTCTTCTGGAAACACATCTGGATACTCACATACT
781 CTATCTCCCTTTCAGGAGGTAGTCTGGGTAATTCTTCTGGAAACACATCTGGATACTCACATACT
4466899 ATCGACACAGACTCAATCTTTAATGCAATTTCATTAGTGTTCATCACAAATGCAAGGTAGGCTTC
846 ATCGACACAGACTCAATCTTTAATGCAATTTCATTAGTGTTCATCACAAATGCAAGGTAGGCTTC
4466964 GTATCCTTTCCTCATATATCTCTAGGCAACCATTGATGTGATTACAATCGGAGGTGGACCTAATT
911 GTATCCTTTCCTCATATATCTCTAGGCAACCATTGATGTGATTACAATCGGAGGTGGACCTAATT
4467029 CTCTTTATTCAACTC
976 CTCTTTATTCAACTC
4467044 GTAGAATCTT
Statistics
Matches: 990, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
990 990 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (990 bp):
TGTCATCGGAGTCACTATCATAGAAAATCCTTTTACAAACCTTCGATAGTAGCCGGCTAACCACA
AAAAGCTTCTAACCTCGGTTACATTCTTAGGTGATTTCCATTCAACAATTGCAAAAATCTTACTT
GGATCAACTCGGATGCCTTGACCCGAAACTATATGACCCAAAAATCCAACTTCCTAGAGCCAAAA
CTCACTCTTGCTAAATTTAGCATATAGTTGCTTTTCTCGCAAGGTTTGCAAATCAATTTTCAGGT
GCTTCGCGTGCTCTGTCTCATCTTTAGAGTAGATCAAAATGTCGTTAATAAACACAACGACAAAC
TTATCCAAATATGGCTGAAAGATCCTATTCATTAGATCCATAAACACGGTCGATGCATTCATCAG
CCCAAACGACATGACAAGAAATTCATAATGGCCATACCTCGTTCTGAAAGTTGTCTTGGGTACAT
CCAAGTCTTTAACTCGTAGCTGATAATAGCCAGACCTCAAGTCTATCTTGGAGAATACGGTGGCT
CCTCTCAATTGGTCAAACAAATCATCGATCCTTGTCAAAGGATACTTATTCTTGATAGTCACCTT
GTTCAGTTGCCGATAATCAATACATAACCTCATCGACCCATCTTTCTTCTTCACGAACAACACGG
GGGCACCCCAAGGTGAAAAACTTGGCCTTGCGAATCCTTTATCGGTCAGCTCTTACAACTGTGCC
TTCAACTCTTTCAACTCAGTTGGTGCCATTCTGTACGGAGCAATAGAAATGGGAGTCGTCAAACT
CTATCTCCCTTTCAGGAGGTAGTCTGGGTAATTCTTCTGGAAACACATCTGGATACTCACATACT
ATCGACACAGACTCAATCTTTAATGCAATTTCATTAGTGTTCATCACAAATGCAAGGTAGGCTTC
GTATCCTTTCCTCATATATCTCTAGGCAACCATTGATGTGATTACAATCGGAGGTGGACCTAATT
CTCTTTATTCAACTC
Found at i:4471813 original size:6 final size:6
Alignment explanation
Indices: 4471802--4471839 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
4471792 AAAAATATTG
4471802 TAATTA TAATTA TAATTA TAATTA TAATT- TAATT- TAAT
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAAT
4471840 ATTATTAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TAATTA
Found at i:4472141 original size:21 final size:20
Alignment explanation
Indices: 4472117--4472174 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
4472107 TAAATTGATA
4472117 ATTTAAATATTTAATAATATT
1 ATTTAAATATTTAATAATA-T
*
4472138 ATTTTAATATTT--TAATAT
1 ATTTAAATATTTAATAATAT
4472156 -TTTAATTATATTTAATAAT
1 ATTTAA--ATATTTAATAAT
4472175 TTAAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 4 0.13
18 1 0.03
19 11 0.35
21 15 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTAAATATTTAATAATAT
Found at i:4472171 original size:18 final size:16
Alignment explanation
Indices: 4472137--4472178 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
4472127 TTAATAATAT
4472137 TATTTTAATATTTTAA
1 TATTTTAATATTTTAA
4472153 TATTTTAATTATATTTAA
1 TATTTTAA-TAT-TTTAA
*
4472171 TAATTTAA
1 TATTTTAA
4472179 ATAATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 3 0.13
18 12 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTTTAATATTTTAA
Found at i:4472193 original size:26 final size:27
Alignment explanation
Indices: 4472114--4472194 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 27
4472104 ATTTAAATTG
4472114 ATAATTTAAATATTTAAT-AATATTATTTTA
1 ATAATTT-AATA--TAATAAATATTA-TTTA
* ** *
4472144 ATATTTTAATATTTTAATTA-TATTTA
1 ATAATTTAATATAATAAATATTATTTA
4472170 ATAATTTAA-ATAATAAATATTATTT
1 ATAATTTAATATAATAAATATTATTT
4472195 TATATTAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
25 7 0.17
26 17 0.41
27 4 0.10
28 3 0.07
29 4 0.10
30 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAATTTAATATAATAAATATTATTTA
Found at i:4472570 original size:26 final size:26
Alignment explanation
Indices: 4472485--4472564 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 26
4472475 TAAATCTTAA
*
4472485 AATTATATATAATTTTGGTTTAGTATGT
1 AATTATATATAATTTTGATTT-G-ATGT
*
4472513 AATTTTATACATGAATTTTGATTTG-TGT
1 AA--TTATATAT-AATTTTGATTTGATGT
4472541 AATTATATATAATTTTGATTTGAT
1 AATTATATATAATTTTGATTTGAT
4472565 TCAATTCTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
25 12 0.27
26 8 0.18
28 7 0.16
30 8 0.18
31 10 0.22
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (26 bp):
AATTATATATAATTTTGATTTGATGT
Found at i:4477568 original size:13 final size:14
Alignment explanation
Indices: 4477545--4477574 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4477535 TTGTGTGTTC
4477545 TTTATTTTTATTTT
1 TTTATTTTTATTTT
4477559 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
4477572 TTT
1 TTT
4477575 CACAGATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:4478659 original size:6 final size:6
Alignment explanation
Indices: 4478650--4478676 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4478640 TTATTTTTTG
4478650 TATAAA TATAAA TATAAA TATAAA TAT
1 TATAAA TATAAA TATAAA TATAAA TAT
4478677 TAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TATAAA
Found at i:4483892 original size:93 final size:93
Alignment explanation
Indices: 4483655--4484007 Score: 527
Period size: 93 Copynumber: 3.8 Consensus size: 93
4483645 TGGATATTTG
* * *
4483655 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
*
4483720 TTGAGTCTGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
4483748 GGCATCTGAACTC-----GTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
* *
4483808 TTGAGTCTGAGTTTGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
** *
4483836 GGCATCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACATCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
4483901 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * * *
4483929 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
4483994 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
4484008 ACTTATGGGC
Statistics
Matches: 233, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
88 81 0.35
93 152 0.65
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:4483961 original size:47 final size:47
Alignment explanation
Indices: 4483796--4483961 Score: 194
Period size: 47 Copynumber: 3.6 Consensus size: 47
4483786 GCGAATGTTT
* *
4483796 GAACTCGTTGAGTTGAGTCTGAGTTTGTGAAATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
** * * * * * * *
4483843 GAACTCGTTGAGTTGAGTTTGAGTTCACT--TATGGATGCGA-ACATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCC
4483889 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
4483936 GAACTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
4483962 ACTTATGGAT
Statistics
Matches: 96, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 34 0.35
47 60 0.62
48 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCC
Found at i:4486753 original size:41 final size:41
Alignment explanation
Indices: 4486696--4486775 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
4486686 GTTACCTGTG
4486696 TATCTAATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
1 TATCTAATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
*
4486737 TATCTGATTTATGTTACTATAGTTCATCGGGCTAAAAAA
1 TATCTAATTTATGTTACTATAGTTCATCGGGCTAAAAAA
4486776 TTTAAGAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.38
Consensus pattern (41 bp):
TATCTAATTTATGTTACTATAGTTCATCGGGCTAAAAAAAC
Found at i:4491763 original size:39 final size:40
Alignment explanation
Indices: 4491696--4491774 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
4491686 GGTTTGTCCA
*
4491696 TAATACTGGTAACTTGTTTGCATTATTGGCAATTTATCTG
1 TAATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTG
* * *
4491736 TAATACTGGTAGC-TGTCTGCATTATTGGGAGTTTATCTG
1 TAATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTG
4491775 CATTATTGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 23 0.66
40 12 0.34
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.43
Consensus pattern (40 bp):
TAATACTGGTAACTTGTCTGCATTATTGGCAATTTATCTG
Found at i:4495044 original size:9 final size:9
Alignment explanation
Indices: 4495030--4495093 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
4495020 ATTTTAAAAG
4495030 TTTTATATA
1 TTTTATATA
* *
4495039 TATTATTTA
1 TTTTATATA
*
4495048 TTTTAAACTA
1 TTTTATA-TA
*
4495058 TTTTATTTA
1 TTTTATATA
* *
4495067 TTTTAAATT
1 TTTTATATA
4495076 TTTATATATA
1 TTT-TATATA
4495086 TTTTATAT
1 TTTTATAT
4495094 TAAAATATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
9 27 0.66
10 14 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (9 bp):
TTTTATATA
Found at i:4495087 original size:23 final size:22
Alignment explanation
Indices: 4495005--4495122 Score: 89
Period size: 19 Copynumber: 5.1 Consensus size: 22
4494995 TTTGTCGATT
* *
4495005 ATTTTTTTATTATTAATTTTAAA
1 ATTTTTATATTATTTATTTT-AA
4495028 AGTTTTATATATATTATTTATTTTAA
1 A--TTT-T-TATATTATTTATTTTAA
* *
4495054 A---CTATTTTATTTATTTTAA
1 ATTTTTATATTATTTATTTTAA
*
4495073 ATTTTTATATATATTTTATATTAAA
1 ATTTTTATAT-TA-TTTAT-TTTAA
*
4495098 ATATTTATATTATTTATTTTAA
1 ATTTTTATATTATTTATTTTAA
4495120 ATT
1 ATT
4495123 GTTTTAAATA
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
19 17 0.23
22 10 0.13
23 8 0.11
24 7 0.09
25 16 0.21
26 4 0.05
27 13 0.17
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.63
Consensus pattern (22 bp):
ATTTTTATATTATTTATTTTAA
Found at i:4495112 original size:47 final size:46
Alignment explanation
Indices: 4495011--4495136 Score: 134
Period size: 47 Copynumber: 2.7 Consensus size: 46
4495001 GATTATTTTT
* * * *
4495011 TTATTATTAATTTTAAAAGTTTTATATATATTATTTATTTTAAACTA
1 TTATTATTTATTTT-AAATTTTTATATATATTATTTATATTAAAATA
4495058 TT-TTATTTATTTTAAATTTTTATATATA-T-TTTATATTAAAATA
1 TTATTATTTATTTTAAATTTTTATATATATTATTTATATTAAAATA
*
4495101 TTTATATTATTTATTTTAAATTGTTT-TAAATATTAT
1 --T-TATTATTTATTTTAAATT-TTTATATATATTAT
4495137 CTATTTCAAA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
43 12 0.18
44 1 0.01
45 15 0.22
46 11 0.16
47 23 0.34
48 4 0.06
49 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.61
Consensus pattern (46 bp):
TTATTATTTATTTTAAATTTTTATATATATTATTTATATTAAAATA
Found at i:4495134 original size:23 final size:22
Alignment explanation
Indices: 4495061--4495134 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
4495051 TAAACTATTT
*
4495061 TATTTATTTTAAATTTTTATATA
1 TATTTATTTTAAATTTTT-TAAA
* * * *
4495084 TATTTTATATTAAAATATTTATAT
1 TA-TTTATTTTAAATTTTTTA-AA
4495108 TATTTATTTTAAATTGTTTTAAA
1 TATTTATTTTAAATT-TTTTAAA
4495131 TATT
1 TATT
4495135 ATCTATTTCA
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
23 20 0.51
24 19 0.49
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (22 bp):
TATTTATTTTAAATTTTTTAAA
Found at i:4495419 original size:26 final size:26
Alignment explanation
Indices: 4495352--4495420 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
4495342 TTAATTATTG
** **
4495352 TTTATTTTGAACTTTTTTTTGTGTTA
1 TTTATTTCAAACTTTTTTTCATGTTA
**
4495378 TTTATTTCAATTTTTTTTTCATGTTA
1 TTTATTTCAAACTTTTTTTCATGTTA
*
4495404 TTTGTTTCAAACTTTTT
1 TTTATTTCAAACTTTTT
4495421 ATATATTATT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.68
Consensus pattern (26 bp):
TTTATTTCAAACTTTTTTTCATGTTA
Found at i:4497906 original size:40 final size:39
Alignment explanation
Indices: 4497854--4497971 Score: 134
Period size: 39 Copynumber: 3.0 Consensus size: 39
4497844 TCCAATTTCT
* *
4497854 AGCACAAAGCCTGCGGGATTTAACCCGGATATCTATTACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATAT-TAATACC
* * *
4497894 AGCACTAGGCCTGC-GGACTATAAGTCCGGATA-TAATACC
1 AGCACTAAGCCTGCGGGA-TTTAA-CCCGGATATTAATACC
*
4497933 AGCATTAAGCCTGCGGGATTTAACCCGGATA-TAATACC
1 AGCACTAAGCCTGCGGGATTTAACCCGGATATTAATACC
4497971 A
1 A
4497972 CATAAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
38 15 0.23
39 25 0.38
40 19 0.29
41 7 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (39 bp):
AGCACTAAGCCTGCGGGATTTAACCCGGATATTAATACC
Found at i:4501551 original size:19 final size:19
Alignment explanation
Indices: 4501527--4501563 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4501517 AAATTTTCCC
4501527 TCACTTTCTCACCATCCAA
1 TCACTTTCTCACCATCCAA
4501546 TCACTTTCTCACCATCCA
1 TCACTTTCTCACCATCCA
4501564 TGGAAGCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.43, G:0.00, T:0.32
Consensus pattern (19 bp):
TCACTTTCTCACCATCCAA
Found at i:4504083 original size:43 final size:42
Alignment explanation
Indices: 4503977--4504094 Score: 150
Period size: 42 Copynumber: 2.8 Consensus size: 42
4503967 GACATATGAT
* *
4503977 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTG-TTTCGTGTAAGACCACGTCTGGGACAGTGGCA
*
4504020 TC-ATATTTGATTTCGTGTAAGACC-CTGTCTGGGATAGTGGCA
1 TCGATATTTG-TTTCGTGTAAGACCAC-GTCTGGGACAGTGGCA
*
4504062 TCGATATTTGTTTACATGTAAGACCACGTCTGG
1 TCGATATTTGTTT-CGTGTAAGACCACGTCTGG
4504095 TTTGTTGGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.02
42 39 0.59
43 25 0.38
44 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (42 bp):
TCGATATTTGTTTCGTGTAAGACCACGTCTGGGACAGTGGCA
Found at i:4506350 original size:40 final size:40
Alignment explanation
Indices: 4506299--4506393 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
4506289 AGTCGGTATC
* *
4506299 GCACACCTAGTGCC-TTATATAGCCGAAGCTAT-GCCAACTT
1 GCACACTTAGTGCCATT-TATAGCCGAAGCTATAGCAAAC-T
**
4506339 GCACACTTAGTGCCATTTATAGCCGAAGCTATATTAAACT
1 GCACACTTAGTGCCATTTATAGCCGAAGCTATAGCAAACT
4506379 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
4506394 ATCATAGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (40 bp):
GCACACTTAGTGCCATTTATAGCCGAAGCTATAGCAAACT
Found at i:4513806 original size:40 final size:41
Alignment explanation
Indices: 4513723--4513816 Score: 129
Period size: 40 Copynumber: 2.3 Consensus size: 41
4513713 GTCGGTCTCA
* * *
4513723 CACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAACTTG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCG
**
4513763 CACACTTAGTGCCATT-TATAGCCGAAGCTATATTAAATCG
1 CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCG
4513803 CACACTTAGTGCCA
1 CACACTTAGTGCCA
4513817 ATCATAGTCG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (41 bp):
CACACTTAGTGCCATTATATAGCCGAAGCTATACCAAATCG
Found at i:4523294 original size:37 final size:37
Alignment explanation
Indices: 4523244--4523322 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
4523234 TTATTACGAA
* * *
4523244 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
4523281 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
4523318 GTCTT
1 GTCTT
4523323 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:4523512 original size:47 final size:47
Alignment explanation
Indices: 4523441--4524052 Score: 1161
Period size: 47 Copynumber: 13.0 Consensus size: 47
4523431 CCCTTCGGGA
* * * * * *
4523441 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
4523488 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523582 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523629 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523676 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523723 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523817 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523864 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523911 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4523958 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4524005 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
4524052 C
1 C
4524053 ATACTATCAT
Statistics
Matches: 557, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 557 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:4531697 original size:43 final size:41
Alignment explanation
Indices: 4531614--4531783 Score: 110
Period size: 43 Copynumber: 4.0 Consensus size: 41
4531604 CGAAAAGCTC
* * * * *
4531614 ATACAATGCCAACATCCTAGACGAGGTCTTCCATGTAATCAA
1 ATACGATGCC-ACATCCTAGACAAGGTCTTACACGAAATCAA
* *
4531656 ATATCGATGCCACTATCCTAGACAAGGTCTTATACGAAATCAT
1 ATA-CGATGCCAC-ATCCTAGACAAGGTCTTACACGAAATCAA
* * * *
4531699 ATACGATGCCA-ATGTCCCAGATATGGTCTTACATGTAAATCTCAA
1 ATACGATGCCACA--TCCTAGACAAGGTCTTACACG-AAA--TCAA
* ***
4531744 AT-CGATGCCAACGTCCTAGATGTGGTCTTACACGAAATCA
1 ATACGATGCC-ACATCCTAGACAAGGTCTTACACGAAATCA
4531784 CATATCAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 29 0.28
43 38 0.37
44 25 0.25
45 6 0.06
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
ATACGATGCCACATCCTAGACAAGGTCTTACACGAAATCAA
Found at i:4533993 original size:27 final size:27
Alignment explanation
Indices: 4533963--4534016 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
4533953 TGGTTACCTT
*
4533963 ATTGAGTTGTCGGTAGTCAATGCACAA
1 ATTGAGCTGTCGGTAGTCAATGCACAA
4533990 ATTGAGCTGTCGGTAGTCAATGCACAA
1 ATTGAGCTGTCGGTAGTCAATGCACAA
4534017 TCTCCTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (27 bp):
ATTGAGCTGTCGGTAGTCAATGCACAA
Found at i:4538330 original size:34 final size:35
Alignment explanation
Indices: 4538277--4538345 Score: 131
Period size: 34 Copynumber: 2.0 Consensus size: 35
4538267 AGCTTATTTG
4538277 ATGTACACATTATTCAATTCAGCCCATAACTCATA
1 ATGTACACATTATTCAATTCAGCCCATAACTCATA
4538312 ATGTACACA-TATTCAATTCAGCCCATAACTCATA
1 ATGTACACATTATTCAATTCAGCCCATAACTCATA
4538346 CTTTGAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 25 0.74
35 9 0.26
ACGTcount: A:0.38, C:0.26, G:0.06, T:0.30
Consensus pattern (35 bp):
ATGTACACATTATTCAATTCAGCCCATAACTCATA
Done.